From git repo now building in: /opt/user_software/coot/src/build-coot CFLAGS: CXXFLAGS: -g -O CPPFLAGS: LDFLAGS: PATH: /home_local/cadmin/cmake/bin:/opt/user_software/coot/bin-gtk4/bin:/opt/user_software/coot/bin-gtk4/bin:/opt/user_software/coot/bin-pre-release-gtk4/bin:/opt/user_software/phenix_1.20.1-4487/bin/phenix-1.20.1-4487/build/bin:/opt/user_software/phenix_1.20.1-4487/bin/bin:/opt/user_software/bin:/opt/user_software/miniconda3/condabin:/opt/user_software/imod/IMOD/bin:/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin:/usr/games:/usr/local/games:/snap/bin:/opt/user_software/imod/IMOD/pythonLink:/opt/user_software/dragonfly/bin:/opt/user_software/coot/bin:/usr/local/bin:/usr/sbin:/usr/bsd:/sbin:/usr/bin:/bin::/etc:/usr/etc PKG_CONFIG_PATH: /opt/user_software/coot/bin-gtk4/lib64/pkgconfig:/opt/user_software/coot/bin-gtk4/lib/pkgconfig:/opt/user_software/coot/bin-gtk4/lib/x86_64-linux-gnu/pkgconfig:/lib/pkgconfig 33333 bash ../coot/configure --prefix=/opt/user_software/coot/bin-gtk4 --with-fftw-prefix=/opt/user_software/coot/bin-gtk4 COOT_BUILD_INFO_STRING=build-host: gtxr1.srv-local.mpi-dortmund.mpg.de on: Mi 20 Mär 1759.36 CET 2024 SHELL=/bin/bash PYTHON=python3 --with-boost=/opt/user_software/coot/bin-gtk4 --with-boost-libdir=/opt/user_software/coot/bin-gtk4/lib --with-enhanced-ligand-tools --with-rdkit-prefix=/opt/user_software/coot/bin-gtk4 --with-guile --disable-static checking for a BSD-compatible install... /usr/bin/install -c checking whether build environment is sane... yes checking for a race-free mkdir -p... /usr/bin/mkdir -p checking for gawk... no checking for mawk... mawk checking whether make sets $(MAKE)... yes checking whether make supports nested variables... yes checking for g++... g++ checking whether the C++ compiler works... yes checking for C++ compiler default output file name... a.out checking for suffix of executables... checking whether we are cross compiling... no checking for suffix of object files... o checking whether the compiler supports GNU C++... yes checking whether g++ accepts -g... yes checking for g++ option to enable C++11 features... none needed checking whether make supports the include directive... yes (GNU style) checking dependency style of g++... gcc3 checking build system type... x86_64-pc-linux-gnu checking host system type... x86_64-pc-linux-gnu checking how to print strings... printf checking for gcc... gcc checking whether the compiler supports GNU C... yes checking whether gcc accepts -g... yes checking for gcc option to enable C11 features... none needed checking whether gcc understands -c and -o together... yes checking dependency style of gcc... gcc3 checking for a sed that does not truncate output... /usr/bin/sed checking for grep that handles long lines and -e... /usr/bin/grep checking for egrep... /usr/bin/grep -E checking for fgrep... /usr/bin/grep -F checking for ld used by gcc... /usr/bin/ld checking if the linker (/usr/bin/ld) is GNU ld... yes checking for BSD- or MS-compatible name lister (nm)... /usr/bin/nm -B checking the name lister (/usr/bin/nm -B) interface... BSD nm checking whether ln -s works... yes checking the maximum length of command line arguments... 1572864 checking how to convert x86_64-pc-linux-gnu file names to x86_64-pc-linux-gnu format... func_convert_file_noop checking how to convert x86_64-pc-linux-gnu file names to toolchain format... func_convert_file_noop checking for /usr/bin/ld option to reload object files... -r checking for objdump... objdump checking how to recognize dependent libraries... pass_all checking for dlltool... no checking how to associate runtime and link libraries... printf %s\n checking for ar... ar checking for archiver @FILE support... @ checking for strip... strip checking for ranlib... ranlib checking command to parse /usr/bin/nm -B output from gcc object... ok checking for sysroot... no checking for a working dd... /usr/bin/dd checking how to truncate binary pipes... /usr/bin/dd bs=4096 count=1 checking for mt... mt checking if mt is a manifest tool... no checking for stdio.h... yes checking for stdlib.h... yes checking for string.h... yes checking for inttypes.h... yes checking for stdint.h... yes checking for strings.h... yes checking for sys/stat.h... yes checking for sys/types.h... yes checking for unistd.h... yes checking for dlfcn.h... yes checking for objdir... .libs checking if gcc supports -fno-rtti -fno-exceptions... no checking for gcc option to produce PIC... -fPIC -DPIC checking if gcc PIC flag -fPIC -DPIC works... yes checking if gcc static flag -static works... yes checking if gcc supports -c -o file.o... yes checking if gcc supports -c -o file.o... (cached) yes checking whether the gcc linker (/usr/bin/ld -m elf_x86_64) supports shared libraries... yes checking whether -lc should be explicitly linked in... no checking dynamic linker characteristics... GNU/Linux ld.so checking how to hardcode library paths into programs... immediate checking whether stripping libraries is possible... yes checking if libtool supports shared libraries... yes checking whether to build shared libraries... yes checking whether to build static libraries... no checking how to run the C++ preprocessor... g++ -E checking for ld used by g++... /usr/bin/ld -m elf_x86_64 checking if the linker (/usr/bin/ld -m elf_x86_64) is GNU ld... yes checking whether the g++ linker (/usr/bin/ld -m elf_x86_64) supports shared libraries... yes checking for g++ option to produce PIC... -fPIC -DPIC checking if g++ PIC flag -fPIC -DPIC works... yes checking if g++ static flag -static works... yes checking if g++ supports -c -o file.o... yes checking if g++ supports -c -o file.o... (cached) yes checking whether the g++ linker (/usr/bin/ld -m elf_x86_64) supports shared libraries... yes checking dynamic linker characteristics... (cached) GNU/Linux ld.so checking how to hardcode library paths into programs... immediate checking which libtool initialization strategy to adopt... AC-PROG-LIBTOOL checking what warning flags to pass to the C compiler... -Wall -Wunused checking what language compliance flags to pass to the C compiler... checking what warning flags to pass to the C++ compiler... -Wall -Wno-unused checking what language compliance flags to pass to the C++ compiler... checking for sys/stdtypes.h... no checking for OpenMP flag of C compiler... -fopenmp checking whether g++ supports C++11 features by default... yes checking for std::thread in thread... yes checking for pkg-config... /usr/bin/pkg-config checking pkg-config is at least version 0.9.0... yes checking for glib-2.0... yes checking if this is MINGW on Windows... no checking if this is msys2 windows 64... no checking for libpng >= 1.2... yes checking for cairo >= 1.14... yes checking for SQLite3... no checking for mmdb2... yes checking for ssm... yes checking for non-prefixed single-precision FFTW2 (fftw.h)... yes checking for Clipper... yes checking for guile... no checking for guile-config... no checking for guile-tools... no checking libguile compile flags... checking libguile link flags... checking for gsl-config... /opt/user_software/coot/bin-gtk4/bin/gsl-config checking for GSL - version >= 1.3... yes checking for glm >= 0.9.9... yes checking for gtk4 >= 4.4... yes checking for epoxy >= 1.5... yes checking whether python3 version >= 3.7... yes checking for python3 version... 3.11 checking for python3 platform... linux checking for python3 script directory... ${prefix}/lib/python3.11/site-packages checking for python3 extension module directory... ${exec_prefix}/lib/python3.11/site-packages checking for python3.11... /opt/user_software/coot/bin-gtk4/bin/python3.11 checking for a version of Python >= '2.1.0'... yes checking for the distutils Python package... yes checking for Python include path... -I/opt/user_software/coot/bin-gtk4/include/python3.11 checking for Python library path... -L/opt/user_software/coot/bin-gtk4/lib -lpython3.11 checking for Python site-packages path... /opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages checking python extra libraries... -ldl -L/opt/user_software/coot/bin-gtk4/lib64 -lm checking python extra linking flags... -Xlinker -export-dynamic checking consistency of all components of python development environment... yes checking python3.11 module: requests... yes checking for pygobject-3.0 >= 3.36... yes checking for boostlib >= (102000) includes in "/opt/user_software/coot/bin-gtk4/include"... yes checking for boostlib >= (102000) lib path in "/opt/user_software/coot/bin-gtk4/lib/x86_64-linux-gnu"... yes checking for boostlib >= (102000)... yes checking whether the Boost::Thread library is available... yes checking for exit in -lboost_thread... yes checking whether the Boost::Python library is available... yes checking whether boost_python is the correct library... no checking whether boost_python311 is the correct library... yes ENHANCED_LIGAND_TOOLS_CPPFLAGS -DMAKE_ENHANCED_LIGAND_TOOLS checking for GEMMI... no checking build type... Linux-x86_64-ubuntu-22.04.4-gtk4 checking for sound... no Not using MySQL database checking for curl >= 7.9.7... bc: symbol lookup error: /opt/user_software/coot/bin-gtk4/lib/libreadline.so.8: undefined symbol: UP 7.65.3 checking that generated files are newer than configure... done configure: creating ./config.status config.status: creating Makefile config.status: creating macros/Makefile config.status: creating pdb-templates/Makefile config.status: creating scheme/Makefile config.status: creating python/Makefile config.status: creating compat/Makefile config.status: creating utils/Makefile config.status: creating coot-utils/Makefile config.status: creating protein_db/Makefile config.status: creating ccp4mg-utils/Makefile config.status: creating coords/Makefile config.status: creating db-main/Makefile config.status: creating density-contour/Makefile config.status: creating angles/Makefile config.status: creating mini-mol/Makefile config.status: creating skeleton/Makefile config.status: creating ligand/Makefile config.status: creating geometry/Makefile config.status: creating ideal/Makefile config.status: creating build/Makefile config.status: creating analysis/Makefile config.status: creating high-res/Makefile config.status: creating cootaneer/Makefile config.status: creating cootilus/Makefile config.status: creating greg-tests/Makefile config.status: creating python-tests/Makefile config.status: creating lidia-core/Makefile config.status: creating doc/Makefile config.status: creating validation-graphs/Makefile config.status: creating python/coot_load_modules.py config.status: creating data/Makefile config.status: creating data/rama-coeffs/Makefile config.status: creating data/metal/Makefile config.status: creating data/cho-models/Makefile config.status: creating data/cho-acedrg/Makefile config.status: creating glTF/Makefile config.status: creating pixmaps/Makefile config.status: creating pixmaps/icons/Makefile config.status: creating textures/Makefile config.status: creating sounds/Makefile config.status: creating rama-data/Makefile config.status: creating man/Makefile config.status: creating api/Makefile config.status: creating pli/Makefile config.status: creating fonts/Makefile config.status: creating pyrogen/Makefile config.status: creating pyrogen/pyrogen config.status: creating layla/Makefile config.status: creating MoleculesToTriangles/Makefile config.status: creating MoleculesToTriangles/CXXSurface/Makefile config.status: creating MoleculesToTriangles/CXXSurface/MoleculesToTrianglesCXXSurface.pc config.status: creating MoleculesToTriangles/CXXClasses/Makefile config.status: creating MoleculesToTriangles/CXXClasses/MoleculesToTrianglesCXXClasses.pc config.status: creating auxil/Makefile config.status: creating auxil/catcheck/Makefile config.status: creating auxil/rama/Makefile config.status: creating auxil/sec-str/Makefile config.status: creating auxil/strand-analysis/Makefile config.status: creating auxil/vectors/Makefile config.status: creating src/Makefile config.status: creating src/coot config.status: creating ui/Makefile config.status: executing depfiles commands config.status: executing libtool commands Making all in auxil make[1]: Entering directory '/opt/user_software/coot/src/build-coot/auxil' Making all in catcheck make[2]: Entering directory '/opt/user_software/coot/src/build-coot/auxil/catcheck' make[2]: Nothing to be done for 'all'. make[2]: Leaving directory '/opt/user_software/coot/src/build-coot/auxil/catcheck' Making all in rama make[2]: Entering directory '/opt/user_software/coot/src/build-coot/auxil/rama' make[2]: Nothing to be done for 'all'. make[2]: Leaving directory '/opt/user_software/coot/src/build-coot/auxil/rama' Making all in sec-str make[2]: Entering directory '/opt/user_software/coot/src/build-coot/auxil/sec-str' make[2]: Nothing to be done for 'all'. make[2]: Leaving directory '/opt/user_software/coot/src/build-coot/auxil/sec-str' Making all in strand-analysis make[2]: Entering directory '/opt/user_software/coot/src/build-coot/auxil/strand-analysis' make[2]: Nothing to be done for 'all'. make[2]: Leaving directory '/opt/user_software/coot/src/build-coot/auxil/strand-analysis' Making all in vectors make[2]: Entering directory '/opt/user_software/coot/src/build-coot/auxil/vectors' make[2]: Nothing to be done for 'all'. make[2]: Leaving directory '/opt/user_software/coot/src/build-coot/auxil/vectors' make[2]: Entering directory '/opt/user_software/coot/src/build-coot/auxil' make[2]: Nothing to be done for 'all-am'. make[2]: Leaving directory '/opt/user_software/coot/src/build-coot/auxil' make[1]: Leaving directory '/opt/user_software/coot/src/build-coot/auxil' Making all in scheme make[1]: Entering directory '/opt/user_software/coot/src/build-coot/scheme' make[1]: Nothing to be done for 'all'. make[1]: Leaving directory '/opt/user_software/coot/src/build-coot/scheme' Making all in python make[1]: Entering directory '/opt/user_software/coot/src/build-coot/python' make[1]: Nothing to be done for 'all'. make[1]: Leaving directory '/opt/user_software/coot/src/build-coot/python' Making all in pdb-templates make[1]: Entering directory '/opt/user_software/coot/src/build-coot/pdb-templates' make[1]: Nothing to be done for 'all'. make[1]: Leaving directory '/opt/user_software/coot/src/build-coot/pdb-templates' Making all in macros make[1]: Entering directory '/opt/user_software/coot/src/build-coot/macros' make[1]: Nothing to be done for 'all'. make[1]: Leaving directory '/opt/user_software/coot/src/build-coot/macros' Making all in compat make[1]: Entering directory '/opt/user_software/coot/src/build-coot/compat' /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" -DPACKAGE_STRING=\"coot\ 1.x-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I../../coot/compat -I/opt/user_software/coot/bin-gtk4/include -g -O -Wall -Wno-unused -std=c++17 -MT getopt.lo -MD -MP -MF .deps/getopt.Tpo -c -o getopt.lo ../../coot/compat/getopt.cc /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" -DPACKAGE_STRING=\"coot\ 1.x-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I../../coot/compat -I/opt/user_software/coot/bin-gtk4/include -g -O -Wall -Wno-unused -std=c++17 -MT getopt1.lo -MD -MP -MF .deps/getopt1.Tpo -c -o getopt1.lo ../../coot/compat/getopt1.cc libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" "-DPACKAGE_STRING=\"coot 1.x-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I../../coot/compat -I/opt/user_software/coot/bin-gtk4/include -g -O -Wall -Wno-unused -std=c++17 -MT getopt.lo -MD -MP -MF .deps/getopt.Tpo -c ../../coot/compat/getopt.cc -fPIC -DPIC -o .libs/getopt.o libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" "-DPACKAGE_STRING=\"coot 1.x-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I../../coot/compat -I/opt/user_software/coot/bin-gtk4/include -g -O -Wall -Wno-unused -std=c++17 -MT getopt1.lo -MD -MP -MF .deps/getopt1.Tpo -c ../../coot/compat/getopt1.cc -fPIC -DPIC -o .libs/getopt1.o mv -f .deps/getopt1.Tpo .deps/getopt1.Plo mv -f .deps/getopt.Tpo .deps/getopt.Plo /bin/bash ../libtool --tag=CXX --mode=link g++ -g -O -Wall -Wno-unused -std=c++17 -o libcoot-compat.la -rpath /opt/user_software/coot/bin-gtk4/lib getopt.lo getopt1.lo libtool: link: g++ -fPIC -DPIC -shared -nostdlib /usr/lib/gcc/x86_64-linux-gnu/11/../../../x86_64-linux-gnu/crti.o /usr/lib/gcc/x86_64-linux-gnu/11/crtbeginS.o .libs/getopt.o .libs/getopt1.o -L/usr/lib/gcc/x86_64-linux-gnu/11 -L/usr/lib/gcc/x86_64-linux-gnu/11/../../../x86_64-linux-gnu -L/usr/lib/gcc/x86_64-linux-gnu/11/../../../../lib -L/lib/x86_64-linux-gnu -L/lib/../lib -L/usr/lib/x86_64-linux-gnu -L/usr/lib/../lib -L/usr/lib/gcc/x86_64-linux-gnu/11/../../.. -lstdc++ -lm -lc -lgcc_s /usr/lib/gcc/x86_64-linux-gnu/11/crtendS.o /usr/lib/gcc/x86_64-linux-gnu/11/../../../x86_64-linux-gnu/crtn.o -g -O -Wl,-soname -Wl,libcoot-compat.so.0 -o .libs/libcoot-compat.so.0.0.0 libtool: link: (cd ".libs" && rm -f "libcoot-compat.so.0" && ln -s "libcoot-compat.so.0.0.0" "libcoot-compat.so.0") libtool: link: (cd ".libs" && rm -f "libcoot-compat.so" && ln -s "libcoot-compat.so.0.0.0" "libcoot-compat.so") libtool: link: ( cd ".libs" && rm -f "libcoot-compat.la" && ln -s "../libcoot-compat.la" "libcoot-compat.la" ) make[1]: Leaving directory '/opt/user_software/coot/src/build-coot/compat' Making all in utils make[1]: Entering directory '/opt/user_software/coot/src/build-coot/utils' /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" -DPACKAGE_STRING=\"coot\ 1.x-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I../../coot/utils -I../../coot -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DCLIPPER_HAS_TOP8000 -DPKGDATADIR='"/opt/user_software/coot/bin-gtk4/share/coot"' -g -O -Wall -Wno-unused -std=c++17 -MT coot-utils.lo -MD -MP -MF .deps/coot-utils.Tpo -c -o coot-utils.lo ../../coot/utils/coot-utils.cc /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" -DPACKAGE_STRING=\"coot\ 1.x-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I../../coot/utils -I../../coot -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DCLIPPER_HAS_TOP8000 -DPKGDATADIR='"/opt/user_software/coot/bin-gtk4/share/coot"' -g -O -Wall -Wno-unused -std=c++17 -MT coot-fasta.lo -MD -MP -MF .deps/coot-fasta.Tpo -c -o coot-fasta.lo ../../coot/utils/coot-fasta.cc /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" -DPACKAGE_STRING=\"coot\ 1.x-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I../../coot/utils -I../../coot -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DCLIPPER_HAS_TOP8000 -DPKGDATADIR='"/opt/user_software/coot/bin-gtk4/share/coot"' -g -O -Wall -Wno-unused -std=c++17 -MT atomic-numbers.lo -MD -MP -MF .deps/atomic-numbers.Tpo -c -o atomic-numbers.lo ../../coot/utils/atomic-numbers.cc /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" -DPACKAGE_STRING=\"coot\ 1.x-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ 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-DPKGDATADIR=\"/opt/user_software/coot/bin-gtk4/share/coot\" -g -O -Wall -Wno-unused -std=c++17 -MT colour-holder.lo -MD -MP -MF .deps/colour-holder.Tpo -c ../../coot/utils/colour-holder.cc -fPIC -DPIC -o .libs/colour-holder.o mv -f .deps/logging.Tpo .deps/logging.Plo mv -f .deps/insertion-sort.Tpo .deps/insertion-sort.Plo mv -f .deps/colour-holder.Tpo .deps/colour-holder.Plo mv -f .deps/gdk-keysyms.Tpo .deps/gdk-keysyms.Plo /bin/bash ../libtool --tag=CXX --mode=link g++ -I/opt/user_software/coot/bin-gtk4/include -DCLIPPER_HAS_TOP8000 -DPKGDATADIR='"/opt/user_software/coot/bin-gtk4/share/coot"' -g -O -Wall -Wno-unused -std=c++17 -o libcoot-utils.la -rpath /opt/user_software/coot/bin-gtk4/lib coot-utils.lo coot-fasta.lo atomic-numbers.lo setup-syminfo.lo gdk-keysyms.lo hsv-rgb.lo dodec.lo win-compat.lo threads.lo align-utils.lo pir-alignment.lo split-indices.lo radix.lo logging.lo insertion-sort.lo colour-holder.lo -L/opt/user_software/coot/bin-gtk4/lib -lclipper-ccp4 -lclipper-cif 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/opt/user_software/coot/bin-gtk4/lib/libclipper-mmdb.so /opt/user_software/coot/bin-gtk4/lib/libclipper-cns.so /opt/user_software/coot/bin-gtk4/lib/libclipper-phs.so /opt/user_software/coot/bin-gtk4/lib/libclipper-contrib.so /opt/user_software/coot/bin-gtk4/lib/libclipper-core.so /opt/user_software/coot/bin-gtk4/lib/librfftw.so /opt/user_software/coot/bin-gtk4/lib/libfftw.so -lpthread /opt/user_software/coot/bin-gtk4/lib/libccp4c.so /opt/user_software/coot/bin-gtk4/lib/libmmdb2.so -L/usr/lib/gcc/x86_64-linux-gnu/11 -L/usr/lib/gcc/x86_64-linux-gnu/11/../../../x86_64-linux-gnu -L/usr/lib/gcc/x86_64-linux-gnu/11/../../../../lib -L/lib/x86_64-linux-gnu -L/lib/../lib -L/usr/lib/x86_64-linux-gnu -L/usr/lib/../lib -L/usr/lib/gcc/x86_64-linux-gnu/11/../../.. -lstdc++ -lm -lc -lgcc_s /usr/lib/gcc/x86_64-linux-gnu/11/crtendS.o /usr/lib/gcc/x86_64-linux-gnu/11/../../../x86_64-linux-gnu/crtn.o -g -O -Wl,-soname -Wl,libcoot-utils.so.0 -o .libs/libcoot-utils.so.0.0.0 libtool: link: (cd ".libs" && rm -f "libcoot-utils.so.0" && ln -s "libcoot-utils.so.0.0.0" "libcoot-utils.so.0") libtool: link: (cd ".libs" && rm -f "libcoot-utils.so" && ln -s "libcoot-utils.so.0.0.0" "libcoot-utils.so") libtool: link: ( cd ".libs" && rm -f "libcoot-utils.la" && ln -s "../libcoot-utils.la" "libcoot-utils.la" ) make[1]: Leaving directory '/opt/user_software/coot/src/build-coot/utils' Making all in protein_db make[1]: Entering directory '/opt/user_software/coot/src/build-coot/protein_db' /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" -DPACKAGE_STRING=\"coot\ 1.x-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I../../coot/protein_db -I/opt/user_software/coot/bin-gtk4/include -DCLIPPER_HAS_TOP8000 -I/opt/user_software/coot/bin-gtk4/include -DMMDB_HAS_LINK_DISTANCE -I/opt/user_software/coot/bin-gtk4/include -g -O -Wall -Wno-unused -std=c++17 -MT protein_db.lo -MD -MP -MF .deps/protein_db.Tpo -c -o protein_db.lo ../../coot/protein_db/protein_db.cpp /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" -DPACKAGE_STRING=\"coot\ 1.x-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I../../coot/protein_db -I/opt/user_software/coot/bin-gtk4/include -DCLIPPER_HAS_TOP8000 -I/opt/user_software/coot/bin-gtk4/include -DMMDB_HAS_LINK_DISTANCE -I/opt/user_software/coot/bin-gtk4/include -g -O -Wall -Wno-unused -std=c++17 -MT protein_db_utils.lo -MD -MP -MF .deps/protein_db_utils.Tpo -c -o protein_db_utils.lo ../../coot/protein_db/protein_db_utils.cpp /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" -DPACKAGE_STRING=\"coot\ 1.x-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I../../coot/protein_db -I/opt/user_software/coot/bin-gtk4/include -DCLIPPER_HAS_TOP8000 -I/opt/user_software/coot/bin-gtk4/include -DMMDB_HAS_LINK_DISTANCE -I/opt/user_software/coot/bin-gtk4/include -g -O -Wall -Wno-unused -std=c++17 -MT rna_db.lo -MD -MP -MF .deps/rna_db.Tpo -c -o rna_db.lo ../../coot/protein_db/rna_db.cpp libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" "-DPACKAGE_STRING=\"coot 1.x-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I../../coot/protein_db -I/opt/user_software/coot/bin-gtk4/include -DCLIPPER_HAS_TOP8000 -I/opt/user_software/coot/bin-gtk4/include -DMMDB_HAS_LINK_DISTANCE -I/opt/user_software/coot/bin-gtk4/include -g -O -Wall -Wno-unused -std=c++17 -MT protein_db_utils.lo -MD -MP -MF .deps/protein_db_utils.Tpo -c ../../coot/protein_db/protein_db_utils.cpp -fPIC -DPIC -o .libs/protein_db_utils.o libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" "-DPACKAGE_STRING=\"coot 1.x-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I../../coot/protein_db -I/opt/user_software/coot/bin-gtk4/include -DCLIPPER_HAS_TOP8000 -I/opt/user_software/coot/bin-gtk4/include -DMMDB_HAS_LINK_DISTANCE -I/opt/user_software/coot/bin-gtk4/include -g -O -Wall -Wno-unused -std=c++17 -MT protein_db.lo -MD -MP -MF .deps/protein_db.Tpo -c ../../coot/protein_db/protein_db.cpp -fPIC -DPIC -o .libs/protein_db.o libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" "-DPACKAGE_STRING=\"coot 1.x-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I../../coot/protein_db -I/opt/user_software/coot/bin-gtk4/include -DCLIPPER_HAS_TOP8000 -I/opt/user_software/coot/bin-gtk4/include -DMMDB_HAS_LINK_DISTANCE -I/opt/user_software/coot/bin-gtk4/include -g -O -Wall -Wno-unused -std=c++17 -MT rna_db.lo -MD -MP -MF .deps/rna_db.Tpo -c ../../coot/protein_db/rna_db.cpp -fPIC -DPIC -o .libs/rna_db.o mv -f .deps/rna_db.Tpo .deps/rna_db.Plo mv -f .deps/protein_db_utils.Tpo .deps/protein_db_utils.Plo mv -f .deps/protein_db.Tpo .deps/protein_db.Plo /bin/bash ../libtool --tag=CXX --mode=link g++ -g -O -Wall -Wno-unused -std=c++17 -o libcoot-protein-db.la -rpath /opt/user_software/coot/bin-gtk4/lib protein_db.lo protein_db_utils.lo rna_db.lo -L/opt/user_software/coot/bin-gtk4/lib -lclipper-ccp4 -lclipper-cif -lclipper-minimol -lclipper-mmdb -lclipper-cns -lclipper-phs -lclipper-contrib -lclipper-core -lccp4c -lmmdb2 -L/opt/user_software/coot/bin-gtk4/lib -lmmdb2 libtool: link: g++ -fPIC -DPIC -shared -nostdlib /usr/lib/gcc/x86_64-linux-gnu/11/../../../x86_64-linux-gnu/crti.o /usr/lib/gcc/x86_64-linux-gnu/11/crtbeginS.o .libs/protein_db.o .libs/protein_db_utils.o .libs/rna_db.o -Wl,-rpath -Wl,/opt/user_software/coot/bin-gtk4/lib -Wl,-rpath -Wl,/opt/user_software/coot/bin-gtk4/lib -L/opt/user_software/coot/bin-gtk4/lib /opt/user_software/coot/bin-gtk4/lib/libclipper-ccp4.so -L=/opt/user_software/coot/bin-gtk4/lib:-L/opt/user_software/coot/bin-gtk4/lib: /opt/user_software/coot/bin-gtk4/lib/libclipper-cif.so /opt/user_software/coot/bin-gtk4/lib/libclipper-minimol.so /opt/user_software/coot/bin-gtk4/lib/libclipper-mmdb.so /opt/user_software/coot/bin-gtk4/lib/libclipper-cns.so /opt/user_software/coot/bin-gtk4/lib/libclipper-phs.so /opt/user_software/coot/bin-gtk4/lib/libclipper-contrib.so /opt/user_software/coot/bin-gtk4/lib/libclipper-core.so /opt/user_software/coot/bin-gtk4/lib/librfftw.so /opt/user_software/coot/bin-gtk4/lib/libfftw.so -lpthread /opt/user_software/coot/bin-gtk4/lib/libccp4c.so /opt/user_software/coot/bin-gtk4/lib/libmmdb2.so -L/usr/lib/gcc/x86_64-linux-gnu/11 -L/usr/lib/gcc/x86_64-linux-gnu/11/../../../x86_64-linux-gnu -L/usr/lib/gcc/x86_64-linux-gnu/11/../../../../lib -L/lib/x86_64-linux-gnu -L/lib/../lib -L/usr/lib/x86_64-linux-gnu -L/usr/lib/../lib -L/usr/lib/gcc/x86_64-linux-gnu/11/../../.. -lstdc++ -lm -lc -lgcc_s /usr/lib/gcc/x86_64-linux-gnu/11/crtendS.o /usr/lib/gcc/x86_64-linux-gnu/11/../../../x86_64-linux-gnu/crtn.o -g -O -Wl,-soname -Wl,libcoot-protein-db.so.0 -o .libs/libcoot-protein-db.so.0.0.0 libtool: link: (cd ".libs" && rm -f "libcoot-protein-db.so.0" && ln -s "libcoot-protein-db.so.0.0.0" "libcoot-protein-db.so.0") libtool: link: (cd ".libs" && rm -f "libcoot-protein-db.so" && ln -s "libcoot-protein-db.so.0.0.0" "libcoot-protein-db.so") libtool: link: ( cd ".libs" && rm -f "libcoot-protein-db.la" && ln -s "../libcoot-protein-db.la" "libcoot-protein-db.la" ) make[1]: Leaving directory '/opt/user_software/coot/src/build-coot/protein_db' Making all in mini-mol make[1]: Entering directory '/opt/user_software/coot/src/build-coot/mini-mol' /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" -DPACKAGE_STRING=\"coot\ 1.x-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I../../coot/mini-mol -I../../coot -I/opt/user_software/coot/bin-gtk4/include -DCLIPPER_HAS_TOP8000 -I/opt/user_software/coot/bin-gtk4/include -DMMDB_HAS_LINK_DISTANCE -I/opt/user_software/coot/bin-gtk4/include -g -O -Wall -Wno-unused -std=c++17 -MT mini-mol.lo -MD -MP -MF .deps/mini-mol.Tpo -c -o mini-mol.lo ../../coot/mini-mol/mini-mol.cc /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" -DPACKAGE_STRING=\"coot\ 1.x-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I../../coot/mini-mol -I../../coot -I/opt/user_software/coot/bin-gtk4/include -DCLIPPER_HAS_TOP8000 -I/opt/user_software/coot/bin-gtk4/include -DMMDB_HAS_LINK_DISTANCE -I/opt/user_software/coot/bin-gtk4/include -g -O -Wall -Wno-unused -std=c++17 -MT mini-mol-utils.lo -MD -MP -MF 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.deps/atom-quads.Tpo -c -o atom-quads.lo ../../coot/mini-mol/atom-quads.cc libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" "-DPACKAGE_STRING=\"coot 1.x-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I../../coot/mini-mol -I../../coot -I/opt/user_software/coot/bin-gtk4/include -DCLIPPER_HAS_TOP8000 -I/opt/user_software/coot/bin-gtk4/include -DMMDB_HAS_LINK_DISTANCE -I/opt/user_software/coot/bin-gtk4/include -g -O -Wall -Wno-unused -std=c++17 -MT mini-mol-utils.lo -MD -MP -MF .deps/mini-mol-utils.Tpo -c ../../coot/mini-mol/mini-mol-utils.cc -fPIC -DPIC -o .libs/mini-mol-utils.o libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" "-DPACKAGE_STRING=\"coot 1.x-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I../../coot/mini-mol -I../../coot -I/opt/user_software/coot/bin-gtk4/include -DCLIPPER_HAS_TOP8000 -I/opt/user_software/coot/bin-gtk4/include -DMMDB_HAS_LINK_DISTANCE -I/opt/user_software/coot/bin-gtk4/include -g -O -Wall -Wno-unused -std=c++17 -MT mini-mol.lo -MD -MP -MF .deps/mini-mol.Tpo -c ../../coot/mini-mol/mini-mol.cc -fPIC -DPIC -o .libs/mini-mol.o libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" "-DPACKAGE_STRING=\"coot 1.x-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I../../coot/mini-mol -I../../coot -I/opt/user_software/coot/bin-gtk4/include -DCLIPPER_HAS_TOP8000 -I/opt/user_software/coot/bin-gtk4/include -DMMDB_HAS_LINK_DISTANCE -I/opt/user_software/coot/bin-gtk4/include -g -O -Wall -Wno-unused -std=c++17 -MT atom-quads.lo -MD -MP -MF .deps/atom-quads.Tpo -c ../../coot/mini-mol/atom-quads.cc -fPIC -DPIC -o .libs/atom-quads.o mv -f .deps/mini-mol-utils.Tpo .deps/mini-mol-utils.Plo mv -f .deps/atom-quads.Tpo .deps/atom-quads.Plo mv -f .deps/mini-mol.Tpo .deps/mini-mol.Plo /bin/bash ../libtool --tag=CXX --mode=link g++ -g -O -Wall -Wno-unused -std=c++17 -o libcoot-mini-mol.la -rpath /opt/user_software/coot/bin-gtk4/lib mini-mol.lo mini-mol-utils.lo atom-quads.lo ../utils/libcoot-utils.la -L/opt/user_software/coot/bin-gtk4/lib -lclipper-ccp4 -lclipper-cif -lclipper-minimol -lclipper-mmdb -lclipper-cns -lclipper-phs -lclipper-contrib -lclipper-core -lccp4c -lmmdb2 -L/opt/user_software/coot/bin-gtk4/lib -lmmdb2 libtool: link: g++ -fPIC -DPIC -shared -nostdlib /usr/lib/gcc/x86_64-linux-gnu/11/../../../x86_64-linux-gnu/crti.o /usr/lib/gcc/x86_64-linux-gnu/11/crtbeginS.o .libs/mini-mol.o .libs/mini-mol-utils.o .libs/atom-quads.o -Wl,-rpath -Wl,/opt/user_software/coot/src/build-coot/utils/.libs -Wl,-rpath -Wl,/opt/user_software/coot/bin-gtk4/lib -Wl,-rpath -Wl,/opt/user_software/coot/bin-gtk4/lib ../utils/.libs/libcoot-utils.so -L/opt/user_software/coot/bin-gtk4/lib -L=/opt/user_software/coot/bin-gtk4/lib:-L/opt/user_software/coot/bin-gtk4/lib: /opt/user_software/coot/bin-gtk4/lib/libclipper-ccp4.so /opt/user_software/coot/bin-gtk4/lib/libclipper-cif.so /opt/user_software/coot/bin-gtk4/lib/libclipper-minimol.so /opt/user_software/coot/bin-gtk4/lib/libclipper-mmdb.so /opt/user_software/coot/bin-gtk4/lib/libclipper-cns.so /opt/user_software/coot/bin-gtk4/lib/libclipper-phs.so /opt/user_software/coot/bin-gtk4/lib/libclipper-contrib.so /opt/user_software/coot/bin-gtk4/lib/libclipper-core.so /opt/user_software/coot/bin-gtk4/lib/librfftw.so /opt/user_software/coot/bin-gtk4/lib/libfftw.so -lpthread /opt/user_software/coot/bin-gtk4/lib/libccp4c.so /opt/user_software/coot/bin-gtk4/lib/libmmdb2.so -L/usr/lib/gcc/x86_64-linux-gnu/11 -L/usr/lib/gcc/x86_64-linux-gnu/11/../../../x86_64-linux-gnu -L/usr/lib/gcc/x86_64-linux-gnu/11/../../../../lib -L/lib/x86_64-linux-gnu -L/lib/../lib -L/usr/lib/x86_64-linux-gnu -L/usr/lib/../lib -L/usr/lib/gcc/x86_64-linux-gnu/11/../../.. -lstdc++ -lm -lc -lgcc_s /usr/lib/gcc/x86_64-linux-gnu/11/crtendS.o /usr/lib/gcc/x86_64-linux-gnu/11/../../../x86_64-linux-gnu/crtn.o -g -O -Wl,-soname -Wl,libcoot-mini-mol.so.0 -o .libs/libcoot-mini-mol.so.0.0.0 libtool: link: (cd ".libs" && rm -f "libcoot-mini-mol.so.0" && ln -s "libcoot-mini-mol.so.0.0.0" "libcoot-mini-mol.so.0") libtool: link: (cd ".libs" && rm -f "libcoot-mini-mol.so" && ln -s "libcoot-mini-mol.so.0.0.0" "libcoot-mini-mol.so") libtool: link: ( cd ".libs" && rm -f "libcoot-mini-mol.la" && ln -s "../libcoot-mini-mol.la" "libcoot-mini-mol.la" ) make[1]: Leaving directory '/opt/user_software/coot/src/build-coot/mini-mol' Making all in geometry make[1]: Entering directory '/opt/user_software/coot/src/build-coot/geometry' g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" -DPACKAGE_STRING=\"coot\ 1.x-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I../../coot/geometry -I../../coot -I/opt/user_software/coot/bin-gtk4/include -DCLIPPER_HAS_TOP8000 -I/opt/user_software/coot/bin-gtk4/include -DMMDB_HAS_LINK_DISTANCE -I/opt/user_software/coot/bin-gtk4/include -DXDATADIR='"/opt/user_software/coot/bin-gtk4/share"' -DPKGDATADIR='"/opt/user_software/coot/bin-gtk4/share/coot"' -g -O -Wall -Wno-unused -std=c++17 -MT available-comp-id.o -MD -MP -MF .deps/available-comp-id.Tpo -c -o available-comp-id.o ../../coot/geometry/available-comp-id.cc /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" -DPACKAGE_STRING=\"coot\ 1.x-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I../../coot/geometry -I../../coot -I/opt/user_software/coot/bin-gtk4/include -DCLIPPER_HAS_TOP8000 -I/opt/user_software/coot/bin-gtk4/include -DMMDB_HAS_LINK_DISTANCE -I/opt/user_software/coot/bin-gtk4/include -DXDATADIR='"/opt/user_software/coot/bin-gtk4/share"' -DPKGDATADIR='"/opt/user_software/coot/bin-gtk4/share/coot"' -g -O -Wall -Wno-unused -std=c++17 -MT cif-parse.lo -MD -MP -MF .deps/cif-parse.Tpo -c -o cif-parse.lo ../../coot/geometry/cif-parse.cc /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" -DPACKAGE_STRING=\"coot\ 1.x-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I../../coot/geometry -I../../coot -I/opt/user_software/coot/bin-gtk4/include -DCLIPPER_HAS_TOP8000 -I/opt/user_software/coot/bin-gtk4/include -DMMDB_HAS_LINK_DISTANCE -I/opt/user_software/coot/bin-gtk4/include -DXDATADIR='"/opt/user_software/coot/bin-gtk4/share"' -DPKGDATADIR='"/opt/user_software/coot/bin-gtk4/share/coot"' -g -O -Wall -Wno-unused -std=c++17 -MT protein-geometry.lo -MD -MP -MF .deps/protein-geometry.Tpo -c -o protein-geometry.lo ../../coot/geometry/protein-geometry.cc /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" -DPACKAGE_STRING=\"coot\ 1.x-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I../../coot/geometry -I../../coot -I/opt/user_software/coot/bin-gtk4/include -DCLIPPER_HAS_TOP8000 -I/opt/user_software/coot/bin-gtk4/include -DMMDB_HAS_LINK_DISTANCE -I/opt/user_software/coot/bin-gtk4/include -DXDATADIR='"/opt/user_software/coot/bin-gtk4/share"' -DPKGDATADIR='"/opt/user_software/coot/bin-gtk4/share/coot"' -g -O -Wall -Wno-unused -std=c++17 -MT protein-geometry-mmdb.lo -MD -MP -MF .deps/protein-geometry-mmdb.Tpo -c -o protein-geometry-mmdb.lo ../../coot/geometry/protein-geometry-mmdb.cc /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" -DPACKAGE_STRING=\"coot\ 1.x-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I../../coot/geometry -I../../coot -I/opt/user_software/coot/bin-gtk4/include -DCLIPPER_HAS_TOP8000 -I/opt/user_software/coot/bin-gtk4/include -DMMDB_HAS_LINK_DISTANCE -I/opt/user_software/coot/bin-gtk4/include -DXDATADIR='"/opt/user_software/coot/bin-gtk4/share"' -DPKGDATADIR='"/opt/user_software/coot/bin-gtk4/share/coot"' -g -O -Wall -Wno-unused -std=c++17 -MT read-sbase.lo -MD -MP -MF .deps/read-sbase.Tpo -c -o read-sbase.lo ../../coot/geometry/read-sbase.cc /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" -DPACKAGE_STRING=\"coot\ 1.x-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I../../coot/geometry -I../../coot -I/opt/user_software/coot/bin-gtk4/include -DCLIPPER_HAS_TOP8000 -I/opt/user_software/coot/bin-gtk4/include -DMMDB_HAS_LINK_DISTANCE -I/opt/user_software/coot/bin-gtk4/include -DXDATADIR='"/opt/user_software/coot/bin-gtk4/share"' -DPKGDATADIR='"/opt/user_software/coot/bin-gtk4/share/coot"' -g -O -Wall -Wno-unused -std=c++17 -MT energy-lib.lo -MD -MP -MF .deps/energy-lib.Tpo -c -o energy-lib.lo ../../coot/geometry/energy-lib.cc /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" -DPACKAGE_STRING=\"coot\ 1.x-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I../../coot/geometry -I../../coot -I/opt/user_software/coot/bin-gtk4/include -DCLIPPER_HAS_TOP8000 -I/opt/user_software/coot/bin-gtk4/include -DMMDB_HAS_LINK_DISTANCE -I/opt/user_software/coot/bin-gtk4/include -DXDATADIR='"/opt/user_software/coot/bin-gtk4/share"' -DPKGDATADIR='"/opt/user_software/coot/bin-gtk4/share/coot"' -g -O -Wall -Wno-unused -std=c++17 -MT mol-utils.lo -MD -MP -MF .deps/mol-utils.Tpo -c -o mol-utils.lo ../../coot/geometry/mol-utils.cc /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" -DPACKAGE_STRING=\"coot\ 1.x-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I../../coot/geometry -I../../coot -I/opt/user_software/coot/bin-gtk4/include -DCLIPPER_HAS_TOP8000 -I/opt/user_software/coot/bin-gtk4/include -DMMDB_HAS_LINK_DISTANCE -I/opt/user_software/coot/bin-gtk4/include -DXDATADIR='"/opt/user_software/coot/bin-gtk4/share"' -DPKGDATADIR='"/opt/user_software/coot/bin-gtk4/share/coot"' -g -O -Wall -Wno-unused -std=c++17 -MT dictionary-residue.lo -MD -MP -MF .deps/dictionary-residue.Tpo -c -o dictionary-residue.lo ../../coot/geometry/dictionary-residue.cc libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" "-DPACKAGE_STRING=\"coot 1.x-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I../../coot/geometry -I../../coot -I/opt/user_software/coot/bin-gtk4/include -DCLIPPER_HAS_TOP8000 -I/opt/user_software/coot/bin-gtk4/include -DMMDB_HAS_LINK_DISTANCE -I/opt/user_software/coot/bin-gtk4/include -DXDATADIR=\"/opt/user_software/coot/bin-gtk4/share\" -DPKGDATADIR=\"/opt/user_software/coot/bin-gtk4/share/coot\" -g -O -Wall -Wno-unused -std=c++17 -MT energy-lib.lo -MD -MP -MF .deps/energy-lib.Tpo -c ../../coot/geometry/energy-lib.cc -fPIC -DPIC -o .libs/energy-lib.o libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" "-DPACKAGE_STRING=\"coot 1.x-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I../../coot/geometry -I../../coot -I/opt/user_software/coot/bin-gtk4/include -DCLIPPER_HAS_TOP8000 -I/opt/user_software/coot/bin-gtk4/include -DMMDB_HAS_LINK_DISTANCE -I/opt/user_software/coot/bin-gtk4/include -DXDATADIR=\"/opt/user_software/coot/bin-gtk4/share\" -DPKGDATADIR=\"/opt/user_software/coot/bin-gtk4/share/coot\" -g -O -Wall -Wno-unused -std=c++17 -MT read-sbase.lo -MD -MP -MF .deps/read-sbase.Tpo -c ../../coot/geometry/read-sbase.cc -fPIC -DPIC -o .libs/read-sbase.o libtool: compile: g++ -DPACKAGE_NAME=\"coot\" 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-Wall -Wno-unused -std=c++17 -MT cif-parse.lo -MD -MP -MF .deps/cif-parse.Tpo -c ../../coot/geometry/cif-parse.cc -fPIC -DPIC -o .libs/cif-parse.o libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" "-DPACKAGE_STRING=\"coot 1.x-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I../../coot/geometry -I../../coot -I/opt/user_software/coot/bin-gtk4/include -DCLIPPER_HAS_TOP8000 -I/opt/user_software/coot/bin-gtk4/include -DMMDB_HAS_LINK_DISTANCE -I/opt/user_software/coot/bin-gtk4/include 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-I/opt/user_software/coot/bin-gtk4/include -DMMDB_HAS_LINK_DISTANCE -I/opt/user_software/coot/bin-gtk4/include -DXDATADIR=\"/opt/user_software/coot/bin-gtk4/share\" -DPKGDATADIR=\"/opt/user_software/coot/bin-gtk4/share/coot\" -g -O -Wall -Wno-unused -std=c++17 -MT protein-geometry-mmdb.lo -MD -MP -MF .deps/protein-geometry-mmdb.Tpo -c ../../coot/geometry/protein-geometry-mmdb.cc -fPIC -DPIC -o .libs/protein-geometry-mmdb.o libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" "-DPACKAGE_STRING=\"coot 1.x-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I../../coot/geometry -I../../coot -I/opt/user_software/coot/bin-gtk4/include -DCLIPPER_HAS_TOP8000 -I/opt/user_software/coot/bin-gtk4/include -DMMDB_HAS_LINK_DISTANCE -I/opt/user_software/coot/bin-gtk4/include -DXDATADIR=\"/opt/user_software/coot/bin-gtk4/share\" -DPKGDATADIR=\"/opt/user_software/coot/bin-gtk4/share/coot\" -g -O -Wall -Wno-unused -std=c++17 -MT dictionary-residue.lo -MD -MP -MF .deps/dictionary-residue.Tpo -c ../../coot/geometry/dictionary-residue.cc -fPIC -DPIC -o .libs/dictionary-residue.o mv -f .deps/mol-utils.Tpo .deps/mol-utils.Plo /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" -DPACKAGE_STRING=\"coot\ 1.x-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 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"-DPACKAGE_STRING=\"coot 1.x-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I../../coot/geometry -I../../coot -I/opt/user_software/coot/bin-gtk4/include -DCLIPPER_HAS_TOP8000 -I/opt/user_software/coot/bin-gtk4/include -DMMDB_HAS_LINK_DISTANCE -I/opt/user_software/coot/bin-gtk4/include -DXDATADIR=\"/opt/user_software/coot/bin-gtk4/share\" -DPKGDATADIR=\"/opt/user_software/coot/bin-gtk4/share/coot\" -g -O -Wall -Wno-unused -std=c++17 -MT glyco-tools.lo -MD -MP -MF .deps/glyco-tools.Tpo -c ../../coot/geometry/glyco-tools.cc -fPIC -DPIC -o .libs/glyco-tools.o mv -f 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-O -Wall -Wno-unused -std=c++17 -MT dict-utils.lo -MD -MP -MF .deps/dict-utils.Tpo -c -o dict-utils.lo ../../coot/geometry/dict-utils.cc mv -f .deps/protein-geometry-mmdb.Tpo .deps/protein-geometry-mmdb.Plo /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" -DPACKAGE_STRING=\"coot\ 1.x-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I../../coot/geometry -I../../coot -I/opt/user_software/coot/bin-gtk4/include -DCLIPPER_HAS_TOP8000 -I/opt/user_software/coot/bin-gtk4/include 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-DPKGDATADIR=\"/opt/user_software/coot/bin-gtk4/share/coot\" -g -O -Wall -Wno-unused -std=c++17 -MT hydrophobic.lo -MD -MP -MF .deps/hydrophobic.Tpo -c ../../coot/geometry/hydrophobic.cc -fPIC -DPIC -o .libs/hydrophobic.o libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" "-DPACKAGE_STRING=\"coot 1.x-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I../../coot/geometry -I../../coot -I/opt/user_software/coot/bin-gtk4/include -DCLIPPER_HAS_TOP8000 -I/opt/user_software/coot/bin-gtk4/include -DMMDB_HAS_LINK_DISTANCE -I/opt/user_software/coot/bin-gtk4/include -DXDATADIR=\"/opt/user_software/coot/bin-gtk4/share\" -DPKGDATADIR=\"/opt/user_software/coot/bin-gtk4/share/coot\" -g -O -Wall -Wno-unused -std=c++17 -MT cif-parse-link.lo -MD -MP -MF .deps/cif-parse-link.Tpo -c ../../coot/geometry/cif-parse-link.cc -fPIC -DPIC -o .libs/cif-parse-link.o mv -f .deps/cif-parse.Tpo .deps/cif-parse.Plo /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" -DPACKAGE_STRING=\"coot\ 1.x-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I../../coot/geometry -I../../coot -I/opt/user_software/coot/bin-gtk4/include -DCLIPPER_HAS_TOP8000 -I/opt/user_software/coot/bin-gtk4/include -DMMDB_HAS_LINK_DISTANCE -I/opt/user_software/coot/bin-gtk4/include -DXDATADIR='"/opt/user_software/coot/bin-gtk4/share"' -DPKGDATADIR='"/opt/user_software/coot/bin-gtk4/share/coot"' -g -O -Wall -Wno-unused -std=c++17 -MT cif-parse-mon-lib.lo -MD -MP -MF .deps/cif-parse-mon-lib.Tpo -c -o cif-parse-mon-lib.lo ../../coot/geometry/cif-parse-mon-lib.cc mv -f .deps/residue-and-atom-specs.Tpo .deps/residue-and-atom-specs.Plo /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" -DPACKAGE_STRING=\"coot\ 1.x-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 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hydrophobic.lo cif-parse-link.lo cif-parse-mon-lib.lo read-metals-json.lo ../mini-mol/libcoot-mini-mol.la ../utils/libcoot-utils.la ../compat/libcoot-compat.la -L/opt/user_software/coot/bin-gtk4/lib -lclipper-ccp4 -lclipper-cif -lclipper-minimol -lclipper-mmdb -lclipper-cns -lclipper-phs -lclipper-contrib -lclipper-core -lccp4c -lmmdb2 -L/opt/user_software/coot/bin-gtk4/lib -lmmdb2 libtool: link: g++ -fPIC -DPIC -shared -nostdlib /usr/lib/gcc/x86_64-linux-gnu/11/../../../x86_64-linux-gnu/crti.o /usr/lib/gcc/x86_64-linux-gnu/11/crtbeginS.o .libs/cif-parse.o .libs/protein-geometry.o .libs/protein-geometry-mmdb.o .libs/read-sbase.o .libs/energy-lib.o .libs/mol-utils.o .libs/dictionary-residue.o .libs/link.o .libs/glyco-tools.o .libs/dict-utils.o .libs/chem_mods.o .libs/srs-interface.o .libs/protein-donor-acceptors.o .libs/lbg-graph.o .libs/dreiding.o .libs/main-chain.o .libs/residue-and-atom-specs.o .libs/intercept-3GP.o .libs/mol-utils-2.o .libs/hydrophobic.o .libs/cif-parse-link.o .libs/cif-parse-mon-lib.o .libs/read-metals-json.o -Wl,-rpath -Wl,/opt/user_software/coot/src/build-coot/mini-mol/.libs -Wl,-rpath -Wl,/opt/user_software/coot/src/build-coot/utils/.libs -Wl,-rpath -Wl,/opt/user_software/coot/src/build-coot/compat/.libs -Wl,-rpath -Wl,/opt/user_software/coot/bin-gtk4/lib -Wl,-rpath -Wl,/opt/user_software/coot/bin-gtk4/lib -L/opt/user_software/coot/src/build-coot/utils/.libs ../mini-mol/.libs/libcoot-mini-mol.so -L/opt/user_software/coot/bin-gtk4/lib -L=/opt/user_software/coot/bin-gtk4/lib:-L/opt/user_software/coot/bin-gtk4/lib: /opt/user_software/coot/src/build-coot/utils/.libs/libcoot-utils.so ../utils/.libs/libcoot-utils.so ../compat/.libs/libcoot-compat.so /opt/user_software/coot/bin-gtk4/lib/libclipper-ccp4.so /opt/user_software/coot/bin-gtk4/lib/libclipper-cif.so /opt/user_software/coot/bin-gtk4/lib/libclipper-minimol.so /opt/user_software/coot/bin-gtk4/lib/libclipper-mmdb.so /opt/user_software/coot/bin-gtk4/lib/libclipper-cns.so 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(cd ".libs" && rm -f "libcoot-geometry.so" && ln -s "libcoot-geometry.so.0.0.0" "libcoot-geometry.so") libtool: link: ( cd ".libs" && rm -f "libcoot-geometry.la" && ln -s "../libcoot-geometry.la" "libcoot-geometry.la" ) /bin/bash ../libtool --tag=CXX --mode=link g++ -DXDATADIR='"/opt/user_software/coot/bin-gtk4/share"' -DPKGDATADIR='"/opt/user_software/coot/bin-gtk4/share/coot"' -g -O -Wall -Wno-unused -std=c++17 -o coot-available-comp-id available-comp-id.o ./libcoot-geometry.la ../mini-mol/libcoot-mini-mol.la ../utils/libcoot-utils.la libtool: link: g++ -DXDATADIR=\"/opt/user_software/coot/bin-gtk4/share\" -DPKGDATADIR=\"/opt/user_software/coot/bin-gtk4/share/coot\" -g -O -Wall -Wno-unused -std=c++17 -o .libs/coot-available-comp-id available-comp-id.o ./.libs/libcoot-geometry.so -L/opt/user_software/coot/bin-gtk4/lib -L=/opt/user_software/coot/bin-gtk4/lib:-L/opt/user_software/coot/bin-gtk4/lib: /opt/user_software/coot/src/build-coot/mini-mol/.libs/libcoot-mini-mol.so /opt/user_software/coot/src/build-coot/compat/.libs/libcoot-compat.so ../mini-mol/.libs/libcoot-mini-mol.so /opt/user_software/coot/src/build-coot/utils/.libs/libcoot-utils.so ../utils/.libs/libcoot-utils.so /opt/user_software/coot/bin-gtk4/lib/libclipper-ccp4.so /opt/user_software/coot/bin-gtk4/lib/libclipper-cif.so /opt/user_software/coot/bin-gtk4/lib/libclipper-minimol.so /opt/user_software/coot/bin-gtk4/lib/libclipper-mmdb.so /opt/user_software/coot/bin-gtk4/lib/libclipper-cns.so /opt/user_software/coot/bin-gtk4/lib/libclipper-phs.so /opt/user_software/coot/bin-gtk4/lib/libclipper-contrib.so /opt/user_software/coot/bin-gtk4/lib/libclipper-core.so /opt/user_software/coot/bin-gtk4/lib/librfftw.so /opt/user_software/coot/bin-gtk4/lib/libfftw.so -lm -lpthread /opt/user_software/coot/bin-gtk4/lib/libccp4c.so /opt/user_software/coot/bin-gtk4/lib/libmmdb2.so -Wl,-rpath -Wl,/opt/user_software/coot/bin-gtk4/lib make[1]: Leaving directory '/opt/user_software/coot/src/build-coot/geometry' 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-DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I../../coot/lidia-core -I../../coot -DMAKE_ENHANCED_LIGAND_TOOLS -I/opt/user_software/coot/bin-gtk4/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DCLIPPER_HAS_TOP8000 -I/opt/user_software/coot/bin-gtk4/include -DMMDB_HAS_LINK_DISTANCE -pthread -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -g -O -Wall -Wno-unused -std=c++17 -MT chemical-feature-clusters.lo -MD -MP -MF .deps/chemical-feature-clusters.Tpo -c ../../coot/lidia-core/chemical-feature-clusters.cc -fPIC -DPIC -o .libs/chemical-feature-clusters.o mv -f .deps/cod-types.Tpo .deps/cod-types.Plo /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" -DPACKAGE_STRING=\"coot\ 1.x-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I../../coot/lidia-core -I../../coot -DMAKE_ENHANCED_LIGAND_TOOLS -I/opt/user_software/coot/bin-gtk4/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DCLIPPER_HAS_TOP8000 -I/opt/user_software/coot/bin-gtk4/include -DMMDB_HAS_LINK_DISTANCE -pthread -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -g -O -Wall -Wno-unused -std=c++17 -MT get-residue.lo -MD -MP -MF .deps/get-residue.Tpo -c -o get-residue.lo ../../coot/lidia-core/get-residue.cc libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" "-DPACKAGE_STRING=\"coot 1.x-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I../../coot/lidia-core -I../../coot -DMAKE_ENHANCED_LIGAND_TOOLS -I/opt/user_software/coot/bin-gtk4/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DCLIPPER_HAS_TOP8000 -I/opt/user_software/coot/bin-gtk4/include -DMMDB_HAS_LINK_DISTANCE -pthread -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -g -O -Wall -Wno-unused -std=c++17 -MT get-residue.lo -MD -MP -MF .deps/get-residue.Tpo -c ../../coot/lidia-core/get-residue.cc -fPIC -DPIC -o .libs/get-residue.o mv -f .deps/cod-atom-type-t.Tpo .deps/cod-atom-type-t.Plo /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" -DPACKAGE_STRING=\"coot\ 1.x-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I../../coot/lidia-core -I../../coot -DMAKE_ENHANCED_LIGAND_TOOLS -I/opt/user_software/coot/bin-gtk4/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DCLIPPER_HAS_TOP8000 -I/opt/user_software/coot/bin-gtk4/include -DMMDB_HAS_LINK_DISTANCE -pthread -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -g -O -Wall -Wno-unused -std=c++17 -MT svg-molecule.lo -MD -MP -MF .deps/svg-molecule.Tpo -c -o svg-molecule.lo ../../coot/lidia-core/svg-molecule.cc libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" "-DPACKAGE_STRING=\"coot 1.x-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I../../coot/lidia-core -I../../coot -DMAKE_ENHANCED_LIGAND_TOOLS -I/opt/user_software/coot/bin-gtk4/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DCLIPPER_HAS_TOP8000 -I/opt/user_software/coot/bin-gtk4/include -DMMDB_HAS_LINK_DISTANCE -pthread -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -g -O -Wall -Wno-unused -std=c++17 -MT svg-molecule.lo -MD -MP -MF .deps/svg-molecule.Tpo -c ../../coot/lidia-core/svg-molecule.cc -fPIC -DPIC -o .libs/svg-molecule.o mv -f .deps/get-residue.Tpo .deps/get-residue.Plo mv -f .deps/bond-table-record-t.Tpo .deps/bond-table-record-t.Plo mv -f .deps/bond-record-container-t.Tpo .deps/bond-record-container-t.Plo mv -f .deps/atom-types.Tpo .deps/atom-types.Plo mv -f .deps/rdkit-interface.Tpo .deps/rdkit-interface.Plo mv -f .deps/cod-atom-types.Tpo .deps/cod-atom-types.Plo mv -f .deps/chemical-feature-clusters.Tpo .deps/chemical-feature-clusters.Plo mv -f .deps/svg-molecule.Tpo .deps/svg-molecule.Plo /bin/bash ../libtool --tag=CXX --mode=link g++ -g -O -Wall -Wno-unused -std=c++17 -o libcoot-lidia-core.la -rpath /opt/user_software/coot/bin-gtk4/lib lbg-shared.lo lbg-molfile.lo lig-build.lo rdkit-interface.lo cod-types.lo atom-types.lo bond-record-container-t.lo cod-atom-type-t.lo cod-atom-types.lo bond-table-record-t.lo chemical-feature-clusters.lo get-residue.lo svg-molecule.lo ../geometry/libcoot-geometry.la ../utils/libcoot-utils.la ../mini-mol/libcoot-mini-mol.la -L/opt/user_software/coot/bin-gtk4/lib -lclipper-ccp4 -lclipper-cif -lclipper-minimol -lclipper-mmdb -lclipper-cns -lclipper-phs -lclipper-contrib -lclipper-core -lccp4c -lmmdb2 -L/opt/user_software/coot/bin-gtk4/lib -lRDKitMolDraw2D -lRDKitForceFieldHelpers -lRDKitDescriptors -lRDKitForceField -lRDKitSubstructMatch -lRDKitOptimizer -lRDKitDistGeomHelpers -lRDKitDistGeometry -lRDKitChemReactions -lRDKitAlignment -lRDKitEigenSolvers -lRDKitDepictor -lRDKitcoordgen -lRDKitMolChemicalFeatures -lRDKitPartialCharges -lRDKitFileParsers -lRDKitRDGeometryLib -lRDKitGraphMol -lRDKitShapeHelpers -lRDKitFingerprints -lRDKitMolAlign -lRDKitMolTransforms -lRDKitChemTransforms -lRDKitSmilesParse -lRDKitGenericGroups -lRDKitRingDecomposerLib -lRDKitFilterCatalog -lRDKitCatalogs -lRDKitSubgraphs -lRDKitPartialCharges -lRDKitRDGeneral -lRDKitDataStructs -lboost_serialization -lboost_iostreams -L/opt/user_software/coot/bin-gtk4/lib libtool: link: g++ -fPIC -DPIC -shared -nostdlib /usr/lib/gcc/x86_64-linux-gnu/11/../../../x86_64-linux-gnu/crti.o /usr/lib/gcc/x86_64-linux-gnu/11/crtbeginS.o .libs/lbg-shared.o .libs/lbg-molfile.o .libs/lig-build.o .libs/rdkit-interface.o .libs/cod-types.o .libs/atom-types.o .libs/bond-record-container-t.o .libs/cod-atom-type-t.o .libs/cod-atom-types.o .libs/bond-table-record-t.o .libs/chemical-feature-clusters.o .libs/get-residue.o .libs/svg-molecule.o -Wl,-rpath -Wl,/opt/user_software/coot/src/build-coot/geometry/.libs -Wl,-rpath -Wl,/opt/user_software/coot/src/build-coot/mini-mol/.libs -Wl,-rpath -Wl,/opt/user_software/coot/src/build-coot/compat/.libs -Wl,-rpath -Wl,/opt/user_software/coot/src/build-coot/utils/.libs -Wl,-rpath -Wl,/opt/user_software/coot/bin-gtk4/lib -Wl,-rpath -Wl,/opt/user_software/coot/bin-gtk4/lib -L/opt/user_software/coot/src/build-coot/mini-mol/.libs -L/opt/user_software/coot/src/build-coot/compat/.libs -L/opt/user_software/coot/src/build-coot/utils/.libs ../geometry/.libs/libcoot-geometry.so -L/opt/user_software/coot/bin-gtk4/lib -L=/opt/user_software/coot/bin-gtk4/lib:-L/opt/user_software/coot/bin-gtk4/lib: /opt/user_software/coot/src/build-coot/mini-mol/.libs/libcoot-mini-mol.so /opt/user_software/coot/src/build-coot/compat/.libs/libcoot-compat.so ../utils/.libs/libcoot-utils.so ../mini-mol/.libs/libcoot-mini-mol.so /opt/user_software/coot/src/build-coot/utils/.libs/libcoot-utils.so /opt/user_software/coot/bin-gtk4/lib/libclipper-ccp4.so /opt/user_software/coot/bin-gtk4/lib/libclipper-cif.so /opt/user_software/coot/bin-gtk4/lib/libclipper-minimol.so /opt/user_software/coot/bin-gtk4/lib/libclipper-mmdb.so /opt/user_software/coot/bin-gtk4/lib/libclipper-cns.so /opt/user_software/coot/bin-gtk4/lib/libclipper-phs.so /opt/user_software/coot/bin-gtk4/lib/libclipper-contrib.so /opt/user_software/coot/bin-gtk4/lib/libclipper-core.so /opt/user_software/coot/bin-gtk4/lib/librfftw.so /opt/user_software/coot/bin-gtk4/lib/libfftw.so -lpthread /opt/user_software/coot/bin-gtk4/lib/libccp4c.so /opt/user_software/coot/bin-gtk4/lib/libmmdb2.so -lRDKitMolDraw2D -lRDKitForceFieldHelpers -lRDKitDescriptors -lRDKitForceField -lRDKitSubstructMatch -lRDKitOptimizer -lRDKitDistGeomHelpers -lRDKitDistGeometry -lRDKitChemReactions -lRDKitAlignment -lRDKitEigenSolvers -lRDKitDepictor -lRDKitcoordgen -lRDKitMolChemicalFeatures -lRDKitFileParsers -lRDKitRDGeometryLib -lRDKitGraphMol -lRDKitShapeHelpers -lRDKitFingerprints -lRDKitMolAlign -lRDKitMolTransforms -lRDKitChemTransforms -lRDKitSmilesParse -lRDKitGenericGroups -lRDKitRingDecomposerLib -lRDKitFilterCatalog -lRDKitCatalogs -lRDKitSubgraphs -lRDKitPartialCharges -lRDKitRDGeneral -lRDKitDataStructs -lboost_serialization -lboost_iostreams -L/usr/lib/gcc/x86_64-linux-gnu/11 -L/usr/lib/gcc/x86_64-linux-gnu/11/../../../x86_64-linux-gnu -L/usr/lib/gcc/x86_64-linux-gnu/11/../../../../lib -L/lib/x86_64-linux-gnu -L/lib/../lib -L/usr/lib/x86_64-linux-gnu -L/usr/lib/../lib -L/usr/lib/gcc/x86_64-linux-gnu/11/../../.. -lstdc++ -lm -lc -lgcc_s /usr/lib/gcc/x86_64-linux-gnu/11/crtendS.o /usr/lib/gcc/x86_64-linux-gnu/11/../../../x86_64-linux-gnu/crtn.o -g -O -Wl,-soname -Wl,libcoot-lidia-core.so.0 -o .libs/libcoot-lidia-core.so.0.0.0 libtool: link: (cd ".libs" && rm -f "libcoot-lidia-core.so.0" && ln -s "libcoot-lidia-core.so.0.0.0" "libcoot-lidia-core.so.0") libtool: link: (cd ".libs" && rm -f "libcoot-lidia-core.so" && ln -s "libcoot-lidia-core.so.0.0.0" "libcoot-lidia-core.so") libtool: link: ( cd ".libs" && rm -f "libcoot-lidia-core.la" && ln -s "../libcoot-lidia-core.la" "libcoot-lidia-core.la" ) make[1]: Leaving directory '/opt/user_software/coot/src/build-coot/lidia-core' Making all in coot-utils make[1]: Entering directory '/opt/user_software/coot/src/build-coot/coot-utils' g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" -DPACKAGE_STRING=\"coot\ 1.x-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I../../coot/coot-utils -I../../coot -DMAKE_ENHANCED_LIGAND_TOOLS -I/opt/user_software/coot/bin-gtk4/include -DCLIPPER_HAS_TOP8000 -I/opt/user_software/coot/bin-gtk4/include -DMMDB_HAS_LINK_DISTANCE -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/opt/user_software/coot/bin-gtk4/include -DUSE_PYTHON -I/opt/user_software/coot/bin-gtk4/include -DHAVE_GSL -DPKGDATADIR='"/opt/user_software/coot/bin-gtk4/share/coot"' -g -O -Wall -Wno-unused -std=c++17 -MT mmrrcc.o -MD -MP -MF .deps/mmrrcc.Tpo -c -o mmrrcc.o ../../coot/coot-utils/mmrrcc.cc /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" -DPACKAGE_STRING=\"coot\ 1.x-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I../../coot/coot-utils -I../../coot -DMAKE_ENHANCED_LIGAND_TOOLS -I/opt/user_software/coot/bin-gtk4/include -DCLIPPER_HAS_TOP8000 -I/opt/user_software/coot/bin-gtk4/include -DMMDB_HAS_LINK_DISTANCE -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/opt/user_software/coot/bin-gtk4/include -DUSE_PYTHON -I/opt/user_software/coot/bin-gtk4/include -DHAVE_GSL -DPKGDATADIR='"/opt/user_software/coot/bin-gtk4/share/coot"' -g -O -Wall -Wno-unused -std=c++17 -MT coot-map-utils.lo -MD -MP -MF .deps/coot-map-utils.Tpo -c -o coot-map-utils.lo ../../coot/coot-utils/coot-map-utils.cc /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" -DPACKAGE_STRING=\"coot\ 1.x-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I../../coot/coot-utils -I../../coot -DMAKE_ENHANCED_LIGAND_TOOLS -I/opt/user_software/coot/bin-gtk4/include -DCLIPPER_HAS_TOP8000 -I/opt/user_software/coot/bin-gtk4/include -DMMDB_HAS_LINK_DISTANCE -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/opt/user_software/coot/bin-gtk4/include -DUSE_PYTHON -I/opt/user_software/coot/bin-gtk4/include -DHAVE_GSL -DPKGDATADIR='"/opt/user_software/coot/bin-gtk4/share/coot"' -g -O -Wall -Wno-unused -std=c++17 -MT peak-search.lo -MD -MP -MF .deps/peak-search.Tpo -c -o peak-search.lo ../../coot/coot-utils/peak-search.cc /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" -DPACKAGE_STRING=\"coot\ 1.x-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" 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-DCLIPPER_HAS_TOP8000 -I/opt/user_software/coot/bin-gtk4/include -DMMDB_HAS_LINK_DISTANCE -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/opt/user_software/coot/bin-gtk4/include -DUSE_PYTHON -I/opt/user_software/coot/bin-gtk4/include -DHAVE_GSL -DPKGDATADIR=\"/opt/user_software/coot/bin-gtk4/share/coot\" -g -O -Wall -Wno-unused -std=c++17 -MT strand-fragments.lo -MD -MP -MF .deps/strand-fragments.Tpo -c ../../coot/coot-utils/strand-fragments.cc -fPIC -DPIC -o .libs/strand-fragments.o libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" "-DPACKAGE_STRING=\"coot 1.x-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 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cablam-markup.lo -MD -MP -MF .deps/cablam-markup.Tpo -c ../../coot/coot-utils/cablam-markup.cc -fPIC -DPIC -o .libs/cablam-markup.o mv -f .deps/fast-eigens.Tpo .deps/fast-eigens.Plo /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" -DPACKAGE_STRING=\"coot\ 1.x-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I../../coot/coot-utils -I../../coot -DMAKE_ENHANCED_LIGAND_TOOLS -I/opt/user_software/coot/bin-gtk4/include -DCLIPPER_HAS_TOP8000 -I/opt/user_software/coot/bin-gtk4/include -DMMDB_HAS_LINK_DISTANCE -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/opt/user_software/coot/bin-gtk4/include -DUSE_PYTHON -I/opt/user_software/coot/bin-gtk4/include -DHAVE_GSL -DPKGDATADIR='"/opt/user_software/coot/bin-gtk4/share/coot"' -g -O -Wall -Wno-unused -std=c++17 -MT coot_shiftfield.lo -MD -MP -MF .deps/coot_shiftfield.Tpo -c -o coot_shiftfield.lo ../../coot/coot-utils/coot_shiftfield.cpp libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" "-DPACKAGE_STRING=\"coot 1.x-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I../../coot/coot-utils -I../../coot -DMAKE_ENHANCED_LIGAND_TOOLS -I/opt/user_software/coot/bin-gtk4/include -DCLIPPER_HAS_TOP8000 -I/opt/user_software/coot/bin-gtk4/include -DMMDB_HAS_LINK_DISTANCE -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/opt/user_software/coot/bin-gtk4/include -DUSE_PYTHON -I/opt/user_software/coot/bin-gtk4/include -DHAVE_GSL -DPKGDATADIR=\"/opt/user_software/coot/bin-gtk4/share/coot\" -g -O -Wall -Wno-unused -std=c++17 -MT coot_shiftfield.lo -MD -MP -MF .deps/coot_shiftfield.Tpo -c ../../coot/coot-utils/coot_shiftfield.cpp -fPIC -DPIC -o .libs/coot_shiftfield.o mv -f .deps/contacts-by-bricks.Tpo .deps/contacts-by-bricks.Plo mv -f .deps/strand-fragments.Tpo .deps/strand-fragments.Plo /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" 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-DPKGDATADIR='"/opt/user_software/coot/bin-gtk4/share/coot"' -g -O -Wall -Wno-unused -std=c++17 -MT shiftfield.lo -MD -MP -MF .deps/shiftfield.Tpo -c -o shiftfield.lo ../../coot/coot-utils/shiftfield.cpp /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" -DPACKAGE_STRING=\"coot\ 1.x-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I../../coot/coot-utils -I../../coot -DMAKE_ENHANCED_LIGAND_TOOLS -I/opt/user_software/coot/bin-gtk4/include -DCLIPPER_HAS_TOP8000 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-DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I../../coot/coot-utils -I../../coot -DMAKE_ENHANCED_LIGAND_TOOLS -I/opt/user_software/coot/bin-gtk4/include -DCLIPPER_HAS_TOP8000 -I/opt/user_software/coot/bin-gtk4/include -DMMDB_HAS_LINK_DISTANCE -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/opt/user_software/coot/bin-gtk4/include -DUSE_PYTHON -I/opt/user_software/coot/bin-gtk4/include -DHAVE_GSL -DPKGDATADIR=\"/opt/user_software/coot/bin-gtk4/share/coot\" -g -O -Wall -Wno-unused -std=c++17 -MT polar-atoms.lo -MD -MP -MF .deps/polar-atoms.Tpo -c ../../coot/coot-utils/polar-atoms.cc -fPIC -DPIC -o .libs/polar-atoms.o libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" "-DPACKAGE_STRING=\"coot 1.x-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I../../coot/coot-utils -I../../coot -DMAKE_ENHANCED_LIGAND_TOOLS -I/opt/user_software/coot/bin-gtk4/include -DCLIPPER_HAS_TOP8000 -I/opt/user_software/coot/bin-gtk4/include -DMMDB_HAS_LINK_DISTANCE -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/opt/user_software/coot/bin-gtk4/include -DUSE_PYTHON -I/opt/user_software/coot/bin-gtk4/include -DHAVE_GSL -DPKGDATADIR=\"/opt/user_software/coot/bin-gtk4/share/coot\" -g -O -Wall -Wno-unused -std=c++17 -MT 3d-texture.lo -MD -MP -MF .deps/3d-texture.Tpo -c ../../coot/coot-utils/3d-texture.cc -fPIC -DPIC -o .libs/3d-texture.o mv -f .deps/stack-and-pair.Tpo .deps/stack-and-pair.Plo /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" -DPACKAGE_STRING=\"coot\ 1.x-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I../../coot/coot-utils -I../../coot -DMAKE_ENHANCED_LIGAND_TOOLS -I/opt/user_software/coot/bin-gtk4/include -DCLIPPER_HAS_TOP8000 -I/opt/user_software/coot/bin-gtk4/include -DMMDB_HAS_LINK_DISTANCE -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/opt/user_software/coot/bin-gtk4/include -DUSE_PYTHON -I/opt/user_software/coot/bin-gtk4/include -DHAVE_GSL -DPKGDATADIR='"/opt/user_software/coot/bin-gtk4/share/coot"' -g -O -Wall -Wno-unused -std=c++17 -MT merge-molecules.lo -MD -MP -MF .deps/merge-molecules.Tpo -c -o merge-molecules.lo ../../coot/coot-utils/merge-molecules.cc mv -f .deps/fib-sphere.Tpo .deps/fib-sphere.Plo /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" -DPACKAGE_STRING=\"coot\ 1.x-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I../../coot/coot-utils -I../../coot -DMAKE_ENHANCED_LIGAND_TOOLS -I/opt/user_software/coot/bin-gtk4/include -DCLIPPER_HAS_TOP8000 -I/opt/user_software/coot/bin-gtk4/include -DMMDB_HAS_LINK_DISTANCE -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/opt/user_software/coot/bin-gtk4/include -DUSE_PYTHON -I/opt/user_software/coot/bin-gtk4/include -DHAVE_GSL -DPKGDATADIR='"/opt/user_software/coot/bin-gtk4/share/coot"' -g -O -Wall -Wno-unused -std=c++17 -MT fragment-container.lo -MD -MP -MF .deps/fragment-container.Tpo -c -o fragment-container.lo ../../coot/coot-utils/fragment-container.cc mv -f .deps/sfcalc-genmap.Tpo .deps/sfcalc-genmap.Plo /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" -DPACKAGE_STRING=\"coot\ 1.x-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I../../coot/coot-utils -I../../coot -DMAKE_ENHANCED_LIGAND_TOOLS -I/opt/user_software/coot/bin-gtk4/include -DCLIPPER_HAS_TOP8000 -I/opt/user_software/coot/bin-gtk4/include -DMMDB_HAS_LINK_DISTANCE -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/opt/user_software/coot/bin-gtk4/include -DUSE_PYTHON -I/opt/user_software/coot/bin-gtk4/include -DHAVE_GSL -DPKGDATADIR='"/opt/user_software/coot/bin-gtk4/share/coot"' -g -O -Wall -Wno-unused -std=c++17 -MT mutate.lo -MD -MP -MF .deps/mutate.Tpo -c -o mutate.lo ../../coot/coot-utils/mutate.cc In file included from /opt/user_software/coot/bin-gtk4/include/clipper/core/cell.h:50, from /opt/user_software/coot/bin-gtk4/include/clipper/core/coords.h:49, from /opt/user_software/coot/bin-gtk4/include/clipper/core/container.h:49, from /opt/user_software/coot/bin-gtk4/include/clipper/core/container_types.h:49, from /opt/user_software/coot/bin-gtk4/include/clipper/core/container_hkl.h:49, from /opt/user_software/coot/bin-gtk4/include/clipper/clipper.h:7, from ../../coot/coot-utils/shiftfield.h:8, from ../../coot/coot-utils/shiftfield.cpp:5: /opt/user_software/coot/bin-gtk4/include/clipper/core/clipper_types.h: In instantiation of ‘std::vector clipper::Matrix::solve(const std::vector&) const [with T = float]’: ../../coot/coot-utils/shiftfield.cpp:139:16: required from here /opt/user_software/coot/bin-gtk4/include/clipper/core/clipper_types.h:565:27: warning: comparison of integer expressions of different signedness: ‘const int’ and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 565 | if ( Array2d::rows() != b.size() ) | ~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~ libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" "-DPACKAGE_STRING=\"coot 1.x-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I../../coot/coot-utils -I../../coot -DMAKE_ENHANCED_LIGAND_TOOLS -I/opt/user_software/coot/bin-gtk4/include -DCLIPPER_HAS_TOP8000 -I/opt/user_software/coot/bin-gtk4/include -DMMDB_HAS_LINK_DISTANCE -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/opt/user_software/coot/bin-gtk4/include -DUSE_PYTHON -I/opt/user_software/coot/bin-gtk4/include -DHAVE_GSL -DPKGDATADIR=\"/opt/user_software/coot/bin-gtk4/share/coot\" -g -O -Wall -Wno-unused -std=c++17 -MT merge-molecules.lo -MD -MP -MF .deps/merge-molecules.Tpo -c ../../coot/coot-utils/merge-molecules.cc -fPIC -DPIC -o .libs/merge-molecules.o libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" "-DPACKAGE_STRING=\"coot 1.x-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I../../coot/coot-utils -I../../coot -DMAKE_ENHANCED_LIGAND_TOOLS -I/opt/user_software/coot/bin-gtk4/include -DCLIPPER_HAS_TOP8000 -I/opt/user_software/coot/bin-gtk4/include -DMMDB_HAS_LINK_DISTANCE -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/opt/user_software/coot/bin-gtk4/include -DUSE_PYTHON -I/opt/user_software/coot/bin-gtk4/include -DHAVE_GSL -DPKGDATADIR=\"/opt/user_software/coot/bin-gtk4/share/coot\" -g -O -Wall -Wno-unused -std=c++17 -MT fragment-container.lo -MD -MP -MF .deps/fragment-container.Tpo -c ../../coot/coot-utils/fragment-container.cc -fPIC -DPIC -o .libs/fragment-container.o libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" "-DPACKAGE_STRING=\"coot 1.x-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I../../coot/coot-utils -I../../coot -DMAKE_ENHANCED_LIGAND_TOOLS -I/opt/user_software/coot/bin-gtk4/include -DCLIPPER_HAS_TOP8000 -I/opt/user_software/coot/bin-gtk4/include -DMMDB_HAS_LINK_DISTANCE -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/opt/user_software/coot/bin-gtk4/include -DUSE_PYTHON -I/opt/user_software/coot/bin-gtk4/include -DHAVE_GSL -DPKGDATADIR=\"/opt/user_software/coot/bin-gtk4/share/coot\" -g -O -Wall -Wno-unused -std=c++17 -MT mutate.lo -MD -MP -MF .deps/mutate.Tpo -c ../../coot/coot-utils/mutate.cc -fPIC -DPIC -o .libs/mutate.o mv -f .deps/coot_shiftfield.Tpo .deps/coot_shiftfield.Plo /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" -DPACKAGE_STRING=\"coot\ 1.x-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I../../coot/coot-utils -I../../coot -DMAKE_ENHANCED_LIGAND_TOOLS -I/opt/user_software/coot/bin-gtk4/include -DCLIPPER_HAS_TOP8000 -I/opt/user_software/coot/bin-gtk4/include -DMMDB_HAS_LINK_DISTANCE -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/opt/user_software/coot/bin-gtk4/include -DUSE_PYTHON -I/opt/user_software/coot/bin-gtk4/include -DHAVE_GSL -DPKGDATADIR='"/opt/user_software/coot/bin-gtk4/share/coot"' -g -O -Wall -Wno-unused -std=c++17 -MT merge-C-and-N-terminii.lo -MD -MP -MF .deps/merge-C-and-N-terminii.Tpo -c -o merge-C-and-N-terminii.lo ../../coot/coot-utils/merge-C-and-N-terminii.cc mv -f .deps/merge-molecules.Tpo .deps/merge-molecules.Plo /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" -DPACKAGE_STRING=\"coot\ 1.x-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I../../coot/coot-utils -I../../coot -DMAKE_ENHANCED_LIGAND_TOOLS -I/opt/user_software/coot/bin-gtk4/include -DCLIPPER_HAS_TOP8000 -I/opt/user_software/coot/bin-gtk4/include -DMMDB_HAS_LINK_DISTANCE -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/opt/user_software/coot/bin-gtk4/include -DUSE_PYTHON -I/opt/user_software/coot/bin-gtk4/include -DHAVE_GSL -DPKGDATADIR='"/opt/user_software/coot/bin-gtk4/share/coot"' -g -O -Wall -Wno-unused -std=c++17 -MT cylinder.lo -MD -MP -MF .deps/cylinder.Tpo -c -o cylinder.lo ../../coot/coot-utils/cylinder.cc mv -f .deps/3d-texture.Tpo 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.deps/coot-coord-utils-glyco.Tpo .deps/coot-coord-utils-glyco.Plo mv -f .deps/test-coot-utils.Tpo .deps/test-coot-utils.Po mv -f .deps/gltf-export.Tpo .deps/gltf-export.Plo /bin/bash ../libtool --tag=CXX --mode=link g++ -DHAVE_GSL -DPKGDATADIR='"/opt/user_software/coot/bin-gtk4/share/coot"' -g -O -Wall -Wno-unused -std=c++17 -o libcoot-coord-utils.la -rpath /opt/user_software/coot/bin-gtk4/lib coot-coord-utils.lo coot-coord-utils-nucleotides.lo coot-rama.lo coot-h-bonds.lo hole.lo read-sm-cif.lo bonded-pairs.lo helix-analysis.lo elastic.lo glyco-torsions.lo coot-least-squares.lo atom-overlaps.lo reduce.lo atom-selection-container.lo contact-info.lo coot-shelx-ins.lo secondary-structure-headers.lo plane-utils.lo c-beta-deviations.lo lidia-core-functions.lo atom-tools.lo bonded-atoms.lo bricks.lo helix-like.lo merge-atom-selections.lo contacts-by-bricks.lo stack-and-pair.lo fast-eigens.lo strand-fragments.lo sfcalc-genmap.lo cablam-markup.lo coot_shiftfield.lo shiftfield.lo fib-sphere.lo 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/opt/user_software/coot/src/build-coot/compat/.libs/libcoot-compat.so ../utils/.libs/libcoot-utils.so ../mini-mol/.libs/libcoot-mini-mol.so /opt/user_software/coot/src/build-coot/utils/.libs/libcoot-utils.so /opt/user_software/coot/bin-gtk4/lib/libclipper-ccp4.so /opt/user_software/coot/bin-gtk4/lib/libclipper-cif.so /opt/user_software/coot/bin-gtk4/lib/libclipper-minimol.so /opt/user_software/coot/bin-gtk4/lib/libclipper-mmdb.so /opt/user_software/coot/bin-gtk4/lib/libclipper-cns.so /opt/user_software/coot/bin-gtk4/lib/libclipper-phs.so /opt/user_software/coot/bin-gtk4/lib/libclipper-contrib.so /opt/user_software/coot/bin-gtk4/lib/libclipper-core.so /opt/user_software/coot/bin-gtk4/lib/librfftw.so /opt/user_software/coot/bin-gtk4/lib/libfftw.so /opt/user_software/coot/bin-gtk4/lib/libccp4c.so /opt/user_software/coot/bin-gtk4/lib/libmmdb2.so /opt/user_software/coot/bin-gtk4/lib/libgsl.so /opt/user_software/coot/bin-gtk4/lib/libgslcblas.so -lRDKitMolDraw2D -lRDKitForceFieldHelpers -lRDKitDescriptors -lRDKitForceField -lRDKitSubstructMatch -lRDKitOptimizer -lRDKitDistGeomHelpers -lRDKitDistGeometry -lRDKitChemReactions -lRDKitAlignment -lRDKitEigenSolvers -lRDKitDepictor -lRDKitcoordgen -lRDKitMolChemicalFeatures -lRDKitFileParsers -lRDKitRDGeometryLib -lRDKitGraphMol -lRDKitShapeHelpers -lRDKitFingerprints -lRDKitMolAlign -lRDKitMolTransforms -lRDKitChemTransforms -lRDKitSmilesParse -lRDKitGenericGroups -lRDKitRingDecomposerLib -lRDKitFilterCatalog -lRDKitCatalogs -lRDKitSubgraphs -lRDKitPartialCharges -lRDKitRDGeneral -lRDKitDataStructs -lboost_serialization -lboost_iostreams -lpthread -L/usr/lib/gcc/x86_64-linux-gnu/11 -L/usr/lib/gcc/x86_64-linux-gnu/11/../../../x86_64-linux-gnu -L/usr/lib/gcc/x86_64-linux-gnu/11/../../../../lib -L/lib/x86_64-linux-gnu -L/lib/../lib -L/usr/lib/x86_64-linux-gnu -L/usr/lib/../lib -L/usr/lib/gcc/x86_64-linux-gnu/11/../../.. -lstdc++ -lm -lc -lgcc_s /usr/lib/gcc/x86_64-linux-gnu/11/crtendS.o /usr/lib/gcc/x86_64-linux-gnu/11/../../../x86_64-linux-gnu/crtn.o -g -O -Wl,-soname -Wl,libcoot-coord-utils.so.0 -o .libs/libcoot-coord-utils.so.0.0.0 libtool: link: (cd ".libs" && rm -f "libcoot-coord-utils.so.0" && ln -s "libcoot-coord-utils.so.0.0.0" "libcoot-coord-utils.so.0") libtool: link: (cd ".libs" && rm -f "libcoot-coord-utils.so" && ln -s "libcoot-coord-utils.so.0.0.0" "libcoot-coord-utils.so") libtool: link: ( cd ".libs" && rm -f "libcoot-coord-utils.la" && ln -s "../libcoot-coord-utils.la" "libcoot-coord-utils.la" ) /bin/bash ../libtool --tag=CXX --mode=link g++ -DHAVE_GSL -DPKGDATADIR='"/opt/user_software/coot/bin-gtk4/share/coot"' -g -O -Wall -Wno-unused -std=c++17 -lpthread -o libcoot-map-utils.la -rpath /opt/user_software/coot/bin-gtk4/lib coot-map-utils.lo peak-search.lo peak-search-from-list.lo trim.lo xmap-stats.lo maps-spherical.lo pepflip-using-difference-map.lo exp-fit.lo blob-line.lo slurp-map.lo find-water-baddies.lo diff-diff-map-peaks.lo libcoot-coord-utils.la ../lidia-core/libcoot-lidia-core.la ../geometry/libcoot-geometry.la ../utils/libcoot-utils.la -L/opt/user_software/coot/bin-gtk4/lib -lclipper-ccp4 -lclipper-cif -lclipper-minimol -lclipper-mmdb -lclipper-cns -lclipper-phs -lclipper-contrib -lclipper-core -lccp4c -lmmdb2 -L/opt/user_software/coot/bin-gtk4/lib -lgsl -lgslcblas -lm -lpthread -lz /bin/bash ../libtool --tag=CXX --mode=link g++ -DHAVE_GSL -DPKGDATADIR='"/opt/user_software/coot/bin-gtk4/share/coot"' -g -O -Wall -Wno-unused -std=c++17 -o libcoot-coord-extras.la -rpath /opt/user_software/coot/bin-gtk4/lib coot-coord-extras.lo coot-coord-lsq.lo coot-tree-extras.lo water-coordination.lo lsq-improve.lo coot-coord-utils-glyco.lo jed-flip.lo libcoot-coord-utils.la ../lidia-core/libcoot-lidia-core.la ../geometry/libcoot-geometry.la ../mini-mol/libcoot-mini-mol.la ../utils/libcoot-utils.la -L/opt/user_software/coot/bin-gtk4/lib -lclipper-ccp4 -lclipper-cif -lclipper-minimol -lclipper-mmdb -lclipper-cns -lclipper-phs -lclipper-contrib -lclipper-core -lccp4c -lmmdb2 libtool: link: g++ -fPIC -DPIC -shared -nostdlib /usr/lib/gcc/x86_64-linux-gnu/11/../../../x86_64-linux-gnu/crti.o /usr/lib/gcc/x86_64-linux-gnu/11/crtbeginS.o .libs/coot-map-utils.o .libs/peak-search.o .libs/peak-search-from-list.o .libs/trim.o .libs/xmap-stats.o .libs/maps-spherical.o .libs/pepflip-using-difference-map.o .libs/exp-fit.o .libs/blob-line.o .libs/slurp-map.o .libs/find-water-baddies.o .libs/diff-diff-map-peaks.o -Wl,-rpath -Wl,/opt/user_software/coot/src/build-coot/coot-utils/.libs -Wl,-rpath -Wl,/opt/user_software/coot/src/build-coot/lidia-core/.libs -Wl,-rpath -Wl,/opt/user_software/coot/src/build-coot/protein_db/.libs -Wl,-rpath -Wl,/opt/user_software/coot/src/build-coot/geometry/.libs -Wl,-rpath -Wl,/opt/user_software/coot/src/build-coot/mini-mol/.libs -Wl,-rpath -Wl,/opt/user_software/coot/src/build-coot/utils/.libs -Wl,-rpath -Wl,/opt/user_software/coot/src/build-coot/compat/.libs -Wl,-rpath -Wl,/opt/user_software/coot/bin-gtk4/lib -Wl,-rpath -Wl,/opt/user_software/coot/bin-gtk4/lib -L/opt/user_software/coot/src/build-coot/lidia-core/.libs -L/opt/user_software/coot/src/build-coot/protein_db/.libs -L/opt/user_software/coot/src/build-coot/geometry/.libs -L/opt/user_software/coot/src/build-coot/mini-mol/.libs -L/opt/user_software/coot/src/build-coot/utils/.libs -L/opt/user_software/coot/src/build-coot/compat/.libs ./.libs/libcoot-coord-utils.so -L/opt/user_software/coot/bin-gtk4/lib -L=/opt/user_software/coot/bin-gtk4/lib:-L/opt/user_software/coot/bin-gtk4/lib: /opt/user_software/coot/src/build-coot/lidia-core/.libs/libcoot-lidia-core.so /opt/user_software/coot/src/build-coot/protein_db/.libs/libcoot-protein-db.so ../lidia-core/.libs/libcoot-lidia-core.so /opt/user_software/coot/src/build-coot/geometry/.libs/libcoot-geometry.so -lRDKitMolDraw2D -lRDKitForceFieldHelpers -lRDKitDescriptors -lRDKitForceField -lRDKitSubstructMatch -lRDKitOptimizer -lRDKitDistGeomHelpers -lRDKitDistGeometry -lRDKitChemReactions -lRDKitAlignment -lRDKitEigenSolvers -lRDKitDepictor -lRDKitcoordgen -lRDKitMolChemicalFeatures -lRDKitFileParsers -lRDKitRDGeometryLib -lRDKitGraphMol -lRDKitShapeHelpers -lRDKitFingerprints -lRDKitMolAlign -lRDKitMolTransforms -lRDKitChemTransforms -lRDKitSmilesParse -lRDKitGenericGroups -lRDKitRingDecomposerLib -lRDKitFilterCatalog -lRDKitCatalogs -lRDKitSubgraphs -lRDKitPartialCharges -lRDKitRDGeneral -lRDKitDataStructs -lboost_serialization -lboost_iostreams ../geometry/.libs/libcoot-geometry.so /opt/user_software/coot/src/build-coot/mini-mol/.libs/libcoot-mini-mol.so /opt/user_software/coot/src/build-coot/utils/.libs/libcoot-utils.so /opt/user_software/coot/src/build-coot/compat/.libs/libcoot-compat.so ../utils/.libs/libcoot-utils.so /opt/user_software/coot/bin-gtk4/lib/libclipper-ccp4.so /opt/user_software/coot/bin-gtk4/lib/libclipper-cif.so /opt/user_software/coot/bin-gtk4/lib/libclipper-minimol.so /opt/user_software/coot/bin-gtk4/lib/libclipper-mmdb.so /opt/user_software/coot/bin-gtk4/lib/libclipper-cns.so /opt/user_software/coot/bin-gtk4/lib/libclipper-phs.so /opt/user_software/coot/bin-gtk4/lib/libclipper-contrib.so /opt/user_software/coot/bin-gtk4/lib/libclipper-core.so /opt/user_software/coot/bin-gtk4/lib/librfftw.so /opt/user_software/coot/bin-gtk4/lib/libfftw.so /opt/user_software/coot/bin-gtk4/lib/libccp4c.so /opt/user_software/coot/bin-gtk4/lib/libmmdb2.so /opt/user_software/coot/bin-gtk4/lib/libgsl.so /opt/user_software/coot/bin-gtk4/lib/libgslcblas.so -lpthread -lz -L/usr/lib/gcc/x86_64-linux-gnu/11 -L/usr/lib/gcc/x86_64-linux-gnu/11/../../../x86_64-linux-gnu -L/usr/lib/gcc/x86_64-linux-gnu/11/../../../../lib -L/lib/x86_64-linux-gnu -L/lib/../lib -L/usr/lib/x86_64-linux-gnu -L/usr/lib/../lib -L/usr/lib/gcc/x86_64-linux-gnu/11/../../.. -lstdc++ -lm -lc -lgcc_s /usr/lib/gcc/x86_64-linux-gnu/11/crtendS.o /usr/lib/gcc/x86_64-linux-gnu/11/../../../x86_64-linux-gnu/crtn.o -g -O -Wl,-soname -Wl,libcoot-map-utils.so.0 -o .libs/libcoot-map-utils.so.0.0.0 libtool: link: g++ -fPIC -DPIC -shared -nostdlib /usr/lib/gcc/x86_64-linux-gnu/11/../../../x86_64-linux-gnu/crti.o /usr/lib/gcc/x86_64-linux-gnu/11/crtbeginS.o .libs/coot-coord-extras.o .libs/coot-coord-lsq.o .libs/coot-tree-extras.o .libs/water-coordination.o .libs/lsq-improve.o .libs/coot-coord-utils-glyco.o .libs/jed-flip.o -Wl,-rpath -Wl,/opt/user_software/coot/src/build-coot/coot-utils/.libs -Wl,-rpath -Wl,/opt/user_software/coot/src/build-coot/lidia-core/.libs -Wl,-rpath -Wl,/opt/user_software/coot/src/build-coot/protein_db/.libs -Wl,-rpath -Wl,/opt/user_software/coot/bin-gtk4/lib -Wl,-rpath -Wl,/opt/user_software/coot/src/build-coot/geometry/.libs -Wl,-rpath -Wl,/opt/user_software/coot/src/build-coot/mini-mol/.libs -Wl,-rpath -Wl,/opt/user_software/coot/src/build-coot/compat/.libs -Wl,-rpath -Wl,/opt/user_software/coot/src/build-coot/utils/.libs -Wl,-rpath -Wl,/opt/user_software/coot/bin-gtk4/lib -L/opt/user_software/coot/src/build-coot/lidia-core/.libs -L/opt/user_software/coot/src/build-coot/protein_db/.libs -L/opt/user_software/coot/src/build-coot/geometry/.libs -L/opt/user_software/coot/src/build-coot/mini-mol/.libs -L/opt/user_software/coot/src/build-coot/compat/.libs -L/opt/user_software/coot/src/build-coot/utils/.libs ./.libs/libcoot-coord-utils.so -L/opt/user_software/coot/bin-gtk4/lib -L=/opt/user_software/coot/bin-gtk4/lib:-L/opt/user_software/coot/bin-gtk4/lib: /opt/user_software/coot/src/build-coot/lidia-core/.libs/libcoot-lidia-core.so /opt/user_software/coot/src/build-coot/protein_db/.libs/libcoot-protein-db.so /opt/user_software/coot/bin-gtk4/lib/libgsl.so /opt/user_software/coot/bin-gtk4/lib/libgslcblas.so ../lidia-core/.libs/libcoot-lidia-core.so /opt/user_software/coot/src/build-coot/geometry/.libs/libcoot-geometry.so -lRDKitMolDraw2D -lRDKitForceFieldHelpers -lRDKitDescriptors -lRDKitForceField -lRDKitSubstructMatch -lRDKitOptimizer -lRDKitDistGeomHelpers -lRDKitDistGeometry -lRDKitChemReactions -lRDKitAlignment -lRDKitEigenSolvers -lRDKitDepictor -lRDKitcoordgen -lRDKitMolChemicalFeatures -lRDKitFileParsers -lRDKitRDGeometryLib -lRDKitGraphMol -lRDKitShapeHelpers -lRDKitFingerprints -lRDKitMolAlign -lRDKitMolTransforms -lRDKitChemTransforms -lRDKitSmilesParse -lRDKitGenericGroups -lRDKitRingDecomposerLib -lRDKitFilterCatalog -lRDKitCatalogs -lRDKitSubgraphs -lRDKitPartialCharges -lRDKitRDGeneral -lRDKitDataStructs -lboost_serialization -lboost_iostreams ../geometry/.libs/libcoot-geometry.so /opt/user_software/coot/src/build-coot/mini-mol/.libs/libcoot-mini-mol.so /opt/user_software/coot/src/build-coot/compat/.libs/libcoot-compat.so ../mini-mol/.libs/libcoot-mini-mol.so /opt/user_software/coot/src/build-coot/utils/.libs/libcoot-utils.so ../utils/.libs/libcoot-utils.so /opt/user_software/coot/bin-gtk4/lib/libclipper-ccp4.so /opt/user_software/coot/bin-gtk4/lib/libclipper-cif.so /opt/user_software/coot/bin-gtk4/lib/libclipper-minimol.so /opt/user_software/coot/bin-gtk4/lib/libclipper-mmdb.so /opt/user_software/coot/bin-gtk4/lib/libclipper-cns.so /opt/user_software/coot/bin-gtk4/lib/libclipper-phs.so /opt/user_software/coot/bin-gtk4/lib/libclipper-contrib.so /opt/user_software/coot/bin-gtk4/lib/libclipper-core.so /opt/user_software/coot/bin-gtk4/lib/librfftw.so /opt/user_software/coot/bin-gtk4/lib/libfftw.so -lpthread /opt/user_software/coot/bin-gtk4/lib/libccp4c.so /opt/user_software/coot/bin-gtk4/lib/libmmdb2.so -L/usr/lib/gcc/x86_64-linux-gnu/11 -L/usr/lib/gcc/x86_64-linux-gnu/11/../../../x86_64-linux-gnu -L/usr/lib/gcc/x86_64-linux-gnu/11/../../../../lib -L/lib/x86_64-linux-gnu -L/lib/../lib -L/usr/lib/x86_64-linux-gnu -L/usr/lib/../lib -L/usr/lib/gcc/x86_64-linux-gnu/11/../../.. -lstdc++ -lm -lc -lgcc_s /usr/lib/gcc/x86_64-linux-gnu/11/crtendS.o /usr/lib/gcc/x86_64-linux-gnu/11/../../../x86_64-linux-gnu/crtn.o -g -O -Wl,-soname -Wl,libcoot-coord-extras.so.0 -o .libs/libcoot-coord-extras.so.0.0.0 libtool: link: (cd ".libs" && rm -f "libcoot-map-utils.so.0" && ln -s "libcoot-map-utils.so.0.0.0" "libcoot-map-utils.so.0") libtool: link: (cd ".libs" && rm -f "libcoot-map-utils.so" && ln -s "libcoot-map-utils.so.0.0.0" "libcoot-map-utils.so") libtool: link: (cd ".libs" && rm -f "libcoot-coord-extras.so.0" && ln -s "libcoot-coord-extras.so.0.0.0" "libcoot-coord-extras.so.0") libtool: link: (cd ".libs" && rm -f "libcoot-coord-extras.so" && ln -s "libcoot-coord-extras.so.0.0.0" "libcoot-coord-extras.so") libtool: link: ( cd ".libs" && rm -f "libcoot-map-utils.la" && ln -s "../libcoot-map-utils.la" "libcoot-map-utils.la" ) /bin/bash ../libtool --tag=CXX --mode=link g++ -DHAVE_GSL -DPKGDATADIR='"/opt/user_software/coot/bin-gtk4/share/coot"' -g -O -Wall -Wno-unused -std=c++17 -o libcoot-map-heavy.la -rpath /opt/user_software/coot/bin-gtk4/lib coot-map-heavy.lo coot-fffear.lo spherical-harmonics.lo segmap.lo libcoot-map-utils.la libcoot-coord-utils.la ../lidia-core/libcoot-lidia-core.la ../mini-mol/libcoot-mini-mol.la ../utils/libcoot-utils.la -L/opt/user_software/coot/bin-gtk4/lib -lclipper-ccp4 -lclipper-cif -lclipper-minimol -lclipper-mmdb -lclipper-cns -lclipper-phs -lclipper-contrib -lclipper-core -lccp4c -lmmdb2 -L/opt/user_software/coot/bin-gtk4/lib -lgsl -lgslcblas -lm -lpthread /bin/bash ../libtool --tag=CXX --mode=link g++ -DHAVE_GSL -DPKGDATADIR='"/opt/user_software/coot/bin-gtk4/share/coot"' -g -O -Wall -Wno-unused -std=c++17 -o mmrrcc mmrrcc.o ./libcoot-map-utils.la ./libcoot-coord-utils.la ../lidia-core/libcoot-lidia-core.la ../geometry/libcoot-geometry.la ../lidia-core/libcoot-lidia-core.la ../utils/libcoot-utils.la -L/opt/user_software/coot/bin-gtk4/lib -lclipper-ccp4 -lclipper-cif -lclipper-minimol -lclipper-mmdb -lclipper-cns -lclipper-phs -lclipper-contrib -lclipper-core -lccp4c -lmmdb2 libtool: link: ( cd ".libs" && rm -f "libcoot-coord-extras.la" && ln -s "../libcoot-coord-extras.la" "libcoot-coord-extras.la" ) libtool: link: g++ -DHAVE_GSL -DPKGDATADIR=\"/opt/user_software/coot/bin-gtk4/share/coot\" -g -O -Wall -Wno-unused -std=c++17 -o .libs/mmrrcc mmrrcc.o ./.libs/libcoot-map-utils.so -L/opt/user_software/coot/bin-gtk4/lib -L=/opt/user_software/coot/bin-gtk4/lib:-L/opt/user_software/coot/bin-gtk4/lib: /opt/user_software/coot/src/build-coot/coot-utils/.libs/libcoot-coord-utils.so -lz ./.libs/libcoot-coord-utils.so /opt/user_software/coot/src/build-coot/lidia-core/.libs/libcoot-lidia-core.so /opt/user_software/coot/src/build-coot/protein_db/.libs/libcoot-protein-db.so /opt/user_software/coot/bin-gtk4/lib/libgsl.so /opt/user_software/coot/bin-gtk4/lib/libgslcblas.so ../geometry/.libs/libcoot-geometry.so ../lidia-core/.libs/libcoot-lidia-core.so /opt/user_software/coot/src/build-coot/geometry/.libs/libcoot-geometry.so /opt/user_software/coot/src/build-coot/compat/.libs/libcoot-compat.so /opt/user_software/coot/src/build-coot/mini-mol/.libs/libcoot-mini-mol.so /opt/user_software/coot/src/build-coot/utils/.libs/libcoot-utils.so -lRDKitMolDraw2D -lRDKitForceFieldHelpers -lRDKitDescriptors -lRDKitForceField -lRDKitSubstructMatch -lRDKitOptimizer -lRDKitDistGeomHelpers -lRDKitDistGeometry -lRDKitChemReactions -lRDKitAlignment -lRDKitEigenSolvers -lRDKitDepictor -lRDKitcoordgen -lRDKitMolChemicalFeatures -lRDKitFileParsers -lRDKitRDGeometryLib -lRDKitGraphMol -lRDKitShapeHelpers -lRDKitFingerprints -lRDKitMolAlign -lRDKitMolTransforms -lRDKitChemTransforms -lRDKitSmilesParse -lRDKitGenericGroups -lRDKitRingDecomposerLib -lRDKitFilterCatalog -lRDKitCatalogs -lRDKitSubgraphs -lRDKitPartialCharges -lRDKitRDGeneral -lRDKitDataStructs -lboost_serialization -lboost_iostreams ../utils/.libs/libcoot-utils.so /opt/user_software/coot/bin-gtk4/lib/libclipper-ccp4.so /opt/user_software/coot/bin-gtk4/lib/libclipper-cif.so /opt/user_software/coot/bin-gtk4/lib/libclipper-minimol.so /opt/user_software/coot/bin-gtk4/lib/libclipper-mmdb.so /opt/user_software/coot/bin-gtk4/lib/libclipper-cns.so /opt/user_software/coot/bin-gtk4/lib/libclipper-phs.so /opt/user_software/coot/bin-gtk4/lib/libclipper-contrib.so /opt/user_software/coot/bin-gtk4/lib/libclipper-core.so /opt/user_software/coot/bin-gtk4/lib/librfftw.so /opt/user_software/coot/bin-gtk4/lib/libfftw.so -lm -lpthread /opt/user_software/coot/bin-gtk4/lib/libccp4c.so /opt/user_software/coot/bin-gtk4/lib/libmmdb2.so -Wl,-rpath -Wl,/opt/user_software/coot/bin-gtk4/lib libtool: link: g++ -fPIC -DPIC -shared -nostdlib /usr/lib/gcc/x86_64-linux-gnu/11/../../../x86_64-linux-gnu/crti.o /usr/lib/gcc/x86_64-linux-gnu/11/crtbeginS.o .libs/coot-map-heavy.o .libs/coot-fffear.o .libs/spherical-harmonics.o .libs/segmap.o -Wl,-rpath -Wl,/opt/user_software/coot/src/build-coot/coot-utils/.libs -Wl,-rpath -Wl,/opt/user_software/coot/src/build-coot/lidia-core/.libs -Wl,-rpath -Wl,/opt/user_software/coot/src/build-coot/protein_db/.libs -Wl,-rpath -Wl,/opt/user_software/coot/src/build-coot/geometry/.libs -Wl,-rpath -Wl,/opt/user_software/coot/src/build-coot/compat/.libs -Wl,-rpath -Wl,/opt/user_software/coot/src/build-coot/mini-mol/.libs -Wl,-rpath -Wl,/opt/user_software/coot/src/build-coot/utils/.libs -Wl,-rpath -Wl,/opt/user_software/coot/bin-gtk4/lib -Wl,-rpath -Wl,/opt/user_software/coot/bin-gtk4/lib -L/opt/user_software/coot/src/build-coot/coot-utils/.libs -L/opt/user_software/coot/src/build-coot/lidia-core/.libs -L/opt/user_software/coot/src/build-coot/protein_db/.libs -L/opt/user_software/coot/src/build-coot/geometry/.libs -L/opt/user_software/coot/src/build-coot/compat/.libs -L/opt/user_software/coot/src/build-coot/mini-mol/.libs -L/opt/user_software/coot/src/build-coot/utils/.libs ./.libs/libcoot-map-utils.so -L/opt/user_software/coot/bin-gtk4/lib -L=/opt/user_software/coot/bin-gtk4/lib:-L/opt/user_software/coot/bin-gtk4/lib: /opt/user_software/coot/src/build-coot/coot-utils/.libs/libcoot-coord-utils.so -lz ./.libs/libcoot-coord-utils.so /opt/user_software/coot/src/build-coot/lidia-core/.libs/libcoot-lidia-core.so /opt/user_software/coot/src/build-coot/protein_db/.libs/libcoot-protein-db.so ../lidia-core/.libs/libcoot-lidia-core.so /opt/user_software/coot/src/build-coot/geometry/.libs/libcoot-geometry.so /opt/user_software/coot/src/build-coot/compat/.libs/libcoot-compat.so /opt/user_software/coot/src/build-coot/mini-mol/.libs/libcoot-mini-mol.so -lRDKitMolDraw2D -lRDKitForceFieldHelpers -lRDKitDescriptors -lRDKitForceField -lRDKitSubstructMatch -lRDKitOptimizer -lRDKitDistGeomHelpers -lRDKitDistGeometry -lRDKitChemReactions -lRDKitAlignment -lRDKitEigenSolvers -lRDKitDepictor -lRDKitcoordgen -lRDKitMolChemicalFeatures -lRDKitFileParsers -lRDKitRDGeometryLib -lRDKitGraphMol -lRDKitShapeHelpers -lRDKitFingerprints -lRDKitMolAlign -lRDKitMolTransforms -lRDKitChemTransforms -lRDKitSmilesParse -lRDKitGenericGroups -lRDKitRingDecomposerLib -lRDKitFilterCatalog -lRDKitCatalogs -lRDKitSubgraphs -lRDKitPartialCharges -lRDKitRDGeneral -lRDKitDataStructs -lboost_serialization -lboost_iostreams ../mini-mol/.libs/libcoot-mini-mol.so /opt/user_software/coot/src/build-coot/utils/.libs/libcoot-utils.so ../utils/.libs/libcoot-utils.so /opt/user_software/coot/bin-gtk4/lib/libclipper-ccp4.so /opt/user_software/coot/bin-gtk4/lib/libclipper-cif.so /opt/user_software/coot/bin-gtk4/lib/libclipper-minimol.so /opt/user_software/coot/bin-gtk4/lib/libclipper-mmdb.so /opt/user_software/coot/bin-gtk4/lib/libclipper-cns.so /opt/user_software/coot/bin-gtk4/lib/libclipper-phs.so /opt/user_software/coot/bin-gtk4/lib/libclipper-contrib.so /opt/user_software/coot/bin-gtk4/lib/libclipper-core.so /opt/user_software/coot/bin-gtk4/lib/librfftw.so /opt/user_software/coot/bin-gtk4/lib/libfftw.so /opt/user_software/coot/bin-gtk4/lib/libccp4c.so /opt/user_software/coot/bin-gtk4/lib/libmmdb2.so /opt/user_software/coot/bin-gtk4/lib/libgsl.so /opt/user_software/coot/bin-gtk4/lib/libgslcblas.so -lpthread -L/usr/lib/gcc/x86_64-linux-gnu/11 -L/usr/lib/gcc/x86_64-linux-gnu/11/../../../x86_64-linux-gnu -L/usr/lib/gcc/x86_64-linux-gnu/11/../../../../lib -L/lib/x86_64-linux-gnu -L/lib/../lib -L/usr/lib/x86_64-linux-gnu -L/usr/lib/../lib -L/usr/lib/gcc/x86_64-linux-gnu/11/../../.. -lstdc++ -lm -lc -lgcc_s /usr/lib/gcc/x86_64-linux-gnu/11/crtendS.o /usr/lib/gcc/x86_64-linux-gnu/11/../../../x86_64-linux-gnu/crtn.o -g -O -Wl,-soname -Wl,libcoot-map-heavy.so.0 -o .libs/libcoot-map-heavy.so.0.0.0 libtool: link: (cd ".libs" && rm -f "libcoot-map-heavy.so.0" && ln -s "libcoot-map-heavy.so.0.0.0" "libcoot-map-heavy.so.0") libtool: link: (cd ".libs" && rm -f "libcoot-map-heavy.so" && ln -s "libcoot-map-heavy.so.0.0.0" "libcoot-map-heavy.so") libtool: link: ( cd ".libs" && rm -f "libcoot-map-heavy.la" && ln -s "../libcoot-map-heavy.la" "libcoot-map-heavy.la" ) /bin/bash ../libtool --tag=CXX --mode=link g++ -DHAVE_GSL -DPKGDATADIR='"/opt/user_software/coot/bin-gtk4/share/coot"' -g -O -Wall -Wno-unused -std=c++17 -o test-coot-utils test-coot-utils.o ./libcoot-map-heavy.la ./libcoot-map-utils.la ./libcoot-coord-extras.la ./libcoot-coord-utils.la ../geometry/libcoot-geometry.la ../utils/libcoot-utils.la -L/opt/user_software/coot/bin-gtk4/lib -lclipper-ccp4 -lclipper-cif -lclipper-minimol -lclipper-mmdb -lclipper-cns -lclipper-phs -lclipper-contrib -lclipper-core -lccp4c -lmmdb2 -lpthread libtool: link: g++ -DHAVE_GSL -DPKGDATADIR=\"/opt/user_software/coot/bin-gtk4/share/coot\" -g -O -Wall -Wno-unused -std=c++17 -o .libs/test-coot-utils test-coot-utils.o ./.libs/libcoot-map-heavy.so -L/opt/user_software/coot/bin-gtk4/lib -L=/opt/user_software/coot/bin-gtk4/lib:-L/opt/user_software/coot/bin-gtk4/lib: /opt/user_software/coot/src/build-coot/coot-utils/.libs/libcoot-map-utils.so ./.libs/libcoot-map-utils.so -lz ./.libs/libcoot-coord-extras.so /opt/user_software/coot/src/build-coot/coot-utils/.libs/libcoot-coord-utils.so ./.libs/libcoot-coord-utils.so /opt/user_software/coot/src/build-coot/lidia-core/.libs/libcoot-lidia-core.so /opt/user_software/coot/src/build-coot/protein_db/.libs/libcoot-protein-db.so /opt/user_software/coot/src/build-coot/geometry/.libs/libcoot-geometry.so /opt/user_software/coot/bin-gtk4/lib/libgsl.so /opt/user_software/coot/bin-gtk4/lib/libgslcblas.so -lRDKitMolDraw2D -lRDKitForceFieldHelpers -lRDKitDescriptors -lRDKitForceField -lRDKitSubstructMatch -lRDKitOptimizer -lRDKitDistGeomHelpers -lRDKitDistGeometry -lRDKitChemReactions -lRDKitAlignment -lRDKitEigenSolvers -lRDKitDepictor -lRDKitcoordgen -lRDKitMolChemicalFeatures -lRDKitFileParsers -lRDKitRDGeometryLib -lRDKitGraphMol -lRDKitShapeHelpers -lRDKitFingerprints -lRDKitMolAlign -lRDKitMolTransforms -lRDKitChemTransforms -lRDKitSmilesParse -lRDKitGenericGroups -lRDKitRingDecomposerLib -lRDKitFilterCatalog -lRDKitCatalogs -lRDKitSubgraphs -lRDKitPartialCharges -lRDKitRDGeneral -lRDKitDataStructs -lboost_serialization -lboost_iostreams ../geometry/.libs/libcoot-geometry.so /opt/user_software/coot/src/build-coot/mini-mol/.libs/libcoot-mini-mol.so /opt/user_software/coot/src/build-coot/utils/.libs/libcoot-utils.so /opt/user_software/coot/src/build-coot/compat/.libs/libcoot-compat.so ../utils/.libs/libcoot-utils.so /opt/user_software/coot/bin-gtk4/lib/libclipper-ccp4.so /opt/user_software/coot/bin-gtk4/lib/libclipper-cif.so /opt/user_software/coot/bin-gtk4/lib/libclipper-minimol.so /opt/user_software/coot/bin-gtk4/lib/libclipper-mmdb.so /opt/user_software/coot/bin-gtk4/lib/libclipper-cns.so /opt/user_software/coot/bin-gtk4/lib/libclipper-phs.so /opt/user_software/coot/bin-gtk4/lib/libclipper-contrib.so /opt/user_software/coot/bin-gtk4/lib/libclipper-core.so /opt/user_software/coot/bin-gtk4/lib/librfftw.so /opt/user_software/coot/bin-gtk4/lib/libfftw.so -lm /opt/user_software/coot/bin-gtk4/lib/libccp4c.so /opt/user_software/coot/bin-gtk4/lib/libmmdb2.so -lpthread -Wl,-rpath -Wl,/opt/user_software/coot/bin-gtk4/lib make[1]: Leaving directory '/opt/user_software/coot/src/build-coot/coot-utils' Making all in angles make[1]: Entering directory '/opt/user_software/coot/src/build-coot/angles' /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" -DPACKAGE_STRING=\"coot\ 1.x-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I../../coot/angles -I/opt/user_software/coot/bin-gtk4/include -DCLIPPER_HAS_TOP8000 -I/opt/user_software/coot/bin-gtk4/include -g -O1 -g -O -Wall -Wno-unused -std=c++17 -MT libcoot_AngleInfo_la-AngleInfo.lo -MD -MP -MF .deps/libcoot_AngleInfo_la-AngleInfo.Tpo -c -o libcoot_AngleInfo_la-AngleInfo.lo `test -f 'AngleInfo.cc' || echo '../../coot/angles/'`AngleInfo.cc /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" -DPACKAGE_STRING=\"coot\ 1.x-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I../../coot/angles -I/opt/user_software/coot/bin-gtk4/include -DCLIPPER_HAS_TOP8000 -I/opt/user_software/coot/bin-gtk4/include -g -O1 -g -O -Wall -Wno-unused -std=c++17 -MT libcoot_AngleInfo_la-AngleInfo-angle-torsions-autogen.lo -MD -MP -MF .deps/libcoot_AngleInfo_la-AngleInfo-angle-torsions-autogen.Tpo -c -o libcoot_AngleInfo_la-AngleInfo-angle-torsions-autogen.lo `test -f 'AngleInfo-angle-torsions-autogen.cc' || echo '../../coot/angles/'`AngleInfo-angle-torsions-autogen.cc /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" -DPACKAGE_STRING=\"coot\ 1.x-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I../../coot/angles -I/opt/user_software/coot/bin-gtk4/include -DCLIPPER_HAS_TOP8000 -I/opt/user_software/coot/bin-gtk4/include -g -O1 -g -O -Wall -Wno-unused -std=c++17 -MT libcoot_AngleInfo_la-AngleInfo-theta_2-autogen.lo -MD -MP -MF .deps/libcoot_AngleInfo_la-AngleInfo-theta_2-autogen.Tpo -c -o libcoot_AngleInfo_la-AngleInfo-theta_2-autogen.lo `test -f 'AngleInfo-theta_2-autogen.cc' || echo '../../coot/angles/'`AngleInfo-theta_2-autogen.cc libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" "-DPACKAGE_STRING=\"coot 1.x-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I../../coot/angles -I/opt/user_software/coot/bin-gtk4/include -DCLIPPER_HAS_TOP8000 -I/opt/user_software/coot/bin-gtk4/include -g -O1 -g -O -Wall -Wno-unused -std=c++17 -MT libcoot_AngleInfo_la-AngleInfo.lo -MD -MP -MF .deps/libcoot_AngleInfo_la-AngleInfo.Tpo -c ../../coot/angles/AngleInfo.cc -fPIC -DPIC -o .libs/libcoot_AngleInfo_la-AngleInfo.o libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" "-DPACKAGE_STRING=\"coot 1.x-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I../../coot/angles -I/opt/user_software/coot/bin-gtk4/include -DCLIPPER_HAS_TOP8000 -I/opt/user_software/coot/bin-gtk4/include -g -O1 -g -O -Wall -Wno-unused -std=c++17 -MT libcoot_AngleInfo_la-AngleInfo-angle-torsions-autogen.lo -MD -MP -MF .deps/libcoot_AngleInfo_la-AngleInfo-angle-torsions-autogen.Tpo -c ../../coot/angles/AngleInfo-angle-torsions-autogen.cc -fPIC -DPIC -o .libs/libcoot_AngleInfo_la-AngleInfo-angle-torsions-autogen.o libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" "-DPACKAGE_STRING=\"coot 1.x-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I../../coot/angles -I/opt/user_software/coot/bin-gtk4/include -DCLIPPER_HAS_TOP8000 -I/opt/user_software/coot/bin-gtk4/include -g -O1 -g -O -Wall -Wno-unused -std=c++17 -MT libcoot_AngleInfo_la-AngleInfo-theta_2-autogen.lo -MD -MP -MF .deps/libcoot_AngleInfo_la-AngleInfo-theta_2-autogen.Tpo -c ../../coot/angles/AngleInfo-theta_2-autogen.cc -fPIC -DPIC -o .libs/libcoot_AngleInfo_la-AngleInfo-theta_2-autogen.o mv -f .deps/libcoot_AngleInfo_la-AngleInfo-theta_2-autogen.Tpo .deps/libcoot_AngleInfo_la-AngleInfo-theta_2-autogen.Plo mv -f .deps/libcoot_AngleInfo_la-AngleInfo.Tpo .deps/libcoot_AngleInfo_la-AngleInfo.Plo mv -f .deps/libcoot_AngleInfo_la-AngleInfo-angle-torsions-autogen.Tpo .deps/libcoot_AngleInfo_la-AngleInfo-angle-torsions-autogen.Plo /bin/bash ../libtool --tag=CXX --mode=link g++ -g -O1 -g -O -Wall -Wno-unused -std=c++17 -o libcoot-AngleInfo.la -rpath /opt/user_software/coot/bin-gtk4/lib libcoot_AngleInfo_la-AngleInfo.lo libcoot_AngleInfo_la-AngleInfo-angle-torsions-autogen.lo libcoot_AngleInfo_la-AngleInfo-theta_2-autogen.lo libtool: link: g++ -fPIC -DPIC -shared -nostdlib /usr/lib/gcc/x86_64-linux-gnu/11/../../../x86_64-linux-gnu/crti.o /usr/lib/gcc/x86_64-linux-gnu/11/crtbeginS.o .libs/libcoot_AngleInfo_la-AngleInfo.o .libs/libcoot_AngleInfo_la-AngleInfo-angle-torsions-autogen.o .libs/libcoot_AngleInfo_la-AngleInfo-theta_2-autogen.o -L/usr/lib/gcc/x86_64-linux-gnu/11 -L/usr/lib/gcc/x86_64-linux-gnu/11/../../../x86_64-linux-gnu -L/usr/lib/gcc/x86_64-linux-gnu/11/../../../../lib -L/lib/x86_64-linux-gnu -L/lib/../lib -L/usr/lib/x86_64-linux-gnu -L/usr/lib/../lib -L/usr/lib/gcc/x86_64-linux-gnu/11/../../.. -lstdc++ -lm -lc -lgcc_s /usr/lib/gcc/x86_64-linux-gnu/11/crtendS.o /usr/lib/gcc/x86_64-linux-gnu/11/../../../x86_64-linux-gnu/crtn.o -g -O1 -g -O -Wl,-soname -Wl,libcoot-AngleInfo.so.0 -o .libs/libcoot-AngleInfo.so.0.0.0 libtool: link: (cd ".libs" && rm -f "libcoot-AngleInfo.so.0" && ln -s "libcoot-AngleInfo.so.0.0.0" "libcoot-AngleInfo.so.0") libtool: link: (cd ".libs" && rm -f "libcoot-AngleInfo.so" && ln -s "libcoot-AngleInfo.so.0.0.0" "libcoot-AngleInfo.so") libtool: link: ( cd ".libs" && rm -f "libcoot-AngleInfo.la" && ln -s "../libcoot-AngleInfo.la" "libcoot-AngleInfo.la" ) make[1]: Leaving directory '/opt/user_software/coot/src/build-coot/angles' Making all in ccp4mg-utils make[1]: Entering directory '/opt/user_software/coot/src/build-coot/ccp4mg-utils' /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" -DPACKAGE_STRING=\"coot\ 1.x-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I../../coot/ccp4mg-utils -I/opt/user_software/coot/bin-gtk4/include -DMMDB_HAS_LINK_DISTANCE -DUSE_LIBPNG=1 -I/usr/include/libpng16 -I/opt/user_software/coot/bin-gtk4/include -g -O -Wall -Wno-unused -std=c++17 -MT geomutil.lo -MD -MP -MF .deps/geomutil.Tpo -c -o geomutil.lo ../../coot/ccp4mg-utils/geomutil.cc /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" -DPACKAGE_STRING=\"coot\ 1.x-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I../../coot/ccp4mg-utils -I/opt/user_software/coot/bin-gtk4/include -DMMDB_HAS_LINK_DISTANCE -DUSE_LIBPNG=1 -I/usr/include/libpng16 -I/opt/user_software/coot/bin-gtk4/include -g -O -Wall -Wno-unused -std=c++17 -MT mgtree.lo -MD -MP -MF .deps/mgtree.Tpo -c -o mgtree.lo ../../coot/ccp4mg-utils/mgtree.cc /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" -DPACKAGE_STRING=\"coot\ 1.x-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I../../coot/ccp4mg-utils -I/opt/user_software/coot/bin-gtk4/include -DMMDB_HAS_LINK_DISTANCE -DUSE_LIBPNG=1 -I/usr/include/libpng16 -I/opt/user_software/coot/bin-gtk4/include -g -O -Wall -Wno-unused -std=c++17 -MT cartesian.lo -MD -MP -MF .deps/cartesian.Tpo -c -o cartesian.lo ../../coot/ccp4mg-utils/cartesian.cc /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" -DPACKAGE_STRING=\"coot\ 1.x-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I../../coot/ccp4mg-utils -I/opt/user_software/coot/bin-gtk4/include -DMMDB_HAS_LINK_DISTANCE -DUSE_LIBPNG=1 -I/usr/include/libpng16 -I/opt/user_software/coot/bin-gtk4/include -g -O -Wall -Wno-unused -std=c++17 -MT matrix.lo -MD -MP -MF .deps/matrix.Tpo -c -o matrix.lo ../../coot/ccp4mg-utils/matrix.cc /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" -DPACKAGE_STRING=\"coot\ 1.x-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I../../coot/ccp4mg-utils -I/opt/user_software/coot/bin-gtk4/include -DMMDB_HAS_LINK_DISTANCE -DUSE_LIBPNG=1 -I/usr/include/libpng16 -I/opt/user_software/coot/bin-gtk4/include -g -O -Wall -Wno-unused -std=c++17 -MT quat.lo -MD -MP -MF .deps/quat.Tpo -c -o quat.lo ../../coot/ccp4mg-utils/quat.cc /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" -DPACKAGE_STRING=\"coot\ 1.x-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I../../coot/ccp4mg-utils -I/opt/user_software/coot/bin-gtk4/include -DMMDB_HAS_LINK_DISTANCE -DUSE_LIBPNG=1 -I/usr/include/libpng16 -I/opt/user_software/coot/bin-gtk4/include -g -O -Wall -Wno-unused -std=c++17 -MT ppmutil.lo -MD -MP -MF .deps/ppmutil.Tpo -c -o ppmutil.lo ../../coot/ccp4mg-utils/ppmutil.cc libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" "-DPACKAGE_STRING=\"coot 1.x-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I../../coot/ccp4mg-utils -I/opt/user_software/coot/bin-gtk4/include -DMMDB_HAS_LINK_DISTANCE -DUSE_LIBPNG=1 -I/usr/include/libpng16 -I/opt/user_software/coot/bin-gtk4/include -g -O 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.deps/matrix.Tpo -c ../../coot/ccp4mg-utils/matrix.cc -fPIC -DPIC -o .libs/matrix.o libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" "-DPACKAGE_STRING=\"coot 1.x-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I../../coot/ccp4mg-utils -I/opt/user_software/coot/bin-gtk4/include -DMMDB_HAS_LINK_DISTANCE -DUSE_LIBPNG=1 -I/usr/include/libpng16 -I/opt/user_software/coot/bin-gtk4/include -g -O -Wall -Wno-unused -std=c++17 -MT geomutil.lo -MD -MP -MF .deps/geomutil.Tpo -c ../../coot/ccp4mg-utils/geomutil.cc -fPIC -DPIC -o .libs/geomutil.o libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" "-DPACKAGE_STRING=\"coot 1.x-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I../../coot/ccp4mg-utils -I/opt/user_software/coot/bin-gtk4/include -DMMDB_HAS_LINK_DISTANCE -DUSE_LIBPNG=1 -I/usr/include/libpng16 -I/opt/user_software/coot/bin-gtk4/include -g -O -Wall -Wno-unused -std=c++17 -MT mgtree.lo -MD -MP -MF .deps/mgtree.Tpo -c ../../coot/ccp4mg-utils/mgtree.cc -fPIC -DPIC -o .libs/mgtree.o libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" "-DPACKAGE_STRING=\"coot 1.x-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I../../coot/ccp4mg-utils -I/opt/user_software/coot/bin-gtk4/include -DMMDB_HAS_LINK_DISTANCE -DUSE_LIBPNG=1 -I/usr/include/libpng16 -I/opt/user_software/coot/bin-gtk4/include -g -O -Wall -Wno-unused -std=c++17 -MT ppmutil.lo -MD -MP -MF .deps/ppmutil.Tpo -c ../../coot/ccp4mg-utils/ppmutil.cc -fPIC -DPIC -o .libs/ppmutil.o libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" "-DPACKAGE_STRING=\"coot 1.x-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I../../coot/ccp4mg-utils -I/opt/user_software/coot/bin-gtk4/include -DMMDB_HAS_LINK_DISTANCE -DUSE_LIBPNG=1 -I/usr/include/libpng16 -I/opt/user_software/coot/bin-gtk4/include -g -O -Wall -Wno-unused -std=c++17 -MT quat.lo -MD -MP -MF .deps/quat.Tpo -c ../../coot/ccp4mg-utils/quat.cc -fPIC -DPIC -o .libs/quat.o mv -f .deps/quat.Tpo .deps/quat.Plo mv -f .deps/geomutil.Tpo .deps/geomutil.Plo mv -f .deps/cartesian.Tpo .deps/cartesian.Plo mv -f .deps/matrix.Tpo .deps/matrix.Plo mv -f .deps/ppmutil.Tpo .deps/ppmutil.Plo mv -f .deps/mgtree.Tpo .deps/mgtree.Plo /bin/bash ../libtool --tag=CXX --mode=link g++ -g -O -Wall -Wno-unused -std=c++17 -o libccp4mg-utils.la -rpath /opt/user_software/coot/bin-gtk4/lib geomutil.lo mgtree.lo cartesian.lo matrix.lo quat.lo ppmutil.lo -lpng16 -lz libtool: link: g++ -fPIC -DPIC -shared -nostdlib /usr/lib/gcc/x86_64-linux-gnu/11/../../../x86_64-linux-gnu/crti.o /usr/lib/gcc/x86_64-linux-gnu/11/crtbeginS.o .libs/geomutil.o .libs/mgtree.o .libs/cartesian.o .libs/matrix.o .libs/quat.o .libs/ppmutil.o -lpng16 -lz -L/usr/lib/gcc/x86_64-linux-gnu/11 -L/usr/lib/gcc/x86_64-linux-gnu/11/../../../x86_64-linux-gnu -L/usr/lib/gcc/x86_64-linux-gnu/11/../../../../lib -L/lib/x86_64-linux-gnu -L/lib/../lib -L/usr/lib/x86_64-linux-gnu -L/usr/lib/../lib -L/usr/lib/gcc/x86_64-linux-gnu/11/../../.. -lstdc++ -lm -lc -lgcc_s /usr/lib/gcc/x86_64-linux-gnu/11/crtendS.o /usr/lib/gcc/x86_64-linux-gnu/11/../../../x86_64-linux-gnu/crtn.o -g -O -Wl,-soname -Wl,libccp4mg-utils.so.0 -o .libs/libccp4mg-utils.so.0.0.0 libtool: link: (cd ".libs" && rm -f "libccp4mg-utils.so.0" && ln -s "libccp4mg-utils.so.0.0.0" "libccp4mg-utils.so.0") libtool: link: (cd ".libs" && rm -f "libccp4mg-utils.so" && ln -s "libccp4mg-utils.so.0.0.0" "libccp4mg-utils.so") libtool: link: ( cd ".libs" && rm -f "libccp4mg-utils.la" && ln -s "../libccp4mg-utils.la" "libccp4mg-utils.la" ) make[1]: Leaving directory '/opt/user_software/coot/src/build-coot/ccp4mg-utils' Making all in db-main make[1]: Entering directory '/opt/user_software/coot/src/build-coot/db-main' /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" -DPACKAGE_STRING=\"coot\ 1.x-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I../../coot/db-main -I../../coot -I/opt/user_software/coot/bin-gtk4/include -DMMDB_HAS_LINK_DISTANCE -I/opt/user_software/coot/bin-gtk4/include -DCLIPPER_HAS_TOP8000 -I/opt/user_software/coot/bin-gtk4/include -DPKGDATADIR='"/opt/user_software/coot/bin-gtk4/share/coot"' -DXDATADIR='"/opt/user_software/coot/bin-gtk4/share"' -g -O -Wall -Wno-unused -std=c++17 -MT db-main.lo -MD -MP -MF .deps/db-main.Tpo -c -o db-main.lo ../../coot/db-main/db-main.cc /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" -DPACKAGE_STRING=\"coot\ 1.x-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I../../coot/db-main -I../../coot -I/opt/user_software/coot/bin-gtk4/include -DMMDB_HAS_LINK_DISTANCE -I/opt/user_software/coot/bin-gtk4/include -DCLIPPER_HAS_TOP8000 -I/opt/user_software/coot/bin-gtk4/include -DPKGDATADIR='"/opt/user_software/coot/bin-gtk4/share/coot"' -DXDATADIR='"/opt/user_software/coot/bin-gtk4/share"' -g -O -Wall -Wno-unused -std=c++17 -MT db-strands.lo -MD -MP -MF .deps/db-strands.Tpo -c -o db-strands.lo ../../coot/db-main/db-strands.cc libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" "-DPACKAGE_STRING=\"coot 1.x-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I../../coot/db-main -I../../coot -I/opt/user_software/coot/bin-gtk4/include -DMMDB_HAS_LINK_DISTANCE -I/opt/user_software/coot/bin-gtk4/include -DCLIPPER_HAS_TOP8000 -I/opt/user_software/coot/bin-gtk4/include -DPKGDATADIR=\"/opt/user_software/coot/bin-gtk4/share/coot\" -DXDATADIR=\"/opt/user_software/coot/bin-gtk4/share\" -g -O -Wall -Wno-unused -std=c++17 -MT db-strands.lo -MD -MP -MF .deps/db-strands.Tpo -c ../../coot/db-main/db-strands.cc -fPIC -DPIC -o .libs/db-strands.o libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" "-DPACKAGE_STRING=\"coot 1.x-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I../../coot/db-main -I../../coot -I/opt/user_software/coot/bin-gtk4/include -DMMDB_HAS_LINK_DISTANCE -I/opt/user_software/coot/bin-gtk4/include -DCLIPPER_HAS_TOP8000 -I/opt/user_software/coot/bin-gtk4/include -DPKGDATADIR=\"/opt/user_software/coot/bin-gtk4/share/coot\" -DXDATADIR=\"/opt/user_software/coot/bin-gtk4/share\" -g -O -Wall -Wno-unused -std=c++17 -MT db-main.lo -MD -MP -MF .deps/db-main.Tpo -c ../../coot/db-main/db-main.cc -fPIC -DPIC -o .libs/db-main.o mv -f .deps/db-strands.Tpo .deps/db-strands.Plo mv -f .deps/db-main.Tpo .deps/db-main.Plo /bin/bash ../libtool --tag=CXX --mode=link g++ -DPKGDATADIR='"/opt/user_software/coot/bin-gtk4/share/coot"' -DXDATADIR='"/opt/user_software/coot/bin-gtk4/share"' -g -O -Wall -Wno-unused -std=c++17 -o libcoot-db-main.la -rpath /opt/user_software/coot/bin-gtk4/lib db-main.lo db-strands.lo ../mini-mol/libcoot-mini-mol.la ../lidia-core/libcoot-lidia-core.la ../coot-utils/libcoot-coord-utils.la ../geometry/libcoot-geometry.la ../utils/libcoot-utils.la -L/opt/user_software/coot/bin-gtk4/lib -lclipper-ccp4 -lclipper-cif -lclipper-minimol -lclipper-mmdb -lclipper-cns -lclipper-phs -lclipper-contrib -lclipper-core -lccp4c -lmmdb2 -L/opt/user_software/coot/bin-gtk4/lib -lmmdb2 libtool: link: g++ -fPIC -DPIC -shared -nostdlib /usr/lib/gcc/x86_64-linux-gnu/11/../../../x86_64-linux-gnu/crti.o /usr/lib/gcc/x86_64-linux-gnu/11/crtbeginS.o .libs/db-main.o .libs/db-strands.o -Wl,-rpath -Wl,/opt/user_software/coot/src/build-coot/mini-mol/.libs -Wl,-rpath -Wl,/opt/user_software/coot/src/build-coot/lidia-core/.libs -Wl,-rpath -Wl,/opt/user_software/coot/src/build-coot/coot-utils/.libs -Wl,-rpath -Wl,/opt/user_software/coot/src/build-coot/protein_db/.libs -Wl,-rpath -Wl,/opt/user_software/coot/src/build-coot/geometry/.libs -Wl,-rpath -Wl,/opt/user_software/coot/bin-gtk4/lib -Wl,-rpath -Wl,/opt/user_software/coot/src/build-coot/utils/.libs -Wl,-rpath -Wl,/opt/user_software/coot/src/build-coot/compat/.libs -Wl,-rpath -Wl,/opt/user_software/coot/bin-gtk4/lib -L/opt/user_software/coot/src/build-coot/mini-mol/.libs -L/opt/user_software/coot/src/build-coot/lidia-core/.libs -L/opt/user_software/coot/src/build-coot/protein_db/.libs -L/opt/user_software/coot/src/build-coot/geometry/.libs -L/opt/user_software/coot/src/build-coot/utils/.libs -L/opt/user_software/coot/src/build-coot/compat/.libs ../mini-mol/.libs/libcoot-mini-mol.so -L/opt/user_software/coot/bin-gtk4/lib -L=/opt/user_software/coot/bin-gtk4/lib:-L/opt/user_software/coot/bin-gtk4/lib: ../lidia-core/.libs/libcoot-lidia-core.so ../coot-utils/.libs/libcoot-coord-utils.so /opt/user_software/coot/src/build-coot/lidia-core/.libs/libcoot-lidia-core.so /opt/user_software/coot/src/build-coot/protein_db/.libs/libcoot-protein-db.so /opt/user_software/coot/src/build-coot/geometry/.libs/libcoot-geometry.so /opt/user_software/coot/bin-gtk4/lib/libgsl.so /opt/user_software/coot/bin-gtk4/lib/libgslcblas.so -lRDKitMolDraw2D -lRDKitForceFieldHelpers -lRDKitDescriptors -lRDKitForceField -lRDKitSubstructMatch -lRDKitOptimizer -lRDKitDistGeomHelpers -lRDKitDistGeometry -lRDKitChemReactions -lRDKitAlignment -lRDKitEigenSolvers -lRDKitDepictor -lRDKitcoordgen -lRDKitMolChemicalFeatures -lRDKitFileParsers -lRDKitRDGeometryLib -lRDKitGraphMol -lRDKitShapeHelpers -lRDKitFingerprints -lRDKitMolAlign -lRDKitMolTransforms -lRDKitChemTransforms -lRDKitSmilesParse -lRDKitGenericGroups -lRDKitRingDecomposerLib -lRDKitFilterCatalog -lRDKitCatalogs -lRDKitSubgraphs -lRDKitPartialCharges -lRDKitRDGeneral -lRDKitDataStructs -lboost_serialization -lboost_iostreams ../geometry/.libs/libcoot-geometry.so /opt/user_software/coot/src/build-coot/mini-mol/.libs/libcoot-mini-mol.so /opt/user_software/coot/src/build-coot/utils/.libs/libcoot-utils.so /opt/user_software/coot/src/build-coot/compat/.libs/libcoot-compat.so ../utils/.libs/libcoot-utils.so /opt/user_software/coot/bin-gtk4/lib/libclipper-ccp4.so /opt/user_software/coot/bin-gtk4/lib/libclipper-cif.so /opt/user_software/coot/bin-gtk4/lib/libclipper-minimol.so /opt/user_software/coot/bin-gtk4/lib/libclipper-mmdb.so /opt/user_software/coot/bin-gtk4/lib/libclipper-cns.so /opt/user_software/coot/bin-gtk4/lib/libclipper-phs.so /opt/user_software/coot/bin-gtk4/lib/libclipper-contrib.so /opt/user_software/coot/bin-gtk4/lib/libclipper-core.so /opt/user_software/coot/bin-gtk4/lib/librfftw.so /opt/user_software/coot/bin-gtk4/lib/libfftw.so -lpthread /opt/user_software/coot/bin-gtk4/lib/libccp4c.so /opt/user_software/coot/bin-gtk4/lib/libmmdb2.so -L/usr/lib/gcc/x86_64-linux-gnu/11 -L/usr/lib/gcc/x86_64-linux-gnu/11/../../../x86_64-linux-gnu -L/usr/lib/gcc/x86_64-linux-gnu/11/../../../../lib -L/lib/x86_64-linux-gnu -L/lib/../lib -L/usr/lib/x86_64-linux-gnu -L/usr/lib/../lib -L/usr/lib/gcc/x86_64-linux-gnu/11/../../.. -lstdc++ -lm -lc -lgcc_s /usr/lib/gcc/x86_64-linux-gnu/11/crtendS.o /usr/lib/gcc/x86_64-linux-gnu/11/../../../x86_64-linux-gnu/crtn.o -g -O -Wl,-soname -Wl,libcoot-db-main.so.0 -o .libs/libcoot-db-main.so.0.0.0 libtool: link: (cd ".libs" && rm -f "libcoot-db-main.so.0" && ln -s "libcoot-db-main.so.0.0.0" "libcoot-db-main.so.0") libtool: link: (cd ".libs" && rm -f "libcoot-db-main.so" && ln -s "libcoot-db-main.so.0.0.0" "libcoot-db-main.so") libtool: link: ( cd ".libs" && rm -f "libcoot-db-main.la" && ln -s "../libcoot-db-main.la" "libcoot-db-main.la" ) make[1]: Leaving directory '/opt/user_software/coot/src/build-coot/db-main' Making all in analysis make[1]: Entering directory '/opt/user_software/coot/src/build-coot/analysis' g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" -DPACKAGE_STRING=\"coot\ 1.x-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I../../coot/analysis -I../../coot -I/opt/user_software/coot/bin-gtk4/include -DCLIPPER_HAS_TOP8000 -DHAVE_GSL -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DMMDB_HAS_LINK_DISTANCE -I/opt/user_software/coot/bin-gtk4/include -g -O -Wall -Wno-unused -std=c++17 -MT bfactan.o -MD -MP -MF .deps/bfactan.Tpo -c -o bfactan.o ../../coot/analysis/bfactan.cc /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" -DPACKAGE_STRING=\"coot\ 1.x-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I../../coot/analysis -I../../coot -I/opt/user_software/coot/bin-gtk4/include -DCLIPPER_HAS_TOP8000 -DHAVE_GSL -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DMMDB_HAS_LINK_DISTANCE -I/opt/user_software/coot/bin-gtk4/include -g -O -Wall -Wno-unused -std=c++17 -MT bfkurt.lo -MD -MP -MF .deps/bfkurt.Tpo -c -o bfkurt.lo ../../coot/analysis/bfkurt.cc /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" -DPACKAGE_STRING=\"coot\ 1.x-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I../../coot/analysis -I../../coot -I/opt/user_software/coot/bin-gtk4/include -DCLIPPER_HAS_TOP8000 -DHAVE_GSL -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DMMDB_HAS_LINK_DISTANCE -I/opt/user_software/coot/bin-gtk4/include -g -O -Wall -Wno-unused -std=c++17 -MT mogul.lo -MD -MP -MF .deps/mogul.Tpo -c -o mogul.lo ../../coot/analysis/mogul.cc /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" -DPACKAGE_STRING=\"coot\ 1.x-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I../../coot/analysis -I../../coot -I/opt/user_software/coot/bin-gtk4/include -DCLIPPER_HAS_TOP8000 -DHAVE_GSL -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DMMDB_HAS_LINK_DISTANCE -I/opt/user_software/coot/bin-gtk4/include -g -O -Wall -Wno-unused -std=c++17 -MT kolmogorov.lo -MD -MP -MF .deps/kolmogorov.Tpo -c -o kolmogorov.lo ../../coot/analysis/kolmogorov.cc /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" -DPACKAGE_STRING=\"coot\ 1.x-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I../../coot/analysis -I../../coot -I/opt/user_software/coot/bin-gtk4/include -DCLIPPER_HAS_TOP8000 -DHAVE_GSL -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DMMDB_HAS_LINK_DISTANCE -I/opt/user_software/coot/bin-gtk4/include -g -O -Wall -Wno-unused -std=c++17 -MT stats.lo -MD -MP -MF .deps/stats.Tpo -c -o stats.lo ../../coot/analysis/stats.cc /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" -DPACKAGE_STRING=\"coot\ 1.x-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I../../coot/analysis -I../../coot -I/opt/user_software/coot/bin-gtk4/include -DCLIPPER_HAS_TOP8000 -DHAVE_GSL -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DMMDB_HAS_LINK_DISTANCE -I/opt/user_software/coot/bin-gtk4/include -g -O -Wall -Wno-unused -std=c++17 -MT cablam.lo -MD -MP -MF .deps/cablam.Tpo -c -o cablam.lo ../../coot/analysis/cablam.cc /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" -DPACKAGE_STRING=\"coot\ 1.x-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I../../coot/analysis -I../../coot -I/opt/user_software/coot/bin-gtk4/include -DCLIPPER_HAS_TOP8000 -DHAVE_GSL -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DMMDB_HAS_LINK_DISTANCE -I/opt/user_software/coot/bin-gtk4/include -g -O -Wall -Wno-unused -std=c++17 -MT typed-distances.lo -MD -MP -MF .deps/typed-distances.Tpo -c -o typed-distances.lo ../../coot/analysis/typed-distances.cc /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" -DPACKAGE_STRING=\"coot\ 1.x-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I../../coot/analysis -I../../coot -I/opt/user_software/coot/bin-gtk4/include -DCLIPPER_HAS_TOP8000 -DHAVE_GSL -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DMMDB_HAS_LINK_DISTANCE -I/opt/user_software/coot/bin-gtk4/include -g -O -Wall -Wno-unused -std=c++17 -MT b-factor-histogram.lo -MD -MP -MF .deps/b-factor-histogram.Tpo -c -o b-factor-histogram.lo ../../coot/analysis/b-factor-histogram.cc libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" "-DPACKAGE_STRING=\"coot 1.x-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I../../coot/analysis -I../../coot -I/opt/user_software/coot/bin-gtk4/include -DCLIPPER_HAS_TOP8000 -DHAVE_GSL -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DMMDB_HAS_LINK_DISTANCE -I/opt/user_software/coot/bin-gtk4/include -g -O -Wall -Wno-unused -std=c++17 -MT bfkurt.lo -MD -MP -MF .deps/bfkurt.Tpo -c ../../coot/analysis/bfkurt.cc -fPIC -DPIC -o .libs/bfkurt.o libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" "-DPACKAGE_STRING=\"coot 1.x-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I../../coot/analysis -I../../coot -I/opt/user_software/coot/bin-gtk4/include -DCLIPPER_HAS_TOP8000 -DHAVE_GSL -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DMMDB_HAS_LINK_DISTANCE -I/opt/user_software/coot/bin-gtk4/include -g -O -Wall -Wno-unused -std=c++17 -MT stats.lo -MD -MP -MF .deps/stats.Tpo -c ../../coot/analysis/stats.cc -fPIC -DPIC -o .libs/stats.o libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" "-DPACKAGE_STRING=\"coot 1.x-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I../../coot/analysis -I../../coot -I/opt/user_software/coot/bin-gtk4/include -DCLIPPER_HAS_TOP8000 -DHAVE_GSL -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DMMDB_HAS_LINK_DISTANCE -I/opt/user_software/coot/bin-gtk4/include -g -O -Wall -Wno-unused -std=c++17 -MT kolmogorov.lo -MD -MP -MF .deps/kolmogorov.Tpo -c ../../coot/analysis/kolmogorov.cc -fPIC -DPIC -o .libs/kolmogorov.o libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" "-DPACKAGE_STRING=\"coot 1.x-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I../../coot/analysis -I../../coot -I/opt/user_software/coot/bin-gtk4/include -DCLIPPER_HAS_TOP8000 -DHAVE_GSL -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DMMDB_HAS_LINK_DISTANCE -I/opt/user_software/coot/bin-gtk4/include -g -O -Wall -Wno-unused -std=c++17 -MT mogul.lo -MD -MP -MF .deps/mogul.Tpo -c ../../coot/analysis/mogul.cc -fPIC -DPIC -o .libs/mogul.o libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" "-DPACKAGE_STRING=\"coot 1.x-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 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-DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I../../coot/analysis -I../../coot -I/opt/user_software/coot/bin-gtk4/include -DCLIPPER_HAS_TOP8000 -DHAVE_GSL -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DMMDB_HAS_LINK_DISTANCE -I/opt/user_software/coot/bin-gtk4/include -g -O -Wall -Wno-unused -std=c++17 -MT cablam.lo -MD -MP -MF .deps/cablam.Tpo -c ../../coot/analysis/cablam.cc -fPIC -DPIC -o .libs/cablam.o libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" "-DPACKAGE_STRING=\"coot 1.x-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I../../coot/analysis -I../../coot -I/opt/user_software/coot/bin-gtk4/include -DCLIPPER_HAS_TOP8000 -DHAVE_GSL -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DMMDB_HAS_LINK_DISTANCE -I/opt/user_software/coot/bin-gtk4/include -g -O -Wall -Wno-unused -std=c++17 -MT typed-distances.lo -MD -MP -MF .deps/typed-distances.Tpo -c ../../coot/analysis/typed-distances.cc -fPIC -DPIC -o .libs/typed-distances.o mv -f .deps/bfactan.Tpo .deps/bfactan.Po /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" -DPACKAGE_STRING=\"coot\ 1.x-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I../../coot/analysis -I../../coot -I/opt/user_software/coot/bin-gtk4/include -DCLIPPER_HAS_TOP8000 -DHAVE_GSL -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DMMDB_HAS_LINK_DISTANCE -I/opt/user_software/coot/bin-gtk4/include -g -O -Wall -Wno-unused -std=c++17 -MT daca.lo -MD -MP -MF .deps/daca.Tpo -c -o daca.lo ../../coot/analysis/daca.cc libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" "-DPACKAGE_STRING=\"coot 1.x-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I../../coot/analysis -I../../coot -I/opt/user_software/coot/bin-gtk4/include -DCLIPPER_HAS_TOP8000 -DHAVE_GSL -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DMMDB_HAS_LINK_DISTANCE -I/opt/user_software/coot/bin-gtk4/include -g -O -Wall -Wno-unused -std=c++17 -MT daca.lo -MD -MP -MF .deps/daca.Tpo -c ../../coot/analysis/daca.cc -fPIC -DPIC -o .libs/daca.o mv -f .deps/stats.Tpo .deps/stats.Plo /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" -DPACKAGE_STRING=\"coot\ 1.x-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I../../coot/analysis -I../../coot -I/opt/user_software/coot/bin-gtk4/include -DCLIPPER_HAS_TOP8000 -DHAVE_GSL -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DMMDB_HAS_LINK_DISTANCE -I/opt/user_software/coot/bin-gtk4/include -g -O -Wall -Wno-unused -std=c++17 -MT rna-backbone.lo -MD -MP -MF .deps/rna-backbone.Tpo -c -o rna-backbone.lo ../../coot/analysis/rna-backbone.cc mv -f .deps/b-factor-histogram.Tpo .deps/b-factor-histogram.Plo mv -f .deps/kolmogorov.Tpo .deps/kolmogorov.Plo libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" "-DPACKAGE_STRING=\"coot 1.x-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I../../coot/analysis -I../../coot -I/opt/user_software/coot/bin-gtk4/include -DCLIPPER_HAS_TOP8000 -DHAVE_GSL -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DMMDB_HAS_LINK_DISTANCE -I/opt/user_software/coot/bin-gtk4/include -g -O -Wall -Wno-unused -std=c++17 -MT rna-backbone.lo -MD -MP -MF .deps/rna-backbone.Tpo -c ../../coot/analysis/rna-backbone.cc -fPIC -DPIC -o .libs/rna-backbone.o mv -f .deps/typed-distances.Tpo .deps/typed-distances.Plo mv -f .deps/bfkurt.Tpo .deps/bfkurt.Plo mv -f .deps/cablam.Tpo .deps/cablam.Plo mv -f .deps/mogul.Tpo .deps/mogul.Plo mv -f .deps/rna-backbone.Tpo .deps/rna-backbone.Plo mv -f .deps/daca.Tpo .deps/daca.Plo /bin/bash ../libtool --tag=CXX --mode=link g++ -g -O -Wall -Wno-unused -std=c++17 -o libcoot-analysis.la -rpath /opt/user_software/coot/bin-gtk4/lib bfkurt.lo mogul.lo kolmogorov.lo stats.lo cablam.lo typed-distances.lo b-factor-histogram.lo daca.lo rna-backbone.lo ../coot-utils/libcoot-map-utils.la ../coot-utils/libcoot-coord-utils.la ../lidia-core/libcoot-lidia-core.la ../geometry/libcoot-geometry.la ../mini-mol/libcoot-mini-mol.la ../utils/libcoot-utils.la -L/opt/user_software/coot/bin-gtk4/lib -lclipper-ccp4 -lclipper-cif -lclipper-minimol -lclipper-mmdb -lclipper-cns -lclipper-phs -lclipper-contrib -lclipper-core -lccp4c -lmmdb2 -L/opt/user_software/coot/bin-gtk4/lib -lmmdb2 -L/opt/user_software/coot/bin-gtk4/lib -lgsl -lgslcblas -lm -L/opt/user_software/coot/bin-gtk4/lib -lRDKitMolDraw2D -lRDKitForceFieldHelpers -lRDKitDescriptors -lRDKitForceField -lRDKitSubstructMatch -lRDKitOptimizer -lRDKitDistGeomHelpers -lRDKitDistGeometry -lRDKitChemReactions -lRDKitAlignment -lRDKitEigenSolvers -lRDKitDepictor -lRDKitcoordgen -lRDKitMolChemicalFeatures -lRDKitPartialCharges -lRDKitFileParsers -lRDKitRDGeometryLib -lRDKitGraphMol -lRDKitShapeHelpers -lRDKitFingerprints -lRDKitMolAlign -lRDKitMolTransforms -lRDKitChemTransforms -lRDKitSmilesParse -lRDKitGenericGroups -lRDKitRingDecomposerLib -lRDKitFilterCatalog -lRDKitCatalogs -lRDKitSubgraphs -lRDKitPartialCharges -lRDKitRDGeneral -lRDKitDataStructs -lboost_serialization -lboost_iostreams libtool: link: g++ -fPIC -DPIC -shared -nostdlib /usr/lib/gcc/x86_64-linux-gnu/11/../../../x86_64-linux-gnu/crti.o /usr/lib/gcc/x86_64-linux-gnu/11/crtbeginS.o .libs/bfkurt.o .libs/mogul.o .libs/kolmogorov.o .libs/stats.o .libs/cablam.o .libs/typed-distances.o .libs/b-factor-histogram.o .libs/daca.o .libs/rna-backbone.o -Wl,-rpath -Wl,/opt/user_software/coot/src/build-coot/coot-utils/.libs -Wl,-rpath -Wl,/opt/user_software/coot/src/build-coot/lidia-core/.libs -Wl,-rpath -Wl,/opt/user_software/coot/src/build-coot/protein_db/.libs -Wl,-rpath -Wl,/opt/user_software/coot/src/build-coot/geometry/.libs -Wl,-rpath -Wl,/opt/user_software/coot/src/build-coot/mini-mol/.libs -Wl,-rpath -Wl,/opt/user_software/coot/src/build-coot/compat/.libs -Wl,-rpath -Wl,/opt/user_software/coot/src/build-coot/utils/.libs -Wl,-rpath -Wl,/opt/user_software/coot/bin-gtk4/lib -Wl,-rpath -Wl,/opt/user_software/coot/bin-gtk4/lib -L/opt/user_software/coot/src/build-coot/coot-utils/.libs -L/opt/user_software/coot/src/build-coot/lidia-core/.libs -L/opt/user_software/coot/src/build-coot/protein_db/.libs -L/opt/user_software/coot/src/build-coot/geometry/.libs -L/opt/user_software/coot/src/build-coot/mini-mol/.libs -L/opt/user_software/coot/src/build-coot/compat/.libs -L/opt/user_software/coot/src/build-coot/utils/.libs ../coot-utils/.libs/libcoot-map-utils.so -L/opt/user_software/coot/bin-gtk4/lib -L=/opt/user_software/coot/bin-gtk4/lib:-L/opt/user_software/coot/bin-gtk4/lib: /opt/user_software/coot/src/build-coot/coot-utils/.libs/libcoot-coord-utils.so -lz ../coot-utils/.libs/libcoot-coord-utils.so /opt/user_software/coot/src/build-coot/lidia-core/.libs/libcoot-lidia-core.so /opt/user_software/coot/src/build-coot/protein_db/.libs/libcoot-protein-db.so ../lidia-core/.libs/libcoot-lidia-core.so /opt/user_software/coot/src/build-coot/geometry/.libs/libcoot-geometry.so ../geometry/.libs/libcoot-geometry.so /opt/user_software/coot/src/build-coot/mini-mol/.libs/libcoot-mini-mol.so /opt/user_software/coot/src/build-coot/compat/.libs/libcoot-compat.so ../mini-mol/.libs/libcoot-mini-mol.so /opt/user_software/coot/src/build-coot/utils/.libs/libcoot-utils.so ../utils/.libs/libcoot-utils.so /opt/user_software/coot/bin-gtk4/lib/libclipper-ccp4.so /opt/user_software/coot/bin-gtk4/lib/libclipper-cif.so /opt/user_software/coot/bin-gtk4/lib/libclipper-minimol.so /opt/user_software/coot/bin-gtk4/lib/libclipper-mmdb.so /opt/user_software/coot/bin-gtk4/lib/libclipper-cns.so /opt/user_software/coot/bin-gtk4/lib/libclipper-phs.so /opt/user_software/coot/bin-gtk4/lib/libclipper-contrib.so /opt/user_software/coot/bin-gtk4/lib/libclipper-core.so /opt/user_software/coot/bin-gtk4/lib/librfftw.so /opt/user_software/coot/bin-gtk4/lib/libfftw.so -lpthread /opt/user_software/coot/bin-gtk4/lib/libccp4c.so /opt/user_software/coot/bin-gtk4/lib/libmmdb2.so /opt/user_software/coot/bin-gtk4/lib/libgsl.so /opt/user_software/coot/bin-gtk4/lib/libgslcblas.so -lRDKitMolDraw2D -lRDKitForceFieldHelpers -lRDKitDescriptors -lRDKitForceField -lRDKitSubstructMatch -lRDKitOptimizer -lRDKitDistGeomHelpers -lRDKitDistGeometry -lRDKitChemReactions -lRDKitAlignment -lRDKitEigenSolvers -lRDKitDepictor -lRDKitcoordgen -lRDKitMolChemicalFeatures -lRDKitFileParsers -lRDKitRDGeometryLib -lRDKitGraphMol -lRDKitShapeHelpers -lRDKitFingerprints -lRDKitMolAlign -lRDKitMolTransforms -lRDKitChemTransforms -lRDKitSmilesParse -lRDKitGenericGroups -lRDKitRingDecomposerLib -lRDKitFilterCatalog -lRDKitCatalogs -lRDKitSubgraphs -lRDKitPartialCharges -lRDKitRDGeneral -lRDKitDataStructs -lboost_serialization -lboost_iostreams -L/usr/lib/gcc/x86_64-linux-gnu/11 -L/usr/lib/gcc/x86_64-linux-gnu/11/../../../x86_64-linux-gnu -L/usr/lib/gcc/x86_64-linux-gnu/11/../../../../lib -L/lib/x86_64-linux-gnu -L/lib/../lib -L/usr/lib/x86_64-linux-gnu -L/usr/lib/../lib -L/usr/lib/gcc/x86_64-linux-gnu/11/../../.. -lstdc++ -lm -lc -lgcc_s /usr/lib/gcc/x86_64-linux-gnu/11/crtendS.o /usr/lib/gcc/x86_64-linux-gnu/11/../../../x86_64-linux-gnu/crtn.o -g -O -Wl,-soname -Wl,libcoot-analysis.so.0 -o .libs/libcoot-analysis.so.0.0.0 libtool: link: (cd ".libs" && rm -f "libcoot-analysis.so.0" && ln -s "libcoot-analysis.so.0.0.0" "libcoot-analysis.so.0") libtool: link: (cd ".libs" && rm -f "libcoot-analysis.so" && ln -s "libcoot-analysis.so.0.0.0" "libcoot-analysis.so") libtool: link: ( cd ".libs" && rm -f "libcoot-analysis.la" && ln -s "../libcoot-analysis.la" "libcoot-analysis.la" ) /bin/bash ../libtool --tag=CXX --mode=link g++ -g -O -Wall -Wno-unused -std=c++17 -o coot-bfactan bfactan.o libcoot-analysis.la ../coot-utils/libcoot-coord-utils.la ../lidia-core/libcoot-lidia-core.la ../geometry/libcoot-geometry.la ../mini-mol/libcoot-mini-mol.la ../utils/libcoot-utils.la -L/opt/user_software/coot/bin-gtk4/lib -lclipper-ccp4 -lclipper-cif -lclipper-minimol -lclipper-mmdb -lclipper-cns -lclipper-phs -lclipper-contrib -lclipper-core -lccp4c -lmmdb2 -L/opt/user_software/coot/bin-gtk4/lib -lmmdb2 libtool: link: g++ -g -O -Wall -Wno-unused -std=c++17 -o .libs/coot-bfactan bfactan.o ./.libs/libcoot-analysis.so -L/opt/user_software/coot/bin-gtk4/lib -L=/opt/user_software/coot/bin-gtk4/lib:-L/opt/user_software/coot/bin-gtk4/lib: /opt/user_software/coot/src/build-coot/coot-utils/.libs/libcoot-map-utils.so -lz /opt/user_software/coot/src/build-coot/coot-utils/.libs/libcoot-coord-utils.so ../coot-utils/.libs/libcoot-coord-utils.so /opt/user_software/coot/src/build-coot/lidia-core/.libs/libcoot-lidia-core.so /opt/user_software/coot/src/build-coot/protein_db/.libs/libcoot-protein-db.so /opt/user_software/coot/bin-gtk4/lib/libgsl.so /opt/user_software/coot/bin-gtk4/lib/libgslcblas.so ../lidia-core/.libs/libcoot-lidia-core.so /opt/user_software/coot/src/build-coot/geometry/.libs/libcoot-geometry.so -lRDKitMolDraw2D -lRDKitForceFieldHelpers -lRDKitDescriptors -lRDKitForceField -lRDKitSubstructMatch -lRDKitOptimizer -lRDKitDistGeomHelpers -lRDKitDistGeometry -lRDKitChemReactions -lRDKitAlignment -lRDKitEigenSolvers -lRDKitDepictor -lRDKitcoordgen -lRDKitMolChemicalFeatures -lRDKitFileParsers -lRDKitRDGeometryLib -lRDKitGraphMol -lRDKitShapeHelpers -lRDKitFingerprints -lRDKitMolAlign -lRDKitMolTransforms -lRDKitChemTransforms -lRDKitSmilesParse -lRDKitGenericGroups -lRDKitRingDecomposerLib -lRDKitFilterCatalog -lRDKitCatalogs -lRDKitSubgraphs -lRDKitPartialCharges -lRDKitRDGeneral -lRDKitDataStructs -lboost_serialization -lboost_iostreams ../geometry/.libs/libcoot-geometry.so /opt/user_software/coot/src/build-coot/mini-mol/.libs/libcoot-mini-mol.so /opt/user_software/coot/src/build-coot/compat/.libs/libcoot-compat.so ../mini-mol/.libs/libcoot-mini-mol.so /opt/user_software/coot/src/build-coot/utils/.libs/libcoot-utils.so ../utils/.libs/libcoot-utils.so /opt/user_software/coot/bin-gtk4/lib/libclipper-ccp4.so /opt/user_software/coot/bin-gtk4/lib/libclipper-cif.so /opt/user_software/coot/bin-gtk4/lib/libclipper-minimol.so /opt/user_software/coot/bin-gtk4/lib/libclipper-mmdb.so /opt/user_software/coot/bin-gtk4/lib/libclipper-cns.so /opt/user_software/coot/bin-gtk4/lib/libclipper-phs.so /opt/user_software/coot/bin-gtk4/lib/libclipper-contrib.so /opt/user_software/coot/bin-gtk4/lib/libclipper-core.so /opt/user_software/coot/bin-gtk4/lib/librfftw.so /opt/user_software/coot/bin-gtk4/lib/libfftw.so -lm -lpthread /opt/user_software/coot/bin-gtk4/lib/libccp4c.so /opt/user_software/coot/bin-gtk4/lib/libmmdb2.so -Wl,-rpath -Wl,/opt/user_software/coot/bin-gtk4/lib make[1]: Leaving directory '/opt/user_software/coot/src/build-coot/analysis' Making all in cootaneer make[1]: Entering directory '/opt/user_software/coot/src/build-coot/cootaneer' /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" -DPACKAGE_STRING=\"coot\ 1.x-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I../../coot/cootaneer -I/opt/user_software/coot/bin-gtk4/include -DCLIPPER_HAS_TOP8000 -I/opt/user_software/coot/bin-gtk4/include -DMMDB_HAS_LINK_DISTANCE -I/opt/user_software/coot/bin-gtk4/include -g -O -Wall -Wno-unused -std=c++17 -MT buccaneer-lib.lo -MD -MP -MF .deps/buccaneer-lib.Tpo -c -o buccaneer-lib.lo ../../coot/cootaneer/buccaneer-lib.cpp /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" -DPACKAGE_STRING=\"coot\ 1.x-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I../../coot/cootaneer -I/opt/user_software/coot/bin-gtk4/include -DCLIPPER_HAS_TOP8000 -I/opt/user_software/coot/bin-gtk4/include -DMMDB_HAS_LINK_DISTANCE -I/opt/user_software/coot/bin-gtk4/include -g -O -Wall -Wno-unused -std=c++17 -MT buccaneer-prot.lo -MD -MP -MF .deps/buccaneer-prot.Tpo -c -o buccaneer-prot.lo ../../coot/cootaneer/buccaneer-prot.cpp /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" -DPACKAGE_STRING=\"coot\ 1.x-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I../../coot/cootaneer -I/opt/user_software/coot/bin-gtk4/include -DCLIPPER_HAS_TOP8000 -I/opt/user_software/coot/bin-gtk4/include -DMMDB_HAS_LINK_DISTANCE -I/opt/user_software/coot/bin-gtk4/include -g -O -Wall -Wno-unused -std=c++17 -MT buccaneer-sequence.lo -MD -MP -MF .deps/buccaneer-sequence.Tpo -c -o buccaneer-sequence.lo ../../coot/cootaneer/buccaneer-sequence.cpp /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" -DPACKAGE_STRING=\"coot\ 1.x-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I../../coot/cootaneer -I/opt/user_software/coot/bin-gtk4/include -DCLIPPER_HAS_TOP8000 -I/opt/user_software/coot/bin-gtk4/include -DMMDB_HAS_LINK_DISTANCE -I/opt/user_software/coot/bin-gtk4/include -g -O -Wall -Wno-unused -std=c++17 -MT cootaneer-sequence.lo -MD -MP -MF .deps/cootaneer-sequence.Tpo -c -o cootaneer-sequence.lo ../../coot/cootaneer/cootaneer-sequence.cpp libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" "-DPACKAGE_STRING=\"coot 1.x-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I../../coot/cootaneer -I/opt/user_software/coot/bin-gtk4/include -DCLIPPER_HAS_TOP8000 -I/opt/user_software/coot/bin-gtk4/include -DMMDB_HAS_LINK_DISTANCE -I/opt/user_software/coot/bin-gtk4/include -g -O -Wall -Wno-unused -std=c++17 -MT cootaneer-sequence.lo -MD -MP -MF .deps/cootaneer-sequence.Tpo -c ../../coot/cootaneer/cootaneer-sequence.cpp -fPIC -DPIC -o .libs/cootaneer-sequence.o libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" "-DPACKAGE_STRING=\"coot 1.x-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I../../coot/cootaneer -I/opt/user_software/coot/bin-gtk4/include -DCLIPPER_HAS_TOP8000 -I/opt/user_software/coot/bin-gtk4/include -DMMDB_HAS_LINK_DISTANCE -I/opt/user_software/coot/bin-gtk4/include -g -O -Wall -Wno-unused -std=c++17 -MT buccaneer-sequence.lo -MD -MP -MF .deps/buccaneer-sequence.Tpo -c ../../coot/cootaneer/buccaneer-sequence.cpp -fPIC -DPIC -o .libs/buccaneer-sequence.o libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" "-DPACKAGE_STRING=\"coot 1.x-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I../../coot/cootaneer -I/opt/user_software/coot/bin-gtk4/include -DCLIPPER_HAS_TOP8000 -I/opt/user_software/coot/bin-gtk4/include -DMMDB_HAS_LINK_DISTANCE -I/opt/user_software/coot/bin-gtk4/include -g -O -Wall -Wno-unused -std=c++17 -MT buccaneer-prot.lo -MD -MP -MF .deps/buccaneer-prot.Tpo -c ../../coot/cootaneer/buccaneer-prot.cpp -fPIC -DPIC -o .libs/buccaneer-prot.o libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" "-DPACKAGE_STRING=\"coot 1.x-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I../../coot/cootaneer -I/opt/user_software/coot/bin-gtk4/include -DCLIPPER_HAS_TOP8000 -I/opt/user_software/coot/bin-gtk4/include -DMMDB_HAS_LINK_DISTANCE -I/opt/user_software/coot/bin-gtk4/include -g -O -Wall -Wno-unused -std=c++17 -MT buccaneer-lib.lo -MD -MP -MF .deps/buccaneer-lib.Tpo -c ../../coot/cootaneer/buccaneer-lib.cpp -fPIC -DPIC -o .libs/buccaneer-lib.o mv -f .deps/buccaneer-lib.Tpo .deps/buccaneer-lib.Plo mv -f .deps/cootaneer-sequence.Tpo .deps/cootaneer-sequence.Plo mv -f .deps/buccaneer-prot.Tpo .deps/buccaneer-prot.Plo mv -f .deps/buccaneer-sequence.Tpo .deps/buccaneer-sequence.Plo /bin/bash ../libtool --tag=CXX --mode=link g++ -g -O -Wall -Wno-unused -std=c++17 -o libcootaneer.la -rpath /opt/user_software/coot/bin-gtk4/lib buccaneer-lib.lo buccaneer-prot.lo buccaneer-sequence.lo cootaneer-sequence.lo -L/opt/user_software/coot/bin-gtk4/lib -lclipper-ccp4 -lclipper-cif -lclipper-minimol -lclipper-mmdb -lclipper-cns -lclipper-phs -lclipper-contrib -lclipper-core -lccp4c -lmmdb2 libtool: link: g++ -fPIC -DPIC -shared -nostdlib /usr/lib/gcc/x86_64-linux-gnu/11/../../../x86_64-linux-gnu/crti.o /usr/lib/gcc/x86_64-linux-gnu/11/crtbeginS.o .libs/buccaneer-lib.o .libs/buccaneer-prot.o .libs/buccaneer-sequence.o .libs/cootaneer-sequence.o -Wl,-rpath -Wl,/opt/user_software/coot/bin-gtk4/lib -Wl,-rpath -Wl,/opt/user_software/coot/bin-gtk4/lib -L/opt/user_software/coot/bin-gtk4/lib /opt/user_software/coot/bin-gtk4/lib/libclipper-ccp4.so -L=/opt/user_software/coot/bin-gtk4/lib:-L/opt/user_software/coot/bin-gtk4/lib: /opt/user_software/coot/bin-gtk4/lib/libclipper-cif.so /opt/user_software/coot/bin-gtk4/lib/libclipper-minimol.so /opt/user_software/coot/bin-gtk4/lib/libclipper-mmdb.so /opt/user_software/coot/bin-gtk4/lib/libclipper-cns.so /opt/user_software/coot/bin-gtk4/lib/libclipper-phs.so /opt/user_software/coot/bin-gtk4/lib/libclipper-contrib.so /opt/user_software/coot/bin-gtk4/lib/libclipper-core.so /opt/user_software/coot/bin-gtk4/lib/librfftw.so /opt/user_software/coot/bin-gtk4/lib/libfftw.so -lpthread /opt/user_software/coot/bin-gtk4/lib/libccp4c.so /opt/user_software/coot/bin-gtk4/lib/libmmdb2.so -L/usr/lib/gcc/x86_64-linux-gnu/11 -L/usr/lib/gcc/x86_64-linux-gnu/11/../../../x86_64-linux-gnu -L/usr/lib/gcc/x86_64-linux-gnu/11/../../../../lib -L/lib/x86_64-linux-gnu -L/lib/../lib -L/usr/lib/x86_64-linux-gnu -L/usr/lib/../lib -L/usr/lib/gcc/x86_64-linux-gnu/11/../../.. -lstdc++ -lm -lc -lgcc_s /usr/lib/gcc/x86_64-linux-gnu/11/crtendS.o /usr/lib/gcc/x86_64-linux-gnu/11/../../../x86_64-linux-gnu/crtn.o -g -O -Wl,-soname -Wl,libcootaneer.so.0 -o .libs/libcootaneer.so.0.0.0 libtool: link: (cd ".libs" && rm -f "libcootaneer.so.0" && ln -s "libcootaneer.so.0.0.0" "libcootaneer.so.0") libtool: link: (cd ".libs" && rm -f "libcootaneer.so" && ln -s "libcootaneer.so.0.0.0" "libcootaneer.so") libtool: link: ( cd ".libs" && rm -f "libcootaneer.la" && ln -s "../libcootaneer.la" "libcootaneer.la" ) make[1]: Leaving directory '/opt/user_software/coot/src/build-coot/cootaneer' Making all in ideal make[1]: Entering directory '/opt/user_software/coot/src/build-coot/ideal' g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" -DPACKAGE_STRING=\"coot\ 1.x-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I../../coot/ideal -I../../coot -I/opt/user_software/coot/bin-gtk4/include -DCLIPPER_HAS_TOP8000 -pthread -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DMMDB_HAS_LINK_DISTANCE -I/opt/user_software/coot/bin-gtk4/include -DHAVE_GSL -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DCLIPPER_HAS_TOP8000 -I/opt/user_software/coot/bin-gtk4/include -DMMDB_HAS_LINK_DISTANCE -DHAVE_GSL -DUSE_LIBPNG=1 -I/usr/include/libpng16 -I/opt/user_software/coot/bin-gtk4/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -g -O -Wall -Wno-unused -std=c++17 -MT mini-rsr.o -MD -MP -MF .deps/mini-rsr.Tpo -c -o mini-rsr.o ../../coot/ideal/mini-rsr.cc /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" -DPACKAGE_STRING=\"coot\ 1.x-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 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-I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DCLIPPER_HAS_TOP8000 -I/opt/user_software/coot/bin-gtk4/include -DMMDB_HAS_LINK_DISTANCE -DHAVE_GSL -DUSE_LIBPNG=1 -I/usr/include/libpng16 -I/opt/user_software/coot/bin-gtk4/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -g -O -Wall -Wno-unused -std=c++17 -MT neutron.lo -MD -MP -MF .deps/neutron.Tpo -c -o neutron.lo ../../coot/ideal/neutron.cc libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" "-DPACKAGE_STRING=\"coot 1.x-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I../../coot/ideal -I../../coot -I/opt/user_software/coot/bin-gtk4/include -DCLIPPER_HAS_TOP8000 -pthread -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DMMDB_HAS_LINK_DISTANCE -I/opt/user_software/coot/bin-gtk4/include -DHAVE_GSL -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DCLIPPER_HAS_TOP8000 -I/opt/user_software/coot/bin-gtk4/include -DMMDB_HAS_LINK_DISTANCE -DHAVE_GSL -DUSE_LIBPNG=1 -I/usr/include/libpng16 -I/opt/user_software/coot/bin-gtk4/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -g -O -Wall -Wno-unused -std=c++17 -MT neutron.lo -MD -MP -MF .deps/neutron.Tpo -c ../../coot/ideal/neutron.cc -fPIC -DPIC -o .libs/neutron.o mv -f .deps/parallel-planes.Tpo .deps/parallel-planes.Plo g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" -DPACKAGE_STRING=\"coot\ 1.x-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" 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-std=c++17 -MT lv.o -MD -MP -MF .deps/lv.Tpo -c -o lv.o ../../coot/ideal/lv.cc mv -f .deps/torsion-bonds.Tpo .deps/torsion-bonds.Plo mv -f .deps/link-restraints.Tpo .deps/link-restraints.Plo mv -f .deps/model-bond-deltas.Tpo .deps/model-bond-deltas.Plo mv -f .deps/pull-restraint.Tpo .deps/pull-restraint.Plo mv -f .deps/trans-peptide.Tpo .deps/trans-peptide.Plo mv -f .deps/neutron.Tpo .deps/neutron.Plo mv -f .deps/lv.Tpo .deps/lv.Po mv -f .deps/crankshaft.Tpo .deps/crankshaft.Plo /bin/bash ../libtool --tag=CXX --mode=link g++ -DHAVE_GSL -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DCLIPPER_HAS_TOP8000 -I/opt/user_software/coot/bin-gtk4/include -DMMDB_HAS_LINK_DISTANCE -DHAVE_GSL -DUSE_LIBPNG=1 -I/usr/include/libpng16 -I/opt/user_software/coot/bin-gtk4/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -g -O -Wall -Wno-unused -std=c++17 -lpthread -o libcoot-ideal.la -rpath /opt/user_software/coot/bin-gtk4/lib simple-restraint.lo make-restraints.lo ng.lo chi-squareds.lo mods.lo distortion.lo chirals.lo flanking.lo gradients.lo extra-restraints.lo pepflip.lo regularize-minimol.lo lograma.lo process-dfs-in-range.lo extra-restraints-kk.lo simple-restraint-kk.lo torsion-bonds.lo coot-compare-residues.lo link-restraints.lo parallel-planes.lo pull-restraint.lo trans-peptide.lo model-bond-deltas.lo write-png.lo zo-rama.lo crankshaft.lo phi-psi.lo neutron.lo ../coot-utils/libcoot-map-heavy.la ../coot-utils/libcoot-map-utils.la ../geometry/libcoot-geometry.la ../coot-utils/libcoot-coord-extras.la ../coot-utils/libcoot-coord-utils.la ../mini-mol/libcoot-mini-mol.la ../lidia-core/libcoot-lidia-core.la ../utils/libcoot-utils.la -L/opt/user_software/coot/bin-gtk4/lib -lmmdb2 -L/opt/user_software/coot/bin-gtk4/lib -lclipper-ccp4 -lclipper-cif -lclipper-minimol -lclipper-mmdb -lclipper-cns -lclipper-phs -lclipper-contrib -lclipper-core -lccp4c -lmmdb2 -L/opt/user_software/coot/bin-gtk4/lib -lgsl -lgslcblas -lm -lpng16 -lz -lm libtool: link: g++ -fPIC -DPIC -shared -nostdlib /usr/lib/gcc/x86_64-linux-gnu/11/../../../x86_64-linux-gnu/crti.o /usr/lib/gcc/x86_64-linux-gnu/11/crtbeginS.o .libs/simple-restraint.o .libs/make-restraints.o .libs/ng.o .libs/chi-squareds.o .libs/mods.o .libs/distortion.o .libs/chirals.o .libs/flanking.o .libs/gradients.o .libs/extra-restraints.o .libs/pepflip.o .libs/regularize-minimol.o .libs/lograma.o .libs/process-dfs-in-range.o .libs/extra-restraints-kk.o .libs/simple-restraint-kk.o .libs/torsion-bonds.o .libs/coot-compare-residues.o .libs/link-restraints.o .libs/parallel-planes.o .libs/pull-restraint.o .libs/trans-peptide.o .libs/model-bond-deltas.o .libs/write-png.o .libs/zo-rama.o .libs/crankshaft.o .libs/phi-psi.o .libs/neutron.o -Wl,-rpath -Wl,/opt/user_software/coot/src/build-coot/coot-utils/.libs -Wl,-rpath -Wl,/opt/user_software/coot/src/build-coot/geometry/.libs -Wl,-rpath -Wl,/opt/user_software/coot/src/build-coot/lidia-core/.libs -Wl,-rpath -Wl,/opt/user_software/coot/src/build-coot/protein_db/.libs -Wl,-rpath -Wl,/opt/user_software/coot/src/build-coot/mini-mol/.libs -Wl,-rpath -Wl,/opt/user_software/coot/src/build-coot/compat/.libs -Wl,-rpath -Wl,/opt/user_software/coot/src/build-coot/utils/.libs -Wl,-rpath -Wl,/opt/user_software/coot/bin-gtk4/lib -Wl,-rpath -Wl,/opt/user_software/coot/bin-gtk4/lib -L/opt/user_software/coot/src/build-coot/coot-utils/.libs -L/opt/user_software/coot/src/build-coot/geometry/.libs -L/opt/user_software/coot/src/build-coot/lidia-core/.libs -L/opt/user_software/coot/src/build-coot/protein_db/.libs -L/opt/user_software/coot/src/build-coot/mini-mol/.libs -L/opt/user_software/coot/src/build-coot/compat/.libs -L/opt/user_software/coot/src/build-coot/utils/.libs ../coot-utils/.libs/libcoot-map-heavy.so -L/opt/user_software/coot/bin-gtk4/lib -L=/opt/user_software/coot/bin-gtk4/lib:-L/opt/user_software/coot/bin-gtk4/lib: /opt/user_software/coot/src/build-coot/coot-utils/.libs/libcoot-map-utils.so ../coot-utils/.libs/libcoot-map-utils.so ../geometry/.libs/libcoot-geometry.so ../coot-utils/.libs/libcoot-coord-extras.so /opt/user_software/coot/src/build-coot/coot-utils/.libs/libcoot-coord-utils.so ../coot-utils/.libs/libcoot-coord-utils.so /opt/user_software/coot/src/build-coot/lidia-core/.libs/libcoot-lidia-core.so /opt/user_software/coot/src/build-coot/protein_db/.libs/libcoot-protein-db.so ../mini-mol/.libs/libcoot-mini-mol.so ../lidia-core/.libs/libcoot-lidia-core.so /opt/user_software/coot/src/build-coot/geometry/.libs/libcoot-geometry.so /opt/user_software/coot/src/build-coot/compat/.libs/libcoot-compat.so /opt/user_software/coot/src/build-coot/mini-mol/.libs/libcoot-mini-mol.so /opt/user_software/coot/src/build-coot/utils/.libs/libcoot-utils.so -lRDKitMolDraw2D -lRDKitForceFieldHelpers -lRDKitDescriptors -lRDKitForceField -lRDKitSubstructMatch -lRDKitOptimizer -lRDKitDistGeomHelpers -lRDKitDistGeometry -lRDKitChemReactions -lRDKitAlignment -lRDKitEigenSolvers -lRDKitDepictor -lRDKitcoordgen -lRDKitMolChemicalFeatures -lRDKitFileParsers -lRDKitRDGeometryLib -lRDKitGraphMol -lRDKitShapeHelpers -lRDKitFingerprints -lRDKitMolAlign -lRDKitMolTransforms -lRDKitChemTransforms -lRDKitSmilesParse -lRDKitGenericGroups -lRDKitRingDecomposerLib -lRDKitFilterCatalog -lRDKitCatalogs -lRDKitSubgraphs -lRDKitPartialCharges -lRDKitRDGeneral -lRDKitDataStructs -lboost_serialization -lboost_iostreams ../utils/.libs/libcoot-utils.so /opt/user_software/coot/bin-gtk4/lib/libclipper-ccp4.so /opt/user_software/coot/bin-gtk4/lib/libclipper-cif.so /opt/user_software/coot/bin-gtk4/lib/libclipper-minimol.so /opt/user_software/coot/bin-gtk4/lib/libclipper-mmdb.so /opt/user_software/coot/bin-gtk4/lib/libclipper-cns.so /opt/user_software/coot/bin-gtk4/lib/libclipper-phs.so /opt/user_software/coot/bin-gtk4/lib/libclipper-contrib.so /opt/user_software/coot/bin-gtk4/lib/libclipper-core.so /opt/user_software/coot/bin-gtk4/lib/librfftw.so /opt/user_software/coot/bin-gtk4/lib/libfftw.so -lpthread /opt/user_software/coot/bin-gtk4/lib/libccp4c.so /opt/user_software/coot/bin-gtk4/lib/libmmdb2.so /opt/user_software/coot/bin-gtk4/lib/libgsl.so /opt/user_software/coot/bin-gtk4/lib/libgslcblas.so -lpng16 -lz -L/usr/lib/gcc/x86_64-linux-gnu/11 -L/usr/lib/gcc/x86_64-linux-gnu/11/../../../x86_64-linux-gnu -L/usr/lib/gcc/x86_64-linux-gnu/11/../../../../lib -L/lib/x86_64-linux-gnu -L/lib/../lib -L/usr/lib/x86_64-linux-gnu -L/usr/lib/../lib -L/usr/lib/gcc/x86_64-linux-gnu/11/../../.. -lstdc++ -lm -lc -lgcc_s /usr/lib/gcc/x86_64-linux-gnu/11/crtendS.o /usr/lib/gcc/x86_64-linux-gnu/11/../../../x86_64-linux-gnu/crtn.o -g -O -Wl,-soname -Wl,libcoot-ideal.so.0 -o .libs/libcoot-ideal.so.0.0.0 libtool: link: (cd ".libs" && rm -f "libcoot-ideal.so.0" && ln -s "libcoot-ideal.so.0.0.0" "libcoot-ideal.so.0") libtool: link: (cd ".libs" && rm -f "libcoot-ideal.so" && ln -s "libcoot-ideal.so.0.0.0" "libcoot-ideal.so") libtool: link: ( cd ".libs" && rm -f "libcoot-ideal.la" && ln -s "../libcoot-ideal.la" "libcoot-ideal.la" ) /bin/bash ../libtool --tag=CXX --mode=link g++ -DHAVE_GSL -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DCLIPPER_HAS_TOP8000 -I/opt/user_software/coot/bin-gtk4/include -DMMDB_HAS_LINK_DISTANCE -DHAVE_GSL -DUSE_LIBPNG=1 -I/usr/include/libpng16 -I/opt/user_software/coot/bin-gtk4/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -g -O -Wall -Wno-unused -std=c++17 -L/opt/user_software/coot/bin-gtk4/lib -lmmdb2 -L/opt/user_software/coot/bin-gtk4/lib -lclipper-ccp4 -lclipper-cif -lclipper-minimol -lclipper-mmdb -lclipper-cns -lclipper-phs -lclipper-contrib -lclipper-core -lccp4c -lmmdb2 -o mini-rsr-bin mini-rsr.o ./libcoot-ideal.la ../coot-utils/libcoot-map-heavy.la ../geometry/libcoot-geometry.la ../coot-utils/libcoot-map-utils.la ../coot-utils/libcoot-coord-extras.la ../coot-utils/libcoot-coord-utils.la ../lidia-core/libcoot-lidia-core.la ../utils/libcoot-utils.la ../mini-mol/libcoot-mini-mol.la ../compat/libcoot-compat.la -L/opt/user_software/coot/bin-gtk4/lib -lRDKitMolDraw2D -lRDKitForceFieldHelpers -lRDKitDescriptors -lRDKitForceField -lRDKitSubstructMatch -lRDKitOptimizer -lRDKitDistGeomHelpers -lRDKitDistGeometry -lRDKitChemReactions -lRDKitAlignment -lRDKitEigenSolvers -lRDKitDepictor -lRDKitcoordgen -lRDKitMolChemicalFeatures -lRDKitPartialCharges -lRDKitFileParsers -lRDKitRDGeometryLib -lRDKitGraphMol -lRDKitShapeHelpers -lRDKitFingerprints -lRDKitMolAlign -lRDKitMolTransforms -lRDKitChemTransforms -lRDKitSmilesParse -lRDKitGenericGroups -lRDKitRingDecomposerLib -lRDKitFilterCatalog -lRDKitCatalogs -lRDKitSubgraphs -lRDKitPartialCharges -lRDKitRDGeneral -lRDKitDataStructs -lboost_serialization -lboost_iostreams -L/opt/user_software/coot/bin-gtk4/lib -lclipper-ccp4 -lclipper-cif -lclipper-minimol -lclipper-mmdb -lclipper-cns -lclipper-phs -lclipper-contrib -lclipper-core -lccp4c -lmmdb2 -L/opt/user_software/coot/bin-gtk4/lib -lmmdb2 -L/opt/user_software/coot/bin-gtk4/lib -lgsl -lgslcblas -lm -lpthread /bin/bash ../libtool --tag=CXX --mode=link g++ -DHAVE_GSL -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DCLIPPER_HAS_TOP8000 -I/opt/user_software/coot/bin-gtk4/include -DMMDB_HAS_LINK_DISTANCE -DHAVE_GSL -DUSE_LIBPNG=1 -I/usr/include/libpng16 -I/opt/user_software/coot/bin-gtk4/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -g -O -Wall -Wno-unused -std=c++17 -L/opt/user_software/coot/bin-gtk4/lib -lmmdb2 -L/opt/user_software/coot/bin-gtk4/lib -lclipper-ccp4 -lclipper-cif -lclipper-minimol -lclipper-mmdb -lclipper-cns -lclipper-phs -lclipper-contrib -lclipper-core -lccp4c -lmmdb2 -o coot-ligand-validation-bin lv.o ./libcoot-ideal.la ../coot-utils/libcoot-map-heavy.la ../coot-utils/libcoot-map-utils.la ../coot-utils/libcoot-coord-extras.la ../coot-utils/libcoot-coord-utils.la ../lidia-core/libcoot-lidia-core.la ../geometry/libcoot-geometry.la ../mini-mol/libcoot-mini-mol.la ../utils/libcoot-utils.la ../compat/libcoot-compat.la -lpthread libtool: link: g++ -DHAVE_GSL -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DCLIPPER_HAS_TOP8000 -I/opt/user_software/coot/bin-gtk4/include -DMMDB_HAS_LINK_DISTANCE -DHAVE_GSL -DUSE_LIBPNG=1 -I/usr/include/libpng16 -I/opt/user_software/coot/bin-gtk4/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -g -O -Wall -Wno-unused -std=c++17 -o .libs/coot-ligand-validation-bin lv.o -L/opt/user_software/coot/bin-gtk4/lib -L=/opt/user_software/coot/bin-gtk4/lib:-L/opt/user_software/coot/bin-gtk4/lib: ./.libs/libcoot-ideal.so /opt/user_software/coot/src/build-coot/coot-utils/.libs/libcoot-map-heavy.so /opt/user_software/coot/src/build-coot/coot-utils/.libs/libcoot-coord-extras.so -lpng16 ../coot-utils/.libs/libcoot-map-heavy.so /opt/user_software/coot/src/build-coot/coot-utils/.libs/libcoot-map-utils.so ../coot-utils/.libs/libcoot-map-utils.so -lz ../coot-utils/.libs/libcoot-coord-extras.so /opt/user_software/coot/src/build-coot/coot-utils/.libs/libcoot-coord-utils.so ../coot-utils/.libs/libcoot-coord-utils.so /opt/user_software/coot/src/build-coot/lidia-core/.libs/libcoot-lidia-core.so /opt/user_software/coot/src/build-coot/protein_db/.libs/libcoot-protein-db.so /opt/user_software/coot/bin-gtk4/lib/libgsl.so /opt/user_software/coot/bin-gtk4/lib/libgslcblas.so ../lidia-core/.libs/libcoot-lidia-core.so /opt/user_software/coot/src/build-coot/geometry/.libs/libcoot-geometry.so -lRDKitMolDraw2D -lRDKitForceFieldHelpers -lRDKitDescriptors -lRDKitForceField -lRDKitSubstructMatch -lRDKitOptimizer -lRDKitDistGeomHelpers -lRDKitDistGeometry -lRDKitChemReactions -lRDKitAlignment -lRDKitEigenSolvers -lRDKitDepictor -lRDKitcoordgen -lRDKitMolChemicalFeatures -lRDKitFileParsers -lRDKitRDGeometryLib -lRDKitGraphMol -lRDKitShapeHelpers -lRDKitFingerprints -lRDKitMolAlign -lRDKitMolTransforms -lRDKitChemTransforms -lRDKitSmilesParse -lRDKitGenericGroups -lRDKitRingDecomposerLib -lRDKitFilterCatalog -lRDKitCatalogs -lRDKitSubgraphs -lRDKitPartialCharges -lRDKitRDGeneral -lRDKitDataStructs -lboost_serialization -lboost_iostreams ../geometry/.libs/libcoot-geometry.so /opt/user_software/coot/src/build-coot/mini-mol/.libs/libcoot-mini-mol.so /opt/user_software/coot/src/build-coot/compat/.libs/libcoot-compat.so ../mini-mol/.libs/libcoot-mini-mol.so /opt/user_software/coot/src/build-coot/utils/.libs/libcoot-utils.so ../utils/.libs/libcoot-utils.so /opt/user_software/coot/bin-gtk4/lib/libclipper-ccp4.so /opt/user_software/coot/bin-gtk4/lib/libclipper-cif.so /opt/user_software/coot/bin-gtk4/lib/libclipper-minimol.so /opt/user_software/coot/bin-gtk4/lib/libclipper-mmdb.so /opt/user_software/coot/bin-gtk4/lib/libclipper-cns.so /opt/user_software/coot/bin-gtk4/lib/libclipper-phs.so /opt/user_software/coot/bin-gtk4/lib/libclipper-contrib.so /opt/user_software/coot/bin-gtk4/lib/libclipper-core.so /opt/user_software/coot/bin-gtk4/lib/librfftw.so /opt/user_software/coot/bin-gtk4/lib/libfftw.so -lm /opt/user_software/coot/bin-gtk4/lib/libccp4c.so /opt/user_software/coot/bin-gtk4/lib/libmmdb2.so ../compat/.libs/libcoot-compat.so -lpthread -Wl,-rpath -Wl,/opt/user_software/coot/bin-gtk4/lib libtool: link: g++ -DHAVE_GSL -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DCLIPPER_HAS_TOP8000 -I/opt/user_software/coot/bin-gtk4/include -DMMDB_HAS_LINK_DISTANCE -DHAVE_GSL -DUSE_LIBPNG=1 -I/usr/include/libpng16 -I/opt/user_software/coot/bin-gtk4/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -g -O -Wall -Wno-unused -std=c++17 -o .libs/mini-rsr-bin mini-rsr.o -L/opt/user_software/coot/bin-gtk4/lib -L=/opt/user_software/coot/bin-gtk4/lib:-L/opt/user_software/coot/bin-gtk4/lib: ./.libs/libcoot-ideal.so /opt/user_software/coot/src/build-coot/coot-utils/.libs/libcoot-map-heavy.so /opt/user_software/coot/src/build-coot/coot-utils/.libs/libcoot-coord-extras.so -lpng16 ../coot-utils/.libs/libcoot-map-heavy.so /opt/user_software/coot/src/build-coot/coot-utils/.libs/libcoot-map-utils.so ../geometry/.libs/libcoot-geometry.so ../coot-utils/.libs/libcoot-map-utils.so -lz ../coot-utils/.libs/libcoot-coord-extras.so /opt/user_software/coot/src/build-coot/coot-utils/.libs/libcoot-coord-utils.so ../coot-utils/.libs/libcoot-coord-utils.so /opt/user_software/coot/src/build-coot/lidia-core/.libs/libcoot-lidia-core.so /opt/user_software/coot/src/build-coot/protein_db/.libs/libcoot-protein-db.so ../lidia-core/.libs/libcoot-lidia-core.so /opt/user_software/coot/src/build-coot/geometry/.libs/libcoot-geometry.so /opt/user_software/coot/src/build-coot/compat/.libs/libcoot-compat.so /opt/user_software/coot/src/build-coot/mini-mol/.libs/libcoot-mini-mol.so ../utils/.libs/libcoot-utils.so ../mini-mol/.libs/libcoot-mini-mol.so /opt/user_software/coot/src/build-coot/utils/.libs/libcoot-utils.so ../compat/.libs/libcoot-compat.so -lRDKitMolDraw2D -lRDKitForceFieldHelpers -lRDKitDescriptors -lRDKitForceField -lRDKitSubstructMatch -lRDKitOptimizer -lRDKitDistGeomHelpers -lRDKitDistGeometry -lRDKitChemReactions -lRDKitAlignment -lRDKitEigenSolvers -lRDKitDepictor -lRDKitcoordgen -lRDKitMolChemicalFeatures -lRDKitFileParsers -lRDKitRDGeometryLib -lRDKitGraphMol -lRDKitShapeHelpers -lRDKitFingerprints -lRDKitMolAlign -lRDKitMolTransforms -lRDKitChemTransforms -lRDKitSmilesParse -lRDKitGenericGroups -lRDKitRingDecomposerLib -lRDKitFilterCatalog -lRDKitCatalogs -lRDKitSubgraphs -lRDKitPartialCharges -lRDKitRDGeneral -lRDKitDataStructs -lboost_serialization -lboost_iostreams /opt/user_software/coot/bin-gtk4/lib/libclipper-ccp4.so /opt/user_software/coot/bin-gtk4/lib/libclipper-cif.so /opt/user_software/coot/bin-gtk4/lib/libclipper-minimol.so /opt/user_software/coot/bin-gtk4/lib/libclipper-mmdb.so /opt/user_software/coot/bin-gtk4/lib/libclipper-cns.so /opt/user_software/coot/bin-gtk4/lib/libclipper-phs.so /opt/user_software/coot/bin-gtk4/lib/libclipper-contrib.so /opt/user_software/coot/bin-gtk4/lib/libclipper-core.so /opt/user_software/coot/bin-gtk4/lib/librfftw.so /opt/user_software/coot/bin-gtk4/lib/libfftw.so /opt/user_software/coot/bin-gtk4/lib/libccp4c.so /opt/user_software/coot/bin-gtk4/lib/libmmdb2.so /opt/user_software/coot/bin-gtk4/lib/libgsl.so /opt/user_software/coot/bin-gtk4/lib/libgslcblas.so -lm -lpthread -Wl,-rpath -Wl,/opt/user_software/coot/bin-gtk4/lib make[1]: Leaving directory '/opt/user_software/coot/src/build-coot/ideal' Making all in ligand make[1]: Entering directory '/opt/user_software/coot/src/build-coot/ligand' g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" -DPACKAGE_STRING=\"coot\ 1.x-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I../../coot/ligand -I../../coot -DHAVE_GSL -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DCLIPPER_HAS_TOP8000 -I/opt/user_software/coot/bin-gtk4/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DMMDB_HAS_LINK_DISTANCE -I/opt/user_software/coot/bin-gtk4/include -fopenmp -DPKGDATADIR='"/opt/user_software/coot/bin-gtk4/share/coot"' -DUSE_LIBPNG=1 -I/usr/include/libpng16 -g -O -Wall -Wno-unused -std=c++17 -MT find-ligand.o -MD -MP -MF .deps/find-ligand.Tpo -c -o find-ligand.o ../../coot/ligand/find-ligand.cc /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" -DPACKAGE_STRING=\"coot\ 1.x-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I../../coot/ligand -I../../coot -DHAVE_GSL -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DCLIPPER_HAS_TOP8000 -I/opt/user_software/coot/bin-gtk4/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DMMDB_HAS_LINK_DISTANCE -I/opt/user_software/coot/bin-gtk4/include -fopenmp -DPKGDATADIR='"/opt/user_software/coot/bin-gtk4/share/coot"' -DUSE_LIBPNG=1 -I/usr/include/libpng16 -g -O -Wall -Wno-unused -std=c++17 -MT 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-O -Wall -Wno-unused -std=c++17 -MT side-chain-densities.lo -MD -MP -MF .deps/side-chain-densities.Tpo -c ../../coot/ligand/side-chain-densities.cc -fPIC -DPIC -o .libs/side-chain-densities.o libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" "-DPACKAGE_STRING=\"coot 1.x-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I../../coot/ligand -I../../coot -DHAVE_GSL -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DCLIPPER_HAS_TOP8000 -I/opt/user_software/coot/bin-gtk4/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DMMDB_HAS_LINK_DISTANCE -I/opt/user_software/coot/bin-gtk4/include -fopenmp -DPKGDATADIR=\"/opt/user_software/coot/bin-gtk4/share/coot\" -DUSE_LIBPNG=1 -I/usr/include/libpng16 -g -O -Wall -Wno-unused -std=c++17 -MT tube-finder.lo -MD -MP -MF .deps/tube-finder.Tpo -c ../../coot/ligand/tube-finder.cc -fPIC -DPIC -o .libs/tube-finder.o mv -f .deps/rotamer-tables.Tpo .deps/rotamer-tables.Plo /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" -DPACKAGE_STRING=\"coot\ 1.x-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I../../coot/ligand -I../../coot -DHAVE_GSL -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DCLIPPER_HAS_TOP8000 -I/opt/user_software/coot/bin-gtk4/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DMMDB_HAS_LINK_DISTANCE -I/opt/user_software/coot/bin-gtk4/include -fopenmp -DPKGDATADIR='"/opt/user_software/coot/bin-gtk4/share/coot"' -DUSE_LIBPNG=1 -I/usr/include/libpng16 -g -O -Wall -Wno-unused -std=c++17 -MT smith-waterman.lo -MD -MP -MF .deps/smith-waterman.Tpo -c -o smith-waterman.lo ../../coot/ligand/smith-waterman.cc libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" "-DPACKAGE_STRING=\"coot 1.x-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I../../coot/ligand -I../../coot -DHAVE_GSL -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DCLIPPER_HAS_TOP8000 -I/opt/user_software/coot/bin-gtk4/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DMMDB_HAS_LINK_DISTANCE -I/opt/user_software/coot/bin-gtk4/include -fopenmp -DPKGDATADIR=\"/opt/user_software/coot/bin-gtk4/share/coot\" -DUSE_LIBPNG=1 -I/usr/include/libpng16 -g -O -Wall -Wno-unused -std=c++17 -MT smith-waterman.lo -MD -MP -MF .deps/smith-waterman.Tpo -c ../../coot/ligand/smith-waterman.cc -fPIC -DPIC -o .libs/smith-waterman.o mv -f .deps/ligand-score-card.Tpo .deps/ligand-score-card.Plo /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" -DPACKAGE_STRING=\"coot\ 1.x-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I../../coot/ligand -I../../coot -DHAVE_GSL -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DCLIPPER_HAS_TOP8000 -I/opt/user_software/coot/bin-gtk4/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DMMDB_HAS_LINK_DISTANCE -I/opt/user_software/coot/bin-gtk4/include -fopenmp -DPKGDATADIR='"/opt/user_software/coot/bin-gtk4/share/coot"' -DUSE_LIBPNG=1 -I/usr/include/libpng16 -g -O -Wall -Wno-unused -std=c++17 -MT side-chain.lo -MD -MP -MF .deps/side-chain.Tpo -c -o side-chain.lo ../../coot/ligand/side-chain.cc libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" "-DPACKAGE_STRING=\"coot 1.x-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I../../coot/ligand -I../../coot -DHAVE_GSL -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DCLIPPER_HAS_TOP8000 -I/opt/user_software/coot/bin-gtk4/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DMMDB_HAS_LINK_DISTANCE -I/opt/user_software/coot/bin-gtk4/include -fopenmp -DPKGDATADIR=\"/opt/user_software/coot/bin-gtk4/share/coot\" -DUSE_LIBPNG=1 -I/usr/include/libpng16 -g -O -Wall -Wno-unused -std=c++17 -MT side-chain.lo -MD -MP -MF .deps/side-chain.Tpo -c ../../coot/ligand/side-chain.cc -fPIC -DPIC -o .libs/side-chain.o In file included from /opt/user_software/coot/bin-gtk4/include/clipper/core/cell.h:50, from /opt/user_software/coot/bin-gtk4/include/clipper/core/coords.h:49, from /opt/user_software/coot/bin-gtk4/include/clipper/core/fftmap.h:49, from /opt/user_software/coot/bin-gtk4/include/clipper/core/xmap.h:49, from ../../coot/ligand/multi-peptide.hh:5, from ../../coot/ligand/trace.cc:25: /opt/user_software/coot/bin-gtk4/include/clipper/core/clipper_types.h: In member function ‘void coot::trace::move_seeds_close_to_origin(std::vector*) const’: /opt/user_software/coot/bin-gtk4/include/clipper/core/clipper_types.h:171:136: warning: ‘rtop_best.clipper::RTop_orth::.clipper::RTop::trn_.clipper::Vec3::vec[2]’ may be used uninitialized in this function [-Wmaybe-uninitialized] 171 | template inline Vec3 operator +( const Vec3& v1, const Vec3 &v2 ) { return Vec3( v1[0]+v2[0], v1[1]+v2[1], v1[2]+v2[2]); } | ~~~~~^~~~ ../../coot/ligand/trace.cc:223:29: note: ‘rtop_best.clipper::RTop_orth::.clipper::RTop::trn_.clipper::Vec3::vec[2]’ was declared here 223 | clipper::RTop_orth rtop_best; | ^~~~~~~~~ In file included from /opt/user_software/coot/bin-gtk4/include/clipper/core/cell.h:50, from /opt/user_software/coot/bin-gtk4/include/clipper/core/coords.h:49, from /opt/user_software/coot/bin-gtk4/include/clipper/core/fftmap.h:49, from /opt/user_software/coot/bin-gtk4/include/clipper/core/xmap.h:49, from ../../coot/ligand/multi-peptide.hh:5, from ../../coot/ligand/trace.cc:25: /opt/user_software/coot/bin-gtk4/include/clipper/core/clipper_types.h:171:123: warning: ‘rtop_best.clipper::RTop_orth::.clipper::RTop::trn_.clipper::Vec3::vec[1]’ may be used uninitialized in this function [-Wmaybe-uninitialized] 171 | template inline Vec3 operator +( const Vec3& v1, const Vec3 &v2 ) { return Vec3( v1[0]+v2[0], v1[1]+v2[1], v1[2]+v2[2]); } | ~~~~~^~~~ ../../coot/ligand/trace.cc:223:29: note: ‘rtop_best.clipper::RTop_orth::.clipper::RTop::trn_.clipper::Vec3::vec[1]’ was declared here 223 | clipper::RTop_orth rtop_best; | ^~~~~~~~~ In file included from /opt/user_software/coot/bin-gtk4/include/clipper/core/cell.h:50, from /opt/user_software/coot/bin-gtk4/include/clipper/core/coords.h:49, from /opt/user_software/coot/bin-gtk4/include/clipper/core/fftmap.h:49, from /opt/user_software/coot/bin-gtk4/include/clipper/core/xmap.h:49, from ../../coot/ligand/multi-peptide.hh:5, from ../../coot/ligand/trace.cc:25: /opt/user_software/coot/bin-gtk4/include/clipper/core/clipper_types.h:171:110: warning: ‘rtop_best.clipper::RTop_orth::.clipper::RTop::trn_.clipper::Vec3::vec[0]’ may be used uninitialized in this function [-Wmaybe-uninitialized] 171 | template inline Vec3 operator +( const Vec3& v1, const Vec3 &v2 ) { return Vec3( v1[0]+v2[0], v1[1]+v2[1], v1[2]+v2[2]); } | ~~~~~^~~~ ../../coot/ligand/trace.cc:223:29: note: ‘rtop_best.clipper::RTop_orth::.clipper::RTop::trn_.clipper::Vec3::vec[0]’ was declared here 223 | clipper::RTop_orth rtop_best; | ^~~~~~~~~ In file included from /opt/user_software/coot/bin-gtk4/include/clipper/core/cell.h:50, from /opt/user_software/coot/bin-gtk4/include/clipper/core/coords.h:49, from /opt/user_software/coot/bin-gtk4/include/clipper/core/fftmap.h:49, from /opt/user_software/coot/bin-gtk4/include/clipper/core/xmap.h:49, from ../../coot/ligand/multi-peptide.hh:5, from ../../coot/ligand/trace.cc:25: /opt/user_software/coot/bin-gtk4/include/clipper/core/clipper_types.h:230:53: warning: ‘rtop_best.clipper::RTop_orth::.clipper::RTop::rot_.clipper::Mat33::mat[2][2]’ may be used uninitialized in this function [-Wmaybe-uninitialized] 230 | m(2,0)*v[0]+m(2,1)*v[1]+m(2,2)*v[2] ); } | ~~~~~~^~~ ../../coot/ligand/trace.cc:223:29: note: ‘rtop_best.clipper::RTop_orth::.clipper::RTop::rot_.clipper::Mat33::mat[2][2]’ was declared here 223 | clipper::RTop_orth rtop_best; | ^~~~~~~~~ In file included from /opt/user_software/coot/bin-gtk4/include/clipper/core/cell.h:50, from /opt/user_software/coot/bin-gtk4/include/clipper/core/coords.h:49, from /opt/user_software/coot/bin-gtk4/include/clipper/core/fftmap.h:49, from /opt/user_software/coot/bin-gtk4/include/clipper/core/xmap.h:49, from ../../coot/ligand/multi-peptide.hh:5, from ../../coot/ligand/trace.cc:25: /opt/user_software/coot/bin-gtk4/include/clipper/core/clipper_types.h:230:41: warning: ‘rtop_best.clipper::RTop_orth::.clipper::RTop::rot_.clipper::Mat33::mat[2][1]’ may be used uninitialized in this function [-Wmaybe-uninitialized] 230 | m(2,0)*v[0]+m(2,1)*v[1]+m(2,2)*v[2] ); } | ~~~~~~^~~ ../../coot/ligand/trace.cc:223:29: note: ‘rtop_best.clipper::RTop_orth::.clipper::RTop::rot_.clipper::Mat33::mat[2][1]’ was declared here 223 | clipper::RTop_orth rtop_best; | ^~~~~~~~~ In file included from /opt/user_software/coot/bin-gtk4/include/clipper/core/cell.h:50, from /opt/user_software/coot/bin-gtk4/include/clipper/core/coords.h:49, from /opt/user_software/coot/bin-gtk4/include/clipper/core/fftmap.h:49, from /opt/user_software/coot/bin-gtk4/include/clipper/core/xmap.h:49, from ../../coot/ligand/multi-peptide.hh:5, from ../../coot/ligand/trace.cc:25: /opt/user_software/coot/bin-gtk4/include/clipper/core/clipper_types.h:230:29: warning: ‘rtop_best.clipper::RTop_orth::.clipper::RTop::rot_.clipper::Mat33::mat[2][0]’ may be used uninitialized in this function [-Wmaybe-uninitialized] 230 | m(2,0)*v[0]+m(2,1)*v[1]+m(2,2)*v[2] ); } | ~~~~~~^~~ ../../coot/ligand/trace.cc:223:29: note: ‘rtop_best.clipper::RTop_orth::.clipper::RTop::rot_.clipper::Mat33::mat[2][0]’ was declared here 223 | clipper::RTop_orth rtop_best; | ^~~~~~~~~ In file included from /opt/user_software/coot/bin-gtk4/include/clipper/core/cell.h:50, from /opt/user_software/coot/bin-gtk4/include/clipper/core/coords.h:49, from /opt/user_software/coot/bin-gtk4/include/clipper/core/fftmap.h:49, from /opt/user_software/coot/bin-gtk4/include/clipper/core/xmap.h:49, from ../../coot/ligand/multi-peptide.hh:5, from ../../coot/ligand/trace.cc:25: /opt/user_software/coot/bin-gtk4/include/clipper/core/clipper_types.h:229:53: warning: ‘rtop_best.clipper::RTop_orth::.clipper::RTop::rot_.clipper::Mat33::mat[1][2]’ may be used uninitialized in this function [-Wmaybe-uninitialized] 229 | m(1,0)*v[0]+m(1,1)*v[1]+m(1,2)*v[2], | ~~~~~~^~~ ../../coot/ligand/trace.cc:223:29: note: ‘rtop_best.clipper::RTop_orth::.clipper::RTop::rot_.clipper::Mat33::mat[1][2]’ was declared here 223 | clipper::RTop_orth rtop_best; | ^~~~~~~~~ In file included from /opt/user_software/coot/bin-gtk4/include/clipper/core/cell.h:50, from /opt/user_software/coot/bin-gtk4/include/clipper/core/coords.h:49, from /opt/user_software/coot/bin-gtk4/include/clipper/core/fftmap.h:49, from /opt/user_software/coot/bin-gtk4/include/clipper/core/xmap.h:49, from ../../coot/ligand/multi-peptide.hh:5, from ../../coot/ligand/trace.cc:25: /opt/user_software/coot/bin-gtk4/include/clipper/core/clipper_types.h:229:41: warning: ‘rtop_best.clipper::RTop_orth::.clipper::RTop::rot_.clipper::Mat33::mat[1][1]’ may be used uninitialized in this function [-Wmaybe-uninitialized] 229 | m(1,0)*v[0]+m(1,1)*v[1]+m(1,2)*v[2], | ~~~~~~^~~ ../../coot/ligand/trace.cc:223:29: note: ‘rtop_best.clipper::RTop_orth::.clipper::RTop::rot_.clipper::Mat33::mat[1][1]’ was declared here 223 | clipper::RTop_orth rtop_best; | ^~~~~~~~~ In file included from /opt/user_software/coot/bin-gtk4/include/clipper/core/cell.h:50, from /opt/user_software/coot/bin-gtk4/include/clipper/core/coords.h:49, from /opt/user_software/coot/bin-gtk4/include/clipper/core/fftmap.h:49, from /opt/user_software/coot/bin-gtk4/include/clipper/core/xmap.h:49, from ../../coot/ligand/multi-peptide.hh:5, from ../../coot/ligand/trace.cc:25: /opt/user_software/coot/bin-gtk4/include/clipper/core/clipper_types.h:229:29: warning: ‘rtop_best.clipper::RTop_orth::.clipper::RTop::rot_.clipper::Mat33::mat[1][0]’ may be used uninitialized in this function [-Wmaybe-uninitialized] 229 | m(1,0)*v[0]+m(1,1)*v[1]+m(1,2)*v[2], | ~~~~~~^~~ ../../coot/ligand/trace.cc:223:29: note: ‘rtop_best.clipper::RTop_orth::.clipper::RTop::rot_.clipper::Mat33::mat[1][0]’ was declared here 223 | clipper::RTop_orth rtop_best; | ^~~~~~~~~ In file included from /opt/user_software/coot/bin-gtk4/include/clipper/core/cell.h:50, from /opt/user_software/coot/bin-gtk4/include/clipper/core/coords.h:49, from /opt/user_software/coot/bin-gtk4/include/clipper/core/fftmap.h:49, from /opt/user_software/coot/bin-gtk4/include/clipper/core/xmap.h:49, from ../../coot/ligand/multi-peptide.hh:5, from ../../coot/ligand/trace.cc:25: /opt/user_software/coot/bin-gtk4/include/clipper/core/clipper_types.h:228:53: warning: ‘rtop_best.clipper::RTop_orth::.clipper::RTop::rot_.clipper::Mat33::mat[0][2]’ may be used uninitialized in this function [-Wmaybe-uninitialized] 228 | { return Vec3( m(0,0)*v[0]+m(0,1)*v[1]+m(0,2)*v[2], | ~~~~~~^~~ ../../coot/ligand/trace.cc:223:29: note: ‘rtop_best.clipper::RTop_orth::.clipper::RTop::rot_.clipper::Mat33::mat[0][2]’ was declared here 223 | clipper::RTop_orth rtop_best; | ^~~~~~~~~ In file included from /opt/user_software/coot/bin-gtk4/include/clipper/core/cell.h:50, from /opt/user_software/coot/bin-gtk4/include/clipper/core/coords.h:49, from /opt/user_software/coot/bin-gtk4/include/clipper/core/fftmap.h:49, from /opt/user_software/coot/bin-gtk4/include/clipper/core/xmap.h:49, from ../../coot/ligand/multi-peptide.hh:5, from ../../coot/ligand/trace.cc:25: /opt/user_software/coot/bin-gtk4/include/clipper/core/clipper_types.h:228:41: warning: ‘rtop_best.clipper::RTop_orth::.clipper::RTop::rot_.clipper::Mat33::mat[0][1]’ may be used uninitialized in this function [-Wmaybe-uninitialized] 228 | { return Vec3( m(0,0)*v[0]+m(0,1)*v[1]+m(0,2)*v[2], | ~~~~~~^~~ ../../coot/ligand/trace.cc:223:29: note: ‘rtop_best.clipper::RTop_orth::.clipper::RTop::rot_.clipper::Mat33::mat[0][1]’ was declared here 223 | clipper::RTop_orth rtop_best; | ^~~~~~~~~ In file included from /opt/user_software/coot/bin-gtk4/include/clipper/core/cell.h:50, from /opt/user_software/coot/bin-gtk4/include/clipper/core/coords.h:49, from /opt/user_software/coot/bin-gtk4/include/clipper/core/fftmap.h:49, from /opt/user_software/coot/bin-gtk4/include/clipper/core/xmap.h:49, from ../../coot/ligand/multi-peptide.hh:5, from ../../coot/ligand/trace.cc:25: /opt/user_software/coot/bin-gtk4/include/clipper/core/clipper_types.h:228:29: warning: ‘rtop_best.clipper::RTop_orth::.clipper::RTop::rot_.clipper::Mat33::mat[0][0]’ may be used uninitialized in this function [-Wmaybe-uninitialized] 228 | { return Vec3( m(0,0)*v[0]+m(0,1)*v[1]+m(0,2)*v[2], | ~~~~~~^~~ ../../coot/ligand/trace.cc:223:29: note: ‘rtop_best.clipper::RTop_orth::.clipper::RTop::rot_.clipper::Mat33::mat[0][0]’ was declared here 223 | clipper::RTop_orth rtop_best; | ^~~~~~~~~ mv -f .deps/joining-residues.Tpo .deps/joining-residues.Plo /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" -DPACKAGE_STRING=\"coot\ 1.x-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I../../coot/ligand -I../../coot -DHAVE_GSL -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DCLIPPER_HAS_TOP8000 -I/opt/user_software/coot/bin-gtk4/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DMMDB_HAS_LINK_DISTANCE -I/opt/user_software/coot/bin-gtk4/include -fopenmp -DPKGDATADIR='"/opt/user_software/coot/bin-gtk4/share/coot"' -DUSE_LIBPNG=1 -I/usr/include/libpng16 -g -O -Wall -Wno-unused 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-DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DMMDB_HAS_LINK_DISTANCE -I/opt/user_software/coot/bin-gtk4/include -fopenmp -DPKGDATADIR='"/opt/user_software/coot/bin-gtk4/share/coot"' -DUSE_LIBPNG=1 -I/usr/include/libpng16 -g -O -Wall -Wno-unused -std=c++17 -MT find-waters.o -MD -MP -MF .deps/find-waters.Tpo -c -o find-waters.o ../../coot/ligand/find-waters.cc libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" "-DPACKAGE_STRING=\"coot 1.x-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I../../coot/ligand -I../../coot -DHAVE_GSL -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DCLIPPER_HAS_TOP8000 -I/opt/user_software/coot/bin-gtk4/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DMMDB_HAS_LINK_DISTANCE -I/opt/user_software/coot/bin-gtk4/include -fopenmp -DPKGDATADIR=\"/opt/user_software/coot/bin-gtk4/share/coot\" -DUSE_LIBPNG=1 -I/usr/include/libpng16 -g -O -Wall -Wno-unused -std=c++17 -MT refine-isolated-chain.lo -MD -MP -MF .deps/refine-isolated-chain.Tpo -c ../../coot/ligand/refine-isolated-chain.cc -fPIC -DPIC -o .libs/refine-isolated-chain.o mv -f .deps/side-chain.Tpo .deps/side-chain.Plo g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" -DPACKAGE_STRING=\"coot\ 1.x-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" 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-I/opt/user_software/coot/bin-gtk4/include -DMMDB_HAS_LINK_DISTANCE -I/opt/user_software/coot/bin-gtk4/include -fopenmp -DPKGDATADIR='"/opt/user_software/coot/bin-gtk4/share/coot"' -DUSE_LIBPNG=1 -I/usr/include/libpng16 -g -O -Wall -Wno-unused -std=c++17 -MT identify-protein.o -MD -MP -MF .deps/identify-protein.Tpo -c -o identify-protein.o ../../coot/ligand/identify-protein.cc mv -f .deps/make-ligands-db.Tpo .deps/make-ligands-db.Po /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" -DPACKAGE_STRING=\"coot\ 1.x-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" 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.libs/libres-tracer.o mv -f .deps/find-waters.Tpo .deps/find-waters.Po /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" -DPACKAGE_STRING=\"coot\ 1.x-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I../../coot/ligand -I../../coot -DHAVE_GSL -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DCLIPPER_HAS_TOP8000 -I/opt/user_software/coot/bin-gtk4/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DMMDB_HAS_LINK_DISTANCE -I/opt/user_software/coot/bin-gtk4/include -fopenmp -DPKGDATADIR='"/opt/user_software/coot/bin-gtk4/share/coot"' -DUSE_LIBPNG=1 -I/usr/include/libpng16 -g -O -Wall -Wno-unused -std=c++17 -MT rama-rsr-extend-fragments.lo -MD -MP -MF .deps/rama-rsr-extend-fragments.Tpo -c -o rama-rsr-extend-fragments.lo ../../coot/ligand/rama-rsr-extend-fragments.cc mv -f .deps/trace.Tpo .deps/trace.Plo /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" -DPACKAGE_STRING=\"coot\ 1.x-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 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.deps/smith-waterman.Tpo .deps/smith-waterman.Plo libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" "-DPACKAGE_STRING=\"coot 1.x-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I../../coot/ligand -I../../coot -DHAVE_GSL -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DCLIPPER_HAS_TOP8000 -I/opt/user_software/coot/bin-gtk4/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DMMDB_HAS_LINK_DISTANCE -I/opt/user_software/coot/bin-gtk4/include -fopenmp -DPKGDATADIR=\"/opt/user_software/coot/bin-gtk4/share/coot\" -DUSE_LIBPNG=1 -I/usr/include/libpng16 -g -O -Wall -Wno-unused -std=c++17 -MT rama-rsr-extend-fragments.lo -MD -MP -MF .deps/rama-rsr-extend-fragments.Tpo -c ../../coot/ligand/rama-rsr-extend-fragments.cc -fPIC -DPIC -o .libs/rama-rsr-extend-fragments.o libtool: compile: gcc -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" "-DPACKAGE_STRING=\"coot 1.x-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I../../coot/ligand -I../../coot -DHAVE_GSL -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DCLIPPER_HAS_TOP8000 -I/opt/user_software/coot/bin-gtk4/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DMMDB_HAS_LINK_DISTANCE -I/opt/user_software/coot/bin-gtk4/include -g -O2 -Wall -Wunused -MT dSFMT.lo -MD -MP -MF .deps/dSFMT.Tpo -c ../../coot/ligand/dSFMT.c -fPIC -DPIC -o .libs/dSFMT.o libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" "-DPACKAGE_STRING=\"coot 1.x-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I../../coot/ligand -I../../coot -DHAVE_GSL -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DCLIPPER_HAS_TOP8000 -I/opt/user_software/coot/bin-gtk4/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DMMDB_HAS_LINK_DISTANCE -I/opt/user_software/coot/bin-gtk4/include -fopenmp -DPKGDATADIR=\"/opt/user_software/coot/bin-gtk4/share/coot\" -DUSE_LIBPNG=1 -I/usr/include/libpng16 -g -O -Wall -Wno-unused -std=c++17 -MT new-residue-by-3-phi-psi.lo -MD -MP -MF .deps/new-residue-by-3-phi-psi.Tpo -c ../../coot/ligand/new-residue-by-3-phi-psi.cc -fPIC -DPIC -o .libs/new-residue-by-3-phi-psi.o mv -f .deps/dSFMT.Tpo .deps/dSFMT.Plo mv -f .deps/identify-protein.Tpo .deps/identify-protein.Po mv -f .deps/refine-isolated-chain.Tpo .deps/refine-isolated-chain.Plo mv -f .deps/rama-rsr-extend-fragments.Tpo .deps/rama-rsr-extend-fragments.Plo mv -f .deps/new-residue-by-3-phi-psi.Tpo .deps/new-residue-by-3-phi-psi.Plo mv -f .deps/side-chain-densities.Tpo .deps/side-chain-densities.Plo /bin/bash ../libtool --tag=CXX --mode=link g++ -fopenmp -DPKGDATADIR='"/opt/user_software/coot/bin-gtk4/share/coot"' -DUSE_LIBPNG=1 -I/usr/include/libpng16 -g -O -Wall -Wno-unused -std=c++17 -o libcoot-ligand.la -rpath /opt/user_software/coot/bin-gtk4/lib ligand.lo ligand-extras.lo residue_by_phi_psi.lo wiggly-ligand.lo monomer-utils.lo dunbrack.lo chi-angles-autogen.lo chi-angles.lo helix-placement.lo fast-ss-search.lo rigid-body.lo ideal-rna.lo richardson-rotamers.lo richardson-rotamer.lo rotamer.lo torsion-general.lo rotamer-tables.lo primitive-chi-angles.lo dipole.lo base-pairing.lo backrub-rotamer.lo trace.lo trace-2.lo multi-peptide.lo ligands-db.lo joining-residues.lo ligand-score-card.lo side-chain-densities.lo tube-finder.lo smith-waterman.lo side-chain.lo refine-isolated-chain.lo ../ideal/libcoot-ideal.la ../coot-utils/libcoot-map-heavy.la ../lidia-core/libcoot-lidia-core.la ../cootaneer/libcootaneer.la ../db-main/libcoot-db-main.la ../ccp4mg-utils/libccp4mg-utils.la ../geometry/libcoot-geometry.la ../mini-mol/libcoot-mini-mol.la ../coot-utils/libcoot-coord-extras.la ../coot-utils/libcoot-coord-utils.la ../coot-utils/libcoot-map-utils.la ../analysis/libcoot-analysis.la ../utils/libcoot-utils.la -L/opt/user_software/coot/bin-gtk4/lib -lclipper-ccp4 -lclipper-cif -lclipper-minimol -lclipper-mmdb -lclipper-cns -lclipper-phs -lclipper-contrib -lclipper-core -lccp4c -lmmdb2 -L/opt/user_software/coot/bin-gtk4/lib -lmmdb2 -L/opt/user_software/coot/bin-gtk4/lib -lgsl -lgslcblas -lm -L/opt/user_software/coot/bin-gtk4/lib -lRDKitMolDraw2D -lRDKitForceFieldHelpers -lRDKitDescriptors -lRDKitForceField -lRDKitSubstructMatch -lRDKitOptimizer -lRDKitDistGeomHelpers -lRDKitDistGeometry -lRDKitChemReactions -lRDKitAlignment -lRDKitEigenSolvers -lRDKitDepictor -lRDKitcoordgen -lRDKitMolChemicalFeatures -lRDKitPartialCharges -lRDKitFileParsers -lRDKitRDGeometryLib -lRDKitGraphMol -lRDKitShapeHelpers -lRDKitFingerprints -lRDKitMolAlign -lRDKitMolTransforms -lRDKitChemTransforms -lRDKitSmilesParse -lRDKitGenericGroups -lRDKitRingDecomposerLib -lRDKitFilterCatalog -lRDKitCatalogs -lRDKitSubgraphs -lRDKitPartialCharges -lRDKitRDGeneral -lRDKitDataStructs -lboost_serialization -lboost_iostreams -lpthread libtool: link: g++ -fPIC -DPIC -shared -nostdlib /usr/lib/gcc/x86_64-linux-gnu/11/../../../x86_64-linux-gnu/crti.o /usr/lib/gcc/x86_64-linux-gnu/11/crtbeginS.o .libs/ligand.o .libs/ligand-extras.o .libs/residue_by_phi_psi.o .libs/wiggly-ligand.o .libs/monomer-utils.o .libs/dunbrack.o .libs/chi-angles-autogen.o .libs/chi-angles.o .libs/helix-placement.o .libs/fast-ss-search.o .libs/rigid-body.o .libs/ideal-rna.o .libs/richardson-rotamers.o .libs/richardson-rotamer.o .libs/rotamer.o .libs/torsion-general.o .libs/rotamer-tables.o .libs/primitive-chi-angles.o .libs/dipole.o .libs/base-pairing.o .libs/backrub-rotamer.o .libs/trace.o .libs/trace-2.o .libs/multi-peptide.o .libs/ligands-db.o .libs/joining-residues.o .libs/ligand-score-card.o .libs/side-chain-densities.o .libs/tube-finder.o .libs/smith-waterman.o .libs/side-chain.o .libs/refine-isolated-chain.o -Wl,-rpath -Wl,/opt/user_software/coot/src/build-coot/ideal/.libs -Wl,-rpath -Wl,/opt/user_software/coot/src/build-coot/coot-utils/.libs -Wl,-rpath -Wl,/opt/user_software/coot/src/build-coot/lidia-core/.libs -Wl,-rpath -Wl,/opt/user_software/coot/src/build-coot/cootaneer/.libs -Wl,-rpath -Wl,/opt/user_software/coot/src/build-coot/db-main/.libs -Wl,-rpath -Wl,/opt/user_software/coot/src/build-coot/ccp4mg-utils/.libs -Wl,-rpath -Wl,/opt/user_software/coot/src/build-coot/geometry/.libs -Wl,-rpath -Wl,/opt/user_software/coot/src/build-coot/mini-mol/.libs -Wl,-rpath -Wl,/opt/user_software/coot/src/build-coot/analysis/.libs -Wl,-rpath -Wl,/opt/user_software/coot/src/build-coot/protein_db/.libs -Wl,-rpath -Wl,/opt/user_software/coot/src/build-coot/compat/.libs -Wl,-rpath -Wl,/opt/user_software/coot/src/build-coot/utils/.libs -Wl,-rpath -Wl,/opt/user_software/coot/bin-gtk4/lib -Wl,-rpath -Wl,/opt/user_software/coot/bin-gtk4/lib -L/opt/user_software/coot/src/build-coot/coot-utils/.libs -L/opt/user_software/coot/src/build-coot/lidia-core/.libs -L/opt/user_software/coot/src/build-coot/geometry/.libs -L/opt/user_software/coot/src/build-coot/mini-mol/.libs -L/opt/user_software/coot/src/build-coot/protein_db/.libs -L/opt/user_software/coot/src/build-coot/compat/.libs -L/opt/user_software/coot/src/build-coot/utils/.libs ../ideal/.libs/libcoot-ideal.so -L/opt/user_software/coot/bin-gtk4/lib -L=/opt/user_software/coot/bin-gtk4/lib:-L/opt/user_software/coot/bin-gtk4/lib: /opt/user_software/coot/src/build-coot/coot-utils/.libs/libcoot-map-heavy.so /opt/user_software/coot/src/build-coot/coot-utils/.libs/libcoot-coord-extras.so ../coot-utils/.libs/libcoot-map-heavy.so ../lidia-core/.libs/libcoot-lidia-core.so ../cootaneer/.libs/libcootaneer.so ../db-main/.libs/libcoot-db-main.so ../ccp4mg-utils/.libs/libccp4mg-utils.so -lpng16 ../geometry/.libs/libcoot-geometry.so ../mini-mol/.libs/libcoot-mini-mol.so ../coot-utils/.libs/libcoot-coord-extras.so ../coot-utils/.libs/libcoot-coord-utils.so ../coot-utils/.libs/libcoot-map-utils.so ../analysis/.libs/libcoot-analysis.so /opt/user_software/coot/src/build-coot/coot-utils/.libs/libcoot-map-utils.so -lz /opt/user_software/coot/src/build-coot/coot-utils/.libs/libcoot-coord-utils.so /opt/user_software/coot/src/build-coot/protein_db/.libs/libcoot-protein-db.so /opt/user_software/coot/src/build-coot/lidia-core/.libs/libcoot-lidia-core.so /opt/user_software/coot/src/build-coot/geometry/.libs/libcoot-geometry.so /opt/user_software/coot/src/build-coot/compat/.libs/libcoot-compat.so /opt/user_software/coot/src/build-coot/mini-mol/.libs/libcoot-mini-mol.so /opt/user_software/coot/src/build-coot/utils/.libs/libcoot-utils.so ../utils/.libs/libcoot-utils.so /opt/user_software/coot/bin-gtk4/lib/libclipper-ccp4.so /opt/user_software/coot/bin-gtk4/lib/libclipper-cif.so /opt/user_software/coot/bin-gtk4/lib/libclipper-minimol.so /opt/user_software/coot/bin-gtk4/lib/libclipper-mmdb.so /opt/user_software/coot/bin-gtk4/lib/libclipper-cns.so /opt/user_software/coot/bin-gtk4/lib/libclipper-phs.so /opt/user_software/coot/bin-gtk4/lib/libclipper-contrib.so /opt/user_software/coot/bin-gtk4/lib/libclipper-core.so /opt/user_software/coot/bin-gtk4/lib/librfftw.so /opt/user_software/coot/bin-gtk4/lib/libfftw.so /opt/user_software/coot/bin-gtk4/lib/libccp4c.so /opt/user_software/coot/bin-gtk4/lib/libmmdb2.so /opt/user_software/coot/bin-gtk4/lib/libgsl.so /opt/user_software/coot/bin-gtk4/lib/libgslcblas.so -lRDKitMolDraw2D -lRDKitForceFieldHelpers -lRDKitDescriptors -lRDKitForceField -lRDKitSubstructMatch -lRDKitOptimizer -lRDKitDistGeomHelpers -lRDKitDistGeometry -lRDKitChemReactions -lRDKitAlignment -lRDKitEigenSolvers -lRDKitDepictor -lRDKitcoordgen -lRDKitMolChemicalFeatures -lRDKitFileParsers -lRDKitRDGeometryLib -lRDKitGraphMol -lRDKitShapeHelpers -lRDKitFingerprints -lRDKitMolAlign -lRDKitMolTransforms -lRDKitChemTransforms -lRDKitSmilesParse -lRDKitGenericGroups -lRDKitRingDecomposerLib -lRDKitFilterCatalog -lRDKitCatalogs -lRDKitSubgraphs -lRDKitPartialCharges -lRDKitRDGeneral -lRDKitDataStructs -lboost_serialization -lboost_iostreams -lpthread -L/usr/lib/gcc/x86_64-linux-gnu/11 -L/usr/lib/gcc/x86_64-linux-gnu/11/../../../x86_64-linux-gnu -L/usr/lib/gcc/x86_64-linux-gnu/11/../../../../lib -L/lib/x86_64-linux-gnu -L/lib/../lib -L/usr/lib/x86_64-linux-gnu -L/usr/lib/../lib -L/usr/lib/gcc/x86_64-linux-gnu/11/../../.. -lstdc++ -lm -lc -lgcc_s /usr/lib/gcc/x86_64-linux-gnu/11/crtendS.o /usr/lib/gcc/x86_64-linux-gnu/11/../../../x86_64-linux-gnu/crtn.o -fopenmp -g -O -fopenmp -Wl,-soname -Wl,libcoot-ligand.so.0 -o .libs/libcoot-ligand.so.0.0.0 libtool: link: (cd ".libs" && rm -f "libcoot-ligand.so.0" && ln -s "libcoot-ligand.so.0.0.0" "libcoot-ligand.so.0") libtool: link: (cd ".libs" && rm -f "libcoot-ligand.so" && ln -s "libcoot-ligand.so.0.0.0" "libcoot-ligand.so") libtool: link: ( cd ".libs" && rm -f "libcoot-ligand.la" && ln -s "../libcoot-ligand.la" "libcoot-ligand.la" ) /bin/bash ../libtool --tag=CXX --mode=link g++ -fopenmp -DPKGDATADIR='"/opt/user_software/coot/bin-gtk4/share/coot"' -DUSE_LIBPNG=1 -I/usr/include/libpng16 -g -O -Wall -Wno-unused -std=c++17 -o findligand-bin find-ligand.o ./libcoot-ligand.la ../ideal/libcoot-ideal.la ../coot-utils/libcoot-map-heavy.la ../geometry/libcoot-geometry.la ../db-main/libcoot-db-main.la ../cootaneer/libcootaneer.la ../ccp4mg-utils/libccp4mg-utils.la ../coot-utils/libcoot-map-utils.la ../coot-utils/libcoot-coord-extras.la ../coot-utils/libcoot-coord-utils.la ../utils/libcoot-utils.la ../lidia-core/libcoot-lidia-core.la ../mini-mol/libcoot-mini-mol.la ../analysis/libcoot-analysis.la ../compat/libcoot-compat.la -L/opt/user_software/coot/bin-gtk4/lib -lRDKitMolDraw2D -lRDKitForceFieldHelpers -lRDKitDescriptors -lRDKitForceField -lRDKitSubstructMatch -lRDKitOptimizer -lRDKitDistGeomHelpers -lRDKitDistGeometry -lRDKitChemReactions -lRDKitAlignment -lRDKitEigenSolvers -lRDKitDepictor -lRDKitcoordgen -lRDKitMolChemicalFeatures -lRDKitPartialCharges -lRDKitFileParsers -lRDKitRDGeometryLib -lRDKitGraphMol -lRDKitShapeHelpers -lRDKitFingerprints -lRDKitMolAlign -lRDKitMolTransforms -lRDKitChemTransforms -lRDKitSmilesParse -lRDKitGenericGroups -lRDKitRingDecomposerLib -lRDKitFilterCatalog -lRDKitCatalogs -lRDKitSubgraphs -lRDKitPartialCharges -lRDKitRDGeneral -lRDKitDataStructs -lboost_serialization -lboost_iostreams -L/opt/user_software/coot/bin-gtk4/lib -lclipper-ccp4 -lclipper-cif -lclipper-minimol -lclipper-mmdb -lclipper-cns -lclipper-phs -lclipper-contrib -lclipper-core -lccp4c -lmmdb2 -L/opt/user_software/coot/bin-gtk4/lib -lmmdb2 -L/opt/user_software/coot/bin-gtk4/lib -lgsl -lgslcblas -lm /bin/bash ../libtool --tag=CXX --mode=link g++ -fopenmp -DPKGDATADIR='"/opt/user_software/coot/bin-gtk4/share/coot"' -DUSE_LIBPNG=1 -I/usr/include/libpng16 -g -O -Wall -Wno-unused -std=c++17 -o findwaters-bin find-waters.o ./libcoot-ligand.la ../ideal/libcoot-ideal.la ../coot-utils/libcoot-map-heavy.la ../coot-utils/libcoot-map-utils.la ../geometry/libcoot-geometry.la ../ccp4mg-utils/libccp4mg-utils.la ../cootaneer/libcootaneer.la ../db-main/libcoot-db-main.la ../coot-utils/libcoot-coord-extras.la ../coot-utils/libcoot-coord-utils.la ../utils/libcoot-utils.la ../lidia-core/libcoot-lidia-core.la ../mini-mol/libcoot-mini-mol.la ../analysis/libcoot-analysis.la ../compat/libcoot-compat.la -L/opt/user_software/coot/bin-gtk4/lib -lRDKitMolDraw2D -lRDKitForceFieldHelpers -lRDKitDescriptors -lRDKitForceField -lRDKitSubstructMatch -lRDKitOptimizer -lRDKitDistGeomHelpers -lRDKitDistGeometry -lRDKitChemReactions -lRDKitAlignment -lRDKitEigenSolvers -lRDKitDepictor -lRDKitcoordgen -lRDKitMolChemicalFeatures -lRDKitPartialCharges -lRDKitFileParsers -lRDKitRDGeometryLib -lRDKitGraphMol -lRDKitShapeHelpers -lRDKitFingerprints -lRDKitMolAlign -lRDKitMolTransforms -lRDKitChemTransforms -lRDKitSmilesParse -lRDKitGenericGroups -lRDKitRingDecomposerLib -lRDKitFilterCatalog -lRDKitCatalogs -lRDKitSubgraphs -lRDKitPartialCharges -lRDKitRDGeneral -lRDKitDataStructs -lboost_serialization -lboost_iostreams -L/opt/user_software/coot/bin-gtk4/lib -lclipper-ccp4 -lclipper-cif -lclipper-minimol -lclipper-mmdb -lclipper-cns -lclipper-phs -lclipper-contrib -lclipper-core -lccp4c -lmmdb2 -L/opt/user_software/coot/bin-gtk4/lib -lmmdb2 -L/opt/user_software/coot/bin-gtk4/lib -lgsl -lgslcblas -lm /bin/bash ../libtool --tag=CXX --mode=link g++ -fopenmp -DPKGDATADIR='"/opt/user_software/coot/bin-gtk4/share/coot"' -DUSE_LIBPNG=1 -I/usr/include/libpng16 -g -O -Wall -Wno-unused -std=c++17 -o coot-make-ligands-db make-ligands-db.o ./libcoot-ligand.la ../ideal/libcoot-ideal.la ../coot-utils/libcoot-map-heavy.la ../geometry/libcoot-geometry.la ../db-main/libcoot-db-main.la ../ccp4mg-utils/libccp4mg-utils.la ../coot-utils/libcoot-map-utils.la ../coot-utils/libcoot-coord-utils.la ../coot-utils/libcoot-coord-extras.la ../cootaneer/libcootaneer.la ../utils/libcoot-utils.la ../lidia-core/libcoot-lidia-core.la ../mini-mol/libcoot-mini-mol.la ../analysis/libcoot-analysis.la ../compat/libcoot-compat.la /bin/bash ../libtool --tag=CXX --mode=link g++ -fopenmp -DPKGDATADIR='"/opt/user_software/coot/bin-gtk4/share/coot"' -DUSE_LIBPNG=1 -I/usr/include/libpng16 -g -O -Wall -Wno-unused -std=c++17 -o identify-protein-bin identify-protein.o ./libcoot-ligand.la ../ideal/libcoot-ideal.la ../coot-utils/libcoot-coord-utils.la ../lidia-core/libcoot-lidia-core.la ../mini-mol/libcoot-mini-mol.la ../geometry/libcoot-geometry.la ../utils/libcoot-utils.la -L/opt/user_software/coot/bin-gtk4/lib -lclipper-ccp4 -lclipper-cif -lclipper-minimol -lclipper-mmdb -lclipper-cns -lclipper-phs -lclipper-contrib -lclipper-core -lccp4c -lmmdb2 -L/opt/user_software/coot/bin-gtk4/lib -lmmdb2 libtool: link: g++ -fopenmp -DPKGDATADIR=\"/opt/user_software/coot/bin-gtk4/share/coot\" -DUSE_LIBPNG=1 -I/usr/include/libpng16 -g -O -Wall -Wno-unused -std=c++17 -o .libs/identify-protein-bin identify-protein.o ./.libs/libcoot-ligand.so -L/opt/user_software/coot/bin-gtk4/lib -L=/opt/user_software/coot/bin-gtk4/lib:-L/opt/user_software/coot/bin-gtk4/lib: /opt/user_software/coot/src/build-coot/ideal/.libs/libcoot-ideal.so /opt/user_software/coot/src/build-coot/cootaneer/.libs/libcootaneer.so /opt/user_software/coot/src/build-coot/db-main/.libs/libcoot-db-main.so /opt/user_software/coot/src/build-coot/ccp4mg-utils/.libs/libccp4mg-utils.so /opt/user_software/coot/src/build-coot/analysis/.libs/libcoot-analysis.so ../ideal/.libs/libcoot-ideal.so /opt/user_software/coot/src/build-coot/coot-utils/.libs/libcoot-map-heavy.so /opt/user_software/coot/src/build-coot/coot-utils/.libs/libcoot-map-utils.so /opt/user_software/coot/src/build-coot/coot-utils/.libs/libcoot-coord-extras.so /opt/user_software/coot/src/build-coot/coot-utils/.libs/libcoot-coord-utils.so -lpng16 -lz ../coot-utils/.libs/libcoot-coord-utils.so /opt/user_software/coot/src/build-coot/lidia-core/.libs/libcoot-lidia-core.so /opt/user_software/coot/src/build-coot/protein_db/.libs/libcoot-protein-db.so /opt/user_software/coot/bin-gtk4/lib/libgsl.so /opt/user_software/coot/bin-gtk4/lib/libgslcblas.so ../lidia-core/.libs/libcoot-lidia-core.so /opt/user_software/coot/src/build-coot/geometry/.libs/libcoot-geometry.so -lRDKitMolDraw2D -lRDKitForceFieldHelpers -lRDKitDescriptors -lRDKitForceField -lRDKitSubstructMatch -lRDKitOptimizer -lRDKitDistGeomHelpers -lRDKitDistGeometry -lRDKitChemReactions -lRDKitAlignment -lRDKitEigenSolvers -lRDKitDepictor -lRDKitcoordgen -lRDKitMolChemicalFeatures -lRDKitFileParsers -lRDKitRDGeometryLib -lRDKitGraphMol -lRDKitShapeHelpers -lRDKitFingerprints -lRDKitMolAlign -lRDKitMolTransforms -lRDKitChemTransforms -lRDKitSmilesParse -lRDKitGenericGroups -lRDKitRingDecomposerLib -lRDKitFilterCatalog -lRDKitCatalogs -lRDKitSubgraphs -lRDKitPartialCharges -lRDKitRDGeneral -lRDKitDataStructs -lboost_serialization -lboost_iostreams ../mini-mol/.libs/libcoot-mini-mol.so ../geometry/.libs/libcoot-geometry.so /opt/user_software/coot/src/build-coot/mini-mol/.libs/libcoot-mini-mol.so /opt/user_software/coot/src/build-coot/utils/.libs/libcoot-utils.so /opt/user_software/coot/src/build-coot/compat/.libs/libcoot-compat.so ../utils/.libs/libcoot-utils.so /opt/user_software/coot/bin-gtk4/lib/libclipper-ccp4.so /opt/user_software/coot/bin-gtk4/lib/libclipper-cif.so /opt/user_software/coot/bin-gtk4/lib/libclipper-minimol.so /opt/user_software/coot/bin-gtk4/lib/libclipper-mmdb.so /opt/user_software/coot/bin-gtk4/lib/libclipper-cns.so /opt/user_software/coot/bin-gtk4/lib/libclipper-phs.so /opt/user_software/coot/bin-gtk4/lib/libclipper-contrib.so /opt/user_software/coot/bin-gtk4/lib/libclipper-core.so /opt/user_software/coot/bin-gtk4/lib/librfftw.so /opt/user_software/coot/bin-gtk4/lib/libfftw.so -lm -lpthread /opt/user_software/coot/bin-gtk4/lib/libccp4c.so /opt/user_software/coot/bin-gtk4/lib/libmmdb2.so -fopenmp -Wl,-rpath -Wl,/opt/user_software/coot/bin-gtk4/lib libtool: link: g++ -fopenmp -DPKGDATADIR=\"/opt/user_software/coot/bin-gtk4/share/coot\" -DUSE_LIBPNG=1 -I/usr/include/libpng16 -g -O -Wall -Wno-unused -std=c++17 -o .libs/coot-make-ligands-db make-ligands-db.o ./.libs/libcoot-ligand.so -L/opt/user_software/coot/bin-gtk4/lib -L=/opt/user_software/coot/bin-gtk4/lib:-L/opt/user_software/coot/bin-gtk4/lib: /opt/user_software/coot/src/build-coot/ideal/.libs/libcoot-ideal.so /opt/user_software/coot/src/build-coot/cootaneer/.libs/libcootaneer.so /opt/user_software/coot/src/build-coot/db-main/.libs/libcoot-db-main.so /opt/user_software/coot/src/build-coot/ccp4mg-utils/.libs/libccp4mg-utils.so /opt/user_software/coot/src/build-coot/analysis/.libs/libcoot-analysis.so ../ideal/.libs/libcoot-ideal.so /opt/user_software/coot/src/build-coot/coot-utils/.libs/libcoot-map-heavy.so /opt/user_software/coot/src/build-coot/coot-utils/.libs/libcoot-coord-extras.so ../coot-utils/.libs/libcoot-map-heavy.so ../geometry/.libs/libcoot-geometry.so ../db-main/.libs/libcoot-db-main.so ../ccp4mg-utils/.libs/libccp4mg-utils.so -lpng16 ../coot-utils/.libs/libcoot-map-utils.so ../coot-utils/.libs/libcoot-coord-utils.so ../coot-utils/.libs/libcoot-coord-extras.so ../cootaneer/.libs/libcootaneer.so ../utils/.libs/libcoot-utils.so ../lidia-core/.libs/libcoot-lidia-core.so ../mini-mol/.libs/libcoot-mini-mol.so ../analysis/.libs/libcoot-analysis.so /opt/user_software/coot/src/build-coot/coot-utils/.libs/libcoot-map-utils.so -lz /opt/user_software/coot/src/build-coot/coot-utils/.libs/libcoot-coord-utils.so /opt/user_software/coot/src/build-coot/protein_db/.libs/libcoot-protein-db.so /opt/user_software/coot/src/build-coot/lidia-core/.libs/libcoot-lidia-core.so /opt/user_software/coot/src/build-coot/geometry/.libs/libcoot-geometry.so /opt/user_software/coot/src/build-coot/compat/.libs/libcoot-compat.so /opt/user_software/coot/src/build-coot/mini-mol/.libs/libcoot-mini-mol.so /opt/user_software/coot/src/build-coot/utils/.libs/libcoot-utils.so /opt/user_software/coot/bin-gtk4/lib/libclipper-ccp4.so /opt/user_software/coot/bin-gtk4/lib/libclipper-cif.so /opt/user_software/coot/bin-gtk4/lib/libclipper-minimol.so /opt/user_software/coot/bin-gtk4/lib/libclipper-mmdb.so /opt/user_software/coot/bin-gtk4/lib/libclipper-cns.so /opt/user_software/coot/bin-gtk4/lib/libclipper-phs.so /opt/user_software/coot/bin-gtk4/lib/libclipper-contrib.so /opt/user_software/coot/bin-gtk4/lib/libclipper-core.so /opt/user_software/coot/bin-gtk4/lib/librfftw.so /opt/user_software/coot/bin-gtk4/lib/libfftw.so -lpthread /opt/user_software/coot/bin-gtk4/lib/libccp4c.so /opt/user_software/coot/bin-gtk4/lib/libmmdb2.so /opt/user_software/coot/bin-gtk4/lib/libgsl.so /opt/user_software/coot/bin-gtk4/lib/libgslcblas.so -lm -lRDKitMolDraw2D -lRDKitForceFieldHelpers -lRDKitDescriptors -lRDKitForceField -lRDKitSubstructMatch -lRDKitOptimizer -lRDKitDistGeomHelpers -lRDKitDistGeometry -lRDKitChemReactions -lRDKitAlignment -lRDKitEigenSolvers -lRDKitDepictor -lRDKitcoordgen -lRDKitMolChemicalFeatures -lRDKitFileParsers -lRDKitRDGeometryLib -lRDKitGraphMol -lRDKitShapeHelpers -lRDKitFingerprints -lRDKitMolAlign -lRDKitMolTransforms -lRDKitChemTransforms -lRDKitSmilesParse -lRDKitGenericGroups -lRDKitRingDecomposerLib -lRDKitFilterCatalog -lRDKitCatalogs -lRDKitSubgraphs -lRDKitPartialCharges -lRDKitRDGeneral -lRDKitDataStructs -lboost_serialization -lboost_iostreams ../compat/.libs/libcoot-compat.so -fopenmp -Wl,-rpath -Wl,/opt/user_software/coot/bin-gtk4/lib libtool: link: g++ -fopenmp -DPKGDATADIR=\"/opt/user_software/coot/bin-gtk4/share/coot\" -DUSE_LIBPNG=1 -I/usr/include/libpng16 -g -O -Wall -Wno-unused -std=c++17 -o .libs/findligand-bin find-ligand.o ./.libs/libcoot-ligand.so -L/opt/user_software/coot/bin-gtk4/lib -L=/opt/user_software/coot/bin-gtk4/lib:-L/opt/user_software/coot/bin-gtk4/lib: /opt/user_software/coot/src/build-coot/ideal/.libs/libcoot-ideal.so /opt/user_software/coot/src/build-coot/cootaneer/.libs/libcootaneer.so /opt/user_software/coot/src/build-coot/db-main/.libs/libcoot-db-main.so /opt/user_software/coot/src/build-coot/ccp4mg-utils/.libs/libccp4mg-utils.so /opt/user_software/coot/src/build-coot/analysis/.libs/libcoot-analysis.so ../ideal/.libs/libcoot-ideal.so /opt/user_software/coot/src/build-coot/coot-utils/.libs/libcoot-map-heavy.so /opt/user_software/coot/src/build-coot/coot-utils/.libs/libcoot-coord-extras.so ../coot-utils/.libs/libcoot-map-heavy.so ../geometry/.libs/libcoot-geometry.so ../db-main/.libs/libcoot-db-main.so ../cootaneer/.libs/libcootaneer.so ../ccp4mg-utils/.libs/libccp4mg-utils.so -lpng16 ../coot-utils/.libs/libcoot-map-utils.so ../coot-utils/.libs/libcoot-coord-extras.so ../coot-utils/.libs/libcoot-coord-utils.so ../utils/.libs/libcoot-utils.so ../lidia-core/.libs/libcoot-lidia-core.so ../mini-mol/.libs/libcoot-mini-mol.so ../analysis/.libs/libcoot-analysis.so /opt/user_software/coot/src/build-coot/coot-utils/.libs/libcoot-map-utils.so -lz /opt/user_software/coot/src/build-coot/coot-utils/.libs/libcoot-coord-utils.so /opt/user_software/coot/src/build-coot/protein_db/.libs/libcoot-protein-db.so /opt/user_software/coot/src/build-coot/lidia-core/.libs/libcoot-lidia-core.so /opt/user_software/coot/src/build-coot/geometry/.libs/libcoot-geometry.so /opt/user_software/coot/src/build-coot/compat/.libs/libcoot-compat.so /opt/user_software/coot/src/build-coot/mini-mol/.libs/libcoot-mini-mol.so /opt/user_software/coot/src/build-coot/utils/.libs/libcoot-utils.so ../compat/.libs/libcoot-compat.so -lRDKitMolDraw2D -lRDKitForceFieldHelpers -lRDKitDescriptors -lRDKitForceField -lRDKitSubstructMatch -lRDKitOptimizer -lRDKitDistGeomHelpers -lRDKitDistGeometry -lRDKitChemReactions -lRDKitAlignment -lRDKitEigenSolvers -lRDKitDepictor -lRDKitcoordgen -lRDKitMolChemicalFeatures -lRDKitFileParsers -lRDKitRDGeometryLib -lRDKitGraphMol -lRDKitShapeHelpers -lRDKitFingerprints -lRDKitMolAlign -lRDKitMolTransforms -lRDKitChemTransforms -lRDKitSmilesParse -lRDKitGenericGroups -lRDKitRingDecomposerLib -lRDKitFilterCatalog -lRDKitCatalogs -lRDKitSubgraphs -lRDKitPartialCharges -lRDKitRDGeneral -lRDKitDataStructs -lboost_serialization -lboost_iostreams /opt/user_software/coot/bin-gtk4/lib/libclipper-ccp4.so /opt/user_software/coot/bin-gtk4/lib/libclipper-cif.so /opt/user_software/coot/bin-gtk4/lib/libclipper-minimol.so /opt/user_software/coot/bin-gtk4/lib/libclipper-mmdb.so /opt/user_software/coot/bin-gtk4/lib/libclipper-cns.so /opt/user_software/coot/bin-gtk4/lib/libclipper-phs.so /opt/user_software/coot/bin-gtk4/lib/libclipper-contrib.so /opt/user_software/coot/bin-gtk4/lib/libclipper-core.so /opt/user_software/coot/bin-gtk4/lib/librfftw.so /opt/user_software/coot/bin-gtk4/lib/libfftw.so -lpthread /opt/user_software/coot/bin-gtk4/lib/libccp4c.so /opt/user_software/coot/bin-gtk4/lib/libmmdb2.so /opt/user_software/coot/bin-gtk4/lib/libgsl.so /opt/user_software/coot/bin-gtk4/lib/libgslcblas.so -lm -fopenmp -Wl,-rpath -Wl,/opt/user_software/coot/bin-gtk4/lib libtool: link: g++ -fopenmp -DPKGDATADIR=\"/opt/user_software/coot/bin-gtk4/share/coot\" -DUSE_LIBPNG=1 -I/usr/include/libpng16 -g -O -Wall -Wno-unused -std=c++17 -o .libs/findwaters-bin find-waters.o ./.libs/libcoot-ligand.so -L/opt/user_software/coot/bin-gtk4/lib -L=/opt/user_software/coot/bin-gtk4/lib:-L/opt/user_software/coot/bin-gtk4/lib: /opt/user_software/coot/src/build-coot/ideal/.libs/libcoot-ideal.so /opt/user_software/coot/src/build-coot/cootaneer/.libs/libcootaneer.so /opt/user_software/coot/src/build-coot/db-main/.libs/libcoot-db-main.so /opt/user_software/coot/src/build-coot/ccp4mg-utils/.libs/libccp4mg-utils.so /opt/user_software/coot/src/build-coot/analysis/.libs/libcoot-analysis.so ../ideal/.libs/libcoot-ideal.so /opt/user_software/coot/src/build-coot/coot-utils/.libs/libcoot-map-heavy.so /opt/user_software/coot/src/build-coot/coot-utils/.libs/libcoot-coord-extras.so ../coot-utils/.libs/libcoot-map-heavy.so ../coot-utils/.libs/libcoot-map-utils.so ../geometry/.libs/libcoot-geometry.so ../ccp4mg-utils/.libs/libccp4mg-utils.so -lpng16 ../cootaneer/.libs/libcootaneer.so ../db-main/.libs/libcoot-db-main.so ../coot-utils/.libs/libcoot-coord-extras.so ../coot-utils/.libs/libcoot-coord-utils.so ../utils/.libs/libcoot-utils.so ../lidia-core/.libs/libcoot-lidia-core.so ../mini-mol/.libs/libcoot-mini-mol.so ../analysis/.libs/libcoot-analysis.so /opt/user_software/coot/src/build-coot/coot-utils/.libs/libcoot-map-utils.so -lz /opt/user_software/coot/src/build-coot/coot-utils/.libs/libcoot-coord-utils.so /opt/user_software/coot/src/build-coot/protein_db/.libs/libcoot-protein-db.so /opt/user_software/coot/src/build-coot/lidia-core/.libs/libcoot-lidia-core.so /opt/user_software/coot/src/build-coot/geometry/.libs/libcoot-geometry.so /opt/user_software/coot/src/build-coot/compat/.libs/libcoot-compat.so /opt/user_software/coot/src/build-coot/mini-mol/.libs/libcoot-mini-mol.so /opt/user_software/coot/src/build-coot/utils/.libs/libcoot-utils.so ../compat/.libs/libcoot-compat.so -lRDKitMolDraw2D -lRDKitForceFieldHelpers -lRDKitDescriptors -lRDKitForceField -lRDKitSubstructMatch -lRDKitOptimizer -lRDKitDistGeomHelpers -lRDKitDistGeometry -lRDKitChemReactions -lRDKitAlignment -lRDKitEigenSolvers -lRDKitDepictor -lRDKitcoordgen -lRDKitMolChemicalFeatures -lRDKitFileParsers -lRDKitRDGeometryLib -lRDKitGraphMol -lRDKitShapeHelpers -lRDKitFingerprints -lRDKitMolAlign -lRDKitMolTransforms -lRDKitChemTransforms -lRDKitSmilesParse -lRDKitGenericGroups -lRDKitRingDecomposerLib -lRDKitFilterCatalog -lRDKitCatalogs -lRDKitSubgraphs -lRDKitPartialCharges -lRDKitRDGeneral -lRDKitDataStructs -lboost_serialization -lboost_iostreams /opt/user_software/coot/bin-gtk4/lib/libclipper-ccp4.so /opt/user_software/coot/bin-gtk4/lib/libclipper-cif.so /opt/user_software/coot/bin-gtk4/lib/libclipper-minimol.so /opt/user_software/coot/bin-gtk4/lib/libclipper-mmdb.so /opt/user_software/coot/bin-gtk4/lib/libclipper-cns.so /opt/user_software/coot/bin-gtk4/lib/libclipper-phs.so /opt/user_software/coot/bin-gtk4/lib/libclipper-contrib.so /opt/user_software/coot/bin-gtk4/lib/libclipper-core.so /opt/user_software/coot/bin-gtk4/lib/librfftw.so /opt/user_software/coot/bin-gtk4/lib/libfftw.so -lpthread /opt/user_software/coot/bin-gtk4/lib/libccp4c.so /opt/user_software/coot/bin-gtk4/lib/libmmdb2.so /opt/user_software/coot/bin-gtk4/lib/libgsl.so /opt/user_software/coot/bin-gtk4/lib/libgslcblas.so -lm -fopenmp -Wl,-rpath -Wl,/opt/user_software/coot/bin-gtk4/lib mv -f .deps/libres-tracer.Tpo .deps/libres-tracer.Plo /bin/bash ../libtool --tag=CXX --mode=link g++ -fopenmp -DPKGDATADIR='"/opt/user_software/coot/bin-gtk4/share/coot"' -DUSE_LIBPNG=1 -I/usr/include/libpng16 -g -O -Wall -Wno-unused -std=c++17 -o libcoot-res-tracer.la -rpath /opt/user_software/coot/bin-gtk4/lib libres-tracer.lo rama-rsr-extend-fragments.lo new-residue-by-3-phi-psi.lo dSFMT.lo libcoot-ligand.la ../ideal/libcoot-ideal.la ../coot-utils/libcoot-map-utils.la ../coot-utils/libcoot-coord-utils.la ../mini-mol/libcoot-mini-mol.la ../geometry/libcoot-geometry.la ../utils/libcoot-utils.la -L/opt/user_software/coot/bin-gtk4/lib -lclipper-ccp4 -lclipper-cif -lclipper-minimol -lclipper-mmdb -lclipper-cns -lclipper-phs -lclipper-contrib -lclipper-core -lccp4c -lmmdb2 -L/opt/user_software/coot/bin-gtk4/lib -lmmdb2 libtool: link: g++ -fPIC -DPIC -shared -nostdlib /usr/lib/gcc/x86_64-linux-gnu/11/../../../x86_64-linux-gnu/crti.o /usr/lib/gcc/x86_64-linux-gnu/11/crtbeginS.o .libs/libres-tracer.o .libs/rama-rsr-extend-fragments.o .libs/new-residue-by-3-phi-psi.o .libs/dSFMT.o -Wl,-rpath -Wl,/opt/user_software/coot/src/build-coot/ligand/.libs -Wl,-rpath -Wl,/opt/user_software/coot/src/build-coot/ideal/.libs -Wl,-rpath -Wl,/opt/user_software/coot/src/build-coot/cootaneer/.libs -Wl,-rpath -Wl,/opt/user_software/coot/src/build-coot/db-main/.libs -Wl,-rpath -Wl,/opt/user_software/coot/src/build-coot/ccp4mg-utils/.libs -Wl,-rpath -Wl,/opt/user_software/coot/src/build-coot/analysis/.libs -Wl,-rpath -Wl,/opt/user_software/coot/src/build-coot/coot-utils/.libs -Wl,-rpath -Wl,/opt/user_software/coot/src/build-coot/lidia-core/.libs -Wl,-rpath -Wl,/opt/user_software/coot/src/build-coot/protein_db/.libs -Wl,-rpath -Wl,/opt/user_software/coot/src/build-coot/geometry/.libs -Wl,-rpath -Wl,/opt/user_software/coot/bin-gtk4/lib -Wl,-rpath -Wl,/opt/user_software/coot/src/build-coot/mini-mol/.libs -Wl,-rpath -Wl,/opt/user_software/coot/src/build-coot/utils/.libs -Wl,-rpath -Wl,/opt/user_software/coot/src/build-coot/compat/.libs -Wl,-rpath -Wl,/opt/user_software/coot/bin-gtk4/lib -L/opt/user_software/coot/src/build-coot/ideal/.libs -L/opt/user_software/coot/src/build-coot/cootaneer/.libs -L/opt/user_software/coot/src/build-coot/db-main/.libs -L/opt/user_software/coot/src/build-coot/ccp4mg-utils/.libs -L/opt/user_software/coot/src/build-coot/analysis/.libs -L/opt/user_software/coot/src/build-coot/coot-utils/.libs -L/opt/user_software/coot/src/build-coot/lidia-core/.libs -L/opt/user_software/coot/src/build-coot/protein_db/.libs -L/opt/user_software/coot/src/build-coot/geometry/.libs -L/opt/user_software/coot/src/build-coot/mini-mol/.libs -L/opt/user_software/coot/src/build-coot/utils/.libs -L/opt/user_software/coot/src/build-coot/compat/.libs ./.libs/libcoot-ligand.so -L/opt/user_software/coot/bin-gtk4/lib -L=/opt/user_software/coot/bin-gtk4/lib:-L/opt/user_software/coot/bin-gtk4/lib: /opt/user_software/coot/src/build-coot/ideal/.libs/libcoot-ideal.so /opt/user_software/coot/src/build-coot/cootaneer/.libs/libcootaneer.so /opt/user_software/coot/src/build-coot/db-main/.libs/libcoot-db-main.so /opt/user_software/coot/src/build-coot/ccp4mg-utils/.libs/libccp4mg-utils.so /opt/user_software/coot/src/build-coot/analysis/.libs/libcoot-analysis.so ../ideal/.libs/libcoot-ideal.so /opt/user_software/coot/src/build-coot/coot-utils/.libs/libcoot-map-heavy.so /opt/user_software/coot/src/build-coot/coot-utils/.libs/libcoot-map-utils.so /opt/user_software/coot/src/build-coot/coot-utils/.libs/libcoot-coord-extras.so -lpng16 ../coot-utils/.libs/libcoot-map-utils.so /opt/user_software/coot/src/build-coot/coot-utils/.libs/libcoot-coord-utils.so -lz ../coot-utils/.libs/libcoot-coord-utils.so /opt/user_software/coot/src/build-coot/lidia-core/.libs/libcoot-lidia-core.so /opt/user_software/coot/src/build-coot/protein_db/.libs/libcoot-protein-db.so /opt/user_software/coot/src/build-coot/geometry/.libs/libcoot-geometry.so /opt/user_software/coot/bin-gtk4/lib/libgsl.so /opt/user_software/coot/bin-gtk4/lib/libgslcblas.so -lRDKitMolDraw2D -lRDKitForceFieldHelpers -lRDKitDescriptors -lRDKitForceField -lRDKitSubstructMatch -lRDKitOptimizer -lRDKitDistGeomHelpers -lRDKitDistGeometry -lRDKitChemReactions -lRDKitAlignment -lRDKitEigenSolvers -lRDKitDepictor -lRDKitcoordgen -lRDKitMolChemicalFeatures -lRDKitFileParsers -lRDKitRDGeometryLib -lRDKitGraphMol -lRDKitShapeHelpers -lRDKitFingerprints -lRDKitMolAlign -lRDKitMolTransforms -lRDKitChemTransforms -lRDKitSmilesParse -lRDKitGenericGroups -lRDKitRingDecomposerLib -lRDKitFilterCatalog -lRDKitCatalogs -lRDKitSubgraphs -lRDKitPartialCharges -lRDKitRDGeneral -lRDKitDataStructs -lboost_serialization -lboost_iostreams ../mini-mol/.libs/libcoot-mini-mol.so ../geometry/.libs/libcoot-geometry.so /opt/user_software/coot/src/build-coot/mini-mol/.libs/libcoot-mini-mol.so /opt/user_software/coot/src/build-coot/utils/.libs/libcoot-utils.so /opt/user_software/coot/src/build-coot/compat/.libs/libcoot-compat.so ../utils/.libs/libcoot-utils.so /opt/user_software/coot/bin-gtk4/lib/libclipper-ccp4.so /opt/user_software/coot/bin-gtk4/lib/libclipper-cif.so /opt/user_software/coot/bin-gtk4/lib/libclipper-minimol.so /opt/user_software/coot/bin-gtk4/lib/libclipper-mmdb.so /opt/user_software/coot/bin-gtk4/lib/libclipper-cns.so /opt/user_software/coot/bin-gtk4/lib/libclipper-phs.so /opt/user_software/coot/bin-gtk4/lib/libclipper-contrib.so /opt/user_software/coot/bin-gtk4/lib/libclipper-core.so /opt/user_software/coot/bin-gtk4/lib/librfftw.so /opt/user_software/coot/bin-gtk4/lib/libfftw.so -lpthread /opt/user_software/coot/bin-gtk4/lib/libccp4c.so /opt/user_software/coot/bin-gtk4/lib/libmmdb2.so -L/usr/lib/gcc/x86_64-linux-gnu/11 -L/usr/lib/gcc/x86_64-linux-gnu/11/../../../x86_64-linux-gnu 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/opt/user_software/coot/src/build-coot/compat/.libs/libcoot-compat.so /opt/user_software/coot/src/build-coot/mini-mol/.libs/libcoot-mini-mol.so /opt/user_software/coot/src/build-coot/utils/.libs/libcoot-utils.so -lRDKitMolDraw2D -lRDKitForceFieldHelpers -lRDKitDescriptors -lRDKitForceField -lRDKitSubstructMatch -lRDKitOptimizer -lRDKitDistGeomHelpers -lRDKitDistGeometry -lRDKitChemReactions -lRDKitAlignment -lRDKitEigenSolvers -lRDKitDepictor -lRDKitcoordgen -lRDKitMolChemicalFeatures -lRDKitFileParsers -lRDKitRDGeometryLib -lRDKitGraphMol -lRDKitShapeHelpers -lRDKitFingerprints -lRDKitMolAlign -lRDKitMolTransforms -lRDKitChemTransforms -lRDKitSmilesParse -lRDKitGenericGroups -lRDKitRingDecomposerLib -lRDKitFilterCatalog -lRDKitCatalogs -lRDKitSubgraphs -lRDKitPartialCharges -lRDKitRDGeneral -lRDKitDataStructs -lboost_serialization -lboost_iostreams ../utils/.libs/libcoot-utils.so /opt/user_software/coot/bin-gtk4/lib/libclipper-ccp4.so /opt/user_software/coot/bin-gtk4/lib/libclipper-cif.so /opt/user_software/coot/bin-gtk4/lib/libclipper-minimol.so /opt/user_software/coot/bin-gtk4/lib/libclipper-mmdb.so /opt/user_software/coot/bin-gtk4/lib/libclipper-cns.so /opt/user_software/coot/bin-gtk4/lib/libclipper-phs.so /opt/user_software/coot/bin-gtk4/lib/libclipper-contrib.so /opt/user_software/coot/bin-gtk4/lib/libclipper-core.so /opt/user_software/coot/bin-gtk4/lib/librfftw.so /opt/user_software/coot/bin-gtk4/lib/libfftw.so /opt/user_software/coot/bin-gtk4/lib/libccp4c.so /opt/user_software/coot/bin-gtk4/lib/libmmdb2.so -lpthread -L/usr/lib/gcc/x86_64-linux-gnu/11 -L/usr/lib/gcc/x86_64-linux-gnu/11/../../../x86_64-linux-gnu -L/usr/lib/gcc/x86_64-linux-gnu/11/../../../../lib -L/lib/x86_64-linux-gnu -L/lib/../lib -L/usr/lib/x86_64-linux-gnu -L/usr/lib/../lib -L/usr/lib/gcc/x86_64-linux-gnu/11/../../.. -lstdc++ -lm -lc -lgcc_s /usr/lib/gcc/x86_64-linux-gnu/11/crtendS.o /usr/lib/gcc/x86_64-linux-gnu/11/../../../x86_64-linux-gnu/crtn.o -g -O -fopenmp -Wl,-soname -Wl,libcoot-coords.so.0 -o .libs/libcoot-coords.so.0.0.0 libtool: link: (cd ".libs" && rm -f "libcoot-coords.so.0" && ln -s "libcoot-coords.so.0.0.0" "libcoot-coords.so.0") libtool: link: (cd ".libs" && rm -f "libcoot-coords.so" && ln -s "libcoot-coords.so.0.0.0" "libcoot-coords.so") libtool: link: ( cd ".libs" && rm -f "libcoot-coords.la" && ln -s "../libcoot-coords.la" "libcoot-coords.la" ) make[1]: Leaving directory '/opt/user_software/coot/src/build-coot/coords' Making all in density-contour make[1]: Entering directory '/opt/user_software/coot/src/build-coot/density-contour' /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" -DPACKAGE_STRING=\"coot\ 1.x-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I../../coot/density-contour -I.. -I../../coot -I/opt/user_software/coot/bin-gtk4/include -DCLIPPER_HAS_TOP8000 -I/opt/user_software/coot/bin-gtk4/include -g -O -Wall -Wno-unused -std=c++17 -MT Vectors.lo -MD -MP -MF .deps/Vectors.Tpo -c -o Vectors.lo ../../coot/density-contour/Vectors.cpp /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" -DPACKAGE_STRING=\"coot\ 1.x-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I../../coot/density-contour -I.. -I../../coot -I/opt/user_software/coot/bin-gtk4/include -DCLIPPER_HAS_TOP8000 -I/opt/user_software/coot/bin-gtk4/include -g -O -Wall -Wno-unused -std=c++17 -MT CIsoSurface.lo -MD -MP -MF .deps/CIsoSurface.Tpo -c -o CIsoSurface.lo ../../coot/density-contour/CIsoSurface.cpp /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" -DPACKAGE_STRING=\"coot\ 1.x-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I../../coot/density-contour -I.. -I../../coot -I/opt/user_software/coot/bin-gtk4/include -DCLIPPER_HAS_TOP8000 -I/opt/user_software/coot/bin-gtk4/include -g -O -Wall -Wno-unused -std=c++17 -MT density-contour-triangles.lo -MD -MP -MF .deps/density-contour-triangles.Tpo -c -o density-contour-triangles.lo ../../coot/density-contour/density-contour-triangles.cc /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" -DPACKAGE_STRING=\"coot\ 1.x-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I../../coot/density-contour -I.. -I../../coot -I/opt/user_software/coot/bin-gtk4/include -DCLIPPER_HAS_TOP8000 -I/opt/user_software/coot/bin-gtk4/include -g -O -Wall -Wno-unused -std=c++17 -MT occlusion.lo -MD -MP -MF .deps/occlusion.Tpo -c -o occlusion.lo ../../coot/density-contour/occlusion.cc /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" -DPACKAGE_STRING=\"coot\ 1.x-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I../../coot/density-contour -I.. -I../../coot -I/opt/user_software/coot/bin-gtk4/include -DCLIPPER_HAS_TOP8000 -I/opt/user_software/coot/bin-gtk4/include -g -O -Wall -Wno-unused -std=c++17 -MT gaussian-surface.lo -MD -MP -MF .deps/gaussian-surface.Tpo -c -o gaussian-surface.lo ../../coot/density-contour/gaussian-surface.cc libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" "-DPACKAGE_STRING=\"coot 1.x-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I../../coot/density-contour -I.. -I../../coot -I/opt/user_software/coot/bin-gtk4/include -DCLIPPER_HAS_TOP8000 -I/opt/user_software/coot/bin-gtk4/include -g -O -Wall -Wno-unused -std=c++17 -MT occlusion.lo -MD -MP -MF .deps/occlusion.Tpo -c ../../coot/density-contour/occlusion.cc -fPIC -DPIC -o .libs/occlusion.o libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" "-DPACKAGE_STRING=\"coot 1.x-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I../../coot/density-contour -I.. -I../../coot -I/opt/user_software/coot/bin-gtk4/include -DCLIPPER_HAS_TOP8000 -I/opt/user_software/coot/bin-gtk4/include -g -O -Wall -Wno-unused -std=c++17 -MT CIsoSurface.lo -MD -MP -MF .deps/CIsoSurface.Tpo -c ../../coot/density-contour/CIsoSurface.cpp -fPIC -DPIC -o .libs/CIsoSurface.o libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" "-DPACKAGE_STRING=\"coot 1.x-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I../../coot/density-contour -I.. -I../../coot -I/opt/user_software/coot/bin-gtk4/include -DCLIPPER_HAS_TOP8000 -I/opt/user_software/coot/bin-gtk4/include -g -O -Wall -Wno-unused -std=c++17 -MT density-contour-triangles.lo -MD -MP -MF .deps/density-contour-triangles.Tpo -c ../../coot/density-contour/density-contour-triangles.cc -fPIC -DPIC -o .libs/density-contour-triangles.o libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" "-DPACKAGE_STRING=\"coot 1.x-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I../../coot/density-contour -I.. -I../../coot -I/opt/user_software/coot/bin-gtk4/include -DCLIPPER_HAS_TOP8000 -I/opt/user_software/coot/bin-gtk4/include -g -O -Wall -Wno-unused -std=c++17 -MT Vectors.lo -MD -MP -MF .deps/Vectors.Tpo -c ../../coot/density-contour/Vectors.cpp -fPIC -DPIC -o .libs/Vectors.o libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" "-DPACKAGE_STRING=\"coot 1.x-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I../../coot/density-contour -I.. -I../../coot -I/opt/user_software/coot/bin-gtk4/include -DCLIPPER_HAS_TOP8000 -I/opt/user_software/coot/bin-gtk4/include -g -O -Wall -Wno-unused -std=c++17 -MT gaussian-surface.lo -MD -MP -MF .deps/gaussian-surface.Tpo -c ../../coot/density-contour/gaussian-surface.cc -fPIC -DPIC -o .libs/gaussian-surface.o mv -f .deps/Vectors.Tpo .deps/Vectors.Plo mv -f .deps/occlusion.Tpo .deps/occlusion.Plo mv -f .deps/density-contour-triangles.Tpo .deps/density-contour-triangles.Plo ../../coot/density-contour/CIsoSurface.cpp: In member function ‘coot::CartesianPairInfo CIsoSurface::GenerateSurface_from_NXmap(const clipper::NXmap&, T, float, coot::Cartesian, int) [with T = float]’: ../../coot/density-contour/CIsoSurface.cpp:786:24: warning: ‘grid_min’ may be used uninitialized [-Wmaybe-uninitialized] 786 | clipper::Grid_range grid(grid_min, grid_max); | ^~~~ In file included from ../../coot/coords/Cartesian.h:29, from ../../coot/density-contour/CIsoSurface.h:44, from ../../coot/density-contour/CIsoSurface.cpp:55: /opt/user_software/coot/bin-gtk4/include/clipper/core/coords.h:590:5: note: by argument 2 of type ‘const clipper::Coord_grid&’ to ‘clipper::Grid_range::Grid_range(const clipper::Coord_grid&, const clipper::Coord_grid&)’ declared here 590 | Grid_range( const Coord_grid& min, const Coord_grid& max ); | ^~~~~~~~~~ ../../coot/density-contour/CIsoSurface.cpp:784:24: note: ‘grid_min’ declared here 784 | clipper::Coord_grid grid_min; | ^~~~~~~~ ../../coot/density-contour/CIsoSurface.cpp:786:24: warning: ‘grid_max’ may be used uninitialized [-Wmaybe-uninitialized] 786 | clipper::Grid_range grid(grid_min, grid_max); | ^~~~ In file included from ../../coot/coords/Cartesian.h:29, from ../../coot/density-contour/CIsoSurface.h:44, from ../../coot/density-contour/CIsoSurface.cpp:55: /opt/user_software/coot/bin-gtk4/include/clipper/core/coords.h:590:5: note: by argument 3 of type ‘const clipper::Coord_grid&’ to ‘clipper::Grid_range::Grid_range(const clipper::Coord_grid&, const clipper::Coord_grid&)’ declared here 590 | Grid_range( const Coord_grid& min, const Coord_grid& max ); | ^~~~~~~~~~ ../../coot/density-contour/CIsoSurface.cpp:785:24: note: ‘grid_max’ declared here 785 | clipper::Coord_grid grid_max; | ^~~~~~~~ mv -f .deps/CIsoSurface.Tpo .deps/CIsoSurface.Plo mv -f .deps/gaussian-surface.Tpo .deps/gaussian-surface.Plo /bin/bash ../libtool --tag=CXX --mode=link g++ -g -O -Wall -Wno-unused -std=c++17 -o libcoot-isosurface.la -rpath /opt/user_software/coot/bin-gtk4/lib Vectors.lo CIsoSurface.lo density-contour-triangles.lo occlusion.lo gaussian-surface.lo ../coords/libcoot-coords.la -L/opt/user_software/coot/bin-gtk4/lib -lclipper-ccp4 -lclipper-cif -lclipper-minimol -lclipper-mmdb -lclipper-cns -lclipper-phs -lclipper-contrib -lclipper-core -lccp4c -lmmdb2 libtool: link: g++ -fPIC -DPIC -shared -nostdlib /usr/lib/gcc/x86_64-linux-gnu/11/../../../x86_64-linux-gnu/crti.o /usr/lib/gcc/x86_64-linux-gnu/11/crtbeginS.o .libs/Vectors.o .libs/CIsoSurface.o .libs/density-contour-triangles.o .libs/occlusion.o .libs/gaussian-surface.o -Wl,-rpath -Wl,/opt/user_software/coot/src/build-coot/coords/.libs -Wl,-rpath -Wl,/opt/user_software/coot/src/build-coot/ligand/.libs -Wl,-rpath -Wl,/opt/user_software/coot/src/build-coot/ideal/.libs -Wl,-rpath -Wl,/opt/user_software/coot/src/build-coot/coot-utils/.libs -Wl,-rpath -Wl,/opt/user_software/coot/src/build-coot/db-main/.libs -Wl,-rpath -Wl,/opt/user_software/coot/src/build-coot/ccp4mg-utils/.libs -Wl,-rpath -Wl,/opt/user_software/coot/src/build-coot/analysis/.libs -Wl,-rpath -Wl,/opt/user_software/coot/src/build-coot/protein_db/.libs -Wl,-rpath -Wl,/opt/user_software/coot/bin-gtk4/lib -Wl,-rpath -Wl,/opt/user_software/coot/src/build-coot/cootaneer/.libs -Wl,-rpath -Wl,/opt/user_software/coot/src/build-coot/lidia-core/.libs -Wl,-rpath -Wl,/opt/user_software/coot/src/build-coot/geometry/.libs -Wl,-rpath -Wl,/opt/user_software/coot/src/build-coot/compat/.libs -Wl,-rpath -Wl,/opt/user_software/coot/src/build-coot/mini-mol/.libs -Wl,-rpath -Wl,/opt/user_software/coot/src/build-coot/utils/.libs -Wl,-rpath -Wl,/opt/user_software/coot/bin-gtk4/lib -L/opt/user_software/coot/src/build-coot/ligand/.libs -L/opt/user_software/coot/src/build-coot/ideal/.libs -L/opt/user_software/coot/src/build-coot/coot-utils/.libs -L/opt/user_software/coot/src/build-coot/db-main/.libs -L/opt/user_software/coot/src/build-coot/ccp4mg-utils/.libs -L/opt/user_software/coot/src/build-coot/analysis/.libs -L/opt/user_software/coot/src/build-coot/protein_db/.libs -L/opt/user_software/coot/src/build-coot/cootaneer/.libs -L/opt/user_software/coot/src/build-coot/lidia-core/.libs -L/opt/user_software/coot/src/build-coot/geometry/.libs -L/opt/user_software/coot/src/build-coot/compat/.libs -L/opt/user_software/coot/src/build-coot/mini-mol/.libs -L/opt/user_software/coot/src/build-coot/utils/.libs ../coords/.libs/libcoot-coords.so -L/opt/user_software/coot/bin-gtk4/lib -L=/opt/user_software/coot/bin-gtk4/lib:-L/opt/user_software/coot/bin-gtk4/lib: /opt/user_software/coot/src/build-coot/ligand/.libs/libcoot-ligand.so /opt/user_software/coot/src/build-coot/ideal/.libs/libcoot-ideal.so /opt/user_software/coot/src/build-coot/coot-utils/.libs/libcoot-map-heavy.so /opt/user_software/coot/src/build-coot/db-main/.libs/libcoot-db-main.so /opt/user_software/coot/src/build-coot/ccp4mg-utils/.libs/libccp4mg-utils.so -lpng16 /opt/user_software/coot/src/build-coot/analysis/.libs/libcoot-analysis.so /opt/user_software/coot/src/build-coot/coot-utils/.libs/libcoot-map-utils.so -lz /opt/user_software/coot/src/build-coot/coot-utils/.libs/libcoot-coord-extras.so /opt/user_software/coot/src/build-coot/coot-utils/.libs/libcoot-coord-utils.so /opt/user_software/coot/src/build-coot/protein_db/.libs/libcoot-protein-db.so /opt/user_software/coot/bin-gtk4/lib/libgsl.so /opt/user_software/coot/bin-gtk4/lib/libgslcblas.so /opt/user_software/coot/src/build-coot/cootaneer/.libs/libcootaneer.so /opt/user_software/coot/src/build-coot/lidia-core/.libs/libcoot-lidia-core.so /opt/user_software/coot/src/build-coot/geometry/.libs/libcoot-geometry.so /opt/user_software/coot/src/build-coot/compat/.libs/libcoot-compat.so /opt/user_software/coot/src/build-coot/mini-mol/.libs/libcoot-mini-mol.so -lRDKitMolDraw2D -lRDKitForceFieldHelpers -lRDKitDescriptors -lRDKitForceField -lRDKitSubstructMatch -lRDKitOptimizer -lRDKitDistGeomHelpers -lRDKitDistGeometry -lRDKitChemReactions -lRDKitAlignment -lRDKitEigenSolvers -lRDKitDepictor -lRDKitcoordgen -lRDKitMolChemicalFeatures -lRDKitFileParsers -lRDKitRDGeometryLib -lRDKitGraphMol -lRDKitShapeHelpers -lRDKitFingerprints -lRDKitMolAlign -lRDKitMolTransforms -lRDKitChemTransforms -lRDKitSmilesParse -lRDKitGenericGroups -lRDKitRingDecomposerLib -lRDKitFilterCatalog -lRDKitCatalogs -lRDKitSubgraphs -lRDKitPartialCharges -lRDKitRDGeneral -lRDKitDataStructs -lboost_serialization -lboost_iostreams /opt/user_software/coot/src/build-coot/utils/.libs/libcoot-utils.so /opt/user_software/coot/bin-gtk4/lib/libclipper-ccp4.so /opt/user_software/coot/bin-gtk4/lib/libclipper-cif.so /opt/user_software/coot/bin-gtk4/lib/libclipper-minimol.so /opt/user_software/coot/bin-gtk4/lib/libclipper-mmdb.so /opt/user_software/coot/bin-gtk4/lib/libclipper-cns.so /opt/user_software/coot/bin-gtk4/lib/libclipper-phs.so /opt/user_software/coot/bin-gtk4/lib/libclipper-contrib.so /opt/user_software/coot/bin-gtk4/lib/libclipper-core.so /opt/user_software/coot/bin-gtk4/lib/librfftw.so /opt/user_software/coot/bin-gtk4/lib/libfftw.so -lpthread /opt/user_software/coot/bin-gtk4/lib/libccp4c.so /opt/user_software/coot/bin-gtk4/lib/libmmdb2.so -L/usr/lib/gcc/x86_64-linux-gnu/11 -L/usr/lib/gcc/x86_64-linux-gnu/11/../../../x86_64-linux-gnu -L/usr/lib/gcc/x86_64-linux-gnu/11/../../../../lib -L/lib/x86_64-linux-gnu -L/lib/../lib -L/usr/lib/x86_64-linux-gnu -L/usr/lib/../lib -L/usr/lib/gcc/x86_64-linux-gnu/11/../../.. -lstdc++ -lm -lc -lgcc_s /usr/lib/gcc/x86_64-linux-gnu/11/crtendS.o /usr/lib/gcc/x86_64-linux-gnu/11/../../../x86_64-linux-gnu/crtn.o -g -O -fopenmp -Wl,-soname -Wl,libcoot-isosurface.so.0 -o .libs/libcoot-isosurface.so.0.0.0 libtool: link: (cd ".libs" && rm -f "libcoot-isosurface.so.0" && ln -s "libcoot-isosurface.so.0.0.0" "libcoot-isosurface.so.0") libtool: link: (cd ".libs" && rm -f "libcoot-isosurface.so" && ln -s "libcoot-isosurface.so.0.0.0" "libcoot-isosurface.so") libtool: link: ( cd ".libs" && rm -f "libcoot-isosurface.la" && ln -s "../libcoot-isosurface.la" "libcoot-isosurface.la" ) make[1]: Leaving directory '/opt/user_software/coot/src/build-coot/density-contour' Making all in skeleton make[1]: Entering directory '/opt/user_software/coot/src/build-coot/skeleton' /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" -DPACKAGE_STRING=\"coot\ 1.x-pre\" 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-DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I../../coot/skeleton -I../../coot -I/opt/user_software/coot/bin-gtk4/include -DMMDB_HAS_LINK_DISTANCE -I/opt/user_software/coot/bin-gtk4/include -DCLIPPER_HAS_TOP8000 -I/opt/user_software/coot/bin-gtk4/include -g -O -Wall -Wno-unused -std=c++17 -MT BuildCas.lo -MD -MP -MF .deps/BuildCas.Tpo -c ../../coot/skeleton/BuildCas.cc -fPIC -DPIC -o .libs/BuildCas.o libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" "-DPACKAGE_STRING=\"coot 1.x-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I../../coot/skeleton -I../../coot -I/opt/user_software/coot/bin-gtk4/include -DMMDB_HAS_LINK_DISTANCE -I/opt/user_software/coot/bin-gtk4/include -DCLIPPER_HAS_TOP8000 -I/opt/user_software/coot/bin-gtk4/include -g -O -Wall -Wno-unused -std=c++17 -MT dm-utils.lo -MD -MP -MF .deps/dm-utils.Tpo -c ../../coot/skeleton/dm-utils.cc -fPIC -DPIC -o .libs/dm-utils.o libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" "-DPACKAGE_STRING=\"coot 1.x-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I../../coot/skeleton -I../../coot -I/opt/user_software/coot/bin-gtk4/include -DMMDB_HAS_LINK_DISTANCE -I/opt/user_software/coot/bin-gtk4/include -DCLIPPER_HAS_TOP8000 -I/opt/user_software/coot/bin-gtk4/include -g -O -Wall -Wno-unused -std=c++17 -MT graphical_skel.lo -MD -MP -MF .deps/graphical_skel.Tpo -c ../../coot/skeleton/graphical_skel.cc -fPIC -DPIC -o .libs/graphical_skel.o mv -f .deps/dm-utils.Tpo .deps/dm-utils.Plo mv -f .deps/graphical_skel.Tpo .deps/graphical_skel.Plo mv -f .deps/BuildCas.Tpo .deps/BuildCas.Plo /bin/bash ../libtool --tag=CXX --mode=link g++ -g -O -Wall -Wno-unused -std=c++17 -o libcoot-skeleton.la -rpath /opt/user_software/coot/bin-gtk4/lib dm-utils.lo graphical_skel.lo BuildCas.lo ../angles/libcoot-AngleInfo.la ../ideal/libcoot-ideal.la ../geometry/libcoot-geometry.la ../coords/libcoot-coords.la -L/opt/user_software/coot/bin-gtk4/lib -lclipper-ccp4 -lclipper-cif -lclipper-minimol -lclipper-mmdb -lclipper-cns -lclipper-phs -lclipper-contrib -lclipper-core -lccp4c -lmmdb2 -L/opt/user_software/coot/bin-gtk4/lib -lmmdb2 libtool: link: g++ -fPIC -DPIC -shared -nostdlib /usr/lib/gcc/x86_64-linux-gnu/11/../../../x86_64-linux-gnu/crti.o /usr/lib/gcc/x86_64-linux-gnu/11/crtbeginS.o .libs/dm-utils.o .libs/graphical_skel.o .libs/BuildCas.o -Wl,-rpath -Wl,/opt/user_software/coot/src/build-coot/angles/.libs -Wl,-rpath -Wl,/opt/user_software/coot/src/build-coot/ideal/.libs -Wl,-rpath -Wl,/opt/user_software/coot/src/build-coot/geometry/.libs -Wl,-rpath -Wl,/opt/user_software/coot/src/build-coot/coords/.libs -Wl,-rpath -Wl,/opt/user_software/coot/src/build-coot/ligand/.libs -Wl,-rpath -Wl,/opt/user_software/coot/src/build-coot/coot-utils/.libs -Wl,-rpath -Wl,/opt/user_software/coot/src/build-coot/db-main/.libs -Wl,-rpath -Wl,/opt/user_software/coot/src/build-coot/ccp4mg-utils/.libs -Wl,-rpath -Wl,/opt/user_software/coot/src/build-coot/analysis/.libs -Wl,-rpath -Wl,/opt/user_software/coot/src/build-coot/protein_db/.libs -Wl,-rpath -Wl,/opt/user_software/coot/bin-gtk4/lib -Wl,-rpath -Wl,/opt/user_software/coot/src/build-coot/cootaneer/.libs -Wl,-rpath -Wl,/opt/user_software/coot/src/build-coot/lidia-core/.libs -Wl,-rpath -Wl,/opt/user_software/coot/src/build-coot/compat/.libs -Wl,-rpath -Wl,/opt/user_software/coot/src/build-coot/mini-mol/.libs -Wl,-rpath -Wl,/opt/user_software/coot/src/build-coot/utils/.libs -Wl,-rpath -Wl,/opt/user_software/coot/bin-gtk4/lib -L/opt/user_software/coot/src/build-coot/ideal/.libs -L/opt/user_software/coot/src/build-coot/geometry/.libs -L/opt/user_software/coot/src/build-coot/ligand/.libs -L/opt/user_software/coot/src/build-coot/coot-utils/.libs -L/opt/user_software/coot/src/build-coot/db-main/.libs -L/opt/user_software/coot/src/build-coot/ccp4mg-utils/.libs -L/opt/user_software/coot/src/build-coot/analysis/.libs -L/opt/user_software/coot/src/build-coot/protein_db/.libs -L/opt/user_software/coot/src/build-coot/cootaneer/.libs -L/opt/user_software/coot/src/build-coot/lidia-core/.libs -L/opt/user_software/coot/src/build-coot/compat/.libs -L/opt/user_software/coot/src/build-coot/mini-mol/.libs -L/opt/user_software/coot/src/build-coot/utils/.libs ../angles/.libs/libcoot-AngleInfo.so ../ideal/.libs/libcoot-ideal.so -L/opt/user_software/coot/bin-gtk4/lib -L=/opt/user_software/coot/bin-gtk4/lib:-L/opt/user_software/coot/bin-gtk4/lib: ../geometry/.libs/libcoot-geometry.so ../coords/.libs/libcoot-coords.so /opt/user_software/coot/src/build-coot/ligand/.libs/libcoot-ligand.so /opt/user_software/coot/src/build-coot/ideal/.libs/libcoot-ideal.so /opt/user_software/coot/src/build-coot/coot-utils/.libs/libcoot-map-heavy.so /opt/user_software/coot/src/build-coot/db-main/.libs/libcoot-db-main.so /opt/user_software/coot/src/build-coot/ccp4mg-utils/.libs/libccp4mg-utils.so -lpng16 /opt/user_software/coot/src/build-coot/analysis/.libs/libcoot-analysis.so /opt/user_software/coot/src/build-coot/coot-utils/.libs/libcoot-map-utils.so -lz /opt/user_software/coot/src/build-coot/coot-utils/.libs/libcoot-coord-extras.so /opt/user_software/coot/src/build-coot/coot-utils/.libs/libcoot-coord-utils.so /opt/user_software/coot/src/build-coot/protein_db/.libs/libcoot-protein-db.so /opt/user_software/coot/bin-gtk4/lib/libgsl.so /opt/user_software/coot/bin-gtk4/lib/libgslcblas.so /opt/user_software/coot/src/build-coot/cootaneer/.libs/libcootaneer.so /opt/user_software/coot/src/build-coot/lidia-core/.libs/libcoot-lidia-core.so /opt/user_software/coot/src/build-coot/geometry/.libs/libcoot-geometry.so /opt/user_software/coot/src/build-coot/compat/.libs/libcoot-compat.so /opt/user_software/coot/src/build-coot/mini-mol/.libs/libcoot-mini-mol.so -lRDKitMolDraw2D -lRDKitForceFieldHelpers -lRDKitDescriptors -lRDKitForceField -lRDKitSubstructMatch -lRDKitOptimizer -lRDKitDistGeomHelpers -lRDKitDistGeometry -lRDKitChemReactions -lRDKitAlignment -lRDKitEigenSolvers -lRDKitDepictor -lRDKitcoordgen -lRDKitMolChemicalFeatures -lRDKitFileParsers -lRDKitRDGeometryLib -lRDKitGraphMol -lRDKitShapeHelpers -lRDKitFingerprints -lRDKitMolAlign -lRDKitMolTransforms -lRDKitChemTransforms -lRDKitSmilesParse -lRDKitGenericGroups -lRDKitRingDecomposerLib -lRDKitFilterCatalog -lRDKitCatalogs -lRDKitSubgraphs -lRDKitPartialCharges -lRDKitRDGeneral -lRDKitDataStructs -lboost_serialization -lboost_iostreams /opt/user_software/coot/src/build-coot/utils/.libs/libcoot-utils.so /opt/user_software/coot/bin-gtk4/lib/libclipper-ccp4.so /opt/user_software/coot/bin-gtk4/lib/libclipper-cif.so /opt/user_software/coot/bin-gtk4/lib/libclipper-minimol.so /opt/user_software/coot/bin-gtk4/lib/libclipper-mmdb.so /opt/user_software/coot/bin-gtk4/lib/libclipper-cns.so /opt/user_software/coot/bin-gtk4/lib/libclipper-phs.so /opt/user_software/coot/bin-gtk4/lib/libclipper-contrib.so /opt/user_software/coot/bin-gtk4/lib/libclipper-core.so /opt/user_software/coot/bin-gtk4/lib/librfftw.so /opt/user_software/coot/bin-gtk4/lib/libfftw.so -lpthread /opt/user_software/coot/bin-gtk4/lib/libccp4c.so /opt/user_software/coot/bin-gtk4/lib/libmmdb2.so -L/usr/lib/gcc/x86_64-linux-gnu/11 -L/usr/lib/gcc/x86_64-linux-gnu/11/../../../x86_64-linux-gnu -L/usr/lib/gcc/x86_64-linux-gnu/11/../../../../lib -L/lib/x86_64-linux-gnu -L/lib/../lib -L/usr/lib/x86_64-linux-gnu -L/usr/lib/../lib -L/usr/lib/gcc/x86_64-linux-gnu/11/../../.. -lstdc++ -lm -lc -lgcc_s /usr/lib/gcc/x86_64-linux-gnu/11/crtendS.o /usr/lib/gcc/x86_64-linux-gnu/11/../../../x86_64-linux-gnu/crtn.o -g -O -fopenmp -Wl,-soname -Wl,libcoot-skeleton.so.0 -o .libs/libcoot-skeleton.so.0.0.0 libtool: link: (cd ".libs" && rm -f "libcoot-skeleton.so.0" && ln -s "libcoot-skeleton.so.0.0.0" "libcoot-skeleton.so.0") libtool: link: (cd ".libs" && rm -f "libcoot-skeleton.so" && ln -s "libcoot-skeleton.so.0.0.0" "libcoot-skeleton.so") libtool: link: ( cd ".libs" && rm -f "libcoot-skeleton.la" && ln -s "../libcoot-skeleton.la" "libcoot-skeleton.la" ) make[1]: Leaving directory '/opt/user_software/coot/src/build-coot/skeleton' Making all in high-res make[1]: Entering directory '/opt/user_software/coot/src/build-coot/high-res' /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" -DPACKAGE_STRING=\"coot\ 1.x-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 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"-DPACKAGE_STRING=\"coot 1.x-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I../../coot/high-res -I../../coot -I/opt/user_software/coot/bin-gtk4/include -DMMDB_HAS_LINK_DISTANCE -I/opt/user_software/coot/bin-gtk4/include -DCLIPPER_HAS_TOP8000 -I/opt/user_software/coot/bin-gtk4/include -DHAVE_GSL -I/opt/user_software/coot/bin-gtk4/include -g -O -Wall -Wno-unused -std=c++17 -MT residue-distortions.lo -MD -MP -MF .deps/residue-distortions.Tpo -c ../../coot/high-res/residue-distortions.cc -fPIC -DPIC -o .libs/residue-distortions.o libtool: compile: g++ 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-DPIC -o .libs/sequence-assignment.o libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" "-DPACKAGE_STRING=\"coot 1.x-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I../../coot/high-res -I../../coot -I/opt/user_software/coot/bin-gtk4/include -DMMDB_HAS_LINK_DISTANCE -I/opt/user_software/coot/bin-gtk4/include -DCLIPPER_HAS_TOP8000 -I/opt/user_software/coot/bin-gtk4/include -DHAVE_GSL -I/opt/user_software/coot/bin-gtk4/include -g -O -Wall -Wno-unused -std=c++17 -MT coot-atom-graph.lo -MD -MP -MF .deps/coot-atom-graph.Tpo -c ../../coot/high-res/coot-atom-graph.cc -fPIC -DPIC -o .libs/coot-atom-graph.o mv -f .deps/residue-distortions.Tpo .deps/residue-distortions.Plo mv -f .deps/sequence-assignment.Tpo .deps/sequence-assignment.Plo mv -f .deps/coot-atom-graph.Tpo .deps/coot-atom-graph.Plo mv -f .deps/high-res.Tpo .deps/high-res.Plo /bin/bash ../libtool --tag=CXX --mode=link g++ -DHAVE_GSL -I/opt/user_software/coot/bin-gtk4/include -g -O -Wall -Wno-unused -std=c++17 -o libcoot-high-res.la -rpath /opt/user_software/coot/bin-gtk4/lib high-res.lo coot-atom-graph.lo residue-distortions.lo sequence-assignment.lo ../coot-utils/libcoot-coord-utils.la ../coords/libcoot-coords.la ../ligand/libcoot-ligand.la ../coot-utils/libcoot-map-utils.la ../lidia-core/libcoot-lidia-core.la ../mini-mol/libcoot-mini-mol.la ../utils/libcoot-utils.la -L/opt/user_software/coot/bin-gtk4/lib -lclipper-ccp4 -lclipper-cif -lclipper-minimol -lclipper-mmdb -lclipper-cns -lclipper-phs -lclipper-contrib -lclipper-core -lccp4c -lmmdb2 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-L/opt/user_software/coot/src/build-coot/mini-mol/.libs -L/opt/user_software/coot/src/build-coot/utils/.libs ../coot-utils/.libs/libcoot-coord-utils.so -L/opt/user_software/coot/bin-gtk4/lib -L=/opt/user_software/coot/bin-gtk4/lib:-L/opt/user_software/coot/bin-gtk4/lib: ../coords/.libs/libcoot-coords.so /opt/user_software/coot/src/build-coot/ligand/.libs/libcoot-ligand.so ../ligand/.libs/libcoot-ligand.so /opt/user_software/coot/src/build-coot/ideal/.libs/libcoot-ideal.so /opt/user_software/coot/src/build-coot/coot-utils/.libs/libcoot-map-heavy.so /opt/user_software/coot/src/build-coot/cootaneer/.libs/libcootaneer.so /opt/user_software/coot/src/build-coot/db-main/.libs/libcoot-db-main.so /opt/user_software/coot/src/build-coot/ccp4mg-utils/.libs/libccp4mg-utils.so -lpng16 /opt/user_software/coot/src/build-coot/coot-utils/.libs/libcoot-coord-extras.so /opt/user_software/coot/src/build-coot/analysis/.libs/libcoot-analysis.so /opt/user_software/coot/src/build-coot/coot-utils/.libs/libcoot-map-utils.so ../coot-utils/.libs/libcoot-map-utils.so /opt/user_software/coot/src/build-coot/coot-utils/.libs/libcoot-coord-utils.so /opt/user_software/coot/src/build-coot/protein_db/.libs/libcoot-protein-db.so /opt/user_software/coot/src/build-coot/lidia-core/.libs/libcoot-lidia-core.so /opt/user_software/coot/bin-gtk4/lib/libgsl.so /opt/user_software/coot/bin-gtk4/lib/libgslcblas.so -lz ../lidia-core/.libs/libcoot-lidia-core.so /opt/user_software/coot/src/build-coot/geometry/.libs/libcoot-geometry.so /opt/user_software/coot/src/build-coot/compat/.libs/libcoot-compat.so /opt/user_software/coot/src/build-coot/mini-mol/.libs/libcoot-mini-mol.so -lRDKitMolDraw2D -lRDKitForceFieldHelpers -lRDKitDescriptors -lRDKitForceField -lRDKitSubstructMatch -lRDKitOptimizer -lRDKitDistGeomHelpers -lRDKitDistGeometry -lRDKitChemReactions -lRDKitAlignment -lRDKitEigenSolvers -lRDKitDepictor -lRDKitcoordgen -lRDKitMolChemicalFeatures -lRDKitFileParsers -lRDKitRDGeometryLib -lRDKitGraphMol -lRDKitShapeHelpers -lRDKitFingerprints -lRDKitMolAlign -lRDKitMolTransforms -lRDKitChemTransforms -lRDKitSmilesParse -lRDKitGenericGroups -lRDKitRingDecomposerLib -lRDKitFilterCatalog -lRDKitCatalogs -lRDKitSubgraphs -lRDKitPartialCharges -lRDKitRDGeneral -lRDKitDataStructs -lboost_serialization -lboost_iostreams ../mini-mol/.libs/libcoot-mini-mol.so /opt/user_software/coot/src/build-coot/utils/.libs/libcoot-utils.so ../utils/.libs/libcoot-utils.so /opt/user_software/coot/bin-gtk4/lib/libclipper-ccp4.so /opt/user_software/coot/bin-gtk4/lib/libclipper-cif.so /opt/user_software/coot/bin-gtk4/lib/libclipper-minimol.so /opt/user_software/coot/bin-gtk4/lib/libclipper-mmdb.so /opt/user_software/coot/bin-gtk4/lib/libclipper-cns.so /opt/user_software/coot/bin-gtk4/lib/libclipper-phs.so /opt/user_software/coot/bin-gtk4/lib/libclipper-contrib.so /opt/user_software/coot/bin-gtk4/lib/libclipper-core.so 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&& ln -s "../libcoot-high-res.la" "libcoot-high-res.la" ) make[1]: Leaving directory '/opt/user_software/coot/src/build-coot/high-res' Making all in build make[1]: Entering directory '/opt/user_software/coot/src/build-coot/build' /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" -DPACKAGE_STRING=\"coot\ 1.x-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I../../coot/build -I../../coot -I/opt/user_software/coot/bin-gtk4/include -DCLIPPER_HAS_TOP8000 -I/opt/user_software/coot/bin-gtk4/include 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-I/opt/user_software/coot/bin-gtk4/include -g -O -Wall -Wno-unused -std=c++17 -MT CalphaBuild.lo -MD -MP -MF .deps/CalphaBuild.Tpo -c ../../coot/build/CalphaBuild.cc -fPIC -DPIC -o .libs/CalphaBuild.o mv -f .deps/CalphaBuild.Tpo .deps/CalphaBuild.Plo /bin/bash ../libtool --tag=CXX --mode=link g++ -g -O -Wall -Wno-unused -std=c++17 -o libcoot-cabuild.la -rpath /opt/user_software/coot/bin-gtk4/lib CalphaBuild.lo ../angles/libcoot-AngleInfo.la -L/opt/user_software/coot/bin-gtk4/lib -lclipper-ccp4 -lclipper-cif -lclipper-minimol -lclipper-mmdb -lclipper-cns -lclipper-phs -lclipper-contrib -lclipper-core -lccp4c -lmmdb2 libtool: link: g++ -fPIC -DPIC -shared -nostdlib /usr/lib/gcc/x86_64-linux-gnu/11/../../../x86_64-linux-gnu/crti.o /usr/lib/gcc/x86_64-linux-gnu/11/crtbeginS.o .libs/CalphaBuild.o -Wl,-rpath -Wl,/opt/user_software/coot/src/build-coot/angles/.libs -Wl,-rpath -Wl,/opt/user_software/coot/bin-gtk4/lib -Wl,-rpath -Wl,/opt/user_software/coot/bin-gtk4/lib 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-L/usr/lib/x86_64-linux-gnu -L/usr/lib/../lib -L/usr/lib/gcc/x86_64-linux-gnu/11/../../.. -lstdc++ -lm -lc -lgcc_s /usr/lib/gcc/x86_64-linux-gnu/11/crtendS.o /usr/lib/gcc/x86_64-linux-gnu/11/../../../x86_64-linux-gnu/crtn.o -g -O -Wl,-soname -Wl,libcoot-cabuild.so.0 -o .libs/libcoot-cabuild.so.0.0.0 libtool: link: (cd ".libs" && rm -f "libcoot-cabuild.so.0" && ln -s "libcoot-cabuild.so.0.0.0" "libcoot-cabuild.so.0") libtool: link: (cd ".libs" && rm -f "libcoot-cabuild.so" && ln -s "libcoot-cabuild.so.0.0.0" "libcoot-cabuild.so") libtool: link: ( cd ".libs" && rm -f "libcoot-cabuild.la" && ln -s "../libcoot-cabuild.la" "libcoot-cabuild.la" ) make[1]: Leaving directory '/opt/user_software/coot/src/build-coot/build' Making all in MoleculesToTriangles make[1]: Entering directory '/opt/user_software/coot/src/build-coot/MoleculesToTriangles' Making all in CXXSurface make[2]: Entering directory '/opt/user_software/coot/src/build-coot/MoleculesToTriangles/CXXSurface' /bin/bash ../../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" -DPACKAGE_STRING=\"coot\ 1.x-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I../../../coot/MoleculesToTriangles/CXXSurface -I/opt/user_software/coot/bin-gtk4/include -fopenmp -g -O -Wall -Wno-unused -std=c++17 -MT CXXCircle.lo -MD -MP -MF .deps/CXXCircle.Tpo -c -o CXXCircle.lo ../../../coot/MoleculesToTriangles/CXXSurface/CXXCircle.cpp /bin/bash ../../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" 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.deps/CXXCircle.Tpo -c ../../../coot/MoleculesToTriangles/CXXSurface/CXXCircle.cpp -fPIC -DPIC -o .libs/CXXCircle.o libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" "-DPACKAGE_STRING=\"coot 1.x-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I../../../coot/MoleculesToTriangles/CXXSurface -I/opt/user_software/coot/bin-gtk4/include -fopenmp -g -O -Wall -Wno-unused -std=c++17 -MT CXXFortranFile.lo -MD -MP -MF .deps/CXXFortranFile.Tpo -c ../../../coot/MoleculesToTriangles/CXXSurface/CXXFortranFile.cpp -fPIC -DPIC -o .libs/CXXFortranFile.o libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" "-DPACKAGE_STRING=\"coot 1.x-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I../../../coot/MoleculesToTriangles/CXXSurface -I/opt/user_software/coot/bin-gtk4/include -fopenmp -g -O -Wall -Wno-unused -std=c++17 -MT CXXSphereTriangle.lo -MD -MP -MF .deps/CXXSphereTriangle.Tpo -c ../../../coot/MoleculesToTriangles/CXXSurface/CXXSphereTriangle.cpp -fPIC -DPIC -o .libs/CXXSphereTriangle.o libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" "-DPACKAGE_STRING=\"coot 1.x-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I../../../coot/MoleculesToTriangles/CXXSurface -I/opt/user_software/coot/bin-gtk4/include -fopenmp -g -O -Wall -Wno-unused -std=c++17 -MT CXXNewHood.lo -MD -MP -MF .deps/CXXNewHood.Tpo -c ../../../coot/MoleculesToTriangles/CXXSurface/CXXNewHood.cpp -fPIC -DPIC -o .libs/CXXNewHood.o libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" "-DPACKAGE_STRING=\"coot 1.x-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I../../../coot/MoleculesToTriangles/CXXSurface -I/opt/user_software/coot/bin-gtk4/include -fopenmp -g -O -Wall -Wno-unused -std=c++17 -MT CXXCircleNode.lo -MD -MP -MF .deps/CXXCircleNode.Tpo -c ../../../coot/MoleculesToTriangles/CXXSurface/CXXCircleNode.cpp -fPIC -DPIC -o .libs/CXXCircleNode.o libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" "-DPACKAGE_STRING=\"coot 1.x-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I../../../coot/MoleculesToTriangles/CXXSurface -I/opt/user_software/coot/bin-gtk4/include -fopenmp -g -O -Wall -Wno-unused -std=c++17 -MT CXXSphereElement.lo -MD -MP -MF .deps/CXXSphereElement.Tpo -c ../../../coot/MoleculesToTriangles/CXXSurface/CXXSphereElement.cpp -fPIC -DPIC -o .libs/CXXSphereElement.o libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" "-DPACKAGE_STRING=\"coot 1.x-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I../../../coot/MoleculesToTriangles/CXXSurface -I/opt/user_software/coot/bin-gtk4/include -fopenmp -g -O -Wall -Wno-unused -std=c++17 -MT CXXSphereNode.lo -MD -MP -MF .deps/CXXSphereNode.Tpo -c ../../../coot/MoleculesToTriangles/CXXSurface/CXXSphereNode.cpp -fPIC -DPIC -o .libs/CXXSphereNode.o ../../../coot/MoleculesToTriangles/CXXSurface/CXXFortranFile.cpp: In member function ‘size_t CXXFortranFile::getFortranData(char*, size_t, size_t, int)’: ../../../coot/MoleculesToTriangles/CXXSurface/CXXFortranFile.cpp:190:20: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const size_t’ {aka ‘const long unsigned int’} [-Wsign-compare] 190 | for (int i=0; i&)’: ../../../coot/MoleculesToTriangles/CXXSurface/CXXSphereElement.cpp:671:24: warning: comparison of integer expressions of different signedness: ‘int’ and ‘size_t’ {aka ‘long unsigned int’} [-Wsign-compare] 671 | for (int i=0; i&, double, std::map >&)’: ../../../coot/MoleculesToTriangles/CXXSurface/CXXCircleNode.cpp:174:59: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<__gnu_cxx::__normal_iterator > >::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 174 | for (int iCentralProbe = 0; iCentralProbe < centralBin.size(); iCentralProbe++){ | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~ libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" "-DPACKAGE_STRING=\"coot 1.x-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I../../../coot/MoleculesToTriangles/CXXSurface -I/opt/user_software/coot/bin-gtk4/include -fopenmp -g -O -Wall -Wno-unused -std=c++17 -MT CXXSphereTriangleEdge.lo -MD -MP -MF .deps/CXXSphereTriangleEdge.Tpo -c ../../../coot/MoleculesToTriangles/CXXSurface/CXXSphereTriangleEdge.cpp -fPIC -DPIC -o .libs/CXXSphereTriangleEdge.o libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" "-DPACKAGE_STRING=\"coot 1.x-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I../../../coot/MoleculesToTriangles/CXXSurface -I/opt/user_software/coot/bin-gtk4/include -fopenmp -g -O -Wall -Wno-unused -std=c++17 -MT CXXSurface.lo -MD -MP -MF .deps/CXXSurface.Tpo -c ../../../coot/MoleculesToTriangles/CXXSurface/CXXSurface.cpp -fPIC -DPIC -o .libs/CXXSurface.o libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" "-DPACKAGE_STRING=\"coot 1.x-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I../../../coot/MoleculesToTriangles/CXXSurface -I/opt/user_software/coot/bin-gtk4/include -fopenmp -g -O -Wall -Wno-unused -std=c++17 -MT CXXSurfaceVertex.lo -MD -MP -MF .deps/CXXSurfaceVertex.Tpo -c ../../../coot/MoleculesToTriangles/CXXSurface/CXXSurfaceVertex.cpp -fPIC -DPIC -o .libs/CXXSurfaceVertex.o mv -f .deps/CXXCircle.Tpo .deps/CXXCircle.Plo /bin/bash ../../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" -DPACKAGE_STRING=\"coot\ 1.x-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I../../../coot/MoleculesToTriangles/CXXSurface -I/opt/user_software/coot/bin-gtk4/include -fopenmp -g -O -Wall -Wno-unused -std=c++17 -MT CXXTorusNode.lo -MD -MP -MF .deps/CXXTorusNode.Tpo -c -o CXXTorusNode.lo ../../../coot/MoleculesToTriangles/CXXSurface/CXXTorusNode.cpp libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" "-DPACKAGE_STRING=\"coot 1.x-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I../../../coot/MoleculesToTriangles/CXXSurface -I/opt/user_software/coot/bin-gtk4/include -fopenmp -g -O -Wall -Wno-unused -std=c++17 -MT CXXTorusElement.lo -MD -MP -MF .deps/CXXTorusElement.Tpo -c ../../../coot/MoleculesToTriangles/CXXSurface/CXXTorusElement.cpp -fPIC -DPIC -o .libs/CXXTorusElement.o mv -f .deps/CXXNewHood.Tpo .deps/CXXNewHood.Plo /bin/bash ../../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" -DPACKAGE_STRING=\"coot\ 1.x-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I../../../coot/MoleculesToTriangles/CXXSurface -I/opt/user_software/coot/bin-gtk4/include -fopenmp -g -O -Wall -Wno-unused -std=c++17 -MT CXXTriangle.lo -MD -MP -MF .deps/CXXTriangle.Tpo -c -o CXXTriangle.lo ../../../coot/MoleculesToTriangles/CXXSurface/CXXTriangle.cpp libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" "-DPACKAGE_STRING=\"coot 1.x-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I../../../coot/MoleculesToTriangles/CXXSurface -I/opt/user_software/coot/bin-gtk4/include -fopenmp -g -O -Wall -Wno-unused -std=c++17 -MT CXXTorusNode.lo -MD -MP -MF .deps/CXXTorusNode.Tpo -c ../../../coot/MoleculesToTriangles/CXXSurface/CXXTorusNode.cpp -fPIC -DPIC -o .libs/CXXTorusNode.o mv -f .deps/CXXSurfaceVertex.Tpo .deps/CXXSurfaceVertex.Plo /bin/bash ../../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" -DPACKAGE_STRING=\"coot\ 1.x-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I../../../coot/MoleculesToTriangles/CXXSurface -I/opt/user_software/coot/bin-gtk4/include -fopenmp -g -O -Wall -Wno-unused -std=c++17 -MT CXXQADSurface.lo -MD -MP -MF .deps/CXXQADSurface.Tpo -c -o CXXQADSurface.lo ../../../coot/MoleculesToTriangles/CXXSurface/CXXQADSurface.cpp libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" "-DPACKAGE_STRING=\"coot 1.x-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I../../../coot/MoleculesToTriangles/CXXSurface -I/opt/user_software/coot/bin-gtk4/include -fopenmp -g -O -Wall -Wno-unused -std=c++17 -MT CXXTriangle.lo -MD -MP -MF .deps/CXXTriangle.Tpo -c ../../../coot/MoleculesToTriangles/CXXSurface/CXXTriangle.cpp -fPIC -DPIC -o .libs/CXXTriangle.o mv -f .deps/CXXSphereTriangleEdge.Tpo .deps/CXXSphereTriangleEdge.Plo /bin/bash ../../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" -DPACKAGE_STRING=\"coot\ 1.x-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I../../../coot/MoleculesToTriangles/CXXSurface -I/opt/user_software/coot/bin-gtk4/include -fopenmp -g -O -Wall -Wno-unused -std=c++17 -MT CXXQADSurfaceStaticData.lo -MD -MP -MF .deps/CXXQADSurfaceStaticData.Tpo -c -o CXXQADSurfaceStaticData.lo ../../../coot/MoleculesToTriangles/CXXSurface/CXXQADSurfaceStaticData.cpp ../../../coot/MoleculesToTriangles/CXXSurface/CXXSurface.cpp: In member function ‘int CXXSurface::readGraspFile(std::string)’: ../../../coot/MoleculesToTriangles/CXXSurface/CXXSurface.cpp:153:24: warning: comparison of integer expressions of different signedness: ‘int’ and ‘size_t’ {aka ‘long unsigned int’} [-Wsign-compare] 153 | for (int i=0; i&, mmdb::Manager*, int)’: ../../../coot/MoleculesToTriangles/CXXSurface/CXXSurface.cpp:495:20: warning: comparison of integer expressions of different signedness: ‘int’ and ‘size_t’ {aka ‘long unsigned int’} [-Wsign-compare] 495 | for (int i=0; i< nVerts; i++){ | ~^~~~~~~~ ../../../coot/MoleculesToTriangles/CXXSurface/CXXSurface.cpp: In member function ‘size_t CXXSurface::updateWithVectorData(size_t, std::string, size_t, double*)’: ../../../coot/MoleculesToTriangles/CXXSurface/CXXSurface.cpp:583:30: warning: comparison of integer expressions of different signedness: ‘int’ and ‘size_t’ {aka ‘long unsigned int’} [-Wsign-compare] 583 | if (int(vertices.size()) < start + count){ | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~ ../../../coot/MoleculesToTriangles/CXXSurface/CXXSurface.cpp: In member function ‘size_t CXXSurface::updateWithPointerData(size_t, std::string, size_t, void**)’: ../../../coot/MoleculesToTriangles/CXXSurface/CXXSurface.cpp:597:30: warning: comparison of integer expressions of different signedness: ‘int’ and ‘size_t’ {aka ‘long unsigned int’} [-Wsign-compare] 597 | if (int(vertices.size()) < start + count){ | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~ ../../../coot/MoleculesToTriangles/CXXSurface/CXXSurface.cpp: In member function ‘size_t CXXSurface::setCoord(const string&, size_t, const CXXCoord&)’: ../../../coot/MoleculesToTriangles/CXXSurface/CXXSurface.cpp:815:30: warning: comparison of integer expressions of different signedness: ‘int’ and ‘size_t’ {aka ‘long unsigned int’} [-Wsign-compare] 815 | if (int(vertices.size()) <= iVertex){ | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ ../../../coot/MoleculesToTriangles/CXXSurface/CXXSurface.cpp: In member function ‘int CXXSurface::getCoord(size_t, size_t, double*)’: ../../../coot/MoleculesToTriangles/CXXSurface/CXXSurface.cpp:948:14: warning: comparison of integer expressions of different signedness: ‘const size_t’ {aka ‘const long unsigned int’} and ‘int’ [-Wsign-compare] 948 | if (type <= int(vectors.size())){ | ~~~~~^~~~~~~~~~~~~~~~~~~~~~ ../../../coot/MoleculesToTriangles/CXXSurface/CXXSurface.cpp: In member function ‘void CXXSurface::compress(double)’: ../../../coot/MoleculesToTriangles/CXXSurface/CXXSurface.cpp:1011:20: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 1011 | for (int i=0; i::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 1013 | for (int j=0; j::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 1029 | for (int i=0; i dim[0] | SliceNr < 1) { | ~~~~~~~~^~~~~~~~ ../../../coot/MoleculesToTriangles/CXXSurface/CXXSpace.cpp: In constructor ‘CXXSpace::CXXSpace(float, float, float, float, float, float, float, float)’: ../../../coot/MoleculesToTriangles/CXXSurface/CXXSpace.cpp:49:67: warning: suggest parentheses around comparison in operand of ‘|’ [-Wparentheses] 49 | if (chargeGrid == 0 | potentialGrid == 0 | dielGrid == 0) { | ~~~~~~~~~~~^~~~ ../../../coot/MoleculesToTriangles/CXXSurface/CXXSpace.cpp:49:104: warning: suggest parentheses around comparison in operand of ‘|’ [-Wparentheses] 49 | if (chargeGrid == 0 | potentialGrid == 0 | dielGrid == 0) { | ~~~~~~~~~^~~~ ../../../coot/MoleculesToTriangles/CXXSurface/CXXSpace.cpp: In member function ‘double CXXSpace::getGridCharge(int, int, int)’: ../../../coot/MoleculesToTriangles/CXXSurface/CXXSpace.cpp:182:15: warning: suggest parentheses around comparison in operand of ‘|’ [-Wparentheses] 182 | if (i < 0 | j < 0 | k < 0 | i == dim[0] | j == dim[1] | k == dim[2]) { | ~~^~~ ../../../coot/MoleculesToTriangles/CXXSurface/CXXSpace.cpp:182:31: warning: suggest parentheses around comparison in operand of ‘|’ [-Wparentheses] 182 | if (i < 0 | j < 0 | k < 0 | i == dim[0] | j == dim[1] | k == dim[2]) { | ~~^~~ ../../../coot/MoleculesToTriangles/CXXSurface/CXXSpace.cpp:182:39: warning: suggest parentheses around comparison in operand of ‘|’ [-Wparentheses] 182 | if (i < 0 | j < 0 | k < 0 | i == dim[0] | j == dim[1] | k == dim[2]) { | ~~^~~~~~~~~ ../../../coot/MoleculesToTriangles/CXXSurface/CXXSpace.cpp:182:53: warning: suggest parentheses around comparison in operand of ‘|’ [-Wparentheses] 182 | if (i < 0 | j < 0 | k < 0 | i == dim[0] | j == dim[1] | k == dim[2]) { | ~~^~~~~~~~~ ../../../coot/MoleculesToTriangles/CXXSurface/CXXSpace.cpp:182:67: warning: suggest parentheses around comparison in operand of ‘|’ [-Wparentheses] 182 | if (i < 0 | j < 0 | k < 0 | i == dim[0] | j == dim[1] | k == dim[2]) { | ~~^~~~~~~~~ ../../../coot/MoleculesToTriangles/CXXSurface/CXXSpace.cpp: In member function ‘double CXXSpace::getGridSolvationParameter(int, int, int)’: ../../../coot/MoleculesToTriangles/CXXSurface/CXXSpace.cpp:201:15: warning: suggest parentheses around comparison in operand of ‘|’ [-Wparentheses] 201 | if (i < 0 | j < 0 | k < 0 | i == dim[0] | j == dim[1] | k == dim[2]) { | ~~^~~ ../../../coot/MoleculesToTriangles/CXXSurface/CXXSpace.cpp:201:31: warning: suggest parentheses around comparison in operand of ‘|’ [-Wparentheses] 201 | if (i < 0 | j < 0 | k < 0 | i == dim[0] | j == dim[1] | k == dim[2]) { | ~~^~~ ../../../coot/MoleculesToTriangles/CXXSurface/CXXSpace.cpp:201:39: warning: suggest parentheses around comparison in operand of ‘|’ [-Wparentheses] 201 | if (i < 0 | j < 0 | k < 0 | i == dim[0] | j == dim[1] | k == dim[2]) { | ~~^~~~~~~~~ ../../../coot/MoleculesToTriangles/CXXSurface/CXXSpace.cpp:201:53: warning: suggest parentheses around comparison in operand of ‘|’ [-Wparentheses] 201 | if (i < 0 | j < 0 | k < 0 | i == dim[0] | j == dim[1] | k == dim[2]) { | ~~^~~~~~~~~ ../../../coot/MoleculesToTriangles/CXXSurface/CXXSpace.cpp:201:67: warning: suggest parentheses around comparison in operand of ‘|’ [-Wparentheses] 201 | if (i < 0 | j < 0 | k < 0 | i == dim[0] | j == dim[1] | k == dim[2]) { | ~~^~~~~~~~~ ../../../coot/MoleculesToTriangles/CXXSurface/CXXSpace.cpp: In member function ‘double CXXSpace::getEpsilonKappaSq(int, int, int)’: ../../../coot/MoleculesToTriangles/CXXSurface/CXXSpace.cpp:220:15: warning: suggest parentheses around comparison in operand of ‘|’ [-Wparentheses] 220 | if (i < 0 | j < 0 | k < 0 | i == dim[0] | j == dim[1] | k == dim[2]) { | ~~^~~ ../../../coot/MoleculesToTriangles/CXXSurface/CXXSpace.cpp:220:31: warning: suggest parentheses around comparison in operand of ‘|’ [-Wparentheses] 220 | if (i < 0 | j < 0 | k < 0 | i == dim[0] | j == dim[1] | k == dim[2]) { | ~~^~~ ../../../coot/MoleculesToTriangles/CXXSurface/CXXSpace.cpp:220:39: warning: suggest parentheses around comparison in operand of ‘|’ [-Wparentheses] 220 | if (i < 0 | j < 0 | k < 0 | i == dim[0] | j == dim[1] | k == dim[2]) { | ~~^~~~~~~~~ ../../../coot/MoleculesToTriangles/CXXSurface/CXXSpace.cpp:220:53: warning: suggest parentheses around comparison in operand of ‘|’ [-Wparentheses] 220 | if (i < 0 | j < 0 | k < 0 | i == dim[0] | j == dim[1] | k == dim[2]) { | ~~^~~~~~~~~ ../../../coot/MoleculesToTriangles/CXXSurface/CXXSpace.cpp:220:67: warning: suggest parentheses around comparison in operand of ‘|’ [-Wparentheses] 220 | if (i < 0 | j < 0 | k < 0 | i == dim[0] | j == dim[1] | k == dim[2]) { | ~~^~~~~~~~~ ../../../coot/MoleculesToTriangles/CXXSurface/CXXSpace.cpp: In member function ‘double CXXSpace::getPotential(int, int, int)’: ../../../coot/MoleculesToTriangles/CXXSurface/CXXSpace.cpp:238:15: warning: suggest parentheses around comparison in operand of ‘|’ [-Wparentheses] 238 | if (i < 0 | j < 0 | k < 0 | i == dim[0] | j == dim[1] | k == dim[2]) { | ~~^~~ ../../../coot/MoleculesToTriangles/CXXSurface/CXXSpace.cpp:238:31: warning: suggest parentheses around comparison in operand of ‘|’ [-Wparentheses] 238 | if (i < 0 | j < 0 | k < 0 | i == dim[0] | j == dim[1] | k == dim[2]) { | ~~^~~ ../../../coot/MoleculesToTriangles/CXXSurface/CXXSpace.cpp:238:39: warning: suggest parentheses around comparison in operand of ‘|’ [-Wparentheses] 238 | if (i < 0 | j < 0 | k < 0 | i == dim[0] | j == dim[1] | k == dim[2]) { | ~~^~~~~~~~~ ../../../coot/MoleculesToTriangles/CXXSurface/CXXSpace.cpp:238:53: warning: suggest parentheses around comparison in operand of ‘|’ [-Wparentheses] 238 | if (i < 0 | j < 0 | k < 0 | i == dim[0] | j == dim[1] | k == dim[2]) { | ~~^~~~~~~~~ ../../../coot/MoleculesToTriangles/CXXSurface/CXXSpace.cpp:238:67: warning: suggest parentheses around comparison in operand of ‘|’ [-Wparentheses] 238 | if (i < 0 | j < 0 | k < 0 | i == dim[0] | j == dim[1] | k == dim[2]) { | ~~^~~~~~~~~ ../../../coot/MoleculesToTriangles/CXXSurface/CXXSpace.cpp: In member function ‘double CXXSpace::getBoundaryMap(int, int, int)’: ../../../coot/MoleculesToTriangles/CXXSurface/CXXSpace.cpp:259:15: warning: suggest parentheses around comparison in operand of ‘|’ [-Wparentheses] 259 | if (i < 0 | j < 0 | k < 0 | i == dim[0] | j == dim[1] | k == dim[2]) { | ~~^~~ ../../../coot/MoleculesToTriangles/CXXSurface/CXXSpace.cpp:259:31: warning: suggest parentheses around comparison in operand of ‘|’ [-Wparentheses] 259 | if (i < 0 | j < 0 | k < 0 | i == dim[0] | j == dim[1] | k == dim[2]) { | ~~^~~ ../../../coot/MoleculesToTriangles/CXXSurface/CXXSpace.cpp:259:39: warning: suggest parentheses around comparison in operand of ‘|’ [-Wparentheses] 259 | if (i < 0 | j < 0 | k < 0 | i == dim[0] | j == dim[1] | k == dim[2]) { | ~~^~~~~~~~~ ../../../coot/MoleculesToTriangles/CXXSurface/CXXSpace.cpp:259:53: warning: suggest parentheses around comparison in operand of ‘|’ [-Wparentheses] 259 | if (i < 0 | j < 0 | k < 0 | i == dim[0] | j == dim[1] | k == dim[2]) { | ~~^~~~~~~~~ ../../../coot/MoleculesToTriangles/CXXSurface/CXXSpace.cpp:259:67: warning: suggest parentheses around comparison in operand of ‘|’ [-Wparentheses] 259 | if (i < 0 | j < 0 | k < 0 | i == dim[0] | j == dim[1] | k == dim[2]) { | ~~^~~~~~~~~ ../../../coot/MoleculesToTriangles/CXXSurface/CXXSpace.cpp: In member function ‘int CXXSpace::dumpSpaceSlice(int, int, int)’: ../../../coot/MoleculesToTriangles/CXXSurface/CXXSpace.cpp:505:23: warning: suggest parentheses around comparison in operand of ‘|’ [-Wparentheses] 505 | if (dimension > 2 | dimension < 0) { | ~~~~~~~~~~^~~ ../../../coot/MoleculesToTriangles/CXXSurface/CXXSpace.cpp:529:57: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] 529 | if (j == (dim[1]-1)) | ^~ ../../../coot/MoleculesToTriangles/CXXSurface/CXXSpace.cpp:531:65: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ 531 | break; | ^~~~~ ../../../coot/MoleculesToTriangles/CXXSurface/CXXSpace.cpp:536:57: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] 536 | if (j == (dim[1]-1)) | ^~ ../../../coot/MoleculesToTriangles/CXXSurface/CXXSpace.cpp:539:65: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ 539 | break; | ^~~~~ ../../../coot/MoleculesToTriangles/CXXSurface/CXXSpace.cpp:576:57: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] 576 | if (i == (dim[0]-1)) | ^~ ../../../coot/MoleculesToTriangles/CXXSurface/CXXSpace.cpp:579:65: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ 579 | break; | ^~~~~ ../../../coot/MoleculesToTriangles/CXXSurface/CXXSpace.cpp:584:57: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] 584 | if (i == (dim[0]-1)) | ^~ ../../../coot/MoleculesToTriangles/CXXSurface/CXXSpace.cpp:588:65: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ 588 | break; | ^~~~~ ../../../coot/MoleculesToTriangles/CXXSurface/CXXSpace.cpp:618:57: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] 618 | if (i == (dim[0]-1)) | ^~ ../../../coot/MoleculesToTriangles/CXXSurface/CXXSpace.cpp:621:65: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ 621 | break; | ^~~~~ ../../../coot/MoleculesToTriangles/CXXSurface/CXXSpace.cpp:626:57: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] 626 | if (i == (dim[0]-1)) | ^~ ../../../coot/MoleculesToTriangles/CXXSurface/CXXSpace.cpp:629:65: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ 629 | break; | ^~~~~ ../../../coot/MoleculesToTriangles/CXXSurface/CXXQADSurface.cpp: In member function ‘int CXXQADSurface::contourMap(double)’: ../../../coot/MoleculesToTriangles/CXXSurface/CXXQADSurface.cpp:597:75: warning: comparison of integer expressions of different signedness: ‘size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 597 | iCompare >=compareStart && !iEquivalent; | ~~~~~~~~~^~~~~~~~~~~~~~ mv -f .deps/CXXFFTSolventMap.Tpo .deps/CXXFFTSolventMap.Plo /bin/bash ../../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" -DPACKAGE_STRING=\"coot\ 1.x-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I../../../coot/MoleculesToTriangles/CXXSurface -I/opt/user_software/coot/bin-gtk4/include -fopenmp -g -O -Wall -Wno-unused -std=c++17 -MT CXXException.lo -MD -MP -MF .deps/CXXException.Tpo -c -o CXXException.lo ../../../coot/MoleculesToTriangles/CXXSurface/CXXException.cpp mv -f .deps/CXXTorusElement.Tpo .deps/CXXTorusElement.Plo /bin/bash ../../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" -DPACKAGE_STRING=\"coot\ 1.x-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I../../../coot/MoleculesToTriangles/CXXSurface -I/opt/user_software/coot/bin-gtk4/include -fopenmp -g -O -Wall -Wno-unused -std=c++17 -MT CXXUtils.lo -MD -MP -MF .deps/CXXUtils.Tpo -c -o CXXUtils.lo ../../../coot/MoleculesToTriangles/CXXSurface/CXXUtils.cpp mv -f .deps/CXXSpace.Tpo .deps/CXXSpace.Plo /bin/bash ../../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" -DPACKAGE_STRING=\"coot\ 1.x-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I../../../coot/MoleculesToTriangles/CXXSurface -I/opt/user_software/coot/bin-gtk4/include -fopenmp -g -O -Wall -Wno-unused -std=c++17 -MT CXXBall.lo -MD -MP -MF .deps/CXXBall.Tpo -c -o CXXBall.lo ../../../coot/MoleculesToTriangles/CXXSurface/CXXBall.cpp mv -f .deps/CXXQADSurfaceStaticData.Tpo .deps/CXXQADSurfaceStaticData.Plo /bin/bash ../../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" -DPACKAGE_STRING=\"coot\ 1.x-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I../../../coot/MoleculesToTriangles/CXXSurface -I/opt/user_software/coot/bin-gtk4/include -fopenmp -g -O -Wall -Wno-unused -std=c++17 -MT CXXSurfaceMaker.lo -MD -MP -MF .deps/CXXSurfaceMaker.Tpo -c -o CXXSurfaceMaker.lo ../../../coot/MoleculesToTriangles/CXXSurface/CXXSurfaceMaker.cpp ../../../coot/MoleculesToTriangles/CXXSurface/CXXCreator.cpp: In member function ‘int CXXCreator::distributeAtomCharge(CXXCoord, CXXCoord, CXXCoord, CXXCoord, int)’: ../../../coot/MoleculesToTriangles/CXXSurface/CXXCreator.cpp:259:28: warning: suggest parentheses around comparison in operand of ‘|’ [-Wparentheses] 259 | if (distanceVector.x() < 0 | distanceVector.y() < 0 | distanceVector.z() < 0) { | ~~~~~~~~~~~~~~~~~~~^~~ ../../../coot/MoleculesToTriangles/CXXSurface/CXXCreator.cpp:259:78: warning: suggest parentheses around comparison in operand of ‘|’ [-Wparentheses] 259 | if (distanceVector.x() < 0 | distanceVector.y() < 0 | distanceVector.z() < 0) { | ~~~~~~~~~~~~~~~~~~~^~~ ../../../coot/MoleculesToTriangles/CXXSurface/CXXCreator.cpp:287:14: warning: suggest parentheses around comparison in operand of ‘|’ [-Wparentheses] 287 | if (iMin <= 0 | jMin <= 0 | kMin < 0) { | ~~~~~^~~~ ../../../coot/MoleculesToTriangles/CXXSurface/CXXCreator.cpp:287:38: warning: suggest parentheses around comparison in operand of ‘|’ [-Wparentheses] 287 | if (iMin <= 0 | jMin <= 0 | kMin < 0) { | ~~~~~^~~ ../../../coot/MoleculesToTriangles/CXXSurface/CXXCreator.cpp:309:14: warning: suggest parentheses around comparison in operand of ‘|’ [-Wparentheses] 309 | if (iMax >= space->getDimI() | jMin >= space->getDimJ() | kMin >= space->getDimK()) { | ~~~~~^~~~~~~~~~~~~~~~~~~ ../../../coot/MoleculesToTriangles/CXXSurface/CXXCreator.cpp:309:68: warning: suggest parentheses around comparison in operand of ‘|’ [-Wparentheses] 309 | if (iMax >= space->getDimI() | jMin >= space->getDimJ() | kMin >= space->getDimK()) { | ~~~~~^~~~~~~~~~~~~~~~~~~ ../../../coot/MoleculesToTriangles/CXXSurface/CXXCreator.cpp: In member function ‘double CXXCreator::getGridVolumeOfAtom(CXXCoord, CXXCoord, CXXCoord, CXXCoord, int)’: ../../../coot/MoleculesToTriangles/CXXSurface/CXXCreator.cpp:387:28: warning: suggest parentheses around comparison in operand of ‘|’ [-Wparentheses] 387 | if (distanceVector.x() < 0 | distanceVector.y() < 0 | distanceVector.z() < 0) { | ~~~~~~~~~~~~~~~~~~~^~~ ../../../coot/MoleculesToTriangles/CXXSurface/CXXCreator.cpp:387:78: warning: suggest parentheses around comparison in operand of ‘|’ [-Wparentheses] 387 | if (distanceVector.x() < 0 | distanceVector.y() < 0 | distanceVector.z() < 0) { | ~~~~~~~~~~~~~~~~~~~^~~ ../../../coot/MoleculesToTriangles/CXXSurface/CXXCreator.cpp:412:14: warning: suggest parentheses around comparison in operand of ‘|’ [-Wparentheses] 412 | if (iMin <= 0 | jMin <= 0 | kMin < 0) { | ~~~~~^~~~ ../../../coot/MoleculesToTriangles/CXXSurface/CXXCreator.cpp:412:38: warning: suggest parentheses around comparison in operand of ‘|’ [-Wparentheses] 412 | if (iMin <= 0 | jMin <= 0 | kMin < 0) { | ~~~~~^~~ ../../../coot/MoleculesToTriangles/CXXSurface/CXXCreator.cpp:431:14: warning: suggest parentheses around comparison in operand of ‘|’ [-Wparentheses] 431 | if (iMax >= space->getDimI() | jMin >= space->getDimJ() | kMin >= space->getDimK()) { | ~~~~~^~~~~~~~~~~~~~~~~~~ ../../../coot/MoleculesToTriangles/CXXSurface/CXXCreator.cpp:431:68: warning: suggest parentheses around comparison in operand of ‘|’ [-Wparentheses] 431 | if (iMax >= space->getDimI() | jMin >= space->getDimJ() | kMin >= space->getDimK()) { | ~~~~~^~~~~~~~~~~~~~~~~~~ ../../../coot/MoleculesToTriangles/CXXSurface/CXXCreator.cpp: In member function ‘int CXXCreator::evolve(int, double)’: ../../../coot/MoleculesToTriangles/CXXSurface/CXXCreator.cpp:787:34: warning: comparison of integer expressions of different signedness: ‘size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 787 | for (size_t i = 0; i < space->getDimI(); i++) { | ~~^~~~~~~~~~~~~~~~~~ ../../../coot/MoleculesToTriangles/CXXSurface/CXXCreator.cpp:791:35: warning: comparison of integer expressions of different signedness: ‘size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 791 | for (size_t j=0; jgetDimJ(); j++) largestChangeOfRow[j]=-1e30; | ~^~~~~~~~~~~~~~~~~ ../../../coot/MoleculesToTriangles/CXXSurface/CXXCreator.cpp:794:35: warning: comparison of integer expressions of different signedness: ‘size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 794 | for (size_t j=0; jgetDimJ(); j++) largestPotentialOfRow[j]=-1e30; | ~^~~~~~~~~~~~~~~~~ ../../../coot/MoleculesToTriangles/CXXSurface/CXXCreator.cpp:802:38: warning: comparison of integer expressions of different signedness: ‘size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 802 | for (size_t j = 0; j < passableSpace->getDimJ(); j++) { | ~~^~~~~~~~~~~~~~~~~~~~~~~~~~ ../../../coot/MoleculesToTriangles/CXXSurface/CXXCreator.cpp:807:42: warning: comparison of integer expressions of different signedness: ‘size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 807 | for (size_t k = 0; k < passableSpace->getDimK(); k++) { | ~~^~~~~~~~~~~~~~~~~~~~~~~~~~ ../../../coot/MoleculesToTriangles/CXXSurface/CXXCreator.cpp:810:41: warning: comparison of integer expressions of different signedness: ‘size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 810 | if (((i+j+k)%2) == (n%2)) { | ~~~~~~~~~~~~^~~~~~~~ libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" "-DPACKAGE_STRING=\"coot 1.x-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I../../../coot/MoleculesToTriangles/CXXSurface -I/opt/user_software/coot/bin-gtk4/include -fopenmp -g -O -Wall -Wno-unused -std=c++17 -MT CXXException.lo -MD -MP -MF .deps/CXXException.Tpo -c ../../../coot/MoleculesToTriangles/CXXSurface/CXXException.cpp -fPIC -DPIC -o .libs/CXXException.o libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" "-DPACKAGE_STRING=\"coot 1.x-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I../../../coot/MoleculesToTriangles/CXXSurface -I/opt/user_software/coot/bin-gtk4/include -fopenmp -g -O -Wall -Wno-unused -std=c++17 -MT CXXUtils.lo -MD -MP -MF .deps/CXXUtils.Tpo -c ../../../coot/MoleculesToTriangles/CXXSurface/CXXUtils.cpp -fPIC -DPIC -o .libs/CXXUtils.o libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" "-DPACKAGE_STRING=\"coot 1.x-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I../../../coot/MoleculesToTriangles/CXXSurface -I/opt/user_software/coot/bin-gtk4/include -fopenmp -g -O -Wall -Wno-unused -std=c++17 -MT CXXBall.lo -MD -MP -MF .deps/CXXBall.Tpo -c ../../../coot/MoleculesToTriangles/CXXSurface/CXXBall.cpp -fPIC -DPIC -o .libs/CXXBall.o ../../../coot/MoleculesToTriangles/CXXSurface/CXXBall.cpp:85:2: warning: #warning Compiling for OMP [-Wcpp] 85 | #warning Compiling for OMP | ^~~~~~~ ../../../coot/MoleculesToTriangles/CXXSurface/CXXBall.cpp:155:2: warning: #warning Compiling for OMP [-Wcpp] 155 | #warning Compiling for OMP | ^~~~~~~ libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" "-DPACKAGE_STRING=\"coot 1.x-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I../../../coot/MoleculesToTriangles/CXXSurface -I/opt/user_software/coot/bin-gtk4/include -fopenmp -g -O -Wall -Wno-unused -std=c++17 -MT CXXSurfaceMaker.lo -MD -MP -MF .deps/CXXSurfaceMaker.Tpo -c ../../../coot/MoleculesToTriangles/CXXSurface/CXXSurfaceMaker.cpp -fPIC -DPIC -o .libs/CXXSurfaceMaker.o mv -f .deps/CXXException.Tpo .deps/CXXException.Plo ../../../coot/MoleculesToTriangles/CXXSurface/CXXSurfaceMaker.cpp:429:2: warning: #warning Compiling for OMP [-Wcpp] 429 | #warning Compiling for OMP | ^~~~~~~ ../../../coot/MoleculesToTriangles/CXXSurface/CXXSurfaceMaker.cpp:567:2: warning: #warning Compiling for OMP [-Wcpp] 567 | #warning Compiling for OMP | ^~~~~~~ mv -f .deps/CXXChargeTable.Tpo .deps/CXXChargeTable.Plo mv -f .deps/CXXCreator.Tpo .deps/CXXCreator.Plo ../../../coot/MoleculesToTriangles/CXXSurface/CXXBall.cpp: In static member function ‘static int CXXBall::triangulateBalls(std::vector&, std::vector&, double, CXXSurfaceMaker*, int)’: ../../../coot/MoleculesToTriangles/CXXSurface/CXXBall.cpp:86:24: warning: comparison of integer expressions of different signedness: ‘int’ and ‘size_t’ {aka ‘long unsigned int’} [-Wsign-compare] 86 | for (int i=0; i< nBalls; i++){ | ~^~~~~~~~ ../../../coot/MoleculesToTriangles/CXXSurface/CXXBall.cpp:91:26: warning: comparison of integer expressions of different signedness: ‘int’ and ‘size_t’ {aka ‘long unsigned int’} [-Wsign-compare] 91 | if (!(i%100) || i==nBalls-1) { | ~^~~~~~~~~~ ../../../coot/MoleculesToTriangles/CXXSurface/CXXBall.cpp:127:20: warning: comparison of integer expressions of different signedness: ‘int’ and ‘size_t’ {aka ‘long unsigned int’} [-Wsign-compare] 127 | for (int i=0; i::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 158 | for (int i=0; i&, std::vector&, std::map >&)’: ../../../coot/MoleculesToTriangles/CXXSurface/CXXBall.cpp:293:28: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 293 | for (int iBall=0; iBall< balls.size(); iBall++){ | ~~~~~^~~~~~~~~~~~~~ ../../../coot/MoleculesToTriangles/CXXSurface/CXXSurfaceMaker.cpp: In member function ‘int CXXSurfaceMaker::calculateVDWFromAtoms(mmdb::Manager*, int, int, double, double, double, bool)’: ../../../coot/MoleculesToTriangles/CXXSurface/CXXSurfaceMaker.cpp:191:23: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 191 | for (int i = 0; i < vdwBallPntrs.size(); i++) | ~~^~~~~~~~~~~~~~~~~~~~~ ../../../coot/MoleculesToTriangles/CXXSurface/CXXSurfaceMaker.cpp:194:13: warning: deleting object of polymorphic class type ‘CXXAtomBall’ which has non-virtual destructor might cause undefined behavior [-Wdelete-non-virtual-dtor] 194 | delete static_cast(vdwBallPntrs[i]); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ ../../../coot/MoleculesToTriangles/CXXSurface/CXXSurfaceMaker.cpp:196:23: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 196 | for (int i = 0; i < contextBallPntrs.size(); i++) | ~~^~~~~~~~~~~~~~~~~~~~~~~~~ ../../../coot/MoleculesToTriangles/CXXSurface/CXXSurfaceMaker.cpp:202:17: warning: deleting object of polymorphic class type ‘CXXAtomBall’ which has non-virtual destructor might cause undefined behavior [-Wdelete-non-virtual-dtor] 202 | delete static_cast(contextBallPntrs[i]); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ ../../../coot/MoleculesToTriangles/CXXSurface/CXXSurfaceMaker.cpp: In member function ‘int CXXSurfaceMaker::calculateAccessibleFromAtoms(mmdb::Manager*, int, int, double, double, double, bool)’: ../../../coot/MoleculesToTriangles/CXXSurface/CXXSurfaceMaker.cpp:253:23: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 253 | for (int i = 0; i < vdwBallPntrs.size(); i++) | ~~^~~~~~~~~~~~~~~~~~~~~ ../../../coot/MoleculesToTriangles/CXXSurface/CXXSurfaceMaker.cpp:256:13: warning: deleting object of polymorphic class type ‘CXXAtomBall’ which has non-virtual destructor might cause undefined behavior [-Wdelete-non-virtual-dtor] 256 | delete static_cast(vdwBallPntrs[i]); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ ../../../coot/MoleculesToTriangles/CXXSurface/CXXSurfaceMaker.cpp:258:23: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 258 | for (int i = 0; i < contextBallPntrs.size(); i++) | ~~^~~~~~~~~~~~~~~~~~~~~~~~~ ../../../coot/MoleculesToTriangles/CXXSurface/CXXSurfaceMaker.cpp:264:17: warning: deleting object of polymorphic class type ‘CXXAtomBall’ which has non-virtual destructor might cause undefined behavior [-Wdelete-non-virtual-dtor] 264 | delete static_cast(contextBallPntrs[i]); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ ../../../coot/MoleculesToTriangles/CXXSurface/CXXSurfaceMaker.cpp: In member function ‘int CXXSurfaceMaker::calculateFromAtoms(mmdb::Manager*, int, int, double, double, double, bool)’: ../../../coot/MoleculesToTriangles/CXXSurface/CXXSurfaceMaker.cpp:507:23: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 507 | for (int i = 0; i < vdwBallPntrs.size(); i++) | ~~^~~~~~~~~~~~~~~~~~~~~ ../../../coot/MoleculesToTriangles/CXXSurface/CXXSurfaceMaker.cpp:510:13: warning: deleting object of polymorphic class type ‘CXXAtomBall’ which has non-virtual destructor might cause undefined behavior [-Wdelete-non-virtual-dtor] 510 | delete static_cast(vdwBallPntrs[i]); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ ../../../coot/MoleculesToTriangles/CXXSurface/CXXSurfaceMaker.cpp:512:23: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 512 | for (int i = 0; i < contextBallPntrs.size(); i++) | ~~^~~~~~~~~~~~~~~~~~~~~~~~~ ../../../coot/MoleculesToTriangles/CXXSurface/CXXSurfaceMaker.cpp:515:13: warning: deleting object of polymorphic class type ‘CXXAtomBall’ which has non-virtual destructor might cause undefined behavior [-Wdelete-non-virtual-dtor] 515 | delete static_cast(contextBallPntrs[i]); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ ../../../coot/MoleculesToTriangles/CXXSurface/CXXSurfaceMaker.cpp:518:23: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 518 | for (int i = 0; i < reentrantProbes.size(); i++) | ~~^~~~~~~~~~~~~~~~~~~~~~~~ ../../../coot/MoleculesToTriangles/CXXSurface/CXXSurfaceMaker.cpp:520:9: warning: deleting object of polymorphic class type ‘CXXReentrantProbeBall’ which has non-virtual destructor might cause undefined behavior [-Wdelete-non-virtual-dtor] 520 | delete static_cast(reentrantProbes[i]); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ ../../../coot/MoleculesToTriangles/CXXSurface/CXXSurfaceMaker.cpp: In member function ‘SurfaceParameters CXXSurfaceMaker::measuredProperties()’: ../../../coot/MoleculesToTriangles/CXXSurface/CXXSurfaceMaker.cpp:569:47: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 569 | for (int iChildSurface = 0; iChildSurface < childSurfaces.size(); iChildSurface++) | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~ mv -f .deps/CXXQADSurface.Tpo .deps/CXXQADSurface.Plo mv -f .deps/CXXSurface.Tpo .deps/CXXSurface.Plo mv -f .deps/CXXUtils.Tpo .deps/CXXUtils.Plo mv -f .deps/CXXSurfaceMaker.Tpo .deps/CXXSurfaceMaker.Plo mv -f .deps/CXXBall.Tpo .deps/CXXBall.Plo /bin/bash ../../libtool --tag=CXX --mode=link g++ -fopenmp -g -O -Wall -Wno-unused -std=c++17 -o libMoleculesToTrianglesCXXSurface.la -rpath /opt/user_software/coot/bin-gtk4/lib CXXCircle.lo CXXCircleNode.lo CXXCoord.lo CXXFortranFile.lo CXXNewHood.lo CXXSphereElement.lo CXXSphereNode.lo CXXSphereTriangle.lo CXXSphereTriangleEdge.lo CXXSurface.lo CXXSurfaceVertex.lo CXXTorusElement.lo CXXTorusNode.lo CXXTriangle.lo CXXQADSurface.lo CXXQADSurfaceStaticData.lo CXXCreator.lo CXXSpace.lo CXXFFTSolventMap.lo CXXChargeTable.lo CXXException.lo CXXUtils.lo CXXBall.lo CXXSurfaceMaker.lo -L/opt/user_software/coot/bin-gtk4/lib -lclipper-ccp4 -lclipper-cif -lclipper-minimol -lclipper-mmdb -lclipper-cns -lclipper-phs -lclipper-contrib -lclipper-core -lccp4c -lmmdb2 -L/opt/user_software/coot/bin-gtk4/lib -lmmdb2 libtool: link: g++ -fPIC -DPIC -shared -nostdlib /usr/lib/gcc/x86_64-linux-gnu/11/../../../x86_64-linux-gnu/crti.o /usr/lib/gcc/x86_64-linux-gnu/11/crtbeginS.o .libs/CXXCircle.o .libs/CXXCircleNode.o .libs/CXXCoord.o .libs/CXXFortranFile.o .libs/CXXNewHood.o .libs/CXXSphereElement.o .libs/CXXSphereNode.o .libs/CXXSphereTriangle.o .libs/CXXSphereTriangleEdge.o .libs/CXXSurface.o .libs/CXXSurfaceVertex.o .libs/CXXTorusElement.o .libs/CXXTorusNode.o .libs/CXXTriangle.o .libs/CXXQADSurface.o .libs/CXXQADSurfaceStaticData.o .libs/CXXCreator.o .libs/CXXSpace.o .libs/CXXFFTSolventMap.o .libs/CXXChargeTable.o .libs/CXXException.o .libs/CXXUtils.o .libs/CXXBall.o .libs/CXXSurfaceMaker.o -Wl,-rpath -Wl,/opt/user_software/coot/bin-gtk4/lib -Wl,-rpath -Wl,/opt/user_software/coot/bin-gtk4/lib -L/opt/user_software/coot/bin-gtk4/lib /opt/user_software/coot/bin-gtk4/lib/libclipper-ccp4.so -L=/opt/user_software/coot/bin-gtk4/lib:-L/opt/user_software/coot/bin-gtk4/lib: /opt/user_software/coot/bin-gtk4/lib/libclipper-cif.so /opt/user_software/coot/bin-gtk4/lib/libclipper-minimol.so /opt/user_software/coot/bin-gtk4/lib/libclipper-mmdb.so /opt/user_software/coot/bin-gtk4/lib/libclipper-cns.so /opt/user_software/coot/bin-gtk4/lib/libclipper-phs.so /opt/user_software/coot/bin-gtk4/lib/libclipper-contrib.so /opt/user_software/coot/bin-gtk4/lib/libclipper-core.so /opt/user_software/coot/bin-gtk4/lib/librfftw.so /opt/user_software/coot/bin-gtk4/lib/libfftw.so -lpthread /opt/user_software/coot/bin-gtk4/lib/libccp4c.so /opt/user_software/coot/bin-gtk4/lib/libmmdb2.so -L/usr/lib/gcc/x86_64-linux-gnu/11 -L/usr/lib/gcc/x86_64-linux-gnu/11/../../../x86_64-linux-gnu -L/usr/lib/gcc/x86_64-linux-gnu/11/../../../../lib -L/lib/x86_64-linux-gnu -L/lib/../lib -L/usr/lib/x86_64-linux-gnu -L/usr/lib/../lib -L/usr/lib/gcc/x86_64-linux-gnu/11/../../.. -lstdc++ -lm -lc -lgcc_s /usr/lib/gcc/x86_64-linux-gnu/11/crtendS.o /usr/lib/gcc/x86_64-linux-gnu/11/../../../x86_64-linux-gnu/crtn.o -fopenmp -g -O -fopenmp -Wl,-soname -Wl,libMoleculesToTrianglesCXXSurface.so.0 -o .libs/libMoleculesToTrianglesCXXSurface.so.0.0.0 libtool: link: (cd ".libs" && rm -f "libMoleculesToTrianglesCXXSurface.so.0" && ln -s "libMoleculesToTrianglesCXXSurface.so.0.0.0" "libMoleculesToTrianglesCXXSurface.so.0") libtool: link: (cd ".libs" && rm -f "libMoleculesToTrianglesCXXSurface.so" && ln -s "libMoleculesToTrianglesCXXSurface.so.0.0.0" "libMoleculesToTrianglesCXXSurface.so") libtool: link: ( cd ".libs" && rm -f "libMoleculesToTrianglesCXXSurface.la" && ln -s "../libMoleculesToTrianglesCXXSurface.la" "libMoleculesToTrianglesCXXSurface.la" ) make[2]: Leaving directory '/opt/user_software/coot/src/build-coot/MoleculesToTriangles/CXXSurface' Making all in CXXClasses make[2]: Entering directory '/opt/user_software/coot/src/build-coot/MoleculesToTriangles/CXXClasses' /bin/bash ../../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" -DPACKAGE_STRING=\"coot\ 1.x-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I../../../coot/MoleculesToTriangles/CXXClasses -I../../../coot -pthread -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -g -O -Wall -Wno-unused -std=c++17 -MT libMoleculesToTrianglesCXXClasses_la-AtomPropertyRampColorRule.lo -MD -MP -MF .deps/libMoleculesToTrianglesCXXClasses_la-AtomPropertyRampColorRule.Tpo -c -o libMoleculesToTrianglesCXXClasses_la-AtomPropertyRampColorRule.lo `test -f 'AtomPropertyRampColorRule.cpp' || echo '../../../coot/MoleculesToTriangles/CXXClasses/'`AtomPropertyRampColorRule.cpp /bin/bash ../../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" -DPACKAGE_STRING=\"coot\ 1.x-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I../../../coot/MoleculesToTriangles/CXXClasses -I../../../coot -pthread -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -g -O -Wall -Wno-unused -std=c++17 -MT libMoleculesToTrianglesCXXClasses_la-DirectedPositionedEntity.lo -MD -MP -MF .deps/libMoleculesToTrianglesCXXClasses_la-DirectedPositionedEntity.Tpo -c -o libMoleculesToTrianglesCXXClasses_la-DirectedPositionedEntity.lo `test -f 'DirectedPositionedEntity.cpp' || echo '../../../coot/MoleculesToTriangles/CXXClasses/'`DirectedPositionedEntity.cpp /bin/bash ../../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" -DPACKAGE_STRING=\"coot\ 1.x-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I../../../coot/MoleculesToTriangles/CXXClasses -I../../../coot -pthread -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -g -O -Wall -Wno-unused -std=c++17 -MT libMoleculesToTrianglesCXXClasses_la-Representation.lo -MD -MP -MF .deps/libMoleculesToTrianglesCXXClasses_la-Representation.Tpo -c -o libMoleculesToTrianglesCXXClasses_la-Representation.lo `test -f 'Representation.cpp' || echo '../../../coot/MoleculesToTriangles/CXXClasses/'`Representation.cpp /bin/bash ../../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" -DPACKAGE_STRING=\"coot\ 1.x-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I../../../coot/MoleculesToTriangles/CXXClasses -I../../../coot -pthread -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -g -O -Wall -Wno-unused -std=c++17 -MT libMoleculesToTrianglesCXXClasses_la-BallsPrimitive.lo -MD -MP -MF .deps/libMoleculesToTrianglesCXXClasses_la-BallsPrimitive.Tpo -c -o libMoleculesToTrianglesCXXClasses_la-BallsPrimitive.lo `test -f 'BallsPrimitive.cpp' || echo '../../../coot/MoleculesToTriangles/CXXClasses/'`BallsPrimitive.cpp /bin/bash ../../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" -DPACKAGE_STRING=\"coot\ 1.x-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I../../../coot/MoleculesToTriangles/CXXClasses -I../../../coot -pthread -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -g -O -Wall -Wno-unused -std=c++17 -MT libMoleculesToTrianglesCXXClasses_la-DiscreteSegment.lo -MD -MP -MF .deps/libMoleculesToTrianglesCXXClasses_la-DiscreteSegment.Tpo -c -o libMoleculesToTrianglesCXXClasses_la-DiscreteSegment.lo `test -f 'DiscreteSegment.cpp' || echo '../../../coot/MoleculesToTriangles/CXXClasses/'`DiscreteSegment.cpp /bin/bash ../../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" -DPACKAGE_STRING=\"coot\ 1.x-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I../../../coot/MoleculesToTriangles/CXXClasses -I../../../coot -pthread -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -g -O -Wall -Wno-unused -std=c++17 -MT libMoleculesToTrianglesCXXClasses_la-RepresentationInstance.lo -MD -MP -MF .deps/libMoleculesToTrianglesCXXClasses_la-RepresentationInstance.Tpo -c -o libMoleculesToTrianglesCXXClasses_la-RepresentationInstance.lo `test -f 'RepresentationInstance.cpp' || echo '../../../coot/MoleculesToTriangles/CXXClasses/'`RepresentationInstance.cpp /bin/bash ../../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" -DPACKAGE_STRING=\"coot\ 1.x-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I../../../coot/MoleculesToTriangles/CXXClasses -I../../../coot -pthread -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -g -O -Wall -Wno-unused -std=c++17 -MT libMoleculesToTrianglesCXXClasses_la-BondsPrimitive.lo -MD -MP -MF .deps/libMoleculesToTrianglesCXXClasses_la-BondsPrimitive.Tpo -c -o libMoleculesToTrianglesCXXClasses_la-BondsPrimitive.lo `test -f 'BondsPrimitive.cpp' || echo '../../../coot/MoleculesToTriangles/CXXClasses/'`BondsPrimitive.cpp /bin/bash ../../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" -DPACKAGE_STRING=\"coot\ 1.x-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I../../../coot/MoleculesToTriangles/CXXClasses -I../../../coot -pthread -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -g -O -Wall -Wno-unused -std=c++17 -MT libMoleculesToTrianglesCXXClasses_la-DisplayPrimitive.lo -MD -MP -MF .deps/libMoleculesToTrianglesCXXClasses_la-DisplayPrimitive.Tpo -c -o libMoleculesToTrianglesCXXClasses_la-DisplayPrimitive.lo `test -f 'DisplayPrimitive.cpp' || echo '../../../coot/MoleculesToTriangles/CXXClasses/'`DisplayPrimitive.cpp libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" "-DPACKAGE_STRING=\"coot 1.x-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I../../../coot/MoleculesToTriangles/CXXClasses -I../../../coot -pthread -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -g -O -Wall -Wno-unused -std=c++17 -MT libMoleculesToTrianglesCXXClasses_la-BallsPrimitive.lo -MD -MP -MF .deps/libMoleculesToTrianglesCXXClasses_la-BallsPrimitive.Tpo -c ../../../coot/MoleculesToTriangles/CXXClasses/BallsPrimitive.cpp -fPIC -DPIC -o .libs/libMoleculesToTrianglesCXXClasses_la-BallsPrimitive.o libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" "-DPACKAGE_STRING=\"coot 1.x-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I../../../coot/MoleculesToTriangles/CXXClasses -I../../../coot -pthread -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -g -O -Wall -Wno-unused -std=c++17 -MT libMoleculesToTrianglesCXXClasses_la-DiscreteSegment.lo -MD -MP -MF .deps/libMoleculesToTrianglesCXXClasses_la-DiscreteSegment.Tpo -c ../../../coot/MoleculesToTriangles/CXXClasses/DiscreteSegment.cpp -fPIC -DPIC -o .libs/libMoleculesToTrianglesCXXClasses_la-DiscreteSegment.o libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" "-DPACKAGE_STRING=\"coot 1.x-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I../../../coot/MoleculesToTriangles/CXXClasses -I../../../coot -pthread -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -g -O -Wall -Wno-unused -std=c++17 -MT libMoleculesToTrianglesCXXClasses_la-Representation.lo -MD -MP -MF .deps/libMoleculesToTrianglesCXXClasses_la-Representation.Tpo -c ../../../coot/MoleculesToTriangles/CXXClasses/Representation.cpp -fPIC -DPIC -o .libs/libMoleculesToTrianglesCXXClasses_la-Representation.o libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" "-DPACKAGE_STRING=\"coot 1.x-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I../../../coot/MoleculesToTriangles/CXXClasses -I../../../coot -pthread -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -g -O -Wall -Wno-unused -std=c++17 -MT libMoleculesToTrianglesCXXClasses_la-DirectedPositionedEntity.lo -MD -MP -MF .deps/libMoleculesToTrianglesCXXClasses_la-DirectedPositionedEntity.Tpo -c ../../../coot/MoleculesToTriangles/CXXClasses/DirectedPositionedEntity.cpp -fPIC -DPIC -o .libs/libMoleculesToTrianglesCXXClasses_la-DirectedPositionedEntity.o libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" "-DPACKAGE_STRING=\"coot 1.x-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I../../../coot/MoleculesToTriangles/CXXClasses -I../../../coot -pthread -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -g -O -Wall -Wno-unused -std=c++17 -MT libMoleculesToTrianglesCXXClasses_la-AtomPropertyRampColorRule.lo -MD -MP -MF .deps/libMoleculesToTrianglesCXXClasses_la-AtomPropertyRampColorRule.Tpo -c ../../../coot/MoleculesToTriangles/CXXClasses/AtomPropertyRampColorRule.cpp -fPIC -DPIC -o .libs/libMoleculesToTrianglesCXXClasses_la-AtomPropertyRampColorRule.o libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" "-DPACKAGE_STRING=\"coot 1.x-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I../../../coot/MoleculesToTriangles/CXXClasses -I../../../coot -pthread -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -g -O -Wall -Wno-unused -std=c++17 -MT libMoleculesToTrianglesCXXClasses_la-DisplayPrimitive.lo -MD -MP -MF .deps/libMoleculesToTrianglesCXXClasses_la-DisplayPrimitive.Tpo -c ../../../coot/MoleculesToTriangles/CXXClasses/DisplayPrimitive.cpp -fPIC -DPIC -o .libs/libMoleculesToTrianglesCXXClasses_la-DisplayPrimitive.o libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" "-DPACKAGE_STRING=\"coot 1.x-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I../../../coot/MoleculesToTriangles/CXXClasses -I../../../coot -pthread -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -g -O -Wall -Wno-unused -std=c++17 -MT libMoleculesToTrianglesCXXClasses_la-RepresentationInstance.lo -MD -MP -MF .deps/libMoleculesToTrianglesCXXClasses_la-RepresentationInstance.Tpo -c ../../../coot/MoleculesToTriangles/CXXClasses/RepresentationInstance.cpp -fPIC -DPIC -o .libs/libMoleculesToTrianglesCXXClasses_la-RepresentationInstance.o libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" "-DPACKAGE_STRING=\"coot 1.x-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I../../../coot/MoleculesToTriangles/CXXClasses -I../../../coot -pthread -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -g -O -Wall -Wno-unused -std=c++17 -MT libMoleculesToTrianglesCXXClasses_la-BondsPrimitive.lo -MD -MP -MF .deps/libMoleculesToTrianglesCXXClasses_la-BondsPrimitive.Tpo -c ../../../coot/MoleculesToTriangles/CXXClasses/BondsPrimitive.cpp -fPIC -DPIC -o .libs/libMoleculesToTrianglesCXXClasses_la-BondsPrimitive.o In file included from ../../../coot/MoleculesToTriangles/CXXClasses/PositionedEntity.h:26, from ../../../coot/MoleculesToTriangles/CXXClasses/DirectedPositionedEntity.h:26, from ../../../coot/MoleculesToTriangles/CXXClasses/DirectedPositionedEntity.cpp:23: ../../../coot/MoleculesToTriangles/CXXSurface/CXXCoord.h:38: warning: ignoring ‘#pragma omp simd’ [-Wunknown-pragmas] 38 | #pragma omp simd | ../../../coot/MoleculesToTriangles/CXXSurface/CXXCoord.h:42: warning: ignoring ‘#pragma omp simd’ [-Wunknown-pragmas] 42 | #pragma omp simd | ../../../coot/MoleculesToTriangles/CXXSurface/CXXCoord.h:55: warning: ignoring ‘#pragma omp simd’ [-Wunknown-pragmas] 55 | #pragma omp simd | ../../../coot/MoleculesToTriangles/CXXSurface/CXXCoord.h:63: warning: ignoring ‘#pragma omp simd’ [-Wunknown-pragmas] 63 | #pragma omp simd | ../../../coot/MoleculesToTriangles/CXXSurface/CXXCoord.h:71: warning: ignoring ‘#pragma omp simd’ [-Wunknown-pragmas] 71 | #pragma omp simd | In file included from ../../../coot/MoleculesToTriangles/CXXClasses/DisplayPrimitive.h:30, from ../../../coot/MoleculesToTriangles/CXXClasses/Representation.h:34, from ../../../coot/MoleculesToTriangles/CXXClasses/Representation.cpp:31: ../../../coot/MoleculesToTriangles/CXXSurface/CXXCoord.h:38: warning: ignoring ‘#pragma omp simd’ [-Wunknown-pragmas] 38 | #pragma omp simd | ../../../coot/MoleculesToTriangles/CXXSurface/CXXCoord.h:42: warning: ignoring ‘#pragma omp simd’ [-Wunknown-pragmas] 42 | #pragma omp simd | ../../../coot/MoleculesToTriangles/CXXSurface/CXXCoord.h:55: warning: ignoring ‘#pragma omp simd’ [-Wunknown-pragmas] 55 | #pragma omp simd | ../../../coot/MoleculesToTriangles/CXXSurface/CXXCoord.h:63: warning: ignoring ‘#pragma omp simd’ [-Wunknown-pragmas] 63 | #pragma omp simd | ../../../coot/MoleculesToTriangles/CXXSurface/CXXCoord.h:71: warning: ignoring ‘#pragma omp simd’ [-Wunknown-pragmas] 71 | #pragma omp simd | In file included from ../../../coot/MoleculesToTriangles/CXXClasses/DisplayPrimitive.h:30, from ../../../coot/MoleculesToTriangles/CXXClasses/BondsPrimitive.h:26, from ../../../coot/MoleculesToTriangles/CXXClasses/BondsPrimitive.cpp:23: ../../../coot/MoleculesToTriangles/CXXSurface/CXXCoord.h:38: warning: ignoring ‘#pragma omp simd’ [-Wunknown-pragmas] 38 | #pragma omp simd | ../../../coot/MoleculesToTriangles/CXXSurface/CXXCoord.h:42: warning: ignoring ‘#pragma omp simd’ [-Wunknown-pragmas] 42 | #pragma omp simd | ../../../coot/MoleculesToTriangles/CXXSurface/CXXCoord.h:55: warning: ignoring ‘#pragma omp simd’ [-Wunknown-pragmas] 55 | #pragma omp simd | ../../../coot/MoleculesToTriangles/CXXSurface/CXXCoord.h:63: warning: ignoring ‘#pragma omp simd’ [-Wunknown-pragmas] 63 | #pragma omp simd | ../../../coot/MoleculesToTriangles/CXXSurface/CXXCoord.h:71: warning: ignoring ‘#pragma omp simd’ [-Wunknown-pragmas] 71 | #pragma omp simd | In file included from ../../../coot/MoleculesToTriangles/CXXClasses/NRStuff.h:28, from ../../../coot/MoleculesToTriangles/CXXClasses/DiscreteSegment.h:24, from ../../../coot/MoleculesToTriangles/CXXClasses/DiscreteSegment.cpp:24: ../../../coot/MoleculesToTriangles/CXXSurface/CXXCoord.h:38: warning: ignoring ‘#pragma omp simd’ [-Wunknown-pragmas] 38 | #pragma omp simd | ../../../coot/MoleculesToTriangles/CXXSurface/CXXCoord.h:42: warning: ignoring ‘#pragma omp simd’ [-Wunknown-pragmas] 42 | #pragma omp simd | ../../../coot/MoleculesToTriangles/CXXSurface/CXXCoord.h:55: warning: ignoring ‘#pragma omp simd’ [-Wunknown-pragmas] 55 | #pragma omp simd | ../../../coot/MoleculesToTriangles/CXXSurface/CXXCoord.h:63: warning: ignoring ‘#pragma omp simd’ [-Wunknown-pragmas] 63 | #pragma omp simd | ../../../coot/MoleculesToTriangles/CXXSurface/CXXCoord.h:71: warning: ignoring ‘#pragma omp simd’ [-Wunknown-pragmas] 71 | #pragma omp simd | In file included from ../../../coot/MoleculesToTriangles/CXXClasses/ColorRule.h:27, from ../../../coot/MoleculesToTriangles/CXXClasses/AtomPropertyRampColorRule.h:25, from ../../../coot/MoleculesToTriangles/CXXClasses/AtomPropertyRampColorRule.cpp:23: ../../../coot/MoleculesToTriangles/CXXSurface/CXXCoord.h:38: warning: ignoring ‘#pragma omp simd’ [-Wunknown-pragmas] 38 | #pragma omp simd | ../../../coot/MoleculesToTriangles/CXXSurface/CXXCoord.h:42: warning: ignoring ‘#pragma omp simd’ [-Wunknown-pragmas] 42 | #pragma omp simd | ../../../coot/MoleculesToTriangles/CXXSurface/CXXCoord.h:55: warning: ignoring ‘#pragma omp simd’ [-Wunknown-pragmas] 55 | #pragma omp simd | ../../../coot/MoleculesToTriangles/CXXSurface/CXXCoord.h:63: warning: ignoring ‘#pragma omp simd’ [-Wunknown-pragmas] 63 | #pragma omp simd | ../../../coot/MoleculesToTriangles/CXXSurface/CXXCoord.h:71: warning: ignoring ‘#pragma omp simd’ [-Wunknown-pragmas] 71 | #pragma omp simd | In file included from ../../../coot/MoleculesToTriangles/CXXClasses/DisplayPrimitive.h:30, from ../../../coot/MoleculesToTriangles/CXXClasses/VertexColorNormalPrimitive.h:25, from ../../../coot/MoleculesToTriangles/CXXClasses/BallsPrimitive.h:14, from ../../../coot/MoleculesToTriangles/CXXClasses/BallsPrimitive.cpp:9: ../../../coot/MoleculesToTriangles/CXXSurface/CXXCoord.h:38: warning: ignoring ‘#pragma omp simd’ [-Wunknown-pragmas] 38 | #pragma omp simd | ../../../coot/MoleculesToTriangles/CXXSurface/CXXCoord.h:42: warning: ignoring ‘#pragma omp simd’ [-Wunknown-pragmas] 42 | #pragma omp simd | ../../../coot/MoleculesToTriangles/CXXSurface/CXXCoord.h:55: warning: ignoring ‘#pragma omp simd’ [-Wunknown-pragmas] 55 | #pragma omp simd | ../../../coot/MoleculesToTriangles/CXXSurface/CXXCoord.h:63: warning: ignoring ‘#pragma omp simd’ [-Wunknown-pragmas] 63 | #pragma omp simd | ../../../coot/MoleculesToTriangles/CXXSurface/CXXCoord.h:71: warning: ignoring ‘#pragma omp simd’ [-Wunknown-pragmas] 71 | #pragma omp simd | In file included from ../../../coot/MoleculesToTriangles/CXXClasses/DisplayPrimitive.h:30, from ../../../coot/MoleculesToTriangles/CXXClasses/DisplayPrimitive.cpp:23: ../../../coot/MoleculesToTriangles/CXXSurface/CXXCoord.h:38: warning: ignoring ‘#pragma omp simd’ [-Wunknown-pragmas] 38 | #pragma omp simd | ../../../coot/MoleculesToTriangles/CXXSurface/CXXCoord.h:42: warning: ignoring ‘#pragma omp simd’ [-Wunknown-pragmas] 42 | #pragma omp simd | ../../../coot/MoleculesToTriangles/CXXSurface/CXXCoord.h:55: warning: ignoring ‘#pragma omp simd’ [-Wunknown-pragmas] 55 | #pragma omp simd | ../../../coot/MoleculesToTriangles/CXXSurface/CXXCoord.h:63: warning: ignoring ‘#pragma omp simd’ [-Wunknown-pragmas] 63 | #pragma omp simd | ../../../coot/MoleculesToTriangles/CXXSurface/CXXCoord.h:71: warning: ignoring ‘#pragma omp simd’ [-Wunknown-pragmas] 71 | #pragma omp simd | In file included from ../../../coot/MoleculesToTriangles/CXXClasses/RotatedTranslatedScaledEntity.h:26, from ../../../coot/MoleculesToTriangles/CXXClasses/RepresentationInstance.h:30, from ../../../coot/MoleculesToTriangles/CXXClasses/RepresentationInstance.cpp:23: ../../../coot/MoleculesToTriangles/CXXSurface/CXXCoord.h:38: warning: ignoring ‘#pragma omp simd’ [-Wunknown-pragmas] 38 | #pragma omp simd | ../../../coot/MoleculesToTriangles/CXXSurface/CXXCoord.h:42: warning: ignoring ‘#pragma omp simd’ [-Wunknown-pragmas] 42 | #pragma omp simd | ../../../coot/MoleculesToTriangles/CXXSurface/CXXCoord.h:55: warning: ignoring ‘#pragma omp simd’ [-Wunknown-pragmas] 55 | #pragma omp simd | ../../../coot/MoleculesToTriangles/CXXSurface/CXXCoord.h:63: warning: ignoring ‘#pragma omp simd’ [-Wunknown-pragmas] 63 | #pragma omp simd | ../../../coot/MoleculesToTriangles/CXXSurface/CXXCoord.h:71: warning: ignoring ‘#pragma omp simd’ [-Wunknown-pragmas] 71 | #pragma omp simd | mv -f .deps/libMoleculesToTrianglesCXXClasses_la-DirectedPositionedEntity.Tpo .deps/libMoleculesToTrianglesCXXClasses_la-DirectedPositionedEntity.Plo /bin/bash ../../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" -DPACKAGE_STRING=\"coot\ 1.x-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I../../../coot/MoleculesToTriangles/CXXClasses -I../../../coot -pthread -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -g -O -Wall -Wno-unused -std=c++17 -MT libMoleculesToTrianglesCXXClasses_la-RotatedTranslatedScaledEntity.lo -MD -MP -MF .deps/libMoleculesToTrianglesCXXClasses_la-RotatedTranslatedScaledEntity.Tpo -c -o libMoleculesToTrianglesCXXClasses_la-RotatedTranslatedScaledEntity.lo `test -f 'RotatedTranslatedScaledEntity.cpp' || echo '../../../coot/MoleculesToTriangles/CXXClasses/'`RotatedTranslatedScaledEntity.cpp In file included from ../../../coot/MoleculesToTriangles/CXXClasses/oglPolyhedron.h:27, from ../../../coot/MoleculesToTriangles/CXXClasses/SpherePrimitive.h:28, from ../../../coot/MoleculesToTriangles/CXXClasses/Representation.cpp:34: ../../../coot/MoleculesToTriangles/CXXClasses/Polyhedron.h: In constructor ‘PolyhedronFace::PolyhedronFace(int, int*)’: ../../../coot/MoleculesToTriangles/CXXClasses/Polyhedron.h:56:36: warning: comparison of integer expressions of different signedness: ‘std::vector::size_type’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 56 | if (indices.size() != indexCount) indices.resize(indexCount); | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~ ../../../coot/MoleculesToTriangles/CXXClasses/DiscreteSegment.cpp: In member function ‘void DiscreteSegment::evaluateNormals()’: ../../../coot/MoleculesToTriangles/CXXClasses/DiscreteSegment.cpp:42:20: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 42 | for (int i=1; i<(calphas.size()-1); i++){ | ~^~~~~~~~~~~~~~~~~~~ ../../../coot/MoleculesToTriangles/CXXClasses/DiscreteSegment.cpp: In member function ‘void DiscreteSegment::smoothBetas()’: ../../../coot/MoleculesToTriangles/CXXClasses/DiscreteSegment.cpp:81:32: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 81 | for (int iCalpha=0; iCalpha::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 86 | && iCalpha+nInStrand < calphas.size()){ | ~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~ ../../../coot/MoleculesToTriangles/CXXClasses/DiscreteSegment.cpp:96:35: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 96 | if (iCalpha+nInStrand < calphas.size()){ | ~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~ ../../../coot/MoleculesToTriangles/CXXClasses/DiscreteSegment.cpp: In member function ‘void DiscreteSegment::evaluateSplines()’: ../../../coot/MoleculesToTriangles/CXXClasses/DiscreteSegment.cpp:133:20: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 133 | for (int i=0; i::size_type’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 56 | if (indices.size() != indexCount) indices.resize(indexCount); | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~ ../../../coot/MoleculesToTriangles/CXXClasses/BallsPrimitive.cpp: In member function ‘virtual void BallsPrimitive::generateArrays()’: ../../../coot/MoleculesToTriangles/CXXClasses/BallsPrimitive.cpp:76:39: warning: comparison of integer expressions of different signedness: ‘int’ and ‘long unsigned int’ [-Wsign-compare] 76 | for (int iVertex = 0; iVertex < ((Polyhedron *)poly)->nVertices(); iVertex++){ | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ ../../../coot/MoleculesToTriangles/CXXClasses/BallsPrimitive.cpp:90:35: warning: comparison of integer expressions of different signedness: ‘int’ and ‘long unsigned int’ [-Wsign-compare] 90 | for (int iFace = 0; iFace < ((Polyhedron *)poly)->nFaces(); iFace++){ | ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ mv -f .deps/libMoleculesToTrianglesCXXClasses_la-DisplayPrimitive.Tpo .deps/libMoleculesToTrianglesCXXClasses_la-DisplayPrimitive.Plo /bin/bash ../../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" -DPACKAGE_STRING=\"coot\ 1.x-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I../../../coot/MoleculesToTriangles/CXXClasses -I../../../coot -pthread -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -g -O -Wall -Wno-unused -std=c++17 -MT libMoleculesToTrianglesCXXClasses_la-Light.lo -MD -MP -MF .deps/libMoleculesToTrianglesCXXClasses_la-Light.Tpo -c -o libMoleculesToTrianglesCXXClasses_la-Light.lo `test -f 'Light.cpp' || echo '../../../coot/MoleculesToTriangles/CXXClasses/'`Light.cpp mv -f .deps/libMoleculesToTrianglesCXXClasses_la-DiscreteSegment.Tpo .deps/libMoleculesToTrianglesCXXClasses_la-DiscreteSegment.Plo /bin/bash ../../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" -DPACKAGE_STRING=\"coot\ 1.x-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I../../../coot/MoleculesToTriangles/CXXClasses -I../../../coot -pthread -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -g -O -Wall -Wno-unused -std=c++17 -MT libMoleculesToTrianglesCXXClasses_la-CXXMatrix.lo -MD -MP -MF .deps/libMoleculesToTrianglesCXXClasses_la-CXXMatrix.Tpo -c -o libMoleculesToTrianglesCXXClasses_la-CXXMatrix.lo `test -f 'CXXMatrix.cpp' || echo '../../../coot/MoleculesToTriangles/CXXClasses/'`CXXMatrix.cpp mv -f .deps/libMoleculesToTrianglesCXXClasses_la-BondsPrimitive.Tpo .deps/libMoleculesToTrianglesCXXClasses_la-BondsPrimitive.Plo /bin/bash ../../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" -DPACKAGE_STRING=\"coot\ 1.x-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I../../../coot/MoleculesToTriangles/CXXClasses -I../../../coot -pthread -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -g -O -Wall -Wno-unused -std=c++17 -MT libMoleculesToTrianglesCXXClasses_la-MolecularRepresentation.lo -MD -MP -MF .deps/libMoleculesToTrianglesCXXClasses_la-MolecularRepresentation.Tpo -c -o libMoleculesToTrianglesCXXClasses_la-MolecularRepresentation.lo `test -f 'MolecularRepresentation.cpp' || echo '../../../coot/MoleculesToTriangles/CXXClasses/'`MolecularRepresentation.cpp mv -f .deps/libMoleculesToTrianglesCXXClasses_la-RotatedTranslatedScaledEntity.Tpo .deps/libMoleculesToTrianglesCXXClasses_la-RotatedTranslatedScaledEntity.Plo /bin/bash ../../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" -DPACKAGE_STRING=\"coot\ 1.x-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I../../../coot/MoleculesToTriangles/CXXClasses -I../../../coot -pthread -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -g -O -Wall -Wno-unused -std=c++17 -MT libMoleculesToTrianglesCXXClasses_la-SecondaryColorScheme.lo -MD -MP -MF .deps/libMoleculesToTrianglesCXXClasses_la-SecondaryColorScheme.Tpo -c -o libMoleculesToTrianglesCXXClasses_la-SecondaryColorScheme.lo `test -f 'SecondaryColorScheme.cpp' || echo '../../../coot/MoleculesToTriangles/CXXClasses/'`SecondaryColorScheme.cpp mv -f .deps/libMoleculesToTrianglesCXXClasses_la-AtomPropertyRampColorRule.Tpo .deps/libMoleculesToTrianglesCXXClasses_la-AtomPropertyRampColorRule.Plo /bin/bash ../../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" -DPACKAGE_STRING=\"coot\ 1.x-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I../../../coot/MoleculesToTriangles/CXXClasses -I../../../coot -pthread -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -g -O -Wall -Wno-unused -std=c++17 -MT libMoleculesToTrianglesCXXClasses_la-MyMolecule.lo -MD -MP -MF .deps/libMoleculesToTrianglesCXXClasses_la-MyMolecule.Tpo -c -o libMoleculesToTrianglesCXXClasses_la-MyMolecule.lo `test -f 'MyMolecule.cpp' || echo '../../../coot/MoleculesToTriangles/CXXClasses/'`MyMolecule.cpp libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" "-DPACKAGE_STRING=\"coot 1.x-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I../../../coot/MoleculesToTriangles/CXXClasses -I../../../coot -pthread -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -g -O -Wall -Wno-unused -std=c++17 -MT libMoleculesToTrianglesCXXClasses_la-BoxSectionPrimitive.lo -MD -MP -MF .deps/libMoleculesToTrianglesCXXClasses_la-BoxSectionPrimitive.Tpo -c ../../../coot/MoleculesToTriangles/CXXClasses/BoxSectionPrimitive.cpp -fPIC -DPIC -o .libs/libMoleculesToTrianglesCXXClasses_la-BoxSectionPrimitive.o mv -f .deps/libMoleculesToTrianglesCXXClasses_la-BallsPrimitive.Tpo .deps/libMoleculesToTrianglesCXXClasses_la-BallsPrimitive.Plo /bin/bash ../../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" -DPACKAGE_STRING=\"coot\ 1.x-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I../../../coot/MoleculesToTriangles/CXXClasses -I../../../coot -pthread -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -g -O -Wall -Wno-unused -std=c++17 -MT libMoleculesToTrianglesCXXClasses_la-SolidColorRule.lo -MD -MP -MF .deps/libMoleculesToTrianglesCXXClasses_la-SolidColorRule.Tpo -c -o libMoleculesToTrianglesCXXClasses_la-SolidColorRule.lo `test -f 'SolidColorRule.cpp' || echo '../../../coot/MoleculesToTriangles/CXXClasses/'`SolidColorRule.cpp In file included from ../../../coot/MoleculesToTriangles/CXXClasses/DisplayPrimitive.h:30, from ../../../coot/MoleculesToTriangles/CXXClasses/VertexColorNormalPrimitive.h:25, from ../../../coot/MoleculesToTriangles/CXXClasses/CylindersPrimitive.h:27, from ../../../coot/MoleculesToTriangles/CXXClasses/BoxSectionPrimitive.h:12, from ../../../coot/MoleculesToTriangles/CXXClasses/BoxSectionPrimitive.cpp:13: ../../../coot/MoleculesToTriangles/CXXSurface/CXXCoord.h:38: warning: ignoring ‘#pragma omp simd’ [-Wunknown-pragmas] 38 | #pragma omp simd | ../../../coot/MoleculesToTriangles/CXXSurface/CXXCoord.h:42: warning: ignoring ‘#pragma omp simd’ [-Wunknown-pragmas] 42 | #pragma omp simd | ../../../coot/MoleculesToTriangles/CXXSurface/CXXCoord.h:55: warning: ignoring ‘#pragma omp simd’ [-Wunknown-pragmas] 55 | #pragma omp simd | ../../../coot/MoleculesToTriangles/CXXSurface/CXXCoord.h:63: warning: ignoring ‘#pragma omp simd’ [-Wunknown-pragmas] 63 | #pragma omp simd | ../../../coot/MoleculesToTriangles/CXXSurface/CXXCoord.h:71: warning: ignoring ‘#pragma omp simd’ [-Wunknown-pragmas] 71 | #pragma omp simd | libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" "-DPACKAGE_STRING=\"coot 1.x-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I../../../coot/MoleculesToTriangles/CXXClasses -I../../../coot -pthread -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -g -O -Wall -Wno-unused -std=c++17 -MT libMoleculesToTrianglesCXXClasses_la-Light.lo -MD -MP -MF .deps/libMoleculesToTrianglesCXXClasses_la-Light.Tpo -c ../../../coot/MoleculesToTriangles/CXXClasses/Light.cpp -fPIC -DPIC -o .libs/libMoleculesToTrianglesCXXClasses_la-Light.o libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" "-DPACKAGE_STRING=\"coot 1.x-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I../../../coot/MoleculesToTriangles/CXXClasses -I../../../coot -pthread -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -g -O -Wall -Wno-unused -std=c++17 -MT libMoleculesToTrianglesCXXClasses_la-CXXMatrix.lo -MD -MP -MF .deps/libMoleculesToTrianglesCXXClasses_la-CXXMatrix.Tpo -c ../../../coot/MoleculesToTriangles/CXXClasses/CXXMatrix.cpp -fPIC -DPIC -o .libs/libMoleculesToTrianglesCXXClasses_la-CXXMatrix.o mv -f .deps/libMoleculesToTrianglesCXXClasses_la-RepresentationInstance.Tpo .deps/libMoleculesToTrianglesCXXClasses_la-RepresentationInstance.Plo /bin/bash ../../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" -DPACKAGE_STRING=\"coot\ 1.x-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I../../../coot/MoleculesToTriangles/CXXClasses -I../../../coot -pthread -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -g -O -Wall -Wno-unused -std=c++17 -MT libMoleculesToTrianglesCXXClasses_la-ColorRule.lo -MD -MP -MF .deps/libMoleculesToTrianglesCXXClasses_la-ColorRule.Tpo -c -o libMoleculesToTrianglesCXXClasses_la-ColorRule.lo `test -f 'ColorRule.cpp' || echo '../../../coot/MoleculesToTriangles/CXXClasses/'`ColorRule.cpp libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" "-DPACKAGE_STRING=\"coot 1.x-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I../../../coot/MoleculesToTriangles/CXXClasses -I../../../coot -pthread -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -g -O -Wall -Wno-unused -std=c++17 -MT libMoleculesToTrianglesCXXClasses_la-MolecularRepresentation.lo -MD -MP -MF .deps/libMoleculesToTrianglesCXXClasses_la-MolecularRepresentation.Tpo -c ../../../coot/MoleculesToTriangles/CXXClasses/MolecularRepresentation.cpp -fPIC -DPIC -o .libs/libMoleculesToTrianglesCXXClasses_la-MolecularRepresentation.o In file included from ../../../coot/MoleculesToTriangles/CXXClasses/RotatedTranslatedScaledEntity.h:26, from ../../../coot/MoleculesToTriangles/CXXClasses/Light.h:27, from ../../../coot/MoleculesToTriangles/CXXClasses/Light.cpp:23: ../../../coot/MoleculesToTriangles/CXXSurface/CXXCoord.h:38: warning: ignoring ‘#pragma omp simd’ [-Wunknown-pragmas] 38 | #pragma omp simd | ../../../coot/MoleculesToTriangles/CXXSurface/CXXCoord.h:42: warning: ignoring ‘#pragma omp simd’ [-Wunknown-pragmas] 42 | #pragma omp simd | ../../../coot/MoleculesToTriangles/CXXSurface/CXXCoord.h:55: warning: ignoring ‘#pragma omp simd’ [-Wunknown-pragmas] 55 | #pragma omp simd | ../../../coot/MoleculesToTriangles/CXXSurface/CXXCoord.h:63: warning: ignoring ‘#pragma omp simd’ [-Wunknown-pragmas] 63 | #pragma omp simd | ../../../coot/MoleculesToTriangles/CXXSurface/CXXCoord.h:71: warning: ignoring ‘#pragma omp simd’ [-Wunknown-pragmas] 71 | #pragma omp simd | In file included from ../../../coot/MoleculesToTriangles/CXXClasses/CXXMatrix.h:26, from ../../../coot/MoleculesToTriangles/CXXClasses/CXXMatrix.cpp:22: ../../../coot/MoleculesToTriangles/CXXSurface/CXXCoord.h:38: warning: ignoring ‘#pragma omp simd’ [-Wunknown-pragmas] 38 | #pragma omp simd | ../../../coot/MoleculesToTriangles/CXXSurface/CXXCoord.h:42: warning: ignoring ‘#pragma omp simd’ [-Wunknown-pragmas] 42 | #pragma omp simd | ../../../coot/MoleculesToTriangles/CXXSurface/CXXCoord.h:55: warning: ignoring ‘#pragma omp simd’ [-Wunknown-pragmas] 55 | #pragma omp simd | ../../../coot/MoleculesToTriangles/CXXSurface/CXXCoord.h:63: warning: ignoring ‘#pragma omp simd’ [-Wunknown-pragmas] 63 | #pragma omp simd | ../../../coot/MoleculesToTriangles/CXXSurface/CXXCoord.h:71: warning: ignoring ‘#pragma omp simd’ [-Wunknown-pragmas] 71 | #pragma omp simd | In file included from ../../../coot/MoleculesToTriangles/CXXClasses/MyMolecule.h:26, from ../../../coot/MoleculesToTriangles/CXXClasses/MolecularRepresentation.h:30, from ../../../coot/MoleculesToTriangles/CXXClasses/MolecularRepresentation.cpp:25: ../../../coot/MoleculesToTriangles/CXXSurface/CXXCoord.h:38: warning: ignoring ‘#pragma omp simd’ [-Wunknown-pragmas] 38 | #pragma omp simd | ../../../coot/MoleculesToTriangles/CXXSurface/CXXCoord.h:42: warning: ignoring ‘#pragma omp simd’ [-Wunknown-pragmas] 42 | #pragma omp simd | ../../../coot/MoleculesToTriangles/CXXSurface/CXXCoord.h:55: warning: ignoring ‘#pragma omp simd’ [-Wunknown-pragmas] 55 | #pragma omp simd | ../../../coot/MoleculesToTriangles/CXXSurface/CXXCoord.h:63: warning: ignoring ‘#pragma omp simd’ [-Wunknown-pragmas] 63 | #pragma omp simd | ../../../coot/MoleculesToTriangles/CXXSurface/CXXCoord.h:71: warning: ignoring ‘#pragma omp simd’ [-Wunknown-pragmas] 71 | #pragma omp simd | libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" "-DPACKAGE_STRING=\"coot 1.x-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I../../../coot/MoleculesToTriangles/CXXClasses -I../../../coot -pthread -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -g -O -Wall -Wno-unused -std=c++17 -MT libMoleculesToTrianglesCXXClasses_la-SecondaryColorScheme.lo -MD -MP -MF .deps/libMoleculesToTrianglesCXXClasses_la-SecondaryColorScheme.Tpo -c ../../../coot/MoleculesToTriangles/CXXClasses/SecondaryColorScheme.cpp -fPIC -DPIC -o .libs/libMoleculesToTrianglesCXXClasses_la-SecondaryColorScheme.o libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" "-DPACKAGE_STRING=\"coot 1.x-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I../../../coot/MoleculesToTriangles/CXXClasses -I../../../coot -pthread -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -g -O -Wall -Wno-unused -std=c++17 -MT libMoleculesToTrianglesCXXClasses_la-MyMolecule.lo -MD -MP -MF .deps/libMoleculesToTrianglesCXXClasses_la-MyMolecule.Tpo -c ../../../coot/MoleculesToTriangles/CXXClasses/MyMolecule.cpp -fPIC -DPIC -o .libs/libMoleculesToTrianglesCXXClasses_la-MyMolecule.o libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" "-DPACKAGE_STRING=\"coot 1.x-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I../../../coot/MoleculesToTriangles/CXXClasses -I../../../coot -pthread -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -g -O -Wall -Wno-unused -std=c++17 -MT libMoleculesToTrianglesCXXClasses_la-SolidColorRule.lo -MD -MP -MF .deps/libMoleculesToTrianglesCXXClasses_la-SolidColorRule.Tpo -c ../../../coot/MoleculesToTriangles/CXXClasses/SolidColorRule.cpp -fPIC -DPIC -o .libs/libMoleculesToTrianglesCXXClasses_la-SolidColorRule.o In file included from ../../../coot/MoleculesToTriangles/CXXClasses/MyMolecule.h:26, from ../../../coot/MoleculesToTriangles/CXXClasses/MyMolecule.cpp:25: ../../../coot/MoleculesToTriangles/CXXSurface/CXXCoord.h:38: warning: ignoring ‘#pragma omp simd’ [-Wunknown-pragmas] 38 | #pragma omp simd | ../../../coot/MoleculesToTriangles/CXXSurface/CXXCoord.h:42: warning: ignoring ‘#pragma omp simd’ [-Wunknown-pragmas] 42 | #pragma omp simd | ../../../coot/MoleculesToTriangles/CXXSurface/CXXCoord.h:55: warning: ignoring ‘#pragma omp simd’ [-Wunknown-pragmas] 55 | #pragma omp simd | ../../../coot/MoleculesToTriangles/CXXSurface/CXXCoord.h:63: warning: ignoring ‘#pragma omp simd’ [-Wunknown-pragmas] 63 | #pragma omp simd | ../../../coot/MoleculesToTriangles/CXXSurface/CXXCoord.h:71: warning: ignoring ‘#pragma omp simd’ [-Wunknown-pragmas] 71 | #pragma omp simd | In file included from ../../../coot/MoleculesToTriangles/CXXClasses/ColorRule.h:27, from ../../../coot/MoleculesToTriangles/CXXClasses/ColorScheme.h:30, from ../../../coot/MoleculesToTriangles/CXXClasses/SecondaryColorScheme.h:27, from ../../../coot/MoleculesToTriangles/CXXClasses/SecondaryColorScheme.cpp:23: ../../../coot/MoleculesToTriangles/CXXSurface/CXXCoord.h:38: warning: ignoring ‘#pragma omp simd’ [-Wunknown-pragmas] 38 | #pragma omp simd | ../../../coot/MoleculesToTriangles/CXXSurface/CXXCoord.h:42: warning: ignoring ‘#pragma omp simd’ [-Wunknown-pragmas] 42 | #pragma omp simd | ../../../coot/MoleculesToTriangles/CXXSurface/CXXCoord.h:55: warning: ignoring ‘#pragma omp simd’ [-Wunknown-pragmas] 55 | #pragma omp simd | ../../../coot/MoleculesToTriangles/CXXSurface/CXXCoord.h:63: warning: ignoring ‘#pragma omp simd’ [-Wunknown-pragmas] 63 | #pragma omp simd | ../../../coot/MoleculesToTriangles/CXXSurface/CXXCoord.h:71: warning: ignoring ‘#pragma omp simd’ [-Wunknown-pragmas] 71 | #pragma omp simd | In file included from ../../../coot/MoleculesToTriangles/CXXClasses/ColorRule.h:27, from ../../../coot/MoleculesToTriangles/CXXClasses/SolidColorRule.h:25, from ../../../coot/MoleculesToTriangles/CXXClasses/SolidColorRule.cpp:24: ../../../coot/MoleculesToTriangles/CXXSurface/CXXCoord.h:38: warning: ignoring ‘#pragma omp simd’ [-Wunknown-pragmas] 38 | #pragma omp simd | ../../../coot/MoleculesToTriangles/CXXSurface/CXXCoord.h:42: warning: ignoring ‘#pragma omp simd’ [-Wunknown-pragmas] 42 | #pragma omp simd | ../../../coot/MoleculesToTriangles/CXXSurface/CXXCoord.h:55: warning: ignoring ‘#pragma omp simd’ [-Wunknown-pragmas] 55 | #pragma omp simd | ../../../coot/MoleculesToTriangles/CXXSurface/CXXCoord.h:63: warning: ignoring ‘#pragma omp simd’ [-Wunknown-pragmas] 63 | #pragma omp simd | ../../../coot/MoleculesToTriangles/CXXSurface/CXXCoord.h:71: warning: ignoring ‘#pragma omp simd’ [-Wunknown-pragmas] 71 | #pragma omp simd | ../../../coot/MoleculesToTriangles/CXXClasses/BoxSectionPrimitive.cpp: In member function ‘virtual void BoxSectionPrimitive::generateArrays()’: ../../../coot/MoleculesToTriangles/CXXClasses/BoxSectionPrimitive.cpp:53:20: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 53 | for (int i=0; i< points.size(); i++){ | ~^~~~~~~~~~~~~~~ ../../../coot/MoleculesToTriangles/CXXClasses/BoxSectionPrimitive.cpp:86:20: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 86 | for (int i=0; i< points.size()-1; i++){ | ~^~~~~~~~~~~~~~~~~ mv -f .deps/libMoleculesToTrianglesCXXClasses_la-CXXMatrix.Tpo .deps/libMoleculesToTrianglesCXXClasses_la-CXXMatrix.Plo /bin/bash ../../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" -DPACKAGE_STRING=\"coot\ 1.x-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I../../../coot/MoleculesToTriangles/CXXClasses -I../../../coot -pthread -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -g -O -Wall -Wno-unused -std=c++17 -MT libMoleculesToTrianglesCXXClasses_la-NRStuff.lo -MD -MP -MF .deps/libMoleculesToTrianglesCXXClasses_la-NRStuff.Tpo -c -o libMoleculesToTrianglesCXXClasses_la-NRStuff.lo `test -f 'NRStuff.cpp' || echo '../../../coot/MoleculesToTriangles/CXXClasses/'`NRStuff.cpp libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" "-DPACKAGE_STRING=\"coot 1.x-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I../../../coot/MoleculesToTriangles/CXXClasses -I../../../coot -pthread -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -g -O -Wall -Wno-unused -std=c++17 -MT libMoleculesToTrianglesCXXClasses_la-ColorRule.lo -MD -MP -MF .deps/libMoleculesToTrianglesCXXClasses_la-ColorRule.Tpo -c ../../../coot/MoleculesToTriangles/CXXClasses/ColorRule.cpp -fPIC -DPIC -o .libs/libMoleculesToTrianglesCXXClasses_la-ColorRule.o In file included from ../../../coot/MoleculesToTriangles/CXXClasses/ColorRule.h:27, from ../../../coot/MoleculesToTriangles/CXXClasses/ColorRule.cpp:23: ../../../coot/MoleculesToTriangles/CXXSurface/CXXCoord.h:38: warning: ignoring ‘#pragma omp simd’ [-Wunknown-pragmas] 38 | #pragma omp simd | ../../../coot/MoleculesToTriangles/CXXSurface/CXXCoord.h:42: warning: ignoring ‘#pragma omp simd’ [-Wunknown-pragmas] 42 | #pragma omp simd | ../../../coot/MoleculesToTriangles/CXXSurface/CXXCoord.h:55: warning: ignoring ‘#pragma omp simd’ [-Wunknown-pragmas] 55 | #pragma omp simd | ../../../coot/MoleculesToTriangles/CXXSurface/CXXCoord.h:63: warning: ignoring ‘#pragma omp simd’ [-Wunknown-pragmas] 63 | #pragma omp simd | ../../../coot/MoleculesToTriangles/CXXSurface/CXXCoord.h:71: warning: ignoring ‘#pragma omp simd’ [-Wunknown-pragmas] 71 | #pragma omp simd | mv -f .deps/libMoleculesToTrianglesCXXClasses_la-BoxSectionPrimitive.Tpo .deps/libMoleculesToTrianglesCXXClasses_la-BoxSectionPrimitive.Plo /bin/bash ../../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" -DPACKAGE_STRING=\"coot\ 1.x-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I../../../coot/MoleculesToTriangles/CXXClasses -I../../../coot -pthread -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -g -O -Wall -Wno-unused -std=c++17 -MT libMoleculesToTrianglesCXXClasses_la-SpherePrimitive.lo -MD -MP -MF .deps/libMoleculesToTrianglesCXXClasses_la-SpherePrimitive.Tpo -c -o libMoleculesToTrianglesCXXClasses_la-SpherePrimitive.lo `test -f 'SpherePrimitive.cpp' || echo '../../../coot/MoleculesToTriangles/CXXClasses/'`SpherePrimitive.cpp mv -f .deps/libMoleculesToTrianglesCXXClasses_la-Light.Tpo .deps/libMoleculesToTrianglesCXXClasses_la-Light.Plo /bin/bash ../../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" -DPACKAGE_STRING=\"coot\ 1.x-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I../../../coot/MoleculesToTriangles/CXXClasses -I../../../coot -pthread -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -g -O -Wall -Wno-unused -std=c++17 -MT libMoleculesToTrianglesCXXClasses_la-ColorScheme.lo -MD -MP -MF .deps/libMoleculesToTrianglesCXXClasses_la-ColorScheme.Tpo -c -o libMoleculesToTrianglesCXXClasses_la-ColorScheme.lo `test -f 'ColorScheme.cpp' || echo '../../../coot/MoleculesToTriangles/CXXClasses/'`ColorScheme.cpp libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" "-DPACKAGE_STRING=\"coot 1.x-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I../../../coot/MoleculesToTriangles/CXXClasses -I../../../coot -pthread -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -g -O -Wall -Wno-unused -std=c++17 -MT libMoleculesToTrianglesCXXClasses_la-NRStuff.lo -MD -MP -MF .deps/libMoleculesToTrianglesCXXClasses_la-NRStuff.Tpo -c ../../../coot/MoleculesToTriangles/CXXClasses/NRStuff.cpp -fPIC -DPIC -o .libs/libMoleculesToTrianglesCXXClasses_la-NRStuff.o In file included from ../../../coot/MoleculesToTriangles/CXXClasses/MolecularRepresentation.cpp:26: ../../../coot/MoleculesToTriangles/CXXClasses/DishyBase.h: In constructor ‘DishyPlaneLSQ_t::DishyPlaneLSQ_t(const std::vector >&)’: ../../../coot/MoleculesToTriangles/CXXClasses/DishyBase.h:39:25: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] 39 | for (int i=0; i&, const FCXXCoord&)’: ../../../coot/MoleculesToTriangles/CXXClasses/DishyBase.h:117:14: warning: ‘DishyBase_t::centre’ will be initialized after [-Wreorder] 117 | FCXXCoord centre; | ^~~~~~ ../../../coot/MoleculesToTriangles/CXXClasses/DishyBase.h:116:14: warning: ‘FCXXCoord DishyBase_t::normal’ [-Wreorder] 116 | FCXXCoord normal; | ^~~~~~ In file included from ../../../coot/MoleculesToTriangles/CXXClasses/MolecularRepresentation.cpp:26: ../../../coot/MoleculesToTriangles/CXXClasses/DishyBase.h:102:4: warning: when initialized here [-Wreorder] 102 | DishyBase_t(const FCXXCoord ¢re_in, const FCXXCoord &normal_in, const float &rad_in, | ^~~~~~~~~~~ In file included from ../../../coot/MoleculesToTriangles/CXXClasses/MolecularRepresentation.cpp:26: ../../../coot/MoleculesToTriangles/CXXClasses/DishyBase.h:118:11: warning: ‘DishyBase_t::radius’ will be initialized after [-Wreorder] 118 | double radius; | ^~~~~~ ../../../coot/MoleculesToTriangles/CXXClasses/DishyBase.h:113:30: warning: ‘std::vector DishyBase_t::ribose_atoms’ [-Wreorder] 113 | std::vector ribose_atoms; // in a particular order: (O4', C1', C2', C3', C4') | ^~~~~~~~~~~~ In file included from ../../../coot/MoleculesToTriangles/CXXClasses/MolecularRepresentation.cpp:26: ../../../coot/MoleculesToTriangles/CXXClasses/DishyBase.h:102:4: warning: when initialized here [-Wreorder] 102 | DishyBase_t(const FCXXCoord ¢re_in, const FCXXCoord &normal_in, const float &rad_in, | ^~~~~~~~~~~ In file included from ../../../coot/MoleculesToTriangles/CXXClasses/oglPolyhedron.h:27, from ../../../coot/MoleculesToTriangles/CXXClasses/SpherePrimitive.h:28, from ../../../coot/MoleculesToTriangles/CXXClasses/MolecularRepresentation.cpp:27: ../../../coot/MoleculesToTriangles/CXXClasses/Polyhedron.h: In constructor ‘PolyhedronFace::PolyhedronFace(int, int*)’: ../../../coot/MoleculesToTriangles/CXXClasses/Polyhedron.h:56:36: warning: comparison of integer expressions of different signedness: ‘std::vector::size_type’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 56 | if (indices.size() != indexCount) indices.resize(indexCount); | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~ In file included from ../../../coot/MoleculesToTriangles/CXXClasses/NRStuff.h:28, from ../../../coot/MoleculesToTriangles/CXXClasses/NRStuff.cpp:23: ../../../coot/MoleculesToTriangles/CXXSurface/CXXCoord.h:38: warning: ignoring ‘#pragma omp simd’ [-Wunknown-pragmas] 38 | #pragma omp simd | ../../../coot/MoleculesToTriangles/CXXSurface/CXXCoord.h:42: warning: ignoring ‘#pragma omp simd’ [-Wunknown-pragmas] 42 | #pragma omp simd | ../../../coot/MoleculesToTriangles/CXXSurface/CXXCoord.h:55: warning: ignoring ‘#pragma omp simd’ [-Wunknown-pragmas] 55 | #pragma omp simd | ../../../coot/MoleculesToTriangles/CXXSurface/CXXCoord.h:63: warning: ignoring ‘#pragma omp simd’ [-Wunknown-pragmas] 63 | #pragma omp simd | ../../../coot/MoleculesToTriangles/CXXSurface/CXXCoord.h:71: warning: ignoring ‘#pragma omp simd’ [-Wunknown-pragmas] 71 | #pragma omp simd | In file included from ../../../coot/MoleculesToTriangles/CXXClasses/MyMolecule.cpp:34: ../../../coot/MoleculesToTriangles/CXXClasses/DishyBase.h: In constructor ‘DishyPlaneLSQ_t::DishyPlaneLSQ_t(const std::vector >&)’: ../../../coot/MoleculesToTriangles/CXXClasses/DishyBase.h:39:25: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] 39 | for (int i=0; i&, const FCXXCoord&)’: ../../../coot/MoleculesToTriangles/CXXClasses/DishyBase.h:117:14: warning: ‘DishyBase_t::centre’ will be initialized after [-Wreorder] 117 | FCXXCoord centre; | ^~~~~~ ../../../coot/MoleculesToTriangles/CXXClasses/DishyBase.h:116:14: warning: ‘FCXXCoord DishyBase_t::normal’ [-Wreorder] 116 | FCXXCoord normal; | ^~~~~~ In file included from ../../../coot/MoleculesToTriangles/CXXClasses/MyMolecule.cpp:34: ../../../coot/MoleculesToTriangles/CXXClasses/DishyBase.h:102:4: warning: when initialized here [-Wreorder] 102 | DishyBase_t(const FCXXCoord ¢re_in, const FCXXCoord &normal_in, const float &rad_in, | ^~~~~~~~~~~ In file included from ../../../coot/MoleculesToTriangles/CXXClasses/MyMolecule.cpp:34: ../../../coot/MoleculesToTriangles/CXXClasses/DishyBase.h:118:11: warning: ‘DishyBase_t::radius’ will be initialized after [-Wreorder] 118 | double radius; | ^~~~~~ ../../../coot/MoleculesToTriangles/CXXClasses/DishyBase.h:113:30: warning: ‘std::vector DishyBase_t::ribose_atoms’ [-Wreorder] 113 | std::vector ribose_atoms; // in a particular order: (O4', C1', C2', C3', C4') | ^~~~~~~~~~~~ In file included from ../../../coot/MoleculesToTriangles/CXXClasses/MyMolecule.cpp:34: ../../../coot/MoleculesToTriangles/CXXClasses/DishyBase.h:102:4: warning: when initialized here [-Wreorder] 102 | DishyBase_t(const FCXXCoord ¢re_in, const FCXXCoord &normal_in, const float &rad_in, | ^~~~~~~~~~~ libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" "-DPACKAGE_STRING=\"coot 1.x-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I../../../coot/MoleculesToTriangles/CXXClasses -I../../../coot -pthread -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -g -O -Wall -Wno-unused -std=c++17 -MT libMoleculesToTrianglesCXXClasses_la-SpherePrimitive.lo -MD -MP -MF .deps/libMoleculesToTrianglesCXXClasses_la-SpherePrimitive.Tpo -c ../../../coot/MoleculesToTriangles/CXXClasses/SpherePrimitive.cpp -fPIC -DPIC -o .libs/libMoleculesToTrianglesCXXClasses_la-SpherePrimitive.o libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" "-DPACKAGE_STRING=\"coot 1.x-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I../../../coot/MoleculesToTriangles/CXXClasses -I../../../coot -pthread -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -g -O -Wall -Wno-unused -std=c++17 -MT libMoleculesToTrianglesCXXClasses_la-ColorScheme.lo -MD -MP -MF .deps/libMoleculesToTrianglesCXXClasses_la-ColorScheme.Tpo -c ../../../coot/MoleculesToTriangles/CXXClasses/ColorScheme.cpp -fPIC -DPIC -o .libs/libMoleculesToTrianglesCXXClasses_la-ColorScheme.o In file included from ../../../coot/MoleculesToTriangles/CXXClasses/DisplayPrimitive.h:30, from ../../../coot/MoleculesToTriangles/CXXClasses/SpherePrimitive.h:27, from ../../../coot/MoleculesToTriangles/CXXClasses/SpherePrimitive.cpp:23: ../../../coot/MoleculesToTriangles/CXXSurface/CXXCoord.h:38: warning: ignoring ‘#pragma omp simd’ [-Wunknown-pragmas] 38 | #pragma omp simd | ../../../coot/MoleculesToTriangles/CXXSurface/CXXCoord.h:42: warning: ignoring ‘#pragma omp simd’ [-Wunknown-pragmas] 42 | #pragma omp simd | ../../../coot/MoleculesToTriangles/CXXSurface/CXXCoord.h:55: warning: ignoring ‘#pragma omp simd’ [-Wunknown-pragmas] 55 | #pragma omp simd | ../../../coot/MoleculesToTriangles/CXXSurface/CXXCoord.h:63: warning: ignoring ‘#pragma omp simd’ [-Wunknown-pragmas] 63 | #pragma omp simd | ../../../coot/MoleculesToTriangles/CXXSurface/CXXCoord.h:71: warning: ignoring ‘#pragma omp simd’ [-Wunknown-pragmas] 71 | #pragma omp simd | ../../../coot/MoleculesToTriangles/CXXClasses/MolecularRepresentation.cpp: In member function ‘int MolecularRepresentation::drawRibbon()’: ../../../coot/MoleculesToTriangles/CXXClasses/MolecularRepresentation.cpp:448:37: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 448 | for (int iSegment = 0; iSegment < segments.size(); iSegment++){ | ~~~~~~~~~^~~~~~~~~~~~~~~~~ ../../../coot/MoleculesToTriangles/CXXClasses/MolecularRepresentation.cpp: In member function ‘int MolecularRepresentation::drawCalphas()’: ../../../coot/MoleculesToTriangles/CXXClasses/MolecularRepresentation.cpp:646:37: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 646 | for (int iSegment = 0; iSegment < segments.size(); iSegment++){ | ~~~~~~~~~^~~~~~~~~~~~~~~~~ In file included from ../../../coot/MoleculesToTriangles/CXXClasses/ColorRule.h:27, from ../../../coot/MoleculesToTriangles/CXXClasses/ColorScheme.h:30, from ../../../coot/MoleculesToTriangles/CXXClasses/ColorScheme.cpp:23: ../../../coot/MoleculesToTriangles/CXXSurface/CXXCoord.h:38: warning: ignoring ‘#pragma omp simd’ [-Wunknown-pragmas] 38 | #pragma omp simd | ../../../coot/MoleculesToTriangles/CXXSurface/CXXCoord.h:42: warning: ignoring ‘#pragma omp simd’ [-Wunknown-pragmas] 42 | #pragma omp simd | ../../../coot/MoleculesToTriangles/CXXSurface/CXXCoord.h:55: warning: ignoring ‘#pragma omp simd’ [-Wunknown-pragmas] 55 | #pragma omp simd | ../../../coot/MoleculesToTriangles/CXXSurface/CXXCoord.h:63: warning: ignoring ‘#pragma omp simd’ [-Wunknown-pragmas] 63 | #pragma omp simd | ../../../coot/MoleculesToTriangles/CXXSurface/CXXCoord.h:71: warning: ignoring ‘#pragma omp simd’ [-Wunknown-pragmas] 71 | #pragma omp simd | mv -f .deps/libMoleculesToTrianglesCXXClasses_la-ColorRule.Tpo .deps/libMoleculesToTrianglesCXXClasses_la-ColorRule.Plo /bin/bash ../../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" -DPACKAGE_STRING=\"coot\ 1.x-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I../../../coot/MoleculesToTriangles/CXXClasses -I../../../coot -pthread -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -g -O -Wall -Wno-unused -std=c++17 -MT libMoleculesToTrianglesCXXClasses_la-Polyhedron.lo -MD -MP -MF .deps/libMoleculesToTrianglesCXXClasses_la-Polyhedron.Tpo -c -o libMoleculesToTrianglesCXXClasses_la-Polyhedron.lo `test -f 'Polyhedron.cpp' || echo '../../../coot/MoleculesToTriangles/CXXClasses/'`Polyhedron.cpp mv -f .deps/libMoleculesToTrianglesCXXClasses_la-NRStuff.Tpo .deps/libMoleculesToTrianglesCXXClasses_la-NRStuff.Plo /bin/bash ../../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" -DPACKAGE_STRING=\"coot\ 1.x-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I../../../coot/MoleculesToTriangles/CXXClasses -I../../../coot -pthread -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -g -O -Wall -Wno-unused -std=c++17 -MT libMoleculesToTrianglesCXXClasses_la-SticksPrimitive.lo -MD -MP -MF .deps/libMoleculesToTrianglesCXXClasses_la-SticksPrimitive.Tpo -c -o libMoleculesToTrianglesCXXClasses_la-SticksPrimitive.lo `test -f 'SticksPrimitive.cpp' || echo '../../../coot/MoleculesToTriangles/CXXClasses/'`SticksPrimitive.cpp libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" "-DPACKAGE_STRING=\"coot 1.x-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I../../../coot/MoleculesToTriangles/CXXClasses -I../../../coot -pthread -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -g -O -Wall -Wno-unused -std=c++17 -MT libMoleculesToTrianglesCXXClasses_la-Polyhedron.lo -MD -MP -MF .deps/libMoleculesToTrianglesCXXClasses_la-Polyhedron.Tpo -c ../../../coot/MoleculesToTriangles/CXXClasses/Polyhedron.cpp -fPIC -DPIC -o .libs/libMoleculesToTrianglesCXXClasses_la-Polyhedron.o mv -f .deps/libMoleculesToTrianglesCXXClasses_la-Polyhedron.Tpo .deps/libMoleculesToTrianglesCXXClasses_la-Polyhedron.Plo /bin/bash ../../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" -DPACKAGE_STRING=\"coot\ 1.x-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I../../../coot/MoleculesToTriangles/CXXClasses -I../../../coot -pthread -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -g -O -Wall -Wno-unused -std=c++17 -MT libMoleculesToTrianglesCXXClasses_la-CompoundSelection.lo -MD -MP -MF .deps/libMoleculesToTrianglesCXXClasses_la-CompoundSelection.Tpo -c -o libMoleculesToTrianglesCXXClasses_la-CompoundSelection.lo `test -f 'CompoundSelection.cpp' || echo '../../../coot/MoleculesToTriangles/CXXClasses/'`CompoundSelection.cpp libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" "-DPACKAGE_STRING=\"coot 1.x-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I../../../coot/MoleculesToTriangles/CXXClasses -I../../../coot -pthread -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -g -O -Wall -Wno-unused -std=c++17 -MT libMoleculesToTrianglesCXXClasses_la-SticksPrimitive.lo -MD -MP -MF .deps/libMoleculesToTrianglesCXXClasses_la-SticksPrimitive.Tpo -c ../../../coot/MoleculesToTriangles/CXXClasses/SticksPrimitive.cpp -fPIC -DPIC -o .libs/libMoleculesToTrianglesCXXClasses_la-SticksPrimitive.o In file included from ../../../coot/MoleculesToTriangles/CXXClasses/oglPolyhedron.h:27, from ../../../coot/MoleculesToTriangles/CXXClasses/SpherePrimitive.h:28, from ../../../coot/MoleculesToTriangles/CXXClasses/SpherePrimitive.cpp:23: ../../../coot/MoleculesToTriangles/CXXClasses/Polyhedron.h: In constructor ‘PolyhedronFace::PolyhedronFace(int, int*)’: ../../../coot/MoleculesToTriangles/CXXClasses/Polyhedron.h:56:36: warning: comparison of integer expressions of different signedness: ‘std::vector::size_type’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 56 | if (indices.size() != indexCount) indices.resize(indexCount); | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~ mv -f .deps/libMoleculesToTrianglesCXXClasses_la-SecondaryColorScheme.Tpo .deps/libMoleculesToTrianglesCXXClasses_la-SecondaryColorScheme.Plo /bin/bash ../../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" -DPACKAGE_STRING=\"coot\ 1.x-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I../../../coot/MoleculesToTriangles/CXXClasses -I../../../coot -pthread -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -g -O -Wall -Wno-unused -std=c++17 -MT libMoleculesToTrianglesCXXClasses_la-PositionedEntity.lo -MD -MP -MF .deps/libMoleculesToTrianglesCXXClasses_la-PositionedEntity.Tpo -c -o libMoleculesToTrianglesCXXClasses_la-PositionedEntity.lo `test -f 'PositionedEntity.cpp' || echo '../../../coot/MoleculesToTriangles/CXXClasses/'`PositionedEntity.cpp In file included from ../../../coot/MoleculesToTriangles/CXXClasses/DisplayPrimitive.h:30, from ../../../coot/MoleculesToTriangles/CXXClasses/VertexColorNormalPrimitive.h:25, from ../../../coot/MoleculesToTriangles/CXXClasses/SticksPrimitive.h:12, from ../../../coot/MoleculesToTriangles/CXXClasses/SticksPrimitive.cpp:9: ../../../coot/MoleculesToTriangles/CXXSurface/CXXCoord.h:38: warning: ignoring ‘#pragma omp simd’ [-Wunknown-pragmas] 38 | #pragma omp simd | ../../../coot/MoleculesToTriangles/CXXSurface/CXXCoord.h:42: warning: ignoring ‘#pragma omp simd’ [-Wunknown-pragmas] 42 | #pragma omp simd | ../../../coot/MoleculesToTriangles/CXXSurface/CXXCoord.h:55: warning: ignoring ‘#pragma omp simd’ [-Wunknown-pragmas] 55 | #pragma omp simd | ../../../coot/MoleculesToTriangles/CXXSurface/CXXCoord.h:63: warning: ignoring ‘#pragma omp simd’ [-Wunknown-pragmas] 63 | #pragma omp simd | ../../../coot/MoleculesToTriangles/CXXSurface/CXXCoord.h:71: warning: ignoring ‘#pragma omp simd’ [-Wunknown-pragmas] 71 | #pragma omp simd | libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" "-DPACKAGE_STRING=\"coot 1.x-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I../../../coot/MoleculesToTriangles/CXXClasses -I../../../coot -pthread -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -g -O -Wall -Wno-unused -std=c++17 -MT libMoleculesToTrianglesCXXClasses_la-CompoundSelection.lo -MD -MP -MF .deps/libMoleculesToTrianglesCXXClasses_la-CompoundSelection.Tpo -c ../../../coot/MoleculesToTriangles/CXXClasses/CompoundSelection.cpp -fPIC -DPIC -o .libs/libMoleculesToTrianglesCXXClasses_la-CompoundSelection.o In file included from ../../../coot/MoleculesToTriangles/CXXClasses/MyMolecule.h:26, from ../../../coot/MoleculesToTriangles/CXXClasses/CompoundSelection.h:33, from ../../../coot/MoleculesToTriangles/CXXClasses/CompoundSelection.cpp:23: ../../../coot/MoleculesToTriangles/CXXSurface/CXXCoord.h:38: warning: ignoring ‘#pragma omp simd’ [-Wunknown-pragmas] 38 | #pragma omp simd | ../../../coot/MoleculesToTriangles/CXXSurface/CXXCoord.h:42: warning: ignoring ‘#pragma omp simd’ [-Wunknown-pragmas] 42 | #pragma omp simd | ../../../coot/MoleculesToTriangles/CXXSurface/CXXCoord.h:55: warning: ignoring ‘#pragma omp simd’ [-Wunknown-pragmas] 55 | #pragma omp simd | ../../../coot/MoleculesToTriangles/CXXSurface/CXXCoord.h:63: warning: ignoring ‘#pragma omp simd’ [-Wunknown-pragmas] 63 | #pragma omp simd | ../../../coot/MoleculesToTriangles/CXXSurface/CXXCoord.h:71: warning: ignoring ‘#pragma omp simd’ [-Wunknown-pragmas] 71 | #pragma omp simd | ../../../coot/MoleculesToTriangles/CXXClasses/ColorScheme.cpp: In static member function ‘static std::shared_ptr ColorScheme::colorRampChainsScheme()’: ../../../coot/MoleculesToTriangles/CXXClasses/ColorScheme.cpp:59:20: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::__cxx11::basic_string::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 59 | for (int i=0; i, SurfacePrimitive::SurfaceType, float, float)’: ../../../coot/MoleculesToTriangles/CXXClasses/SurfacePrimitive.cpp:143:42: warning: comparison of integer expressions of different signedness: ‘int’ and ‘size_t’ {aka ‘long unsigned int’} [-Wsign-compare] 143 | for (int iVertex = 0; iVertex::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 83 | for (int i=0; i< points.size(); i++){ | ~^~~~~~~~~~~~~~~ ../../../coot/MoleculesToTriangles/CXXClasses/CylindersPrimitive.cpp:111:23: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 111 | for (int i=0; i< points.size()-1; i++){ | ~^~~~~~~~~~~~~~~~~ In file included from ../../../coot/MoleculesToTriangles/CXXClasses/oglPolyhedron.h:27, from ../../../coot/MoleculesToTriangles/CXXClasses/oglPolyhedron.cpp:23: ../../../coot/MoleculesToTriangles/CXXClasses/Polyhedron.h: In constructor ‘PolyhedronFace::PolyhedronFace(int, int*)’: ../../../coot/MoleculesToTriangles/CXXClasses/Polyhedron.h:56:36: warning: comparison of integer expressions of different signedness: ‘std::vector::size_type’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 56 | if (indices.size() != indexCount) indices.resize(indexCount); | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~ ../../../coot/MoleculesToTriangles/CXXClasses/oglPolyhedron.cpp: In member function ‘virtual void oglPolyhedron::generateArrays()’: ../../../coot/MoleculesToTriangles/CXXClasses/oglPolyhedron.cpp:46:24: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector >::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 46 | for (int i=0; i::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 55 | for (int i=0; i::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 61 | for (int i=0; i >&)’: ../../../coot/MoleculesToTriangles/CXXClasses/DishyBase.h:39:25: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] 39 | for (int i=0; i&, const FCXXCoord&)’: ../../../coot/MoleculesToTriangles/CXXClasses/DishyBase.h:117:14: warning: ‘DishyBase_t::centre’ will be initialized after [-Wreorder] 117 | FCXXCoord centre; | ^~~~~~ ../../../coot/MoleculesToTriangles/CXXClasses/DishyBase.h:116:14: warning: ‘FCXXCoord DishyBase_t::normal’ [-Wreorder] 116 | FCXXCoord normal; | ^~~~~~ In file included from ../../../coot/MoleculesToTriangles/CXXClasses/DishyBase.cpp:2: ../../../coot/MoleculesToTriangles/CXXClasses/DishyBase.h:102:4: warning: when initialized here [-Wreorder] 102 | DishyBase_t(const FCXXCoord ¢re_in, const FCXXCoord &normal_in, const float &rad_in, | ^~~~~~~~~~~ In file included from ../../../coot/MoleculesToTriangles/CXXClasses/DishyBase.cpp:2: ../../../coot/MoleculesToTriangles/CXXClasses/DishyBase.h:118:11: warning: ‘DishyBase_t::radius’ will be initialized after [-Wreorder] 118 | double radius; | ^~~~~~ ../../../coot/MoleculesToTriangles/CXXClasses/DishyBase.h:113:30: warning: ‘std::vector DishyBase_t::ribose_atoms’ [-Wreorder] 113 | std::vector ribose_atoms; // in a particular order: (O4', C1', C2', C3', C4') | ^~~~~~~~~~~~ In file included from ../../../coot/MoleculesToTriangles/CXXClasses/DishyBase.cpp:2: ../../../coot/MoleculesToTriangles/CXXClasses/DishyBase.h:102:4: warning: when initialized here [-Wreorder] 102 | DishyBase_t(const FCXXCoord ¢re_in, const FCXXCoord &normal_in, const float &rad_in, | ^~~~~~~~~~~ mv -f .deps/libMoleculesToTrianglesCXXClasses_la-MolecularRepresentationInstance.Tpo .deps/libMoleculesToTrianglesCXXClasses_la-MolecularRepresentationInstance.Plo mv -f .deps/libMoleculesToTrianglesCXXClasses_la-DishyBase.Tpo .deps/libMoleculesToTrianglesCXXClasses_la-DishyBase.Plo mv -f .deps/libMoleculesToTrianglesCXXClasses_la-FlatFanPrimitive.Tpo .deps/libMoleculesToTrianglesCXXClasses_la-FlatFanPrimitive.Plo /bin/bash ../../libtool --tag=CXX --mode=link g++ -g -O -Wall -Wno-unused -std=c++17 -L/opt/user_software/coot/bin-gtk4/lib -o libMoleculesToTrianglesCXXClasses.la -rpath /opt/user_software/coot/bin-gtk4/lib libMoleculesToTrianglesCXXClasses_la-AtomPropertyRampColorRule.lo libMoleculesToTrianglesCXXClasses_la-DirectedPositionedEntity.lo libMoleculesToTrianglesCXXClasses_la-Representation.lo libMoleculesToTrianglesCXXClasses_la-BallsPrimitive.lo libMoleculesToTrianglesCXXClasses_la-DiscreteSegment.lo libMoleculesToTrianglesCXXClasses_la-RepresentationInstance.lo libMoleculesToTrianglesCXXClasses_la-BondsPrimitive.lo libMoleculesToTrianglesCXXClasses_la-DisplayPrimitive.lo libMoleculesToTrianglesCXXClasses_la-RotatedTranslatedScaledEntity.lo libMoleculesToTrianglesCXXClasses_la-BoxSectionPrimitive.lo libMoleculesToTrianglesCXXClasses_la-Light.lo libMoleculesToTrianglesCXXClasses_la-CXXMatrix.lo libMoleculesToTrianglesCXXClasses_la-MolecularRepresentation.lo libMoleculesToTrianglesCXXClasses_la-SecondaryColorScheme.lo libMoleculesToTrianglesCXXClasses_la-MyMolecule.lo libMoleculesToTrianglesCXXClasses_la-SolidColorRule.lo libMoleculesToTrianglesCXXClasses_la-ColorRule.lo libMoleculesToTrianglesCXXClasses_la-NRStuff.lo libMoleculesToTrianglesCXXClasses_la-SpherePrimitive.lo libMoleculesToTrianglesCXXClasses_la-ColorScheme.lo libMoleculesToTrianglesCXXClasses_la-Polyhedron.lo libMoleculesToTrianglesCXXClasses_la-SticksPrimitive.lo libMoleculesToTrianglesCXXClasses_la-CompoundSelection.lo libMoleculesToTrianglesCXXClasses_la-PositionedEntity.lo libMoleculesToTrianglesCXXClasses_la-SurfacePrimitive.lo libMoleculesToTrianglesCXXClasses_la-CylinderPoint.lo libMoleculesToTrianglesCXXClasses_la-Renderer.lo libMoleculesToTrianglesCXXClasses_la-VertexColorNormalPrimitive.lo libMoleculesToTrianglesCXXClasses_la-CylindersPrimitive.lo libMoleculesToTrianglesCXXClasses_la-oglPolyhedron.lo libMoleculesToTrianglesCXXClasses_la-MolecularRepresentationInstance.lo libMoleculesToTrianglesCXXClasses_la-Quaternion.lo libMoleculesToTrianglesCXXClasses_la-Vector2.lo libMoleculesToTrianglesCXXClasses_la-Vector3.lo libMoleculesToTrianglesCXXClasses_la-lfit.lo libMoleculesToTrianglesCXXClasses_la-DishyBase.lo libMoleculesToTrianglesCXXClasses_la-FlatFanPrimitive.lo ../../MoleculesToTriangles/CXXSurface/libMoleculesToTrianglesCXXSurface.la -L/opt/user_software/coot/bin-gtk4/lib -lclipper-ccp4 -lclipper-cif -lclipper-minimol -lclipper-mmdb -lclipper-cns -lclipper-phs -lclipper-contrib -lclipper-core -lccp4c -lmmdb2 -L/opt/user_software/coot/bin-gtk4/lib -lmmdb2 libtool: link: g++ -fPIC -DPIC -shared -nostdlib /usr/lib/gcc/x86_64-linux-gnu/11/../../../x86_64-linux-gnu/crti.o /usr/lib/gcc/x86_64-linux-gnu/11/crtbeginS.o .libs/libMoleculesToTrianglesCXXClasses_la-AtomPropertyRampColorRule.o .libs/libMoleculesToTrianglesCXXClasses_la-DirectedPositionedEntity.o .libs/libMoleculesToTrianglesCXXClasses_la-Representation.o .libs/libMoleculesToTrianglesCXXClasses_la-BallsPrimitive.o .libs/libMoleculesToTrianglesCXXClasses_la-DiscreteSegment.o .libs/libMoleculesToTrianglesCXXClasses_la-RepresentationInstance.o .libs/libMoleculesToTrianglesCXXClasses_la-BondsPrimitive.o .libs/libMoleculesToTrianglesCXXClasses_la-DisplayPrimitive.o .libs/libMoleculesToTrianglesCXXClasses_la-RotatedTranslatedScaledEntity.o .libs/libMoleculesToTrianglesCXXClasses_la-BoxSectionPrimitive.o .libs/libMoleculesToTrianglesCXXClasses_la-Light.o .libs/libMoleculesToTrianglesCXXClasses_la-CXXMatrix.o .libs/libMoleculesToTrianglesCXXClasses_la-MolecularRepresentation.o .libs/libMoleculesToTrianglesCXXClasses_la-SecondaryColorScheme.o .libs/libMoleculesToTrianglesCXXClasses_la-MyMolecule.o .libs/libMoleculesToTrianglesCXXClasses_la-SolidColorRule.o .libs/libMoleculesToTrianglesCXXClasses_la-ColorRule.o .libs/libMoleculesToTrianglesCXXClasses_la-NRStuff.o .libs/libMoleculesToTrianglesCXXClasses_la-SpherePrimitive.o .libs/libMoleculesToTrianglesCXXClasses_la-ColorScheme.o .libs/libMoleculesToTrianglesCXXClasses_la-Polyhedron.o .libs/libMoleculesToTrianglesCXXClasses_la-SticksPrimitive.o .libs/libMoleculesToTrianglesCXXClasses_la-CompoundSelection.o .libs/libMoleculesToTrianglesCXXClasses_la-PositionedEntity.o .libs/libMoleculesToTrianglesCXXClasses_la-SurfacePrimitive.o .libs/libMoleculesToTrianglesCXXClasses_la-CylinderPoint.o .libs/libMoleculesToTrianglesCXXClasses_la-Renderer.o .libs/libMoleculesToTrianglesCXXClasses_la-VertexColorNormalPrimitive.o .libs/libMoleculesToTrianglesCXXClasses_la-CylindersPrimitive.o .libs/libMoleculesToTrianglesCXXClasses_la-oglPolyhedron.o .libs/libMoleculesToTrianglesCXXClasses_la-MolecularRepresentationInstance.o .libs/libMoleculesToTrianglesCXXClasses_la-Quaternion.o .libs/libMoleculesToTrianglesCXXClasses_la-Vector2.o .libs/libMoleculesToTrianglesCXXClasses_la-Vector3.o .libs/libMoleculesToTrianglesCXXClasses_la-lfit.o .libs/libMoleculesToTrianglesCXXClasses_la-DishyBase.o .libs/libMoleculesToTrianglesCXXClasses_la-FlatFanPrimitive.o -Wl,-rpath -Wl,/opt/user_software/coot/src/build-coot/MoleculesToTriangles/CXXSurface/.libs -Wl,-rpath -Wl,/opt/user_software/coot/bin-gtk4/lib -Wl,-rpath -Wl,/opt/user_software/coot/bin-gtk4/lib -L/opt/user_software/coot/bin-gtk4/lib ../../MoleculesToTriangles/CXXSurface/.libs/libMoleculesToTrianglesCXXSurface.so -L=/opt/user_software/coot/bin-gtk4/lib:-L/opt/user_software/coot/bin-gtk4/lib: /opt/user_software/coot/bin-gtk4/lib/libclipper-ccp4.so /opt/user_software/coot/bin-gtk4/lib/libclipper-cif.so /opt/user_software/coot/bin-gtk4/lib/libclipper-minimol.so /opt/user_software/coot/bin-gtk4/lib/libclipper-mmdb.so /opt/user_software/coot/bin-gtk4/lib/libclipper-cns.so /opt/user_software/coot/bin-gtk4/lib/libclipper-phs.so /opt/user_software/coot/bin-gtk4/lib/libclipper-contrib.so /opt/user_software/coot/bin-gtk4/lib/libclipper-core.so /opt/user_software/coot/bin-gtk4/lib/librfftw.so /opt/user_software/coot/bin-gtk4/lib/libfftw.so -lpthread /opt/user_software/coot/bin-gtk4/lib/libccp4c.so /opt/user_software/coot/bin-gtk4/lib/libmmdb2.so -L/usr/lib/gcc/x86_64-linux-gnu/11 -L/usr/lib/gcc/x86_64-linux-gnu/11/../../../x86_64-linux-gnu -L/usr/lib/gcc/x86_64-linux-gnu/11/../../../../lib -L/lib/x86_64-linux-gnu -L/lib/../lib -L/usr/lib/x86_64-linux-gnu -L/usr/lib/../lib -L/usr/lib/gcc/x86_64-linux-gnu/11/../../.. -lstdc++ -lm -lc -lgcc_s /usr/lib/gcc/x86_64-linux-gnu/11/crtendS.o /usr/lib/gcc/x86_64-linux-gnu/11/../../../x86_64-linux-gnu/crtn.o -g -O -fopenmp -Wl,-soname -Wl,libMoleculesToTrianglesCXXClasses.so.0 -o .libs/libMoleculesToTrianglesCXXClasses.so.0.0.0 libtool: link: (cd ".libs" && rm -f "libMoleculesToTrianglesCXXClasses.so.0" && ln -s "libMoleculesToTrianglesCXXClasses.so.0.0.0" "libMoleculesToTrianglesCXXClasses.so.0") libtool: link: (cd ".libs" && rm -f "libMoleculesToTrianglesCXXClasses.so" && ln -s "libMoleculesToTrianglesCXXClasses.so.0.0.0" "libMoleculesToTrianglesCXXClasses.so") libtool: link: ( cd ".libs" && rm -f "libMoleculesToTrianglesCXXClasses.la" && ln -s "../libMoleculesToTrianglesCXXClasses.la" "libMoleculesToTrianglesCXXClasses.la" ) make[2]: Leaving directory '/opt/user_software/coot/src/build-coot/MoleculesToTriangles/CXXClasses' make[2]: Entering directory '/opt/user_software/coot/src/build-coot/MoleculesToTriangles' make[2]: Nothing to be done for 'all-am'. make[2]: Leaving directory '/opt/user_software/coot/src/build-coot/MoleculesToTriangles' make[1]: Leaving directory '/opt/user_software/coot/src/build-coot/MoleculesToTriangles' Making all in pli make[1]: Entering directory '/opt/user_software/coot/src/build-coot/pli' /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" -DPACKAGE_STRING=\"coot\ 1.x-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I../../coot/pli -DUSE_PYTHON -I../../coot -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_GSL -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DCLIPPER_HAS_TOP8000 -I/opt/user_software/coot/bin-gtk4/include -DMMDB_HAS_LINK_DISTANCE -I/opt/user_software/coot/bin-gtk4/include/python3.11 -I/opt/user_software/coot/bin-gtk4/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -g -O -Wall -Wno-unused -std=c++17 -MT protein-ligand-interactions.lo -MD -MP -MF .deps/protein-ligand-interactions.Tpo -c -o protein-ligand-interactions.lo ../../coot/pli/protein-ligand-interactions.cc /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" -DPACKAGE_STRING=\"coot\ 1.x-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I../../coot/pli -DUSE_PYTHON -I../../coot -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_GSL -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DCLIPPER_HAS_TOP8000 -I/opt/user_software/coot/bin-gtk4/include -DMMDB_HAS_LINK_DISTANCE -I/opt/user_software/coot/bin-gtk4/include/python3.11 -I/opt/user_software/coot/bin-gtk4/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -g -O -Wall -Wno-unused -std=c++17 -MT flev-annotations.lo -MD -MP -MF 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-I/opt/user_software/coot/bin-gtk4/include/python3.11 -I/opt/user_software/coot/bin-gtk4/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -g -O -Wall -Wno-unused -std=c++17 -MT pi-stacking.lo -MD -MP -MF .deps/pi-stacking.Tpo -c -o pi-stacking.lo ../../coot/pli/pi-stacking.cc /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" -DPACKAGE_STRING=\"coot\ 1.x-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. 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-I/opt/user_software/coot/bin-gtk4/include -g -O -Wall -Wno-unused -std=c++17 -MT protein-ligand-interactions.lo -MD -MP -MF .deps/protein-ligand-interactions.Tpo -c ../../coot/pli/protein-ligand-interactions.cc -fPIC -DPIC -o .libs/protein-ligand-interactions.o libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" "-DPACKAGE_STRING=\"coot 1.x-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I../../coot/pli -DUSE_PYTHON -I../../coot -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_GSL -I/opt/user_software/coot/bin-gtk4/include 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.deps/pi-stacking.Plo /bin/bash ../libtool --tag=CXX --mode=link g++ -g -O -Wall -Wno-unused -std=c++17 -o libcoot-pli.la -rpath /opt/user_software/coot/bin-gtk4/lib protein-ligand-interactions.lo flev-annotations.lo pi-stacking.lo sdf-interface.lo ../coot-utils/libcoot-coord-utils.la ../geometry/libcoot-geometry.la ../lidia-core/libcoot-lidia-core.la -L/opt/user_software/coot/bin-gtk4/lib -lclipper-ccp4 -lclipper-cif -lclipper-minimol -lclipper-mmdb -lclipper-cns -lclipper-phs -lclipper-contrib -lclipper-core -lccp4c -lmmdb2 -L/opt/user_software/coot/bin-gtk4/lib -lmmdb2 -L/opt/user_software/coot/bin-gtk4/lib -lRDKitMolDraw2D -lRDKitForceFieldHelpers -lRDKitDescriptors -lRDKitForceField -lRDKitSubstructMatch -lRDKitOptimizer -lRDKitDistGeomHelpers -lRDKitDistGeometry -lRDKitChemReactions -lRDKitAlignment -lRDKitEigenSolvers -lRDKitDepictor -lRDKitcoordgen -lRDKitMolChemicalFeatures -lRDKitPartialCharges -lRDKitFileParsers -lRDKitRDGeometryLib -lRDKitGraphMol -lRDKitShapeHelpers 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nautilus-join.lo ../../coot/cootilus/nautilus-join.cpp /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" -DPACKAGE_STRING=\"coot\ 1.x-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I../../coot/cootilus -I/opt/user_software/coot/bin-gtk4/include -DCLIPPER_HAS_TOP8000 -I/opt/user_software/coot/bin-gtk4/include -DMMDB_HAS_LINK_DISTANCE -I/opt/user_software/coot/bin-gtk4/include -g -O -Wall -Wno-unused -std=c++17 -MT nautilus-target.lo -MD -MP -MF .deps/nautilus-target.Tpo -c -o nautilus-target.lo ../../coot/cootilus/nautilus-target.cpp /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" -DPACKAGE_STRING=\"coot\ 1.x-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I../../coot/cootilus -I/opt/user_software/coot/bin-gtk4/include -DCLIPPER_HAS_TOP8000 -I/opt/user_software/coot/bin-gtk4/include -DMMDB_HAS_LINK_DISTANCE -I/opt/user_software/coot/bin-gtk4/include -g -O -Wall -Wno-unused -std=c++17 -MT cootilus-build.lo -MD -MP -MF .deps/cootilus-build.Tpo -c -o cootilus-build.lo ../../coot/cootilus/cootilus-build.cpp libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" "-DPACKAGE_STRING=\"coot 1.x-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I../../coot/cootilus -I/opt/user_software/coot/bin-gtk4/include -DCLIPPER_HAS_TOP8000 -I/opt/user_software/coot/bin-gtk4/include -DMMDB_HAS_LINK_DISTANCE -I/opt/user_software/coot/bin-gtk4/include -g -O -Wall -Wno-unused -std=c++17 -MT nautilus-ss-find.lo -MD -MP -MF .deps/nautilus-ss-find.Tpo -c ../../coot/cootilus/nautilus-ss-find.cpp -fPIC -DPIC -o .libs/nautilus-ss-find.o libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" "-DPACKAGE_STRING=\"coot 1.x-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I../../coot/cootilus -I/opt/user_software/coot/bin-gtk4/include -DCLIPPER_HAS_TOP8000 -I/opt/user_software/coot/bin-gtk4/include -DMMDB_HAS_LINK_DISTANCE -I/opt/user_software/coot/bin-gtk4/include -g -O -Wall -Wno-unused -std=c++17 -MT nucleicacid_db.lo -MD -MP -MF .deps/nucleicacid_db.Tpo -c ../../coot/cootilus/nucleicacid_db.cpp -fPIC -DPIC -o .libs/nucleicacid_db.o libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" "-DPACKAGE_STRING=\"coot 1.x-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I../../coot/cootilus -I/opt/user_software/coot/bin-gtk4/include -DCLIPPER_HAS_TOP8000 -I/opt/user_software/coot/bin-gtk4/include -DMMDB_HAS_LINK_DISTANCE -I/opt/user_software/coot/bin-gtk4/include -g -O -Wall -Wno-unused -std=c++17 -MT nautilus-tools.lo -MD -MP -MF .deps/nautilus-tools.Tpo -c ../../coot/cootilus/nautilus-tools.cpp -fPIC -DPIC -o .libs/nautilus-tools.o libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" "-DPACKAGE_STRING=\"coot 1.x-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I../../coot/cootilus -I/opt/user_software/coot/bin-gtk4/include -DCLIPPER_HAS_TOP8000 -I/opt/user_software/coot/bin-gtk4/include -DMMDB_HAS_LINK_DISTANCE -I/opt/user_software/coot/bin-gtk4/include -g -O -Wall -Wno-unused -std=c++17 -MT cootilus-build.lo -MD -MP -MF .deps/cootilus-build.Tpo -c ../../coot/cootilus/cootilus-build.cpp -fPIC -DPIC -o .libs/cootilus-build.o libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" "-DPACKAGE_STRING=\"coot 1.x-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I../../coot/cootilus -I/opt/user_software/coot/bin-gtk4/include -DCLIPPER_HAS_TOP8000 -I/opt/user_software/coot/bin-gtk4/include -DMMDB_HAS_LINK_DISTANCE -I/opt/user_software/coot/bin-gtk4/include -g -O -Wall -Wno-unused -std=c++17 -MT nautilus-join.lo -MD -MP -MF .deps/nautilus-join.Tpo -c ../../coot/cootilus/nautilus-join.cpp -fPIC -DPIC -o .libs/nautilus-join.o libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" "-DPACKAGE_STRING=\"coot 1.x-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I../../coot/cootilus -I/opt/user_software/coot/bin-gtk4/include -DCLIPPER_HAS_TOP8000 -I/opt/user_software/coot/bin-gtk4/include -DMMDB_HAS_LINK_DISTANCE -I/opt/user_software/coot/bin-gtk4/include -g -O -Wall -Wno-unused -std=c++17 -MT nautilus-target.lo -MD -MP -MF .deps/nautilus-target.Tpo -c ../../coot/cootilus/nautilus-target.cpp -fPIC -DPIC -o .libs/nautilus-target.o mv -f .deps/nautilus-ss-find.Tpo .deps/nautilus-ss-find.Plo mv -f .deps/cootilus-build.Tpo .deps/cootilus-build.Plo mv -f .deps/nucleicacid_db.Tpo .deps/nucleicacid_db.Plo mv -f .deps/nautilus-tools.Tpo .deps/nautilus-tools.Plo mv -f .deps/nautilus-join.Tpo .deps/nautilus-join.Plo mv -f .deps/nautilus-target.Tpo .deps/nautilus-target.Plo /bin/bash ../libtool --tag=CXX --mode=link g++ -g -O -Wall -Wno-unused -std=c++17 -o libcootilus.la -rpath /opt/user_software/coot/bin-gtk4/lib nucleicacid_db.lo nautilus-tools.lo nautilus-ss-find.lo nautilus-join.lo nautilus-target.lo cootilus-build.lo -L/opt/user_software/coot/bin-gtk4/lib -lclipper-ccp4 -lclipper-cif -lclipper-minimol -lclipper-mmdb -lclipper-cns -lclipper-phs -lclipper-contrib -lclipper-core -lccp4c -lmmdb2 libtool: link: g++ -fPIC -DPIC -shared -nostdlib /usr/lib/gcc/x86_64-linux-gnu/11/../../../x86_64-linux-gnu/crti.o /usr/lib/gcc/x86_64-linux-gnu/11/crtbeginS.o .libs/nucleicacid_db.o .libs/nautilus-tools.o .libs/nautilus-ss-find.o .libs/nautilus-join.o .libs/nautilus-target.o .libs/cootilus-build.o -Wl,-rpath -Wl,/opt/user_software/coot/bin-gtk4/lib -Wl,-rpath -Wl,/opt/user_software/coot/bin-gtk4/lib -L/opt/user_software/coot/bin-gtk4/lib /opt/user_software/coot/bin-gtk4/lib/libclipper-ccp4.so -L=/opt/user_software/coot/bin-gtk4/lib:-L/opt/user_software/coot/bin-gtk4/lib: /opt/user_software/coot/bin-gtk4/lib/libclipper-cif.so /opt/user_software/coot/bin-gtk4/lib/libclipper-minimol.so /opt/user_software/coot/bin-gtk4/lib/libclipper-mmdb.so /opt/user_software/coot/bin-gtk4/lib/libclipper-cns.so /opt/user_software/coot/bin-gtk4/lib/libclipper-phs.so /opt/user_software/coot/bin-gtk4/lib/libclipper-contrib.so /opt/user_software/coot/bin-gtk4/lib/libclipper-core.so /opt/user_software/coot/bin-gtk4/lib/librfftw.so /opt/user_software/coot/bin-gtk4/lib/libfftw.so -lpthread /opt/user_software/coot/bin-gtk4/lib/libccp4c.so /opt/user_software/coot/bin-gtk4/lib/libmmdb2.so -L/usr/lib/gcc/x86_64-linux-gnu/11 -L/usr/lib/gcc/x86_64-linux-gnu/11/../../../x86_64-linux-gnu -L/usr/lib/gcc/x86_64-linux-gnu/11/../../../../lib -L/lib/x86_64-linux-gnu -L/lib/../lib -L/usr/lib/x86_64-linux-gnu -L/usr/lib/../lib -L/usr/lib/gcc/x86_64-linux-gnu/11/../../.. -lstdc++ -lm -lc -lgcc_s /usr/lib/gcc/x86_64-linux-gnu/11/crtendS.o /usr/lib/gcc/x86_64-linux-gnu/11/../../../x86_64-linux-gnu/crtn.o -g -O -Wl,-soname -Wl,libcootilus.so.0 -o .libs/libcootilus.so.0.0.0 libtool: link: (cd ".libs" && rm -f "libcootilus.so.0" && ln -s "libcootilus.so.0.0.0" "libcootilus.so.0") libtool: link: (cd ".libs" && rm -f "libcootilus.so" && ln -s "libcootilus.so.0.0.0" "libcootilus.so") libtool: link: ( cd ".libs" && rm -f "libcootilus.la" && ln -s "../libcootilus.la" "libcootilus.la" ) make[1]: Leaving directory '/opt/user_software/coot/src/build-coot/cootilus' Making all in fonts make[1]: Entering directory '/opt/user_software/coot/src/build-coot/fonts' make[1]: Nothing to be done for 'all'. make[1]: Leaving directory '/opt/user_software/coot/src/build-coot/fonts' Making all in pyrogen make[1]: Entering directory '/opt/user_software/coot/src/build-coot/pyrogen' /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" -DPACKAGE_STRING=\"coot\ 1.x-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I../../coot/pyrogen -pthread -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -I/opt/user_software/coot/bin-gtk4/include/python3.11 -DMAKE_ENHANCED_LIGAND_TOOLS -I../../coot -I/opt/user_software/coot/bin-gtk4/include -DPKGDATADIR='"/opt/user_software/coot/bin-gtk4/share/coot"' -I/opt/user_software/coot/bin-gtk4/lib/libffi-3.2.1/include -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -g -O -Wall -Wno-unused -std=c++17 -MT mmff-restraints.lo -MD -MP -MF .deps/mmff-restraints.Tpo -c -o mmff-restraints.lo ../../coot/pyrogen/mmff-restraints.cc /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" -DPACKAGE_STRING=\"coot\ 1.x-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 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-I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -g -O -Wall -Wno-unused -std=c++17 -MT cairo-molecule.lo -MD -MP -MF .deps/cairo-molecule.Tpo -c -o cairo-molecule.lo ../../coot/pyrogen/cairo-molecule.cc /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" -DPACKAGE_STRING=\"coot\ 1.x-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I../../coot/pyrogen -pthread -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT 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-I/usr/include/libpng16 -g -O -Wall -Wno-unused -std=c++17 -MT restraints.lo -MD -MP -MF .deps/restraints.Tpo -c -o restraints.lo ../../coot/pyrogen/restraints.cc /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" -DPACKAGE_STRING=\"coot\ 1.x-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I../../coot/pyrogen -pthread -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -I/opt/user_software/coot/bin-gtk4/include/python3.11 -DMAKE_ENHANCED_LIGAND_TOOLS -I../../coot -I/opt/user_software/coot/bin-gtk4/include -DPKGDATADIR='"/opt/user_software/coot/bin-gtk4/share/coot"' -I/opt/user_software/coot/bin-gtk4/lib/libffi-3.2.1/include -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -g -O -Wall -Wno-unused -std=c++17 -MT restraints-boost.lo -MD -MP -MF .deps/restraints-boost.Tpo -c -o restraints-boost.lo ../../coot/pyrogen/restraints-boost.cc ../../coot/pyrogen/restraints.hh:57: Warning 389: operator[] ignored (consider using %extend) libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" "-DPACKAGE_STRING=\"coot 1.x-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 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libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" "-DPACKAGE_STRING=\"coot 1.x-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I../../coot/pyrogen -pthread -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -I/opt/user_software/coot/bin-gtk4/include/python3.11 -DMAKE_ENHANCED_LIGAND_TOOLS -I../../coot -I/opt/user_software/coot/bin-gtk4/include -DPKGDATADIR=\"/opt/user_software/coot/bin-gtk4/share/coot\" 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"-DHAVE_BOOST_PYTHON=/**/" -I. -I../../coot/pyrogen -pthread -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -I/opt/user_software/coot/bin-gtk4/include/python3.11 -DMAKE_ENHANCED_LIGAND_TOOLS -I../../coot -I/opt/user_software/coot/bin-gtk4/include -DPKGDATADIR=\"/opt/user_software/coot/bin-gtk4/share/coot\" -I/opt/user_software/coot/bin-gtk4/lib/libffi-3.2.1/include -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -g -O -Wall -Wno-unused -std=c++17 -MT restraints-boost.lo -MD -MP -MF .deps/restraints-boost.Tpo -c ../../coot/pyrogen/restraints-boost.cc -fPIC -DPIC -o .libs/restraints-boost.o libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" "-DPACKAGE_STRING=\"coot 1.x-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" 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-I/usr/include/libpng16 -g -O -Wall -Wno-unused -std=c++17 -MT restraints.lo -MD -MP -MF .deps/restraints.Tpo -c ../../coot/pyrogen/restraints.cc -fPIC -DPIC -o .libs/restraints.o libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" "-DPACKAGE_STRING=\"coot 1.x-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I../../coot/pyrogen -pthread -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -I/opt/user_software/coot/bin-gtk4/include/python3.11 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-DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" -DPACKAGE_STRING=\"coot\ 1.x-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I../../coot/pyrogen -pthread -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -I/opt/user_software/coot/bin-gtk4/include/python3.11 -DMAKE_ENHANCED_LIGAND_TOOLS -I../../coot -I/opt/user_software/coot/bin-gtk4/include -DPKGDATADIR='"/opt/user_software/coot/bin-gtk4/share/coot"' -I/opt/user_software/coot/bin-gtk4/lib/libffi-3.2.1/include -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -g -O -Wall -Wno-unused -std=c++17 -MT pyrogen-swig.lo -MD -MP -MF .deps/pyrogen-swig.Tpo -c -o pyrogen-swig.lo pyrogen-swig.cc libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" "-DPACKAGE_STRING=\"coot 1.x-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I../../coot/pyrogen -pthread -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -I/opt/user_software/coot/bin-gtk4/include/python3.11 -DMAKE_ENHANCED_LIGAND_TOOLS -I../../coot -I/opt/user_software/coot/bin-gtk4/include -DPKGDATADIR=\"/opt/user_software/coot/bin-gtk4/share/coot\" -I/opt/user_software/coot/bin-gtk4/lib/libffi-3.2.1/include -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -g -O -Wall -Wno-unused -std=c++17 -MT pyrogen-swig.lo -MD -MP -MF .deps/pyrogen-swig.Tpo -c pyrogen-swig.cc -fPIC -DPIC -o .libs/pyrogen-swig.o In file included from /opt/user_software/coot/bin-gtk4/include/boost/python/detail/is_xxx.hpp:8, from /opt/user_software/coot/bin-gtk4/include/boost/python/detail/is_auto_ptr.hpp:9, from /opt/user_software/coot/bin-gtk4/include/boost/python/detail/copy_ctor_mutates_rhs.hpp:8, from /opt/user_software/coot/bin-gtk4/include/boost/python/detail/value_arg.hpp:7, from /opt/user_software/coot/bin-gtk4/include/boost/python/object/forward.hpp:10, from /opt/user_software/coot/bin-gtk4/include/boost/python/object/pointer_holder.hpp:16, from /opt/user_software/coot/bin-gtk4/include/boost/python/to_python_indirect.hpp:10, from /opt/user_software/coot/bin-gtk4/include/boost/python/converter/arg_to_python.hpp:10, from /opt/user_software/coot/bin-gtk4/include/boost/python/call.hpp:15, from /opt/user_software/coot/bin-gtk4/include/boost/python/object_core.hpp:14, from /opt/user_software/coot/bin-gtk4/include/boost/python/args.hpp:22, from /opt/user_software/coot/bin-gtk4/include/boost/python.hpp:11, from ../../coot/pyrogen/py-restraints.cc:28: /opt/user_software/coot/bin-gtk4/include/boost/python/detail/is_auto_ptr.hpp:17:40: warning: ‘template class std::auto_ptr’ is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 17 | BOOST_PYTHON_IS_XXX_DEF(auto_ptr, std::auto_ptr, 1) | ^~~~~~~~ /opt/user_software/coot/bin-gtk4/include/boost/detail/is_xxx.hpp:20:4: note: in definition of macro ‘BOOST_DETAIL_IS_XXX_DEF’ 20 | qualified_name< BOOST_PP_ENUM_PARAMS_Z(1, nargs, T) > \ | ^~~~~~~~~~~~~~ /opt/user_software/coot/bin-gtk4/include/boost/python/detail/is_auto_ptr.hpp:17:1: note: in expansion of macro ‘BOOST_PYTHON_IS_XXX_DEF’ 17 | BOOST_PYTHON_IS_XXX_DEF(auto_ptr, std::auto_ptr, 1) | ^~~~~~~~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/11/memory:76, from /opt/user_software/coot/bin-gtk4/include/boost/function/function_base.hpp:33, from /opt/user_software/coot/bin-gtk4/include/boost/function/detail/prologue.hpp:18, from /opt/user_software/coot/bin-gtk4/include/boost/function/function_template.hpp:13, from /opt/user_software/coot/bin-gtk4/include/boost/function/detail/maybe_include.hpp:15, from /opt/user_software/coot/bin-gtk4/include/boost/function/function0.hpp:11, from /opt/user_software/coot/bin-gtk4/include/boost/python/errors.hpp:13, from /opt/user_software/coot/bin-gtk4/include/boost/python/handle.hpp:11, from /opt/user_software/coot/bin-gtk4/include/boost/python/args_fwd.hpp:10, from /opt/user_software/coot/bin-gtk4/include/boost/python/args.hpp:10, from /opt/user_software/coot/bin-gtk4/include/boost/python.hpp:11, from ../../coot/pyrogen/py-restraints.cc:28: /usr/include/c++/11/bits/unique_ptr.h:57:28: note: declared here 57 | template class auto_ptr; | ^~~~~~~~ In file included from /opt/user_software/coot/bin-gtk4/include/boost/python/detail/is_xxx.hpp:8, from /opt/user_software/coot/bin-gtk4/include/boost/python/detail/is_auto_ptr.hpp:9, from /opt/user_software/coot/bin-gtk4/include/boost/python/detail/copy_ctor_mutates_rhs.hpp:8, from /opt/user_software/coot/bin-gtk4/include/boost/python/detail/value_arg.hpp:7, from /opt/user_software/coot/bin-gtk4/include/boost/python/object/forward.hpp:10, from /opt/user_software/coot/bin-gtk4/include/boost/python/object/pointer_holder.hpp:16, from /opt/user_software/coot/bin-gtk4/include/boost/python/to_python_indirect.hpp:10, from /opt/user_software/coot/bin-gtk4/include/boost/python/converter/arg_to_python.hpp:10, from /opt/user_software/coot/bin-gtk4/include/boost/python/call.hpp:15, from /opt/user_software/coot/bin-gtk4/include/boost/python/object_core.hpp:14, from /opt/user_software/coot/bin-gtk4/include/boost/python/args.hpp:22, from /opt/user_software/coot/bin-gtk4/include/boost/python.hpp:11, from ../../coot/pyrogen/restraints.cc:23: /opt/user_software/coot/bin-gtk4/include/boost/python/detail/is_auto_ptr.hpp:17:40: warning: ‘template class std::auto_ptr’ is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 17 | BOOST_PYTHON_IS_XXX_DEF(auto_ptr, std::auto_ptr, 1) | ^~~~~~~~ /opt/user_software/coot/bin-gtk4/include/boost/detail/is_xxx.hpp:20:4: note: in definition of macro ‘BOOST_DETAIL_IS_XXX_DEF’ 20 | qualified_name< BOOST_PP_ENUM_PARAMS_Z(1, nargs, T) > \ | ^~~~~~~~~~~~~~ /opt/user_software/coot/bin-gtk4/include/boost/python/detail/is_auto_ptr.hpp:17:1: note: in expansion of macro ‘BOOST_PYTHON_IS_XXX_DEF’ 17 | BOOST_PYTHON_IS_XXX_DEF(auto_ptr, std::auto_ptr, 1) | ^~~~~~~~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/11/memory:76, from /opt/user_software/coot/bin-gtk4/include/boost/function/function_base.hpp:33, from /opt/user_software/coot/bin-gtk4/include/boost/function/detail/prologue.hpp:18, from /opt/user_software/coot/bin-gtk4/include/boost/function/function_template.hpp:13, from /opt/user_software/coot/bin-gtk4/include/boost/function/detail/maybe_include.hpp:15, from /opt/user_software/coot/bin-gtk4/include/boost/function/function0.hpp:11, from /opt/user_software/coot/bin-gtk4/include/boost/python/errors.hpp:13, from /opt/user_software/coot/bin-gtk4/include/boost/python/handle.hpp:11, from /opt/user_software/coot/bin-gtk4/include/boost/python/args_fwd.hpp:10, from /opt/user_software/coot/bin-gtk4/include/boost/python/args.hpp:10, from /opt/user_software/coot/bin-gtk4/include/boost/python.hpp:11, from ../../coot/pyrogen/restraints.cc:23: /usr/include/c++/11/bits/unique_ptr.h:57:28: note: declared here 57 | template class auto_ptr; | ^~~~~~~~ mv -f .deps/atom_types.Tpo .deps/atom_types.Plo In file included from /opt/user_software/coot/bin-gtk4/include/boost/python/detail/is_xxx.hpp:8, from /opt/user_software/coot/bin-gtk4/include/boost/python/detail/is_auto_ptr.hpp:9, from /opt/user_software/coot/bin-gtk4/include/boost/python/detail/copy_ctor_mutates_rhs.hpp:8, from /opt/user_software/coot/bin-gtk4/include/boost/python/detail/value_arg.hpp:7, from /opt/user_software/coot/bin-gtk4/include/boost/python/object/forward.hpp:10, from /opt/user_software/coot/bin-gtk4/include/boost/python/object/pointer_holder.hpp:16, from /opt/user_software/coot/bin-gtk4/include/boost/python/to_python_indirect.hpp:10, from /opt/user_software/coot/bin-gtk4/include/boost/python/converter/arg_to_python.hpp:10, from /opt/user_software/coot/bin-gtk4/include/boost/python/call.hpp:15, from /opt/user_software/coot/bin-gtk4/include/boost/python/object_core.hpp:14, from /opt/user_software/coot/bin-gtk4/include/boost/python/object/class.hpp:9, from /opt/user_software/coot/bin-gtk4/include/boost/python/class.hpp:13, from /opt/user_software/coot/bin-gtk4/include/boost/python/suite/indexing/indexing_suite.hpp:9, from /opt/user_software/coot/bin-gtk4/include/boost/python/suite/indexing/vector_indexing_suite.hpp:9, from ../../coot/pyrogen/restraints-boost.cc:28: /opt/user_software/coot/bin-gtk4/include/boost/python/detail/is_auto_ptr.hpp:17:40: warning: ‘template class std::auto_ptr’ is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 17 | BOOST_PYTHON_IS_XXX_DEF(auto_ptr, std::auto_ptr, 1) | ^~~~~~~~ /opt/user_software/coot/bin-gtk4/include/boost/detail/is_xxx.hpp:20:4: note: in definition of macro ‘BOOST_DETAIL_IS_XXX_DEF’ 20 | qualified_name< BOOST_PP_ENUM_PARAMS_Z(1, nargs, T) > \ | ^~~~~~~~~~~~~~ /opt/user_software/coot/bin-gtk4/include/boost/python/detail/is_auto_ptr.hpp:17:1: note: in expansion of macro ‘BOOST_PYTHON_IS_XXX_DEF’ 17 | BOOST_PYTHON_IS_XXX_DEF(auto_ptr, std::auto_ptr, 1) | ^~~~~~~~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/11/memory:76, from /opt/user_software/coot/bin-gtk4/include/boost/container_hash/hash.hpp:49, from /opt/user_software/coot/bin-gtk4/include/boost/functional/hash.hpp:6, from /opt/user_software/coot/bin-gtk4/include/boost/unordered/unordered_set.hpp:20, from /opt/user_software/coot/bin-gtk4/include/boost/unordered_set.hpp:17, from /opt/user_software/coot/bin-gtk4/include/boost/graph/adjacency_list.hpp:20, from /opt/user_software/coot/bin-gtk4/include/rdkit/GraphMol/ROMol.h:29, from /opt/user_software/coot/bin-gtk4/include/rdkit/GraphMol/GraphMol.h:19, from ../../coot/pyrogen/restraints-boost.cc:26: /usr/include/c++/11/bits/unique_ptr.h:57:28: note: declared here 57 | template class auto_ptr; | ^~~~~~~~ mv -f .deps/mmff-restraints.Tpo .deps/mmff-restraints.Plo mv -f .deps/cairo-molecule.Tpo .deps/cairo-molecule.Plo mv -f .deps/py-restraints.Tpo .deps/py-restraints.Plo /bin/bash ../libtool --tag=CXX --mode=link g++ -DPKGDATADIR='"/opt/user_software/coot/bin-gtk4/share/coot"' -I/opt/user_software/coot/bin-gtk4/lib/libffi-3.2.1/include -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -g -O -Wall -Wno-unused -std=c++17 -o libcoot_py_restraints.la -rpath /opt/user_software/coot/bin-gtk4/lib mmff-restraints.lo py-restraints.lo cairo-molecule.lo atom_types.lo ../geometry/libcoot-geometry.la ../lidia-core/libcoot-lidia-core.la ../utils/libcoot-utils.la -L/opt/user_software/coot/bin-gtk4/lib -lclipper-ccp4 -lclipper-cif -lclipper-minimol -lclipper-mmdb -lclipper-cns -lclipper-phs -lclipper-contrib -lclipper-core -lccp4c -lmmdb2 -L/opt/user_software/coot/bin-gtk4/lib -lmmdb2 -L/opt/user_software/coot/bin-gtk4/lib -lRDKitMolDraw2D -lRDKitForceFieldHelpers -lRDKitDescriptors -lRDKitForceField -lRDKitSubstructMatch -lRDKitOptimizer -lRDKitDistGeomHelpers -lRDKitDistGeometry -lRDKitChemReactions -lRDKitAlignment -lRDKitEigenSolvers -lRDKitDepictor -lRDKitcoordgen -lRDKitMolChemicalFeatures -lRDKitPartialCharges -lRDKitFileParsers -lRDKitRDGeometryLib -lRDKitGraphMol -lRDKitShapeHelpers -lRDKitFingerprints -lRDKitMolAlign -lRDKitMolTransforms -lRDKitChemTransforms -lRDKitSmilesParse -lRDKitGenericGroups -lRDKitRingDecomposerLib -lRDKitFilterCatalog -lRDKitCatalogs -lRDKitSubgraphs -lRDKitPartialCharges -lRDKitRDGeneral -lRDKitDataStructs -lboost_serialization -lboost_iostreams -L/opt/user_software/coot/bin-gtk4/lib -lpython3.11 -lcairo libtool: link: g++ -fPIC -DPIC -shared -nostdlib /usr/lib/gcc/x86_64-linux-gnu/11/../../../x86_64-linux-gnu/crti.o /usr/lib/gcc/x86_64-linux-gnu/11/crtbeginS.o .libs/mmff-restraints.o .libs/py-restraints.o .libs/cairo-molecule.o .libs/atom_types.o -Wl,-rpath -Wl,/opt/user_software/coot/src/build-coot/geometry/.libs -Wl,-rpath -Wl,/opt/user_software/coot/src/build-coot/lidia-core/.libs -Wl,-rpath -Wl,/opt/user_software/coot/src/build-coot/compat/.libs -Wl,-rpath -Wl,/opt/user_software/coot/src/build-coot/mini-mol/.libs -Wl,-rpath -Wl,/opt/user_software/coot/src/build-coot/utils/.libs -Wl,-rpath -Wl,/opt/user_software/coot/bin-gtk4/lib -Wl,-rpath -Wl,/opt/user_software/coot/bin-gtk4/lib -L/opt/user_software/coot/src/build-coot/geometry/.libs -L/opt/user_software/coot/src/build-coot/compat/.libs -L/opt/user_software/coot/src/build-coot/mini-mol/.libs -L/opt/user_software/coot/src/build-coot/utils/.libs ../geometry/.libs/libcoot-geometry.so -L/opt/user_software/coot/bin-gtk4/lib -L=/opt/user_software/coot/bin-gtk4/lib:-L/opt/user_software/coot/bin-gtk4/lib: ../lidia-core/.libs/libcoot-lidia-core.so /opt/user_software/coot/src/build-coot/geometry/.libs/libcoot-geometry.so /opt/user_software/coot/src/build-coot/compat/.libs/libcoot-compat.so /opt/user_software/coot/src/build-coot/mini-mol/.libs/libcoot-mini-mol.so /opt/user_software/coot/src/build-coot/utils/.libs/libcoot-utils.so ../utils/.libs/libcoot-utils.so /opt/user_software/coot/bin-gtk4/lib/libclipper-ccp4.so /opt/user_software/coot/bin-gtk4/lib/libclipper-cif.so /opt/user_software/coot/bin-gtk4/lib/libclipper-minimol.so /opt/user_software/coot/bin-gtk4/lib/libclipper-mmdb.so /opt/user_software/coot/bin-gtk4/lib/libclipper-cns.so /opt/user_software/coot/bin-gtk4/lib/libclipper-phs.so /opt/user_software/coot/bin-gtk4/lib/libclipper-contrib.so /opt/user_software/coot/bin-gtk4/lib/libclipper-core.so /opt/user_software/coot/bin-gtk4/lib/librfftw.so /opt/user_software/coot/bin-gtk4/lib/libfftw.so -lpthread /opt/user_software/coot/bin-gtk4/lib/libccp4c.so /opt/user_software/coot/bin-gtk4/lib/libmmdb2.so -lRDKitMolDraw2D -lRDKitForceFieldHelpers -lRDKitDescriptors -lRDKitForceField -lRDKitSubstructMatch -lRDKitOptimizer -lRDKitDistGeomHelpers -lRDKitDistGeometry -lRDKitChemReactions -lRDKitAlignment -lRDKitEigenSolvers -lRDKitDepictor -lRDKitcoordgen -lRDKitMolChemicalFeatures -lRDKitFileParsers -lRDKitRDGeometryLib -lRDKitGraphMol -lRDKitShapeHelpers -lRDKitFingerprints -lRDKitMolAlign -lRDKitMolTransforms -lRDKitChemTransforms -lRDKitSmilesParse -lRDKitGenericGroups -lRDKitRingDecomposerLib -lRDKitFilterCatalog -lRDKitCatalogs -lRDKitSubgraphs -lRDKitPartialCharges -lRDKitRDGeneral -lRDKitDataStructs -lboost_serialization -lboost_iostreams -lpython3.11 -lcairo -L/usr/lib/gcc/x86_64-linux-gnu/11 -L/usr/lib/gcc/x86_64-linux-gnu/11/../../../x86_64-linux-gnu -L/usr/lib/gcc/x86_64-linux-gnu/11/../../../../lib -L/lib/x86_64-linux-gnu -L/lib/../lib -L/usr/lib/x86_64-linux-gnu -L/usr/lib/../lib -L/usr/lib/gcc/x86_64-linux-gnu/11/../../.. -lstdc++ -lm -lc -lgcc_s /usr/lib/gcc/x86_64-linux-gnu/11/crtendS.o /usr/lib/gcc/x86_64-linux-gnu/11/../../../x86_64-linux-gnu/crtn.o -g -O -Wl,-soname -Wl,libcoot_py_restraints.so.0 -o .libs/libcoot_py_restraints.so.0.0.0 libtool: link: (cd ".libs" && rm -f "libcoot_py_restraints.so.0" && ln -s "libcoot_py_restraints.so.0.0.0" "libcoot_py_restraints.so.0") libtool: link: (cd ".libs" && rm -f "libcoot_py_restraints.so" && ln -s "libcoot_py_restraints.so.0.0.0" "libcoot_py_restraints.so") libtool: link: ( cd ".libs" && rm -f "libcoot_py_restraints.la" && ln -s "../libcoot_py_restraints.la" "libcoot_py_restraints.la" ) mv -f .deps/pyrogen-swig.Tpo .deps/pyrogen-swig.Plo mv -f .deps/restraints-boost.Tpo .deps/restraints-boost.Plo /bin/bash ../libtool --tag=CXX --mode=link g++ -DPKGDATADIR='"/opt/user_software/coot/bin-gtk4/share/coot"' -I/opt/user_software/coot/bin-gtk4/lib/libffi-3.2.1/include -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -g -O -Wall -Wno-unused -std=c++17 -module -o pyrogen_boost.la -rpath /opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages restraints-boost.lo libcoot_py_restraints.la ../pli/libcoot-pli.la ../ideal/libcoot-ideal.la ../coot-utils/libcoot-coord-utils.la ../geometry/libcoot-geometry.la ../coords/libcoot-coords.la ../lidia-core/libcoot-lidia-core.la -L/opt/user_software/coot/bin-gtk4/lib -lmmdb2 -L/opt/user_software/coot/bin-gtk4/lib -lRDKitMolDraw2D -lRDKitForceFieldHelpers -lRDKitDescriptors -lRDKitForceField -lRDKitSubstructMatch -lRDKitOptimizer -lRDKitDistGeomHelpers -lRDKitDistGeometry -lRDKitChemReactions -lRDKitAlignment -lRDKitEigenSolvers -lRDKitDepictor -lRDKitcoordgen -lRDKitMolChemicalFeatures -lRDKitPartialCharges -lRDKitFileParsers -lRDKitRDGeometryLib -lRDKitGraphMol -lRDKitShapeHelpers -lRDKitFingerprints -lRDKitMolAlign -lRDKitMolTransforms -lRDKitChemTransforms -lRDKitSmilesParse -lRDKitGenericGroups -lRDKitRingDecomposerLib -lRDKitFilterCatalog -lRDKitCatalogs -lRDKitSubgraphs -lRDKitPartialCharges -lRDKitRDGeneral -lRDKitDataStructs -lboost_serialization -lboost_iostreams -lboost_python311 mv -f .deps/restraints.Tpo .deps/restraints.Plo /bin/bash ../libtool --tag=CXX --mode=link g++ -DPKGDATADIR='"/opt/user_software/coot/bin-gtk4/share/coot"' -I/opt/user_software/coot/bin-gtk4/lib/libffi-3.2.1/include -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -g -O -Wall -Wno-unused -std=c++17 -module -o _pyrogen_swig.la -rpath /opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages pyrogen-swig.lo restraints.lo libcoot_py_restraints.la ../ideal/libcoot-ideal.la ../coot-utils/libcoot-coord-utils.la ../lidia-core/libcoot-lidia-core.la ../analysis/libcoot-analysis.la ../geometry/libcoot-geometry.la ../utils/libcoot-utils.la -L/opt/user_software/coot/bin-gtk4/lib -lRDKitMolDraw2D -lRDKitForceFieldHelpers -lRDKitDescriptors -lRDKitForceField -lRDKitSubstructMatch -lRDKitOptimizer -lRDKitDistGeomHelpers -lRDKitDistGeometry -lRDKitChemReactions -lRDKitAlignment -lRDKitEigenSolvers -lRDKitDepictor -lRDKitcoordgen -lRDKitMolChemicalFeatures -lRDKitPartialCharges -lRDKitFileParsers -lRDKitRDGeometryLib -lRDKitGraphMol -lRDKitShapeHelpers -lRDKitFingerprints -lRDKitMolAlign -lRDKitMolTransforms -lRDKitChemTransforms -lRDKitSmilesParse -lRDKitGenericGroups -lRDKitRingDecomposerLib -lRDKitFilterCatalog -lRDKitCatalogs -lRDKitSubgraphs -lRDKitPartialCharges -lRDKitRDGeneral -lRDKitDataStructs -lboost_serialization -lboost_iostreams -L/opt/user_software/coot/bin-gtk4/lib -lboost_python311 -L/opt/user_software/coot/bin-gtk4/lib -lclipper-ccp4 -lclipper-cif -lclipper-minimol -lclipper-mmdb -lclipper-cns -lclipper-phs -lclipper-contrib -lclipper-core -lccp4c -lmmdb2 -L/opt/user_software/coot/bin-gtk4/lib -lmmdb2 -L/opt/user_software/coot/bin-gtk4/lib -lpython3.11 -lcairo libtool: link: g++ -fPIC -DPIC -shared -nostdlib /usr/lib/gcc/x86_64-linux-gnu/11/../../../x86_64-linux-gnu/crti.o /usr/lib/gcc/x86_64-linux-gnu/11/crtbeginS.o .libs/pyrogen-swig.o .libs/restraints.o -Wl,-rpath -Wl,/opt/user_software/coot/src/build-coot/pyrogen/.libs -Wl,-rpath -Wl,/opt/user_software/coot/src/build-coot/ideal/.libs -Wl,-rpath -Wl,/opt/user_software/coot/src/build-coot/coot-utils/.libs -Wl,-rpath -Wl,/opt/user_software/coot/src/build-coot/lidia-core/.libs -Wl,-rpath -Wl,/opt/user_software/coot/src/build-coot/analysis/.libs -Wl,-rpath -Wl,/opt/user_software/coot/src/build-coot/protein_db/.libs -Wl,-rpath -Wl,/opt/user_software/coot/src/build-coot/geometry/.libs -Wl,-rpath -Wl,/opt/user_software/coot/bin-gtk4/lib -Wl,-rpath -Wl,/opt/user_software/coot/src/build-coot/mini-mol/.libs -Wl,-rpath -Wl,/opt/user_software/coot/src/build-coot/utils/.libs -Wl,-rpath -Wl,/opt/user_software/coot/src/build-coot/compat/.libs -Wl,-rpath -Wl,/opt/user_software/coot/bin-gtk4/lib -L/opt/user_software/coot/src/build-coot/coot-utils/.libs -L/opt/user_software/coot/src/build-coot/lidia-core/.libs -L/opt/user_software/coot/src/build-coot/protein_db/.libs -L/opt/user_software/coot/src/build-coot/geometry/.libs -L/opt/user_software/coot/src/build-coot/mini-mol/.libs -L/opt/user_software/coot/src/build-coot/utils/.libs -L/opt/user_software/coot/src/build-coot/compat/.libs ./.libs/libcoot_py_restraints.so -L/opt/user_software/coot/bin-gtk4/lib -L=/opt/user_software/coot/bin-gtk4/lib:-L/opt/user_software/coot/bin-gtk4/lib: ../ideal/.libs/libcoot-ideal.so /opt/user_software/coot/src/build-coot/coot-utils/.libs/libcoot-map-heavy.so /opt/user_software/coot/src/build-coot/coot-utils/.libs/libcoot-coord-extras.so -lpng16 ../coot-utils/.libs/libcoot-coord-utils.so ../lidia-core/.libs/libcoot-lidia-core.so ../analysis/.libs/libcoot-analysis.so /opt/user_software/coot/src/build-coot/coot-utils/.libs/libcoot-map-utils.so -lz /opt/user_software/coot/src/build-coot/coot-utils/.libs/libcoot-coord-utils.so /opt/user_software/coot/src/build-coot/protein_db/.libs/libcoot-protein-db.so /opt/user_software/coot/src/build-coot/lidia-core/.libs/libcoot-lidia-core.so /opt/user_software/coot/src/build-coot/geometry/.libs/libcoot-geometry.so /opt/user_software/coot/bin-gtk4/lib/libgsl.so /opt/user_software/coot/bin-gtk4/lib/libgslcblas.so ../geometry/.libs/libcoot-geometry.so /opt/user_software/coot/src/build-coot/mini-mol/.libs/libcoot-mini-mol.so /opt/user_software/coot/src/build-coot/utils/.libs/libcoot-utils.so /opt/user_software/coot/src/build-coot/compat/.libs/libcoot-compat.so ../utils/.libs/libcoot-utils.so -lRDKitMolDraw2D -lRDKitForceFieldHelpers -lRDKitDescriptors -lRDKitForceField -lRDKitSubstructMatch -lRDKitOptimizer -lRDKitDistGeomHelpers -lRDKitDistGeometry -lRDKitChemReactions -lRDKitAlignment -lRDKitEigenSolvers -lRDKitDepictor -lRDKitcoordgen -lRDKitMolChemicalFeatures -lRDKitFileParsers -lRDKitRDGeometryLib -lRDKitGraphMol -lRDKitShapeHelpers -lRDKitFingerprints -lRDKitMolAlign -lRDKitMolTransforms -lRDKitChemTransforms -lRDKitSmilesParse -lRDKitGenericGroups -lRDKitRingDecomposerLib -lRDKitFilterCatalog -lRDKitCatalogs -lRDKitSubgraphs -lRDKitPartialCharges -lRDKitRDGeneral -lRDKitDataStructs -lboost_serialization -lboost_iostreams -lboost_python311 /opt/user_software/coot/bin-gtk4/lib/libclipper-ccp4.so /opt/user_software/coot/bin-gtk4/lib/libclipper-cif.so /opt/user_software/coot/bin-gtk4/lib/libclipper-minimol.so /opt/user_software/coot/bin-gtk4/lib/libclipper-mmdb.so /opt/user_software/coot/bin-gtk4/lib/libclipper-cns.so /opt/user_software/coot/bin-gtk4/lib/libclipper-phs.so /opt/user_software/coot/bin-gtk4/lib/libclipper-contrib.so /opt/user_software/coot/bin-gtk4/lib/libclipper-core.so /opt/user_software/coot/bin-gtk4/lib/librfftw.so /opt/user_software/coot/bin-gtk4/lib/libfftw.so -lpthread /opt/user_software/coot/bin-gtk4/lib/libccp4c.so /opt/user_software/coot/bin-gtk4/lib/libmmdb2.so -lpython3.11 -lcairo -L/usr/lib/gcc/x86_64-linux-gnu/11 -L/usr/lib/gcc/x86_64-linux-gnu/11/../../../x86_64-linux-gnu -L/usr/lib/gcc/x86_64-linux-gnu/11/../../../../lib -L/lib/x86_64-linux-gnu -L/lib/../lib -L/usr/lib/x86_64-linux-gnu -L/usr/lib/../lib -L/usr/lib/gcc/x86_64-linux-gnu/11/../../.. -lstdc++ -lm -lc -lgcc_s /usr/lib/gcc/x86_64-linux-gnu/11/crtendS.o /usr/lib/gcc/x86_64-linux-gnu/11/../../../x86_64-linux-gnu/crtn.o -g -O -Wl,-soname -Wl,_pyrogen_swig.so.0 -o .libs/_pyrogen_swig.so.0.0.0 libtool: link: g++ -fPIC -DPIC -shared -nostdlib /usr/lib/gcc/x86_64-linux-gnu/11/../../../x86_64-linux-gnu/crti.o /usr/lib/gcc/x86_64-linux-gnu/11/crtbeginS.o .libs/restraints-boost.o -Wl,-rpath -Wl,/opt/user_software/coot/src/build-coot/pyrogen/.libs -Wl,-rpath -Wl,/opt/user_software/coot/src/build-coot/pli/.libs -Wl,-rpath -Wl,/opt/user_software/coot/src/build-coot/ideal/.libs 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-I/opt/user_software/coot/bin-gtk4/include/python3.11 -I/opt/user_software/coot/bin-gtk4/lib/libffi-3.2.1/include -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/opt/user_software/coot/bin-gtk4/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -g -O -Wall -Wno-unused -std=c++17 -MT add-terminal-residue.lo -MD -MP -MF .deps/add-terminal-residue.Tpo -c ../../coot/api/add-terminal-residue.cc -fPIC -DPIC -o .libs/add-terminal-residue.o libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" "-DPACKAGE_STRING=\"coot 1.x-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I../../coot/api -I../../coot -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_GSL -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DHAVE_SSMLIB -I/opt/user_software/coot/bin-gtk4/include -DCLIPPER_HAS_TOP8000 -I/opt/user_software/coot/bin-gtk4/include -DMMDB_HAS_LINK_DISTANCE -I/opt/user_software/coot/bin-gtk4/include/python3.11 -I/opt/user_software/coot/bin-gtk4/lib/libffi-3.2.1/include -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/opt/user_software/coot/bin-gtk4/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -g -O -Wall -Wno-unused -std=c++17 -MT colour-functions.lo -MD -MP -MF .deps/colour-functions.Tpo -c ../../coot/api/colour-functions.cc -fPIC -DPIC -o .libs/colour-functions.o libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" "-DPACKAGE_STRING=\"coot 1.x-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I../../coot/api -I../../coot -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_GSL -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DHAVE_SSMLIB -I/opt/user_software/coot/bin-gtk4/include -DCLIPPER_HAS_TOP8000 -I/opt/user_software/coot/bin-gtk4/include -DMMDB_HAS_LINK_DISTANCE -I/opt/user_software/coot/bin-gtk4/include/python3.11 -I/opt/user_software/coot/bin-gtk4/lib/libffi-3.2.1/include -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/opt/user_software/coot/bin-gtk4/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -g -O -Wall -Wno-unused -std=c++17 -MT coot-molecule-merge-molecules.lo -MD -MP -MF .deps/coot-molecule-merge-molecules.Tpo -c ../../coot/api/coot-molecule-merge-molecules.cc -fPIC -DPIC -o .libs/coot-molecule-merge-molecules.o libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" "-DPACKAGE_STRING=\"coot 1.x-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I../../coot/api -I../../coot -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_GSL -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DHAVE_SSMLIB -I/opt/user_software/coot/bin-gtk4/include -DCLIPPER_HAS_TOP8000 -I/opt/user_software/coot/bin-gtk4/include -DMMDB_HAS_LINK_DISTANCE -I/opt/user_software/coot/bin-gtk4/include/python3.11 -I/opt/user_software/coot/bin-gtk4/lib/libffi-3.2.1/include -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/opt/user_software/coot/bin-gtk4/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -g -O -Wall -Wno-unused -std=c++17 -MT coot-colour.lo -MD -MP -MF .deps/coot-colour.Tpo -c ../../coot/api/coot-colour.cc -fPIC -DPIC -o .libs/coot-colour.o libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" "-DPACKAGE_STRING=\"coot 1.x-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I../../coot/api -I../../coot -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_GSL -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DHAVE_SSMLIB -I/opt/user_software/coot/bin-gtk4/include -DCLIPPER_HAS_TOP8000 -I/opt/user_software/coot/bin-gtk4/include -DMMDB_HAS_LINK_DISTANCE -I/opt/user_software/coot/bin-gtk4/include/python3.11 -I/opt/user_software/coot/bin-gtk4/lib/libffi-3.2.1/include -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/opt/user_software/coot/bin-gtk4/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -g -O -Wall -Wno-unused -std=c++17 -MT coot-molecule-maps.lo -MD -MP -MF .deps/coot-molecule-maps.Tpo -c ../../coot/api/coot-molecule-maps.cc -fPIC -DPIC -o .libs/coot-molecule-maps.o libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" "-DPACKAGE_STRING=\"coot 1.x-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I../../coot/api -I../../coot -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_GSL -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DHAVE_SSMLIB -I/opt/user_software/coot/bin-gtk4/include -DCLIPPER_HAS_TOP8000 -I/opt/user_software/coot/bin-gtk4/include -DMMDB_HAS_LINK_DISTANCE -I/opt/user_software/coot/bin-gtk4/include/python3.11 -I/opt/user_software/coot/bin-gtk4/lib/libffi-3.2.1/include -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/opt/user_software/coot/bin-gtk4/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -g -O -Wall -Wno-unused -std=c++17 -MT rama-plot-phi-psi.lo -MD -MP -MF .deps/rama-plot-phi-psi.Tpo -c ../../coot/api/rama-plot-phi-psi.cc -fPIC -DPIC -o .libs/rama-plot-phi-psi.o mv -f .deps/colour-functions.Tpo .deps/colour-functions.Plo /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" -DPACKAGE_STRING=\"coot\ 1.x-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I../../coot/api -I../../coot -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_GSL -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DHAVE_SSMLIB -I/opt/user_software/coot/bin-gtk4/include -DCLIPPER_HAS_TOP8000 -I/opt/user_software/coot/bin-gtk4/include -DMMDB_HAS_LINK_DISTANCE -I/opt/user_software/coot/bin-gtk4/include/python3.11 -I/opt/user_software/coot/bin-gtk4/lib/libffi-3.2.1/include -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/opt/user_software/coot/bin-gtk4/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -g -O -Wall -Wno-unused -std=c++17 -MT coot-molecule-validation.lo -MD -MP -MF .deps/coot-molecule-validation.Tpo -c -o coot-molecule-validation.lo ../../coot/api/coot-molecule-validation.cc libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" "-DPACKAGE_STRING=\"coot 1.x-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I../../coot/api -I../../coot -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_GSL -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DHAVE_SSMLIB -I/opt/user_software/coot/bin-gtk4/include -DCLIPPER_HAS_TOP8000 -I/opt/user_software/coot/bin-gtk4/include -DMMDB_HAS_LINK_DISTANCE -I/opt/user_software/coot/bin-gtk4/include/python3.11 -I/opt/user_software/coot/bin-gtk4/lib/libffi-3.2.1/include -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/opt/user_software/coot/bin-gtk4/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -g -O -Wall -Wno-unused -std=c++17 -MT coot-molecule-validation.lo -MD -MP -MF .deps/coot-molecule-validation.Tpo -c ../../coot/api/coot-molecule-validation.cc -fPIC -DPIC -o .libs/coot-molecule-validation.o mv -f .deps/coot-colour.Tpo .deps/coot-colour.Plo /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" -DPACKAGE_STRING=\"coot\ 1.x-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I../../coot/api -I../../coot -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_GSL -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DHAVE_SSMLIB -I/opt/user_software/coot/bin-gtk4/include -DCLIPPER_HAS_TOP8000 -I/opt/user_software/coot/bin-gtk4/include -DMMDB_HAS_LINK_DISTANCE -I/opt/user_software/coot/bin-gtk4/include/python3.11 -I/opt/user_software/coot/bin-gtk4/lib/libffi-3.2.1/include -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/opt/user_software/coot/bin-gtk4/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -g -O -Wall -Wno-unused -std=c++17 -MT molecules-container-modelling.lo -MD -MP -MF .deps/molecules-container-modelling.Tpo -c -o molecules-container-modelling.lo ../../coot/api/molecules-container-modelling.cc mv -f .deps/rama-plot-phi-psi.Tpo .deps/rama-plot-phi-psi.Plo /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" -DPACKAGE_STRING=\"coot\ 1.x-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I../../coot/api -I../../coot -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_GSL -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DHAVE_SSMLIB -I/opt/user_software/coot/bin-gtk4/include -DCLIPPER_HAS_TOP8000 -I/opt/user_software/coot/bin-gtk4/include -DMMDB_HAS_LINK_DISTANCE -I/opt/user_software/coot/bin-gtk4/include/python3.11 -I/opt/user_software/coot/bin-gtk4/lib/libffi-3.2.1/include -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/opt/user_software/coot/bin-gtk4/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -g -O -Wall -Wno-unused -std=c++17 -MT molecules-container.lo -MD -MP -MF .deps/molecules-container.Tpo -c -o molecules-container.lo ../../coot/api/molecules-container.cc libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" "-DPACKAGE_STRING=\"coot 1.x-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I../../coot/api -I../../coot -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_GSL -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DHAVE_SSMLIB -I/opt/user_software/coot/bin-gtk4/include -DCLIPPER_HAS_TOP8000 -I/opt/user_software/coot/bin-gtk4/include -DMMDB_HAS_LINK_DISTANCE -I/opt/user_software/coot/bin-gtk4/include/python3.11 -I/opt/user_software/coot/bin-gtk4/lib/libffi-3.2.1/include -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/opt/user_software/coot/bin-gtk4/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -g -O -Wall -Wno-unused -std=c++17 -MT molecules-container-modelling.lo -MD -MP -MF .deps/molecules-container-modelling.Tpo -c ../../coot/api/molecules-container-modelling.cc -fPIC -DPIC -o .libs/molecules-container-modelling.o libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" "-DPACKAGE_STRING=\"coot 1.x-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 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-pthread -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -g -O -Wall -Wno-unused -std=c++17 -MT molecules-container.lo -MD -MP -MF .deps/molecules-container.Tpo -c ../../coot/api/molecules-container.cc -fPIC -DPIC -o .libs/molecules-container.o mv -f .deps/add-terminal-residue.Tpo .deps/add-terminal-residue.Plo /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" -DPACKAGE_STRING=\"coot\ 1.x-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I../../coot/api -I../../coot -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_GSL -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DHAVE_SSMLIB -I/opt/user_software/coot/bin-gtk4/include -DCLIPPER_HAS_TOP8000 -I/opt/user_software/coot/bin-gtk4/include -DMMDB_HAS_LINK_DISTANCE -I/opt/user_software/coot/bin-gtk4/include/python3.11 -I/opt/user_software/coot/bin-gtk4/lib/libffi-3.2.1/include -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/opt/user_software/coot/bin-gtk4/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -g -O -Wall -Wno-unused -std=c++17 -MT make-a-dodec.lo -MD -MP -MF .deps/make-a-dodec.Tpo -c -o make-a-dodec.lo ../../coot/api/make-a-dodec.cc libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" "-DPACKAGE_STRING=\"coot 1.x-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I../../coot/api -I../../coot -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_GSL -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DHAVE_SSMLIB -I/opt/user_software/coot/bin-gtk4/include -DCLIPPER_HAS_TOP8000 -I/opt/user_software/coot/bin-gtk4/include -DMMDB_HAS_LINK_DISTANCE -I/opt/user_software/coot/bin-gtk4/include/python3.11 -I/opt/user_software/coot/bin-gtk4/lib/libffi-3.2.1/include -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/opt/user_software/coot/bin-gtk4/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -g -O -Wall -Wno-unused -std=c++17 -MT make-a-dodec.lo -MD -MP -MF .deps/make-a-dodec.Tpo -c ../../coot/api/make-a-dodec.cc -fPIC -DPIC -o .libs/make-a-dodec.o mv -f .deps/make-a-dodec.Tpo .deps/make-a-dodec.Plo /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" -DPACKAGE_STRING=\"coot\ 1.x-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" 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-MD -MP -MF .deps/molecules-container-ligand-fitting.Tpo -c -o molecules-container-ligand-fitting.lo ../../coot/api/molecules-container-ligand-fitting.cc mv -f .deps/coot-molecule-merge-molecules.Tpo .deps/coot-molecule-merge-molecules.Plo /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" -DPACKAGE_STRING=\"coot\ 1.x-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I../../coot/api -I../../coot -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_GSL -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DHAVE_SSMLIB -I/opt/user_software/coot/bin-gtk4/include -DCLIPPER_HAS_TOP8000 -I/opt/user_software/coot/bin-gtk4/include -DMMDB_HAS_LINK_DISTANCE -I/opt/user_software/coot/bin-gtk4/include/python3.11 -I/opt/user_software/coot/bin-gtk4/lib/libffi-3.2.1/include -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/opt/user_software/coot/bin-gtk4/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -g -O -Wall -Wno-unused -std=c++17 -MT phi-psi-prob.lo -MD -MP -MF .deps/phi-psi-prob.Tpo -c -o phi-psi-prob.lo ../../coot/api/phi-psi-prob.cc libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" "-DPACKAGE_STRING=\"coot 1.x-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" 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-I/usr/include/libpng16 -I/opt/user_software/coot/bin-gtk4/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -g -O -Wall -Wno-unused -std=c++17 -MT molecules-container-ligand-fitting.lo -MD -MP -MF .deps/molecules-container-ligand-fitting.Tpo -c ../../coot/api/molecules-container-ligand-fitting.cc -fPIC -DPIC -o .libs/molecules-container-ligand-fitting.o libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" "-DPACKAGE_STRING=\"coot 1.x-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I../../coot/api -I../../coot -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_GSL -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DHAVE_SSMLIB -I/opt/user_software/coot/bin-gtk4/include -DCLIPPER_HAS_TOP8000 -I/opt/user_software/coot/bin-gtk4/include -DMMDB_HAS_LINK_DISTANCE -I/opt/user_software/coot/bin-gtk4/include/python3.11 -I/opt/user_software/coot/bin-gtk4/lib/libffi-3.2.1/include -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/opt/user_software/coot/bin-gtk4/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -g -O -Wall -Wno-unused -std=c++17 -MT phi-psi-prob.lo -MD -MP -MF .deps/phi-psi-prob.Tpo -c ../../coot/api/phi-psi-prob.cc -fPIC -DPIC -o .libs/phi-psi-prob.o mv -f 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-I/opt/user_software/coot/bin-gtk4/include/python3.11 -I/opt/user_software/coot/bin-gtk4/lib/libffi-3.2.1/include -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/opt/user_software/coot/bin-gtk4/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -g -O -Wall -Wno-unused -std=c++17 -MT coot-molecule-moltris.lo -MD -MP -MF .deps/coot-molecule-moltris.Tpo -c -o coot-molecule-moltris.lo ../../coot/api/coot-molecule-moltris.cc mv -f .deps/coot-molecule-validation.Tpo .deps/coot-molecule-validation.Plo /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" -DPACKAGE_STRING=\"coot\ 1.x-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 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-I/opt/user_software/coot/bin-gtk4/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -g -O -Wall -Wno-unused -std=c++17 -MT coot-molecule-replace-fragment.lo -MD -MP -MF .deps/coot-molecule-replace-fragment.Tpo -c -o coot-molecule-replace-fragment.lo ../../coot/api/coot-molecule-replace-fragment.cc libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" "-DPACKAGE_STRING=\"coot 1.x-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I../../coot/api -I../../coot -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_GSL -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DHAVE_SSMLIB -I/opt/user_software/coot/bin-gtk4/include -DCLIPPER_HAS_TOP8000 -I/opt/user_software/coot/bin-gtk4/include -DMMDB_HAS_LINK_DISTANCE -I/opt/user_software/coot/bin-gtk4/include/python3.11 -I/opt/user_software/coot/bin-gtk4/lib/libffi-3.2.1/include -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/opt/user_software/coot/bin-gtk4/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -g -O -Wall -Wno-unused -std=c++17 -MT coot-molecule-moltris.lo -MD -MP -MF .deps/coot-molecule-moltris.Tpo -c ../../coot/api/coot-molecule-moltris.cc -fPIC -DPIC -o .libs/coot-molecule-moltris.o In file included from ../../coot/MoleculesToTriangles/CXXClasses/Renderer.h:26, from ../../coot/MoleculesToTriangles/CXXClasses/RendererGL.h:26, from ../../coot/api/coot-molecule-moltris.cc:4: ../../coot/MoleculesToTriangles/CXXSurface/CXXCoord.h:38: warning: ignoring ‘#pragma omp simd’ [-Wunknown-pragmas] 38 | #pragma omp simd | ../../coot/MoleculesToTriangles/CXXSurface/CXXCoord.h:42: warning: ignoring ‘#pragma omp simd’ [-Wunknown-pragmas] 42 | #pragma omp simd | ../../coot/MoleculesToTriangles/CXXSurface/CXXCoord.h:55: warning: ignoring ‘#pragma omp simd’ [-Wunknown-pragmas] 55 | #pragma omp simd | ../../coot/MoleculesToTriangles/CXXSurface/CXXCoord.h:63: warning: ignoring ‘#pragma omp simd’ [-Wunknown-pragmas] 63 | #pragma omp simd | ../../coot/MoleculesToTriangles/CXXSurface/CXXCoord.h:71: warning: ignoring ‘#pragma omp simd’ [-Wunknown-pragmas] 71 | #pragma omp simd | In file included from ../../coot/api/coot-molecule-moltris.cc:4: ../../coot/MoleculesToTriangles/CXXClasses/RendererGL.h:61: warning: ignoring ‘#pragma mark ’ [-Wunknown-pragmas] 61 | #pragma mark - | ../../coot/MoleculesToTriangles/CXXClasses/RendererGL.h:62: warning: ignoring ‘#pragma mark Debug’ [-Wunknown-pragmas] 62 | #pragma mark Debug routine | libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" "-DPACKAGE_STRING=\"coot 1.x-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I../../coot/api -I../../coot -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_GSL -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DHAVE_SSMLIB -I/opt/user_software/coot/bin-gtk4/include -DCLIPPER_HAS_TOP8000 -I/opt/user_software/coot/bin-gtk4/include -DMMDB_HAS_LINK_DISTANCE -I/opt/user_software/coot/bin-gtk4/include/python3.11 -I/opt/user_software/coot/bin-gtk4/lib/libffi-3.2.1/include -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/opt/user_software/coot/bin-gtk4/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -g -O -Wall -Wno-unused -std=c++17 -MT coot-molecule-replace-fragment.lo -MD -MP -MF .deps/coot-molecule-replace-fragment.Tpo -c ../../coot/api/coot-molecule-replace-fragment.cc -fPIC -DPIC -o .libs/coot-molecule-replace-fragment.o mv -f .deps/coot-molecule-bonds.Tpo .deps/coot-molecule-bonds.Plo /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" -DPACKAGE_STRING=\"coot\ 1.x-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I../../coot/api -I../../coot -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_GSL -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DHAVE_SSMLIB -I/opt/user_software/coot/bin-gtk4/include -DCLIPPER_HAS_TOP8000 -I/opt/user_software/coot/bin-gtk4/include -DMMDB_HAS_LINK_DISTANCE -I/opt/user_software/coot/bin-gtk4/include/python3.11 -I/opt/user_software/coot/bin-gtk4/lib/libffi-3.2.1/include -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/opt/user_software/coot/bin-gtk4/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -g -O -Wall -Wno-unused -std=c++17 -MT coot-molecule-backup.lo -MD -MP -MF .deps/coot-molecule-backup.Tpo -c -o coot-molecule-backup.lo ../../coot/api/coot-molecule-backup.cc mv -f .deps/coot-molecule-maps.Tpo .deps/coot-molecule-maps.Plo /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" -DPACKAGE_STRING=\"coot\ 1.x-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I../../coot/api -I../../coot -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_GSL -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DHAVE_SSMLIB -I/opt/user_software/coot/bin-gtk4/include -DCLIPPER_HAS_TOP8000 -I/opt/user_software/coot/bin-gtk4/include -DMMDB_HAS_LINK_DISTANCE -I/opt/user_software/coot/bin-gtk4/include/python3.11 -I/opt/user_software/coot/bin-gtk4/lib/libffi-3.2.1/include -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/opt/user_software/coot/bin-gtk4/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -g -O -Wall -Wno-unused -std=c++17 -MT coot-molecule-bonds-instanced.lo -MD -MP -MF .deps/coot-molecule-bonds-instanced.Tpo -c -o coot-molecule-bonds-instanced.lo ../../coot/api/coot-molecule-bonds-instanced.cc libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" "-DPACKAGE_STRING=\"coot 1.x-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I../../coot/api -I../../coot -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_GSL -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DHAVE_SSMLIB -I/opt/user_software/coot/bin-gtk4/include -DCLIPPER_HAS_TOP8000 -I/opt/user_software/coot/bin-gtk4/include -DMMDB_HAS_LINK_DISTANCE -I/opt/user_software/coot/bin-gtk4/include/python3.11 -I/opt/user_software/coot/bin-gtk4/lib/libffi-3.2.1/include -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/opt/user_software/coot/bin-gtk4/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -g -O -Wall -Wno-unused -std=c++17 -MT coot-molecule-backup.lo -MD -MP -MF .deps/coot-molecule-backup.Tpo -c ../../coot/api/coot-molecule-backup.cc -fPIC -DPIC -o .libs/coot-molecule-backup.o libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" "-DPACKAGE_STRING=\"coot 1.x-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I../../coot/api -I../../coot -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_GSL -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DHAVE_SSMLIB -I/opt/user_software/coot/bin-gtk4/include -DCLIPPER_HAS_TOP8000 -I/opt/user_software/coot/bin-gtk4/include -DMMDB_HAS_LINK_DISTANCE -I/opt/user_software/coot/bin-gtk4/include/python3.11 -I/opt/user_software/coot/bin-gtk4/lib/libffi-3.2.1/include -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/opt/user_software/coot/bin-gtk4/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -g -O -Wall -Wno-unused -std=c++17 -MT coot-molecule-bonds-instanced.lo -MD -MP -MF .deps/coot-molecule-bonds-instanced.Tpo -c ../../coot/api/coot-molecule-bonds-instanced.cc -fPIC -DPIC -o .libs/coot-molecule-bonds-instanced.o mv -f .deps/molecules-container-modelling.Tpo .deps/molecules-container-modelling.Plo /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" -DPACKAGE_STRING=\"coot\ 1.x-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I../../coot/api -I../../coot -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_GSL -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DHAVE_SSMLIB -I/opt/user_software/coot/bin-gtk4/include -DCLIPPER_HAS_TOP8000 -I/opt/user_software/coot/bin-gtk4/include -DMMDB_HAS_LINK_DISTANCE -I/opt/user_software/coot/bin-gtk4/include/python3.11 -I/opt/user_software/coot/bin-gtk4/lib/libffi-3.2.1/include -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/opt/user_software/coot/bin-gtk4/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -g -O -Wall -Wno-unused -std=c++17 -MT molecules-container-mmrrcc.lo -MD -MP -MF .deps/molecules-container-mmrrcc.Tpo -c -o molecules-container-mmrrcc.lo ../../coot/api/molecules-container-mmrrcc.cc libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" "-DPACKAGE_STRING=\"coot 1.x-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I../../coot/api -I../../coot -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_GSL -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DHAVE_SSMLIB -I/opt/user_software/coot/bin-gtk4/include -DCLIPPER_HAS_TOP8000 -I/opt/user_software/coot/bin-gtk4/include -DMMDB_HAS_LINK_DISTANCE -I/opt/user_software/coot/bin-gtk4/include/python3.11 -I/opt/user_software/coot/bin-gtk4/lib/libffi-3.2.1/include -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/opt/user_software/coot/bin-gtk4/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -g -O -Wall -Wno-unused -std=c++17 -MT molecules-container-mmrrcc.lo -MD -MP -MF .deps/molecules-container-mmrrcc.Tpo -c ../../coot/api/molecules-container-mmrrcc.cc -fPIC -DPIC -o .libs/molecules-container-mmrrcc.o mv -f .deps/coot-molecule-backup.Tpo .deps/coot-molecule-backup.Plo /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" -DPACKAGE_STRING=\"coot\ 1.x-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I../../coot/api -I../../coot -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_GSL -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DHAVE_SSMLIB -I/opt/user_software/coot/bin-gtk4/include -DCLIPPER_HAS_TOP8000 -I/opt/user_software/coot/bin-gtk4/include -DMMDB_HAS_LINK_DISTANCE -I/opt/user_software/coot/bin-gtk4/include/python3.11 -I/opt/user_software/coot/bin-gtk4/lib/libffi-3.2.1/include -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/opt/user_software/coot/bin-gtk4/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -g -O -Wall -Wno-unused -std=c++17 -MT coot-molecule-refine.lo -MD -MP -MF .deps/coot-molecule-refine.Tpo -c -o coot-molecule-refine.lo ../../coot/api/coot-molecule-refine.cc libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" "-DPACKAGE_STRING=\"coot 1.x-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I../../coot/api -I../../coot -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_GSL -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DHAVE_SSMLIB -I/opt/user_software/coot/bin-gtk4/include -DCLIPPER_HAS_TOP8000 -I/opt/user_software/coot/bin-gtk4/include -DMMDB_HAS_LINK_DISTANCE -I/opt/user_software/coot/bin-gtk4/include/python3.11 -I/opt/user_software/coot/bin-gtk4/lib/libffi-3.2.1/include -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/opt/user_software/coot/bin-gtk4/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -g -O -Wall -Wno-unused -std=c++17 -MT coot-molecule-refine.lo -MD -MP -MF .deps/coot-molecule-refine.Tpo -c ../../coot/api/coot-molecule-refine.cc -fPIC -DPIC -o .libs/coot-molecule-refine.o mv -f .deps/coot-molecule-bonds-instanced.Tpo 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-I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -g -O -Wall -Wno-unused -std=c++17 -MT instancing.lo -MD -MP -MF .deps/instancing.Tpo -c ../../coot/api/instancing.cc -fPIC -DPIC -o .libs/instancing.o mv -f .deps/molecules-container-mmrrcc.Tpo .deps/molecules-container-mmrrcc.Plo /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" -DPACKAGE_STRING=\"coot\ 1.x-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I../../coot/api -I../../coot 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-I/opt/user_software/coot/bin-gtk4/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -g -O -Wall -Wno-unused -std=c++17 -MT coot-molecule-blender.lo -MD -MP -MF .deps/coot-molecule-blender.Tpo -c -o coot-molecule-blender.lo ../../coot/api/coot-molecule-blender.cc libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" "-DPACKAGE_STRING=\"coot 1.x-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I../../coot/api -I../../coot 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-I/opt/user_software/coot/bin-gtk4/include/python3.11 -I/opt/user_software/coot/bin-gtk4/lib/libffi-3.2.1/include -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/opt/user_software/coot/bin-gtk4/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -g -O -Wall -Wno-unused -std=c++17 -MT molecules-container-blender.lo -MD -MP -MF .deps/molecules-container-blender.Tpo -c -o molecules-container-blender.lo ../../coot/api/molecules-container-blender.cc mv -f .deps/blender-mesh.Tpo .deps/blender-mesh.Plo swig -o wrap-coot-api.cc -python -c++ ../../coot/api/coot-headless-api.i libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" "-DPACKAGE_STRING=\"coot 1.x-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" 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-I/opt/user_software/coot/bin-gtk4/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -g -O -Wall -Wno-unused -std=c++17 -MT molecules-container-blender.lo -MD -MP -MF .deps/molecules-container-blender.Tpo -c ../../coot/api/molecules-container-blender.cc -fPIC -DPIC -o .libs/molecules-container-blender.o ../../coot/api/molecules-container.hh:892: Warning 325: Nested class not currently supported (auto_read_mtz_info_t ignored) ../../coot/api/molecules-container.hh:979: Warning 325: Nested class not currently supported (r_factor_stats ignored) ../../coot/api/molecules-container.hh:1611: Warning 325: Nested class not currently supported (fit_ligand_info_t ignored) ../../coot/api/molecules-container.hh:1701: Warning 325: Nested class not currently supported (ltj_stats_t ignored) mv -f .deps/molecules-container-bucca-ml-growing.Tpo .deps/molecules-container-bucca-ml-growing.Plo /bin/bash ../libtool --tag=CXX 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-I/opt/user_software/coot/bin-gtk4/lib/libffi-3.2.1/include -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/opt/user_software/coot/bin-gtk4/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DUSE_PYTHON -DSWIG -g -O -Wall -Wno-unused -std=c++17 -MT _coot_headless_api_la-molecules-container-swig.lo -MD -MP -MF .deps/_coot_headless_api_la-molecules-container-swig.Tpo -c -o _coot_headless_api_la-molecules-container-swig.lo `test -f 'molecules-container-swig.cc' || echo '../../coot/api/'`molecules-container-swig.cc mv -f .deps/moorhen-h-bonds.Tpo .deps/moorhen-h-bonds.Plo libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" "-DPACKAGE_STRING=\"coot 1.x-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I../../coot/api -I../../coot -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_GSL -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DHAVE_SSMLIB -I/opt/user_software/coot/bin-gtk4/include -DCLIPPER_HAS_TOP8000 -I/opt/user_software/coot/bin-gtk4/include -DMMDB_HAS_LINK_DISTANCE -I/opt/user_software/coot/bin-gtk4/include/python3.11 -I/opt/user_software/coot/bin-gtk4/lib/libffi-3.2.1/include -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/opt/user_software/coot/bin-gtk4/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DUSE_PYTHON -DSWIG -g -O -Wall -Wno-unused -std=c++17 -MT _coot_headless_api_la-molecules-container-swig.lo -MD -MP -MF .deps/_coot_headless_api_la-molecules-container-swig.Tpo -c ../../coot/api/molecules-container-swig.cc -fPIC -DPIC -o .libs/_coot_headless_api_la-molecules-container-swig.o /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" -DPACKAGE_STRING=\"coot\ 1.x-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I../../coot/api -I../../coot -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_GSL -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DHAVE_SSMLIB -I/opt/user_software/coot/bin-gtk4/include -DCLIPPER_HAS_TOP8000 -I/opt/user_software/coot/bin-gtk4/include -DMMDB_HAS_LINK_DISTANCE -I/opt/user_software/coot/bin-gtk4/include/python3.11 -I/opt/user_software/coot/bin-gtk4/lib/libffi-3.2.1/include -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/opt/user_software/coot/bin-gtk4/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DUSE_PYTHON -DSWIG -g -O -Wall -Wno-unused -std=c++17 -MT _coot_headless_api_la-wrap-coot-api.lo -MD -MP -MF .deps/_coot_headless_api_la-wrap-coot-api.Tpo -c -o _coot_headless_api_la-wrap-coot-api.lo `test -f 'wrap-coot-api.cc' || echo '../../coot/api/'`wrap-coot-api.cc mv -f .deps/coot-molecule-change-chain-id.Tpo .deps/coot-molecule-change-chain-id.Plo libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" "-DPACKAGE_STRING=\"coot 1.x-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I../../coot/api -I../../coot -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_GSL -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DHAVE_SSMLIB -I/opt/user_software/coot/bin-gtk4/include -DCLIPPER_HAS_TOP8000 -I/opt/user_software/coot/bin-gtk4/include -DMMDB_HAS_LINK_DISTANCE -I/opt/user_software/coot/bin-gtk4/include/python3.11 -I/opt/user_software/coot/bin-gtk4/lib/libffi-3.2.1/include -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/opt/user_software/coot/bin-gtk4/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DUSE_PYTHON -DSWIG -g -O -Wall -Wno-unused -std=c++17 -MT _coot_headless_api_la-wrap-coot-api.lo -MD -MP -MF .deps/_coot_headless_api_la-wrap-coot-api.Tpo -c wrap-coot-api.cc -fPIC -DPIC -o .libs/_coot_headless_api_la-wrap-coot-api.o mv -f .deps/molecules-container-superpose.Tpo .deps/molecules-container-superpose.Plo mv -f .deps/molecules-container.Tpo .deps/molecules-container.Plo mv -f .deps/coot-molecule-blender.Tpo .deps/coot-molecule-blender.Plo mv -f .deps/molecules-container-blender.Tpo .deps/molecules-container-blender.Plo /bin/bash ../libtool --tag=CXX --mode=link g++ -g -O -Wall -Wno-unused -std=c++17 ../MoleculesToTriangles/CXXClasses/libMoleculesToTrianglesCXXClasses.la ../MoleculesToTriangles/CXXSurface/libMoleculesToTrianglesCXXSurface.la ../ligand/libcoot-ligand.la ../pli/libcoot-pli.la ../ideal/libcoot-ideal.la ../lidia-core/libcoot-lidia-core.la ../cootaneer/libcootaneer.la ../db-main/libcoot-db-main.la ../ccp4mg-utils/libccp4mg-utils.la ../analysis/libcoot-analysis.la ../density-contour/libcoot-isosurface.la ../coot-utils/libcoot-map-heavy.la ../coot-utils/libcoot-coord-extras.la ../coot-utils/libcoot-coord-utils.la ../coot-utils/libcoot-map-utils.la ../geometry/libcoot-geometry.la ../mini-mol/libcoot-mini-mol.la ../coords/libcoot-coords.la ../utils/libcoot-utils.la -L/opt/user_software/coot/bin-gtk4/lib -lclipper-ccp4 -lclipper-cif -lclipper-minimol -lclipper-mmdb -lclipper-cns -lclipper-phs -lclipper-contrib -lclipper-core -lccp4c -lmmdb2 -L/opt/user_software/coot/bin-gtk4/lib -lssm -lmmdb2 -L/opt/user_software/coot/bin-gtk4/lib -lmmdb2 -L/opt/user_software/coot/bin-gtk4/lib -lgsl -lgslcblas -lm -L/opt/user_software/coot/bin-gtk4/lib -lRDKitMolDraw2D -lRDKitForceFieldHelpers -lRDKitDescriptors -lRDKitForceField -lRDKitSubstructMatch -lRDKitOptimizer -lRDKitDistGeomHelpers -lRDKitDistGeometry -lRDKitChemReactions -lRDKitAlignment -lRDKitEigenSolvers -lRDKitDepictor -lRDKitcoordgen -lRDKitMolChemicalFeatures -lRDKitPartialCharges -lRDKitFileParsers -lRDKitRDGeometryLib -lRDKitGraphMol -lRDKitShapeHelpers -lRDKitFingerprints -lRDKitMolAlign -lRDKitMolTransforms -lRDKitChemTransforms -lRDKitSmilesParse -lRDKitGenericGroups -lRDKitRingDecomposerLib -lRDKitFilterCatalog -lRDKitCatalogs -lRDKitSubgraphs -lRDKitPartialCharges -lRDKitRDGeneral -lRDKitDataStructs -lboost_serialization -lboost_iostreams -lpthread -o libcoot-api.la -rpath /opt/user_software/coot/bin-gtk4/lib coot-molecule.lo coot-colour.lo add-terminal-residue.lo rama-plot-phi-psi.lo colour-functions.lo coot-molecule-maps.lo coot-molecule-merge-molecules.lo coot-molecule-bonds.lo coot-molecule-validation.lo molecules-container-modelling.lo molecules-container.lo make-a-dodec.lo molecules-container-ligand-fitting.lo phi-psi-prob.lo coot-molecule-moltris.lo coot-molecule-replace-fragment.lo coot-molecule-backup.lo coot-molecule-bonds-instanced.lo molecules-container-mmrrcc.lo coot-molecule-refine.lo molecules-container-superpose.lo rigid-body-fit.lo moorhen-h-bonds.lo molecules-container-bucca-ml-growing.lo instancing.lo coot-molecule-change-chain-id.lo blender-mesh.lo coot-molecule-blender.lo molecules-container-blender.lo mv -f .deps/_coot_headless_api_la-molecules-container-swig.Tpo .deps/_coot_headless_api_la-molecules-container-swig.Plo libtool: link: g++ -fPIC -DPIC -shared -nostdlib /usr/lib/gcc/x86_64-linux-gnu/11/../../../x86_64-linux-gnu/crti.o /usr/lib/gcc/x86_64-linux-gnu/11/crtbeginS.o .libs/coot-molecule.o .libs/coot-colour.o .libs/add-terminal-residue.o .libs/rama-plot-phi-psi.o .libs/colour-functions.o .libs/coot-molecule-maps.o .libs/coot-molecule-merge-molecules.o .libs/coot-molecule-bonds.o .libs/coot-molecule-validation.o .libs/molecules-container-modelling.o .libs/molecules-container.o .libs/make-a-dodec.o .libs/molecules-container-ligand-fitting.o .libs/phi-psi-prob.o .libs/coot-molecule-moltris.o .libs/coot-molecule-replace-fragment.o .libs/coot-molecule-backup.o .libs/coot-molecule-bonds-instanced.o .libs/molecules-container-mmrrcc.o .libs/coot-molecule-refine.o .libs/molecules-container-superpose.o .libs/rigid-body-fit.o .libs/moorhen-h-bonds.o .libs/molecules-container-bucca-ml-growing.o .libs/instancing.o .libs/coot-molecule-change-chain-id.o .libs/blender-mesh.o .libs/coot-molecule-blender.o .libs/molecules-container-blender.o -Wl,-rpath -Wl,/opt/user_software/coot/src/build-coot/MoleculesToTriangles/CXXClasses/.libs -Wl,-rpath -Wl,/opt/user_software/coot/src/build-coot/MoleculesToTriangles/CXXSurface/.libs -Wl,-rpath -Wl,/opt/user_software/coot/src/build-coot/ligand/.libs -Wl,-rpath -Wl,/opt/user_software/coot/src/build-coot/pli/.libs -Wl,-rpath -Wl,/opt/user_software/coot/src/build-coot/ideal/.libs -Wl,-rpath -Wl,/opt/user_software/coot/src/build-coot/lidia-core/.libs -Wl,-rpath -Wl,/opt/user_software/coot/src/build-coot/cootaneer/.libs -Wl,-rpath -Wl,/opt/user_software/coot/src/build-coot/db-main/.libs -Wl,-rpath -Wl,/opt/user_software/coot/src/build-coot/ccp4mg-utils/.libs -Wl,-rpath -Wl,/opt/user_software/coot/src/build-coot/analysis/.libs -Wl,-rpath -Wl,/opt/user_software/coot/src/build-coot/density-contour/.libs -Wl,-rpath -Wl,/opt/user_software/coot/src/build-coot/coords/.libs -Wl,-rpath -Wl,/opt/user_software/coot/src/build-coot/coot-utils/.libs -Wl,-rpath 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-L/opt/user_software/coot/src/build-coot/coot-utils/.libs -L/opt/user_software/coot/src/build-coot/geometry/.libs -L/opt/user_software/coot/src/build-coot/mini-mol/.libs -L/opt/user_software/coot/src/build-coot/protein_db/.libs -L/opt/user_software/coot/src/build-coot/compat/.libs -L/opt/user_software/coot/src/build-coot/utils/.libs ../MoleculesToTriangles/CXXClasses/.libs/libMoleculesToTrianglesCXXClasses.so -L/opt/user_software/coot/bin-gtk4/lib -L=/opt/user_software/coot/bin-gtk4/lib:-L/opt/user_software/coot/bin-gtk4/lib: /opt/user_software/coot/src/build-coot/MoleculesToTriangles/CXXSurface/.libs/libMoleculesToTrianglesCXXSurface.so ../MoleculesToTriangles/CXXSurface/.libs/libMoleculesToTrianglesCXXSurface.so ../ligand/.libs/libcoot-ligand.so ../pli/.libs/libcoot-pli.so ../ideal/.libs/libcoot-ideal.so ../lidia-core/.libs/libcoot-lidia-core.so ../cootaneer/.libs/libcootaneer.so ../db-main/.libs/libcoot-db-main.so ../ccp4mg-utils/.libs/libccp4mg-utils.so 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/opt/user_software/coot/src/build-coot/coot-utils/.libs/libcoot-coord-extras.so /opt/user_software/coot/src/build-coot/coot-utils/.libs/libcoot-coord-utils.so /opt/user_software/coot/src/build-coot/protein_db/.libs/libcoot-protein-db.so /opt/user_software/coot/src/build-coot/cootaneer/.libs/libcootaneer.so /opt/user_software/coot/src/build-coot/lidia-core/.libs/libcoot-lidia-core.so /opt/user_software/coot/src/build-coot/geometry/.libs/libcoot-geometry.so /opt/user_software/coot/src/build-coot/compat/.libs/libcoot-compat.so /opt/user_software/coot/src/build-coot/mini-mol/.libs/libcoot-mini-mol.so /opt/user_software/coot/src/build-coot/utils/.libs/libcoot-utils.so ../utils/.libs/libcoot-utils.so /opt/user_software/coot/bin-gtk4/lib/libclipper-ccp4.so /opt/user_software/coot/bin-gtk4/lib/libclipper-cif.so /opt/user_software/coot/bin-gtk4/lib/libclipper-minimol.so /opt/user_software/coot/bin-gtk4/lib/libclipper-mmdb.so /opt/user_software/coot/bin-gtk4/lib/libclipper-cns.so /opt/user_software/coot/bin-gtk4/lib/libclipper-phs.so /opt/user_software/coot/bin-gtk4/lib/libclipper-contrib.so /opt/user_software/coot/bin-gtk4/lib/libclipper-core.so /opt/user_software/coot/bin-gtk4/lib/librfftw.so /opt/user_software/coot/bin-gtk4/lib/libfftw.so /opt/user_software/coot/bin-gtk4/lib/libccp4c.so /opt/user_software/coot/bin-gtk4/lib/libssm.so /opt/user_software/coot/bin-gtk4/lib/libmmdb2.so /opt/user_software/coot/bin-gtk4/lib/libgsl.so /opt/user_software/coot/bin-gtk4/lib/libgslcblas.so -lRDKitMolDraw2D -lRDKitForceFieldHelpers -lRDKitDescriptors -lRDKitForceField -lRDKitSubstructMatch -lRDKitOptimizer -lRDKitDistGeomHelpers -lRDKitDistGeometry -lRDKitChemReactions -lRDKitAlignment -lRDKitEigenSolvers -lRDKitDepictor -lRDKitcoordgen -lRDKitMolChemicalFeatures -lRDKitFileParsers -lRDKitRDGeometryLib -lRDKitGraphMol -lRDKitShapeHelpers -lRDKitFingerprints -lRDKitMolAlign -lRDKitMolTransforms -lRDKitChemTransforms -lRDKitSmilesParse -lRDKitGenericGroups -lRDKitRingDecomposerLib -lRDKitFilterCatalog -lRDKitCatalogs -lRDKitSubgraphs -lRDKitPartialCharges -lRDKitRDGeneral -lRDKitDataStructs -lboost_serialization -lboost_iostreams -lpthread -L/usr/lib/gcc/x86_64-linux-gnu/11 -L/usr/lib/gcc/x86_64-linux-gnu/11/../../../x86_64-linux-gnu -L/usr/lib/gcc/x86_64-linux-gnu/11/../../../../lib -L/lib/x86_64-linux-gnu -L/lib/../lib -L/usr/lib/x86_64-linux-gnu -L/usr/lib/../lib -L/usr/lib/gcc/x86_64-linux-gnu/11/../../.. -lstdc++ -lm -lc -lgcc_s /usr/lib/gcc/x86_64-linux-gnu/11/crtendS.o /usr/lib/gcc/x86_64-linux-gnu/11/../../../x86_64-linux-gnu/crtn.o -g -O -fopenmp -Wl,-soname -Wl,libcoot-api.so.0 -o .libs/libcoot-api.so.0.0.0 libtool: link: (cd ".libs" && rm -f "libcoot-api.so.0" && ln -s "libcoot-api.so.0.0.0" "libcoot-api.so.0") libtool: link: (cd ".libs" && rm -f "libcoot-api.so" && ln -s "libcoot-api.so.0.0.0" "libcoot-api.so") libtool: link: ( cd ".libs" && rm -f "libcoot-api.la" && ln -s "../libcoot-api.la" "libcoot-api.la" ) mv -f .deps/_coot_headless_api_la-wrap-coot-api.Tpo .deps/_coot_headless_api_la-wrap-coot-api.Plo /bin/bash ../libtool --tag=CXX --mode=link g++ -DUSE_PYTHON -DSWIG -g -O -Wall -Wno-unused -std=c++17 -module --no-undefined -o _coot_headless_api.la -rpath /opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages _coot_headless_api_la-wrap-coot-api.lo _coot_headless_api_la-molecules-container-swig.lo libcoot-api.la libtool: link: g++ -fPIC -DPIC -shared -nostdlib /usr/lib/gcc/x86_64-linux-gnu/11/../../../x86_64-linux-gnu/crti.o /usr/lib/gcc/x86_64-linux-gnu/11/crtbeginS.o .libs/_coot_headless_api_la-wrap-coot-api.o .libs/_coot_headless_api_la-molecules-container-swig.o -Wl,-rpath -Wl,/opt/user_software/coot/src/build-coot/api/.libs -Wl,-rpath -Wl,/opt/user_software/coot/src/build-coot/MoleculesToTriangles/CXXClasses/.libs -Wl,-rpath -Wl,/opt/user_software/coot/src/build-coot/MoleculesToTriangles/CXXSurface/.libs -Wl,-rpath -Wl,/opt/user_software/coot/src/build-coot/pli/.libs -Wl,-rpath -Wl,/opt/user_software/coot/src/build-coot/density-contour/.libs -Wl,-rpath -Wl,/opt/user_software/coot/src/build-coot/coords/.libs -Wl,-rpath -Wl,/opt/user_software/coot/src/build-coot/ligand/.libs -Wl,-rpath -Wl,/opt/user_software/coot/src/build-coot/ideal/.libs -Wl,-rpath -Wl,/opt/user_software/coot/src/build-coot/coot-utils/.libs -Wl,-rpath -Wl,/opt/user_software/coot/src/build-coot/db-main/.libs -Wl,-rpath -Wl,/opt/user_software/coot/src/build-coot/ccp4mg-utils/.libs -Wl,-rpath -Wl,/opt/user_software/coot/src/build-coot/analysis/.libs -Wl,-rpath -Wl,/opt/user_software/coot/src/build-coot/protein_db/.libs -Wl,-rpath -Wl,/opt/user_software/coot/src/build-coot/cootaneer/.libs -Wl,-rpath -Wl,/opt/user_software/coot/src/build-coot/lidia-core/.libs -Wl,-rpath -Wl,/opt/user_software/coot/src/build-coot/geometry/.libs -Wl,-rpath -Wl,/opt/user_software/coot/src/build-coot/compat/.libs -Wl,-rpath -Wl,/opt/user_software/coot/src/build-coot/mini-mol/.libs -Wl,-rpath -Wl,/opt/user_software/coot/src/build-coot/utils/.libs -Wl,-rpath -Wl,/opt/user_software/coot/bin-gtk4/lib -Wl,-rpath -Wl,/opt/user_software/coot/bin-gtk4/lib -L/opt/user_software/coot/src/build-coot/MoleculesToTriangles/CXXClasses/.libs -L/opt/user_software/coot/src/build-coot/MoleculesToTriangles/CXXSurface/.libs -L/opt/user_software/coot/src/build-coot/pli/.libs -L/opt/user_software/coot/src/build-coot/density-contour/.libs -L/opt/user_software/coot/src/build-coot/coords/.libs -L/opt/user_software/coot/src/build-coot/ligand/.libs -L/opt/user_software/coot/src/build-coot/ideal/.libs -L/opt/user_software/coot/src/build-coot/coot-utils/.libs -L/opt/user_software/coot/src/build-coot/db-main/.libs -L/opt/user_software/coot/src/build-coot/ccp4mg-utils/.libs -L/opt/user_software/coot/src/build-coot/analysis/.libs -L/opt/user_software/coot/src/build-coot/protein_db/.libs -L/opt/user_software/coot/src/build-coot/cootaneer/.libs -L/opt/user_software/coot/src/build-coot/lidia-core/.libs -L/opt/user_software/coot/src/build-coot/geometry/.libs -L/opt/user_software/coot/src/build-coot/compat/.libs -L/opt/user_software/coot/src/build-coot/mini-mol/.libs -L/opt/user_software/coot/src/build-coot/utils/.libs ./.libs/libcoot-api.so -L/opt/user_software/coot/bin-gtk4/lib -L=/opt/user_software/coot/bin-gtk4/lib:-L/opt/user_software/coot/bin-gtk4/lib: /opt/user_software/coot/src/build-coot/MoleculesToTriangles/CXXClasses/.libs/libMoleculesToTrianglesCXXClasses.so /opt/user_software/coot/src/build-coot/MoleculesToTriangles/CXXSurface/.libs/libMoleculesToTrianglesCXXSurface.so /opt/user_software/coot/src/build-coot/pli/.libs/libcoot-pli.so /opt/user_software/coot/src/build-coot/density-contour/.libs/libcoot-isosurface.so /opt/user_software/coot/src/build-coot/coords/.libs/libcoot-coords.so /opt/user_software/coot/src/build-coot/ligand/.libs/libcoot-ligand.so /opt/user_software/coot/src/build-coot/ideal/.libs/libcoot-ideal.so /opt/user_software/coot/src/build-coot/coot-utils/.libs/libcoot-map-heavy.so /opt/user_software/coot/src/build-coot/db-main/.libs/libcoot-db-main.so /opt/user_software/coot/src/build-coot/ccp4mg-utils/.libs/libccp4mg-utils.so -lpng16 /opt/user_software/coot/src/build-coot/analysis/.libs/libcoot-analysis.so /opt/user_software/coot/src/build-coot/coot-utils/.libs/libcoot-map-utils.so -lz /opt/user_software/coot/src/build-coot/coot-utils/.libs/libcoot-coord-extras.so /opt/user_software/coot/src/build-coot/coot-utils/.libs/libcoot-coord-utils.so /opt/user_software/coot/src/build-coot/protein_db/.libs/libcoot-protein-db.so /opt/user_software/coot/src/build-coot/cootaneer/.libs/libcootaneer.so /opt/user_software/coot/src/build-coot/lidia-core/.libs/libcoot-lidia-core.so /opt/user_software/coot/src/build-coot/geometry/.libs/libcoot-geometry.so /opt/user_software/coot/src/build-coot/compat/.libs/libcoot-compat.so /opt/user_software/coot/src/build-coot/mini-mol/.libs/libcoot-mini-mol.so /opt/user_software/coot/src/build-coot/utils/.libs/libcoot-utils.so /opt/user_software/coot/bin-gtk4/lib/libclipper-ccp4.so /opt/user_software/coot/bin-gtk4/lib/libclipper-cif.so /opt/user_software/coot/bin-gtk4/lib/libclipper-minimol.so /opt/user_software/coot/bin-gtk4/lib/libclipper-mmdb.so /opt/user_software/coot/bin-gtk4/lib/libclipper-cns.so /opt/user_software/coot/bin-gtk4/lib/libclipper-phs.so /opt/user_software/coot/bin-gtk4/lib/libclipper-contrib.so /opt/user_software/coot/bin-gtk4/lib/libclipper-core.so /opt/user_software/coot/bin-gtk4/lib/librfftw.so /opt/user_software/coot/bin-gtk4/lib/libfftw.so /opt/user_software/coot/bin-gtk4/lib/libccp4c.so /opt/user_software/coot/bin-gtk4/lib/libssm.so /opt/user_software/coot/bin-gtk4/lib/libmmdb2.so /opt/user_software/coot/bin-gtk4/lib/libgsl.so /opt/user_software/coot/bin-gtk4/lib/libgslcblas.so -lRDKitMolDraw2D -lRDKitForceFieldHelpers -lRDKitDescriptors -lRDKitForceField -lRDKitSubstructMatch -lRDKitOptimizer -lRDKitDistGeomHelpers -lRDKitDistGeometry -lRDKitChemReactions -lRDKitAlignment -lRDKitEigenSolvers -lRDKitDepictor -lRDKitcoordgen -lRDKitMolChemicalFeatures -lRDKitFileParsers -lRDKitRDGeometryLib -lRDKitGraphMol -lRDKitShapeHelpers -lRDKitFingerprints -lRDKitMolAlign -lRDKitMolTransforms -lRDKitChemTransforms -lRDKitSmilesParse -lRDKitGenericGroups -lRDKitRingDecomposerLib -lRDKitFilterCatalog -lRDKitCatalogs -lRDKitSubgraphs -lRDKitPartialCharges -lRDKitRDGeneral -lRDKitDataStructs -lboost_serialization -lboost_iostreams -lpthread -L/usr/lib/gcc/x86_64-linux-gnu/11 -L/usr/lib/gcc/x86_64-linux-gnu/11/../../../x86_64-linux-gnu -L/usr/lib/gcc/x86_64-linux-gnu/11/../../../../lib -L/lib/x86_64-linux-gnu -L/lib/../lib -L/usr/lib/x86_64-linux-gnu -L/usr/lib/../lib -L/usr/lib/gcc/x86_64-linux-gnu/11/../../.. -lstdc++ -lm -lc -lgcc_s /usr/lib/gcc/x86_64-linux-gnu/11/crtendS.o /usr/lib/gcc/x86_64-linux-gnu/11/../../../x86_64-linux-gnu/crtn.o -g -O -fopenmp -Wl,-soname -Wl,_coot_headless_api.so.0 -o .libs/_coot_headless_api.so.0.0.0 libtool: link: (cd ".libs" && rm -f "_coot_headless_api.so.0" && ln -s "_coot_headless_api.so.0.0.0" "_coot_headless_api.so.0") libtool: link: (cd ".libs" && rm -f "_coot_headless_api.so" && ln -s "_coot_headless_api.so.0.0.0" "_coot_headless_api.so") libtool: link: ( cd ".libs" && rm -f "_coot_headless_api.la" && ln -s "../_coot_headless_api.la" "_coot_headless_api.la" ) make[1]: Leaving directory '/opt/user_software/coot/src/build-coot/api' Making all in layla make[1]: Entering directory '/opt/user_software/coot/src/build-coot/layla' depbase=`echo main.o | sed 's|[^/]*$|.deps/&|;s|\.o$||'`;\ g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" -DPACKAGE_STRING=\"coot\ 1.x-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I../../coot/layla -I../../coot -DHAVE_GSL -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DCLIPPER_HAS_TOP8000 -I/opt/user_software/coot/bin-gtk4/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/opt/user_software/coot/bin-gtk4/include -DUSE_PYTHON=1 -I/opt/user_software/coot/bin-gtk4/include/python3.11 -mfpmath=sse -msse -msse2 -pthread -I/opt/user_software/coot/bin-gtk4/lib/libffi-3.2.1/include -I/usr/include/gtk-4.0 -I/usr/include/gio-unix-2.0 -I/usr/include/cairo -I/usr/include/pango-1.0 -I/usr/include/harfbuzz -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/harfbuzz -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/x86_64-linux-gnu -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/graphene-1.0 -I/usr/lib/x86_64-linux-gnu/graphene-1.0/include -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -DUSE_LIBCURL=1 -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DMMDB_HAS_LINK_DISTANCE -I/opt/user_software/coot/bin-gtk4/include -DPKGDATADIR='"/opt/user_software/coot/bin-gtk4/share/coot"' -L/opt/user_software/coot/bin-gtk4/lib -lcurl -DUSE_LIBPNG=1 -I/usr/include/libpng16 -g -O -Wall -Wno-unused -std=c++17 -MT main.o -MD -MP -MF $depbase.Tpo -c -o main.o ../../coot/layla/main.cpp &&\ mv -f $depbase.Tpo $depbase.Po depbase=`echo layla_embedded.lo | sed 's|[^/]*$|.deps/&|;s|\.lo$||'`;\ /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" -DPACKAGE_STRING=\"coot\ 1.x-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I../../coot/layla -I../../coot -DHAVE_GSL -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DCLIPPER_HAS_TOP8000 -I/opt/user_software/coot/bin-gtk4/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/opt/user_software/coot/bin-gtk4/include -DUSE_PYTHON=1 -I/opt/user_software/coot/bin-gtk4/include/python3.11 -mfpmath=sse -msse -msse2 -pthread -I/opt/user_software/coot/bin-gtk4/lib/libffi-3.2.1/include -I/usr/include/gtk-4.0 -I/usr/include/gio-unix-2.0 -I/usr/include/cairo -I/usr/include/pango-1.0 -I/usr/include/harfbuzz -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/harfbuzz -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/x86_64-linux-gnu -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/graphene-1.0 -I/usr/lib/x86_64-linux-gnu/graphene-1.0/include -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -DUSE_LIBCURL=1 -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DMMDB_HAS_LINK_DISTANCE -I/opt/user_software/coot/bin-gtk4/include -DPKGDATADIR='"/opt/user_software/coot/bin-gtk4/share/coot"' -L/opt/user_software/coot/bin-gtk4/lib -lcurl -DUSE_LIBPNG=1 -I/usr/include/libpng16 -g -O -Wall -Wno-unused -std=c++17 -MT layla_embedded.lo -MD -MP -MF $depbase.Tpo -c -o layla_embedded.lo ../../coot/layla/layla_embedded.cpp &&\ mv -f $depbase.Tpo $depbase.Plo depbase=`echo generators.lo | sed 's|[^/]*$|.deps/&|;s|\.lo$||'`;\ /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" -DPACKAGE_STRING=\"coot\ 1.x-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I../../coot/layla -I../../coot -DHAVE_GSL -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DCLIPPER_HAS_TOP8000 -I/opt/user_software/coot/bin-gtk4/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/opt/user_software/coot/bin-gtk4/include -DUSE_PYTHON=1 -I/opt/user_software/coot/bin-gtk4/include/python3.11 -mfpmath=sse -msse -msse2 -pthread -I/opt/user_software/coot/bin-gtk4/lib/libffi-3.2.1/include -I/usr/include/gtk-4.0 -I/usr/include/gio-unix-2.0 -I/usr/include/cairo -I/usr/include/pango-1.0 -I/usr/include/harfbuzz -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/harfbuzz -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/x86_64-linux-gnu -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/graphene-1.0 -I/usr/lib/x86_64-linux-gnu/graphene-1.0/include -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -DUSE_LIBCURL=1 -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DMMDB_HAS_LINK_DISTANCE 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-DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" "-DPACKAGE_STRING=\"coot 1.x-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I../../coot/layla -I../../coot -DHAVE_GSL -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DCLIPPER_HAS_TOP8000 -I/opt/user_software/coot/bin-gtk4/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/opt/user_software/coot/bin-gtk4/include -DUSE_PYTHON=1 -I/opt/user_software/coot/bin-gtk4/include/python3.11 -mfpmath=sse -msse -msse2 -pthread -I/opt/user_software/coot/bin-gtk4/lib/libffi-3.2.1/include -I/usr/include/gtk-4.0 -I/usr/include/gio-unix-2.0 -I/usr/include/cairo -I/usr/include/pango-1.0 -I/usr/include/harfbuzz -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/harfbuzz -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/x86_64-linux-gnu -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/graphene-1.0 -I/usr/lib/x86_64-linux-gnu/graphene-1.0/include -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -DUSE_LIBCURL=1 -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DMMDB_HAS_LINK_DISTANCE -I/opt/user_software/coot/bin-gtk4/include -DPKGDATADIR=\"/opt/user_software/coot/bin-gtk4/share/coot\" -L/opt/user_software/coot/bin-gtk4/lib -lcurl -DUSE_LIBPNG=1 -I/usr/include/libpng16 -g -O -Wall -Wno-unused -std=c++17 -MT signals.lo -MD -MP -MF .deps/signals.Tpo -c ../../coot/layla/signals.cpp -fPIC -DPIC -o .libs/signals.o libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" "-DPACKAGE_STRING=\"coot 1.x-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I../../coot/layla -I../../coot -DHAVE_GSL -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DCLIPPER_HAS_TOP8000 -I/opt/user_software/coot/bin-gtk4/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/opt/user_software/coot/bin-gtk4/include -DUSE_PYTHON=1 -I/opt/user_software/coot/bin-gtk4/include/python3.11 -mfpmath=sse -msse -msse2 -pthread -I/opt/user_software/coot/bin-gtk4/lib/libffi-3.2.1/include -I/usr/include/gtk-4.0 -I/usr/include/gio-unix-2.0 -I/usr/include/cairo -I/usr/include/pango-1.0 -I/usr/include/harfbuzz -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/harfbuzz -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/x86_64-linux-gnu -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/graphene-1.0 -I/usr/lib/x86_64-linux-gnu/graphene-1.0/include -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -DUSE_LIBCURL=1 -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DMMDB_HAS_LINK_DISTANCE -I/opt/user_software/coot/bin-gtk4/include -DPKGDATADIR=\"/opt/user_software/coot/bin-gtk4/share/coot\" -L/opt/user_software/coot/bin-gtk4/lib -lcurl -DUSE_LIBPNG=1 -I/usr/include/libpng16 -g -O -Wall -Wno-unused -std=c++17 -MT layla_embedded.lo -MD -MP -MF .deps/layla_embedded.Tpo -c ../../coot/layla/layla_embedded.cpp -fPIC -DPIC -o .libs/layla_embedded.o libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" "-DPACKAGE_STRING=\"coot 1.x-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I../../coot/layla -I../../coot -DHAVE_GSL -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DCLIPPER_HAS_TOP8000 -I/opt/user_software/coot/bin-gtk4/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/opt/user_software/coot/bin-gtk4/include -DUSE_PYTHON=1 -I/opt/user_software/coot/bin-gtk4/include/python3.11 -mfpmath=sse -msse -msse2 -pthread -I/opt/user_software/coot/bin-gtk4/lib/libffi-3.2.1/include -I/usr/include/gtk-4.0 -I/usr/include/gio-unix-2.0 -I/usr/include/cairo -I/usr/include/pango-1.0 -I/usr/include/harfbuzz -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/harfbuzz -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/x86_64-linux-gnu -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/graphene-1.0 -I/usr/lib/x86_64-linux-gnu/graphene-1.0/include -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -DUSE_LIBCURL=1 -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DMMDB_HAS_LINK_DISTANCE -I/opt/user_software/coot/bin-gtk4/include -DPKGDATADIR=\"/opt/user_software/coot/bin-gtk4/share/coot\" -L/opt/user_software/coot/bin-gtk4/lib -lcurl -DUSE_LIBPNG=1 -I/usr/include/libpng16 -g -O -Wall -Wno-unused -std=c++17 -MT ui.lo -MD -MP -MF .deps/ui.Tpo -c ../../coot/layla/ui.cpp -fPIC -DPIC -o .libs/ui.o libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" "-DPACKAGE_STRING=\"coot 1.x-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I../../coot/layla -I../../coot -DHAVE_GSL -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DCLIPPER_HAS_TOP8000 -I/opt/user_software/coot/bin-gtk4/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/opt/user_software/coot/bin-gtk4/include -DUSE_PYTHON=1 -I/opt/user_software/coot/bin-gtk4/include/python3.11 -mfpmath=sse -msse -msse2 -pthread -I/opt/user_software/coot/bin-gtk4/lib/libffi-3.2.1/include -I/usr/include/gtk-4.0 -I/usr/include/gio-unix-2.0 -I/usr/include/cairo -I/usr/include/pango-1.0 -I/usr/include/harfbuzz -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/harfbuzz -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/x86_64-linux-gnu -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/graphene-1.0 -I/usr/lib/x86_64-linux-gnu/graphene-1.0/include -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -DUSE_LIBCURL=1 -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DMMDB_HAS_LINK_DISTANCE -I/opt/user_software/coot/bin-gtk4/include -DPKGDATADIR=\"/opt/user_software/coot/bin-gtk4/share/coot\" -L/opt/user_software/coot/bin-gtk4/lib -lcurl -DUSE_LIBPNG=1 -I/usr/include/libpng16 -g -O -Wall -Wno-unused -std=c++17 -MT state.lo -MD -MP -MF .deps/state.Tpo -c ../../coot/layla/state.cpp -fPIC -DPIC -o .libs/state.o libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" "-DPACKAGE_STRING=\"coot 1.x-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I../../coot/layla -I../../coot -DHAVE_GSL -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DCLIPPER_HAS_TOP8000 -I/opt/user_software/coot/bin-gtk4/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/opt/user_software/coot/bin-gtk4/include -DUSE_PYTHON=1 -I/opt/user_software/coot/bin-gtk4/include/python3.11 -mfpmath=sse -msse -msse2 -pthread -I/opt/user_software/coot/bin-gtk4/lib/libffi-3.2.1/include -I/usr/include/gtk-4.0 -I/usr/include/gio-unix-2.0 -I/usr/include/cairo -I/usr/include/pango-1.0 -I/usr/include/harfbuzz -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/harfbuzz -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/x86_64-linux-gnu -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/graphene-1.0 -I/usr/lib/x86_64-linux-gnu/graphene-1.0/include -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -DUSE_LIBCURL=1 -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DMMDB_HAS_LINK_DISTANCE -I/opt/user_software/coot/bin-gtk4/include -DPKGDATADIR=\"/opt/user_software/coot/bin-gtk4/share/coot\" -L/opt/user_software/coot/bin-gtk4/lib -lcurl -DUSE_LIBPNG=1 -I/usr/include/libpng16 -g -O -Wall -Wno-unused -std=c++17 -MT utils.lo -MD -MP -MF .deps/utils.Tpo -c ../../coot/layla/utils.cpp -fPIC -DPIC -o .libs/utils.o depbase=`echo ligand_editor_canvas.lo | sed 's|[^/]*$|.deps/&|;s|\.lo$||'`;\ /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" -DPACKAGE_STRING=\"coot\ 1.x-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I../../coot/layla -I../../coot -DHAVE_GSL -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DCLIPPER_HAS_TOP8000 -I/opt/user_software/coot/bin-gtk4/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/opt/user_software/coot/bin-gtk4/include -DUSE_PYTHON=1 -I/opt/user_software/coot/bin-gtk4/include/python3.11 -mfpmath=sse -msse -msse2 -pthread -I/opt/user_software/coot/bin-gtk4/lib/libffi-3.2.1/include -I/usr/include/gtk-4.0 -I/usr/include/gio-unix-2.0 -I/usr/include/cairo -I/usr/include/pango-1.0 -I/usr/include/harfbuzz -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/harfbuzz -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/x86_64-linux-gnu -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/graphene-1.0 -I/usr/lib/x86_64-linux-gnu/graphene-1.0/include -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -DUSE_LIBCURL=1 -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DMMDB_HAS_LINK_DISTANCE -I/opt/user_software/coot/bin-gtk4/include -DPKGDATADIR='"/opt/user_software/coot/bin-gtk4/share/coot"' -L/opt/user_software/coot/bin-gtk4/lib -lcurl -DUSE_LIBPNG=1 -I/usr/include/libpng16 -g -O -Wall -Wno-unused -std=c++17 -MT ligand_editor_canvas.lo -MD -MP -MF $depbase.Tpo -c -o ligand_editor_canvas.lo ../../coot/layla/ligand_editor_canvas.cpp &&\ mv -f $depbase.Tpo $depbase.Plo libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" "-DPACKAGE_STRING=\"coot 1.x-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I../../coot/layla -I../../coot -DHAVE_GSL -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DCLIPPER_HAS_TOP8000 -I/opt/user_software/coot/bin-gtk4/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/opt/user_software/coot/bin-gtk4/include -DUSE_PYTHON=1 -I/opt/user_software/coot/bin-gtk4/include/python3.11 -mfpmath=sse -msse -msse2 -pthread -I/opt/user_software/coot/bin-gtk4/lib/libffi-3.2.1/include -I/usr/include/gtk-4.0 -I/usr/include/gio-unix-2.0 -I/usr/include/cairo -I/usr/include/pango-1.0 -I/usr/include/harfbuzz -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/harfbuzz -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/x86_64-linux-gnu -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/graphene-1.0 -I/usr/lib/x86_64-linux-gnu/graphene-1.0/include -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -DUSE_LIBCURL=1 -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DMMDB_HAS_LINK_DISTANCE -I/opt/user_software/coot/bin-gtk4/include -DPKGDATADIR=\"/opt/user_software/coot/bin-gtk4/share/coot\" -L/opt/user_software/coot/bin-gtk4/lib -lcurl -DUSE_LIBPNG=1 -I/usr/include/libpng16 -g -O -Wall -Wno-unused -std=c++17 -MT ligand_editor_canvas.lo -MD -MP -MF .deps/ligand_editor_canvas.Tpo -c ../../coot/layla/ligand_editor_canvas.cpp -fPIC -DPIC -o .libs/ligand_editor_canvas.o In file included from /usr/include/glib-2.0/gobject/gobject.h:28, from /usr/include/glib-2.0/gobject/gbinding.h:29, from /usr/include/glib-2.0/glib-object.h:22, from /usr/include/gtk-4.0/gtk/css/gtkcssenumtypes.h:11, from /usr/include/gtk-4.0/gtk/css/gtkcss.h:34, from /usr/include/gtk-4.0/gtk/gtk.h:30, from ../../coot/layla/ligand_editor_canvas/render.hpp:25, from ../../coot/layla/ligand_editor_canvas/core.hpp:29, from ../../coot/layla/ligand_editor_canvas.hpp:25, from ../../coot/layla/state.hpp:24, from ../../coot/layla/state.cpp:22: ../../coot/layla/state.cpp: In lambda function: ../../coot/layla/state.cpp:570:56: warning: too many arguments for format [-Wformat-extra-args] 570 | "Nothing was chosen!", | ^~~~~~~~~~~~~~~~~~~~~ /usr/include/glib-2.0/gobject/gsignal.h:508:60: note: in definition of macro ‘g_signal_connect’ 508 | g_signal_connect_data ((instance), (detailed_signal), (c_handler), (data), NULL, (GConnectFlags) 0) | ^~~~~~~~~ ../../coot/layla/state.cpp:561:58: note: in expansion of macro ‘G_CALLBACK’ 561 | g_signal_connect(G_OBJECT(ok_button), "clicked", G_CALLBACK(+[](GtkButton* button, gpointer userdata){ | ^~~~~~~~~~ depbase=`echo ligand_editor_canvas/model.lo | sed 's|[^/]*$|.deps/&|;s|\.lo$||'`;\ /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" -DPACKAGE_STRING=\"coot\ 1.x-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I../../coot/layla -I../../coot -DHAVE_GSL -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DCLIPPER_HAS_TOP8000 -I/opt/user_software/coot/bin-gtk4/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/opt/user_software/coot/bin-gtk4/include -DUSE_PYTHON=1 -I/opt/user_software/coot/bin-gtk4/include/python3.11 -mfpmath=sse -msse -msse2 -pthread -I/opt/user_software/coot/bin-gtk4/lib/libffi-3.2.1/include -I/usr/include/gtk-4.0 -I/usr/include/gio-unix-2.0 -I/usr/include/cairo -I/usr/include/pango-1.0 -I/usr/include/harfbuzz -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/harfbuzz -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/x86_64-linux-gnu -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 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-DPACKAGE_VERSION=\"1.x-pre\" -DPACKAGE_STRING=\"coot\ 1.x-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I../../coot/layla -I../../coot -DHAVE_GSL -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DCLIPPER_HAS_TOP8000 -I/opt/user_software/coot/bin-gtk4/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/opt/user_software/coot/bin-gtk4/include -DUSE_PYTHON=1 -I/opt/user_software/coot/bin-gtk4/include/python3.11 -mfpmath=sse -msse -msse2 -pthread -I/opt/user_software/coot/bin-gtk4/lib/libffi-3.2.1/include -I/usr/include/gtk-4.0 -I/usr/include/gio-unix-2.0 -I/usr/include/cairo -I/usr/include/pango-1.0 -I/usr/include/harfbuzz -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/harfbuzz -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/x86_64-linux-gnu -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/graphene-1.0 -I/usr/lib/x86_64-linux-gnu/graphene-1.0/include -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -DUSE_LIBCURL=1 -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DMMDB_HAS_LINK_DISTANCE -I/opt/user_software/coot/bin-gtk4/include -DPKGDATADIR='"/opt/user_software/coot/bin-gtk4/share/coot"' -L/opt/user_software/coot/bin-gtk4/lib -lcurl -DUSE_LIBPNG=1 -I/usr/include/libpng16 -g -O -Wall -Wno-unused -std=c++17 -MT ligand_editor_canvas/tools.lo -MD -MP 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-I/opt/user_software/coot/bin-gtk4/include -DUSE_PYTHON=1 -I/opt/user_software/coot/bin-gtk4/include/python3.11 -mfpmath=sse -msse -msse2 -pthread -I/opt/user_software/coot/bin-gtk4/lib/libffi-3.2.1/include -I/usr/include/gtk-4.0 -I/usr/include/gio-unix-2.0 -I/usr/include/cairo -I/usr/include/pango-1.0 -I/usr/include/harfbuzz -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/harfbuzz -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/x86_64-linux-gnu -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/graphene-1.0 -I/usr/lib/x86_64-linux-gnu/graphene-1.0/include -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -DUSE_LIBCURL=1 -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DMMDB_HAS_LINK_DISTANCE -I/opt/user_software/coot/bin-gtk4/include -DPKGDATADIR=\"/opt/user_software/coot/bin-gtk4/share/coot\" -L/opt/user_software/coot/bin-gtk4/lib -lcurl -DUSE_LIBPNG=1 -I/usr/include/libpng16 -g -O -Wall -Wno-unused -std=c++17 -MT ligand_editor_canvas/model.lo -MD -MP -MF ligand_editor_canvas/.deps/model.Tpo -c ../../coot/layla/ligand_editor_canvas/model.cpp -fPIC -DPIC -o ligand_editor_canvas/.libs/model.o depbase=`echo ligand_editor_canvas/render.lo | sed 's|[^/]*$|.deps/&|;s|\.lo$||'`;\ /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" -DPACKAGE_STRING=\"coot\ 1.x-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 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-I/usr/lib/x86_64-linux-gnu/graphene-1.0/include -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -DUSE_LIBCURL=1 -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DMMDB_HAS_LINK_DISTANCE -I/opt/user_software/coot/bin-gtk4/include -DPKGDATADIR='"/opt/user_software/coot/bin-gtk4/share/coot"' -L/opt/user_software/coot/bin-gtk4/lib -lcurl -DUSE_LIBPNG=1 -I/usr/include/libpng16 -g -O -Wall -Wno-unused -std=c++17 -MT ligand_editor_canvas/render.lo -MD -MP -MF $depbase.Tpo -c -o ligand_editor_canvas/render.lo ../../coot/layla/ligand_editor_canvas/render.cpp &&\ mv -f $depbase.Tpo $depbase.Plo libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" "-DPACKAGE_STRING=\"coot 1.x-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" 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-DPKGDATADIR='"/opt/user_software/coot/bin-gtk4/share/coot"' -L/opt/user_software/coot/bin-gtk4/lib -lcurl -DUSE_LIBPNG=1 -I/usr/include/libpng16 -g -O -Wall -Wno-unused -std=c++17 -MT python_utils.lo -MD -MP -MF $depbase.Tpo -c -o python_utils.lo ../../coot/layla/python_utils.cpp &&\ mv -f $depbase.Tpo $depbase.Plo libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" "-DPACKAGE_STRING=\"coot 1.x-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I../../coot/layla -I../../coot -DHAVE_GSL -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DCLIPPER_HAS_TOP8000 -I/opt/user_software/coot/bin-gtk4/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/opt/user_software/coot/bin-gtk4/include -DUSE_PYTHON=1 -I/opt/user_software/coot/bin-gtk4/include/python3.11 -mfpmath=sse -msse -msse2 -pthread -I/opt/user_software/coot/bin-gtk4/lib/libffi-3.2.1/include -I/usr/include/gtk-4.0 -I/usr/include/gio-unix-2.0 -I/usr/include/cairo -I/usr/include/pango-1.0 -I/usr/include/harfbuzz -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/harfbuzz -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/x86_64-linux-gnu -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/graphene-1.0 -I/usr/lib/x86_64-linux-gnu/graphene-1.0/include -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -DUSE_LIBCURL=1 -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DMMDB_HAS_LINK_DISTANCE -I/opt/user_software/coot/bin-gtk4/include -DPKGDATADIR=\"/opt/user_software/coot/bin-gtk4/share/coot\" -L/opt/user_software/coot/bin-gtk4/lib -lcurl -DUSE_LIBPNG=1 -I/usr/include/libpng16 -g -O -Wall -Wno-unused -std=c++17 -MT ligand_editor_canvas/render.lo -MD -MP -MF ligand_editor_canvas/.deps/render.Tpo -c ../../coot/layla/ligand_editor_canvas/render.cpp -fPIC -DPIC -o ligand_editor_canvas/.libs/render.o libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" "-DPACKAGE_STRING=\"coot 1.x-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I../../coot/layla -I../../coot -DHAVE_GSL -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DCLIPPER_HAS_TOP8000 -I/opt/user_software/coot/bin-gtk4/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/opt/user_software/coot/bin-gtk4/include -DUSE_PYTHON=1 -I/opt/user_software/coot/bin-gtk4/include/python3.11 -mfpmath=sse -msse -msse2 -pthread -I/opt/user_software/coot/bin-gtk4/lib/libffi-3.2.1/include -I/usr/include/gtk-4.0 -I/usr/include/gio-unix-2.0 -I/usr/include/cairo -I/usr/include/pango-1.0 -I/usr/include/harfbuzz -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/harfbuzz -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/x86_64-linux-gnu -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/graphene-1.0 -I/usr/lib/x86_64-linux-gnu/graphene-1.0/include -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -DUSE_LIBCURL=1 -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DMMDB_HAS_LINK_DISTANCE -I/opt/user_software/coot/bin-gtk4/include -DPKGDATADIR=\"/opt/user_software/coot/bin-gtk4/share/coot\" -L/opt/user_software/coot/bin-gtk4/lib -lcurl -DUSE_LIBPNG=1 -I/usr/include/libpng16 -g -O -Wall -Wno-unused -std=c++17 -MT python_utils.lo -MD -MP -MF .deps/python_utils.Tpo -c ../../coot/layla/python_utils.cpp -fPIC -DPIC -o .libs/python_utils.o depbase=`echo ligand_editor_canvas/core.lo | sed 's|[^/]*$|.deps/&|;s|\.lo$||'`;\ /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" -DPACKAGE_STRING=\"coot\ 1.x-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I../../coot/layla -I../../coot -DHAVE_GSL -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DCLIPPER_HAS_TOP8000 -I/opt/user_software/coot/bin-gtk4/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/opt/user_software/coot/bin-gtk4/include -DUSE_PYTHON=1 -I/opt/user_software/coot/bin-gtk4/include/python3.11 -mfpmath=sse -msse -msse2 -pthread -I/opt/user_software/coot/bin-gtk4/lib/libffi-3.2.1/include -I/usr/include/gtk-4.0 -I/usr/include/gio-unix-2.0 -I/usr/include/cairo -I/usr/include/pango-1.0 -I/usr/include/harfbuzz -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/harfbuzz -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/x86_64-linux-gnu -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/graphene-1.0 -I/usr/lib/x86_64-linux-gnu/graphene-1.0/include -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -DUSE_LIBCURL=1 -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DMMDB_HAS_LINK_DISTANCE -I/opt/user_software/coot/bin-gtk4/include -DPKGDATADIR='"/opt/user_software/coot/bin-gtk4/share/coot"' -L/opt/user_software/coot/bin-gtk4/lib -lcurl -DUSE_LIBPNG=1 -I/usr/include/libpng16 -g -O -Wall -Wno-unused -std=c++17 -MT ligand_editor_canvas/core.lo -MD -MP -MF $depbase.Tpo -c -o ligand_editor_canvas/core.lo ../../coot/layla/ligand_editor_canvas/core.cpp &&\ mv -f $depbase.Tpo $depbase.Plo libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" "-DPACKAGE_STRING=\"coot 1.x-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I../../coot/layla -I../../coot -DHAVE_GSL -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DCLIPPER_HAS_TOP8000 -I/opt/user_software/coot/bin-gtk4/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/opt/user_software/coot/bin-gtk4/include -DUSE_PYTHON=1 -I/opt/user_software/coot/bin-gtk4/include/python3.11 -mfpmath=sse -msse -msse2 -pthread -I/opt/user_software/coot/bin-gtk4/lib/libffi-3.2.1/include -I/usr/include/gtk-4.0 -I/usr/include/gio-unix-2.0 -I/usr/include/cairo -I/usr/include/pango-1.0 -I/usr/include/harfbuzz -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/harfbuzz -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/x86_64-linux-gnu -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/graphene-1.0 -I/usr/lib/x86_64-linux-gnu/graphene-1.0/include -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -DUSE_LIBCURL=1 -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DMMDB_HAS_LINK_DISTANCE -I/opt/user_software/coot/bin-gtk4/include -DPKGDATADIR=\"/opt/user_software/coot/bin-gtk4/share/coot\" -L/opt/user_software/coot/bin-gtk4/lib -lcurl -DUSE_LIBPNG=1 -I/usr/include/libpng16 -g -O -Wall -Wno-unused -std=c++17 -MT ligand_editor_canvas/core.lo -MD -MP -MF ligand_editor_canvas/.deps/core.Tpo -c ../../coot/layla/ligand_editor_canvas/core.cpp -fPIC -DPIC -o ligand_editor_canvas/.libs/core.o ../../coot/layla/ligand_editor_canvas/model.cpp: In member function ‘void coot::ligand_editor_canvas::CanvasMolecule::process_alignment_in_rings()’: ../../coot/layla/ligand_editor_canvas/model.cpp:564:16: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 564 | while(i!=ring.size()) { | ~^~~~~~~~~~~~~ ../../coot/layla/ligand_editor_canvas/model.cpp:586:62: warning: suggest parentheses around comparison in operand of ‘==’ [-Wparentheses] 586 | bool x_requirement = bond_ptr->second_atom_x > bond_ptr->first_atom_x == sign_of_y_offset_from_center; | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ ../../coot/layla/ligand_editor_canvas/model.cpp:588:62: warning: suggest parentheses around comparison in operand of ‘!=’ [-Wparentheses] 588 | bool y_requirement = bond_ptr->second_atom_y <= bond_ptr->first_atom_y != sign_of_x_offset_from_center; | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~ ../../coot/layla/ligand_editor_canvas/model.cpp:615:17: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 615 | if(j==ring.size()) { | ~^~~~~~~~~~~~~ ../../coot/layla/ligand_editor_canvas/model.cpp: In member function ‘void coot::ligand_editor_canvas::CanvasMolecule::build_internal_molecule_representation(const INT_POINT2D_MAP&)’: ../../coot/layla/ligand_editor_canvas/model.cpp:786:54: warning: comparison of integer expressions of different signedness: ‘unsigned int’ and ‘std::tuple_element<0, const std::pair >::type’ {aka ‘const int’} [-Wsign-compare] 786 | auto the_other_atom_idx = first_atom_idx == atom_idx ? second_atom_idx : first_atom_idx; | ~~~~~~~~~~~~~~~^~~~~~~~~~~ ../../coot/layla/ligand_editor_canvas/model.cpp: In lambda function: ../../coot/layla/ligand_editor_canvas/model.cpp:872:68: warning: comparison of integer expressions of different signedness: ‘unsigned int’ and ‘const int’ [-Wsign-compare] 872 | unsigned int the_other_atom_idx = bond->first_atom_idx == atom_idx ? bond->second_atom_idx : bond->first_atom_idx; | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~ ../../coot/layla/ligand_editor_canvas/model.cpp: In instantiation of ‘coot::ligand_editor_canvas::CanvasMolecule::process_alignment_in_rings():: [with auto:25 = std::shared_ptr]’: /usr/include/c++/11/bits/predefined_ops.h:318:23: required from ‘bool __gnu_cxx::__ops::_Iter_pred<_Predicate>::operator()(_Iterator) [with _Iterator = __gnu_cxx::__normal_iterator*, std::vector > >; _Predicate = coot::ligand_editor_canvas::CanvasMolecule::process_alignment_in_rings()::]’ /usr/include/c++/11/bits/stl_algobase.h:2069:14: required from ‘_RandomAccessIterator std::__find_if(_RandomAccessIterator, _RandomAccessIterator, _Predicate, std::random_access_iterator_tag) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator*, std::vector > >; _Predicate = __gnu_cxx::__ops::_Iter_pred >]’ /usr/include/c++/11/bits/stl_algobase.h:2114:23: required from ‘_Iterator std::__find_if(_Iterator, _Iterator, _Predicate) [with _Iterator = __gnu_cxx::__normal_iterator*, std::vector > >; _Predicate = __gnu_cxx::__ops::_Iter_pred >]’ /usr/include/c++/11/bits/stl_algo.h:3910:28: required from ‘_IIter std::find_if(_IIter, _IIter, _Predicate) [with _IIter = __gnu_cxx::__normal_iterator*, std::vector > >; _Predicate = coot::ligand_editor_canvas::CanvasMolecule::process_alignment_in_rings()::]’ ../../coot/layla/ligand_editor_canvas/model.cpp:572:37: required from here ../../coot/layla/ligand_editor_canvas/model.cpp:573:46: warning: comparison of integer expressions of different signedness: ‘unsigned int’ and ‘const int’ [-Wsign-compare] 573 | return (bond->first_atom_idx == atom_one_idx && bond->second_atom_idx == atom_two_idx) | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~ ../../coot/layla/ligand_editor_canvas/model.cpp:573:87: warning: comparison of integer expressions of different signedness: ‘unsigned int’ and ‘const int’ [-Wsign-compare] 573 | return (bond->first_atom_idx == atom_one_idx && bond->second_atom_idx == atom_two_idx) | ~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~ ../../coot/layla/ligand_editor_canvas/model.cpp:574:46: warning: comparison of integer expressions of different signedness: ‘unsigned int’ and ‘const int’ [-Wsign-compare] 574 | || (bond->first_atom_idx == atom_two_idx && bond->second_atom_idx == atom_one_idx); | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~ ../../coot/layla/ligand_editor_canvas/model.cpp:574:87: warning: comparison of integer expressions of different signedness: ‘unsigned int’ and ‘const int’ [-Wsign-compare] 574 | || (bond->first_atom_idx == atom_two_idx && bond->second_atom_idx == atom_one_idx); | ~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~ ../../coot/layla/ligand_editor_canvas/model.cpp: In instantiation of ‘coot::ligand_editor_canvas::CanvasMolecule::highlight_bond(int, int):: [with auto:30 = std::shared_ptr]’: /usr/include/c++/11/bits/predefined_ops.h:318:23: required from ‘bool __gnu_cxx::__ops::_Iter_pred<_Predicate>::operator()(_Iterator) [with _Iterator = __gnu_cxx::__normal_iterator*, std::vector > >; _Predicate = coot::ligand_editor_canvas::CanvasMolecule::highlight_bond(int, int)::]’ /usr/include/c++/11/bits/stl_algobase.h:2069:14: required from ‘_RandomAccessIterator std::__find_if(_RandomAccessIterator, _RandomAccessIterator, _Predicate, std::random_access_iterator_tag) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator*, std::vector > >; _Predicate = __gnu_cxx::__ops::_Iter_pred >]’ /usr/include/c++/11/bits/stl_algobase.h:2114:23: required from ‘_Iterator std::__find_if(_Iterator, _Iterator, _Predicate) [with _Iterator = __gnu_cxx::__normal_iterator*, std::vector > >; _Predicate = __gnu_cxx::__ops::_Iter_pred >]’ /usr/include/c++/11/bits/stl_algo.h:3910:28: required from ‘_IIter std::find_if(_IIter, _IIter, _Predicate) [with _IIter = __gnu_cxx::__normal_iterator*, std::vector > >; _Predicate = coot::ligand_editor_canvas::CanvasMolecule::highlight_bond(int, int)::]’ ../../coot/layla/ligand_editor_canvas/model.cpp:928:31: required from here ../../coot/layla/ligand_editor_canvas/model.cpp:929:38: warning: comparison of integer expressions of different signedness: ‘unsigned int’ and ‘const int’ [-Wsign-compare] 929 | return bond->second_atom_idx == atom_b && bond->first_atom_idx == atom_a; | ~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~ ../../coot/layla/ligand_editor_canvas/model.cpp:929:72: warning: comparison of integer expressions of different signedness: ‘unsigned int’ and ‘const int’ [-Wsign-compare] 929 | return bond->second_atom_idx == atom_b && bond->first_atom_idx == atom_a; | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~ ../../coot/layla/ligand_editor_canvas/core.cpp: In member function ‘void coot::ligand_editor_canvas::impl::WidgetCoreData::undo_edition()’: ../../coot/layla/ligand_editor_canvas/core.cpp:74:34: warning: comparison of integer expressions of different signedness: ‘std::vector >::size_type’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 74 | if(this->state_stack->size() > this->state_stack_pos + 1) { | ~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~ /bin/bash ../libtool --tag=CXX --mode=link g++ -DPKGDATADIR='"/opt/user_software/coot/bin-gtk4/share/coot"' -L/opt/user_software/coot/bin-gtk4/lib -lcurl -DUSE_LIBPNG=1 -I/usr/include/libpng16 -g -O -Wall -Wno-unused -std=c++17 -o libcoot-layla.la -rpath /opt/user_software/coot/bin-gtk4/lib layla_embedded.lo generators.lo notifier.lo signals.lo state.lo ui.lo utils.lo ligand_editor_canvas/core.lo ligand_editor_canvas.lo ligand_editor_canvas/model.lo ligand_editor_canvas/tools.lo ligand_editor_canvas/render.lo python_utils.lo ../geometry/libcoot-geometry.la ../lidia-core/libcoot-lidia-core.la ../utils/libcoot-utils.la -lgtk-4 -lpangocairo-1.0 -lpango-1.0 -lharfbuzz -lgdk_pixbuf-2.0 -lcairo-gobject -lcairo -lgraphene-1.0 -lgio-2.0 -lgobject-2.0 -lglib-2.0 -lglib-2.0 -L/opt/user_software/coot/bin-gtk4/lib -lRDKitMolDraw2D -lRDKitForceFieldHelpers -lRDKitDescriptors -lRDKitForceField -lRDKitSubstructMatch -lRDKitOptimizer -lRDKitDistGeomHelpers -lRDKitDistGeometry -lRDKitChemReactions -lRDKitAlignment -lRDKitEigenSolvers -lRDKitDepictor -lRDKitcoordgen -lRDKitMolChemicalFeatures -lRDKitPartialCharges -lRDKitFileParsers -lRDKitRDGeometryLib -lRDKitGraphMol -lRDKitShapeHelpers -lRDKitFingerprints -lRDKitMolAlign -lRDKitMolTransforms -lRDKitChemTransforms -lRDKitSmilesParse -lRDKitGenericGroups -lRDKitRingDecomposerLib -lRDKitFilterCatalog -lRDKitCatalogs -lRDKitSubgraphs -lRDKitPartialCharges -lRDKitRDGeneral -lRDKitDataStructs -lboost_serialization -lboost_iostreams -L/opt/user_software/coot/bin-gtk4/lib -lcurl -lpthread libtool: link: g++ -fPIC -DPIC -shared -nostdlib /usr/lib/gcc/x86_64-linux-gnu/11/../../../x86_64-linux-gnu/crti.o /usr/lib/gcc/x86_64-linux-gnu/11/crtbeginS.o .libs/layla_embedded.o .libs/generators.o .libs/notifier.o .libs/signals.o .libs/state.o .libs/ui.o .libs/utils.o ligand_editor_canvas/.libs/core.o .libs/ligand_editor_canvas.o ligand_editor_canvas/.libs/model.o ligand_editor_canvas/.libs/tools.o ligand_editor_canvas/.libs/render.o .libs/python_utils.o -Wl,-rpath -Wl,/opt/user_software/coot/src/build-coot/geometry/.libs -Wl,-rpath -Wl,/opt/user_software/coot/src/build-coot/lidia-core/.libs -Wl,-rpath -Wl,/opt/user_software/coot/src/build-coot/compat/.libs -Wl,-rpath -Wl,/opt/user_software/coot/src/build-coot/mini-mol/.libs -Wl,-rpath -Wl,/opt/user_software/coot/src/build-coot/utils/.libs -Wl,-rpath -Wl,/opt/user_software/coot/bin-gtk4/lib -Wl,-rpath -Wl,/opt/user_software/coot/bin-gtk4/lib -L/opt/user_software/coot/src/build-coot/geometry/.libs -L/opt/user_software/coot/src/build-coot/compat/.libs -L/opt/user_software/coot/src/build-coot/mini-mol/.libs -L/opt/user_software/coot/src/build-coot/utils/.libs -L/opt/user_software/coot/bin-gtk4/lib ../geometry/.libs/libcoot-geometry.so -L=/opt/user_software/coot/bin-gtk4/lib:-L/opt/user_software/coot/bin-gtk4/lib: ../lidia-core/.libs/libcoot-lidia-core.so /opt/user_software/coot/src/build-coot/geometry/.libs/libcoot-geometry.so /opt/user_software/coot/src/build-coot/compat/.libs/libcoot-compat.so /opt/user_software/coot/src/build-coot/mini-mol/.libs/libcoot-mini-mol.so /opt/user_software/coot/src/build-coot/utils/.libs/libcoot-utils.so ../utils/.libs/libcoot-utils.so /opt/user_software/coot/bin-gtk4/lib/libclipper-ccp4.so /opt/user_software/coot/bin-gtk4/lib/libclipper-cif.so /opt/user_software/coot/bin-gtk4/lib/libclipper-minimol.so /opt/user_software/coot/bin-gtk4/lib/libclipper-mmdb.so /opt/user_software/coot/bin-gtk4/lib/libclipper-cns.so /opt/user_software/coot/bin-gtk4/lib/libclipper-phs.so /opt/user_software/coot/bin-gtk4/lib/libclipper-contrib.so /opt/user_software/coot/bin-gtk4/lib/libclipper-core.so /opt/user_software/coot/bin-gtk4/lib/librfftw.so /opt/user_software/coot/bin-gtk4/lib/libfftw.so /opt/user_software/coot/bin-gtk4/lib/libccp4c.so /opt/user_software/coot/bin-gtk4/lib/libmmdb2.so -lgtk-4 -lpangocairo-1.0 -lpango-1.0 -lharfbuzz -lgdk_pixbuf-2.0 -lcairo-gobject -lcairo -lgraphene-1.0 -lgio-2.0 -lgobject-2.0 -lglib-2.0 -lRDKitMolDraw2D -lRDKitForceFieldHelpers -lRDKitDescriptors -lRDKitForceField -lRDKitSubstructMatch -lRDKitOptimizer -lRDKitDistGeomHelpers -lRDKitDistGeometry -lRDKitChemReactions -lRDKitAlignment -lRDKitEigenSolvers -lRDKitDepictor -lRDKitcoordgen -lRDKitMolChemicalFeatures -lRDKitFileParsers -lRDKitRDGeometryLib -lRDKitGraphMol -lRDKitShapeHelpers -lRDKitFingerprints -lRDKitMolAlign -lRDKitMolTransforms -lRDKitChemTransforms -lRDKitSmilesParse -lRDKitGenericGroups -lRDKitRingDecomposerLib -lRDKitFilterCatalog -lRDKitCatalogs -lRDKitSubgraphs -lRDKitPartialCharges -lRDKitRDGeneral -lRDKitDataStructs -lboost_serialization -lboost_iostreams /opt/user_software/coot/bin-gtk4/lib/libcurl.so /opt/user_software/coot/bin-gtk4/lib/libidn2.so -lssl -lcrypto -lbrotlidec -lz -lpthread -L/usr/lib/gcc/x86_64-linux-gnu/11 -L/usr/lib/gcc/x86_64-linux-gnu/11/../../../x86_64-linux-gnu -L/usr/lib/gcc/x86_64-linux-gnu/11/../../../../lib -L/lib/x86_64-linux-gnu -L/lib/../lib -L/usr/lib/x86_64-linux-gnu -L/usr/lib/../lib -L/usr/lib/gcc/x86_64-linux-gnu/11/../../.. -lstdc++ -lm -lc -lgcc_s /usr/lib/gcc/x86_64-linux-gnu/11/crtendS.o /usr/lib/gcc/x86_64-linux-gnu/11/../../../x86_64-linux-gnu/crtn.o -g -O -Wl,-soname -Wl,libcoot-layla.so.0 -o .libs/libcoot-layla.so.0.0.0 libtool: link: (cd ".libs" && rm -f "libcoot-layla.so.0" && ln -s "libcoot-layla.so.0.0.0" "libcoot-layla.so.0") libtool: link: (cd ".libs" && rm -f "libcoot-layla.so" && ln -s "libcoot-layla.so.0.0.0" "libcoot-layla.so") libtool: link: ( cd ".libs" && rm -f "libcoot-layla.la" && ln -s "../libcoot-layla.la" "libcoot-layla.la" ) /bin/bash ../libtool --tag=CXX --mode=link g++ -DPKGDATADIR='"/opt/user_software/coot/bin-gtk4/share/coot"' -L/opt/user_software/coot/bin-gtk4/lib -lcurl -DUSE_LIBPNG=1 -I/usr/include/libpng16 -g -O -Wall -Wno-unused -std=c++17 -o layla main.o libcoot-layla.la ../utils/libcoot-utils.la -lgtk-4 -lpangocairo-1.0 -lpango-1.0 -lharfbuzz -lgdk_pixbuf-2.0 -lcairo-gobject -lcairo -lgraphene-1.0 -lgio-2.0 -lgobject-2.0 -lglib-2.0 -lglib-2.0 libtool: link: g++ -DPKGDATADIR=\"/opt/user_software/coot/bin-gtk4/share/coot\" -DUSE_LIBPNG=1 -I/usr/include/libpng16 -g -O -Wall -Wno-unused -std=c++17 -o .libs/layla main.o -L/opt/user_software/coot/bin-gtk4/lib ./.libs/libcoot-layla.so -L=/opt/user_software/coot/bin-gtk4/lib:-L/opt/user_software/coot/bin-gtk4/lib: /opt/user_software/coot/src/build-coot/lidia-core/.libs/libcoot-lidia-core.so /opt/user_software/coot/src/build-coot/geometry/.libs/libcoot-geometry.so /opt/user_software/coot/src/build-coot/compat/.libs/libcoot-compat.so /opt/user_software/coot/src/build-coot/mini-mol/.libs/libcoot-mini-mol.so /opt/user_software/coot/src/build-coot/utils/.libs/libcoot-utils.so -lRDKitMolDraw2D -lRDKitForceFieldHelpers -lRDKitDescriptors -lRDKitForceField -lRDKitSubstructMatch -lRDKitOptimizer -lRDKitDistGeomHelpers -lRDKitDistGeometry -lRDKitChemReactions -lRDKitAlignment -lRDKitEigenSolvers -lRDKitDepictor -lRDKitcoordgen -lRDKitMolChemicalFeatures -lRDKitFileParsers -lRDKitRDGeometryLib -lRDKitGraphMol -lRDKitShapeHelpers -lRDKitFingerprints -lRDKitMolAlign -lRDKitMolTransforms -lRDKitChemTransforms -lRDKitSmilesParse -lRDKitGenericGroups -lRDKitRingDecomposerLib -lRDKitFilterCatalog -lRDKitCatalogs -lRDKitSubgraphs -lRDKitPartialCharges -lRDKitRDGeneral -lRDKitDataStructs -lboost_serialization 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-I/usr/include/gio-unix-2.0 -I/usr/include/cairo -I/usr/include/pango-1.0 -I/usr/include/harfbuzz -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/harfbuzz -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/x86_64-linux-gnu -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/graphene-1.0 -I/usr/lib/x86_64-linux-gnu/graphene-1.0/include -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I/opt/user_software/coot/bin-gtk4/include -g -O -Wall -Wno-unused -std=c++17 -MT validation-information.lo -MD -MP -MF .deps/validation-information.Tpo -c ../../coot/validation-graphs/validation-information.cc -fPIC -DPIC -o .libs/validation-information.o libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" "-DPACKAGE_STRING=\"coot 1.x-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I../../coot/validation-graphs -I../../coot -mfpmath=sse -msse -msse2 -pthread -I/opt/user_software/coot/bin-gtk4/lib/libffi-3.2.1/include -I/usr/include/gtk-4.0 -I/usr/include/gio-unix-2.0 -I/usr/include/cairo -I/usr/include/pango-1.0 -I/usr/include/harfbuzz -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/harfbuzz -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/x86_64-linux-gnu -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/graphene-1.0 -I/usr/lib/x86_64-linux-gnu/graphene-1.0/include -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I/opt/user_software/coot/bin-gtk4/include -g -O -Wall -Wno-unused -std=c++17 -MT residue-validation-information.lo -MD -MP -MF .deps/residue-validation-information.Tpo -c ../../coot/validation-graphs/residue-validation-information.cc -fPIC -DPIC -o .libs/residue-validation-information.o libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" "-DPACKAGE_STRING=\"coot 1.x-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I../../coot/validation-graphs -I../../coot -mfpmath=sse -msse -msse2 -pthread -I/opt/user_software/coot/bin-gtk4/lib/libffi-3.2.1/include -I/usr/include/gtk-4.0 -I/usr/include/gio-unix-2.0 -I/usr/include/cairo -I/usr/include/pango-1.0 -I/usr/include/harfbuzz -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/harfbuzz -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/x86_64-linux-gnu -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/graphene-1.0 -I/usr/lib/x86_64-linux-gnu/graphene-1.0/include -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I/opt/user_software/coot/bin-gtk4/include -g -O -Wall -Wno-unused -std=c++17 -MT sequence-view-widget.lo -MD -MP -MF .deps/sequence-view-widget.Tpo -c ../../coot/validation-graphs/sequence-view-widget.cc -fPIC -DPIC -o .libs/sequence-view-widget.o libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" "-DPACKAGE_STRING=\"coot 1.x-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I../../coot/validation-graphs -I../../coot -mfpmath=sse -msse -msse2 -pthread -I/opt/user_software/coot/bin-gtk4/lib/libffi-3.2.1/include -I/usr/include/gtk-4.0 -I/usr/include/gio-unix-2.0 -I/usr/include/cairo -I/usr/include/pango-1.0 -I/usr/include/harfbuzz -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/harfbuzz -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/x86_64-linux-gnu -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/graphene-1.0 -I/usr/lib/x86_64-linux-gnu/graphene-1.0/include -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I/opt/user_software/coot/bin-gtk4/include -g -O -Wall -Wno-unused -std=c++17 -MT validation-graphs.lo -MD -MP -MF .deps/validation-graphs.Tpo -c ../../coot/validation-graphs/validation-graphs.cc -fPIC -DPIC -o .libs/validation-graphs.o libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" "-DPACKAGE_STRING=\"coot 1.x-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I../../coot/validation-graphs -I../../coot -mfpmath=sse -msse -msse2 -pthread -I/opt/user_software/coot/bin-gtk4/lib/libffi-3.2.1/include -I/usr/include/gtk-4.0 -I/usr/include/gio-unix-2.0 -I/usr/include/cairo -I/usr/include/pango-1.0 -I/usr/include/harfbuzz -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/harfbuzz -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/x86_64-linux-gnu -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/graphene-1.0 -I/usr/lib/x86_64-linux-gnu/graphene-1.0/include -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I/opt/user_software/coot/bin-gtk4/include -g -O -Wall -Wno-unused -std=c++17 -MT validation-graph-widget.lo -MD -MP -MF .deps/validation-graph-widget.Tpo -c ../../coot/validation-graphs/validation-graph-widget.cc -fPIC -DPIC -o .libs/validation-graph-widget.o mv -f .deps/residue-validation-information.Tpo .deps/residue-validation-information.Plo mv -f .deps/validation-information.Tpo .deps/validation-information.Plo mv -f .deps/validation-graphs.Tpo .deps/validation-graphs.Plo mv -f .deps/validation-graph-widget.Tpo .deps/validation-graph-widget.Plo mv -f .deps/sequence-view-widget.Tpo .deps/sequence-view-widget.Plo /bin/bash ../libtool --tag=CXX --mode=link g++ -g -O -Wall -Wno-unused -std=c++17 -o libcoot-validation-graphs.la -rpath /opt/user_software/coot/bin-gtk4/lib residue-validation-information.lo validation-graph-widget.lo validation-graphs.lo validation-information.lo sequence-view-widget.lo ../ideal/libcoot-ideal.la ../coot-utils/libcoot-map-heavy.la ../lidia-core/libcoot-lidia-core.la ../cootaneer/libcootaneer.la ../db-main/libcoot-db-main.la ../ccp4mg-utils/libccp4mg-utils.la ../geometry/libcoot-geometry.la ../mini-mol/libcoot-mini-mol.la ../coot-utils/libcoot-coord-extras.la ../coot-utils/libcoot-coord-utils.la ../coot-utils/libcoot-map-utils.la ../analysis/libcoot-analysis.la ../utils/libcoot-utils.la -L/opt/user_software/coot/bin-gtk4/lib -lclipper-ccp4 -lclipper-cif -lclipper-minimol -lclipper-mmdb -lclipper-cns -lclipper-phs -lclipper-contrib -lclipper-core -lccp4c -lmmdb2 -L/opt/user_software/coot/bin-gtk4/lib -lmmdb2 -L/opt/user_software/coot/bin-gtk4/lib -lgsl -lgslcblas -lm -L/opt/user_software/coot/bin-gtk4/lib -lRDKitMolDraw2D -lRDKitForceFieldHelpers -lRDKitDescriptors -lRDKitForceField -lRDKitSubstructMatch -lRDKitOptimizer -lRDKitDistGeomHelpers -lRDKitDistGeometry -lRDKitChemReactions -lRDKitAlignment -lRDKitEigenSolvers -lRDKitDepictor -lRDKitcoordgen -lRDKitMolChemicalFeatures -lRDKitPartialCharges -lRDKitFileParsers -lRDKitRDGeometryLib -lRDKitGraphMol -lRDKitShapeHelpers -lRDKitFingerprints -lRDKitMolAlign -lRDKitMolTransforms -lRDKitChemTransforms -lRDKitSmilesParse -lRDKitGenericGroups -lRDKitRingDecomposerLib -lRDKitFilterCatalog -lRDKitCatalogs -lRDKitSubgraphs -lRDKitPartialCharges -lRDKitRDGeneral -lRDKitDataStructs -lboost_serialization -lboost_iostreams -lgtk-4 -lpangocairo-1.0 -lpango-1.0 -lharfbuzz -lgdk_pixbuf-2.0 -lcairo-gobject -lcairo -lgraphene-1.0 -lgio-2.0 -lgobject-2.0 -lglib-2.0 -lpthread libtool: link: g++ -fPIC -DPIC -shared -nostdlib /usr/lib/gcc/x86_64-linux-gnu/11/../../../x86_64-linux-gnu/crti.o /usr/lib/gcc/x86_64-linux-gnu/11/crtbeginS.o .libs/residue-validation-information.o .libs/validation-graph-widget.o .libs/validation-graphs.o .libs/validation-information.o .libs/sequence-view-widget.o -Wl,-rpath -Wl,/opt/user_software/coot/src/build-coot/ideal/.libs -Wl,-rpath -Wl,/opt/user_software/coot/src/build-coot/coot-utils/.libs -Wl,-rpath -Wl,/opt/user_software/coot/src/build-coot/lidia-core/.libs -Wl,-rpath -Wl,/opt/user_software/coot/src/build-coot/cootaneer/.libs -Wl,-rpath -Wl,/opt/user_software/coot/src/build-coot/db-main/.libs -Wl,-rpath -Wl,/opt/user_software/coot/src/build-coot/ccp4mg-utils/.libs -Wl,-rpath -Wl,/opt/user_software/coot/src/build-coot/geometry/.libs -Wl,-rpath -Wl,/opt/user_software/coot/src/build-coot/mini-mol/.libs -Wl,-rpath -Wl,/opt/user_software/coot/src/build-coot/analysis/.libs -Wl,-rpath -Wl,/opt/user_software/coot/src/build-coot/protein_db/.libs -Wl,-rpath -Wl,/opt/user_software/coot/src/build-coot/compat/.libs -Wl,-rpath -Wl,/opt/user_software/coot/src/build-coot/utils/.libs -Wl,-rpath -Wl,/opt/user_software/coot/bin-gtk4/lib -Wl,-rpath -Wl,/opt/user_software/coot/bin-gtk4/lib -L/opt/user_software/coot/src/build-coot/coot-utils/.libs -L/opt/user_software/coot/src/build-coot/lidia-core/.libs -L/opt/user_software/coot/src/build-coot/geometry/.libs -L/opt/user_software/coot/src/build-coot/mini-mol/.libs -L/opt/user_software/coot/src/build-coot/protein_db/.libs -L/opt/user_software/coot/src/build-coot/compat/.libs -L/opt/user_software/coot/src/build-coot/utils/.libs ../ideal/.libs/libcoot-ideal.so -L/opt/user_software/coot/bin-gtk4/lib -L=/opt/user_software/coot/bin-gtk4/lib:-L/opt/user_software/coot/bin-gtk4/lib: /opt/user_software/coot/src/build-coot/coot-utils/.libs/libcoot-map-heavy.so /opt/user_software/coot/src/build-coot/coot-utils/.libs/libcoot-coord-extras.so ../coot-utils/.libs/libcoot-map-heavy.so ../lidia-core/.libs/libcoot-lidia-core.so ../cootaneer/.libs/libcootaneer.so ../db-main/.libs/libcoot-db-main.so ../ccp4mg-utils/.libs/libccp4mg-utils.so -lpng16 ../geometry/.libs/libcoot-geometry.so ../mini-mol/.libs/libcoot-mini-mol.so ../coot-utils/.libs/libcoot-coord-extras.so ../coot-utils/.libs/libcoot-coord-utils.so ../coot-utils/.libs/libcoot-map-utils.so ../analysis/.libs/libcoot-analysis.so /opt/user_software/coot/src/build-coot/coot-utils/.libs/libcoot-map-utils.so -lz /opt/user_software/coot/src/build-coot/coot-utils/.libs/libcoot-coord-utils.so /opt/user_software/coot/src/build-coot/protein_db/.libs/libcoot-protein-db.so /opt/user_software/coot/src/build-coot/lidia-core/.libs/libcoot-lidia-core.so /opt/user_software/coot/src/build-coot/geometry/.libs/libcoot-geometry.so /opt/user_software/coot/src/build-coot/compat/.libs/libcoot-compat.so /opt/user_software/coot/src/build-coot/mini-mol/.libs/libcoot-mini-mol.so /opt/user_software/coot/src/build-coot/utils/.libs/libcoot-utils.so ../utils/.libs/libcoot-utils.so /opt/user_software/coot/bin-gtk4/lib/libclipper-ccp4.so /opt/user_software/coot/bin-gtk4/lib/libclipper-cif.so /opt/user_software/coot/bin-gtk4/lib/libclipper-minimol.so /opt/user_software/coot/bin-gtk4/lib/libclipper-mmdb.so /opt/user_software/coot/bin-gtk4/lib/libclipper-cns.so /opt/user_software/coot/bin-gtk4/lib/libclipper-phs.so /opt/user_software/coot/bin-gtk4/lib/libclipper-contrib.so /opt/user_software/coot/bin-gtk4/lib/libclipper-core.so /opt/user_software/coot/bin-gtk4/lib/librfftw.so /opt/user_software/coot/bin-gtk4/lib/libfftw.so /opt/user_software/coot/bin-gtk4/lib/libccp4c.so /opt/user_software/coot/bin-gtk4/lib/libmmdb2.so /opt/user_software/coot/bin-gtk4/lib/libgsl.so /opt/user_software/coot/bin-gtk4/lib/libgslcblas.so -lRDKitMolDraw2D -lRDKitForceFieldHelpers -lRDKitDescriptors -lRDKitForceField -lRDKitSubstructMatch -lRDKitOptimizer -lRDKitDistGeomHelpers -lRDKitDistGeometry -lRDKitChemReactions -lRDKitAlignment -lRDKitEigenSolvers -lRDKitDepictor -lRDKitcoordgen -lRDKitMolChemicalFeatures -lRDKitFileParsers -lRDKitRDGeometryLib -lRDKitGraphMol -lRDKitShapeHelpers -lRDKitFingerprints -lRDKitMolAlign -lRDKitMolTransforms -lRDKitChemTransforms -lRDKitSmilesParse -lRDKitGenericGroups -lRDKitRingDecomposerLib -lRDKitFilterCatalog -lRDKitCatalogs -lRDKitSubgraphs -lRDKitPartialCharges -lRDKitRDGeneral -lRDKitDataStructs -lboost_serialization -lboost_iostreams -lgtk-4 -lpangocairo-1.0 -lpango-1.0 -lharfbuzz -lgdk_pixbuf-2.0 -lcairo-gobject -lcairo -lgraphene-1.0 -lgio-2.0 -lgobject-2.0 -lglib-2.0 -lpthread -L/usr/lib/gcc/x86_64-linux-gnu/11 -L/usr/lib/gcc/x86_64-linux-gnu/11/../../../x86_64-linux-gnu -L/usr/lib/gcc/x86_64-linux-gnu/11/../../../../lib -L/lib/x86_64-linux-gnu -L/lib/../lib -L/usr/lib/x86_64-linux-gnu -L/usr/lib/../lib -L/usr/lib/gcc/x86_64-linux-gnu/11/../../.. -lstdc++ -lm -lc -lgcc_s /usr/lib/gcc/x86_64-linux-gnu/11/crtendS.o /usr/lib/gcc/x86_64-linux-gnu/11/../../../x86_64-linux-gnu/crtn.o -g -O -Wl,-soname -Wl,libcoot-validation-graphs.so.0 -o .libs/libcoot-validation-graphs.so.0.0.0 libtool: link: (cd ".libs" && rm -f "libcoot-validation-graphs.so.0" && ln -s "libcoot-validation-graphs.so.0.0.0" "libcoot-validation-graphs.so.0") libtool: link: (cd ".libs" && rm -f "libcoot-validation-graphs.so" && ln -s "libcoot-validation-graphs.so.0.0.0" "libcoot-validation-graphs.so") libtool: link: ( cd ".libs" && rm -f "libcoot-validation-graphs.la" && ln -s "../libcoot-validation-graphs.la" "libcoot-validation-graphs.la" ) make[1]: Leaving directory '/opt/user_software/coot/src/build-coot/validation-graphs' Making all in src make[1]: Entering directory '/opt/user_software/coot/src/build-coot/src' /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" -DPACKAGE_STRING=\"coot\ 1.x-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I../../coot/src -DUSE_PYTHON -mfpmath=sse -msse -msse2 -pthread -I/opt/user_software/coot/bin-gtk4/lib/libffi-3.2.1/include -I/usr/include/gtk-4.0 -I/usr/include/gio-unix-2.0 -I/usr/include/cairo -I/usr/include/pango-1.0 -I/usr/include/harfbuzz -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/harfbuzz -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/x86_64-linux-gnu -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/graphene-1.0 -I/usr/lib/x86_64-linux-gnu/graphene-1.0/include -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I../../coot -I/opt/user_software/coot/bin-gtk4/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/opt/user_software/coot/bin-gtk4/include -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -I/opt/user_software/coot/bin-gtk4/include -DHAVE_SSMLIB -I/opt/user_software/coot/bin-gtk4/include -DMMDB_HAS_LINK_DISTANCE -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DCLIPPER_HAS_TOP8000 -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR='"/opt/user_software/coot/bin-gtk4/share/coot"' -DPACKAGE_LOCALE_DIR='"/opt/user_software/coot/bin-gtk4/share/coot/locale"' -DPKGPYTHONDIR='"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/coot"' -DPYTHONDIR='"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages"' -DXDATADIR='"/opt/user_software/coot/bin-gtk4/share"' -DCOOT_SYS_BUILD_TYPE='"Linux-x86_64-ubuntu-22.04.4-gtk4"' -DCOOT_BUILD_INFO_STRING='"build-host: gtxr1.srv-local.mpi-dortmund.mpg.de on: Mi 20 Mär 1759.36 CET 2024"' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/opt/user_software/coot/bin-gtk4/include/python3.11 -DHAVE_GSL -fopenmp -g -O -Wall -Wno-unused -std=c++17 -MT init_coot_as_python_module.lo -MD -MP -MF .deps/init_coot_as_python_module.Tpo -c -o init_coot_as_python_module.lo 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-I/usr/include/harfbuzz -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/harfbuzz -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/x86_64-linux-gnu -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/graphene-1.0 -I/usr/lib/x86_64-linux-gnu/graphene-1.0/include -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I../../coot -I/opt/user_software/coot/bin-gtk4/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/opt/user_software/coot/bin-gtk4/include -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -I/opt/user_software/coot/bin-gtk4/include -DHAVE_SSMLIB -I/opt/user_software/coot/bin-gtk4/include -DMMDB_HAS_LINK_DISTANCE -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DCLIPPER_HAS_TOP8000 -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR='"/opt/user_software/coot/bin-gtk4/share/coot"' -DPACKAGE_LOCALE_DIR='"/opt/user_software/coot/bin-gtk4/share/coot/locale"' -DPKGPYTHONDIR='"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/coot"' -DPYTHONDIR='"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages"' -DXDATADIR='"/opt/user_software/coot/bin-gtk4/share"' -DCOOT_SYS_BUILD_TYPE='"Linux-x86_64-ubuntu-22.04.4-gtk4"' -DCOOT_BUILD_INFO_STRING='"build-host: gtxr1.srv-local.mpi-dortmund.mpg.de on: Mi 20 Mär 1759.36 CET 2024"' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/opt/user_software/coot/bin-gtk4/include/python3.11 -DHAVE_GSL -fopenmp -g -O -Wall -Wno-unused -std=c++17 -MT c-interface-analysis.lo -MD -MP -MF .deps/c-interface-analysis.Tpo -c -o c-interface-analysis.lo ../../coot/src/c-interface-analysis.cc /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" -DPACKAGE_STRING=\"coot\ 1.x-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I../../coot/src -DUSE_PYTHON -mfpmath=sse -msse -msse2 -pthread -I/opt/user_software/coot/bin-gtk4/lib/libffi-3.2.1/include -I/usr/include/gtk-4.0 -I/usr/include/gio-unix-2.0 -I/usr/include/cairo -I/usr/include/pango-1.0 -I/usr/include/harfbuzz -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/harfbuzz -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/x86_64-linux-gnu -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/graphene-1.0 -I/usr/lib/x86_64-linux-gnu/graphene-1.0/include -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I../../coot -I/opt/user_software/coot/bin-gtk4/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/opt/user_software/coot/bin-gtk4/include -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -I/opt/user_software/coot/bin-gtk4/include -DHAVE_SSMLIB -I/opt/user_software/coot/bin-gtk4/include -DMMDB_HAS_LINK_DISTANCE -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DCLIPPER_HAS_TOP8000 -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR='"/opt/user_software/coot/bin-gtk4/share/coot"' 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-DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I../../coot/src -DUSE_PYTHON -mfpmath=sse -msse -msse2 -pthread -I/opt/user_software/coot/bin-gtk4/lib/libffi-3.2.1/include -I/usr/include/gtk-4.0 -I/usr/include/gio-unix-2.0 -I/usr/include/cairo -I/usr/include/pango-1.0 -I/usr/include/harfbuzz -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/harfbuzz -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/x86_64-linux-gnu -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/graphene-1.0 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-I/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/opt/user_software/coot/bin-gtk4/include/python3.11 -DHAVE_GSL -fopenmp -g -O -Wall -Wno-unused -std=c++17 -MT boids.lo -MD -MP -MF .deps/boids.Tpo -c ../../coot/src/boids.cc -fPIC -DPIC -o .libs/boids.o libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" "-DPACKAGE_STRING=\"coot 1.x-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I../../coot/src -DUSE_PYTHON -mfpmath=sse -msse -msse2 -pthread -I/opt/user_software/coot/bin-gtk4/lib/libffi-3.2.1/include -I/usr/include/gtk-4.0 -I/usr/include/gio-unix-2.0 -I/usr/include/cairo -I/usr/include/pango-1.0 -I/usr/include/harfbuzz -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/harfbuzz -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/x86_64-linux-gnu -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/graphene-1.0 -I/usr/lib/x86_64-linux-gnu/graphene-1.0/include -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I../../coot -I/opt/user_software/coot/bin-gtk4/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/opt/user_software/coot/bin-gtk4/include -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -I/opt/user_software/coot/bin-gtk4/include -DHAVE_SSMLIB -I/opt/user_software/coot/bin-gtk4/include -DMMDB_HAS_LINK_DISTANCE -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DCLIPPER_HAS_TOP8000 -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR=\"/opt/user_software/coot/bin-gtk4/share/coot\" -DPACKAGE_LOCALE_DIR=\"/opt/user_software/coot/bin-gtk4/share/coot/locale\" -DPKGPYTHONDIR=\"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/coot\" -DPYTHONDIR=\"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages\" -DXDATADIR=\"/opt/user_software/coot/bin-gtk4/share\" -DCOOT_SYS_BUILD_TYPE=\"Linux-x86_64-ubuntu-22.04.4-gtk4\" "-DCOOT_BUILD_INFO_STRING=\"build-host: gtxr1.srv-local.mpi-dortmund.mpg.de on: Mi 20 Mär 1759.36 CET 2024\"" -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/opt/user_software/coot/bin-gtk4/include/python3.11 -DHAVE_GSL -fopenmp -g -O -Wall -Wno-unused -std=c++17 -MT atom-overlaps.lo -MD -MP -MF .deps/atom-overlaps.Tpo -c ../../coot/src/atom-overlaps.cc -fPIC -DPIC -o .libs/atom-overlaps.o libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" "-DPACKAGE_STRING=\"coot 1.x-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I../../coot/src -DUSE_PYTHON -mfpmath=sse -msse -msse2 -pthread -I/opt/user_software/coot/bin-gtk4/lib/libffi-3.2.1/include -I/usr/include/gtk-4.0 -I/usr/include/gio-unix-2.0 -I/usr/include/cairo -I/usr/include/pango-1.0 -I/usr/include/harfbuzz -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/harfbuzz -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/x86_64-linux-gnu -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/graphene-1.0 -I/usr/lib/x86_64-linux-gnu/graphene-1.0/include -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I../../coot -I/opt/user_software/coot/bin-gtk4/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/opt/user_software/coot/bin-gtk4/include -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -I/opt/user_software/coot/bin-gtk4/include -DHAVE_SSMLIB -I/opt/user_software/coot/bin-gtk4/include -DMMDB_HAS_LINK_DISTANCE -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DCLIPPER_HAS_TOP8000 -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR=\"/opt/user_software/coot/bin-gtk4/share/coot\" -DPACKAGE_LOCALE_DIR=\"/opt/user_software/coot/bin-gtk4/share/coot/locale\" -DPKGPYTHONDIR=\"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/coot\" -DPYTHONDIR=\"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages\" -DXDATADIR=\"/opt/user_software/coot/bin-gtk4/share\" -DCOOT_SYS_BUILD_TYPE=\"Linux-x86_64-ubuntu-22.04.4-gtk4\" "-DCOOT_BUILD_INFO_STRING=\"build-host: gtxr1.srv-local.mpi-dortmund.mpg.de on: Mi 20 Mär 1759.36 CET 2024\"" -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/opt/user_software/coot/bin-gtk4/include/python3.11 -DHAVE_GSL -fopenmp -g -O -Wall -Wno-unused -std=c++17 -MT c-interface-bonds.lo -MD -MP -MF .deps/c-interface-bonds.Tpo -c ../../coot/src/c-interface-bonds.cc -fPIC -DPIC -o .libs/c-interface-bonds.o libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" "-DPACKAGE_STRING=\"coot 1.x-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I../../coot/src -DUSE_PYTHON -mfpmath=sse -msse -msse2 -pthread -I/opt/user_software/coot/bin-gtk4/lib/libffi-3.2.1/include -I/usr/include/gtk-4.0 -I/usr/include/gio-unix-2.0 -I/usr/include/cairo -I/usr/include/pango-1.0 -I/usr/include/harfbuzz -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/harfbuzz -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/x86_64-linux-gnu -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/graphene-1.0 -I/usr/lib/x86_64-linux-gnu/graphene-1.0/include -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I../../coot -I/opt/user_software/coot/bin-gtk4/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/opt/user_software/coot/bin-gtk4/include -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -I/opt/user_software/coot/bin-gtk4/include -DHAVE_SSMLIB -I/opt/user_software/coot/bin-gtk4/include -DMMDB_HAS_LINK_DISTANCE -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DCLIPPER_HAS_TOP8000 -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR=\"/opt/user_software/coot/bin-gtk4/share/coot\" -DPACKAGE_LOCALE_DIR=\"/opt/user_software/coot/bin-gtk4/share/coot/locale\" -DPKGPYTHONDIR=\"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/coot\" -DPYTHONDIR=\"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages\" -DXDATADIR=\"/opt/user_software/coot/bin-gtk4/share\" -DCOOT_SYS_BUILD_TYPE=\"Linux-x86_64-ubuntu-22.04.4-gtk4\" "-DCOOT_BUILD_INFO_STRING=\"build-host: gtxr1.srv-local.mpi-dortmund.mpg.de on: Mi 20 Mär 1759.36 CET 2024\"" -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/opt/user_software/coot/bin-gtk4/include/python3.11 -DHAVE_GSL -fopenmp -g -O -Wall -Wno-unused -std=c++17 -MT git-revision-count.lo -MD -MP -MF .deps/git-revision-count.Tpo -c git-revision-count.cc -fPIC -DPIC -o .libs/git-revision-count.o libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" "-DPACKAGE_STRING=\"coot 1.x-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I../../coot/src -DUSE_PYTHON -mfpmath=sse -msse -msse2 -pthread -I/opt/user_software/coot/bin-gtk4/lib/libffi-3.2.1/include -I/usr/include/gtk-4.0 -I/usr/include/gio-unix-2.0 -I/usr/include/cairo -I/usr/include/pango-1.0 -I/usr/include/harfbuzz -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/harfbuzz -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/x86_64-linux-gnu -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/graphene-1.0 -I/usr/lib/x86_64-linux-gnu/graphene-1.0/include -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I../../coot -I/opt/user_software/coot/bin-gtk4/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/opt/user_software/coot/bin-gtk4/include -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -I/opt/user_software/coot/bin-gtk4/include -DHAVE_SSMLIB -I/opt/user_software/coot/bin-gtk4/include -DMMDB_HAS_LINK_DISTANCE -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DCLIPPER_HAS_TOP8000 -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR=\"/opt/user_software/coot/bin-gtk4/share/coot\" -DPACKAGE_LOCALE_DIR=\"/opt/user_software/coot/bin-gtk4/share/coot/locale\" -DPKGPYTHONDIR=\"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/coot\" -DPYTHONDIR=\"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages\" -DXDATADIR=\"/opt/user_software/coot/bin-gtk4/share\" -DCOOT_SYS_BUILD_TYPE=\"Linux-x86_64-ubuntu-22.04.4-gtk4\" "-DCOOT_BUILD_INFO_STRING=\"build-host: gtxr1.srv-local.mpi-dortmund.mpg.de on: Mi 20 Mär 1759.36 CET 2024\"" -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/opt/user_software/coot/bin-gtk4/include/python3.11 -DHAVE_GSL -fopenmp -g -O -Wall -Wno-unused -std=c++17 -MT c-interface-analysis.lo -MD -MP -MF .deps/c-interface-analysis.Tpo -c ../../coot/src/c-interface-analysis.cc -fPIC -DPIC -o .libs/c-interface-analysis.o libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" "-DPACKAGE_STRING=\"coot 1.x-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I../../coot/src -DUSE_PYTHON -mfpmath=sse -msse -msse2 -pthread -I/opt/user_software/coot/bin-gtk4/lib/libffi-3.2.1/include -I/usr/include/gtk-4.0 -I/usr/include/gio-unix-2.0 -I/usr/include/cairo -I/usr/include/pango-1.0 -I/usr/include/harfbuzz -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/harfbuzz -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/x86_64-linux-gnu -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/graphene-1.0 -I/usr/lib/x86_64-linux-gnu/graphene-1.0/include -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I../../coot -I/opt/user_software/coot/bin-gtk4/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/opt/user_software/coot/bin-gtk4/include -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -I/opt/user_software/coot/bin-gtk4/include -DHAVE_SSMLIB -I/opt/user_software/coot/bin-gtk4/include -DMMDB_HAS_LINK_DISTANCE -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DCLIPPER_HAS_TOP8000 -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR=\"/opt/user_software/coot/bin-gtk4/share/coot\" -DPACKAGE_LOCALE_DIR=\"/opt/user_software/coot/bin-gtk4/share/coot/locale\" -DPKGPYTHONDIR=\"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/coot\" -DPYTHONDIR=\"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages\" -DXDATADIR=\"/opt/user_software/coot/bin-gtk4/share\" -DCOOT_SYS_BUILD_TYPE=\"Linux-x86_64-ubuntu-22.04.4-gtk4\" "-DCOOT_BUILD_INFO_STRING=\"build-host: gtxr1.srv-local.mpi-dortmund.mpg.de on: Mi 20 Mär 1759.36 CET 2024\"" -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/opt/user_software/coot/bin-gtk4/include/python3.11 -DHAVE_GSL -fopenmp -g -O -Wall -Wno-unused -std=c++17 -MT boot-python.lo -MD -MP -MF .deps/boot-python.Tpo -c ../../coot/src/boot-python.cc -fPIC -DPIC -o .libs/boot-python.o mv -f .deps/scm-boot-guile.Tpo .deps/scm-boot-guile.Plo /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" -DPACKAGE_STRING=\"coot\ 1.x-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I../../coot/src -DUSE_PYTHON -mfpmath=sse -msse -msse2 -pthread -I/opt/user_software/coot/bin-gtk4/lib/libffi-3.2.1/include -I/usr/include/gtk-4.0 -I/usr/include/gio-unix-2.0 -I/usr/include/cairo -I/usr/include/pango-1.0 -I/usr/include/harfbuzz -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/harfbuzz -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/x86_64-linux-gnu -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/graphene-1.0 -I/usr/lib/x86_64-linux-gnu/graphene-1.0/include -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I../../coot -I/opt/user_software/coot/bin-gtk4/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/opt/user_software/coot/bin-gtk4/include -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -I/opt/user_software/coot/bin-gtk4/include -DHAVE_SSMLIB -I/opt/user_software/coot/bin-gtk4/include -DMMDB_HAS_LINK_DISTANCE -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DCLIPPER_HAS_TOP8000 -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR='"/opt/user_software/coot/bin-gtk4/share/coot"' -DPACKAGE_LOCALE_DIR='"/opt/user_software/coot/bin-gtk4/share/coot/locale"' -DPKGPYTHONDIR='"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/coot"' -DPYTHONDIR='"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages"' -DXDATADIR='"/opt/user_software/coot/bin-gtk4/share"' -DCOOT_SYS_BUILD_TYPE='"Linux-x86_64-ubuntu-22.04.4-gtk4"' -DCOOT_BUILD_INFO_STRING='"build-host: gtxr1.srv-local.mpi-dortmund.mpg.de on: Mi 20 Mär 1759.36 CET 2024"' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/opt/user_software/coot/bin-gtk4/include/python3.11 -DHAVE_GSL -fopenmp -g -O -Wall -Wno-unused -std=c++17 -MT c-interface-build.lo -MD -MP -MF .deps/c-interface-build.Tpo -c -o c-interface-build.lo ../../coot/src/c-interface-build.cc mv -f .deps/git-revision-count.Tpo .deps/git-revision-count.Plo /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" -DPACKAGE_STRING=\"coot\ 1.x-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I../../coot/src -DUSE_PYTHON -mfpmath=sse -msse -msse2 -pthread -I/opt/user_software/coot/bin-gtk4/lib/libffi-3.2.1/include -I/usr/include/gtk-4.0 -I/usr/include/gio-unix-2.0 -I/usr/include/cairo -I/usr/include/pango-1.0 -I/usr/include/harfbuzz -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/harfbuzz -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/x86_64-linux-gnu -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/graphene-1.0 -I/usr/lib/x86_64-linux-gnu/graphene-1.0/include -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I../../coot -I/opt/user_software/coot/bin-gtk4/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/opt/user_software/coot/bin-gtk4/include -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -I/opt/user_software/coot/bin-gtk4/include -DHAVE_SSMLIB -I/opt/user_software/coot/bin-gtk4/include -DMMDB_HAS_LINK_DISTANCE -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DCLIPPER_HAS_TOP8000 -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR='"/opt/user_software/coot/bin-gtk4/share/coot"' -DPACKAGE_LOCALE_DIR='"/opt/user_software/coot/bin-gtk4/share/coot/locale"' -DPKGPYTHONDIR='"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/coot"' -DPYTHONDIR='"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages"' -DXDATADIR='"/opt/user_software/coot/bin-gtk4/share"' -DCOOT_SYS_BUILD_TYPE='"Linux-x86_64-ubuntu-22.04.4-gtk4"' -DCOOT_BUILD_INFO_STRING='"build-host: gtxr1.srv-local.mpi-dortmund.mpg.de on: Mi 20 Mär 1759.36 CET 2024"' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/opt/user_software/coot/bin-gtk4/include/python3.11 -DHAVE_GSL -fopenmp -g -O -Wall -Wno-unused -std=c++17 -MT c-interface-build-morph.lo -MD -MP -MF .deps/c-interface-build-morph.Tpo -c -o c-interface-build-morph.lo ../../coot/src/c-interface-build-morph.cc mv -f .deps/boot-python.Tpo .deps/boot-python.Plo /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" -DPACKAGE_STRING=\"coot\ 1.x-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I../../coot/src -DUSE_PYTHON -mfpmath=sse -msse -msse2 -pthread -I/opt/user_software/coot/bin-gtk4/lib/libffi-3.2.1/include -I/usr/include/gtk-4.0 -I/usr/include/gio-unix-2.0 -I/usr/include/cairo -I/usr/include/pango-1.0 -I/usr/include/harfbuzz -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/harfbuzz -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/x86_64-linux-gnu -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/graphene-1.0 -I/usr/lib/x86_64-linux-gnu/graphene-1.0/include -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I../../coot -I/opt/user_software/coot/bin-gtk4/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/opt/user_software/coot/bin-gtk4/include -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -I/opt/user_software/coot/bin-gtk4/include -DHAVE_SSMLIB -I/opt/user_software/coot/bin-gtk4/include -DMMDB_HAS_LINK_DISTANCE -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DCLIPPER_HAS_TOP8000 -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR='"/opt/user_software/coot/bin-gtk4/share/coot"' -DPACKAGE_LOCALE_DIR='"/opt/user_software/coot/bin-gtk4/share/coot/locale"' -DPKGPYTHONDIR='"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/coot"' -DPYTHONDIR='"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages"' -DXDATADIR='"/opt/user_software/coot/bin-gtk4/share"' -DCOOT_SYS_BUILD_TYPE='"Linux-x86_64-ubuntu-22.04.4-gtk4"' -DCOOT_BUILD_INFO_STRING='"build-host: gtxr1.srv-local.mpi-dortmund.mpg.de on: Mi 20 Mär 1759.36 CET 2024"' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/opt/user_software/coot/bin-gtk4/include/python3.11 -DHAVE_GSL -fopenmp -g -O -Wall -Wno-unused -std=c++17 -MT c-interface-build-main-chain.lo -MD -MP -MF .deps/c-interface-build-main-chain.Tpo -c -o c-interface-build-main-chain.lo ../../coot/src/c-interface-build-main-chain.cc In file included from ../../coot/MoleculesToTriangles/CXXClasses/RendererGLSL.hpp:31, from ../../coot/src/graphics-info.h:53, from ../../coot/src/init_coot_as_python_module.cc:12: ../../coot/MoleculesToTriangles/CXXClasses/RendererGL.h:61: warning: ignoring ‘#pragma mark ’ [-Wunknown-pragmas] 61 | #pragma mark - | ../../coot/MoleculesToTriangles/CXXClasses/RendererGL.h:62: warning: ignoring ‘#pragma mark Debug’ [-Wunknown-pragmas] 62 | #pragma mark Debug routine | In file included from ../../coot/MoleculesToTriangles/CXXClasses/RendererGLSL.hpp:31, from ../../coot/src/graphics-info.h:53, from ../../coot/src/atom-overlaps.cc:40: ../../coot/MoleculesToTriangles/CXXClasses/RendererGL.h:61: warning: ignoring ‘#pragma mark ’ [-Wunknown-pragmas] 61 | #pragma mark - | ../../coot/MoleculesToTriangles/CXXClasses/RendererGL.h:62: warning: ignoring ‘#pragma mark Debug’ [-Wunknown-pragmas] 62 | #pragma mark Debug routine | In file included from ../../coot/MoleculesToTriangles/CXXClasses/RendererGLSL.hpp:31, from ../../coot/src/graphics-info.h:53, from ../../coot/src/c-interface-analysis.cc:36: ../../coot/MoleculesToTriangles/CXXClasses/RendererGL.h:61: warning: ignoring ‘#pragma mark ’ [-Wunknown-pragmas] 61 | #pragma mark - | ../../coot/MoleculesToTriangles/CXXClasses/RendererGL.h:62: warning: ignoring ‘#pragma mark Debug’ [-Wunknown-pragmas] 62 | #pragma mark Debug routine | In file included from ../../coot/MoleculesToTriangles/CXXClasses/RendererGLSL.hpp:31, from ../../coot/src/graphics-info.h:53, from ../../coot/src/c-interface-bonds.cc:24: ../../coot/MoleculesToTriangles/CXXClasses/RendererGL.h:61: warning: ignoring ‘#pragma mark ’ [-Wunknown-pragmas] 61 | #pragma mark - | ../../coot/MoleculesToTriangles/CXXClasses/RendererGL.h:62: warning: ignoring ‘#pragma mark Debug’ [-Wunknown-pragmas] 62 | #pragma mark Debug routine | libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" "-DPACKAGE_STRING=\"coot 1.x-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I../../coot/src -DUSE_PYTHON -mfpmath=sse -msse -msse2 -pthread -I/opt/user_software/coot/bin-gtk4/lib/libffi-3.2.1/include -I/usr/include/gtk-4.0 -I/usr/include/gio-unix-2.0 -I/usr/include/cairo -I/usr/include/pango-1.0 -I/usr/include/harfbuzz -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/harfbuzz -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/x86_64-linux-gnu -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/graphene-1.0 -I/usr/lib/x86_64-linux-gnu/graphene-1.0/include -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I../../coot -I/opt/user_software/coot/bin-gtk4/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/opt/user_software/coot/bin-gtk4/include -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -I/opt/user_software/coot/bin-gtk4/include -DHAVE_SSMLIB -I/opt/user_software/coot/bin-gtk4/include -DMMDB_HAS_LINK_DISTANCE -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DCLIPPER_HAS_TOP8000 -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR=\"/opt/user_software/coot/bin-gtk4/share/coot\" -DPACKAGE_LOCALE_DIR=\"/opt/user_software/coot/bin-gtk4/share/coot/locale\" -DPKGPYTHONDIR=\"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/coot\" -DPYTHONDIR=\"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages\" -DXDATADIR=\"/opt/user_software/coot/bin-gtk4/share\" -DCOOT_SYS_BUILD_TYPE=\"Linux-x86_64-ubuntu-22.04.4-gtk4\" "-DCOOT_BUILD_INFO_STRING=\"build-host: gtxr1.srv-local.mpi-dortmund.mpg.de on: Mi 20 Mär 1759.36 CET 2024\"" -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/opt/user_software/coot/bin-gtk4/include/python3.11 -DHAVE_GSL -fopenmp -g -O -Wall -Wno-unused -std=c++17 -MT c-interface-build.lo -MD -MP -MF .deps/c-interface-build.Tpo -c ../../coot/src/c-interface-build.cc -fPIC -DPIC -o .libs/c-interface-build.o libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" "-DPACKAGE_STRING=\"coot 1.x-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I../../coot/src -DUSE_PYTHON -mfpmath=sse -msse -msse2 -pthread -I/opt/user_software/coot/bin-gtk4/lib/libffi-3.2.1/include -I/usr/include/gtk-4.0 -I/usr/include/gio-unix-2.0 -I/usr/include/cairo -I/usr/include/pango-1.0 -I/usr/include/harfbuzz -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/harfbuzz -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/x86_64-linux-gnu -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/graphene-1.0 -I/usr/lib/x86_64-linux-gnu/graphene-1.0/include -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I../../coot -I/opt/user_software/coot/bin-gtk4/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/opt/user_software/coot/bin-gtk4/include -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -I/opt/user_software/coot/bin-gtk4/include -DHAVE_SSMLIB -I/opt/user_software/coot/bin-gtk4/include -DMMDB_HAS_LINK_DISTANCE -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DCLIPPER_HAS_TOP8000 -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR=\"/opt/user_software/coot/bin-gtk4/share/coot\" -DPACKAGE_LOCALE_DIR=\"/opt/user_software/coot/bin-gtk4/share/coot/locale\" -DPKGPYTHONDIR=\"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/coot\" -DPYTHONDIR=\"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages\" -DXDATADIR=\"/opt/user_software/coot/bin-gtk4/share\" -DCOOT_SYS_BUILD_TYPE=\"Linux-x86_64-ubuntu-22.04.4-gtk4\" "-DCOOT_BUILD_INFO_STRING=\"build-host: gtxr1.srv-local.mpi-dortmund.mpg.de on: Mi 20 Mär 1759.36 CET 2024\"" -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/opt/user_software/coot/bin-gtk4/include/python3.11 -DHAVE_GSL -fopenmp -g -O -Wall -Wno-unused -std=c++17 -MT c-interface-build-morph.lo -MD -MP -MF .deps/c-interface-build-morph.Tpo -c ../../coot/src/c-interface-build-morph.cc -fPIC -DPIC -o .libs/c-interface-build-morph.o mv -f .deps/boids.Tpo .deps/boids.Plo /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" -DPACKAGE_STRING=\"coot\ 1.x-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I../../coot/src -DUSE_PYTHON -mfpmath=sse -msse -msse2 -pthread -I/opt/user_software/coot/bin-gtk4/lib/libffi-3.2.1/include -I/usr/include/gtk-4.0 -I/usr/include/gio-unix-2.0 -I/usr/include/cairo -I/usr/include/pango-1.0 -I/usr/include/harfbuzz -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/harfbuzz -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/x86_64-linux-gnu -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/graphene-1.0 -I/usr/lib/x86_64-linux-gnu/graphene-1.0/include -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I../../coot -I/opt/user_software/coot/bin-gtk4/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/opt/user_software/coot/bin-gtk4/include -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -I/opt/user_software/coot/bin-gtk4/include -DHAVE_SSMLIB -I/opt/user_software/coot/bin-gtk4/include -DMMDB_HAS_LINK_DISTANCE -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DCLIPPER_HAS_TOP8000 -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR='"/opt/user_software/coot/bin-gtk4/share/coot"' -DPACKAGE_LOCALE_DIR='"/opt/user_software/coot/bin-gtk4/share/coot/locale"' -DPKGPYTHONDIR='"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/coot"' -DPYTHONDIR='"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages"' -DXDATADIR='"/opt/user_software/coot/bin-gtk4/share"' -DCOOT_SYS_BUILD_TYPE='"Linux-x86_64-ubuntu-22.04.4-gtk4"' -DCOOT_BUILD_INFO_STRING='"build-host: gtxr1.srv-local.mpi-dortmund.mpg.de on: Mi 20 Mär 1759.36 CET 2024"' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/opt/user_software/coot/bin-gtk4/include/python3.11 -DHAVE_GSL -fopenmp -g -O -Wall -Wno-unused -std=c++17 -MT c-interface-build-side-chain.lo -MD -MP -MF .deps/c-interface-build-side-chain.Tpo -c -o c-interface-build-side-chain.lo ../../coot/src/c-interface-build-side-chain.cc libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" "-DPACKAGE_STRING=\"coot 1.x-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I../../coot/src -DUSE_PYTHON -mfpmath=sse -msse -msse2 -pthread -I/opt/user_software/coot/bin-gtk4/lib/libffi-3.2.1/include -I/usr/include/gtk-4.0 -I/usr/include/gio-unix-2.0 -I/usr/include/cairo -I/usr/include/pango-1.0 -I/usr/include/harfbuzz -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/harfbuzz -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/x86_64-linux-gnu -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/graphene-1.0 -I/usr/lib/x86_64-linux-gnu/graphene-1.0/include -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I../../coot -I/opt/user_software/coot/bin-gtk4/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/opt/user_software/coot/bin-gtk4/include -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -I/opt/user_software/coot/bin-gtk4/include -DHAVE_SSMLIB -I/opt/user_software/coot/bin-gtk4/include -DMMDB_HAS_LINK_DISTANCE -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DCLIPPER_HAS_TOP8000 -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR=\"/opt/user_software/coot/bin-gtk4/share/coot\" -DPACKAGE_LOCALE_DIR=\"/opt/user_software/coot/bin-gtk4/share/coot/locale\" -DPKGPYTHONDIR=\"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/coot\" -DPYTHONDIR=\"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages\" -DXDATADIR=\"/opt/user_software/coot/bin-gtk4/share\" -DCOOT_SYS_BUILD_TYPE=\"Linux-x86_64-ubuntu-22.04.4-gtk4\" "-DCOOT_BUILD_INFO_STRING=\"build-host: gtxr1.srv-local.mpi-dortmund.mpg.de on: Mi 20 Mär 1759.36 CET 2024\"" -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/opt/user_software/coot/bin-gtk4/include/python3.11 -DHAVE_GSL -fopenmp -g -O -Wall -Wno-unused -std=c++17 -MT c-interface-build-main-chain.lo -MD -MP -MF .deps/c-interface-build-main-chain.Tpo -c ../../coot/src/c-interface-build-main-chain.cc -fPIC -DPIC -o .libs/c-interface-build-main-chain.o In file included from ../../coot/MoleculesToTriangles/CXXClasses/RendererGLSL.hpp:31, from ../../coot/src/graphics-info.h:53, from ../../coot/src/c-interface-build.cc:66: ../../coot/MoleculesToTriangles/CXXClasses/RendererGL.h:61: warning: ignoring ‘#pragma mark ’ [-Wunknown-pragmas] 61 | #pragma mark - | ../../coot/MoleculesToTriangles/CXXClasses/RendererGL.h:62: warning: ignoring ‘#pragma mark Debug’ [-Wunknown-pragmas] 62 | #pragma mark Debug routine | In file included from ../../coot/MoleculesToTriangles/CXXClasses/RendererGLSL.hpp:31, from ../../coot/src/graphics-info.h:53, from ../../coot/src/c-interface-build-main-chain.cc:63: ../../coot/MoleculesToTriangles/CXXClasses/RendererGL.h:61: warning: ignoring ‘#pragma mark ’ [-Wunknown-pragmas] 61 | #pragma mark - | ../../coot/MoleculesToTriangles/CXXClasses/RendererGL.h:62: warning: ignoring ‘#pragma mark Debug’ [-Wunknown-pragmas] 62 | #pragma mark Debug routine | libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" "-DPACKAGE_STRING=\"coot 1.x-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I../../coot/src -DUSE_PYTHON -mfpmath=sse -msse -msse2 -pthread -I/opt/user_software/coot/bin-gtk4/lib/libffi-3.2.1/include -I/usr/include/gtk-4.0 -I/usr/include/gio-unix-2.0 -I/usr/include/cairo -I/usr/include/pango-1.0 -I/usr/include/harfbuzz -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/harfbuzz -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/x86_64-linux-gnu -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/graphene-1.0 -I/usr/lib/x86_64-linux-gnu/graphene-1.0/include -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I../../coot -I/opt/user_software/coot/bin-gtk4/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/opt/user_software/coot/bin-gtk4/include -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -I/opt/user_software/coot/bin-gtk4/include -DHAVE_SSMLIB -I/opt/user_software/coot/bin-gtk4/include -DMMDB_HAS_LINK_DISTANCE -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DCLIPPER_HAS_TOP8000 -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR=\"/opt/user_software/coot/bin-gtk4/share/coot\" -DPACKAGE_LOCALE_DIR=\"/opt/user_software/coot/bin-gtk4/share/coot/locale\" -DPKGPYTHONDIR=\"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/coot\" -DPYTHONDIR=\"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages\" -DXDATADIR=\"/opt/user_software/coot/bin-gtk4/share\" -DCOOT_SYS_BUILD_TYPE=\"Linux-x86_64-ubuntu-22.04.4-gtk4\" "-DCOOT_BUILD_INFO_STRING=\"build-host: gtxr1.srv-local.mpi-dortmund.mpg.de on: Mi 20 Mär 1759.36 CET 2024\"" -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/opt/user_software/coot/bin-gtk4/include/python3.11 -DHAVE_GSL -fopenmp -g -O -Wall -Wno-unused -std=c++17 -MT c-interface-build-side-chain.lo -MD -MP -MF .deps/c-interface-build-side-chain.Tpo -c ../../coot/src/c-interface-build-side-chain.cc -fPIC -DPIC -o .libs/c-interface-build-side-chain.o In file included from ../../coot/MoleculesToTriangles/CXXClasses/RendererGLSL.hpp:31, from ../../coot/src/graphics-info.h:53, from ../../coot/src/c-interface-build-morph.cc:65: ../../coot/MoleculesToTriangles/CXXClasses/RendererGL.h:61: warning: ignoring ‘#pragma mark ’ [-Wunknown-pragmas] 61 | #pragma mark - | ../../coot/MoleculesToTriangles/CXXClasses/RendererGL.h:62: warning: ignoring ‘#pragma mark Debug’ [-Wunknown-pragmas] 62 | #pragma mark Debug routine | In file included from ../../coot/MoleculesToTriangles/CXXClasses/RendererGLSL.hpp:31, from ../../coot/src/graphics-info.h:53, from ../../coot/src/c-interface-build-side-chain.cc:66: ../../coot/MoleculesToTriangles/CXXClasses/RendererGL.h:61: warning: ignoring ‘#pragma mark ’ [-Wunknown-pragmas] 61 | #pragma mark - | ../../coot/MoleculesToTriangles/CXXClasses/RendererGL.h:62: warning: ignoring ‘#pragma mark Debug’ [-Wunknown-pragmas] 62 | #pragma mark Debug routine | mv -f .deps/atom-overlaps.Tpo .deps/atom-overlaps.Plo mv -f .deps/c-interface-bonds.Tpo .deps/c-interface-bonds.Plo /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" -DPACKAGE_STRING=\"coot\ 1.x-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I../../coot/src -DUSE_PYTHON -mfpmath=sse -msse -msse2 -pthread -I/opt/user_software/coot/bin-gtk4/lib/libffi-3.2.1/include -I/usr/include/gtk-4.0 -I/usr/include/gio-unix-2.0 -I/usr/include/cairo -I/usr/include/pango-1.0 -I/usr/include/harfbuzz -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/harfbuzz -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/x86_64-linux-gnu -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/graphene-1.0 -I/usr/lib/x86_64-linux-gnu/graphene-1.0/include -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I../../coot -I/opt/user_software/coot/bin-gtk4/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/opt/user_software/coot/bin-gtk4/include -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -I/opt/user_software/coot/bin-gtk4/include -DHAVE_SSMLIB -I/opt/user_software/coot/bin-gtk4/include -DMMDB_HAS_LINK_DISTANCE -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DCLIPPER_HAS_TOP8000 -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR='"/opt/user_software/coot/bin-gtk4/share/coot"' -DPACKAGE_LOCALE_DIR='"/opt/user_software/coot/bin-gtk4/share/coot/locale"' -DPKGPYTHONDIR='"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/coot"' -DPYTHONDIR='"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages"' -DXDATADIR='"/opt/user_software/coot/bin-gtk4/share"' -DCOOT_SYS_BUILD_TYPE='"Linux-x86_64-ubuntu-22.04.4-gtk4"' -DCOOT_BUILD_INFO_STRING='"build-host: gtxr1.srv-local.mpi-dortmund.mpg.de on: Mi 20 Mär 1759.36 CET 2024"' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/opt/user_software/coot/bin-gtk4/include/python3.11 -DHAVE_GSL -fopenmp -g -O -Wall -Wno-unused -std=c++17 -MT c-interface-build-symmetry.lo -MD -MP -MF .deps/c-interface-build-symmetry.Tpo -c -o c-interface-build-symmetry.lo ../../coot/src/c-interface-build-symmetry.cc /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" -DPACKAGE_STRING=\"coot\ 1.x-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I../../coot/src -DUSE_PYTHON -mfpmath=sse -msse -msse2 -pthread -I/opt/user_software/coot/bin-gtk4/lib/libffi-3.2.1/include -I/usr/include/gtk-4.0 -I/usr/include/gio-unix-2.0 -I/usr/include/cairo -I/usr/include/pango-1.0 -I/usr/include/harfbuzz -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/harfbuzz -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/x86_64-linux-gnu -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/graphene-1.0 -I/usr/lib/x86_64-linux-gnu/graphene-1.0/include -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I../../coot -I/opt/user_software/coot/bin-gtk4/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/opt/user_software/coot/bin-gtk4/include -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -I/opt/user_software/coot/bin-gtk4/include -DHAVE_SSMLIB -I/opt/user_software/coot/bin-gtk4/include -DMMDB_HAS_LINK_DISTANCE -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DCLIPPER_HAS_TOP8000 -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR='"/opt/user_software/coot/bin-gtk4/share/coot"' -DPACKAGE_LOCALE_DIR='"/opt/user_software/coot/bin-gtk4/share/coot/locale"' -DPKGPYTHONDIR='"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/coot"' -DPYTHONDIR='"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages"' -DXDATADIR='"/opt/user_software/coot/bin-gtk4/share"' -DCOOT_SYS_BUILD_TYPE='"Linux-x86_64-ubuntu-22.04.4-gtk4"' -DCOOT_BUILD_INFO_STRING='"build-host: gtxr1.srv-local.mpi-dortmund.mpg.de on: Mi 20 Mär 1759.36 CET 2024"' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/opt/user_software/coot/bin-gtk4/include/python3.11 -DHAVE_GSL -fopenmp -g -O -Wall -Wno-unused -std=c++17 -MT c-interface-build-gui.lo -MD -MP -MF .deps/c-interface-build-gui.Tpo -c -o c-interface-build-gui.lo ../../coot/src/c-interface-build-gui.cc mv -f .deps/c-interface-analysis.Tpo .deps/c-interface-analysis.Plo /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" -DPACKAGE_STRING=\"coot\ 1.x-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I../../coot/src -DUSE_PYTHON -mfpmath=sse -msse -msse2 -pthread -I/opt/user_software/coot/bin-gtk4/lib/libffi-3.2.1/include -I/usr/include/gtk-4.0 -I/usr/include/gio-unix-2.0 -I/usr/include/cairo -I/usr/include/pango-1.0 -I/usr/include/harfbuzz -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/harfbuzz -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/x86_64-linux-gnu -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/graphene-1.0 -I/usr/lib/x86_64-linux-gnu/graphene-1.0/include -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I../../coot -I/opt/user_software/coot/bin-gtk4/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/opt/user_software/coot/bin-gtk4/include -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -I/opt/user_software/coot/bin-gtk4/include -DHAVE_SSMLIB -I/opt/user_software/coot/bin-gtk4/include -DMMDB_HAS_LINK_DISTANCE -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DCLIPPER_HAS_TOP8000 -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR='"/opt/user_software/coot/bin-gtk4/share/coot"' -DPACKAGE_LOCALE_DIR='"/opt/user_software/coot/bin-gtk4/share/coot/locale"' -DPKGPYTHONDIR='"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/coot"' -DPYTHONDIR='"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages"' -DXDATADIR='"/opt/user_software/coot/bin-gtk4/share"' -DCOOT_SYS_BUILD_TYPE='"Linux-x86_64-ubuntu-22.04.4-gtk4"' -DCOOT_BUILD_INFO_STRING='"build-host: gtxr1.srv-local.mpi-dortmund.mpg.de on: Mi 20 Mär 1759.36 CET 2024"' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/opt/user_software/coot/bin-gtk4/include/python3.11 -DHAVE_GSL -fopenmp -g -O -Wall -Wno-unused -std=c++17 -MT c-interface-curlew.lo -MD -MP -MF .deps/c-interface-curlew.Tpo -c -o c-interface-curlew.lo ../../coot/src/c-interface-curlew.cc libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" "-DPACKAGE_STRING=\"coot 1.x-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I../../coot/src -DUSE_PYTHON -mfpmath=sse -msse -msse2 -pthread -I/opt/user_software/coot/bin-gtk4/lib/libffi-3.2.1/include -I/usr/include/gtk-4.0 -I/usr/include/gio-unix-2.0 -I/usr/include/cairo -I/usr/include/pango-1.0 -I/usr/include/harfbuzz -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/harfbuzz -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/x86_64-linux-gnu -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/graphene-1.0 -I/usr/lib/x86_64-linux-gnu/graphene-1.0/include -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I../../coot -I/opt/user_software/coot/bin-gtk4/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/opt/user_software/coot/bin-gtk4/include -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -I/opt/user_software/coot/bin-gtk4/include -DHAVE_SSMLIB -I/opt/user_software/coot/bin-gtk4/include -DMMDB_HAS_LINK_DISTANCE -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DCLIPPER_HAS_TOP8000 -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR=\"/opt/user_software/coot/bin-gtk4/share/coot\" -DPACKAGE_LOCALE_DIR=\"/opt/user_software/coot/bin-gtk4/share/coot/locale\" -DPKGPYTHONDIR=\"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/coot\" -DPYTHONDIR=\"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages\" -DXDATADIR=\"/opt/user_software/coot/bin-gtk4/share\" -DCOOT_SYS_BUILD_TYPE=\"Linux-x86_64-ubuntu-22.04.4-gtk4\" "-DCOOT_BUILD_INFO_STRING=\"build-host: gtxr1.srv-local.mpi-dortmund.mpg.de on: Mi 20 Mär 1759.36 CET 2024\"" -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/opt/user_software/coot/bin-gtk4/include/python3.11 -DHAVE_GSL -fopenmp -g -O -Wall -Wno-unused -std=c++17 -MT c-interface-build-gui.lo -MD -MP -MF .deps/c-interface-build-gui.Tpo -c ../../coot/src/c-interface-build-gui.cc -fPIC -DPIC -o .libs/c-interface-build-gui.o libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" "-DPACKAGE_STRING=\"coot 1.x-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I../../coot/src -DUSE_PYTHON -mfpmath=sse -msse -msse2 -pthread -I/opt/user_software/coot/bin-gtk4/lib/libffi-3.2.1/include -I/usr/include/gtk-4.0 -I/usr/include/gio-unix-2.0 -I/usr/include/cairo -I/usr/include/pango-1.0 -I/usr/include/harfbuzz -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/harfbuzz -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/x86_64-linux-gnu -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/graphene-1.0 -I/usr/lib/x86_64-linux-gnu/graphene-1.0/include -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I../../coot -I/opt/user_software/coot/bin-gtk4/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/opt/user_software/coot/bin-gtk4/include -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -I/opt/user_software/coot/bin-gtk4/include -DHAVE_SSMLIB -I/opt/user_software/coot/bin-gtk4/include -DMMDB_HAS_LINK_DISTANCE -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DCLIPPER_HAS_TOP8000 -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR=\"/opt/user_software/coot/bin-gtk4/share/coot\" -DPACKAGE_LOCALE_DIR=\"/opt/user_software/coot/bin-gtk4/share/coot/locale\" -DPKGPYTHONDIR=\"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/coot\" -DPYTHONDIR=\"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages\" -DXDATADIR=\"/opt/user_software/coot/bin-gtk4/share\" -DCOOT_SYS_BUILD_TYPE=\"Linux-x86_64-ubuntu-22.04.4-gtk4\" "-DCOOT_BUILD_INFO_STRING=\"build-host: gtxr1.srv-local.mpi-dortmund.mpg.de on: Mi 20 Mär 1759.36 CET 2024\"" -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/opt/user_software/coot/bin-gtk4/include/python3.11 -DHAVE_GSL -fopenmp -g -O -Wall -Wno-unused -std=c++17 -MT c-interface-build-symmetry.lo -MD -MP -MF .deps/c-interface-build-symmetry.Tpo -c ../../coot/src/c-interface-build-symmetry.cc -fPIC -DPIC -o .libs/c-interface-build-symmetry.o libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" "-DPACKAGE_STRING=\"coot 1.x-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I../../coot/src -DUSE_PYTHON -mfpmath=sse -msse -msse2 -pthread -I/opt/user_software/coot/bin-gtk4/lib/libffi-3.2.1/include -I/usr/include/gtk-4.0 -I/usr/include/gio-unix-2.0 -I/usr/include/cairo -I/usr/include/pango-1.0 -I/usr/include/harfbuzz -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/harfbuzz -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/x86_64-linux-gnu -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/graphene-1.0 -I/usr/lib/x86_64-linux-gnu/graphene-1.0/include -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I../../coot -I/opt/user_software/coot/bin-gtk4/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/opt/user_software/coot/bin-gtk4/include -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -I/opt/user_software/coot/bin-gtk4/include -DHAVE_SSMLIB -I/opt/user_software/coot/bin-gtk4/include -DMMDB_HAS_LINK_DISTANCE -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DCLIPPER_HAS_TOP8000 -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR=\"/opt/user_software/coot/bin-gtk4/share/coot\" -DPACKAGE_LOCALE_DIR=\"/opt/user_software/coot/bin-gtk4/share/coot/locale\" -DPKGPYTHONDIR=\"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/coot\" -DPYTHONDIR=\"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages\" -DXDATADIR=\"/opt/user_software/coot/bin-gtk4/share\" -DCOOT_SYS_BUILD_TYPE=\"Linux-x86_64-ubuntu-22.04.4-gtk4\" "-DCOOT_BUILD_INFO_STRING=\"build-host: gtxr1.srv-local.mpi-dortmund.mpg.de on: Mi 20 Mär 1759.36 CET 2024\"" -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/opt/user_software/coot/bin-gtk4/include/python3.11 -DHAVE_GSL -fopenmp -g -O -Wall -Wno-unused -std=c++17 -MT c-interface-curlew.lo -MD -MP -MF .deps/c-interface-curlew.Tpo -c ../../coot/src/c-interface-curlew.cc -fPIC -DPIC -o .libs/c-interface-curlew.o In file included from ../../coot/MoleculesToTriangles/CXXClasses/RendererGLSL.hpp:31, from ../../coot/src/graphics-info.h:53, from ../../coot/src/c-interface-build-symmetry.cc:64: ../../coot/MoleculesToTriangles/CXXClasses/RendererGL.h:61: warning: ignoring ‘#pragma mark ’ [-Wunknown-pragmas] 61 | #pragma mark - | ../../coot/MoleculesToTriangles/CXXClasses/RendererGL.h:62: warning: ignoring ‘#pragma mark Debug’ [-Wunknown-pragmas] 62 | #pragma mark Debug routine | In file included from ../../coot/MoleculesToTriangles/CXXClasses/RendererGLSL.hpp:31, from ../../coot/src/graphics-info.h:53, from ../../coot/src/c-interface-build-gui.cc:59: ../../coot/MoleculesToTriangles/CXXClasses/RendererGL.h:61: warning: ignoring ‘#pragma mark ’ [-Wunknown-pragmas] 61 | #pragma mark - | ../../coot/MoleculesToTriangles/CXXClasses/RendererGL.h:62: warning: ignoring ‘#pragma mark Debug’ [-Wunknown-pragmas] 62 | #pragma mark Debug routine | In file included from ../../coot/MoleculesToTriangles/CXXClasses/RendererGLSL.hpp:31, from ../../coot/src/graphics-info.h:53, from ../../coot/src/c-interface-curlew.cc:45: ../../coot/MoleculesToTriangles/CXXClasses/RendererGL.h:61: warning: ignoring ‘#pragma mark ’ [-Wunknown-pragmas] 61 | #pragma mark - | ../../coot/MoleculesToTriangles/CXXClasses/RendererGL.h:62: warning: ignoring ‘#pragma mark Debug’ [-Wunknown-pragmas] 62 | #pragma mark Debug routine | mv -f .deps/init_coot_as_python_module.Tpo .deps/init_coot_as_python_module.Plo /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" -DPACKAGE_STRING=\"coot\ 1.x-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I../../coot/src -DUSE_PYTHON -mfpmath=sse -msse -msse2 -pthread -I/opt/user_software/coot/bin-gtk4/lib/libffi-3.2.1/include -I/usr/include/gtk-4.0 -I/usr/include/gio-unix-2.0 -I/usr/include/cairo -I/usr/include/pango-1.0 -I/usr/include/harfbuzz -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/harfbuzz -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/x86_64-linux-gnu -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/graphene-1.0 -I/usr/lib/x86_64-linux-gnu/graphene-1.0/include -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I../../coot -I/opt/user_software/coot/bin-gtk4/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/opt/user_software/coot/bin-gtk4/include -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -I/opt/user_software/coot/bin-gtk4/include -DHAVE_SSMLIB -I/opt/user_software/coot/bin-gtk4/include -DMMDB_HAS_LINK_DISTANCE -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DCLIPPER_HAS_TOP8000 -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR='"/opt/user_software/coot/bin-gtk4/share/coot"' -DPACKAGE_LOCALE_DIR='"/opt/user_software/coot/bin-gtk4/share/coot/locale"' -DPKGPYTHONDIR='"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/coot"' -DPYTHONDIR='"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages"' -DXDATADIR='"/opt/user_software/coot/bin-gtk4/share"' -DCOOT_SYS_BUILD_TYPE='"Linux-x86_64-ubuntu-22.04.4-gtk4"' -DCOOT_BUILD_INFO_STRING='"build-host: gtxr1.srv-local.mpi-dortmund.mpg.de on: Mi 20 Mär 1759.36 CET 2024"' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/opt/user_software/coot/bin-gtk4/include/python3.11 -DHAVE_GSL -fopenmp -g -O -Wall -Wno-unused -std=c++17 -MT c-interface-database.lo -MD -MP -MF .deps/c-interface-database.Tpo -c -o c-interface-database.lo ../../coot/src/c-interface-database.cc libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" "-DPACKAGE_STRING=\"coot 1.x-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I../../coot/src -DUSE_PYTHON -mfpmath=sse -msse -msse2 -pthread -I/opt/user_software/coot/bin-gtk4/lib/libffi-3.2.1/include -I/usr/include/gtk-4.0 -I/usr/include/gio-unix-2.0 -I/usr/include/cairo -I/usr/include/pango-1.0 -I/usr/include/harfbuzz -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/harfbuzz -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/x86_64-linux-gnu -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/graphene-1.0 -I/usr/lib/x86_64-linux-gnu/graphene-1.0/include -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I../../coot -I/opt/user_software/coot/bin-gtk4/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/opt/user_software/coot/bin-gtk4/include -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -I/opt/user_software/coot/bin-gtk4/include -DHAVE_SSMLIB -I/opt/user_software/coot/bin-gtk4/include -DMMDB_HAS_LINK_DISTANCE -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DCLIPPER_HAS_TOP8000 -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR=\"/opt/user_software/coot/bin-gtk4/share/coot\" -DPACKAGE_LOCALE_DIR=\"/opt/user_software/coot/bin-gtk4/share/coot/locale\" -DPKGPYTHONDIR=\"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/coot\" -DPYTHONDIR=\"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages\" -DXDATADIR=\"/opt/user_software/coot/bin-gtk4/share\" -DCOOT_SYS_BUILD_TYPE=\"Linux-x86_64-ubuntu-22.04.4-gtk4\" "-DCOOT_BUILD_INFO_STRING=\"build-host: gtxr1.srv-local.mpi-dortmund.mpg.de on: Mi 20 Mär 1759.36 CET 2024\"" -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/opt/user_software/coot/bin-gtk4/include/python3.11 -DHAVE_GSL -fopenmp -g -O -Wall -Wno-unused -std=c++17 -MT c-interface-database.lo -MD -MP -MF .deps/c-interface-database.Tpo -c ../../coot/src/c-interface-database.cc -fPIC -DPIC -o .libs/c-interface-database.o mv -f .deps/c-interface-database.Tpo .deps/c-interface-database.Plo /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" -DPACKAGE_STRING=\"coot\ 1.x-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I../../coot/src -DUSE_PYTHON -mfpmath=sse -msse -msse2 -pthread -I/opt/user_software/coot/bin-gtk4/lib/libffi-3.2.1/include -I/usr/include/gtk-4.0 -I/usr/include/gio-unix-2.0 -I/usr/include/cairo -I/usr/include/pango-1.0 -I/usr/include/harfbuzz -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/harfbuzz -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/x86_64-linux-gnu -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/graphene-1.0 -I/usr/lib/x86_64-linux-gnu/graphene-1.0/include -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I../../coot -I/opt/user_software/coot/bin-gtk4/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/opt/user_software/coot/bin-gtk4/include -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -I/opt/user_software/coot/bin-gtk4/include -DHAVE_SSMLIB -I/opt/user_software/coot/bin-gtk4/include -DMMDB_HAS_LINK_DISTANCE -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DCLIPPER_HAS_TOP8000 -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR='"/opt/user_software/coot/bin-gtk4/share/coot"' -DPACKAGE_LOCALE_DIR='"/opt/user_software/coot/bin-gtk4/share/coot/locale"' -DPKGPYTHONDIR='"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/coot"' -DPYTHONDIR='"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages"' -DXDATADIR='"/opt/user_software/coot/bin-gtk4/share"' -DCOOT_SYS_BUILD_TYPE='"Linux-x86_64-ubuntu-22.04.4-gtk4"' -DCOOT_BUILD_INFO_STRING='"build-host: gtxr1.srv-local.mpi-dortmund.mpg.de on: Mi 20 Mär 1759.36 CET 2024"' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/opt/user_software/coot/bin-gtk4/include/python3.11 -DHAVE_GSL -fopenmp -g -O -Wall -Wno-unused -std=c++17 -MT c-interface-gui.lo -MD -MP -MF .deps/c-interface-gui.Tpo -c -o c-interface-gui.lo ../../coot/src/c-interface-gui.cc libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" "-DPACKAGE_STRING=\"coot 1.x-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I../../coot/src -DUSE_PYTHON -mfpmath=sse -msse -msse2 -pthread -I/opt/user_software/coot/bin-gtk4/lib/libffi-3.2.1/include -I/usr/include/gtk-4.0 -I/usr/include/gio-unix-2.0 -I/usr/include/cairo -I/usr/include/pango-1.0 -I/usr/include/harfbuzz -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/harfbuzz -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/x86_64-linux-gnu -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/graphene-1.0 -I/usr/lib/x86_64-linux-gnu/graphene-1.0/include -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I../../coot -I/opt/user_software/coot/bin-gtk4/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/opt/user_software/coot/bin-gtk4/include -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -I/opt/user_software/coot/bin-gtk4/include -DHAVE_SSMLIB -I/opt/user_software/coot/bin-gtk4/include -DMMDB_HAS_LINK_DISTANCE -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DCLIPPER_HAS_TOP8000 -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR=\"/opt/user_software/coot/bin-gtk4/share/coot\" -DPACKAGE_LOCALE_DIR=\"/opt/user_software/coot/bin-gtk4/share/coot/locale\" -DPKGPYTHONDIR=\"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/coot\" -DPYTHONDIR=\"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages\" -DXDATADIR=\"/opt/user_software/coot/bin-gtk4/share\" -DCOOT_SYS_BUILD_TYPE=\"Linux-x86_64-ubuntu-22.04.4-gtk4\" "-DCOOT_BUILD_INFO_STRING=\"build-host: gtxr1.srv-local.mpi-dortmund.mpg.de on: Mi 20 Mär 1759.36 CET 2024\"" -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/opt/user_software/coot/bin-gtk4/include/python3.11 -DHAVE_GSL -fopenmp -g -O -Wall -Wno-unused -std=c++17 -MT c-interface-gui.lo -MD -MP -MF .deps/c-interface-gui.Tpo -c ../../coot/src/c-interface-gui.cc -fPIC -DPIC -o .libs/c-interface-gui.o In file included from ../../coot/MoleculesToTriangles/CXXClasses/RendererGLSL.hpp:31, from ../../coot/src/graphics-info.h:53, from ../../coot/src/c-interface-gui.cc:72: ../../coot/MoleculesToTriangles/CXXClasses/RendererGL.h:61: warning: ignoring ‘#pragma mark ’ [-Wunknown-pragmas] 61 | #pragma mark - | ../../coot/MoleculesToTriangles/CXXClasses/RendererGL.h:62: warning: ignoring ‘#pragma mark Debug’ [-Wunknown-pragmas] 62 | #pragma mark Debug routine | mv -f .deps/c-interface-build-main-chain.Tpo .deps/c-interface-build-main-chain.Plo /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" -DPACKAGE_STRING=\"coot\ 1.x-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I../../coot/src -DUSE_PYTHON -mfpmath=sse -msse -msse2 -pthread -I/opt/user_software/coot/bin-gtk4/lib/libffi-3.2.1/include -I/usr/include/gtk-4.0 -I/usr/include/gio-unix-2.0 -I/usr/include/cairo -I/usr/include/pango-1.0 -I/usr/include/harfbuzz -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/harfbuzz -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/x86_64-linux-gnu -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/graphene-1.0 -I/usr/lib/x86_64-linux-gnu/graphene-1.0/include -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I../../coot -I/opt/user_software/coot/bin-gtk4/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/opt/user_software/coot/bin-gtk4/include -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -I/opt/user_software/coot/bin-gtk4/include -DHAVE_SSMLIB -I/opt/user_software/coot/bin-gtk4/include -DMMDB_HAS_LINK_DISTANCE -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DCLIPPER_HAS_TOP8000 -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR='"/opt/user_software/coot/bin-gtk4/share/coot"' -DPACKAGE_LOCALE_DIR='"/opt/user_software/coot/bin-gtk4/share/coot/locale"' -DPKGPYTHONDIR='"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/coot"' -DPYTHONDIR='"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages"' -DXDATADIR='"/opt/user_software/coot/bin-gtk4/share"' -DCOOT_SYS_BUILD_TYPE='"Linux-x86_64-ubuntu-22.04.4-gtk4"' -DCOOT_BUILD_INFO_STRING='"build-host: gtxr1.srv-local.mpi-dortmund.mpg.de on: Mi 20 Mär 1759.36 CET 2024"' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/opt/user_software/coot/bin-gtk4/include/python3.11 -DHAVE_GSL -fopenmp -g -O -Wall -Wno-unused -std=c++17 -MT c-interface-gtk2.lo -MD -MP -MF .deps/c-interface-gtk2.Tpo -c -o c-interface-gtk2.lo ../../coot/src/c-interface-gtk2.cc mv -f .deps/c-interface-build-morph.Tpo .deps/c-interface-build-morph.Plo /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" -DPACKAGE_STRING=\"coot\ 1.x-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I../../coot/src -DUSE_PYTHON -mfpmath=sse -msse -msse2 -pthread -I/opt/user_software/coot/bin-gtk4/lib/libffi-3.2.1/include -I/usr/include/gtk-4.0 -I/usr/include/gio-unix-2.0 -I/usr/include/cairo -I/usr/include/pango-1.0 -I/usr/include/harfbuzz -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/harfbuzz -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/x86_64-linux-gnu -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/graphene-1.0 -I/usr/lib/x86_64-linux-gnu/graphene-1.0/include -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I../../coot -I/opt/user_software/coot/bin-gtk4/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/opt/user_software/coot/bin-gtk4/include -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -I/opt/user_software/coot/bin-gtk4/include -DHAVE_SSMLIB -I/opt/user_software/coot/bin-gtk4/include -DMMDB_HAS_LINK_DISTANCE -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DCLIPPER_HAS_TOP8000 -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR='"/opt/user_software/coot/bin-gtk4/share/coot"' -DPACKAGE_LOCALE_DIR='"/opt/user_software/coot/bin-gtk4/share/coot/locale"' -DPKGPYTHONDIR='"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/coot"' -DPYTHONDIR='"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages"' -DXDATADIR='"/opt/user_software/coot/bin-gtk4/share"' -DCOOT_SYS_BUILD_TYPE='"Linux-x86_64-ubuntu-22.04.4-gtk4"' -DCOOT_BUILD_INFO_STRING='"build-host: gtxr1.srv-local.mpi-dortmund.mpg.de on: Mi 20 Mär 1759.36 CET 2024"' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/opt/user_software/coot/bin-gtk4/include/python3.11 -DHAVE_GSL -fopenmp -g -O -Wall -Wno-unused -std=c++17 -MT c-interface-info.lo -MD -MP -MF .deps/c-interface-info.Tpo -c -o c-interface-info.lo ../../coot/src/c-interface-info.cc libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" "-DPACKAGE_STRING=\"coot 1.x-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I../../coot/src -DUSE_PYTHON -mfpmath=sse -msse -msse2 -pthread -I/opt/user_software/coot/bin-gtk4/lib/libffi-3.2.1/include -I/usr/include/gtk-4.0 -I/usr/include/gio-unix-2.0 -I/usr/include/cairo -I/usr/include/pango-1.0 -I/usr/include/harfbuzz -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/harfbuzz -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/x86_64-linux-gnu -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/graphene-1.0 -I/usr/lib/x86_64-linux-gnu/graphene-1.0/include -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I../../coot -I/opt/user_software/coot/bin-gtk4/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/opt/user_software/coot/bin-gtk4/include -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -I/opt/user_software/coot/bin-gtk4/include -DHAVE_SSMLIB -I/opt/user_software/coot/bin-gtk4/include -DMMDB_HAS_LINK_DISTANCE -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DCLIPPER_HAS_TOP8000 -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR=\"/opt/user_software/coot/bin-gtk4/share/coot\" -DPACKAGE_LOCALE_DIR=\"/opt/user_software/coot/bin-gtk4/share/coot/locale\" -DPKGPYTHONDIR=\"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/coot\" -DPYTHONDIR=\"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages\" -DXDATADIR=\"/opt/user_software/coot/bin-gtk4/share\" -DCOOT_SYS_BUILD_TYPE=\"Linux-x86_64-ubuntu-22.04.4-gtk4\" "-DCOOT_BUILD_INFO_STRING=\"build-host: gtxr1.srv-local.mpi-dortmund.mpg.de on: Mi 20 Mär 1759.36 CET 2024\"" -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/opt/user_software/coot/bin-gtk4/include/python3.11 -DHAVE_GSL -fopenmp -g -O -Wall -Wno-unused -std=c++17 -MT c-interface-gtk2.lo -MD -MP -MF .deps/c-interface-gtk2.Tpo -c ../../coot/src/c-interface-gtk2.cc -fPIC -DPIC -o .libs/c-interface-gtk2.o libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" "-DPACKAGE_STRING=\"coot 1.x-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I../../coot/src -DUSE_PYTHON -mfpmath=sse -msse -msse2 -pthread -I/opt/user_software/coot/bin-gtk4/lib/libffi-3.2.1/include -I/usr/include/gtk-4.0 -I/usr/include/gio-unix-2.0 -I/usr/include/cairo -I/usr/include/pango-1.0 -I/usr/include/harfbuzz -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/harfbuzz -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/x86_64-linux-gnu -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/graphene-1.0 -I/usr/lib/x86_64-linux-gnu/graphene-1.0/include -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I../../coot -I/opt/user_software/coot/bin-gtk4/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/opt/user_software/coot/bin-gtk4/include -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -I/opt/user_software/coot/bin-gtk4/include -DHAVE_SSMLIB -I/opt/user_software/coot/bin-gtk4/include -DMMDB_HAS_LINK_DISTANCE -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DCLIPPER_HAS_TOP8000 -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR=\"/opt/user_software/coot/bin-gtk4/share/coot\" -DPACKAGE_LOCALE_DIR=\"/opt/user_software/coot/bin-gtk4/share/coot/locale\" -DPKGPYTHONDIR=\"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/coot\" -DPYTHONDIR=\"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages\" -DXDATADIR=\"/opt/user_software/coot/bin-gtk4/share\" -DCOOT_SYS_BUILD_TYPE=\"Linux-x86_64-ubuntu-22.04.4-gtk4\" "-DCOOT_BUILD_INFO_STRING=\"build-host: gtxr1.srv-local.mpi-dortmund.mpg.de on: Mi 20 Mär 1759.36 CET 2024\"" -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/opt/user_software/coot/bin-gtk4/include/python3.11 -DHAVE_GSL -fopenmp -g -O -Wall -Wno-unused -std=c++17 -MT c-interface-info.lo -MD -MP -MF .deps/c-interface-info.Tpo -c ../../coot/src/c-interface-info.cc -fPIC -DPIC -o .libs/c-interface-info.o In file included from ../../coot/MoleculesToTriangles/CXXClasses/RendererGLSL.hpp:31, from ../../coot/src/graphics-info.h:53, from ../../coot/src/c-interface-gtk2.cc:59: ../../coot/MoleculesToTriangles/CXXClasses/RendererGL.h:61: warning: ignoring ‘#pragma mark ’ [-Wunknown-pragmas] 61 | #pragma mark - | ../../coot/MoleculesToTriangles/CXXClasses/RendererGL.h:62: warning: ignoring ‘#pragma mark Debug’ [-Wunknown-pragmas] 62 | #pragma mark Debug routine | In file included from ../../coot/MoleculesToTriangles/CXXClasses/RendererGLSL.hpp:31, from ../../coot/src/graphics-info.h:53, from ../../coot/src/c-interface-info.cc:72: ../../coot/MoleculesToTriangles/CXXClasses/RendererGL.h:61: warning: ignoring ‘#pragma mark ’ [-Wunknown-pragmas] 61 | #pragma mark - | ../../coot/MoleculesToTriangles/CXXClasses/RendererGL.h:62: warning: ignoring ‘#pragma mark Debug’ [-Wunknown-pragmas] 62 | #pragma mark Debug routine | mv -f .deps/c-interface-build-side-chain.Tpo .deps/c-interface-build-side-chain.Plo /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" -DPACKAGE_STRING=\"coot\ 1.x-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I../../coot/src -DUSE_PYTHON -mfpmath=sse -msse -msse2 -pthread -I/opt/user_software/coot/bin-gtk4/lib/libffi-3.2.1/include -I/usr/include/gtk-4.0 -I/usr/include/gio-unix-2.0 -I/usr/include/cairo -I/usr/include/pango-1.0 -I/usr/include/harfbuzz -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/harfbuzz -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/x86_64-linux-gnu -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/graphene-1.0 -I/usr/lib/x86_64-linux-gnu/graphene-1.0/include -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I../../coot -I/opt/user_software/coot/bin-gtk4/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/opt/user_software/coot/bin-gtk4/include -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -I/opt/user_software/coot/bin-gtk4/include -DHAVE_SSMLIB -I/opt/user_software/coot/bin-gtk4/include -DMMDB_HAS_LINK_DISTANCE -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DCLIPPER_HAS_TOP8000 -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR='"/opt/user_software/coot/bin-gtk4/share/coot"' -DPACKAGE_LOCALE_DIR='"/opt/user_software/coot/bin-gtk4/share/coot/locale"' -DPKGPYTHONDIR='"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/coot"' -DPYTHONDIR='"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages"' -DXDATADIR='"/opt/user_software/coot/bin-gtk4/share"' -DCOOT_SYS_BUILD_TYPE='"Linux-x86_64-ubuntu-22.04.4-gtk4"' -DCOOT_BUILD_INFO_STRING='"build-host: gtxr1.srv-local.mpi-dortmund.mpg.de on: Mi 20 Mär 1759.36 CET 2024"' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/opt/user_software/coot/bin-gtk4/include/python3.11 -DHAVE_GSL -fopenmp -g -O -Wall -Wno-unused -std=c++17 -MT c-interface-kk.lo -MD -MP -MF .deps/c-interface-kk.Tpo -c -o c-interface-kk.lo ../../coot/src/c-interface-kk.cc libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" "-DPACKAGE_STRING=\"coot 1.x-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I../../coot/src -DUSE_PYTHON -mfpmath=sse -msse -msse2 -pthread -I/opt/user_software/coot/bin-gtk4/lib/libffi-3.2.1/include -I/usr/include/gtk-4.0 -I/usr/include/gio-unix-2.0 -I/usr/include/cairo -I/usr/include/pango-1.0 -I/usr/include/harfbuzz -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/harfbuzz -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/x86_64-linux-gnu -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/graphene-1.0 -I/usr/lib/x86_64-linux-gnu/graphene-1.0/include -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I../../coot -I/opt/user_software/coot/bin-gtk4/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/opt/user_software/coot/bin-gtk4/include -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -I/opt/user_software/coot/bin-gtk4/include -DHAVE_SSMLIB -I/opt/user_software/coot/bin-gtk4/include -DMMDB_HAS_LINK_DISTANCE -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DCLIPPER_HAS_TOP8000 -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR=\"/opt/user_software/coot/bin-gtk4/share/coot\" -DPACKAGE_LOCALE_DIR=\"/opt/user_software/coot/bin-gtk4/share/coot/locale\" -DPKGPYTHONDIR=\"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/coot\" -DPYTHONDIR=\"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages\" -DXDATADIR=\"/opt/user_software/coot/bin-gtk4/share\" -DCOOT_SYS_BUILD_TYPE=\"Linux-x86_64-ubuntu-22.04.4-gtk4\" "-DCOOT_BUILD_INFO_STRING=\"build-host: gtxr1.srv-local.mpi-dortmund.mpg.de on: Mi 20 Mär 1759.36 CET 2024\"" -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/opt/user_software/coot/bin-gtk4/include/python3.11 -DHAVE_GSL -fopenmp -g -O -Wall -Wno-unused -std=c++17 -MT c-interface-kk.lo -MD -MP -MF .deps/c-interface-kk.Tpo -c ../../coot/src/c-interface-kk.cc -fPIC -DPIC -o .libs/c-interface-kk.o In file included from ../../coot/MoleculesToTriangles/CXXClasses/RendererGLSL.hpp:31, from ../../coot/src/graphics-info.h:53, from ../../coot/src/c-interface-kk.cc:34: ../../coot/MoleculesToTriangles/CXXClasses/RendererGL.h:61: warning: ignoring ‘#pragma mark ’ [-Wunknown-pragmas] 61 | #pragma mark - | ../../coot/MoleculesToTriangles/CXXClasses/RendererGL.h:62: warning: ignoring ‘#pragma mark Debug’ [-Wunknown-pragmas] 62 | #pragma mark Debug routine | mv -f .deps/c-interface-build.Tpo .deps/c-interface-build.Plo /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" -DPACKAGE_STRING=\"coot\ 1.x-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I../../coot/src -DUSE_PYTHON -mfpmath=sse -msse -msse2 -pthread -I/opt/user_software/coot/bin-gtk4/lib/libffi-3.2.1/include -I/usr/include/gtk-4.0 -I/usr/include/gio-unix-2.0 -I/usr/include/cairo -I/usr/include/pango-1.0 -I/usr/include/harfbuzz -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/harfbuzz -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/x86_64-linux-gnu -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/graphene-1.0 -I/usr/lib/x86_64-linux-gnu/graphene-1.0/include -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I../../coot -I/opt/user_software/coot/bin-gtk4/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/opt/user_software/coot/bin-gtk4/include -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -I/opt/user_software/coot/bin-gtk4/include -DHAVE_SSMLIB -I/opt/user_software/coot/bin-gtk4/include -DMMDB_HAS_LINK_DISTANCE -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DCLIPPER_HAS_TOP8000 -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR='"/opt/user_software/coot/bin-gtk4/share/coot"' -DPACKAGE_LOCALE_DIR='"/opt/user_software/coot/bin-gtk4/share/coot/locale"' -DPKGPYTHONDIR='"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/coot"' -DPYTHONDIR='"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages"' -DXDATADIR='"/opt/user_software/coot/bin-gtk4/share"' -DCOOT_SYS_BUILD_TYPE='"Linux-x86_64-ubuntu-22.04.4-gtk4"' -DCOOT_BUILD_INFO_STRING='"build-host: gtxr1.srv-local.mpi-dortmund.mpg.de on: Mi 20 Mär 1759.36 CET 2024"' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/opt/user_software/coot/bin-gtk4/include/python3.11 -DHAVE_GSL -fopenmp -g -O -Wall -Wno-unused -std=c++17 -MT c-interface-image.lo -MD -MP -MF .deps/c-interface-image.Tpo -c -o c-interface-image.lo ../../coot/src/c-interface-image.cc libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" "-DPACKAGE_STRING=\"coot 1.x-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I../../coot/src -DUSE_PYTHON -mfpmath=sse -msse -msse2 -pthread -I/opt/user_software/coot/bin-gtk4/lib/libffi-3.2.1/include -I/usr/include/gtk-4.0 -I/usr/include/gio-unix-2.0 -I/usr/include/cairo -I/usr/include/pango-1.0 -I/usr/include/harfbuzz -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/harfbuzz -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/x86_64-linux-gnu -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/graphene-1.0 -I/usr/lib/x86_64-linux-gnu/graphene-1.0/include -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I../../coot -I/opt/user_software/coot/bin-gtk4/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/opt/user_software/coot/bin-gtk4/include -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -I/opt/user_software/coot/bin-gtk4/include -DHAVE_SSMLIB -I/opt/user_software/coot/bin-gtk4/include -DMMDB_HAS_LINK_DISTANCE -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DCLIPPER_HAS_TOP8000 -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR=\"/opt/user_software/coot/bin-gtk4/share/coot\" -DPACKAGE_LOCALE_DIR=\"/opt/user_software/coot/bin-gtk4/share/coot/locale\" -DPKGPYTHONDIR=\"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/coot\" -DPYTHONDIR=\"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages\" -DXDATADIR=\"/opt/user_software/coot/bin-gtk4/share\" -DCOOT_SYS_BUILD_TYPE=\"Linux-x86_64-ubuntu-22.04.4-gtk4\" "-DCOOT_BUILD_INFO_STRING=\"build-host: gtxr1.srv-local.mpi-dortmund.mpg.de on: Mi 20 Mär 1759.36 CET 2024\"" -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/opt/user_software/coot/bin-gtk4/include/python3.11 -DHAVE_GSL -fopenmp -g -O -Wall -Wno-unused -std=c++17 -MT c-interface-image.lo -MD -MP -MF .deps/c-interface-image.Tpo -c ../../coot/src/c-interface-image.cc -fPIC -DPIC -o .libs/c-interface-image.o mv -f .deps/c-interface-build-symmetry.Tpo .deps/c-interface-build-symmetry.Plo /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" -DPACKAGE_STRING=\"coot\ 1.x-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I../../coot/src -DUSE_PYTHON -mfpmath=sse -msse -msse2 -pthread -I/opt/user_software/coot/bin-gtk4/lib/libffi-3.2.1/include -I/usr/include/gtk-4.0 -I/usr/include/gio-unix-2.0 -I/usr/include/cairo -I/usr/include/pango-1.0 -I/usr/include/harfbuzz -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/harfbuzz -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/x86_64-linux-gnu -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/graphene-1.0 -I/usr/lib/x86_64-linux-gnu/graphene-1.0/include -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I../../coot -I/opt/user_software/coot/bin-gtk4/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/opt/user_software/coot/bin-gtk4/include -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -I/opt/user_software/coot/bin-gtk4/include -DHAVE_SSMLIB -I/opt/user_software/coot/bin-gtk4/include -DMMDB_HAS_LINK_DISTANCE -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DCLIPPER_HAS_TOP8000 -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR='"/opt/user_software/coot/bin-gtk4/share/coot"' -DPACKAGE_LOCALE_DIR='"/opt/user_software/coot/bin-gtk4/share/coot/locale"' -DPKGPYTHONDIR='"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/coot"' -DPYTHONDIR='"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages"' -DXDATADIR='"/opt/user_software/coot/bin-gtk4/share"' -DCOOT_SYS_BUILD_TYPE='"Linux-x86_64-ubuntu-22.04.4-gtk4"' -DCOOT_BUILD_INFO_STRING='"build-host: gtxr1.srv-local.mpi-dortmund.mpg.de on: Mi 20 Mär 1759.36 CET 2024"' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/opt/user_software/coot/bin-gtk4/include/python3.11 -DHAVE_GSL -fopenmp -g -O -Wall -Wno-unused -std=c++17 -MT c-interface-ligands-gui.lo -MD -MP -MF .deps/c-interface-ligands-gui.Tpo -c -o c-interface-ligands-gui.lo ../../coot/src/c-interface-ligands-gui.cc libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" "-DPACKAGE_STRING=\"coot 1.x-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I../../coot/src -DUSE_PYTHON -mfpmath=sse -msse -msse2 -pthread -I/opt/user_software/coot/bin-gtk4/lib/libffi-3.2.1/include -I/usr/include/gtk-4.0 -I/usr/include/gio-unix-2.0 -I/usr/include/cairo -I/usr/include/pango-1.0 -I/usr/include/harfbuzz -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/harfbuzz -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/x86_64-linux-gnu -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/graphene-1.0 -I/usr/lib/x86_64-linux-gnu/graphene-1.0/include -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I../../coot -I/opt/user_software/coot/bin-gtk4/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/opt/user_software/coot/bin-gtk4/include -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -I/opt/user_software/coot/bin-gtk4/include -DHAVE_SSMLIB -I/opt/user_software/coot/bin-gtk4/include -DMMDB_HAS_LINK_DISTANCE -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DCLIPPER_HAS_TOP8000 -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR=\"/opt/user_software/coot/bin-gtk4/share/coot\" -DPACKAGE_LOCALE_DIR=\"/opt/user_software/coot/bin-gtk4/share/coot/locale\" -DPKGPYTHONDIR=\"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/coot\" -DPYTHONDIR=\"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages\" -DXDATADIR=\"/opt/user_software/coot/bin-gtk4/share\" -DCOOT_SYS_BUILD_TYPE=\"Linux-x86_64-ubuntu-22.04.4-gtk4\" "-DCOOT_BUILD_INFO_STRING=\"build-host: gtxr1.srv-local.mpi-dortmund.mpg.de on: Mi 20 Mär 1759.36 CET 2024\"" -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/opt/user_software/coot/bin-gtk4/include/python3.11 -DHAVE_GSL -fopenmp -g -O -Wall -Wno-unused -std=c++17 -MT c-interface-ligands-gui.lo -MD -MP -MF .deps/c-interface-ligands-gui.Tpo -c ../../coot/src/c-interface-ligands-gui.cc -fPIC -DPIC -o .libs/c-interface-ligands-gui.o mv -f .deps/c-interface-build-gui.Tpo .deps/c-interface-build-gui.Plo /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" -DPACKAGE_STRING=\"coot\ 1.x-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I../../coot/src -DUSE_PYTHON -mfpmath=sse -msse -msse2 -pthread -I/opt/user_software/coot/bin-gtk4/lib/libffi-3.2.1/include -I/usr/include/gtk-4.0 -I/usr/include/gio-unix-2.0 -I/usr/include/cairo -I/usr/include/pango-1.0 -I/usr/include/harfbuzz -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/harfbuzz -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/x86_64-linux-gnu -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/graphene-1.0 -I/usr/lib/x86_64-linux-gnu/graphene-1.0/include -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I../../coot -I/opt/user_software/coot/bin-gtk4/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/opt/user_software/coot/bin-gtk4/include -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -I/opt/user_software/coot/bin-gtk4/include -DHAVE_SSMLIB -I/opt/user_software/coot/bin-gtk4/include -DMMDB_HAS_LINK_DISTANCE -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DCLIPPER_HAS_TOP8000 -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR='"/opt/user_software/coot/bin-gtk4/share/coot"' -DPACKAGE_LOCALE_DIR='"/opt/user_software/coot/bin-gtk4/share/coot/locale"' -DPKGPYTHONDIR='"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/coot"' -DPYTHONDIR='"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages"' -DXDATADIR='"/opt/user_software/coot/bin-gtk4/share"' -DCOOT_SYS_BUILD_TYPE='"Linux-x86_64-ubuntu-22.04.4-gtk4"' -DCOOT_BUILD_INFO_STRING='"build-host: gtxr1.srv-local.mpi-dortmund.mpg.de on: Mi 20 Mär 1759.36 CET 2024"' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/opt/user_software/coot/bin-gtk4/include/python3.11 -DHAVE_GSL -fopenmp -g -O -Wall -Wno-unused -std=c++17 -MT c-interface-ligands.lo -MD -MP -MF .deps/c-interface-ligands.Tpo -c -o c-interface-ligands.lo ../../coot/src/c-interface-ligands.cc In file included from ../../coot/MoleculesToTriangles/CXXClasses/RendererGLSL.hpp:31, from ../../coot/src/graphics-info.h:53, from ../../coot/src/c-interface-image.cc:22: ../../coot/MoleculesToTriangles/CXXClasses/RendererGL.h:61: warning: ignoring ‘#pragma mark ’ [-Wunknown-pragmas] 61 | #pragma mark - | ../../coot/MoleculesToTriangles/CXXClasses/RendererGL.h:62: warning: ignoring ‘#pragma mark Debug’ [-Wunknown-pragmas] 62 | #pragma mark Debug routine | In file included from ../../coot/MoleculesToTriangles/CXXClasses/RendererGLSL.hpp:31, from ../../coot/src/graphics-info.h:53, from ../../coot/src/c-interface-ligands-gui.cc:54: ../../coot/MoleculesToTriangles/CXXClasses/RendererGL.h:61: warning: ignoring ‘#pragma mark ’ [-Wunknown-pragmas] 61 | #pragma mark - | ../../coot/MoleculesToTriangles/CXXClasses/RendererGL.h:62: warning: ignoring ‘#pragma mark Debug’ [-Wunknown-pragmas] 62 | #pragma mark Debug routine | libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" "-DPACKAGE_STRING=\"coot 1.x-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I../../coot/src -DUSE_PYTHON -mfpmath=sse -msse -msse2 -pthread -I/opt/user_software/coot/bin-gtk4/lib/libffi-3.2.1/include -I/usr/include/gtk-4.0 -I/usr/include/gio-unix-2.0 -I/usr/include/cairo -I/usr/include/pango-1.0 -I/usr/include/harfbuzz -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/harfbuzz -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/x86_64-linux-gnu -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/graphene-1.0 -I/usr/lib/x86_64-linux-gnu/graphene-1.0/include -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I../../coot -I/opt/user_software/coot/bin-gtk4/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/opt/user_software/coot/bin-gtk4/include -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -I/opt/user_software/coot/bin-gtk4/include -DHAVE_SSMLIB -I/opt/user_software/coot/bin-gtk4/include -DMMDB_HAS_LINK_DISTANCE -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DCLIPPER_HAS_TOP8000 -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR=\"/opt/user_software/coot/bin-gtk4/share/coot\" -DPACKAGE_LOCALE_DIR=\"/opt/user_software/coot/bin-gtk4/share/coot/locale\" -DPKGPYTHONDIR=\"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/coot\" -DPYTHONDIR=\"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages\" -DXDATADIR=\"/opt/user_software/coot/bin-gtk4/share\" -DCOOT_SYS_BUILD_TYPE=\"Linux-x86_64-ubuntu-22.04.4-gtk4\" "-DCOOT_BUILD_INFO_STRING=\"build-host: gtxr1.srv-local.mpi-dortmund.mpg.de on: Mi 20 Mär 1759.36 CET 2024\"" -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/opt/user_software/coot/bin-gtk4/include/python3.11 -DHAVE_GSL -fopenmp -g -O -Wall -Wno-unused -std=c++17 -MT c-interface-ligands.lo -MD -MP -MF .deps/c-interface-ligands.Tpo -c ../../coot/src/c-interface-ligands.cc -fPIC -DPIC -o .libs/c-interface-ligands.o In file included from ../../coot/MoleculesToTriangles/CXXClasses/RendererGLSL.hpp:31, from ../../coot/src/graphics-info.h:53, from ../../coot/src/c-interface-ligands.cc:51: ../../coot/MoleculesToTriangles/CXXClasses/RendererGL.h:61: warning: ignoring ‘#pragma mark ’ [-Wunknown-pragmas] 61 | #pragma mark - | ../../coot/MoleculesToTriangles/CXXClasses/RendererGL.h:62: warning: ignoring ‘#pragma mark Debug’ [-Wunknown-pragmas] 62 | #pragma mark Debug routine | mv -f .deps/c-interface-gtk2.Tpo .deps/c-interface-gtk2.Plo /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" -DPACKAGE_STRING=\"coot\ 1.x-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I../../coot/src -DUSE_PYTHON -mfpmath=sse -msse -msse2 -pthread -I/opt/user_software/coot/bin-gtk4/lib/libffi-3.2.1/include -I/usr/include/gtk-4.0 -I/usr/include/gio-unix-2.0 -I/usr/include/cairo -I/usr/include/pango-1.0 -I/usr/include/harfbuzz -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/harfbuzz -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/x86_64-linux-gnu -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/graphene-1.0 -I/usr/lib/x86_64-linux-gnu/graphene-1.0/include -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I../../coot -I/opt/user_software/coot/bin-gtk4/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/opt/user_software/coot/bin-gtk4/include -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -I/opt/user_software/coot/bin-gtk4/include -DHAVE_SSMLIB -I/opt/user_software/coot/bin-gtk4/include -DMMDB_HAS_LINK_DISTANCE -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DCLIPPER_HAS_TOP8000 -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR='"/opt/user_software/coot/bin-gtk4/share/coot"' -DPACKAGE_LOCALE_DIR='"/opt/user_software/coot/bin-gtk4/share/coot/locale"' -DPKGPYTHONDIR='"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/coot"' -DPYTHONDIR='"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages"' -DXDATADIR='"/opt/user_software/coot/bin-gtk4/share"' -DCOOT_SYS_BUILD_TYPE='"Linux-x86_64-ubuntu-22.04.4-gtk4"' -DCOOT_BUILD_INFO_STRING='"build-host: gtxr1.srv-local.mpi-dortmund.mpg.de on: Mi 20 Mär 1759.36 CET 2024"' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/opt/user_software/coot/bin-gtk4/include/python3.11 -DHAVE_GSL -fopenmp -g -O -Wall -Wno-unused -std=c++17 -MT c-interface-maps.lo -MD -MP -MF .deps/c-interface-maps.Tpo -c -o c-interface-maps.lo ../../coot/src/c-interface-maps.cc libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" "-DPACKAGE_STRING=\"coot 1.x-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I../../coot/src -DUSE_PYTHON -mfpmath=sse -msse -msse2 -pthread -I/opt/user_software/coot/bin-gtk4/lib/libffi-3.2.1/include -I/usr/include/gtk-4.0 -I/usr/include/gio-unix-2.0 -I/usr/include/cairo -I/usr/include/pango-1.0 -I/usr/include/harfbuzz -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/harfbuzz -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/x86_64-linux-gnu -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/graphene-1.0 -I/usr/lib/x86_64-linux-gnu/graphene-1.0/include -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I../../coot -I/opt/user_software/coot/bin-gtk4/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/opt/user_software/coot/bin-gtk4/include -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -I/opt/user_software/coot/bin-gtk4/include -DHAVE_SSMLIB -I/opt/user_software/coot/bin-gtk4/include -DMMDB_HAS_LINK_DISTANCE -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DCLIPPER_HAS_TOP8000 -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR=\"/opt/user_software/coot/bin-gtk4/share/coot\" -DPACKAGE_LOCALE_DIR=\"/opt/user_software/coot/bin-gtk4/share/coot/locale\" -DPKGPYTHONDIR=\"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/coot\" -DPYTHONDIR=\"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages\" -DXDATADIR=\"/opt/user_software/coot/bin-gtk4/share\" -DCOOT_SYS_BUILD_TYPE=\"Linux-x86_64-ubuntu-22.04.4-gtk4\" "-DCOOT_BUILD_INFO_STRING=\"build-host: gtxr1.srv-local.mpi-dortmund.mpg.de on: Mi 20 Mär 1759.36 CET 2024\"" -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/opt/user_software/coot/bin-gtk4/include/python3.11 -DHAVE_GSL -fopenmp -g -O -Wall -Wno-unused -std=c++17 -MT c-interface-maps.lo -MD -MP -MF .deps/c-interface-maps.Tpo -c ../../coot/src/c-interface-maps.cc -fPIC -DPIC -o .libs/c-interface-maps.o In file included from ../../coot/MoleculesToTriangles/CXXClasses/RendererGLSL.hpp:31, from ../../coot/src/graphics-info.h:53, from ../../coot/src/c-interface-maps.cc:49: ../../coot/MoleculesToTriangles/CXXClasses/RendererGL.h:61: warning: ignoring ‘#pragma mark ’ [-Wunknown-pragmas] 61 | #pragma mark - | ../../coot/MoleculesToTriangles/CXXClasses/RendererGL.h:62: warning: ignoring ‘#pragma mark Debug’ [-Wunknown-pragmas] 62 | #pragma mark Debug routine | mv -f .deps/c-interface-kk.Tpo .deps/c-interface-kk.Plo /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" -DPACKAGE_STRING=\"coot\ 1.x-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I../../coot/src -DUSE_PYTHON -mfpmath=sse -msse -msse2 -pthread -I/opt/user_software/coot/bin-gtk4/lib/libffi-3.2.1/include -I/usr/include/gtk-4.0 -I/usr/include/gio-unix-2.0 -I/usr/include/cairo -I/usr/include/pango-1.0 -I/usr/include/harfbuzz -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/harfbuzz -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/x86_64-linux-gnu -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/graphene-1.0 -I/usr/lib/x86_64-linux-gnu/graphene-1.0/include -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I../../coot -I/opt/user_software/coot/bin-gtk4/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/opt/user_software/coot/bin-gtk4/include -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -I/opt/user_software/coot/bin-gtk4/include -DHAVE_SSMLIB -I/opt/user_software/coot/bin-gtk4/include -DMMDB_HAS_LINK_DISTANCE -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DCLIPPER_HAS_TOP8000 -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR='"/opt/user_software/coot/bin-gtk4/share/coot"' -DPACKAGE_LOCALE_DIR='"/opt/user_software/coot/bin-gtk4/share/coot/locale"' -DPKGPYTHONDIR='"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/coot"' -DPYTHONDIR='"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages"' -DXDATADIR='"/opt/user_software/coot/bin-gtk4/share"' -DCOOT_SYS_BUILD_TYPE='"Linux-x86_64-ubuntu-22.04.4-gtk4"' -DCOOT_BUILD_INFO_STRING='"build-host: gtxr1.srv-local.mpi-dortmund.mpg.de on: Mi 20 Mär 1759.36 CET 2024"' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/opt/user_software/coot/bin-gtk4/include/python3.11 -DHAVE_GSL -fopenmp -g -O -Wall -Wno-unused -std=c++17 -MT c-interface-mmdb.lo -MD -MP -MF .deps/c-interface-mmdb.Tpo -c -o c-interface-mmdb.lo ../../coot/src/c-interface-mmdb.cc libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" "-DPACKAGE_STRING=\"coot 1.x-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I../../coot/src -DUSE_PYTHON -mfpmath=sse -msse -msse2 -pthread -I/opt/user_software/coot/bin-gtk4/lib/libffi-3.2.1/include -I/usr/include/gtk-4.0 -I/usr/include/gio-unix-2.0 -I/usr/include/cairo -I/usr/include/pango-1.0 -I/usr/include/harfbuzz -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/harfbuzz -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/x86_64-linux-gnu -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/graphene-1.0 -I/usr/lib/x86_64-linux-gnu/graphene-1.0/include -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I../../coot -I/opt/user_software/coot/bin-gtk4/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/opt/user_software/coot/bin-gtk4/include -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -I/opt/user_software/coot/bin-gtk4/include -DHAVE_SSMLIB -I/opt/user_software/coot/bin-gtk4/include -DMMDB_HAS_LINK_DISTANCE -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DCLIPPER_HAS_TOP8000 -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR=\"/opt/user_software/coot/bin-gtk4/share/coot\" -DPACKAGE_LOCALE_DIR=\"/opt/user_software/coot/bin-gtk4/share/coot/locale\" -DPKGPYTHONDIR=\"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/coot\" -DPYTHONDIR=\"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages\" -DXDATADIR=\"/opt/user_software/coot/bin-gtk4/share\" -DCOOT_SYS_BUILD_TYPE=\"Linux-x86_64-ubuntu-22.04.4-gtk4\" "-DCOOT_BUILD_INFO_STRING=\"build-host: gtxr1.srv-local.mpi-dortmund.mpg.de on: Mi 20 Mär 1759.36 CET 2024\"" -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/opt/user_software/coot/bin-gtk4/include/python3.11 -DHAVE_GSL -fopenmp -g -O -Wall -Wno-unused -std=c++17 -MT c-interface-mmdb.lo -MD -MP -MF .deps/c-interface-mmdb.Tpo -c ../../coot/src/c-interface-mmdb.cc -fPIC -DPIC -o .libs/c-interface-mmdb.o In file included from ../../coot/MoleculesToTriangles/CXXClasses/RendererGLSL.hpp:31, from ../../coot/src/graphics-info.h:53, from ../../coot/src/c-interface-mmdb.cc:40: ../../coot/MoleculesToTriangles/CXXClasses/RendererGL.h:61: warning: ignoring ‘#pragma mark ’ [-Wunknown-pragmas] 61 | #pragma mark - | ../../coot/MoleculesToTriangles/CXXClasses/RendererGL.h:62: warning: ignoring ‘#pragma mark Debug’ [-Wunknown-pragmas] 62 | #pragma mark Debug routine | mv -f .deps/c-interface-curlew.Tpo .deps/c-interface-curlew.Plo /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" -DPACKAGE_STRING=\"coot\ 1.x-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I../../coot/src -DUSE_PYTHON -mfpmath=sse -msse -msse2 -pthread -I/opt/user_software/coot/bin-gtk4/lib/libffi-3.2.1/include -I/usr/include/gtk-4.0 -I/usr/include/gio-unix-2.0 -I/usr/include/cairo -I/usr/include/pango-1.0 -I/usr/include/harfbuzz -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/harfbuzz -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/x86_64-linux-gnu -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/graphene-1.0 -I/usr/lib/x86_64-linux-gnu/graphene-1.0/include -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I../../coot -I/opt/user_software/coot/bin-gtk4/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/opt/user_software/coot/bin-gtk4/include -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -I/opt/user_software/coot/bin-gtk4/include -DHAVE_SSMLIB -I/opt/user_software/coot/bin-gtk4/include -DMMDB_HAS_LINK_DISTANCE -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DCLIPPER_HAS_TOP8000 -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR='"/opt/user_software/coot/bin-gtk4/share/coot"' -DPACKAGE_LOCALE_DIR='"/opt/user_software/coot/bin-gtk4/share/coot/locale"' -DPKGPYTHONDIR='"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/coot"' -DPYTHONDIR='"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages"' -DXDATADIR='"/opt/user_software/coot/bin-gtk4/share"' -DCOOT_SYS_BUILD_TYPE='"Linux-x86_64-ubuntu-22.04.4-gtk4"' -DCOOT_BUILD_INFO_STRING='"build-host: gtxr1.srv-local.mpi-dortmund.mpg.de on: Mi 20 Mär 1759.36 CET 2024"' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/opt/user_software/coot/bin-gtk4/include/python3.11 -DHAVE_GSL -fopenmp -g -O -Wall -Wno-unused -std=c++17 -MT c-interface-mogul.lo -MD -MP -MF .deps/c-interface-mogul.Tpo -c -o c-interface-mogul.lo ../../coot/src/c-interface-mogul.cc libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" "-DPACKAGE_STRING=\"coot 1.x-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I../../coot/src -DUSE_PYTHON -mfpmath=sse -msse -msse2 -pthread -I/opt/user_software/coot/bin-gtk4/lib/libffi-3.2.1/include -I/usr/include/gtk-4.0 -I/usr/include/gio-unix-2.0 -I/usr/include/cairo -I/usr/include/pango-1.0 -I/usr/include/harfbuzz -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/harfbuzz -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/x86_64-linux-gnu -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/graphene-1.0 -I/usr/lib/x86_64-linux-gnu/graphene-1.0/include -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I../../coot -I/opt/user_software/coot/bin-gtk4/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/opt/user_software/coot/bin-gtk4/include -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -I/opt/user_software/coot/bin-gtk4/include -DHAVE_SSMLIB -I/opt/user_software/coot/bin-gtk4/include -DMMDB_HAS_LINK_DISTANCE -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DCLIPPER_HAS_TOP8000 -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR=\"/opt/user_software/coot/bin-gtk4/share/coot\" -DPACKAGE_LOCALE_DIR=\"/opt/user_software/coot/bin-gtk4/share/coot/locale\" -DPKGPYTHONDIR=\"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/coot\" -DPYTHONDIR=\"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages\" -DXDATADIR=\"/opt/user_software/coot/bin-gtk4/share\" -DCOOT_SYS_BUILD_TYPE=\"Linux-x86_64-ubuntu-22.04.4-gtk4\" "-DCOOT_BUILD_INFO_STRING=\"build-host: gtxr1.srv-local.mpi-dortmund.mpg.de on: Mi 20 Mär 1759.36 CET 2024\"" -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/opt/user_software/coot/bin-gtk4/include/python3.11 -DHAVE_GSL -fopenmp -g -O -Wall -Wno-unused -std=c++17 -MT c-interface-mogul.lo -MD -MP -MF .deps/c-interface-mogul.Tpo -c ../../coot/src/c-interface-mogul.cc -fPIC -DPIC -o .libs/c-interface-mogul.o In file included from ../../coot/MoleculesToTriangles/CXXClasses/RendererGLSL.hpp:31, from ../../coot/src/graphics-info.h:53, from ../../coot/src/c-interface-mogul.cc:33: ../../coot/MoleculesToTriangles/CXXClasses/RendererGL.h:61: warning: ignoring ‘#pragma mark ’ [-Wunknown-pragmas] 61 | #pragma mark - | ../../coot/MoleculesToTriangles/CXXClasses/RendererGL.h:62: warning: ignoring ‘#pragma mark Debug’ [-Wunknown-pragmas] 62 | #pragma mark Debug routine | mv -f .deps/c-interface-info.Tpo .deps/c-interface-info.Plo /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" -DPACKAGE_STRING=\"coot\ 1.x-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I../../coot/src -DUSE_PYTHON -mfpmath=sse -msse -msse2 -pthread -I/opt/user_software/coot/bin-gtk4/lib/libffi-3.2.1/include -I/usr/include/gtk-4.0 -I/usr/include/gio-unix-2.0 -I/usr/include/cairo -I/usr/include/pango-1.0 -I/usr/include/harfbuzz -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/harfbuzz -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/x86_64-linux-gnu -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/graphene-1.0 -I/usr/lib/x86_64-linux-gnu/graphene-1.0/include -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I../../coot -I/opt/user_software/coot/bin-gtk4/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/opt/user_software/coot/bin-gtk4/include -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -I/opt/user_software/coot/bin-gtk4/include -DHAVE_SSMLIB -I/opt/user_software/coot/bin-gtk4/include -DMMDB_HAS_LINK_DISTANCE -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DCLIPPER_HAS_TOP8000 -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR='"/opt/user_software/coot/bin-gtk4/share/coot"' -DPACKAGE_LOCALE_DIR='"/opt/user_software/coot/bin-gtk4/share/coot/locale"' -DPKGPYTHONDIR='"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/coot"' -DPYTHONDIR='"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages"' -DXDATADIR='"/opt/user_software/coot/bin-gtk4/share"' -DCOOT_SYS_BUILD_TYPE='"Linux-x86_64-ubuntu-22.04.4-gtk4"' -DCOOT_BUILD_INFO_STRING='"build-host: gtxr1.srv-local.mpi-dortmund.mpg.de on: Mi 20 Mär 1759.36 CET 2024"' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/opt/user_software/coot/bin-gtk4/include/python3.11 -DHAVE_GSL -fopenmp -g -O -Wall -Wno-unused -std=c++17 -MT c-interface-mogul-scripting.lo -MD -MP -MF .deps/c-interface-mogul-scripting.Tpo -c -o c-interface-mogul-scripting.lo ../../coot/src/c-interface-mogul-scripting.cc mv -f .deps/c-interface-gui.Tpo .deps/c-interface-gui.Plo /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" -DPACKAGE_STRING=\"coot\ 1.x-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I../../coot/src -DUSE_PYTHON -mfpmath=sse -msse -msse2 -pthread -I/opt/user_software/coot/bin-gtk4/lib/libffi-3.2.1/include -I/usr/include/gtk-4.0 -I/usr/include/gio-unix-2.0 -I/usr/include/cairo -I/usr/include/pango-1.0 -I/usr/include/harfbuzz -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/harfbuzz -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/x86_64-linux-gnu -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/graphene-1.0 -I/usr/lib/x86_64-linux-gnu/graphene-1.0/include -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I../../coot -I/opt/user_software/coot/bin-gtk4/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/opt/user_software/coot/bin-gtk4/include -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -I/opt/user_software/coot/bin-gtk4/include -DHAVE_SSMLIB -I/opt/user_software/coot/bin-gtk4/include -DMMDB_HAS_LINK_DISTANCE -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DCLIPPER_HAS_TOP8000 -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR='"/opt/user_software/coot/bin-gtk4/share/coot"' -DPACKAGE_LOCALE_DIR='"/opt/user_software/coot/bin-gtk4/share/coot/locale"' -DPKGPYTHONDIR='"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/coot"' -DPYTHONDIR='"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages"' -DXDATADIR='"/opt/user_software/coot/bin-gtk4/share"' -DCOOT_SYS_BUILD_TYPE='"Linux-x86_64-ubuntu-22.04.4-gtk4"' -DCOOT_BUILD_INFO_STRING='"build-host: gtxr1.srv-local.mpi-dortmund.mpg.de on: Mi 20 Mär 1759.36 CET 2024"' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/opt/user_software/coot/bin-gtk4/include/python3.11 -DHAVE_GSL -fopenmp -g -O -Wall -Wno-unused -std=c++17 -MT c-interface-mutate.lo -MD -MP -MF .deps/c-interface-mutate.Tpo -c -o c-interface-mutate.lo ../../coot/src/c-interface-mutate.cc libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" "-DPACKAGE_STRING=\"coot 1.x-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I../../coot/src -DUSE_PYTHON -mfpmath=sse -msse -msse2 -pthread -I/opt/user_software/coot/bin-gtk4/lib/libffi-3.2.1/include -I/usr/include/gtk-4.0 -I/usr/include/gio-unix-2.0 -I/usr/include/cairo -I/usr/include/pango-1.0 -I/usr/include/harfbuzz -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/harfbuzz -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/x86_64-linux-gnu -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/graphene-1.0 -I/usr/lib/x86_64-linux-gnu/graphene-1.0/include -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I../../coot -I/opt/user_software/coot/bin-gtk4/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/opt/user_software/coot/bin-gtk4/include -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -I/opt/user_software/coot/bin-gtk4/include -DHAVE_SSMLIB -I/opt/user_software/coot/bin-gtk4/include -DMMDB_HAS_LINK_DISTANCE -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DCLIPPER_HAS_TOP8000 -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR=\"/opt/user_software/coot/bin-gtk4/share/coot\" -DPACKAGE_LOCALE_DIR=\"/opt/user_software/coot/bin-gtk4/share/coot/locale\" -DPKGPYTHONDIR=\"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/coot\" -DPYTHONDIR=\"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages\" -DXDATADIR=\"/opt/user_software/coot/bin-gtk4/share\" -DCOOT_SYS_BUILD_TYPE=\"Linux-x86_64-ubuntu-22.04.4-gtk4\" "-DCOOT_BUILD_INFO_STRING=\"build-host: gtxr1.srv-local.mpi-dortmund.mpg.de on: Mi 20 Mär 1759.36 CET 2024\"" -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/opt/user_software/coot/bin-gtk4/include/python3.11 -DHAVE_GSL -fopenmp -g -O -Wall -Wno-unused -std=c++17 -MT c-interface-mogul-scripting.lo -MD -MP -MF .deps/c-interface-mogul-scripting.Tpo -c ../../coot/src/c-interface-mogul-scripting.cc -fPIC -DPIC -o .libs/c-interface-mogul-scripting.o libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" "-DPACKAGE_STRING=\"coot 1.x-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I../../coot/src -DUSE_PYTHON -mfpmath=sse -msse -msse2 -pthread -I/opt/user_software/coot/bin-gtk4/lib/libffi-3.2.1/include -I/usr/include/gtk-4.0 -I/usr/include/gio-unix-2.0 -I/usr/include/cairo -I/usr/include/pango-1.0 -I/usr/include/harfbuzz -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/harfbuzz -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/x86_64-linux-gnu -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/graphene-1.0 -I/usr/lib/x86_64-linux-gnu/graphene-1.0/include -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I../../coot -I/opt/user_software/coot/bin-gtk4/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/opt/user_software/coot/bin-gtk4/include -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -I/opt/user_software/coot/bin-gtk4/include -DHAVE_SSMLIB -I/opt/user_software/coot/bin-gtk4/include -DMMDB_HAS_LINK_DISTANCE -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DCLIPPER_HAS_TOP8000 -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR=\"/opt/user_software/coot/bin-gtk4/share/coot\" -DPACKAGE_LOCALE_DIR=\"/opt/user_software/coot/bin-gtk4/share/coot/locale\" -DPKGPYTHONDIR=\"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/coot\" -DPYTHONDIR=\"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages\" -DXDATADIR=\"/opt/user_software/coot/bin-gtk4/share\" -DCOOT_SYS_BUILD_TYPE=\"Linux-x86_64-ubuntu-22.04.4-gtk4\" "-DCOOT_BUILD_INFO_STRING=\"build-host: gtxr1.srv-local.mpi-dortmund.mpg.de on: Mi 20 Mär 1759.36 CET 2024\"" -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/opt/user_software/coot/bin-gtk4/include/python3.11 -DHAVE_GSL -fopenmp -g -O -Wall -Wno-unused -std=c++17 -MT c-interface-mutate.lo -MD -MP -MF .deps/c-interface-mutate.Tpo -c ../../coot/src/c-interface-mutate.cc -fPIC -DPIC -o .libs/c-interface-mutate.o mv -f .deps/c-interface-image.Tpo .deps/c-interface-image.Plo /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" -DPACKAGE_STRING=\"coot\ 1.x-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I../../coot/src -DUSE_PYTHON -mfpmath=sse -msse -msse2 -pthread -I/opt/user_software/coot/bin-gtk4/lib/libffi-3.2.1/include -I/usr/include/gtk-4.0 -I/usr/include/gio-unix-2.0 -I/usr/include/cairo -I/usr/include/pango-1.0 -I/usr/include/harfbuzz -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/harfbuzz -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/x86_64-linux-gnu -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/graphene-1.0 -I/usr/lib/x86_64-linux-gnu/graphene-1.0/include -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I../../coot -I/opt/user_software/coot/bin-gtk4/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/opt/user_software/coot/bin-gtk4/include -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -I/opt/user_software/coot/bin-gtk4/include -DHAVE_SSMLIB -I/opt/user_software/coot/bin-gtk4/include -DMMDB_HAS_LINK_DISTANCE -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DCLIPPER_HAS_TOP8000 -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR='"/opt/user_software/coot/bin-gtk4/share/coot"' -DPACKAGE_LOCALE_DIR='"/opt/user_software/coot/bin-gtk4/share/coot/locale"' -DPKGPYTHONDIR='"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/coot"' -DPYTHONDIR='"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages"' -DXDATADIR='"/opt/user_software/coot/bin-gtk4/share"' -DCOOT_SYS_BUILD_TYPE='"Linux-x86_64-ubuntu-22.04.4-gtk4"' -DCOOT_BUILD_INFO_STRING='"build-host: gtxr1.srv-local.mpi-dortmund.mpg.de on: Mi 20 Mär 1759.36 CET 2024"' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/opt/user_software/coot/bin-gtk4/include/python3.11 -DHAVE_GSL -fopenmp -g -O -Wall -Wno-unused -std=c++17 -MT c-interface-ncs.lo -MD -MP -MF .deps/c-interface-ncs.Tpo -c -o c-interface-ncs.lo ../../coot/src/c-interface-ncs.cc In file included from ../../coot/MoleculesToTriangles/CXXClasses/RendererGLSL.hpp:31, from ../../coot/src/graphics-info.h:53, from ../../coot/src/c-interface-mutate.cc:49: ../../coot/MoleculesToTriangles/CXXClasses/RendererGL.h:61: warning: ignoring ‘#pragma mark ’ [-Wunknown-pragmas] 61 | #pragma mark - | ../../coot/MoleculesToTriangles/CXXClasses/RendererGL.h:62: warning: ignoring ‘#pragma mark Debug’ [-Wunknown-pragmas] 62 | #pragma mark Debug routine | mv -f .deps/c-interface-mogul-scripting.Tpo .deps/c-interface-mogul-scripting.Plo /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" -DPACKAGE_STRING=\"coot\ 1.x-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I../../coot/src -DUSE_PYTHON -mfpmath=sse -msse -msse2 -pthread -I/opt/user_software/coot/bin-gtk4/lib/libffi-3.2.1/include -I/usr/include/gtk-4.0 -I/usr/include/gio-unix-2.0 -I/usr/include/cairo -I/usr/include/pango-1.0 -I/usr/include/harfbuzz -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/harfbuzz -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/x86_64-linux-gnu -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/graphene-1.0 -I/usr/lib/x86_64-linux-gnu/graphene-1.0/include -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I../../coot -I/opt/user_software/coot/bin-gtk4/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/opt/user_software/coot/bin-gtk4/include -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -I/opt/user_software/coot/bin-gtk4/include -DHAVE_SSMLIB -I/opt/user_software/coot/bin-gtk4/include -DMMDB_HAS_LINK_DISTANCE -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DCLIPPER_HAS_TOP8000 -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR='"/opt/user_software/coot/bin-gtk4/share/coot"' -DPACKAGE_LOCALE_DIR='"/opt/user_software/coot/bin-gtk4/share/coot/locale"' -DPKGPYTHONDIR='"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/coot"' -DPYTHONDIR='"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages"' -DXDATADIR='"/opt/user_software/coot/bin-gtk4/share"' -DCOOT_SYS_BUILD_TYPE='"Linux-x86_64-ubuntu-22.04.4-gtk4"' -DCOOT_BUILD_INFO_STRING='"build-host: gtxr1.srv-local.mpi-dortmund.mpg.de on: Mi 20 Mär 1759.36 CET 2024"' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/opt/user_software/coot/bin-gtk4/include/python3.11 -DHAVE_GSL -fopenmp -g -O -Wall -Wno-unused -std=c++17 -MT c-interface-network.lo -MD -MP -MF .deps/c-interface-network.Tpo -c -o c-interface-network.lo ../../coot/src/c-interface-network.cc libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" "-DPACKAGE_STRING=\"coot 1.x-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I../../coot/src -DUSE_PYTHON -mfpmath=sse -msse -msse2 -pthread -I/opt/user_software/coot/bin-gtk4/lib/libffi-3.2.1/include -I/usr/include/gtk-4.0 -I/usr/include/gio-unix-2.0 -I/usr/include/cairo -I/usr/include/pango-1.0 -I/usr/include/harfbuzz -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/harfbuzz -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/x86_64-linux-gnu -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/graphene-1.0 -I/usr/lib/x86_64-linux-gnu/graphene-1.0/include -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I../../coot -I/opt/user_software/coot/bin-gtk4/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/opt/user_software/coot/bin-gtk4/include -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -I/opt/user_software/coot/bin-gtk4/include -DHAVE_SSMLIB -I/opt/user_software/coot/bin-gtk4/include -DMMDB_HAS_LINK_DISTANCE -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DCLIPPER_HAS_TOP8000 -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR=\"/opt/user_software/coot/bin-gtk4/share/coot\" -DPACKAGE_LOCALE_DIR=\"/opt/user_software/coot/bin-gtk4/share/coot/locale\" -DPKGPYTHONDIR=\"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/coot\" -DPYTHONDIR=\"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages\" -DXDATADIR=\"/opt/user_software/coot/bin-gtk4/share\" -DCOOT_SYS_BUILD_TYPE=\"Linux-x86_64-ubuntu-22.04.4-gtk4\" "-DCOOT_BUILD_INFO_STRING=\"build-host: gtxr1.srv-local.mpi-dortmund.mpg.de on: Mi 20 Mär 1759.36 CET 2024\"" -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/opt/user_software/coot/bin-gtk4/include/python3.11 -DHAVE_GSL -fopenmp -g -O -Wall -Wno-unused -std=c++17 -MT c-interface-ncs.lo -MD -MP -MF .deps/c-interface-ncs.Tpo -c ../../coot/src/c-interface-ncs.cc -fPIC -DPIC -o .libs/c-interface-ncs.o libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" "-DPACKAGE_STRING=\"coot 1.x-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I../../coot/src -DUSE_PYTHON -mfpmath=sse -msse -msse2 -pthread -I/opt/user_software/coot/bin-gtk4/lib/libffi-3.2.1/include -I/usr/include/gtk-4.0 -I/usr/include/gio-unix-2.0 -I/usr/include/cairo -I/usr/include/pango-1.0 -I/usr/include/harfbuzz -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/harfbuzz -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/x86_64-linux-gnu -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/graphene-1.0 -I/usr/lib/x86_64-linux-gnu/graphene-1.0/include -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I../../coot -I/opt/user_software/coot/bin-gtk4/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/opt/user_software/coot/bin-gtk4/include -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -I/opt/user_software/coot/bin-gtk4/include -DHAVE_SSMLIB -I/opt/user_software/coot/bin-gtk4/include -DMMDB_HAS_LINK_DISTANCE -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DCLIPPER_HAS_TOP8000 -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR=\"/opt/user_software/coot/bin-gtk4/share/coot\" -DPACKAGE_LOCALE_DIR=\"/opt/user_software/coot/bin-gtk4/share/coot/locale\" -DPKGPYTHONDIR=\"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/coot\" -DPYTHONDIR=\"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages\" -DXDATADIR=\"/opt/user_software/coot/bin-gtk4/share\" -DCOOT_SYS_BUILD_TYPE=\"Linux-x86_64-ubuntu-22.04.4-gtk4\" "-DCOOT_BUILD_INFO_STRING=\"build-host: gtxr1.srv-local.mpi-dortmund.mpg.de on: Mi 20 Mär 1759.36 CET 2024\"" -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/opt/user_software/coot/bin-gtk4/include/python3.11 -DHAVE_GSL -fopenmp -g -O -Wall -Wno-unused -std=c++17 -MT c-interface-network.lo -MD -MP -MF .deps/c-interface-network.Tpo -c ../../coot/src/c-interface-network.cc -fPIC -DPIC -o .libs/c-interface-network.o In file included from ../../coot/MoleculesToTriangles/CXXClasses/RendererGLSL.hpp:31, from ../../coot/src/graphics-info.h:53, from ../../coot/src/c-interface-ncs.cc:51: ../../coot/MoleculesToTriangles/CXXClasses/RendererGL.h:61: warning: ignoring ‘#pragma mark ’ [-Wunknown-pragmas] 61 | #pragma mark - | ../../coot/MoleculesToTriangles/CXXClasses/RendererGL.h:62: warning: ignoring ‘#pragma mark Debug’ [-Wunknown-pragmas] 62 | #pragma mark Debug routine | In file included from ../../coot/MoleculesToTriangles/CXXClasses/RendererGLSL.hpp:31, from ../../coot/src/graphics-info.h:53, from ../../coot/src/c-interface-network.cc:52: ../../coot/MoleculesToTriangles/CXXClasses/RendererGL.h:61: warning: ignoring ‘#pragma mark ’ [-Wunknown-pragmas] 61 | #pragma mark - | ../../coot/MoleculesToTriangles/CXXClasses/RendererGL.h:62: warning: ignoring ‘#pragma mark Debug’ [-Wunknown-pragmas] 62 | #pragma mark Debug routine | mv -f .deps/c-interface-maps.Tpo .deps/c-interface-maps.Plo /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" -DPACKAGE_STRING=\"coot\ 1.x-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I../../coot/src -DUSE_PYTHON -mfpmath=sse -msse -msse2 -pthread -I/opt/user_software/coot/bin-gtk4/lib/libffi-3.2.1/include -I/usr/include/gtk-4.0 -I/usr/include/gio-unix-2.0 -I/usr/include/cairo -I/usr/include/pango-1.0 -I/usr/include/harfbuzz -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/harfbuzz -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/x86_64-linux-gnu -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/graphene-1.0 -I/usr/lib/x86_64-linux-gnu/graphene-1.0/include -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I../../coot -I/opt/user_software/coot/bin-gtk4/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/opt/user_software/coot/bin-gtk4/include -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -I/opt/user_software/coot/bin-gtk4/include -DHAVE_SSMLIB -I/opt/user_software/coot/bin-gtk4/include -DMMDB_HAS_LINK_DISTANCE -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DCLIPPER_HAS_TOP8000 -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR='"/opt/user_software/coot/bin-gtk4/share/coot"' -DPACKAGE_LOCALE_DIR='"/opt/user_software/coot/bin-gtk4/share/coot/locale"' -DPKGPYTHONDIR='"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/coot"' -DPYTHONDIR='"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages"' -DXDATADIR='"/opt/user_software/coot/bin-gtk4/share"' -DCOOT_SYS_BUILD_TYPE='"Linux-x86_64-ubuntu-22.04.4-gtk4"' -DCOOT_BUILD_INFO_STRING='"build-host: gtxr1.srv-local.mpi-dortmund.mpg.de on: Mi 20 Mär 1759.36 CET 2024"' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/opt/user_software/coot/bin-gtk4/include/python3.11 -DHAVE_GSL -fopenmp -g -O -Wall -Wno-unused -std=c++17 -MT c-interface-nucleotides.lo -MD -MP -MF .deps/c-interface-nucleotides.Tpo -c -o c-interface-nucleotides.lo ../../coot/src/c-interface-nucleotides.cc mv -f .deps/c-interface-ligands-gui.Tpo .deps/c-interface-ligands-gui.Plo /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" -DPACKAGE_STRING=\"coot\ 1.x-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I../../coot/src -DUSE_PYTHON -mfpmath=sse -msse -msse2 -pthread -I/opt/user_software/coot/bin-gtk4/lib/libffi-3.2.1/include -I/usr/include/gtk-4.0 -I/usr/include/gio-unix-2.0 -I/usr/include/cairo -I/usr/include/pango-1.0 -I/usr/include/harfbuzz -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/harfbuzz -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/x86_64-linux-gnu -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/graphene-1.0 -I/usr/lib/x86_64-linux-gnu/graphene-1.0/include -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I../../coot -I/opt/user_software/coot/bin-gtk4/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/opt/user_software/coot/bin-gtk4/include -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -I/opt/user_software/coot/bin-gtk4/include -DHAVE_SSMLIB -I/opt/user_software/coot/bin-gtk4/include -DMMDB_HAS_LINK_DISTANCE -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DCLIPPER_HAS_TOP8000 -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR='"/opt/user_software/coot/bin-gtk4/share/coot"' -DPACKAGE_LOCALE_DIR='"/opt/user_software/coot/bin-gtk4/share/coot/locale"' -DPKGPYTHONDIR='"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/coot"' -DPYTHONDIR='"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages"' -DXDATADIR='"/opt/user_software/coot/bin-gtk4/share"' -DCOOT_SYS_BUILD_TYPE='"Linux-x86_64-ubuntu-22.04.4-gtk4"' -DCOOT_BUILD_INFO_STRING='"build-host: gtxr1.srv-local.mpi-dortmund.mpg.de on: Mi 20 Mär 1759.36 CET 2024"' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/opt/user_software/coot/bin-gtk4/include/python3.11 -DHAVE_GSL -fopenmp -g -O -Wall -Wno-unused -std=c++17 -MT c-interface-pisa.lo -MD -MP -MF .deps/c-interface-pisa.Tpo -c -o c-interface-pisa.lo ../../coot/src/c-interface-pisa.cc mv -f .deps/c-interface-mmdb.Tpo .deps/c-interface-mmdb.Plo /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" -DPACKAGE_STRING=\"coot\ 1.x-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I../../coot/src -DUSE_PYTHON -mfpmath=sse -msse -msse2 -pthread -I/opt/user_software/coot/bin-gtk4/lib/libffi-3.2.1/include -I/usr/include/gtk-4.0 -I/usr/include/gio-unix-2.0 -I/usr/include/cairo -I/usr/include/pango-1.0 -I/usr/include/harfbuzz -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/harfbuzz -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/x86_64-linux-gnu -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/graphene-1.0 -I/usr/lib/x86_64-linux-gnu/graphene-1.0/include -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I../../coot -I/opt/user_software/coot/bin-gtk4/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/opt/user_software/coot/bin-gtk4/include -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -I/opt/user_software/coot/bin-gtk4/include -DHAVE_SSMLIB -I/opt/user_software/coot/bin-gtk4/include -DMMDB_HAS_LINK_DISTANCE -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DCLIPPER_HAS_TOP8000 -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR='"/opt/user_software/coot/bin-gtk4/share/coot"' -DPACKAGE_LOCALE_DIR='"/opt/user_software/coot/bin-gtk4/share/coot/locale"' -DPKGPYTHONDIR='"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/coot"' -DPYTHONDIR='"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages"' -DXDATADIR='"/opt/user_software/coot/bin-gtk4/share"' -DCOOT_SYS_BUILD_TYPE='"Linux-x86_64-ubuntu-22.04.4-gtk4"' -DCOOT_BUILD_INFO_STRING='"build-host: gtxr1.srv-local.mpi-dortmund.mpg.de on: Mi 20 Mär 1759.36 CET 2024"' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/opt/user_software/coot/bin-gtk4/include/python3.11 -DHAVE_GSL -fopenmp -g -O -Wall -Wno-unused -std=c++17 -MT c-interface-pisa-gui.lo -MD -MP -MF .deps/c-interface-pisa-gui.Tpo -c -o c-interface-pisa-gui.lo ../../coot/src/c-interface-pisa-gui.cc libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" "-DPACKAGE_STRING=\"coot 1.x-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I../../coot/src -DUSE_PYTHON -mfpmath=sse -msse -msse2 -pthread -I/opt/user_software/coot/bin-gtk4/lib/libffi-3.2.1/include -I/usr/include/gtk-4.0 -I/usr/include/gio-unix-2.0 -I/usr/include/cairo -I/usr/include/pango-1.0 -I/usr/include/harfbuzz -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/harfbuzz -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/x86_64-linux-gnu -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/graphene-1.0 -I/usr/lib/x86_64-linux-gnu/graphene-1.0/include -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I../../coot -I/opt/user_software/coot/bin-gtk4/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/opt/user_software/coot/bin-gtk4/include -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -I/opt/user_software/coot/bin-gtk4/include -DHAVE_SSMLIB -I/opt/user_software/coot/bin-gtk4/include -DMMDB_HAS_LINK_DISTANCE -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DCLIPPER_HAS_TOP8000 -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR=\"/opt/user_software/coot/bin-gtk4/share/coot\" -DPACKAGE_LOCALE_DIR=\"/opt/user_software/coot/bin-gtk4/share/coot/locale\" -DPKGPYTHONDIR=\"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/coot\" -DPYTHONDIR=\"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages\" -DXDATADIR=\"/opt/user_software/coot/bin-gtk4/share\" -DCOOT_SYS_BUILD_TYPE=\"Linux-x86_64-ubuntu-22.04.4-gtk4\" "-DCOOT_BUILD_INFO_STRING=\"build-host: gtxr1.srv-local.mpi-dortmund.mpg.de on: Mi 20 Mär 1759.36 CET 2024\"" -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/opt/user_software/coot/bin-gtk4/include/python3.11 -DHAVE_GSL -fopenmp -g -O -Wall -Wno-unused -std=c++17 -MT c-interface-nucleotides.lo -MD -MP -MF .deps/c-interface-nucleotides.Tpo -c ../../coot/src/c-interface-nucleotides.cc -fPIC -DPIC -o .libs/c-interface-nucleotides.o libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" "-DPACKAGE_STRING=\"coot 1.x-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I../../coot/src -DUSE_PYTHON -mfpmath=sse -msse -msse2 -pthread -I/opt/user_software/coot/bin-gtk4/lib/libffi-3.2.1/include -I/usr/include/gtk-4.0 -I/usr/include/gio-unix-2.0 -I/usr/include/cairo -I/usr/include/pango-1.0 -I/usr/include/harfbuzz -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/harfbuzz -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/x86_64-linux-gnu -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/graphene-1.0 -I/usr/lib/x86_64-linux-gnu/graphene-1.0/include -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I../../coot -I/opt/user_software/coot/bin-gtk4/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/opt/user_software/coot/bin-gtk4/include -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -I/opt/user_software/coot/bin-gtk4/include -DHAVE_SSMLIB -I/opt/user_software/coot/bin-gtk4/include -DMMDB_HAS_LINK_DISTANCE -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DCLIPPER_HAS_TOP8000 -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR=\"/opt/user_software/coot/bin-gtk4/share/coot\" -DPACKAGE_LOCALE_DIR=\"/opt/user_software/coot/bin-gtk4/share/coot/locale\" -DPKGPYTHONDIR=\"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/coot\" -DPYTHONDIR=\"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages\" -DXDATADIR=\"/opt/user_software/coot/bin-gtk4/share\" -DCOOT_SYS_BUILD_TYPE=\"Linux-x86_64-ubuntu-22.04.4-gtk4\" "-DCOOT_BUILD_INFO_STRING=\"build-host: gtxr1.srv-local.mpi-dortmund.mpg.de on: Mi 20 Mär 1759.36 CET 2024\"" -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/opt/user_software/coot/bin-gtk4/include/python3.11 -DHAVE_GSL -fopenmp -g -O -Wall -Wno-unused -std=c++17 -MT c-interface-pisa.lo -MD -MP -MF .deps/c-interface-pisa.Tpo -c ../../coot/src/c-interface-pisa.cc -fPIC -DPIC -o .libs/c-interface-pisa.o In file included from ../../coot/MoleculesToTriangles/CXXClasses/RendererGLSL.hpp:31, from ../../coot/src/graphics-info.h:53, from ../../coot/src/c-interface-nucleotides.cc:39: ../../coot/MoleculesToTriangles/CXXClasses/RendererGL.h:61: warning: ignoring ‘#pragma mark ’ [-Wunknown-pragmas] 61 | #pragma mark - | ../../coot/MoleculesToTriangles/CXXClasses/RendererGL.h:62: warning: ignoring ‘#pragma mark Debug’ [-Wunknown-pragmas] 62 | #pragma mark Debug routine | libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" "-DPACKAGE_STRING=\"coot 1.x-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I../../coot/src -DUSE_PYTHON -mfpmath=sse -msse -msse2 -pthread -I/opt/user_software/coot/bin-gtk4/lib/libffi-3.2.1/include -I/usr/include/gtk-4.0 -I/usr/include/gio-unix-2.0 -I/usr/include/cairo -I/usr/include/pango-1.0 -I/usr/include/harfbuzz -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/harfbuzz -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/x86_64-linux-gnu -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/graphene-1.0 -I/usr/lib/x86_64-linux-gnu/graphene-1.0/include -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I../../coot -I/opt/user_software/coot/bin-gtk4/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/opt/user_software/coot/bin-gtk4/include -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -I/opt/user_software/coot/bin-gtk4/include -DHAVE_SSMLIB -I/opt/user_software/coot/bin-gtk4/include -DMMDB_HAS_LINK_DISTANCE -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DCLIPPER_HAS_TOP8000 -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR=\"/opt/user_software/coot/bin-gtk4/share/coot\" -DPACKAGE_LOCALE_DIR=\"/opt/user_software/coot/bin-gtk4/share/coot/locale\" -DPKGPYTHONDIR=\"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/coot\" -DPYTHONDIR=\"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages\" -DXDATADIR=\"/opt/user_software/coot/bin-gtk4/share\" -DCOOT_SYS_BUILD_TYPE=\"Linux-x86_64-ubuntu-22.04.4-gtk4\" "-DCOOT_BUILD_INFO_STRING=\"build-host: gtxr1.srv-local.mpi-dortmund.mpg.de on: Mi 20 Mär 1759.36 CET 2024\"" -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/opt/user_software/coot/bin-gtk4/include/python3.11 -DHAVE_GSL -fopenmp -g -O -Wall -Wno-unused -std=c++17 -MT c-interface-pisa-gui.lo -MD -MP -MF .deps/c-interface-pisa-gui.Tpo -c ../../coot/src/c-interface-pisa-gui.cc -fPIC -DPIC -o .libs/c-interface-pisa-gui.o In file included from ../../coot/MoleculesToTriangles/CXXClasses/RendererGLSL.hpp:31, from ../../coot/src/graphics-info.h:53, from ../../coot/src/c-interface-pisa.cc:34: ../../coot/MoleculesToTriangles/CXXClasses/RendererGL.h:61: warning: ignoring ‘#pragma mark ’ [-Wunknown-pragmas] 61 | #pragma mark - | ../../coot/MoleculesToTriangles/CXXClasses/RendererGL.h:62: warning: ignoring ‘#pragma mark Debug’ [-Wunknown-pragmas] 62 | #pragma mark Debug routine | mv -f .deps/c-interface-ligands.Tpo .deps/c-interface-ligands.Plo /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" -DPACKAGE_STRING=\"coot\ 1.x-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I../../coot/src -DUSE_PYTHON -mfpmath=sse -msse -msse2 -pthread -I/opt/user_software/coot/bin-gtk4/lib/libffi-3.2.1/include -I/usr/include/gtk-4.0 -I/usr/include/gio-unix-2.0 -I/usr/include/cairo -I/usr/include/pango-1.0 -I/usr/include/harfbuzz -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/harfbuzz -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/x86_64-linux-gnu -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/graphene-1.0 -I/usr/lib/x86_64-linux-gnu/graphene-1.0/include -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I../../coot -I/opt/user_software/coot/bin-gtk4/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/opt/user_software/coot/bin-gtk4/include -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -I/opt/user_software/coot/bin-gtk4/include -DHAVE_SSMLIB -I/opt/user_software/coot/bin-gtk4/include -DMMDB_HAS_LINK_DISTANCE -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DCLIPPER_HAS_TOP8000 -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR='"/opt/user_software/coot/bin-gtk4/share/coot"' -DPACKAGE_LOCALE_DIR='"/opt/user_software/coot/bin-gtk4/share/coot/locale"' -DPKGPYTHONDIR='"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/coot"' -DPYTHONDIR='"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages"' -DXDATADIR='"/opt/user_software/coot/bin-gtk4/share"' -DCOOT_SYS_BUILD_TYPE='"Linux-x86_64-ubuntu-22.04.4-gtk4"' -DCOOT_BUILD_INFO_STRING='"build-host: gtxr1.srv-local.mpi-dortmund.mpg.de on: Mi 20 Mär 1759.36 CET 2024"' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/opt/user_software/coot/bin-gtk4/include/python3.11 -DHAVE_GSL -fopenmp -g -O -Wall -Wno-unused -std=c++17 -MT c-interface-preferences.lo -MD -MP -MF .deps/c-interface-preferences.Tpo -c -o c-interface-preferences.lo ../../coot/src/c-interface-preferences.cc In file included from ../../coot/MoleculesToTriangles/CXXClasses/RendererGLSL.hpp:31, from ../../coot/src/graphics-info.h:53, from ../../coot/src/c-interface-pisa-gui.cc:32: ../../coot/MoleculesToTriangles/CXXClasses/RendererGL.h:61: warning: ignoring ‘#pragma mark ’ [-Wunknown-pragmas] 61 | #pragma mark - | ../../coot/MoleculesToTriangles/CXXClasses/RendererGL.h:62: warning: ignoring ‘#pragma mark Debug’ [-Wunknown-pragmas] 62 | #pragma mark Debug routine | libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" "-DPACKAGE_STRING=\"coot 1.x-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I../../coot/src -DUSE_PYTHON -mfpmath=sse -msse -msse2 -pthread -I/opt/user_software/coot/bin-gtk4/lib/libffi-3.2.1/include -I/usr/include/gtk-4.0 -I/usr/include/gio-unix-2.0 -I/usr/include/cairo -I/usr/include/pango-1.0 -I/usr/include/harfbuzz -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/harfbuzz -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/x86_64-linux-gnu -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/graphene-1.0 -I/usr/lib/x86_64-linux-gnu/graphene-1.0/include -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I../../coot -I/opt/user_software/coot/bin-gtk4/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/opt/user_software/coot/bin-gtk4/include -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -I/opt/user_software/coot/bin-gtk4/include -DHAVE_SSMLIB -I/opt/user_software/coot/bin-gtk4/include -DMMDB_HAS_LINK_DISTANCE -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DCLIPPER_HAS_TOP8000 -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR=\"/opt/user_software/coot/bin-gtk4/share/coot\" -DPACKAGE_LOCALE_DIR=\"/opt/user_software/coot/bin-gtk4/share/coot/locale\" -DPKGPYTHONDIR=\"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/coot\" -DPYTHONDIR=\"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages\" -DXDATADIR=\"/opt/user_software/coot/bin-gtk4/share\" -DCOOT_SYS_BUILD_TYPE=\"Linux-x86_64-ubuntu-22.04.4-gtk4\" "-DCOOT_BUILD_INFO_STRING=\"build-host: gtxr1.srv-local.mpi-dortmund.mpg.de on: Mi 20 Mär 1759.36 CET 2024\"" -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/opt/user_software/coot/bin-gtk4/include/python3.11 -DHAVE_GSL -fopenmp -g -O -Wall -Wno-unused -std=c++17 -MT c-interface-preferences.lo -MD -MP -MF .deps/c-interface-preferences.Tpo -c ../../coot/src/c-interface-preferences.cc -fPIC -DPIC -o .libs/c-interface-preferences.o In file included from ../../coot/MoleculesToTriangles/CXXClasses/RendererGLSL.hpp:31, from ../../coot/src/graphics-info.h:53, from ../../coot/src/c-interface-preferences.cc:64: ../../coot/MoleculesToTriangles/CXXClasses/RendererGL.h:61: warning: ignoring ‘#pragma mark ’ [-Wunknown-pragmas] 61 | #pragma mark - | ../../coot/MoleculesToTriangles/CXXClasses/RendererGL.h:62: warning: ignoring ‘#pragma mark Debug’ [-Wunknown-pragmas] 62 | #pragma mark Debug routine | mv -f .deps/c-interface-mutate.Tpo .deps/c-interface-mutate.Plo /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" -DPACKAGE_STRING=\"coot\ 1.x-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I../../coot/src -DUSE_PYTHON -mfpmath=sse -msse -msse2 -pthread -I/opt/user_software/coot/bin-gtk4/lib/libffi-3.2.1/include -I/usr/include/gtk-4.0 -I/usr/include/gio-unix-2.0 -I/usr/include/cairo -I/usr/include/pango-1.0 -I/usr/include/harfbuzz -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/harfbuzz -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/x86_64-linux-gnu -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/graphene-1.0 -I/usr/lib/x86_64-linux-gnu/graphene-1.0/include -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I../../coot -I/opt/user_software/coot/bin-gtk4/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/opt/user_software/coot/bin-gtk4/include -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -I/opt/user_software/coot/bin-gtk4/include -DHAVE_SSMLIB -I/opt/user_software/coot/bin-gtk4/include -DMMDB_HAS_LINK_DISTANCE -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DCLIPPER_HAS_TOP8000 -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR='"/opt/user_software/coot/bin-gtk4/share/coot"' -DPACKAGE_LOCALE_DIR='"/opt/user_software/coot/bin-gtk4/share/coot/locale"' -DPKGPYTHONDIR='"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/coot"' -DPYTHONDIR='"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages"' -DXDATADIR='"/opt/user_software/coot/bin-gtk4/share"' -DCOOT_SYS_BUILD_TYPE='"Linux-x86_64-ubuntu-22.04.4-gtk4"' -DCOOT_BUILD_INFO_STRING='"build-host: gtxr1.srv-local.mpi-dortmund.mpg.de on: Mi 20 Mär 1759.36 CET 2024"' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/opt/user_software/coot/bin-gtk4/include/python3.11 -DHAVE_GSL -fopenmp -g -O -Wall -Wno-unused -std=c++17 -MT c-interface-python.lo -MD -MP -MF .deps/c-interface-python.Tpo -c -o c-interface-python.lo ../../coot/src/c-interface-python.cc mv -f .deps/c-interface-mogul.Tpo .deps/c-interface-mogul.Plo /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" -DPACKAGE_STRING=\"coot\ 1.x-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I../../coot/src -DUSE_PYTHON -mfpmath=sse -msse -msse2 -pthread -I/opt/user_software/coot/bin-gtk4/lib/libffi-3.2.1/include -I/usr/include/gtk-4.0 -I/usr/include/gio-unix-2.0 -I/usr/include/cairo -I/usr/include/pango-1.0 -I/usr/include/harfbuzz -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/harfbuzz -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/x86_64-linux-gnu -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/graphene-1.0 -I/usr/lib/x86_64-linux-gnu/graphene-1.0/include -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I../../coot -I/opt/user_software/coot/bin-gtk4/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/opt/user_software/coot/bin-gtk4/include -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -I/opt/user_software/coot/bin-gtk4/include -DHAVE_SSMLIB -I/opt/user_software/coot/bin-gtk4/include -DMMDB_HAS_LINK_DISTANCE -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DCLIPPER_HAS_TOP8000 -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR='"/opt/user_software/coot/bin-gtk4/share/coot"' -DPACKAGE_LOCALE_DIR='"/opt/user_software/coot/bin-gtk4/share/coot/locale"' -DPKGPYTHONDIR='"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/coot"' -DPYTHONDIR='"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages"' -DXDATADIR='"/opt/user_software/coot/bin-gtk4/share"' -DCOOT_SYS_BUILD_TYPE='"Linux-x86_64-ubuntu-22.04.4-gtk4"' -DCOOT_BUILD_INFO_STRING='"build-host: gtxr1.srv-local.mpi-dortmund.mpg.de on: Mi 20 Mär 1759.36 CET 2024"' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/opt/user_software/coot/bin-gtk4/include/python3.11 -DHAVE_GSL -fopenmp -g -O -Wall -Wno-unused -std=c++17 -MT c-interface-refine.lo -MD -MP -MF .deps/c-interface-refine.Tpo -c -o c-interface-refine.lo ../../coot/src/c-interface-refine.cc libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" "-DPACKAGE_STRING=\"coot 1.x-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I../../coot/src -DUSE_PYTHON -mfpmath=sse -msse -msse2 -pthread -I/opt/user_software/coot/bin-gtk4/lib/libffi-3.2.1/include -I/usr/include/gtk-4.0 -I/usr/include/gio-unix-2.0 -I/usr/include/cairo -I/usr/include/pango-1.0 -I/usr/include/harfbuzz -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/harfbuzz -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/x86_64-linux-gnu -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/graphene-1.0 -I/usr/lib/x86_64-linux-gnu/graphene-1.0/include -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I../../coot -I/opt/user_software/coot/bin-gtk4/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/opt/user_software/coot/bin-gtk4/include -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -I/opt/user_software/coot/bin-gtk4/include -DHAVE_SSMLIB -I/opt/user_software/coot/bin-gtk4/include -DMMDB_HAS_LINK_DISTANCE -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DCLIPPER_HAS_TOP8000 -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR=\"/opt/user_software/coot/bin-gtk4/share/coot\" -DPACKAGE_LOCALE_DIR=\"/opt/user_software/coot/bin-gtk4/share/coot/locale\" -DPKGPYTHONDIR=\"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/coot\" -DPYTHONDIR=\"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages\" -DXDATADIR=\"/opt/user_software/coot/bin-gtk4/share\" -DCOOT_SYS_BUILD_TYPE=\"Linux-x86_64-ubuntu-22.04.4-gtk4\" "-DCOOT_BUILD_INFO_STRING=\"build-host: gtxr1.srv-local.mpi-dortmund.mpg.de on: Mi 20 Mär 1759.36 CET 2024\"" -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/opt/user_software/coot/bin-gtk4/include/python3.11 -DHAVE_GSL -fopenmp -g -O -Wall -Wno-unused -std=c++17 -MT c-interface-python.lo -MD -MP -MF .deps/c-interface-python.Tpo -c ../../coot/src/c-interface-python.cc -fPIC -DPIC -o .libs/c-interface-python.o libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" "-DPACKAGE_STRING=\"coot 1.x-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I../../coot/src -DUSE_PYTHON -mfpmath=sse -msse -msse2 -pthread -I/opt/user_software/coot/bin-gtk4/lib/libffi-3.2.1/include -I/usr/include/gtk-4.0 -I/usr/include/gio-unix-2.0 -I/usr/include/cairo -I/usr/include/pango-1.0 -I/usr/include/harfbuzz -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/harfbuzz -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/x86_64-linux-gnu -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/graphene-1.0 -I/usr/lib/x86_64-linux-gnu/graphene-1.0/include -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I../../coot -I/opt/user_software/coot/bin-gtk4/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/opt/user_software/coot/bin-gtk4/include -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -I/opt/user_software/coot/bin-gtk4/include -DHAVE_SSMLIB -I/opt/user_software/coot/bin-gtk4/include -DMMDB_HAS_LINK_DISTANCE -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DCLIPPER_HAS_TOP8000 -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR=\"/opt/user_software/coot/bin-gtk4/share/coot\" -DPACKAGE_LOCALE_DIR=\"/opt/user_software/coot/bin-gtk4/share/coot/locale\" -DPKGPYTHONDIR=\"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/coot\" -DPYTHONDIR=\"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages\" -DXDATADIR=\"/opt/user_software/coot/bin-gtk4/share\" -DCOOT_SYS_BUILD_TYPE=\"Linux-x86_64-ubuntu-22.04.4-gtk4\" "-DCOOT_BUILD_INFO_STRING=\"build-host: gtxr1.srv-local.mpi-dortmund.mpg.de on: Mi 20 Mär 1759.36 CET 2024\"" -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/opt/user_software/coot/bin-gtk4/include/python3.11 -DHAVE_GSL -fopenmp -g -O -Wall -Wno-unused -std=c++17 -MT c-interface-refine.lo -MD -MP -MF .deps/c-interface-refine.Tpo -c ../../coot/src/c-interface-refine.cc -fPIC -DPIC -o .libs/c-interface-refine.o In file included from ../../coot/MoleculesToTriangles/CXXClasses/RendererGLSL.hpp:31, from ../../coot/src/graphics-info.h:53, from ../../coot/src/c-interface-python.cc:40: ../../coot/MoleculesToTriangles/CXXClasses/RendererGL.h:61: warning: ignoring ‘#pragma mark ’ [-Wunknown-pragmas] 61 | #pragma mark - | ../../coot/MoleculesToTriangles/CXXClasses/RendererGL.h:62: warning: ignoring ‘#pragma mark Debug’ [-Wunknown-pragmas] 62 | #pragma mark Debug routine | mv -f .deps/c-interface-ncs.Tpo .deps/c-interface-ncs.Plo /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" -DPACKAGE_STRING=\"coot\ 1.x-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I../../coot/src -DUSE_PYTHON -mfpmath=sse -msse -msse2 -pthread -I/opt/user_software/coot/bin-gtk4/lib/libffi-3.2.1/include -I/usr/include/gtk-4.0 -I/usr/include/gio-unix-2.0 -I/usr/include/cairo -I/usr/include/pango-1.0 -I/usr/include/harfbuzz -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/harfbuzz -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/x86_64-linux-gnu -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/graphene-1.0 -I/usr/lib/x86_64-linux-gnu/graphene-1.0/include -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I../../coot -I/opt/user_software/coot/bin-gtk4/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/opt/user_software/coot/bin-gtk4/include -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -I/opt/user_software/coot/bin-gtk4/include -DHAVE_SSMLIB -I/opt/user_software/coot/bin-gtk4/include -DMMDB_HAS_LINK_DISTANCE -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DCLIPPER_HAS_TOP8000 -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR='"/opt/user_software/coot/bin-gtk4/share/coot"' -DPACKAGE_LOCALE_DIR='"/opt/user_software/coot/bin-gtk4/share/coot/locale"' -DPKGPYTHONDIR='"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/coot"' -DPYTHONDIR='"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages"' -DXDATADIR='"/opt/user_software/coot/bin-gtk4/share"' -DCOOT_SYS_BUILD_TYPE='"Linux-x86_64-ubuntu-22.04.4-gtk4"' -DCOOT_BUILD_INFO_STRING='"build-host: gtxr1.srv-local.mpi-dortmund.mpg.de on: Mi 20 Mär 1759.36 CET 2024"' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/opt/user_software/coot/bin-gtk4/include/python3.11 -DHAVE_GSL -fopenmp -g -O -Wall -Wno-unused -std=c++17 -MT c-interface-residues.lo -MD -MP -MF .deps/c-interface-residues.Tpo -c -o c-interface-residues.lo ../../coot/src/c-interface-residues.cc In file included from ../../coot/MoleculesToTriangles/CXXClasses/RendererGLSL.hpp:31, from ../../coot/src/graphics-info.h:53, from ../../coot/src/c-interface-refine.cc:41: ../../coot/MoleculesToTriangles/CXXClasses/RendererGL.h:61: warning: ignoring ‘#pragma mark ’ [-Wunknown-pragmas] 61 | #pragma mark - | ../../coot/MoleculesToTriangles/CXXClasses/RendererGL.h:62: warning: ignoring ‘#pragma mark Debug’ [-Wunknown-pragmas] 62 | #pragma mark Debug routine | libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" "-DPACKAGE_STRING=\"coot 1.x-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I../../coot/src -DUSE_PYTHON -mfpmath=sse -msse -msse2 -pthread -I/opt/user_software/coot/bin-gtk4/lib/libffi-3.2.1/include -I/usr/include/gtk-4.0 -I/usr/include/gio-unix-2.0 -I/usr/include/cairo -I/usr/include/pango-1.0 -I/usr/include/harfbuzz -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/harfbuzz -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/x86_64-linux-gnu -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/graphene-1.0 -I/usr/lib/x86_64-linux-gnu/graphene-1.0/include -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I../../coot -I/opt/user_software/coot/bin-gtk4/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/opt/user_software/coot/bin-gtk4/include -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -I/opt/user_software/coot/bin-gtk4/include -DHAVE_SSMLIB -I/opt/user_software/coot/bin-gtk4/include -DMMDB_HAS_LINK_DISTANCE -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DCLIPPER_HAS_TOP8000 -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR=\"/opt/user_software/coot/bin-gtk4/share/coot\" -DPACKAGE_LOCALE_DIR=\"/opt/user_software/coot/bin-gtk4/share/coot/locale\" -DPKGPYTHONDIR=\"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/coot\" -DPYTHONDIR=\"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages\" -DXDATADIR=\"/opt/user_software/coot/bin-gtk4/share\" -DCOOT_SYS_BUILD_TYPE=\"Linux-x86_64-ubuntu-22.04.4-gtk4\" "-DCOOT_BUILD_INFO_STRING=\"build-host: gtxr1.srv-local.mpi-dortmund.mpg.de on: Mi 20 Mär 1759.36 CET 2024\"" -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/opt/user_software/coot/bin-gtk4/include/python3.11 -DHAVE_GSL -fopenmp -g -O -Wall -Wno-unused -std=c++17 -MT c-interface-residues.lo -MD -MP -MF .deps/c-interface-residues.Tpo -c ../../coot/src/c-interface-residues.cc -fPIC -DPIC -o .libs/c-interface-residues.o mv -f .deps/c-interface-network.Tpo .deps/c-interface-network.Plo /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" -DPACKAGE_STRING=\"coot\ 1.x-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I../../coot/src -DUSE_PYTHON -mfpmath=sse -msse -msse2 -pthread -I/opt/user_software/coot/bin-gtk4/lib/libffi-3.2.1/include -I/usr/include/gtk-4.0 -I/usr/include/gio-unix-2.0 -I/usr/include/cairo -I/usr/include/pango-1.0 -I/usr/include/harfbuzz -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/harfbuzz -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/x86_64-linux-gnu -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/graphene-1.0 -I/usr/lib/x86_64-linux-gnu/graphene-1.0/include -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I../../coot -I/opt/user_software/coot/bin-gtk4/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/opt/user_software/coot/bin-gtk4/include -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -I/opt/user_software/coot/bin-gtk4/include -DHAVE_SSMLIB -I/opt/user_software/coot/bin-gtk4/include -DMMDB_HAS_LINK_DISTANCE -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DCLIPPER_HAS_TOP8000 -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR='"/opt/user_software/coot/bin-gtk4/share/coot"' -DPACKAGE_LOCALE_DIR='"/opt/user_software/coot/bin-gtk4/share/coot/locale"' -DPKGPYTHONDIR='"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/coot"' -DPYTHONDIR='"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages"' -DXDATADIR='"/opt/user_software/coot/bin-gtk4/share"' -DCOOT_SYS_BUILD_TYPE='"Linux-x86_64-ubuntu-22.04.4-gtk4"' -DCOOT_BUILD_INFO_STRING='"build-host: gtxr1.srv-local.mpi-dortmund.mpg.de on: Mi 20 Mär 1759.36 CET 2024"' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/opt/user_software/coot/bin-gtk4/include/python3.11 -DHAVE_GSL -fopenmp -g -O -Wall -Wno-unused -std=c++17 -MT c-interface-refmac.lo -MD -MP -MF .deps/c-interface-refmac.Tpo -c -o c-interface-refmac.lo ../../coot/src/c-interface-refmac.cc In file included from ../../coot/MoleculesToTriangles/CXXClasses/RendererGLSL.hpp:31, from ../../coot/src/graphics-info.h:53, from ../../coot/src/c-interface-residues.cc:40: ../../coot/MoleculesToTriangles/CXXClasses/RendererGL.h:61: warning: ignoring ‘#pragma mark ’ [-Wunknown-pragmas] 61 | #pragma mark - | ../../coot/MoleculesToTriangles/CXXClasses/RendererGL.h:62: warning: ignoring ‘#pragma mark Debug’ [-Wunknown-pragmas] 62 | #pragma mark Debug routine | libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" "-DPACKAGE_STRING=\"coot 1.x-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I../../coot/src -DUSE_PYTHON -mfpmath=sse -msse -msse2 -pthread -I/opt/user_software/coot/bin-gtk4/lib/libffi-3.2.1/include -I/usr/include/gtk-4.0 -I/usr/include/gio-unix-2.0 -I/usr/include/cairo -I/usr/include/pango-1.0 -I/usr/include/harfbuzz -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/harfbuzz -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/x86_64-linux-gnu -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/graphene-1.0 -I/usr/lib/x86_64-linux-gnu/graphene-1.0/include -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I../../coot -I/opt/user_software/coot/bin-gtk4/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/opt/user_software/coot/bin-gtk4/include -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -I/opt/user_software/coot/bin-gtk4/include -DHAVE_SSMLIB -I/opt/user_software/coot/bin-gtk4/include -DMMDB_HAS_LINK_DISTANCE -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DCLIPPER_HAS_TOP8000 -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR=\"/opt/user_software/coot/bin-gtk4/share/coot\" -DPACKAGE_LOCALE_DIR=\"/opt/user_software/coot/bin-gtk4/share/coot/locale\" -DPKGPYTHONDIR=\"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/coot\" -DPYTHONDIR=\"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages\" -DXDATADIR=\"/opt/user_software/coot/bin-gtk4/share\" -DCOOT_SYS_BUILD_TYPE=\"Linux-x86_64-ubuntu-22.04.4-gtk4\" "-DCOOT_BUILD_INFO_STRING=\"build-host: gtxr1.srv-local.mpi-dortmund.mpg.de on: Mi 20 Mär 1759.36 CET 2024\"" -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/opt/user_software/coot/bin-gtk4/include/python3.11 -DHAVE_GSL -fopenmp -g -O -Wall -Wno-unused -std=c++17 -MT c-interface-refmac.lo -MD -MP -MF .deps/c-interface-refmac.Tpo -c ../../coot/src/c-interface-refmac.cc -fPIC -DPIC -o .libs/c-interface-refmac.o In file included from ../../coot/MoleculesToTriangles/CXXClasses/RendererGLSL.hpp:31, from ../../coot/src/graphics-info.h:53, from ../../coot/src/c-interface-refmac.cc:33: ../../coot/MoleculesToTriangles/CXXClasses/RendererGL.h:61: warning: ignoring ‘#pragma mark ’ [-Wunknown-pragmas] 61 | #pragma mark - | ../../coot/MoleculesToTriangles/CXXClasses/RendererGL.h:62: warning: ignoring ‘#pragma mark Debug’ [-Wunknown-pragmas] 62 | #pragma mark Debug routine | mv -f .deps/c-interface-nucleotides.Tpo .deps/c-interface-nucleotides.Plo /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" -DPACKAGE_STRING=\"coot\ 1.x-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I../../coot/src -DUSE_PYTHON -mfpmath=sse -msse -msse2 -pthread -I/opt/user_software/coot/bin-gtk4/lib/libffi-3.2.1/include -I/usr/include/gtk-4.0 -I/usr/include/gio-unix-2.0 -I/usr/include/cairo -I/usr/include/pango-1.0 -I/usr/include/harfbuzz -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/harfbuzz -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/x86_64-linux-gnu -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/graphene-1.0 -I/usr/lib/x86_64-linux-gnu/graphene-1.0/include -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I../../coot -I/opt/user_software/coot/bin-gtk4/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/opt/user_software/coot/bin-gtk4/include -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -I/opt/user_software/coot/bin-gtk4/include -DHAVE_SSMLIB -I/opt/user_software/coot/bin-gtk4/include -DMMDB_HAS_LINK_DISTANCE -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DCLIPPER_HAS_TOP8000 -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR='"/opt/user_software/coot/bin-gtk4/share/coot"' -DPACKAGE_LOCALE_DIR='"/opt/user_software/coot/bin-gtk4/share/coot/locale"' -DPKGPYTHONDIR='"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/coot"' -DPYTHONDIR='"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages"' -DXDATADIR='"/opt/user_software/coot/bin-gtk4/share"' -DCOOT_SYS_BUILD_TYPE='"Linux-x86_64-ubuntu-22.04.4-gtk4"' -DCOOT_BUILD_INFO_STRING='"build-host: gtxr1.srv-local.mpi-dortmund.mpg.de on: Mi 20 Mär 1759.36 CET 2024"' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/opt/user_software/coot/bin-gtk4/include/python3.11 -DHAVE_GSL -fopenmp -g -O -Wall -Wno-unused -std=c++17 -MT simple-refmac.lo -MD -MP -MF .deps/simple-refmac.Tpo -c -o simple-refmac.lo ../../coot/src/simple-refmac.cc libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" "-DPACKAGE_STRING=\"coot 1.x-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I../../coot/src -DUSE_PYTHON -mfpmath=sse -msse -msse2 -pthread -I/opt/user_software/coot/bin-gtk4/lib/libffi-3.2.1/include -I/usr/include/gtk-4.0 -I/usr/include/gio-unix-2.0 -I/usr/include/cairo -I/usr/include/pango-1.0 -I/usr/include/harfbuzz -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/harfbuzz -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/x86_64-linux-gnu -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/graphene-1.0 -I/usr/lib/x86_64-linux-gnu/graphene-1.0/include -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I../../coot -I/opt/user_software/coot/bin-gtk4/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/opt/user_software/coot/bin-gtk4/include -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -I/opt/user_software/coot/bin-gtk4/include -DHAVE_SSMLIB -I/opt/user_software/coot/bin-gtk4/include -DMMDB_HAS_LINK_DISTANCE -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DCLIPPER_HAS_TOP8000 -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR=\"/opt/user_software/coot/bin-gtk4/share/coot\" -DPACKAGE_LOCALE_DIR=\"/opt/user_software/coot/bin-gtk4/share/coot/locale\" -DPKGPYTHONDIR=\"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/coot\" -DPYTHONDIR=\"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages\" -DXDATADIR=\"/opt/user_software/coot/bin-gtk4/share\" -DCOOT_SYS_BUILD_TYPE=\"Linux-x86_64-ubuntu-22.04.4-gtk4\" "-DCOOT_BUILD_INFO_STRING=\"build-host: gtxr1.srv-local.mpi-dortmund.mpg.de on: Mi 20 Mär 1759.36 CET 2024\"" -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/opt/user_software/coot/bin-gtk4/include/python3.11 -DHAVE_GSL -fopenmp -g -O -Wall -Wno-unused -std=c++17 -MT simple-refmac.lo -MD -MP -MF .deps/simple-refmac.Tpo -c ../../coot/src/simple-refmac.cc -fPIC -DPIC -o .libs/simple-refmac.o mv -f .deps/c-interface-pisa.Tpo .deps/c-interface-pisa.Plo /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" -DPACKAGE_STRING=\"coot\ 1.x-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I../../coot/src -DUSE_PYTHON -mfpmath=sse -msse -msse2 -pthread -I/opt/user_software/coot/bin-gtk4/lib/libffi-3.2.1/include -I/usr/include/gtk-4.0 -I/usr/include/gio-unix-2.0 -I/usr/include/cairo -I/usr/include/pango-1.0 -I/usr/include/harfbuzz -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/harfbuzz -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/x86_64-linux-gnu -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/graphene-1.0 -I/usr/lib/x86_64-linux-gnu/graphene-1.0/include -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I../../coot -I/opt/user_software/coot/bin-gtk4/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/opt/user_software/coot/bin-gtk4/include -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -I/opt/user_software/coot/bin-gtk4/include -DHAVE_SSMLIB -I/opt/user_software/coot/bin-gtk4/include -DMMDB_HAS_LINK_DISTANCE -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DCLIPPER_HAS_TOP8000 -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR='"/opt/user_software/coot/bin-gtk4/share/coot"' -DPACKAGE_LOCALE_DIR='"/opt/user_software/coot/bin-gtk4/share/coot/locale"' -DPKGPYTHONDIR='"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/coot"' -DPYTHONDIR='"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages"' -DXDATADIR='"/opt/user_software/coot/bin-gtk4/share"' -DCOOT_SYS_BUILD_TYPE='"Linux-x86_64-ubuntu-22.04.4-gtk4"' -DCOOT_BUILD_INFO_STRING='"build-host: gtxr1.srv-local.mpi-dortmund.mpg.de on: Mi 20 Mär 1759.36 CET 2024"' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/opt/user_software/coot/bin-gtk4/include/python3.11 -DHAVE_GSL -fopenmp -g -O -Wall -Wno-unused -std=c++17 -MT c-interface-scm.lo -MD -MP -MF .deps/c-interface-scm.Tpo -c -o c-interface-scm.lo ../../coot/src/c-interface-scm.cc In file included from ../../coot/MoleculesToTriangles/CXXClasses/RendererGLSL.hpp:31, from ../../coot/src/graphics-info.h:53, from ../../coot/src/simple-refmac.cc:10: ../../coot/MoleculesToTriangles/CXXClasses/RendererGL.h:61: warning: ignoring ‘#pragma mark ’ [-Wunknown-pragmas] 61 | #pragma mark - | ../../coot/MoleculesToTriangles/CXXClasses/RendererGL.h:62: warning: ignoring ‘#pragma mark Debug’ [-Wunknown-pragmas] 62 | #pragma mark Debug routine | libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" "-DPACKAGE_STRING=\"coot 1.x-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I../../coot/src -DUSE_PYTHON -mfpmath=sse -msse -msse2 -pthread -I/opt/user_software/coot/bin-gtk4/lib/libffi-3.2.1/include -I/usr/include/gtk-4.0 -I/usr/include/gio-unix-2.0 -I/usr/include/cairo -I/usr/include/pango-1.0 -I/usr/include/harfbuzz -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/harfbuzz -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/x86_64-linux-gnu -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/graphene-1.0 -I/usr/lib/x86_64-linux-gnu/graphene-1.0/include -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I../../coot -I/opt/user_software/coot/bin-gtk4/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/opt/user_software/coot/bin-gtk4/include -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -I/opt/user_software/coot/bin-gtk4/include -DHAVE_SSMLIB -I/opt/user_software/coot/bin-gtk4/include -DMMDB_HAS_LINK_DISTANCE -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DCLIPPER_HAS_TOP8000 -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR=\"/opt/user_software/coot/bin-gtk4/share/coot\" -DPACKAGE_LOCALE_DIR=\"/opt/user_software/coot/bin-gtk4/share/coot/locale\" -DPKGPYTHONDIR=\"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/coot\" -DPYTHONDIR=\"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages\" -DXDATADIR=\"/opt/user_software/coot/bin-gtk4/share\" -DCOOT_SYS_BUILD_TYPE=\"Linux-x86_64-ubuntu-22.04.4-gtk4\" "-DCOOT_BUILD_INFO_STRING=\"build-host: gtxr1.srv-local.mpi-dortmund.mpg.de on: Mi 20 Mär 1759.36 CET 2024\"" -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/opt/user_software/coot/bin-gtk4/include/python3.11 -DHAVE_GSL -fopenmp -g -O -Wall -Wno-unused -std=c++17 -MT c-interface-scm.lo -MD -MP -MF .deps/c-interface-scm.Tpo -c ../../coot/src/c-interface-scm.cc -fPIC -DPIC -o .libs/c-interface-scm.o mv -f .deps/c-interface-pisa-gui.Tpo .deps/c-interface-pisa-gui.Plo /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" -DPACKAGE_STRING=\"coot\ 1.x-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I../../coot/src -DUSE_PYTHON -mfpmath=sse -msse -msse2 -pthread -I/opt/user_software/coot/bin-gtk4/lib/libffi-3.2.1/include -I/usr/include/gtk-4.0 -I/usr/include/gio-unix-2.0 -I/usr/include/cairo -I/usr/include/pango-1.0 -I/usr/include/harfbuzz -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/harfbuzz -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/x86_64-linux-gnu -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/graphene-1.0 -I/usr/lib/x86_64-linux-gnu/graphene-1.0/include -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I../../coot -I/opt/user_software/coot/bin-gtk4/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/opt/user_software/coot/bin-gtk4/include -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -I/opt/user_software/coot/bin-gtk4/include -DHAVE_SSMLIB -I/opt/user_software/coot/bin-gtk4/include -DMMDB_HAS_LINK_DISTANCE -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DCLIPPER_HAS_TOP8000 -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR='"/opt/user_software/coot/bin-gtk4/share/coot"' -DPACKAGE_LOCALE_DIR='"/opt/user_software/coot/bin-gtk4/share/coot/locale"' -DPKGPYTHONDIR='"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/coot"' -DPYTHONDIR='"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages"' -DXDATADIR='"/opt/user_software/coot/bin-gtk4/share"' -DCOOT_SYS_BUILD_TYPE='"Linux-x86_64-ubuntu-22.04.4-gtk4"' -DCOOT_BUILD_INFO_STRING='"build-host: gtxr1.srv-local.mpi-dortmund.mpg.de on: Mi 20 Mär 1759.36 CET 2024"' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/opt/user_software/coot/bin-gtk4/include/python3.11 -DHAVE_GSL -fopenmp -g -O -Wall -Wno-unused -std=c++17 -MT c-interface-sequence.lo -MD -MP -MF .deps/c-interface-sequence.Tpo -c -o c-interface-sequence.lo ../../coot/src/c-interface-sequence.cc In file included from ../../coot/MoleculesToTriangles/CXXClasses/RendererGLSL.hpp:31, from ../../coot/src/graphics-info.h:53, from ../../coot/src/c-interface-scm.cc:35: ../../coot/MoleculesToTriangles/CXXClasses/RendererGL.h:61: warning: ignoring ‘#pragma mark ’ [-Wunknown-pragmas] 61 | #pragma mark - | ../../coot/MoleculesToTriangles/CXXClasses/RendererGL.h:62: warning: ignoring ‘#pragma mark Debug’ [-Wunknown-pragmas] 62 | #pragma mark Debug routine | mv -f .deps/c-interface-python.Tpo .deps/c-interface-python.Plo /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" -DPACKAGE_STRING=\"coot\ 1.x-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I../../coot/src -DUSE_PYTHON -mfpmath=sse -msse -msse2 -pthread -I/opt/user_software/coot/bin-gtk4/lib/libffi-3.2.1/include -I/usr/include/gtk-4.0 -I/usr/include/gio-unix-2.0 -I/usr/include/cairo -I/usr/include/pango-1.0 -I/usr/include/harfbuzz -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/harfbuzz -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/x86_64-linux-gnu -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/graphene-1.0 -I/usr/lib/x86_64-linux-gnu/graphene-1.0/include -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I../../coot -I/opt/user_software/coot/bin-gtk4/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/opt/user_software/coot/bin-gtk4/include -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -I/opt/user_software/coot/bin-gtk4/include -DHAVE_SSMLIB -I/opt/user_software/coot/bin-gtk4/include -DMMDB_HAS_LINK_DISTANCE -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DCLIPPER_HAS_TOP8000 -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR='"/opt/user_software/coot/bin-gtk4/share/coot"' -DPACKAGE_LOCALE_DIR='"/opt/user_software/coot/bin-gtk4/share/coot/locale"' -DPKGPYTHONDIR='"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/coot"' -DPYTHONDIR='"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages"' -DXDATADIR='"/opt/user_software/coot/bin-gtk4/share"' -DCOOT_SYS_BUILD_TYPE='"Linux-x86_64-ubuntu-22.04.4-gtk4"' -DCOOT_BUILD_INFO_STRING='"build-host: gtxr1.srv-local.mpi-dortmund.mpg.de on: Mi 20 Mär 1759.36 CET 2024"' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/opt/user_software/coot/bin-gtk4/include/python3.11 -DHAVE_GSL -fopenmp -g -O -Wall -Wno-unused -std=c++17 -MT c-interface-sfs.lo -MD -MP -MF .deps/c-interface-sfs.Tpo -c -o c-interface-sfs.lo ../../coot/src/c-interface-sfs.cc libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" "-DPACKAGE_STRING=\"coot 1.x-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I../../coot/src -DUSE_PYTHON -mfpmath=sse -msse -msse2 -pthread -I/opt/user_software/coot/bin-gtk4/lib/libffi-3.2.1/include -I/usr/include/gtk-4.0 -I/usr/include/gio-unix-2.0 -I/usr/include/cairo -I/usr/include/pango-1.0 -I/usr/include/harfbuzz -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/harfbuzz -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/x86_64-linux-gnu -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/graphene-1.0 -I/usr/lib/x86_64-linux-gnu/graphene-1.0/include -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I../../coot -I/opt/user_software/coot/bin-gtk4/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/opt/user_software/coot/bin-gtk4/include -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -I/opt/user_software/coot/bin-gtk4/include -DHAVE_SSMLIB -I/opt/user_software/coot/bin-gtk4/include -DMMDB_HAS_LINK_DISTANCE -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DCLIPPER_HAS_TOP8000 -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR=\"/opt/user_software/coot/bin-gtk4/share/coot\" -DPACKAGE_LOCALE_DIR=\"/opt/user_software/coot/bin-gtk4/share/coot/locale\" -DPKGPYTHONDIR=\"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/coot\" -DPYTHONDIR=\"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages\" -DXDATADIR=\"/opt/user_software/coot/bin-gtk4/share\" -DCOOT_SYS_BUILD_TYPE=\"Linux-x86_64-ubuntu-22.04.4-gtk4\" "-DCOOT_BUILD_INFO_STRING=\"build-host: gtxr1.srv-local.mpi-dortmund.mpg.de on: Mi 20 Mär 1759.36 CET 2024\"" -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/opt/user_software/coot/bin-gtk4/include/python3.11 -DHAVE_GSL -fopenmp -g -O -Wall -Wno-unused -std=c++17 -MT c-interface-sequence.lo -MD -MP -MF .deps/c-interface-sequence.Tpo -c ../../coot/src/c-interface-sequence.cc -fPIC -DPIC -o .libs/c-interface-sequence.o libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" "-DPACKAGE_STRING=\"coot 1.x-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I../../coot/src -DUSE_PYTHON -mfpmath=sse -msse -msse2 -pthread -I/opt/user_software/coot/bin-gtk4/lib/libffi-3.2.1/include -I/usr/include/gtk-4.0 -I/usr/include/gio-unix-2.0 -I/usr/include/cairo -I/usr/include/pango-1.0 -I/usr/include/harfbuzz -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/harfbuzz -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/x86_64-linux-gnu -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/graphene-1.0 -I/usr/lib/x86_64-linux-gnu/graphene-1.0/include -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I../../coot -I/opt/user_software/coot/bin-gtk4/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/opt/user_software/coot/bin-gtk4/include -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -I/opt/user_software/coot/bin-gtk4/include -DHAVE_SSMLIB -I/opt/user_software/coot/bin-gtk4/include -DMMDB_HAS_LINK_DISTANCE -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DCLIPPER_HAS_TOP8000 -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR=\"/opt/user_software/coot/bin-gtk4/share/coot\" -DPACKAGE_LOCALE_DIR=\"/opt/user_software/coot/bin-gtk4/share/coot/locale\" -DPKGPYTHONDIR=\"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/coot\" -DPYTHONDIR=\"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages\" -DXDATADIR=\"/opt/user_software/coot/bin-gtk4/share\" -DCOOT_SYS_BUILD_TYPE=\"Linux-x86_64-ubuntu-22.04.4-gtk4\" "-DCOOT_BUILD_INFO_STRING=\"build-host: gtxr1.srv-local.mpi-dortmund.mpg.de on: Mi 20 Mär 1759.36 CET 2024\"" -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/opt/user_software/coot/bin-gtk4/include/python3.11 -DHAVE_GSL -fopenmp -g -O -Wall -Wno-unused -std=c++17 -MT c-interface-sfs.lo -MD -MP -MF .deps/c-interface-sfs.Tpo -c ../../coot/src/c-interface-sfs.cc -fPIC -DPIC -o .libs/c-interface-sfs.o In file included from ../../coot/MoleculesToTriangles/CXXClasses/RendererGLSL.hpp:31, from ../../coot/src/graphics-info.h:53, from ../../coot/src/c-interface-sequence.cc:34: ../../coot/MoleculesToTriangles/CXXClasses/RendererGL.h:61: warning: ignoring ‘#pragma mark ’ [-Wunknown-pragmas] 61 | #pragma mark - | ../../coot/MoleculesToTriangles/CXXClasses/RendererGL.h:62: warning: ignoring ‘#pragma mark Debug’ [-Wunknown-pragmas] 62 | #pragma mark Debug routine | mv -f .deps/c-interface-refine.Tpo .deps/c-interface-refine.Plo /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" -DPACKAGE_STRING=\"coot\ 1.x-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I../../coot/src -DUSE_PYTHON -mfpmath=sse -msse -msse2 -pthread -I/opt/user_software/coot/bin-gtk4/lib/libffi-3.2.1/include -I/usr/include/gtk-4.0 -I/usr/include/gio-unix-2.0 -I/usr/include/cairo -I/usr/include/pango-1.0 -I/usr/include/harfbuzz -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/harfbuzz -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/x86_64-linux-gnu -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/graphene-1.0 -I/usr/lib/x86_64-linux-gnu/graphene-1.0/include -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I../../coot -I/opt/user_software/coot/bin-gtk4/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/opt/user_software/coot/bin-gtk4/include -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -I/opt/user_software/coot/bin-gtk4/include -DHAVE_SSMLIB -I/opt/user_software/coot/bin-gtk4/include -DMMDB_HAS_LINK_DISTANCE -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DCLIPPER_HAS_TOP8000 -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR='"/opt/user_software/coot/bin-gtk4/share/coot"' -DPACKAGE_LOCALE_DIR='"/opt/user_software/coot/bin-gtk4/share/coot/locale"' -DPKGPYTHONDIR='"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/coot"' -DPYTHONDIR='"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages"' -DXDATADIR='"/opt/user_software/coot/bin-gtk4/share"' -DCOOT_SYS_BUILD_TYPE='"Linux-x86_64-ubuntu-22.04.4-gtk4"' -DCOOT_BUILD_INFO_STRING='"build-host: gtxr1.srv-local.mpi-dortmund.mpg.de on: Mi 20 Mär 1759.36 CET 2024"' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/opt/user_software/coot/bin-gtk4/include/python3.11 -DHAVE_GSL -fopenmp -g -O -Wall -Wno-unused -std=c++17 -MT c-interface-sharpen.lo -MD -MP -MF .deps/c-interface-sharpen.Tpo -c -o c-interface-sharpen.lo ../../coot/src/c-interface-sharpen.cc libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" "-DPACKAGE_STRING=\"coot 1.x-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I../../coot/src -DUSE_PYTHON -mfpmath=sse -msse -msse2 -pthread -I/opt/user_software/coot/bin-gtk4/lib/libffi-3.2.1/include -I/usr/include/gtk-4.0 -I/usr/include/gio-unix-2.0 -I/usr/include/cairo -I/usr/include/pango-1.0 -I/usr/include/harfbuzz -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/harfbuzz -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/x86_64-linux-gnu -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/graphene-1.0 -I/usr/lib/x86_64-linux-gnu/graphene-1.0/include -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I../../coot -I/opt/user_software/coot/bin-gtk4/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/opt/user_software/coot/bin-gtk4/include -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -I/opt/user_software/coot/bin-gtk4/include -DHAVE_SSMLIB -I/opt/user_software/coot/bin-gtk4/include -DMMDB_HAS_LINK_DISTANCE -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DCLIPPER_HAS_TOP8000 -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR=\"/opt/user_software/coot/bin-gtk4/share/coot\" -DPACKAGE_LOCALE_DIR=\"/opt/user_software/coot/bin-gtk4/share/coot/locale\" -DPKGPYTHONDIR=\"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/coot\" -DPYTHONDIR=\"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages\" -DXDATADIR=\"/opt/user_software/coot/bin-gtk4/share\" -DCOOT_SYS_BUILD_TYPE=\"Linux-x86_64-ubuntu-22.04.4-gtk4\" "-DCOOT_BUILD_INFO_STRING=\"build-host: gtxr1.srv-local.mpi-dortmund.mpg.de on: Mi 20 Mär 1759.36 CET 2024\"" -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/opt/user_software/coot/bin-gtk4/include/python3.11 -DHAVE_GSL -fopenmp -g -O -Wall -Wno-unused -std=c++17 -MT c-interface-sharpen.lo -MD -MP -MF .deps/c-interface-sharpen.Tpo -c ../../coot/src/c-interface-sharpen.cc -fPIC -DPIC -o .libs/c-interface-sharpen.o mv -f .deps/c-interface-sfs.Tpo .deps/c-interface-sfs.Plo /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" -DPACKAGE_STRING=\"coot\ 1.x-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I../../coot/src -DUSE_PYTHON -mfpmath=sse -msse -msse2 -pthread -I/opt/user_software/coot/bin-gtk4/lib/libffi-3.2.1/include -I/usr/include/gtk-4.0 -I/usr/include/gio-unix-2.0 -I/usr/include/cairo -I/usr/include/pango-1.0 -I/usr/include/harfbuzz -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/harfbuzz -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/x86_64-linux-gnu -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/graphene-1.0 -I/usr/lib/x86_64-linux-gnu/graphene-1.0/include -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I../../coot -I/opt/user_software/coot/bin-gtk4/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/opt/user_software/coot/bin-gtk4/include -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -I/opt/user_software/coot/bin-gtk4/include -DHAVE_SSMLIB -I/opt/user_software/coot/bin-gtk4/include -DMMDB_HAS_LINK_DISTANCE -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DCLIPPER_HAS_TOP8000 -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR='"/opt/user_software/coot/bin-gtk4/share/coot"' -DPACKAGE_LOCALE_DIR='"/opt/user_software/coot/bin-gtk4/share/coot/locale"' -DPKGPYTHONDIR='"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/coot"' -DPYTHONDIR='"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages"' -DXDATADIR='"/opt/user_software/coot/bin-gtk4/share"' -DCOOT_SYS_BUILD_TYPE='"Linux-x86_64-ubuntu-22.04.4-gtk4"' -DCOOT_BUILD_INFO_STRING='"build-host: gtxr1.srv-local.mpi-dortmund.mpg.de on: Mi 20 Mär 1759.36 CET 2024"' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/opt/user_software/coot/bin-gtk4/include/python3.11 -DHAVE_GSL -fopenmp -g -O -Wall -Wno-unused -std=c++17 -MT c-interface-superpose.lo -MD -MP -MF .deps/c-interface-superpose.Tpo -c -o c-interface-superpose.lo ../../coot/src/c-interface-superpose.cc In file included from ../../coot/MoleculesToTriangles/CXXClasses/RendererGLSL.hpp:31, from ../../coot/src/graphics-info.h:53, from ../../coot/src/c-interface-sharpen.cc:29: ../../coot/MoleculesToTriangles/CXXClasses/RendererGL.h:61: warning: ignoring ‘#pragma mark ’ [-Wunknown-pragmas] 61 | #pragma mark - | ../../coot/MoleculesToTriangles/CXXClasses/RendererGL.h:62: warning: ignoring ‘#pragma mark Debug’ [-Wunknown-pragmas] 62 | #pragma mark Debug routine | libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" "-DPACKAGE_STRING=\"coot 1.x-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I../../coot/src -DUSE_PYTHON -mfpmath=sse -msse -msse2 -pthread -I/opt/user_software/coot/bin-gtk4/lib/libffi-3.2.1/include -I/usr/include/gtk-4.0 -I/usr/include/gio-unix-2.0 -I/usr/include/cairo -I/usr/include/pango-1.0 -I/usr/include/harfbuzz -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/harfbuzz -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/x86_64-linux-gnu -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/graphene-1.0 -I/usr/lib/x86_64-linux-gnu/graphene-1.0/include -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I../../coot -I/opt/user_software/coot/bin-gtk4/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/opt/user_software/coot/bin-gtk4/include -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -I/opt/user_software/coot/bin-gtk4/include -DHAVE_SSMLIB -I/opt/user_software/coot/bin-gtk4/include -DMMDB_HAS_LINK_DISTANCE -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DCLIPPER_HAS_TOP8000 -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR=\"/opt/user_software/coot/bin-gtk4/share/coot\" -DPACKAGE_LOCALE_DIR=\"/opt/user_software/coot/bin-gtk4/share/coot/locale\" -DPKGPYTHONDIR=\"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/coot\" -DPYTHONDIR=\"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages\" -DXDATADIR=\"/opt/user_software/coot/bin-gtk4/share\" -DCOOT_SYS_BUILD_TYPE=\"Linux-x86_64-ubuntu-22.04.4-gtk4\" "-DCOOT_BUILD_INFO_STRING=\"build-host: gtxr1.srv-local.mpi-dortmund.mpg.de on: Mi 20 Mär 1759.36 CET 2024\"" -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/opt/user_software/coot/bin-gtk4/include/python3.11 -DHAVE_GSL -fopenmp -g -O -Wall -Wno-unused -std=c++17 -MT c-interface-superpose.lo -MD -MP -MF .deps/c-interface-superpose.Tpo -c ../../coot/src/c-interface-superpose.cc -fPIC -DPIC -o .libs/c-interface-superpose.o In file included from ../../coot/MoleculesToTriangles/CXXClasses/RendererGLSL.hpp:31, from ../../coot/src/graphics-info.h:53, from ../../coot/src/c-interface-superpose.cc:38: ../../coot/MoleculesToTriangles/CXXClasses/RendererGL.h:61: warning: ignoring ‘#pragma mark ’ [-Wunknown-pragmas] 61 | #pragma mark - | ../../coot/MoleculesToTriangles/CXXClasses/RendererGL.h:62: warning: ignoring ‘#pragma mark Debug’ [-Wunknown-pragmas] 62 | #pragma mark Debug routine | mv -f .deps/c-interface-preferences.Tpo .deps/c-interface-preferences.Plo /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" -DPACKAGE_STRING=\"coot\ 1.x-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I../../coot/src -DUSE_PYTHON -mfpmath=sse -msse -msse2 -pthread -I/opt/user_software/coot/bin-gtk4/lib/libffi-3.2.1/include -I/usr/include/gtk-4.0 -I/usr/include/gio-unix-2.0 -I/usr/include/cairo -I/usr/include/pango-1.0 -I/usr/include/harfbuzz -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/harfbuzz -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/x86_64-linux-gnu -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/graphene-1.0 -I/usr/lib/x86_64-linux-gnu/graphene-1.0/include -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I../../coot -I/opt/user_software/coot/bin-gtk4/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/opt/user_software/coot/bin-gtk4/include -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -I/opt/user_software/coot/bin-gtk4/include -DHAVE_SSMLIB -I/opt/user_software/coot/bin-gtk4/include -DMMDB_HAS_LINK_DISTANCE -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DCLIPPER_HAS_TOP8000 -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR='"/opt/user_software/coot/bin-gtk4/share/coot"' -DPACKAGE_LOCALE_DIR='"/opt/user_software/coot/bin-gtk4/share/coot/locale"' -DPKGPYTHONDIR='"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/coot"' -DPYTHONDIR='"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages"' -DXDATADIR='"/opt/user_software/coot/bin-gtk4/share"' -DCOOT_SYS_BUILD_TYPE='"Linux-x86_64-ubuntu-22.04.4-gtk4"' -DCOOT_BUILD_INFO_STRING='"build-host: gtxr1.srv-local.mpi-dortmund.mpg.de on: Mi 20 Mär 1759.36 CET 2024"' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/opt/user_software/coot/bin-gtk4/include/python3.11 -DHAVE_GSL -fopenmp -g -O -Wall -Wno-unused -std=c++17 -MT c-interface-validate.lo -MD -MP -MF .deps/c-interface-validate.Tpo -c -o c-interface-validate.lo ../../coot/src/c-interface-validate.cc mv -f .deps/c-interface-residues.Tpo .deps/c-interface-residues.Plo /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" -DPACKAGE_STRING=\"coot\ 1.x-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I../../coot/src -DUSE_PYTHON -mfpmath=sse -msse -msse2 -pthread -I/opt/user_software/coot/bin-gtk4/lib/libffi-3.2.1/include -I/usr/include/gtk-4.0 -I/usr/include/gio-unix-2.0 -I/usr/include/cairo -I/usr/include/pango-1.0 -I/usr/include/harfbuzz -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/harfbuzz -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/x86_64-linux-gnu -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/graphene-1.0 -I/usr/lib/x86_64-linux-gnu/graphene-1.0/include -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I../../coot -I/opt/user_software/coot/bin-gtk4/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/opt/user_software/coot/bin-gtk4/include -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -I/opt/user_software/coot/bin-gtk4/include -DHAVE_SSMLIB -I/opt/user_software/coot/bin-gtk4/include -DMMDB_HAS_LINK_DISTANCE -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DCLIPPER_HAS_TOP8000 -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR='"/opt/user_software/coot/bin-gtk4/share/coot"' -DPACKAGE_LOCALE_DIR='"/opt/user_software/coot/bin-gtk4/share/coot/locale"' -DPKGPYTHONDIR='"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/coot"' -DPYTHONDIR='"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages"' -DXDATADIR='"/opt/user_software/coot/bin-gtk4/share"' -DCOOT_SYS_BUILD_TYPE='"Linux-x86_64-ubuntu-22.04.4-gtk4"' -DCOOT_BUILD_INFO_STRING='"build-host: gtxr1.srv-local.mpi-dortmund.mpg.de on: Mi 20 Mär 1759.36 CET 2024"' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/opt/user_software/coot/bin-gtk4/include/python3.11 -DHAVE_GSL -fopenmp -g -O -Wall -Wno-unused -std=c++17 -MT c-interface-view.lo -MD -MP -MF .deps/c-interface-view.Tpo -c -o c-interface-view.lo ../../coot/src/c-interface-view.cc libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" "-DPACKAGE_STRING=\"coot 1.x-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I../../coot/src -DUSE_PYTHON -mfpmath=sse -msse -msse2 -pthread -I/opt/user_software/coot/bin-gtk4/lib/libffi-3.2.1/include -I/usr/include/gtk-4.0 -I/usr/include/gio-unix-2.0 -I/usr/include/cairo -I/usr/include/pango-1.0 -I/usr/include/harfbuzz -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/harfbuzz -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/x86_64-linux-gnu -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/graphene-1.0 -I/usr/lib/x86_64-linux-gnu/graphene-1.0/include -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I../../coot -I/opt/user_software/coot/bin-gtk4/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/opt/user_software/coot/bin-gtk4/include -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -I/opt/user_software/coot/bin-gtk4/include -DHAVE_SSMLIB -I/opt/user_software/coot/bin-gtk4/include -DMMDB_HAS_LINK_DISTANCE -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DCLIPPER_HAS_TOP8000 -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR=\"/opt/user_software/coot/bin-gtk4/share/coot\" -DPACKAGE_LOCALE_DIR=\"/opt/user_software/coot/bin-gtk4/share/coot/locale\" -DPKGPYTHONDIR=\"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/coot\" -DPYTHONDIR=\"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages\" -DXDATADIR=\"/opt/user_software/coot/bin-gtk4/share\" -DCOOT_SYS_BUILD_TYPE=\"Linux-x86_64-ubuntu-22.04.4-gtk4\" "-DCOOT_BUILD_INFO_STRING=\"build-host: gtxr1.srv-local.mpi-dortmund.mpg.de on: Mi 20 Mär 1759.36 CET 2024\"" -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/opt/user_software/coot/bin-gtk4/include/python3.11 -DHAVE_GSL -fopenmp -g -O -Wall -Wno-unused -std=c++17 -MT c-interface-validate.lo -MD -MP -MF .deps/c-interface-validate.Tpo -c ../../coot/src/c-interface-validate.cc -fPIC -DPIC -o .libs/c-interface-validate.o mv -f .deps/c-interface-refmac.Tpo .deps/c-interface-refmac.Plo /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" -DPACKAGE_STRING=\"coot\ 1.x-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I../../coot/src -DUSE_PYTHON -mfpmath=sse -msse -msse2 -pthread -I/opt/user_software/coot/bin-gtk4/lib/libffi-3.2.1/include -I/usr/include/gtk-4.0 -I/usr/include/gio-unix-2.0 -I/usr/include/cairo -I/usr/include/pango-1.0 -I/usr/include/harfbuzz -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/harfbuzz -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/x86_64-linux-gnu -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/graphene-1.0 -I/usr/lib/x86_64-linux-gnu/graphene-1.0/include -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I../../coot -I/opt/user_software/coot/bin-gtk4/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/opt/user_software/coot/bin-gtk4/include -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -I/opt/user_software/coot/bin-gtk4/include -DHAVE_SSMLIB -I/opt/user_software/coot/bin-gtk4/include -DMMDB_HAS_LINK_DISTANCE -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DCLIPPER_HAS_TOP8000 -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR='"/opt/user_software/coot/bin-gtk4/share/coot"' -DPACKAGE_LOCALE_DIR='"/opt/user_software/coot/bin-gtk4/share/coot/locale"' -DPKGPYTHONDIR='"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/coot"' -DPYTHONDIR='"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages"' -DXDATADIR='"/opt/user_software/coot/bin-gtk4/share"' -DCOOT_SYS_BUILD_TYPE='"Linux-x86_64-ubuntu-22.04.4-gtk4"' -DCOOT_BUILD_INFO_STRING='"build-host: gtxr1.srv-local.mpi-dortmund.mpg.de on: Mi 20 Mär 1759.36 CET 2024"' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/opt/user_software/coot/bin-gtk4/include/python3.11 -DHAVE_GSL -fopenmp -g -O -Wall -Wno-unused -std=c++17 -MT c-interface-widgets.lo -MD -MP -MF .deps/c-interface-widgets.Tpo -c -o c-interface-widgets.lo ../../coot/src/c-interface-widgets.cc libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" "-DPACKAGE_STRING=\"coot 1.x-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I../../coot/src -DUSE_PYTHON -mfpmath=sse -msse -msse2 -pthread -I/opt/user_software/coot/bin-gtk4/lib/libffi-3.2.1/include -I/usr/include/gtk-4.0 -I/usr/include/gio-unix-2.0 -I/usr/include/cairo -I/usr/include/pango-1.0 -I/usr/include/harfbuzz -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/harfbuzz -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/x86_64-linux-gnu -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/graphene-1.0 -I/usr/lib/x86_64-linux-gnu/graphene-1.0/include -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I../../coot -I/opt/user_software/coot/bin-gtk4/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/opt/user_software/coot/bin-gtk4/include -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -I/opt/user_software/coot/bin-gtk4/include -DHAVE_SSMLIB -I/opt/user_software/coot/bin-gtk4/include -DMMDB_HAS_LINK_DISTANCE -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DCLIPPER_HAS_TOP8000 -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR=\"/opt/user_software/coot/bin-gtk4/share/coot\" -DPACKAGE_LOCALE_DIR=\"/opt/user_software/coot/bin-gtk4/share/coot/locale\" -DPKGPYTHONDIR=\"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/coot\" -DPYTHONDIR=\"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages\" -DXDATADIR=\"/opt/user_software/coot/bin-gtk4/share\" -DCOOT_SYS_BUILD_TYPE=\"Linux-x86_64-ubuntu-22.04.4-gtk4\" "-DCOOT_BUILD_INFO_STRING=\"build-host: gtxr1.srv-local.mpi-dortmund.mpg.de on: Mi 20 Mär 1759.36 CET 2024\"" -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/opt/user_software/coot/bin-gtk4/include/python3.11 -DHAVE_GSL -fopenmp -g -O -Wall -Wno-unused -std=c++17 -MT c-interface-view.lo -MD -MP -MF .deps/c-interface-view.Tpo -c ../../coot/src/c-interface-view.cc -fPIC -DPIC -o .libs/c-interface-view.o In file included from ../../coot/MoleculesToTriangles/CXXClasses/RendererGLSL.hpp:31, from ../../coot/src/graphics-info.h:53, from ../../coot/src/c-interface-validate.cc:52: ../../coot/MoleculesToTriangles/CXXClasses/RendererGL.h:61: warning: ignoring ‘#pragma mark ’ [-Wunknown-pragmas] 61 | #pragma mark - | ../../coot/MoleculesToTriangles/CXXClasses/RendererGL.h:62: warning: ignoring ‘#pragma mark Debug’ [-Wunknown-pragmas] 62 | #pragma mark Debug routine | libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" "-DPACKAGE_STRING=\"coot 1.x-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I../../coot/src -DUSE_PYTHON -mfpmath=sse -msse -msse2 -pthread -I/opt/user_software/coot/bin-gtk4/lib/libffi-3.2.1/include -I/usr/include/gtk-4.0 -I/usr/include/gio-unix-2.0 -I/usr/include/cairo -I/usr/include/pango-1.0 -I/usr/include/harfbuzz -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/harfbuzz -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/x86_64-linux-gnu -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/graphene-1.0 -I/usr/lib/x86_64-linux-gnu/graphene-1.0/include -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I../../coot -I/opt/user_software/coot/bin-gtk4/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/opt/user_software/coot/bin-gtk4/include -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -I/opt/user_software/coot/bin-gtk4/include -DHAVE_SSMLIB -I/opt/user_software/coot/bin-gtk4/include -DMMDB_HAS_LINK_DISTANCE -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DCLIPPER_HAS_TOP8000 -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR=\"/opt/user_software/coot/bin-gtk4/share/coot\" -DPACKAGE_LOCALE_DIR=\"/opt/user_software/coot/bin-gtk4/share/coot/locale\" -DPKGPYTHONDIR=\"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/coot\" -DPYTHONDIR=\"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages\" -DXDATADIR=\"/opt/user_software/coot/bin-gtk4/share\" -DCOOT_SYS_BUILD_TYPE=\"Linux-x86_64-ubuntu-22.04.4-gtk4\" "-DCOOT_BUILD_INFO_STRING=\"build-host: gtxr1.srv-local.mpi-dortmund.mpg.de on: Mi 20 Mär 1759.36 CET 2024\"" -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/opt/user_software/coot/bin-gtk4/include/python3.11 -DHAVE_GSL -fopenmp -g -O -Wall -Wno-unused -std=c++17 -MT c-interface-widgets.lo -MD -MP -MF .deps/c-interface-widgets.Tpo -c ../../coot/src/c-interface-widgets.cc -fPIC -DPIC -o .libs/c-interface-widgets.o In file included from ../../coot/MoleculesToTriangles/CXXClasses/RendererGLSL.hpp:31, from ../../coot/src/graphics-info.h:53, from ../../coot/src/c-interface-view.cc:34: ../../coot/MoleculesToTriangles/CXXClasses/RendererGL.h:61: warning: ignoring ‘#pragma mark ’ [-Wunknown-pragmas] 61 | #pragma mark - | ../../coot/MoleculesToTriangles/CXXClasses/RendererGL.h:62: warning: ignoring ‘#pragma mark Debug’ [-Wunknown-pragmas] 62 | #pragma mark Debug routine | In file included from ../../coot/MoleculesToTriangles/CXXClasses/RendererGLSL.hpp:31, from ../../coot/src/graphics-info.h:53, from ../../coot/src/c-interface-widgets.cc:36: ../../coot/MoleculesToTriangles/CXXClasses/RendererGL.h:61: warning: ignoring ‘#pragma mark ’ [-Wunknown-pragmas] 61 | #pragma mark - | ../../coot/MoleculesToTriangles/CXXClasses/RendererGL.h:62: warning: ignoring ‘#pragma mark Debug’ [-Wunknown-pragmas] 62 | #pragma mark Debug routine | mv -f .deps/c-interface-scm.Tpo .deps/c-interface-scm.Plo /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" -DPACKAGE_STRING=\"coot\ 1.x-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I../../coot/src -DUSE_PYTHON -mfpmath=sse -msse -msse2 -pthread -I/opt/user_software/coot/bin-gtk4/lib/libffi-3.2.1/include -I/usr/include/gtk-4.0 -I/usr/include/gio-unix-2.0 -I/usr/include/cairo -I/usr/include/pango-1.0 -I/usr/include/harfbuzz -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/harfbuzz -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/x86_64-linux-gnu -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/graphene-1.0 -I/usr/lib/x86_64-linux-gnu/graphene-1.0/include -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I../../coot -I/opt/user_software/coot/bin-gtk4/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/opt/user_software/coot/bin-gtk4/include -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -I/opt/user_software/coot/bin-gtk4/include -DHAVE_SSMLIB -I/opt/user_software/coot/bin-gtk4/include -DMMDB_HAS_LINK_DISTANCE -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DCLIPPER_HAS_TOP8000 -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR='"/opt/user_software/coot/bin-gtk4/share/coot"' -DPACKAGE_LOCALE_DIR='"/opt/user_software/coot/bin-gtk4/share/coot/locale"' -DPKGPYTHONDIR='"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/coot"' -DPYTHONDIR='"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages"' -DXDATADIR='"/opt/user_software/coot/bin-gtk4/share"' -DCOOT_SYS_BUILD_TYPE='"Linux-x86_64-ubuntu-22.04.4-gtk4"' -DCOOT_BUILD_INFO_STRING='"build-host: gtxr1.srv-local.mpi-dortmund.mpg.de on: Mi 20 Mär 1759.36 CET 2024"' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/opt/user_software/coot/bin-gtk4/include/python3.11 -DHAVE_GSL -fopenmp -g -O -Wall -Wno-unused -std=c++17 -MT c-interface-waters.lo -MD -MP -MF .deps/c-interface-waters.Tpo -c -o c-interface-waters.lo ../../coot/src/c-interface-waters.cc mv -f .deps/simple-refmac.Tpo .deps/simple-refmac.Plo /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" -DPACKAGE_STRING=\"coot\ 1.x-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I../../coot/src -DUSE_PYTHON -mfpmath=sse -msse -msse2 -pthread -I/opt/user_software/coot/bin-gtk4/lib/libffi-3.2.1/include -I/usr/include/gtk-4.0 -I/usr/include/gio-unix-2.0 -I/usr/include/cairo -I/usr/include/pango-1.0 -I/usr/include/harfbuzz -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/harfbuzz -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/x86_64-linux-gnu -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/graphene-1.0 -I/usr/lib/x86_64-linux-gnu/graphene-1.0/include -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I../../coot -I/opt/user_software/coot/bin-gtk4/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/opt/user_software/coot/bin-gtk4/include -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -I/opt/user_software/coot/bin-gtk4/include -DHAVE_SSMLIB -I/opt/user_software/coot/bin-gtk4/include -DMMDB_HAS_LINK_DISTANCE -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DCLIPPER_HAS_TOP8000 -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR='"/opt/user_software/coot/bin-gtk4/share/coot"' -DPACKAGE_LOCALE_DIR='"/opt/user_software/coot/bin-gtk4/share/coot/locale"' -DPKGPYTHONDIR='"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/coot"' -DPYTHONDIR='"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages"' -DXDATADIR='"/opt/user_software/coot/bin-gtk4/share"' -DCOOT_SYS_BUILD_TYPE='"Linux-x86_64-ubuntu-22.04.4-gtk4"' -DCOOT_BUILD_INFO_STRING='"build-host: gtxr1.srv-local.mpi-dortmund.mpg.de on: Mi 20 Mär 1759.36 CET 2024"' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/opt/user_software/coot/bin-gtk4/include/python3.11 -DHAVE_GSL -fopenmp -g -O -Wall -Wno-unused -std=c++17 -MT c-interface-waters-gui.lo -MD -MP -MF .deps/c-interface-waters-gui.Tpo -c -o c-interface-waters-gui.lo ../../coot/src/c-interface-waters-gui.cc libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" "-DPACKAGE_STRING=\"coot 1.x-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I../../coot/src -DUSE_PYTHON -mfpmath=sse -msse -msse2 -pthread -I/opt/user_software/coot/bin-gtk4/lib/libffi-3.2.1/include -I/usr/include/gtk-4.0 -I/usr/include/gio-unix-2.0 -I/usr/include/cairo -I/usr/include/pango-1.0 -I/usr/include/harfbuzz -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/harfbuzz -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/x86_64-linux-gnu -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/graphene-1.0 -I/usr/lib/x86_64-linux-gnu/graphene-1.0/include -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I../../coot -I/opt/user_software/coot/bin-gtk4/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/opt/user_software/coot/bin-gtk4/include -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -I/opt/user_software/coot/bin-gtk4/include -DHAVE_SSMLIB -I/opt/user_software/coot/bin-gtk4/include -DMMDB_HAS_LINK_DISTANCE -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DCLIPPER_HAS_TOP8000 -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR=\"/opt/user_software/coot/bin-gtk4/share/coot\" -DPACKAGE_LOCALE_DIR=\"/opt/user_software/coot/bin-gtk4/share/coot/locale\" -DPKGPYTHONDIR=\"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/coot\" -DPYTHONDIR=\"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages\" -DXDATADIR=\"/opt/user_software/coot/bin-gtk4/share\" -DCOOT_SYS_BUILD_TYPE=\"Linux-x86_64-ubuntu-22.04.4-gtk4\" "-DCOOT_BUILD_INFO_STRING=\"build-host: gtxr1.srv-local.mpi-dortmund.mpg.de on: Mi 20 Mär 1759.36 CET 2024\"" -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/opt/user_software/coot/bin-gtk4/include/python3.11 -DHAVE_GSL -fopenmp -g -O -Wall -Wno-unused -std=c++17 -MT c-interface-waters.lo -MD -MP -MF .deps/c-interface-waters.Tpo -c ../../coot/src/c-interface-waters.cc -fPIC -DPIC -o .libs/c-interface-waters.o libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" "-DPACKAGE_STRING=\"coot 1.x-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I../../coot/src -DUSE_PYTHON -mfpmath=sse -msse -msse2 -pthread -I/opt/user_software/coot/bin-gtk4/lib/libffi-3.2.1/include -I/usr/include/gtk-4.0 -I/usr/include/gio-unix-2.0 -I/usr/include/cairo -I/usr/include/pango-1.0 -I/usr/include/harfbuzz -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/harfbuzz -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/x86_64-linux-gnu -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/graphene-1.0 -I/usr/lib/x86_64-linux-gnu/graphene-1.0/include -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I../../coot -I/opt/user_software/coot/bin-gtk4/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/opt/user_software/coot/bin-gtk4/include -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -I/opt/user_software/coot/bin-gtk4/include -DHAVE_SSMLIB -I/opt/user_software/coot/bin-gtk4/include -DMMDB_HAS_LINK_DISTANCE -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DCLIPPER_HAS_TOP8000 -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR=\"/opt/user_software/coot/bin-gtk4/share/coot\" -DPACKAGE_LOCALE_DIR=\"/opt/user_software/coot/bin-gtk4/share/coot/locale\" -DPKGPYTHONDIR=\"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/coot\" -DPYTHONDIR=\"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages\" -DXDATADIR=\"/opt/user_software/coot/bin-gtk4/share\" -DCOOT_SYS_BUILD_TYPE=\"Linux-x86_64-ubuntu-22.04.4-gtk4\" "-DCOOT_BUILD_INFO_STRING=\"build-host: gtxr1.srv-local.mpi-dortmund.mpg.de on: Mi 20 Mär 1759.36 CET 2024\"" -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/opt/user_software/coot/bin-gtk4/include/python3.11 -DHAVE_GSL -fopenmp -g -O -Wall -Wno-unused -std=c++17 -MT c-interface-waters-gui.lo -MD -MP -MF .deps/c-interface-waters-gui.Tpo -c ../../coot/src/c-interface-waters-gui.cc -fPIC -DPIC -o .libs/c-interface-waters-gui.o In file included from ../../coot/MoleculesToTriangles/CXXClasses/RendererGLSL.hpp:31, from ../../coot/src/graphics-info.h:53, from ../../coot/src/c-interface-waters-gui.cc:50: ../../coot/MoleculesToTriangles/CXXClasses/RendererGL.h:61: warning: ignoring ‘#pragma mark ’ [-Wunknown-pragmas] 61 | #pragma mark - | ../../coot/MoleculesToTriangles/CXXClasses/RendererGL.h:62: warning: ignoring ‘#pragma mark Debug’ [-Wunknown-pragmas] 62 | #pragma mark Debug routine | In file included from ../../coot/MoleculesToTriangles/CXXClasses/RendererGLSL.hpp:31, from ../../coot/src/graphics-info.h:53, from ../../coot/src/c-interface-waters.cc:51: ../../coot/MoleculesToTriangles/CXXClasses/RendererGL.h:61: warning: ignoring ‘#pragma mark ’ [-Wunknown-pragmas] 61 | #pragma mark - | ../../coot/MoleculesToTriangles/CXXClasses/RendererGL.h:62: warning: ignoring ‘#pragma mark Debug’ [-Wunknown-pragmas] 62 | #pragma mark Debug routine | mv -f .deps/c-interface-sequence.Tpo .deps/c-interface-sequence.Plo /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" -DPACKAGE_STRING=\"coot\ 1.x-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I../../coot/src -DUSE_PYTHON -mfpmath=sse -msse -msse2 -pthread -I/opt/user_software/coot/bin-gtk4/lib/libffi-3.2.1/include -I/usr/include/gtk-4.0 -I/usr/include/gio-unix-2.0 -I/usr/include/cairo -I/usr/include/pango-1.0 -I/usr/include/harfbuzz -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/harfbuzz -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/x86_64-linux-gnu -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/graphene-1.0 -I/usr/lib/x86_64-linux-gnu/graphene-1.0/include -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I../../coot -I/opt/user_software/coot/bin-gtk4/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/opt/user_software/coot/bin-gtk4/include -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -I/opt/user_software/coot/bin-gtk4/include -DHAVE_SSMLIB -I/opt/user_software/coot/bin-gtk4/include -DMMDB_HAS_LINK_DISTANCE -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DCLIPPER_HAS_TOP8000 -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR='"/opt/user_software/coot/bin-gtk4/share/coot"' -DPACKAGE_LOCALE_DIR='"/opt/user_software/coot/bin-gtk4/share/coot/locale"' -DPKGPYTHONDIR='"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/coot"' -DPYTHONDIR='"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages"' -DXDATADIR='"/opt/user_software/coot/bin-gtk4/share"' -DCOOT_SYS_BUILD_TYPE='"Linux-x86_64-ubuntu-22.04.4-gtk4"' -DCOOT_BUILD_INFO_STRING='"build-host: gtxr1.srv-local.mpi-dortmund.mpg.de on: Mi 20 Mär 1759.36 CET 2024"' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/opt/user_software/coot/bin-gtk4/include/python3.11 -DHAVE_GSL -fopenmp -g -O -Wall -Wno-unused -std=c++17 -MT c-interface.lo -MD -MP -MF .deps/c-interface.Tpo -c -o c-interface.lo ../../coot/src/c-interface.cc libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" "-DPACKAGE_STRING=\"coot 1.x-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I../../coot/src -DUSE_PYTHON -mfpmath=sse -msse -msse2 -pthread -I/opt/user_software/coot/bin-gtk4/lib/libffi-3.2.1/include -I/usr/include/gtk-4.0 -I/usr/include/gio-unix-2.0 -I/usr/include/cairo -I/usr/include/pango-1.0 -I/usr/include/harfbuzz -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/harfbuzz -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/x86_64-linux-gnu -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/graphene-1.0 -I/usr/lib/x86_64-linux-gnu/graphene-1.0/include -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I../../coot -I/opt/user_software/coot/bin-gtk4/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/opt/user_software/coot/bin-gtk4/include -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -I/opt/user_software/coot/bin-gtk4/include -DHAVE_SSMLIB -I/opt/user_software/coot/bin-gtk4/include -DMMDB_HAS_LINK_DISTANCE -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DCLIPPER_HAS_TOP8000 -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR=\"/opt/user_software/coot/bin-gtk4/share/coot\" -DPACKAGE_LOCALE_DIR=\"/opt/user_software/coot/bin-gtk4/share/coot/locale\" -DPKGPYTHONDIR=\"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/coot\" -DPYTHONDIR=\"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages\" -DXDATADIR=\"/opt/user_software/coot/bin-gtk4/share\" -DCOOT_SYS_BUILD_TYPE=\"Linux-x86_64-ubuntu-22.04.4-gtk4\" "-DCOOT_BUILD_INFO_STRING=\"build-host: gtxr1.srv-local.mpi-dortmund.mpg.de on: Mi 20 Mär 1759.36 CET 2024\"" -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/opt/user_software/coot/bin-gtk4/include/python3.11 -DHAVE_GSL -fopenmp -g -O -Wall -Wno-unused -std=c++17 -MT c-interface.lo -MD -MP -MF .deps/c-interface.Tpo -c ../../coot/src/c-interface.cc -fPIC -DPIC -o .libs/c-interface.o In file included from ../../coot/MoleculesToTriangles/CXXClasses/RendererGLSL.hpp:31, from ../../coot/src/graphics-info.h:53, from ../../coot/src/c-interface.cc:102: ../../coot/MoleculesToTriangles/CXXClasses/RendererGL.h:61: warning: ignoring ‘#pragma mark ’ [-Wunknown-pragmas] 61 | #pragma mark - | ../../coot/MoleculesToTriangles/CXXClasses/RendererGL.h:62: warning: ignoring ‘#pragma mark Debug’ [-Wunknown-pragmas] 62 | #pragma mark Debug routine | mv -f .deps/c-interface-sharpen.Tpo .deps/c-interface-sharpen.Plo /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" -DPACKAGE_STRING=\"coot\ 1.x-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I../../coot/src -DUSE_PYTHON -mfpmath=sse -msse -msse2 -pthread -I/opt/user_software/coot/bin-gtk4/lib/libffi-3.2.1/include -I/usr/include/gtk-4.0 -I/usr/include/gio-unix-2.0 -I/usr/include/cairo -I/usr/include/pango-1.0 -I/usr/include/harfbuzz -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/harfbuzz -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/x86_64-linux-gnu -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/graphene-1.0 -I/usr/lib/x86_64-linux-gnu/graphene-1.0/include -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I../../coot -I/opt/user_software/coot/bin-gtk4/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/opt/user_software/coot/bin-gtk4/include -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -I/opt/user_software/coot/bin-gtk4/include -DHAVE_SSMLIB -I/opt/user_software/coot/bin-gtk4/include -DMMDB_HAS_LINK_DISTANCE -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DCLIPPER_HAS_TOP8000 -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR='"/opt/user_software/coot/bin-gtk4/share/coot"' -DPACKAGE_LOCALE_DIR='"/opt/user_software/coot/bin-gtk4/share/coot/locale"' -DPKGPYTHONDIR='"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/coot"' -DPYTHONDIR='"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages"' -DXDATADIR='"/opt/user_software/coot/bin-gtk4/share"' -DCOOT_SYS_BUILD_TYPE='"Linux-x86_64-ubuntu-22.04.4-gtk4"' -DCOOT_BUILD_INFO_STRING='"build-host: gtxr1.srv-local.mpi-dortmund.mpg.de on: Mi 20 Mär 1759.36 CET 2024"' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/opt/user_software/coot/bin-gtk4/include/python3.11 -DHAVE_GSL -fopenmp -g -O -Wall -Wno-unused -std=c++17 -MT c-interface-test.lo -MD -MP -MF .deps/c-interface-test.Tpo -c -o c-interface-test.lo ../../coot/src/c-interface-test.cc libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" "-DPACKAGE_STRING=\"coot 1.x-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I../../coot/src -DUSE_PYTHON -mfpmath=sse -msse -msse2 -pthread -I/opt/user_software/coot/bin-gtk4/lib/libffi-3.2.1/include -I/usr/include/gtk-4.0 -I/usr/include/gio-unix-2.0 -I/usr/include/cairo -I/usr/include/pango-1.0 -I/usr/include/harfbuzz -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/harfbuzz -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/x86_64-linux-gnu -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/graphene-1.0 -I/usr/lib/x86_64-linux-gnu/graphene-1.0/include -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I../../coot -I/opt/user_software/coot/bin-gtk4/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/opt/user_software/coot/bin-gtk4/include -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -I/opt/user_software/coot/bin-gtk4/include -DHAVE_SSMLIB -I/opt/user_software/coot/bin-gtk4/include -DMMDB_HAS_LINK_DISTANCE -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DCLIPPER_HAS_TOP8000 -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR=\"/opt/user_software/coot/bin-gtk4/share/coot\" -DPACKAGE_LOCALE_DIR=\"/opt/user_software/coot/bin-gtk4/share/coot/locale\" -DPKGPYTHONDIR=\"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/coot\" -DPYTHONDIR=\"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages\" -DXDATADIR=\"/opt/user_software/coot/bin-gtk4/share\" -DCOOT_SYS_BUILD_TYPE=\"Linux-x86_64-ubuntu-22.04.4-gtk4\" "-DCOOT_BUILD_INFO_STRING=\"build-host: gtxr1.srv-local.mpi-dortmund.mpg.de on: Mi 20 Mär 1759.36 CET 2024\"" -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/opt/user_software/coot/bin-gtk4/include/python3.11 -DHAVE_GSL -fopenmp -g -O -Wall -Wno-unused -std=c++17 -MT c-interface-test.lo -MD -MP -MF .deps/c-interface-test.Tpo -c ../../coot/src/c-interface-test.cc -fPIC -DPIC -o .libs/c-interface-test.o mv -f .deps/c-interface-superpose.Tpo .deps/c-interface-superpose.Plo /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" -DPACKAGE_STRING=\"coot\ 1.x-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I../../coot/src -DUSE_PYTHON -mfpmath=sse -msse -msse2 -pthread -I/opt/user_software/coot/bin-gtk4/lib/libffi-3.2.1/include -I/usr/include/gtk-4.0 -I/usr/include/gio-unix-2.0 -I/usr/include/cairo -I/usr/include/pango-1.0 -I/usr/include/harfbuzz -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/harfbuzz -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/x86_64-linux-gnu -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/graphene-1.0 -I/usr/lib/x86_64-linux-gnu/graphene-1.0/include -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I../../coot -I/opt/user_software/coot/bin-gtk4/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/opt/user_software/coot/bin-gtk4/include -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -I/opt/user_software/coot/bin-gtk4/include -DHAVE_SSMLIB -I/opt/user_software/coot/bin-gtk4/include -DMMDB_HAS_LINK_DISTANCE -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DCLIPPER_HAS_TOP8000 -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR='"/opt/user_software/coot/bin-gtk4/share/coot"' -DPACKAGE_LOCALE_DIR='"/opt/user_software/coot/bin-gtk4/share/coot/locale"' -DPKGPYTHONDIR='"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/coot"' -DPYTHONDIR='"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages"' -DXDATADIR='"/opt/user_software/coot/bin-gtk4/share"' -DCOOT_SYS_BUILD_TYPE='"Linux-x86_64-ubuntu-22.04.4-gtk4"' -DCOOT_BUILD_INFO_STRING='"build-host: gtxr1.srv-local.mpi-dortmund.mpg.de on: Mi 20 Mär 1759.36 CET 2024"' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/opt/user_software/coot/bin-gtk4/include/python3.11 -DHAVE_GSL -fopenmp -g -O -Wall -Wno-unused -std=c++17 -MT cc-interface-alignment.lo -MD -MP -MF .deps/cc-interface-alignment.Tpo -c -o cc-interface-alignment.lo ../../coot/src/cc-interface-alignment.cc In file included from ../../coot/MoleculesToTriangles/CXXClasses/RendererGLSL.hpp:31, from ../../coot/src/graphics-info.h:53, from ../../coot/src/c-interface-test.cc:102: ../../coot/MoleculesToTriangles/CXXClasses/RendererGL.h:61: warning: ignoring ‘#pragma mark ’ [-Wunknown-pragmas] 61 | #pragma mark - | ../../coot/MoleculesToTriangles/CXXClasses/RendererGL.h:62: warning: ignoring ‘#pragma mark Debug’ [-Wunknown-pragmas] 62 | #pragma mark Debug routine | libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" "-DPACKAGE_STRING=\"coot 1.x-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I../../coot/src -DUSE_PYTHON -mfpmath=sse -msse -msse2 -pthread -I/opt/user_software/coot/bin-gtk4/lib/libffi-3.2.1/include -I/usr/include/gtk-4.0 -I/usr/include/gio-unix-2.0 -I/usr/include/cairo -I/usr/include/pango-1.0 -I/usr/include/harfbuzz -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/harfbuzz -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/x86_64-linux-gnu -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/graphene-1.0 -I/usr/lib/x86_64-linux-gnu/graphene-1.0/include -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I../../coot -I/opt/user_software/coot/bin-gtk4/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/opt/user_software/coot/bin-gtk4/include -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -I/opt/user_software/coot/bin-gtk4/include -DHAVE_SSMLIB -I/opt/user_software/coot/bin-gtk4/include -DMMDB_HAS_LINK_DISTANCE -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DCLIPPER_HAS_TOP8000 -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR=\"/opt/user_software/coot/bin-gtk4/share/coot\" -DPACKAGE_LOCALE_DIR=\"/opt/user_software/coot/bin-gtk4/share/coot/locale\" -DPKGPYTHONDIR=\"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/coot\" -DPYTHONDIR=\"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages\" -DXDATADIR=\"/opt/user_software/coot/bin-gtk4/share\" -DCOOT_SYS_BUILD_TYPE=\"Linux-x86_64-ubuntu-22.04.4-gtk4\" "-DCOOT_BUILD_INFO_STRING=\"build-host: gtxr1.srv-local.mpi-dortmund.mpg.de on: Mi 20 Mär 1759.36 CET 2024\"" -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/opt/user_software/coot/bin-gtk4/include/python3.11 -DHAVE_GSL -fopenmp -g -O -Wall -Wno-unused -std=c++17 -MT cc-interface-alignment.lo -MD -MP -MF .deps/cc-interface-alignment.Tpo -c ../../coot/src/cc-interface-alignment.cc -fPIC -DPIC -o .libs/cc-interface-alignment.o In file included from ../../coot/MoleculesToTriangles/CXXClasses/RendererGLSL.hpp:31, from ../../coot/src/graphics-info.h:53, from ../../coot/src/cc-interface-alignment.cc:16: ../../coot/MoleculesToTriangles/CXXClasses/RendererGL.h:61: warning: ignoring ‘#pragma mark ’ [-Wunknown-pragmas] 61 | #pragma mark - | ../../coot/MoleculesToTriangles/CXXClasses/RendererGL.h:62: warning: ignoring ‘#pragma mark Debug’ [-Wunknown-pragmas] 62 | #pragma mark Debug routine | mv -f .deps/c-interface-widgets.Tpo .deps/c-interface-widgets.Plo /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" -DPACKAGE_STRING=\"coot\ 1.x-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I../../coot/src -DUSE_PYTHON -mfpmath=sse -msse -msse2 -pthread -I/opt/user_software/coot/bin-gtk4/lib/libffi-3.2.1/include -I/usr/include/gtk-4.0 -I/usr/include/gio-unix-2.0 -I/usr/include/cairo -I/usr/include/pango-1.0 -I/usr/include/harfbuzz -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/harfbuzz -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/x86_64-linux-gnu -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/graphene-1.0 -I/usr/lib/x86_64-linux-gnu/graphene-1.0/include -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I../../coot -I/opt/user_software/coot/bin-gtk4/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/opt/user_software/coot/bin-gtk4/include -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -I/opt/user_software/coot/bin-gtk4/include -DHAVE_SSMLIB -I/opt/user_software/coot/bin-gtk4/include -DMMDB_HAS_LINK_DISTANCE -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DCLIPPER_HAS_TOP8000 -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR='"/opt/user_software/coot/bin-gtk4/share/coot"' -DPACKAGE_LOCALE_DIR='"/opt/user_software/coot/bin-gtk4/share/coot/locale"' -DPKGPYTHONDIR='"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/coot"' -DPYTHONDIR='"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages"' -DXDATADIR='"/opt/user_software/coot/bin-gtk4/share"' -DCOOT_SYS_BUILD_TYPE='"Linux-x86_64-ubuntu-22.04.4-gtk4"' -DCOOT_BUILD_INFO_STRING='"build-host: gtxr1.srv-local.mpi-dortmund.mpg.de on: Mi 20 Mär 1759.36 CET 2024"' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/opt/user_software/coot/bin-gtk4/include/python3.11 -DHAVE_GSL -fopenmp -g -O -Wall -Wno-unused -std=c++17 -MT cc-interface-graphics.lo -MD -MP -MF .deps/cc-interface-graphics.Tpo -c -o cc-interface-graphics.lo ../../coot/src/cc-interface-graphics.cc libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" "-DPACKAGE_STRING=\"coot 1.x-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I../../coot/src -DUSE_PYTHON -mfpmath=sse -msse -msse2 -pthread -I/opt/user_software/coot/bin-gtk4/lib/libffi-3.2.1/include -I/usr/include/gtk-4.0 -I/usr/include/gio-unix-2.0 -I/usr/include/cairo -I/usr/include/pango-1.0 -I/usr/include/harfbuzz -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/harfbuzz -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/x86_64-linux-gnu -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/graphene-1.0 -I/usr/lib/x86_64-linux-gnu/graphene-1.0/include -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I../../coot -I/opt/user_software/coot/bin-gtk4/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/opt/user_software/coot/bin-gtk4/include -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -I/opt/user_software/coot/bin-gtk4/include -DHAVE_SSMLIB -I/opt/user_software/coot/bin-gtk4/include -DMMDB_HAS_LINK_DISTANCE -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DCLIPPER_HAS_TOP8000 -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR=\"/opt/user_software/coot/bin-gtk4/share/coot\" -DPACKAGE_LOCALE_DIR=\"/opt/user_software/coot/bin-gtk4/share/coot/locale\" -DPKGPYTHONDIR=\"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/coot\" -DPYTHONDIR=\"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages\" -DXDATADIR=\"/opt/user_software/coot/bin-gtk4/share\" -DCOOT_SYS_BUILD_TYPE=\"Linux-x86_64-ubuntu-22.04.4-gtk4\" "-DCOOT_BUILD_INFO_STRING=\"build-host: gtxr1.srv-local.mpi-dortmund.mpg.de on: Mi 20 Mär 1759.36 CET 2024\"" -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/opt/user_software/coot/bin-gtk4/include/python3.11 -DHAVE_GSL -fopenmp -g -O -Wall -Wno-unused -std=c++17 -MT cc-interface-graphics.lo -MD -MP -MF .deps/cc-interface-graphics.Tpo -c ../../coot/src/cc-interface-graphics.cc -fPIC -DPIC -o .libs/cc-interface-graphics.o In file included from ../../coot/MoleculesToTriangles/CXXClasses/RendererGLSL.hpp:31, from ../../coot/src/graphics-info.h:53, from ../../coot/src/cc-interface-graphics.cc:6: ../../coot/MoleculesToTriangles/CXXClasses/RendererGL.h:61: warning: ignoring ‘#pragma mark ’ [-Wunknown-pragmas] 61 | #pragma mark - | ../../coot/MoleculesToTriangles/CXXClasses/RendererGL.h:62: warning: ignoring ‘#pragma mark Debug’ [-Wunknown-pragmas] 62 | #pragma mark Debug routine | mv -f .deps/c-interface-view.Tpo .deps/c-interface-view.Plo /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" -DPACKAGE_STRING=\"coot\ 1.x-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I../../coot/src -DUSE_PYTHON -mfpmath=sse -msse -msse2 -pthread -I/opt/user_software/coot/bin-gtk4/lib/libffi-3.2.1/include -I/usr/include/gtk-4.0 -I/usr/include/gio-unix-2.0 -I/usr/include/cairo -I/usr/include/pango-1.0 -I/usr/include/harfbuzz -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/harfbuzz -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/x86_64-linux-gnu -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/graphene-1.0 -I/usr/lib/x86_64-linux-gnu/graphene-1.0/include -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I../../coot -I/opt/user_software/coot/bin-gtk4/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/opt/user_software/coot/bin-gtk4/include -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -I/opt/user_software/coot/bin-gtk4/include -DHAVE_SSMLIB -I/opt/user_software/coot/bin-gtk4/include -DMMDB_HAS_LINK_DISTANCE -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DCLIPPER_HAS_TOP8000 -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR='"/opt/user_software/coot/bin-gtk4/share/coot"' -DPACKAGE_LOCALE_DIR='"/opt/user_software/coot/bin-gtk4/share/coot/locale"' -DPKGPYTHONDIR='"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/coot"' -DPYTHONDIR='"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages"' -DXDATADIR='"/opt/user_software/coot/bin-gtk4/share"' -DCOOT_SYS_BUILD_TYPE='"Linux-x86_64-ubuntu-22.04.4-gtk4"' -DCOOT_BUILD_INFO_STRING='"build-host: gtxr1.srv-local.mpi-dortmund.mpg.de on: Mi 20 Mär 1759.36 CET 2024"' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/opt/user_software/coot/bin-gtk4/include/python3.11 -DHAVE_GSL -fopenmp -g -O -Wall -Wno-unused -std=c++17 -MT cc-interface-merge.lo -MD -MP -MF .deps/cc-interface-merge.Tpo -c -o cc-interface-merge.lo ../../coot/src/cc-interface-merge.cc mv -f .deps/c-interface-validate.Tpo .deps/c-interface-validate.Plo /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" -DPACKAGE_STRING=\"coot\ 1.x-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I../../coot/src -DUSE_PYTHON -mfpmath=sse -msse -msse2 -pthread -I/opt/user_software/coot/bin-gtk4/lib/libffi-3.2.1/include -I/usr/include/gtk-4.0 -I/usr/include/gio-unix-2.0 -I/usr/include/cairo -I/usr/include/pango-1.0 -I/usr/include/harfbuzz -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/harfbuzz -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/x86_64-linux-gnu -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/graphene-1.0 -I/usr/lib/x86_64-linux-gnu/graphene-1.0/include -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I../../coot -I/opt/user_software/coot/bin-gtk4/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/opt/user_software/coot/bin-gtk4/include -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -I/opt/user_software/coot/bin-gtk4/include -DHAVE_SSMLIB -I/opt/user_software/coot/bin-gtk4/include -DMMDB_HAS_LINK_DISTANCE -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DCLIPPER_HAS_TOP8000 -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR='"/opt/user_software/coot/bin-gtk4/share/coot"' -DPACKAGE_LOCALE_DIR='"/opt/user_software/coot/bin-gtk4/share/coot/locale"' -DPKGPYTHONDIR='"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/coot"' -DPYTHONDIR='"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages"' -DXDATADIR='"/opt/user_software/coot/bin-gtk4/share"' -DCOOT_SYS_BUILD_TYPE='"Linux-x86_64-ubuntu-22.04.4-gtk4"' -DCOOT_BUILD_INFO_STRING='"build-host: gtxr1.srv-local.mpi-dortmund.mpg.de on: Mi 20 Mär 1759.36 CET 2024"' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/opt/user_software/coot/bin-gtk4/include/python3.11 -DHAVE_GSL -fopenmp -g -O -Wall -Wno-unused -std=c++17 -MT cc-interface-molecular-representation.lo -MD -MP -MF .deps/cc-interface-molecular-representation.Tpo -c -o cc-interface-molecular-representation.lo ../../coot/src/cc-interface-molecular-representation.cc mv -f .deps/c-interface-waters-gui.Tpo .deps/c-interface-waters-gui.Plo /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" -DPACKAGE_STRING=\"coot\ 1.x-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I../../coot/src -DUSE_PYTHON -mfpmath=sse -msse -msse2 -pthread -I/opt/user_software/coot/bin-gtk4/lib/libffi-3.2.1/include -I/usr/include/gtk-4.0 -I/usr/include/gio-unix-2.0 -I/usr/include/cairo -I/usr/include/pango-1.0 -I/usr/include/harfbuzz -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/harfbuzz -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/x86_64-linux-gnu -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/graphene-1.0 -I/usr/lib/x86_64-linux-gnu/graphene-1.0/include -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I../../coot -I/opt/user_software/coot/bin-gtk4/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/opt/user_software/coot/bin-gtk4/include -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -I/opt/user_software/coot/bin-gtk4/include -DHAVE_SSMLIB -I/opt/user_software/coot/bin-gtk4/include -DMMDB_HAS_LINK_DISTANCE -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DCLIPPER_HAS_TOP8000 -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR='"/opt/user_software/coot/bin-gtk4/share/coot"' -DPACKAGE_LOCALE_DIR='"/opt/user_software/coot/bin-gtk4/share/coot/locale"' -DPKGPYTHONDIR='"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/coot"' -DPYTHONDIR='"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages"' -DXDATADIR='"/opt/user_software/coot/bin-gtk4/share"' -DCOOT_SYS_BUILD_TYPE='"Linux-x86_64-ubuntu-22.04.4-gtk4"' -DCOOT_BUILD_INFO_STRING='"build-host: gtxr1.srv-local.mpi-dortmund.mpg.de on: Mi 20 Mär 1759.36 CET 2024"' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/opt/user_software/coot/bin-gtk4/include/python3.11 -DHAVE_GSL -fopenmp -g -O -Wall -Wno-unused -std=c++17 -MT cc-interface-molecular-symmetry.lo -MD -MP -MF .deps/cc-interface-molecular-symmetry.Tpo -c -o cc-interface-molecular-symmetry.lo ../../coot/src/cc-interface-molecular-symmetry.cc libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" "-DPACKAGE_STRING=\"coot 1.x-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I../../coot/src -DUSE_PYTHON -mfpmath=sse -msse -msse2 -pthread -I/opt/user_software/coot/bin-gtk4/lib/libffi-3.2.1/include -I/usr/include/gtk-4.0 -I/usr/include/gio-unix-2.0 -I/usr/include/cairo -I/usr/include/pango-1.0 -I/usr/include/harfbuzz -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/harfbuzz -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/x86_64-linux-gnu -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/graphene-1.0 -I/usr/lib/x86_64-linux-gnu/graphene-1.0/include -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I../../coot -I/opt/user_software/coot/bin-gtk4/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/opt/user_software/coot/bin-gtk4/include -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -I/opt/user_software/coot/bin-gtk4/include -DHAVE_SSMLIB -I/opt/user_software/coot/bin-gtk4/include -DMMDB_HAS_LINK_DISTANCE -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DCLIPPER_HAS_TOP8000 -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR=\"/opt/user_software/coot/bin-gtk4/share/coot\" -DPACKAGE_LOCALE_DIR=\"/opt/user_software/coot/bin-gtk4/share/coot/locale\" -DPKGPYTHONDIR=\"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/coot\" -DPYTHONDIR=\"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages\" -DXDATADIR=\"/opt/user_software/coot/bin-gtk4/share\" -DCOOT_SYS_BUILD_TYPE=\"Linux-x86_64-ubuntu-22.04.4-gtk4\" "-DCOOT_BUILD_INFO_STRING=\"build-host: gtxr1.srv-local.mpi-dortmund.mpg.de on: Mi 20 Mär 1759.36 CET 2024\"" -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/opt/user_software/coot/bin-gtk4/include/python3.11 -DHAVE_GSL -fopenmp -g -O -Wall -Wno-unused -std=c++17 -MT cc-interface-merge.lo -MD -MP -MF .deps/cc-interface-merge.Tpo -c ../../coot/src/cc-interface-merge.cc -fPIC -DPIC -o .libs/cc-interface-merge.o libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" "-DPACKAGE_STRING=\"coot 1.x-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I../../coot/src -DUSE_PYTHON -mfpmath=sse -msse -msse2 -pthread -I/opt/user_software/coot/bin-gtk4/lib/libffi-3.2.1/include -I/usr/include/gtk-4.0 -I/usr/include/gio-unix-2.0 -I/usr/include/cairo -I/usr/include/pango-1.0 -I/usr/include/harfbuzz -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/harfbuzz -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/x86_64-linux-gnu -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/graphene-1.0 -I/usr/lib/x86_64-linux-gnu/graphene-1.0/include -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I../../coot -I/opt/user_software/coot/bin-gtk4/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/opt/user_software/coot/bin-gtk4/include -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -I/opt/user_software/coot/bin-gtk4/include -DHAVE_SSMLIB -I/opt/user_software/coot/bin-gtk4/include -DMMDB_HAS_LINK_DISTANCE -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DCLIPPER_HAS_TOP8000 -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR=\"/opt/user_software/coot/bin-gtk4/share/coot\" -DPACKAGE_LOCALE_DIR=\"/opt/user_software/coot/bin-gtk4/share/coot/locale\" -DPKGPYTHONDIR=\"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/coot\" -DPYTHONDIR=\"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages\" -DXDATADIR=\"/opt/user_software/coot/bin-gtk4/share\" -DCOOT_SYS_BUILD_TYPE=\"Linux-x86_64-ubuntu-22.04.4-gtk4\" "-DCOOT_BUILD_INFO_STRING=\"build-host: gtxr1.srv-local.mpi-dortmund.mpg.de on: Mi 20 Mär 1759.36 CET 2024\"" -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/opt/user_software/coot/bin-gtk4/include/python3.11 -DHAVE_GSL -fopenmp -g -O -Wall -Wno-unused -std=c++17 -MT cc-interface-molecular-representation.lo -MD -MP -MF .deps/cc-interface-molecular-representation.Tpo -c ../../coot/src/cc-interface-molecular-representation.cc -fPIC -DPIC -o .libs/cc-interface-molecular-representation.o libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" "-DPACKAGE_STRING=\"coot 1.x-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I../../coot/src -DUSE_PYTHON -mfpmath=sse -msse -msse2 -pthread -I/opt/user_software/coot/bin-gtk4/lib/libffi-3.2.1/include -I/usr/include/gtk-4.0 -I/usr/include/gio-unix-2.0 -I/usr/include/cairo -I/usr/include/pango-1.0 -I/usr/include/harfbuzz -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/harfbuzz -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/x86_64-linux-gnu -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/graphene-1.0 -I/usr/lib/x86_64-linux-gnu/graphene-1.0/include -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I../../coot -I/opt/user_software/coot/bin-gtk4/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/opt/user_software/coot/bin-gtk4/include -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -I/opt/user_software/coot/bin-gtk4/include -DHAVE_SSMLIB -I/opt/user_software/coot/bin-gtk4/include -DMMDB_HAS_LINK_DISTANCE -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DCLIPPER_HAS_TOP8000 -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR=\"/opt/user_software/coot/bin-gtk4/share/coot\" -DPACKAGE_LOCALE_DIR=\"/opt/user_software/coot/bin-gtk4/share/coot/locale\" -DPKGPYTHONDIR=\"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/coot\" -DPYTHONDIR=\"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages\" -DXDATADIR=\"/opt/user_software/coot/bin-gtk4/share\" -DCOOT_SYS_BUILD_TYPE=\"Linux-x86_64-ubuntu-22.04.4-gtk4\" "-DCOOT_BUILD_INFO_STRING=\"build-host: gtxr1.srv-local.mpi-dortmund.mpg.de on: Mi 20 Mär 1759.36 CET 2024\"" -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/opt/user_software/coot/bin-gtk4/include/python3.11 -DHAVE_GSL -fopenmp -g -O -Wall -Wno-unused -std=c++17 -MT cc-interface-molecular-symmetry.lo -MD -MP -MF .deps/cc-interface-molecular-symmetry.Tpo -c ../../coot/src/cc-interface-molecular-symmetry.cc -fPIC -DPIC -o .libs/cc-interface-molecular-symmetry.o In file included from ../../coot/MoleculesToTriangles/CXXClasses/RendererGLSL.hpp:31, from ../../coot/src/graphics-info.h:53, from ../../coot/src/cc-interface-merge.cc:13: ../../coot/MoleculesToTriangles/CXXClasses/RendererGL.h:61: warning: ignoring ‘#pragma mark ’ [-Wunknown-pragmas] 61 | #pragma mark - | ../../coot/MoleculesToTriangles/CXXClasses/RendererGL.h:62: warning: ignoring ‘#pragma mark Debug’ [-Wunknown-pragmas] 62 | #pragma mark Debug routine | In file included from ../../coot/MoleculesToTriangles/CXXClasses/RendererGLSL.hpp:31, from ../../coot/src/graphics-info.h:53, from ../../coot/src/cc-interface-molecular-representation.cc:12: ../../coot/MoleculesToTriangles/CXXClasses/RendererGL.h:61: warning: ignoring ‘#pragma mark ’ [-Wunknown-pragmas] 61 | #pragma mark - | ../../coot/MoleculesToTriangles/CXXClasses/RendererGL.h:62: warning: ignoring ‘#pragma mark Debug’ [-Wunknown-pragmas] 62 | #pragma mark Debug routine | In file included from ../../coot/MoleculesToTriangles/CXXClasses/RendererGLSL.hpp:31, from ../../coot/src/graphics-info.h:53, from ../../coot/src/cc-interface-molecular-symmetry.cc:12: ../../coot/MoleculesToTriangles/CXXClasses/RendererGL.h:61: warning: ignoring ‘#pragma mark ’ [-Wunknown-pragmas] 61 | #pragma mark - | ../../coot/MoleculesToTriangles/CXXClasses/RendererGL.h:62: warning: ignoring ‘#pragma mark Debug’ [-Wunknown-pragmas] 62 | #pragma mark Debug routine | mv -f .deps/c-interface-waters.Tpo .deps/c-interface-waters.Plo /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" -DPACKAGE_STRING=\"coot\ 1.x-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I../../coot/src -DUSE_PYTHON -mfpmath=sse -msse -msse2 -pthread -I/opt/user_software/coot/bin-gtk4/lib/libffi-3.2.1/include -I/usr/include/gtk-4.0 -I/usr/include/gio-unix-2.0 -I/usr/include/cairo -I/usr/include/pango-1.0 -I/usr/include/harfbuzz -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/harfbuzz -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/x86_64-linux-gnu -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/graphene-1.0 -I/usr/lib/x86_64-linux-gnu/graphene-1.0/include -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I../../coot -I/opt/user_software/coot/bin-gtk4/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/opt/user_software/coot/bin-gtk4/include -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -I/opt/user_software/coot/bin-gtk4/include -DHAVE_SSMLIB -I/opt/user_software/coot/bin-gtk4/include -DMMDB_HAS_LINK_DISTANCE -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DCLIPPER_HAS_TOP8000 -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR='"/opt/user_software/coot/bin-gtk4/share/coot"' -DPACKAGE_LOCALE_DIR='"/opt/user_software/coot/bin-gtk4/share/coot/locale"' -DPKGPYTHONDIR='"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/coot"' -DPYTHONDIR='"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages"' -DXDATADIR='"/opt/user_software/coot/bin-gtk4/share"' -DCOOT_SYS_BUILD_TYPE='"Linux-x86_64-ubuntu-22.04.4-gtk4"' -DCOOT_BUILD_INFO_STRING='"build-host: gtxr1.srv-local.mpi-dortmund.mpg.de on: Mi 20 Mär 1759.36 CET 2024"' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/opt/user_software/coot/bin-gtk4/include/python3.11 -DHAVE_GSL -fopenmp -g -O -Wall -Wno-unused -std=c++17 -MT cc-interface-scripting.lo -MD -MP -MF .deps/cc-interface-scripting.Tpo -c -o cc-interface-scripting.lo ../../coot/src/cc-interface-scripting.cc libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" "-DPACKAGE_STRING=\"coot 1.x-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I../../coot/src -DUSE_PYTHON -mfpmath=sse -msse -msse2 -pthread -I/opt/user_software/coot/bin-gtk4/lib/libffi-3.2.1/include -I/usr/include/gtk-4.0 -I/usr/include/gio-unix-2.0 -I/usr/include/cairo -I/usr/include/pango-1.0 -I/usr/include/harfbuzz -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/harfbuzz -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/x86_64-linux-gnu -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/graphene-1.0 -I/usr/lib/x86_64-linux-gnu/graphene-1.0/include -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I../../coot -I/opt/user_software/coot/bin-gtk4/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/opt/user_software/coot/bin-gtk4/include -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -I/opt/user_software/coot/bin-gtk4/include -DHAVE_SSMLIB -I/opt/user_software/coot/bin-gtk4/include -DMMDB_HAS_LINK_DISTANCE -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DCLIPPER_HAS_TOP8000 -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR=\"/opt/user_software/coot/bin-gtk4/share/coot\" -DPACKAGE_LOCALE_DIR=\"/opt/user_software/coot/bin-gtk4/share/coot/locale\" -DPKGPYTHONDIR=\"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/coot\" -DPYTHONDIR=\"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages\" -DXDATADIR=\"/opt/user_software/coot/bin-gtk4/share\" -DCOOT_SYS_BUILD_TYPE=\"Linux-x86_64-ubuntu-22.04.4-gtk4\" "-DCOOT_BUILD_INFO_STRING=\"build-host: gtxr1.srv-local.mpi-dortmund.mpg.de on: Mi 20 Mär 1759.36 CET 2024\"" -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/opt/user_software/coot/bin-gtk4/include/python3.11 -DHAVE_GSL -fopenmp -g -O -Wall -Wno-unused -std=c++17 -MT cc-interface-scripting.lo -MD -MP -MF .deps/cc-interface-scripting.Tpo -c ../../coot/src/cc-interface-scripting.cc -fPIC -DPIC -o .libs/cc-interface-scripting.o In file included from /opt/user_software/coot/bin-gtk4/include/boost/python/detail/is_xxx.hpp:8, from /opt/user_software/coot/bin-gtk4/include/boost/python/detail/is_auto_ptr.hpp:9, from /opt/user_software/coot/bin-gtk4/include/boost/python/detail/copy_ctor_mutates_rhs.hpp:8, from /opt/user_software/coot/bin-gtk4/include/boost/python/detail/value_arg.hpp:7, from /opt/user_software/coot/bin-gtk4/include/boost/python/object/forward.hpp:10, from /opt/user_software/coot/bin-gtk4/include/boost/python/object/pointer_holder.hpp:16, from /opt/user_software/coot/bin-gtk4/include/boost/python/to_python_indirect.hpp:10, from /opt/user_software/coot/bin-gtk4/include/boost/python/converter/arg_to_python.hpp:10, from /opt/user_software/coot/bin-gtk4/include/boost/python/call.hpp:15, from /opt/user_software/coot/bin-gtk4/include/boost/python/object_core.hpp:14, from /opt/user_software/coot/bin-gtk4/include/boost/python/args.hpp:22, from /opt/user_software/coot/bin-gtk4/include/boost/python.hpp:11, from ../../coot/src/c-interface-test.cc:1250: /opt/user_software/coot/bin-gtk4/include/boost/python/detail/is_auto_ptr.hpp:17:40: warning: ‘template class std::auto_ptr’ is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 17 | BOOST_PYTHON_IS_XXX_DEF(auto_ptr, std::auto_ptr, 1) | ^~~~~~~~ /opt/user_software/coot/bin-gtk4/include/boost/detail/is_xxx.hpp:20:4: note: in definition of macro ‘BOOST_DETAIL_IS_XXX_DEF’ 20 | qualified_name< BOOST_PP_ENUM_PARAMS_Z(1, nargs, T) > \ | ^~~~~~~~~~~~~~ /opt/user_software/coot/bin-gtk4/include/boost/python/detail/is_auto_ptr.hpp:17:1: note: in expansion of macro ‘BOOST_PYTHON_IS_XXX_DEF’ 17 | BOOST_PYTHON_IS_XXX_DEF(auto_ptr, std::auto_ptr, 1) | ^~~~~~~~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/11/bits/locale_conv.h:41, from /usr/include/c++/11/locale:43, from /usr/include/c++/11/iomanip:43, from ../../coot/src/c-interface-test.cc:41: /usr/include/c++/11/bits/unique_ptr.h:57:28: note: declared here 57 | template class auto_ptr; | ^~~~~~~~ In file included from ../../coot/MoleculesToTriangles/CXXClasses/RendererGLSL.hpp:31, from ../../coot/src/graphics-info.h:53, from ../../coot/src/cc-interface-scripting.cc:18: ../../coot/MoleculesToTriangles/CXXClasses/RendererGL.h:61: warning: ignoring ‘#pragma mark ’ [-Wunknown-pragmas] 61 | #pragma mark - | ../../coot/MoleculesToTriangles/CXXClasses/RendererGL.h:62: warning: ignoring ‘#pragma mark Debug’ [-Wunknown-pragmas] 62 | #pragma mark Debug routine | mv -f .deps/cc-interface-alignment.Tpo .deps/cc-interface-alignment.Plo /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" -DPACKAGE_STRING=\"coot\ 1.x-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I../../coot/src -DUSE_PYTHON -mfpmath=sse -msse -msse2 -pthread -I/opt/user_software/coot/bin-gtk4/lib/libffi-3.2.1/include -I/usr/include/gtk-4.0 -I/usr/include/gio-unix-2.0 -I/usr/include/cairo -I/usr/include/pango-1.0 -I/usr/include/harfbuzz -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/harfbuzz -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/x86_64-linux-gnu -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/graphene-1.0 -I/usr/lib/x86_64-linux-gnu/graphene-1.0/include -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I../../coot -I/opt/user_software/coot/bin-gtk4/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/opt/user_software/coot/bin-gtk4/include -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -I/opt/user_software/coot/bin-gtk4/include -DHAVE_SSMLIB -I/opt/user_software/coot/bin-gtk4/include -DMMDB_HAS_LINK_DISTANCE -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DCLIPPER_HAS_TOP8000 -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR='"/opt/user_software/coot/bin-gtk4/share/coot"' -DPACKAGE_LOCALE_DIR='"/opt/user_software/coot/bin-gtk4/share/coot/locale"' -DPKGPYTHONDIR='"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/coot"' -DPYTHONDIR='"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages"' -DXDATADIR='"/opt/user_software/coot/bin-gtk4/share"' -DCOOT_SYS_BUILD_TYPE='"Linux-x86_64-ubuntu-22.04.4-gtk4"' -DCOOT_BUILD_INFO_STRING='"build-host: gtxr1.srv-local.mpi-dortmund.mpg.de on: Mi 20 Mär 1759.36 CET 2024"' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/opt/user_software/coot/bin-gtk4/include/python3.11 -DHAVE_GSL -fopenmp -g -O -Wall -Wno-unused -std=c++17 -MT cc-interface-map-utils.lo -MD -MP -MF .deps/cc-interface-map-utils.Tpo -c -o cc-interface-map-utils.lo ../../coot/src/cc-interface-map-utils.cc libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" "-DPACKAGE_STRING=\"coot 1.x-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I../../coot/src -DUSE_PYTHON -mfpmath=sse -msse -msse2 -pthread -I/opt/user_software/coot/bin-gtk4/lib/libffi-3.2.1/include -I/usr/include/gtk-4.0 -I/usr/include/gio-unix-2.0 -I/usr/include/cairo -I/usr/include/pango-1.0 -I/usr/include/harfbuzz -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/harfbuzz -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/x86_64-linux-gnu -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/graphene-1.0 -I/usr/lib/x86_64-linux-gnu/graphene-1.0/include -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I../../coot -I/opt/user_software/coot/bin-gtk4/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/opt/user_software/coot/bin-gtk4/include -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -I/opt/user_software/coot/bin-gtk4/include -DHAVE_SSMLIB -I/opt/user_software/coot/bin-gtk4/include -DMMDB_HAS_LINK_DISTANCE -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DCLIPPER_HAS_TOP8000 -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR=\"/opt/user_software/coot/bin-gtk4/share/coot\" -DPACKAGE_LOCALE_DIR=\"/opt/user_software/coot/bin-gtk4/share/coot/locale\" -DPKGPYTHONDIR=\"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/coot\" -DPYTHONDIR=\"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages\" -DXDATADIR=\"/opt/user_software/coot/bin-gtk4/share\" -DCOOT_SYS_BUILD_TYPE=\"Linux-x86_64-ubuntu-22.04.4-gtk4\" "-DCOOT_BUILD_INFO_STRING=\"build-host: gtxr1.srv-local.mpi-dortmund.mpg.de on: Mi 20 Mär 1759.36 CET 2024\"" -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/opt/user_software/coot/bin-gtk4/include/python3.11 -DHAVE_GSL -fopenmp -g -O -Wall -Wno-unused -std=c++17 -MT cc-interface-map-utils.lo -MD -MP -MF .deps/cc-interface-map-utils.Tpo -c ../../coot/src/cc-interface-map-utils.cc -fPIC -DPIC -o .libs/cc-interface-map-utils.o In file included from ../../coot/MoleculesToTriangles/CXXClasses/RendererGLSL.hpp:31, from ../../coot/src/graphics-info.h:53, from ../../coot/src/cc-interface-map-utils.cc:5: ../../coot/MoleculesToTriangles/CXXClasses/RendererGL.h:61: warning: ignoring ‘#pragma mark ’ [-Wunknown-pragmas] 61 | #pragma mark - | ../../coot/MoleculesToTriangles/CXXClasses/RendererGL.h:62: warning: ignoring ‘#pragma mark Debug’ [-Wunknown-pragmas] 62 | #pragma mark Debug routine | mv -f .deps/c-interface.Tpo .deps/c-interface.Plo /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" -DPACKAGE_STRING=\"coot\ 1.x-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I../../coot/src -DUSE_PYTHON -mfpmath=sse -msse -msse2 -pthread -I/opt/user_software/coot/bin-gtk4/lib/libffi-3.2.1/include -I/usr/include/gtk-4.0 -I/usr/include/gio-unix-2.0 -I/usr/include/cairo -I/usr/include/pango-1.0 -I/usr/include/harfbuzz -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/harfbuzz -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/x86_64-linux-gnu -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/graphene-1.0 -I/usr/lib/x86_64-linux-gnu/graphene-1.0/include -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I../../coot -I/opt/user_software/coot/bin-gtk4/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/opt/user_software/coot/bin-gtk4/include -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -I/opt/user_software/coot/bin-gtk4/include -DHAVE_SSMLIB -I/opt/user_software/coot/bin-gtk4/include -DMMDB_HAS_LINK_DISTANCE -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DCLIPPER_HAS_TOP8000 -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR='"/opt/user_software/coot/bin-gtk4/share/coot"' -DPACKAGE_LOCALE_DIR='"/opt/user_software/coot/bin-gtk4/share/coot/locale"' -DPKGPYTHONDIR='"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/coot"' -DPYTHONDIR='"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages"' -DXDATADIR='"/opt/user_software/coot/bin-gtk4/share"' -DCOOT_SYS_BUILD_TYPE='"Linux-x86_64-ubuntu-22.04.4-gtk4"' -DCOOT_BUILD_INFO_STRING='"build-host: gtxr1.srv-local.mpi-dortmund.mpg.de on: Mi 20 Mär 1759.36 CET 2024"' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/opt/user_software/coot/bin-gtk4/include/python3.11 -DHAVE_GSL -fopenmp -g -O -Wall -Wno-unused -std=c++17 -MT cc-interface-png.lo -MD -MP -MF .deps/cc-interface-png.Tpo -c -o cc-interface-png.lo ../../coot/src/cc-interface-png.cc mv -f .deps/c-interface-test.Tpo .deps/c-interface-test.Plo /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" -DPACKAGE_STRING=\"coot\ 1.x-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I../../coot/src -DUSE_PYTHON -mfpmath=sse -msse -msse2 -pthread -I/opt/user_software/coot/bin-gtk4/lib/libffi-3.2.1/include -I/usr/include/gtk-4.0 -I/usr/include/gio-unix-2.0 -I/usr/include/cairo -I/usr/include/pango-1.0 -I/usr/include/harfbuzz -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/harfbuzz -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/x86_64-linux-gnu -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/graphene-1.0 -I/usr/lib/x86_64-linux-gnu/graphene-1.0/include -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I../../coot -I/opt/user_software/coot/bin-gtk4/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/opt/user_software/coot/bin-gtk4/include -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -I/opt/user_software/coot/bin-gtk4/include -DHAVE_SSMLIB -I/opt/user_software/coot/bin-gtk4/include -DMMDB_HAS_LINK_DISTANCE -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DCLIPPER_HAS_TOP8000 -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR='"/opt/user_software/coot/bin-gtk4/share/coot"' -DPACKAGE_LOCALE_DIR='"/opt/user_software/coot/bin-gtk4/share/coot/locale"' -DPKGPYTHONDIR='"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/coot"' -DPYTHONDIR='"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages"' -DXDATADIR='"/opt/user_software/coot/bin-gtk4/share"' -DCOOT_SYS_BUILD_TYPE='"Linux-x86_64-ubuntu-22.04.4-gtk4"' -DCOOT_BUILD_INFO_STRING='"build-host: gtxr1.srv-local.mpi-dortmund.mpg.de on: Mi 20 Mär 1759.36 CET 2024"' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/opt/user_software/coot/bin-gtk4/include/python3.11 -DHAVE_GSL -fopenmp -g -O -Wall -Wno-unused -std=c++17 -MT cc-interface-user-defined-atom-colours.lo -MD -MP -MF .deps/cc-interface-user-defined-atom-colours.Tpo -c -o cc-interface-user-defined-atom-colours.lo ../../coot/src/cc-interface-user-defined-atom-colours.cc libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" "-DPACKAGE_STRING=\"coot 1.x-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I../../coot/src -DUSE_PYTHON -mfpmath=sse -msse -msse2 -pthread -I/opt/user_software/coot/bin-gtk4/lib/libffi-3.2.1/include -I/usr/include/gtk-4.0 -I/usr/include/gio-unix-2.0 -I/usr/include/cairo -I/usr/include/pango-1.0 -I/usr/include/harfbuzz -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/harfbuzz -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/x86_64-linux-gnu -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/graphene-1.0 -I/usr/lib/x86_64-linux-gnu/graphene-1.0/include -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I../../coot -I/opt/user_software/coot/bin-gtk4/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/opt/user_software/coot/bin-gtk4/include -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -I/opt/user_software/coot/bin-gtk4/include -DHAVE_SSMLIB -I/opt/user_software/coot/bin-gtk4/include -DMMDB_HAS_LINK_DISTANCE -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DCLIPPER_HAS_TOP8000 -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR=\"/opt/user_software/coot/bin-gtk4/share/coot\" -DPACKAGE_LOCALE_DIR=\"/opt/user_software/coot/bin-gtk4/share/coot/locale\" -DPKGPYTHONDIR=\"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/coot\" -DPYTHONDIR=\"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages\" -DXDATADIR=\"/opt/user_software/coot/bin-gtk4/share\" -DCOOT_SYS_BUILD_TYPE=\"Linux-x86_64-ubuntu-22.04.4-gtk4\" "-DCOOT_BUILD_INFO_STRING=\"build-host: gtxr1.srv-local.mpi-dortmund.mpg.de on: Mi 20 Mär 1759.36 CET 2024\"" -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/opt/user_software/coot/bin-gtk4/include/python3.11 -DHAVE_GSL -fopenmp -g -O -Wall -Wno-unused -std=c++17 -MT cc-interface-png.lo -MD -MP -MF .deps/cc-interface-png.Tpo -c ../../coot/src/cc-interface-png.cc -fPIC -DPIC -o .libs/cc-interface-png.o mv -f .deps/cc-interface-graphics.Tpo .deps/cc-interface-graphics.Plo /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" -DPACKAGE_STRING=\"coot\ 1.x-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I../../coot/src -DUSE_PYTHON -mfpmath=sse -msse -msse2 -pthread -I/opt/user_software/coot/bin-gtk4/lib/libffi-3.2.1/include -I/usr/include/gtk-4.0 -I/usr/include/gio-unix-2.0 -I/usr/include/cairo -I/usr/include/pango-1.0 -I/usr/include/harfbuzz -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/harfbuzz -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/x86_64-linux-gnu -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/graphene-1.0 -I/usr/lib/x86_64-linux-gnu/graphene-1.0/include -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I../../coot -I/opt/user_software/coot/bin-gtk4/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/opt/user_software/coot/bin-gtk4/include -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -I/opt/user_software/coot/bin-gtk4/include -DHAVE_SSMLIB -I/opt/user_software/coot/bin-gtk4/include -DMMDB_HAS_LINK_DISTANCE -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DCLIPPER_HAS_TOP8000 -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR='"/opt/user_software/coot/bin-gtk4/share/coot"' -DPACKAGE_LOCALE_DIR='"/opt/user_software/coot/bin-gtk4/share/coot/locale"' -DPKGPYTHONDIR='"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/coot"' -DPYTHONDIR='"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages"' -DXDATADIR='"/opt/user_software/coot/bin-gtk4/share"' -DCOOT_SYS_BUILD_TYPE='"Linux-x86_64-ubuntu-22.04.4-gtk4"' -DCOOT_BUILD_INFO_STRING='"build-host: gtxr1.srv-local.mpi-dortmund.mpg.de on: Mi 20 Mär 1759.36 CET 2024"' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/opt/user_software/coot/bin-gtk4/include/python3.11 -DHAVE_GSL -fopenmp -g -O -Wall -Wno-unused -std=c++17 -MT cfc.lo -MD -MP -MF .deps/cfc.Tpo -c -o cfc.lo ../../coot/src/cfc.cc libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" "-DPACKAGE_STRING=\"coot 1.x-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I../../coot/src -DUSE_PYTHON -mfpmath=sse -msse -msse2 -pthread -I/opt/user_software/coot/bin-gtk4/lib/libffi-3.2.1/include -I/usr/include/gtk-4.0 -I/usr/include/gio-unix-2.0 -I/usr/include/cairo -I/usr/include/pango-1.0 -I/usr/include/harfbuzz -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/harfbuzz -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/x86_64-linux-gnu -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/graphene-1.0 -I/usr/lib/x86_64-linux-gnu/graphene-1.0/include -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I../../coot -I/opt/user_software/coot/bin-gtk4/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/opt/user_software/coot/bin-gtk4/include -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -I/opt/user_software/coot/bin-gtk4/include -DHAVE_SSMLIB -I/opt/user_software/coot/bin-gtk4/include -DMMDB_HAS_LINK_DISTANCE -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DCLIPPER_HAS_TOP8000 -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR=\"/opt/user_software/coot/bin-gtk4/share/coot\" -DPACKAGE_LOCALE_DIR=\"/opt/user_software/coot/bin-gtk4/share/coot/locale\" -DPKGPYTHONDIR=\"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/coot\" -DPYTHONDIR=\"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages\" -DXDATADIR=\"/opt/user_software/coot/bin-gtk4/share\" -DCOOT_SYS_BUILD_TYPE=\"Linux-x86_64-ubuntu-22.04.4-gtk4\" "-DCOOT_BUILD_INFO_STRING=\"build-host: gtxr1.srv-local.mpi-dortmund.mpg.de on: Mi 20 Mär 1759.36 CET 2024\"" -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/opt/user_software/coot/bin-gtk4/include/python3.11 -DHAVE_GSL -fopenmp -g -O -Wall -Wno-unused -std=c++17 -MT cc-interface-user-defined-atom-colours.lo -MD -MP -MF .deps/cc-interface-user-defined-atom-colours.Tpo -c ../../coot/src/cc-interface-user-defined-atom-colours.cc -fPIC -DPIC -o .libs/cc-interface-user-defined-atom-colours.o In file included from ../../coot/MoleculesToTriangles/CXXClasses/RendererGLSL.hpp:31, from ../../coot/src/graphics-info.h:53, from ../../coot/src/cc-interface-png.cc:30: ../../coot/MoleculesToTriangles/CXXClasses/RendererGL.h:61: warning: ignoring ‘#pragma mark ’ [-Wunknown-pragmas] 61 | #pragma mark - | ../../coot/MoleculesToTriangles/CXXClasses/RendererGL.h:62: warning: ignoring ‘#pragma mark Debug’ [-Wunknown-pragmas] 62 | #pragma mark Debug routine | libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" "-DPACKAGE_STRING=\"coot 1.x-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I../../coot/src -DUSE_PYTHON -mfpmath=sse -msse -msse2 -pthread -I/opt/user_software/coot/bin-gtk4/lib/libffi-3.2.1/include -I/usr/include/gtk-4.0 -I/usr/include/gio-unix-2.0 -I/usr/include/cairo -I/usr/include/pango-1.0 -I/usr/include/harfbuzz -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/harfbuzz -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/x86_64-linux-gnu -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/graphene-1.0 -I/usr/lib/x86_64-linux-gnu/graphene-1.0/include -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I../../coot -I/opt/user_software/coot/bin-gtk4/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/opt/user_software/coot/bin-gtk4/include -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -I/opt/user_software/coot/bin-gtk4/include -DHAVE_SSMLIB -I/opt/user_software/coot/bin-gtk4/include -DMMDB_HAS_LINK_DISTANCE -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DCLIPPER_HAS_TOP8000 -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR=\"/opt/user_software/coot/bin-gtk4/share/coot\" -DPACKAGE_LOCALE_DIR=\"/opt/user_software/coot/bin-gtk4/share/coot/locale\" -DPKGPYTHONDIR=\"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/coot\" -DPYTHONDIR=\"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages\" -DXDATADIR=\"/opt/user_software/coot/bin-gtk4/share\" -DCOOT_SYS_BUILD_TYPE=\"Linux-x86_64-ubuntu-22.04.4-gtk4\" "-DCOOT_BUILD_INFO_STRING=\"build-host: gtxr1.srv-local.mpi-dortmund.mpg.de on: Mi 20 Mär 1759.36 CET 2024\"" -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/opt/user_software/coot/bin-gtk4/include/python3.11 -DHAVE_GSL -fopenmp -g -O -Wall -Wno-unused -std=c++17 -MT cfc.lo -MD -MP -MF .deps/cfc.Tpo -c ../../coot/src/cfc.cc -fPIC -DPIC -o .libs/cfc.o In file included from ../../coot/MoleculesToTriangles/CXXClasses/RendererGLSL.hpp:31, from ../../coot/src/graphics-info.h:53, from ../../coot/src/cc-interface-user-defined-atom-colours.cc:29: ../../coot/MoleculesToTriangles/CXXClasses/RendererGL.h:61: warning: ignoring ‘#pragma mark ’ [-Wunknown-pragmas] 61 | #pragma mark - | ../../coot/MoleculesToTriangles/CXXClasses/RendererGL.h:62: warning: ignoring ‘#pragma mark Debug’ [-Wunknown-pragmas] 62 | #pragma mark Debug routine | mv -f .deps/cc-interface-molecular-symmetry.Tpo .deps/cc-interface-molecular-symmetry.Plo /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" -DPACKAGE_STRING=\"coot\ 1.x-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I../../coot/src -DUSE_PYTHON -mfpmath=sse -msse -msse2 -pthread -I/opt/user_software/coot/bin-gtk4/lib/libffi-3.2.1/include -I/usr/include/gtk-4.0 -I/usr/include/gio-unix-2.0 -I/usr/include/cairo -I/usr/include/pango-1.0 -I/usr/include/harfbuzz -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/harfbuzz -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/x86_64-linux-gnu -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/graphene-1.0 -I/usr/lib/x86_64-linux-gnu/graphene-1.0/include -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I../../coot -I/opt/user_software/coot/bin-gtk4/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/opt/user_software/coot/bin-gtk4/include -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -I/opt/user_software/coot/bin-gtk4/include -DHAVE_SSMLIB -I/opt/user_software/coot/bin-gtk4/include -DMMDB_HAS_LINK_DISTANCE -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DCLIPPER_HAS_TOP8000 -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR='"/opt/user_software/coot/bin-gtk4/share/coot"' -DPACKAGE_LOCALE_DIR='"/opt/user_software/coot/bin-gtk4/share/coot/locale"' -DPKGPYTHONDIR='"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/coot"' -DPYTHONDIR='"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages"' -DXDATADIR='"/opt/user_software/coot/bin-gtk4/share"' -DCOOT_SYS_BUILD_TYPE='"Linux-x86_64-ubuntu-22.04.4-gtk4"' -DCOOT_BUILD_INFO_STRING='"build-host: gtxr1.srv-local.mpi-dortmund.mpg.de on: Mi 20 Mär 1759.36 CET 2024"' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/opt/user_software/coot/bin-gtk4/include/python3.11 -DHAVE_GSL -fopenmp -g -O -Wall -Wno-unused -std=c++17 -MT change-dir.lo -MD -MP -MF .deps/change-dir.Tpo -c -o change-dir.lo ../../coot/src/change-dir.cc libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" "-DPACKAGE_STRING=\"coot 1.x-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I../../coot/src -DUSE_PYTHON -mfpmath=sse -msse -msse2 -pthread -I/opt/user_software/coot/bin-gtk4/lib/libffi-3.2.1/include -I/usr/include/gtk-4.0 -I/usr/include/gio-unix-2.0 -I/usr/include/cairo -I/usr/include/pango-1.0 -I/usr/include/harfbuzz -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/harfbuzz -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/x86_64-linux-gnu -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/graphene-1.0 -I/usr/lib/x86_64-linux-gnu/graphene-1.0/include -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I../../coot -I/opt/user_software/coot/bin-gtk4/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/opt/user_software/coot/bin-gtk4/include -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -I/opt/user_software/coot/bin-gtk4/include -DHAVE_SSMLIB -I/opt/user_software/coot/bin-gtk4/include -DMMDB_HAS_LINK_DISTANCE -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DCLIPPER_HAS_TOP8000 -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR=\"/opt/user_software/coot/bin-gtk4/share/coot\" -DPACKAGE_LOCALE_DIR=\"/opt/user_software/coot/bin-gtk4/share/coot/locale\" -DPKGPYTHONDIR=\"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/coot\" -DPYTHONDIR=\"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages\" -DXDATADIR=\"/opt/user_software/coot/bin-gtk4/share\" -DCOOT_SYS_BUILD_TYPE=\"Linux-x86_64-ubuntu-22.04.4-gtk4\" "-DCOOT_BUILD_INFO_STRING=\"build-host: gtxr1.srv-local.mpi-dortmund.mpg.de on: Mi 20 Mär 1759.36 CET 2024\"" -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/opt/user_software/coot/bin-gtk4/include/python3.11 -DHAVE_GSL -fopenmp -g -O -Wall -Wno-unused -std=c++17 -MT change-dir.lo -MD -MP -MF .deps/change-dir.Tpo -c ../../coot/src/change-dir.cc -fPIC -DPIC -o .libs/change-dir.o mv -f .deps/change-dir.Tpo .deps/change-dir.Plo /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" -DPACKAGE_STRING=\"coot\ 1.x-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I../../coot/src -DUSE_PYTHON -mfpmath=sse -msse -msse2 -pthread -I/opt/user_software/coot/bin-gtk4/lib/libffi-3.2.1/include -I/usr/include/gtk-4.0 -I/usr/include/gio-unix-2.0 -I/usr/include/cairo -I/usr/include/pango-1.0 -I/usr/include/harfbuzz -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/harfbuzz -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/x86_64-linux-gnu -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/graphene-1.0 -I/usr/lib/x86_64-linux-gnu/graphene-1.0/include -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I../../coot -I/opt/user_software/coot/bin-gtk4/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/opt/user_software/coot/bin-gtk4/include -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -I/opt/user_software/coot/bin-gtk4/include -DHAVE_SSMLIB -I/opt/user_software/coot/bin-gtk4/include -DMMDB_HAS_LINK_DISTANCE -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DCLIPPER_HAS_TOP8000 -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR='"/opt/user_software/coot/bin-gtk4/share/coot"' -DPACKAGE_LOCALE_DIR='"/opt/user_software/coot/bin-gtk4/share/coot/locale"' -DPKGPYTHONDIR='"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/coot"' -DPYTHONDIR='"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages"' -DXDATADIR='"/opt/user_software/coot/bin-gtk4/share"' -DCOOT_SYS_BUILD_TYPE='"Linux-x86_64-ubuntu-22.04.4-gtk4"' -DCOOT_BUILD_INFO_STRING='"build-host: gtxr1.srv-local.mpi-dortmund.mpg.de on: Mi 20 Mär 1759.36 CET 2024"' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/opt/user_software/coot/bin-gtk4/include/python3.11 -DHAVE_GSL -fopenmp -g -O -Wall -Wno-unused -std=c++17 -MT cmtz-interface.lo -MD -MP -MF .deps/cmtz-interface.Tpo -c -o cmtz-interface.lo ../../coot/src/cmtz-interface.cc In file included from ../../coot/MoleculesToTriangles/CXXClasses/RendererGLSL.hpp:31, from ../../coot/src/graphics-info.h:53, from ../../coot/src/cfc.cc:45: ../../coot/MoleculesToTriangles/CXXClasses/RendererGL.h:61: warning: ignoring ‘#pragma mark ’ [-Wunknown-pragmas] 61 | #pragma mark - | ../../coot/MoleculesToTriangles/CXXClasses/RendererGL.h:62: warning: ignoring ‘#pragma mark Debug’ [-Wunknown-pragmas] 62 | #pragma mark Debug routine | mv -f .deps/cc-interface-merge.Tpo .deps/cc-interface-merge.Plo /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" -DPACKAGE_STRING=\"coot\ 1.x-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I../../coot/src -DUSE_PYTHON -mfpmath=sse -msse -msse2 -pthread -I/opt/user_software/coot/bin-gtk4/lib/libffi-3.2.1/include -I/usr/include/gtk-4.0 -I/usr/include/gio-unix-2.0 -I/usr/include/cairo -I/usr/include/pango-1.0 -I/usr/include/harfbuzz -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/harfbuzz -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/x86_64-linux-gnu -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/graphene-1.0 -I/usr/lib/x86_64-linux-gnu/graphene-1.0/include -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I../../coot -I/opt/user_software/coot/bin-gtk4/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/opt/user_software/coot/bin-gtk4/include -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -I/opt/user_software/coot/bin-gtk4/include -DHAVE_SSMLIB -I/opt/user_software/coot/bin-gtk4/include -DMMDB_HAS_LINK_DISTANCE -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DCLIPPER_HAS_TOP8000 -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR='"/opt/user_software/coot/bin-gtk4/share/coot"' -DPACKAGE_LOCALE_DIR='"/opt/user_software/coot/bin-gtk4/share/coot/locale"' -DPKGPYTHONDIR='"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/coot"' -DPYTHONDIR='"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages"' -DXDATADIR='"/opt/user_software/coot/bin-gtk4/share"' -DCOOT_SYS_BUILD_TYPE='"Linux-x86_64-ubuntu-22.04.4-gtk4"' -DCOOT_BUILD_INFO_STRING='"build-host: gtxr1.srv-local.mpi-dortmund.mpg.de on: Mi 20 Mär 1759.36 CET 2024"' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/opt/user_software/coot/bin-gtk4/include/python3.11 -DHAVE_GSL -fopenmp -g -O -Wall -Wno-unused -std=c++17 -MT command-line.lo -MD -MP -MF .deps/command-line.Tpo -c -o command-line.lo ../../coot/src/command-line.cc libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" "-DPACKAGE_STRING=\"coot 1.x-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I../../coot/src -DUSE_PYTHON -mfpmath=sse -msse -msse2 -pthread -I/opt/user_software/coot/bin-gtk4/lib/libffi-3.2.1/include -I/usr/include/gtk-4.0 -I/usr/include/gio-unix-2.0 -I/usr/include/cairo -I/usr/include/pango-1.0 -I/usr/include/harfbuzz -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/harfbuzz -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/x86_64-linux-gnu -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/graphene-1.0 -I/usr/lib/x86_64-linux-gnu/graphene-1.0/include -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I../../coot -I/opt/user_software/coot/bin-gtk4/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/opt/user_software/coot/bin-gtk4/include -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -I/opt/user_software/coot/bin-gtk4/include -DHAVE_SSMLIB -I/opt/user_software/coot/bin-gtk4/include -DMMDB_HAS_LINK_DISTANCE -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DCLIPPER_HAS_TOP8000 -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR=\"/opt/user_software/coot/bin-gtk4/share/coot\" -DPACKAGE_LOCALE_DIR=\"/opt/user_software/coot/bin-gtk4/share/coot/locale\" -DPKGPYTHONDIR=\"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/coot\" -DPYTHONDIR=\"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages\" -DXDATADIR=\"/opt/user_software/coot/bin-gtk4/share\" -DCOOT_SYS_BUILD_TYPE=\"Linux-x86_64-ubuntu-22.04.4-gtk4\" "-DCOOT_BUILD_INFO_STRING=\"build-host: gtxr1.srv-local.mpi-dortmund.mpg.de on: Mi 20 Mär 1759.36 CET 2024\"" -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/opt/user_software/coot/bin-gtk4/include/python3.11 -DHAVE_GSL -fopenmp -g -O -Wall -Wno-unused -std=c++17 -MT cmtz-interface.lo -MD -MP -MF .deps/cmtz-interface.Tpo -c ../../coot/src/cmtz-interface.cc -fPIC -DPIC -o .libs/cmtz-interface.o mv -f .deps/cc-interface-molecular-representation.Tpo .deps/cc-interface-molecular-representation.Plo /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" -DPACKAGE_STRING=\"coot\ 1.x-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I../../coot/src -DUSE_PYTHON -mfpmath=sse -msse -msse2 -pthread -I/opt/user_software/coot/bin-gtk4/lib/libffi-3.2.1/include -I/usr/include/gtk-4.0 -I/usr/include/gio-unix-2.0 -I/usr/include/cairo -I/usr/include/pango-1.0 -I/usr/include/harfbuzz -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/harfbuzz -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/x86_64-linux-gnu -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/graphene-1.0 -I/usr/lib/x86_64-linux-gnu/graphene-1.0/include -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I../../coot -I/opt/user_software/coot/bin-gtk4/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/opt/user_software/coot/bin-gtk4/include -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -I/opt/user_software/coot/bin-gtk4/include -DHAVE_SSMLIB -I/opt/user_software/coot/bin-gtk4/include -DMMDB_HAS_LINK_DISTANCE -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DCLIPPER_HAS_TOP8000 -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR='"/opt/user_software/coot/bin-gtk4/share/coot"' -DPACKAGE_LOCALE_DIR='"/opt/user_software/coot/bin-gtk4/share/coot/locale"' -DPKGPYTHONDIR='"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/coot"' -DPYTHONDIR='"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages"' -DXDATADIR='"/opt/user_software/coot/bin-gtk4/share"' -DCOOT_SYS_BUILD_TYPE='"Linux-x86_64-ubuntu-22.04.4-gtk4"' -DCOOT_BUILD_INFO_STRING='"build-host: gtxr1.srv-local.mpi-dortmund.mpg.de on: Mi 20 Mär 1759.36 CET 2024"' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/opt/user_software/coot/bin-gtk4/include/python3.11 -DHAVE_GSL -fopenmp -g -O -Wall -Wno-unused -std=c++17 -MT command-line-extern.lo -MD -MP -MF .deps/command-line-extern.Tpo -c -o command-line-extern.lo ../../coot/src/command-line-extern.cc libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" "-DPACKAGE_STRING=\"coot 1.x-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I../../coot/src -DUSE_PYTHON -mfpmath=sse -msse -msse2 -pthread -I/opt/user_software/coot/bin-gtk4/lib/libffi-3.2.1/include -I/usr/include/gtk-4.0 -I/usr/include/gio-unix-2.0 -I/usr/include/cairo -I/usr/include/pango-1.0 -I/usr/include/harfbuzz -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/harfbuzz -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/x86_64-linux-gnu -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/graphene-1.0 -I/usr/lib/x86_64-linux-gnu/graphene-1.0/include -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I../../coot -I/opt/user_software/coot/bin-gtk4/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/opt/user_software/coot/bin-gtk4/include -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -I/opt/user_software/coot/bin-gtk4/include -DHAVE_SSMLIB -I/opt/user_software/coot/bin-gtk4/include -DMMDB_HAS_LINK_DISTANCE -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DCLIPPER_HAS_TOP8000 -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR=\"/opt/user_software/coot/bin-gtk4/share/coot\" -DPACKAGE_LOCALE_DIR=\"/opt/user_software/coot/bin-gtk4/share/coot/locale\" -DPKGPYTHONDIR=\"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/coot\" -DPYTHONDIR=\"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages\" -DXDATADIR=\"/opt/user_software/coot/bin-gtk4/share\" -DCOOT_SYS_BUILD_TYPE=\"Linux-x86_64-ubuntu-22.04.4-gtk4\" "-DCOOT_BUILD_INFO_STRING=\"build-host: gtxr1.srv-local.mpi-dortmund.mpg.de on: Mi 20 Mär 1759.36 CET 2024\"" -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/opt/user_software/coot/bin-gtk4/include/python3.11 -DHAVE_GSL -fopenmp -g -O -Wall -Wno-unused -std=c++17 -MT command-line.lo -MD -MP -MF .deps/command-line.Tpo -c ../../coot/src/command-line.cc -fPIC -DPIC -o .libs/command-line.o In file included from ../../coot/MoleculesToTriangles/CXXClasses/RendererGLSL.hpp:31, from ../../coot/src/graphics-info.h:53, from ../../coot/src/cmtz-interface.cc:58: ../../coot/MoleculesToTriangles/CXXClasses/RendererGL.h:61: warning: ignoring ‘#pragma mark ’ [-Wunknown-pragmas] 61 | #pragma mark - | ../../coot/MoleculesToTriangles/CXXClasses/RendererGL.h:62: warning: ignoring ‘#pragma mark Debug’ [-Wunknown-pragmas] 62 | #pragma mark Debug routine | In file included from ../../coot/MoleculesToTriangles/CXXClasses/RendererGLSL.hpp:31, from ../../coot/src/graphics-info.h:53, from ../../coot/src/command-line.cc:61: ../../coot/MoleculesToTriangles/CXXClasses/RendererGL.h:61: warning: ignoring ‘#pragma mark ’ [-Wunknown-pragmas] 61 | #pragma mark - | ../../coot/MoleculesToTriangles/CXXClasses/RendererGL.h:62: warning: ignoring ‘#pragma mark Debug’ [-Wunknown-pragmas] 62 | #pragma mark Debug routine | libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" "-DPACKAGE_STRING=\"coot 1.x-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I../../coot/src -DUSE_PYTHON -mfpmath=sse -msse -msse2 -pthread -I/opt/user_software/coot/bin-gtk4/lib/libffi-3.2.1/include -I/usr/include/gtk-4.0 -I/usr/include/gio-unix-2.0 -I/usr/include/cairo -I/usr/include/pango-1.0 -I/usr/include/harfbuzz -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/harfbuzz -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/x86_64-linux-gnu -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/graphene-1.0 -I/usr/lib/x86_64-linux-gnu/graphene-1.0/include -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I../../coot -I/opt/user_software/coot/bin-gtk4/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/opt/user_software/coot/bin-gtk4/include -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -I/opt/user_software/coot/bin-gtk4/include -DHAVE_SSMLIB -I/opt/user_software/coot/bin-gtk4/include -DMMDB_HAS_LINK_DISTANCE -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DCLIPPER_HAS_TOP8000 -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR=\"/opt/user_software/coot/bin-gtk4/share/coot\" -DPACKAGE_LOCALE_DIR=\"/opt/user_software/coot/bin-gtk4/share/coot/locale\" -DPKGPYTHONDIR=\"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/coot\" -DPYTHONDIR=\"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages\" -DXDATADIR=\"/opt/user_software/coot/bin-gtk4/share\" -DCOOT_SYS_BUILD_TYPE=\"Linux-x86_64-ubuntu-22.04.4-gtk4\" "-DCOOT_BUILD_INFO_STRING=\"build-host: gtxr1.srv-local.mpi-dortmund.mpg.de on: Mi 20 Mär 1759.36 CET 2024\"" -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/opt/user_software/coot/bin-gtk4/include/python3.11 -DHAVE_GSL -fopenmp -g -O -Wall -Wno-unused -std=c++17 -MT command-line-extern.lo -MD -MP -MF .deps/command-line-extern.Tpo -c ../../coot/src/command-line-extern.cc -fPIC -DPIC -o .libs/command-line-extern.o mv -f .deps/cc-interface-scripting.Tpo .deps/cc-interface-scripting.Plo /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" -DPACKAGE_STRING=\"coot\ 1.x-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I../../coot/src -DUSE_PYTHON -mfpmath=sse -msse -msse2 -pthread -I/opt/user_software/coot/bin-gtk4/lib/libffi-3.2.1/include -I/usr/include/gtk-4.0 -I/usr/include/gio-unix-2.0 -I/usr/include/cairo -I/usr/include/pango-1.0 -I/usr/include/harfbuzz -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/harfbuzz -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/x86_64-linux-gnu -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/graphene-1.0 -I/usr/lib/x86_64-linux-gnu/graphene-1.0/include -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I../../coot -I/opt/user_software/coot/bin-gtk4/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/opt/user_software/coot/bin-gtk4/include -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -I/opt/user_software/coot/bin-gtk4/include -DHAVE_SSMLIB -I/opt/user_software/coot/bin-gtk4/include -DMMDB_HAS_LINK_DISTANCE -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DCLIPPER_HAS_TOP8000 -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR='"/opt/user_software/coot/bin-gtk4/share/coot"' -DPACKAGE_LOCALE_DIR='"/opt/user_software/coot/bin-gtk4/share/coot/locale"' -DPKGPYTHONDIR='"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/coot"' -DPYTHONDIR='"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages"' -DXDATADIR='"/opt/user_software/coot/bin-gtk4/share"' -DCOOT_SYS_BUILD_TYPE='"Linux-x86_64-ubuntu-22.04.4-gtk4"' -DCOOT_BUILD_INFO_STRING='"build-host: gtxr1.srv-local.mpi-dortmund.mpg.de on: Mi 20 Mär 1759.36 CET 2024"' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/opt/user_software/coot/bin-gtk4/include/python3.11 -DHAVE_GSL -fopenmp -g -O -Wall -Wno-unused -std=c++17 -MT coot-application.lo -MD -MP -MF .deps/coot-application.Tpo -c -o coot-application.lo ../../coot/src/coot-application.cc In file included from ../../coot/MoleculesToTriangles/CXXClasses/RendererGLSL.hpp:31, from ../../coot/src/graphics-info.h:53, from ../../coot/src/command-line-extern.cc:41: ../../coot/MoleculesToTriangles/CXXClasses/RendererGL.h:61: warning: ignoring ‘#pragma mark ’ [-Wunknown-pragmas] 61 | #pragma mark - | ../../coot/MoleculesToTriangles/CXXClasses/RendererGL.h:62: warning: ignoring ‘#pragma mark Debug’ [-Wunknown-pragmas] 62 | #pragma mark Debug routine | libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" "-DPACKAGE_STRING=\"coot 1.x-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I../../coot/src -DUSE_PYTHON -mfpmath=sse -msse -msse2 -pthread -I/opt/user_software/coot/bin-gtk4/lib/libffi-3.2.1/include -I/usr/include/gtk-4.0 -I/usr/include/gio-unix-2.0 -I/usr/include/cairo -I/usr/include/pango-1.0 -I/usr/include/harfbuzz -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/harfbuzz -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/x86_64-linux-gnu -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/graphene-1.0 -I/usr/lib/x86_64-linux-gnu/graphene-1.0/include -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I../../coot -I/opt/user_software/coot/bin-gtk4/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/opt/user_software/coot/bin-gtk4/include -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -I/opt/user_software/coot/bin-gtk4/include -DHAVE_SSMLIB -I/opt/user_software/coot/bin-gtk4/include -DMMDB_HAS_LINK_DISTANCE -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DCLIPPER_HAS_TOP8000 -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR=\"/opt/user_software/coot/bin-gtk4/share/coot\" -DPACKAGE_LOCALE_DIR=\"/opt/user_software/coot/bin-gtk4/share/coot/locale\" -DPKGPYTHONDIR=\"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/coot\" -DPYTHONDIR=\"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages\" -DXDATADIR=\"/opt/user_software/coot/bin-gtk4/share\" -DCOOT_SYS_BUILD_TYPE=\"Linux-x86_64-ubuntu-22.04.4-gtk4\" "-DCOOT_BUILD_INFO_STRING=\"build-host: gtxr1.srv-local.mpi-dortmund.mpg.de on: Mi 20 Mär 1759.36 CET 2024\"" -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/opt/user_software/coot/bin-gtk4/include/python3.11 -DHAVE_GSL -fopenmp -g -O -Wall -Wno-unused -std=c++17 -MT coot-application.lo -MD -MP -MF .deps/coot-application.Tpo -c ../../coot/src/coot-application.cc -fPIC -DPIC -o .libs/coot-application.o In file included from ../../coot/MoleculesToTriangles/CXXClasses/RendererGLSL.hpp:31, from ../../coot/src/graphics-info.h:53, from ../../coot/src/coot-application.cc:3: ../../coot/MoleculesToTriangles/CXXClasses/RendererGL.h:61: warning: ignoring ‘#pragma mark ’ [-Wunknown-pragmas] 61 | #pragma mark - | ../../coot/MoleculesToTriangles/CXXClasses/RendererGL.h:62: warning: ignoring ‘#pragma mark Debug’ [-Wunknown-pragmas] 62 | #pragma mark Debug routine | mv -f .deps/cc-interface-png.Tpo .deps/cc-interface-png.Plo /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" -DPACKAGE_STRING=\"coot\ 1.x-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I../../coot/src -DUSE_PYTHON -mfpmath=sse -msse -msse2 -pthread -I/opt/user_software/coot/bin-gtk4/lib/libffi-3.2.1/include -I/usr/include/gtk-4.0 -I/usr/include/gio-unix-2.0 -I/usr/include/cairo -I/usr/include/pango-1.0 -I/usr/include/harfbuzz -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/harfbuzz -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/x86_64-linux-gnu -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/graphene-1.0 -I/usr/lib/x86_64-linux-gnu/graphene-1.0/include -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I../../coot -I/opt/user_software/coot/bin-gtk4/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/opt/user_software/coot/bin-gtk4/include -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -I/opt/user_software/coot/bin-gtk4/include -DHAVE_SSMLIB -I/opt/user_software/coot/bin-gtk4/include -DMMDB_HAS_LINK_DISTANCE -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DCLIPPER_HAS_TOP8000 -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR='"/opt/user_software/coot/bin-gtk4/share/coot"' -DPACKAGE_LOCALE_DIR='"/opt/user_software/coot/bin-gtk4/share/coot/locale"' -DPKGPYTHONDIR='"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/coot"' -DPYTHONDIR='"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages"' -DXDATADIR='"/opt/user_software/coot/bin-gtk4/share"' -DCOOT_SYS_BUILD_TYPE='"Linux-x86_64-ubuntu-22.04.4-gtk4"' -DCOOT_BUILD_INFO_STRING='"build-host: gtxr1.srv-local.mpi-dortmund.mpg.de on: Mi 20 Mär 1759.36 CET 2024"' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/opt/user_software/coot/bin-gtk4/include/python3.11 -DHAVE_GSL -fopenmp -g -O -Wall -Wno-unused -std=c++17 -MT coot-colour.lo -MD -MP -MF .deps/coot-colour.Tpo -c -o coot-colour.lo ../../coot/src/coot-colour.cc libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" "-DPACKAGE_STRING=\"coot 1.x-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I../../coot/src -DUSE_PYTHON -mfpmath=sse -msse -msse2 -pthread -I/opt/user_software/coot/bin-gtk4/lib/libffi-3.2.1/include -I/usr/include/gtk-4.0 -I/usr/include/gio-unix-2.0 -I/usr/include/cairo -I/usr/include/pango-1.0 -I/usr/include/harfbuzz -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/harfbuzz -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/x86_64-linux-gnu -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/graphene-1.0 -I/usr/lib/x86_64-linux-gnu/graphene-1.0/include -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I../../coot -I/opt/user_software/coot/bin-gtk4/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/opt/user_software/coot/bin-gtk4/include -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -I/opt/user_software/coot/bin-gtk4/include -DHAVE_SSMLIB -I/opt/user_software/coot/bin-gtk4/include -DMMDB_HAS_LINK_DISTANCE -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DCLIPPER_HAS_TOP8000 -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR=\"/opt/user_software/coot/bin-gtk4/share/coot\" -DPACKAGE_LOCALE_DIR=\"/opt/user_software/coot/bin-gtk4/share/coot/locale\" -DPKGPYTHONDIR=\"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/coot\" -DPYTHONDIR=\"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages\" -DXDATADIR=\"/opt/user_software/coot/bin-gtk4/share\" -DCOOT_SYS_BUILD_TYPE=\"Linux-x86_64-ubuntu-22.04.4-gtk4\" "-DCOOT_BUILD_INFO_STRING=\"build-host: gtxr1.srv-local.mpi-dortmund.mpg.de on: Mi 20 Mär 1759.36 CET 2024\"" -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/opt/user_software/coot/bin-gtk4/include/python3.11 -DHAVE_GSL -fopenmp -g -O -Wall -Wno-unused -std=c++17 -MT coot-colour.lo -MD -MP -MF .deps/coot-colour.Tpo -c ../../coot/src/coot-colour.cc -fPIC -DPIC -o .libs/coot-colour.o mv -f .deps/coot-colour.Tpo .deps/coot-colour.Plo /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" -DPACKAGE_STRING=\"coot\ 1.x-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I../../coot/src -DUSE_PYTHON -mfpmath=sse -msse -msse2 -pthread -I/opt/user_software/coot/bin-gtk4/lib/libffi-3.2.1/include -I/usr/include/gtk-4.0 -I/usr/include/gio-unix-2.0 -I/usr/include/cairo -I/usr/include/pango-1.0 -I/usr/include/harfbuzz -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/harfbuzz -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/x86_64-linux-gnu -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/graphene-1.0 -I/usr/lib/x86_64-linux-gnu/graphene-1.0/include -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I../../coot -I/opt/user_software/coot/bin-gtk4/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/opt/user_software/coot/bin-gtk4/include -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -I/opt/user_software/coot/bin-gtk4/include -DHAVE_SSMLIB -I/opt/user_software/coot/bin-gtk4/include -DMMDB_HAS_LINK_DISTANCE -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DCLIPPER_HAS_TOP8000 -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR='"/opt/user_software/coot/bin-gtk4/share/coot"' -DPACKAGE_LOCALE_DIR='"/opt/user_software/coot/bin-gtk4/share/coot/locale"' -DPKGPYTHONDIR='"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/coot"' -DPYTHONDIR='"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages"' -DXDATADIR='"/opt/user_software/coot/bin-gtk4/share"' -DCOOT_SYS_BUILD_TYPE='"Linux-x86_64-ubuntu-22.04.4-gtk4"' -DCOOT_BUILD_INFO_STRING='"build-host: gtxr1.srv-local.mpi-dortmund.mpg.de on: Mi 20 Mär 1759.36 CET 2024"' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/opt/user_software/coot/bin-gtk4/include/python3.11 -DHAVE_GSL -fopenmp -g -O -Wall -Wno-unused -std=c++17 -MT coot-align.lo -MD -MP -MF .deps/coot-align.Tpo -c -o coot-align.lo ../../coot/src/coot-align.cc mv -f .deps/cc-interface-map-utils.Tpo .deps/cc-interface-map-utils.Plo /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" -DPACKAGE_STRING=\"coot\ 1.x-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I../../coot/src -DUSE_PYTHON -mfpmath=sse -msse -msse2 -pthread -I/opt/user_software/coot/bin-gtk4/lib/libffi-3.2.1/include -I/usr/include/gtk-4.0 -I/usr/include/gio-unix-2.0 -I/usr/include/cairo -I/usr/include/pango-1.0 -I/usr/include/harfbuzz -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/harfbuzz -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/x86_64-linux-gnu -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/graphene-1.0 -I/usr/lib/x86_64-linux-gnu/graphene-1.0/include -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I../../coot -I/opt/user_software/coot/bin-gtk4/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/opt/user_software/coot/bin-gtk4/include -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -I/opt/user_software/coot/bin-gtk4/include -DHAVE_SSMLIB -I/opt/user_software/coot/bin-gtk4/include -DMMDB_HAS_LINK_DISTANCE -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DCLIPPER_HAS_TOP8000 -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR='"/opt/user_software/coot/bin-gtk4/share/coot"' -DPACKAGE_LOCALE_DIR='"/opt/user_software/coot/bin-gtk4/share/coot/locale"' -DPKGPYTHONDIR='"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/coot"' -DPYTHONDIR='"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages"' -DXDATADIR='"/opt/user_software/coot/bin-gtk4/share"' -DCOOT_SYS_BUILD_TYPE='"Linux-x86_64-ubuntu-22.04.4-gtk4"' -DCOOT_BUILD_INFO_STRING='"build-host: gtxr1.srv-local.mpi-dortmund.mpg.de on: Mi 20 Mär 1759.36 CET 2024"' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/opt/user_software/coot/bin-gtk4/include/python3.11 -DHAVE_GSL -fopenmp -g -O -Wall -Wno-unused -std=c++17 -MT coot-nomenclature.lo -MD -MP -MF .deps/coot-nomenclature.Tpo -c -o coot-nomenclature.lo ../../coot/src/coot-nomenclature.cc mv -f .deps/cc-interface-user-defined-atom-colours.Tpo .deps/cc-interface-user-defined-atom-colours.Plo /bin/bash ../libtool --tag=CC --mode=compile gcc -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" -DPACKAGE_STRING=\"coot\ 1.x-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I../../coot/src -DUSE_PYTHON -mfpmath=sse -msse -msse2 -pthread -I/opt/user_software/coot/bin-gtk4/lib/libffi-3.2.1/include -I/usr/include/gtk-4.0 -I/usr/include/gio-unix-2.0 -I/usr/include/cairo -I/usr/include/pango-1.0 -I/usr/include/harfbuzz -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/harfbuzz -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/x86_64-linux-gnu -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/graphene-1.0 -I/usr/lib/x86_64-linux-gnu/graphene-1.0/include -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I../../coot -I/opt/user_software/coot/bin-gtk4/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/opt/user_software/coot/bin-gtk4/include -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -I/opt/user_software/coot/bin-gtk4/include -DHAVE_SSMLIB -I/opt/user_software/coot/bin-gtk4/include -DMMDB_HAS_LINK_DISTANCE -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DCLIPPER_HAS_TOP8000 -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DPKGDATADIR='"/opt/user_software/coot/bin-gtk4/share/coot"' -DHAVE_SYS_STDTYPES_H=0 -I/opt/user_software/coot/bin-gtk4/include/python3.11 -g -O2 -Wall -Wunused -MT coot-glue-gtk2.lo -MD -MP -MF .deps/coot-glue-gtk2.Tpo -c -o coot-glue-gtk2.lo ../../coot/src/coot-glue-gtk2.c libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" "-DPACKAGE_STRING=\"coot 1.x-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I../../coot/src -DUSE_PYTHON -mfpmath=sse -msse -msse2 -pthread -I/opt/user_software/coot/bin-gtk4/lib/libffi-3.2.1/include -I/usr/include/gtk-4.0 -I/usr/include/gio-unix-2.0 -I/usr/include/cairo -I/usr/include/pango-1.0 -I/usr/include/harfbuzz -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/harfbuzz -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/x86_64-linux-gnu -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/graphene-1.0 -I/usr/lib/x86_64-linux-gnu/graphene-1.0/include -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I../../coot -I/opt/user_software/coot/bin-gtk4/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/opt/user_software/coot/bin-gtk4/include -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -I/opt/user_software/coot/bin-gtk4/include -DHAVE_SSMLIB -I/opt/user_software/coot/bin-gtk4/include -DMMDB_HAS_LINK_DISTANCE -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DCLIPPER_HAS_TOP8000 -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR=\"/opt/user_software/coot/bin-gtk4/share/coot\" -DPACKAGE_LOCALE_DIR=\"/opt/user_software/coot/bin-gtk4/share/coot/locale\" -DPKGPYTHONDIR=\"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/coot\" -DPYTHONDIR=\"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages\" -DXDATADIR=\"/opt/user_software/coot/bin-gtk4/share\" -DCOOT_SYS_BUILD_TYPE=\"Linux-x86_64-ubuntu-22.04.4-gtk4\" "-DCOOT_BUILD_INFO_STRING=\"build-host: gtxr1.srv-local.mpi-dortmund.mpg.de on: Mi 20 Mär 1759.36 CET 2024\"" -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/opt/user_software/coot/bin-gtk4/include/python3.11 -DHAVE_GSL -fopenmp -g -O -Wall -Wno-unused -std=c++17 -MT coot-align.lo -MD -MP -MF .deps/coot-align.Tpo -c ../../coot/src/coot-align.cc -fPIC -DPIC -o .libs/coot-align.o libtool: compile: gcc -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" "-DPACKAGE_STRING=\"coot 1.x-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I../../coot/src -DUSE_PYTHON -mfpmath=sse -msse -msse2 -pthread -I/opt/user_software/coot/bin-gtk4/lib/libffi-3.2.1/include -I/usr/include/gtk-4.0 -I/usr/include/gio-unix-2.0 -I/usr/include/cairo -I/usr/include/pango-1.0 -I/usr/include/harfbuzz -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/harfbuzz -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/x86_64-linux-gnu -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/graphene-1.0 -I/usr/lib/x86_64-linux-gnu/graphene-1.0/include -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I../../coot -I/opt/user_software/coot/bin-gtk4/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/opt/user_software/coot/bin-gtk4/include -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -I/opt/user_software/coot/bin-gtk4/include -DHAVE_SSMLIB -I/opt/user_software/coot/bin-gtk4/include -DMMDB_HAS_LINK_DISTANCE -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DCLIPPER_HAS_TOP8000 -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DPKGDATADIR=\"/opt/user_software/coot/bin-gtk4/share/coot\" -DHAVE_SYS_STDTYPES_H=0 -I/opt/user_software/coot/bin-gtk4/include/python3.11 -g -O2 -Wall -Wunused -MT coot-glue-gtk2.lo -MD -MP -MF .deps/coot-glue-gtk2.Tpo -c ../../coot/src/coot-glue-gtk2.c -fPIC -DPIC -o .libs/coot-glue-gtk2.o mv -f .deps/coot-glue-gtk2.Tpo .deps/coot-glue-gtk2.Plo /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" -DPACKAGE_STRING=\"coot\ 1.x-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I../../coot/src -DUSE_PYTHON -mfpmath=sse -msse -msse2 -pthread -I/opt/user_software/coot/bin-gtk4/lib/libffi-3.2.1/include -I/usr/include/gtk-4.0 -I/usr/include/gio-unix-2.0 -I/usr/include/cairo -I/usr/include/pango-1.0 -I/usr/include/harfbuzz -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/harfbuzz -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/x86_64-linux-gnu -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/graphene-1.0 -I/usr/lib/x86_64-linux-gnu/graphene-1.0/include -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I../../coot -I/opt/user_software/coot/bin-gtk4/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/opt/user_software/coot/bin-gtk4/include -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -I/opt/user_software/coot/bin-gtk4/include -DHAVE_SSMLIB -I/opt/user_software/coot/bin-gtk4/include -DMMDB_HAS_LINK_DISTANCE -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DCLIPPER_HAS_TOP8000 -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR='"/opt/user_software/coot/bin-gtk4/share/coot"' -DPACKAGE_LOCALE_DIR='"/opt/user_software/coot/bin-gtk4/share/coot/locale"' -DPKGPYTHONDIR='"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/coot"' -DPYTHONDIR='"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages"' -DXDATADIR='"/opt/user_software/coot/bin-gtk4/share"' -DCOOT_SYS_BUILD_TYPE='"Linux-x86_64-ubuntu-22.04.4-gtk4"' -DCOOT_BUILD_INFO_STRING='"build-host: gtxr1.srv-local.mpi-dortmund.mpg.de on: Mi 20 Mär 1759.36 CET 2024"' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/opt/user_software/coot/bin-gtk4/include/python3.11 -DHAVE_GSL -fopenmp -g -O -Wall -Wno-unused -std=c++17 -MT coot-glue-gtk2-python.lo -MD -MP -MF .deps/coot-glue-gtk2-python.Tpo -c -o coot-glue-gtk2-python.lo ../../coot/src/coot-glue-gtk2-python.cc libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" "-DPACKAGE_STRING=\"coot 1.x-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I../../coot/src -DUSE_PYTHON -mfpmath=sse -msse -msse2 -pthread -I/opt/user_software/coot/bin-gtk4/lib/libffi-3.2.1/include -I/usr/include/gtk-4.0 -I/usr/include/gio-unix-2.0 -I/usr/include/cairo -I/usr/include/pango-1.0 -I/usr/include/harfbuzz -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/harfbuzz -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/x86_64-linux-gnu -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/graphene-1.0 -I/usr/lib/x86_64-linux-gnu/graphene-1.0/include -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I../../coot -I/opt/user_software/coot/bin-gtk4/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/opt/user_software/coot/bin-gtk4/include -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -I/opt/user_software/coot/bin-gtk4/include -DHAVE_SSMLIB -I/opt/user_software/coot/bin-gtk4/include -DMMDB_HAS_LINK_DISTANCE -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DCLIPPER_HAS_TOP8000 -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR=\"/opt/user_software/coot/bin-gtk4/share/coot\" -DPACKAGE_LOCALE_DIR=\"/opt/user_software/coot/bin-gtk4/share/coot/locale\" -DPKGPYTHONDIR=\"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/coot\" -DPYTHONDIR=\"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages\" -DXDATADIR=\"/opt/user_software/coot/bin-gtk4/share\" -DCOOT_SYS_BUILD_TYPE=\"Linux-x86_64-ubuntu-22.04.4-gtk4\" "-DCOOT_BUILD_INFO_STRING=\"build-host: gtxr1.srv-local.mpi-dortmund.mpg.de on: Mi 20 Mär 1759.36 CET 2024\"" -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/opt/user_software/coot/bin-gtk4/include/python3.11 -DHAVE_GSL -fopenmp -g -O -Wall -Wno-unused -std=c++17 -MT coot-nomenclature.lo -MD -MP -MF .deps/coot-nomenclature.Tpo -c ../../coot/src/coot-nomenclature.cc -fPIC -DPIC -o .libs/coot-nomenclature.o libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" "-DPACKAGE_STRING=\"coot 1.x-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I../../coot/src -DUSE_PYTHON -mfpmath=sse -msse -msse2 -pthread -I/opt/user_software/coot/bin-gtk4/lib/libffi-3.2.1/include -I/usr/include/gtk-4.0 -I/usr/include/gio-unix-2.0 -I/usr/include/cairo -I/usr/include/pango-1.0 -I/usr/include/harfbuzz -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/harfbuzz -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/x86_64-linux-gnu -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/graphene-1.0 -I/usr/lib/x86_64-linux-gnu/graphene-1.0/include -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I../../coot -I/opt/user_software/coot/bin-gtk4/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/opt/user_software/coot/bin-gtk4/include -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -I/opt/user_software/coot/bin-gtk4/include -DHAVE_SSMLIB -I/opt/user_software/coot/bin-gtk4/include -DMMDB_HAS_LINK_DISTANCE -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DCLIPPER_HAS_TOP8000 -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR=\"/opt/user_software/coot/bin-gtk4/share/coot\" -DPACKAGE_LOCALE_DIR=\"/opt/user_software/coot/bin-gtk4/share/coot/locale\" -DPKGPYTHONDIR=\"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/coot\" -DPYTHONDIR=\"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages\" -DXDATADIR=\"/opt/user_software/coot/bin-gtk4/share\" -DCOOT_SYS_BUILD_TYPE=\"Linux-x86_64-ubuntu-22.04.4-gtk4\" "-DCOOT_BUILD_INFO_STRING=\"build-host: gtxr1.srv-local.mpi-dortmund.mpg.de on: Mi 20 Mär 1759.36 CET 2024\"" -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/opt/user_software/coot/bin-gtk4/include/python3.11 -DHAVE_GSL -fopenmp -g -O -Wall -Wno-unused -std=c++17 -MT coot-glue-gtk2-python.lo -MD -MP -MF .deps/coot-glue-gtk2-python.Tpo -c ../../coot/src/coot-glue-gtk2-python.cc -fPIC -DPIC -o .libs/coot-glue-gtk2-python.o mv -f .deps/coot-glue-gtk2-python.Tpo .deps/coot-glue-gtk2-python.Plo /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" -DPACKAGE_STRING=\"coot\ 1.x-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I../../coot/src -DUSE_PYTHON -mfpmath=sse -msse -msse2 -pthread -I/opt/user_software/coot/bin-gtk4/lib/libffi-3.2.1/include -I/usr/include/gtk-4.0 -I/usr/include/gio-unix-2.0 -I/usr/include/cairo -I/usr/include/pango-1.0 -I/usr/include/harfbuzz -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/harfbuzz -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/x86_64-linux-gnu -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/graphene-1.0 -I/usr/lib/x86_64-linux-gnu/graphene-1.0/include -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I../../coot -I/opt/user_software/coot/bin-gtk4/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/opt/user_software/coot/bin-gtk4/include -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -I/opt/user_software/coot/bin-gtk4/include -DHAVE_SSMLIB -I/opt/user_software/coot/bin-gtk4/include -DMMDB_HAS_LINK_DISTANCE -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DCLIPPER_HAS_TOP8000 -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR='"/opt/user_software/coot/bin-gtk4/share/coot"' -DPACKAGE_LOCALE_DIR='"/opt/user_software/coot/bin-gtk4/share/coot/locale"' -DPKGPYTHONDIR='"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/coot"' -DPYTHONDIR='"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages"' -DXDATADIR='"/opt/user_software/coot/bin-gtk4/share"' -DCOOT_SYS_BUILD_TYPE='"Linux-x86_64-ubuntu-22.04.4-gtk4"' -DCOOT_BUILD_INFO_STRING='"build-host: gtxr1.srv-local.mpi-dortmund.mpg.de on: Mi 20 Mär 1759.36 CET 2024"' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/opt/user_software/coot/bin-gtk4/include/python3.11 -DHAVE_GSL -fopenmp -g -O -Wall -Wno-unused -std=c++17 -MT coot-hydrogens.lo -MD -MP -MF .deps/coot-hydrogens.Tpo -c -o coot-hydrogens.lo ../../coot/src/coot-hydrogens.cc mv -f .deps/command-line.Tpo .deps/command-line.Plo /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" -DPACKAGE_STRING=\"coot\ 1.x-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I../../coot/src -DUSE_PYTHON -mfpmath=sse -msse -msse2 -pthread -I/opt/user_software/coot/bin-gtk4/lib/libffi-3.2.1/include -I/usr/include/gtk-4.0 -I/usr/include/gio-unix-2.0 -I/usr/include/cairo -I/usr/include/pango-1.0 -I/usr/include/harfbuzz -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/harfbuzz -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/x86_64-linux-gnu -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/graphene-1.0 -I/usr/lib/x86_64-linux-gnu/graphene-1.0/include -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I../../coot -I/opt/user_software/coot/bin-gtk4/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/opt/user_software/coot/bin-gtk4/include -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -I/opt/user_software/coot/bin-gtk4/include -DHAVE_SSMLIB -I/opt/user_software/coot/bin-gtk4/include -DMMDB_HAS_LINK_DISTANCE -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DCLIPPER_HAS_TOP8000 -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR='"/opt/user_software/coot/bin-gtk4/share/coot"' -DPACKAGE_LOCALE_DIR='"/opt/user_software/coot/bin-gtk4/share/coot/locale"' -DPKGPYTHONDIR='"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/coot"' -DPYTHONDIR='"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages"' -DXDATADIR='"/opt/user_software/coot/bin-gtk4/share"' -DCOOT_SYS_BUILD_TYPE='"Linux-x86_64-ubuntu-22.04.4-gtk4"' -DCOOT_BUILD_INFO_STRING='"build-host: gtxr1.srv-local.mpi-dortmund.mpg.de on: Mi 20 Mär 1759.36 CET 2024"' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/opt/user_software/coot/bin-gtk4/include/python3.11 -DHAVE_GSL -fopenmp -g -O -Wall -Wno-unused -std=c++17 -MT coot-phi-psi.lo -MD -MP -MF .deps/coot-phi-psi.Tpo -c -o coot-phi-psi.lo ../../coot/src/coot-phi-psi.cc libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" "-DPACKAGE_STRING=\"coot 1.x-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I../../coot/src -DUSE_PYTHON -mfpmath=sse -msse -msse2 -pthread -I/opt/user_software/coot/bin-gtk4/lib/libffi-3.2.1/include -I/usr/include/gtk-4.0 -I/usr/include/gio-unix-2.0 -I/usr/include/cairo -I/usr/include/pango-1.0 -I/usr/include/harfbuzz -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/harfbuzz -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/x86_64-linux-gnu -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/graphene-1.0 -I/usr/lib/x86_64-linux-gnu/graphene-1.0/include -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I../../coot -I/opt/user_software/coot/bin-gtk4/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/opt/user_software/coot/bin-gtk4/include -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -I/opt/user_software/coot/bin-gtk4/include -DHAVE_SSMLIB -I/opt/user_software/coot/bin-gtk4/include -DMMDB_HAS_LINK_DISTANCE -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DCLIPPER_HAS_TOP8000 -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR=\"/opt/user_software/coot/bin-gtk4/share/coot\" -DPACKAGE_LOCALE_DIR=\"/opt/user_software/coot/bin-gtk4/share/coot/locale\" -DPKGPYTHONDIR=\"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/coot\" -DPYTHONDIR=\"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages\" -DXDATADIR=\"/opt/user_software/coot/bin-gtk4/share\" -DCOOT_SYS_BUILD_TYPE=\"Linux-x86_64-ubuntu-22.04.4-gtk4\" "-DCOOT_BUILD_INFO_STRING=\"build-host: gtxr1.srv-local.mpi-dortmund.mpg.de on: Mi 20 Mär 1759.36 CET 2024\"" -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/opt/user_software/coot/bin-gtk4/include/python3.11 -DHAVE_GSL -fopenmp -g -O -Wall -Wno-unused -std=c++17 -MT coot-hydrogens.lo -MD -MP -MF .deps/coot-hydrogens.Tpo -c ../../coot/src/coot-hydrogens.cc -fPIC -DPIC -o .libs/coot-hydrogens.o mv -f .deps/coot-align.Tpo .deps/coot-align.Plo /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" -DPACKAGE_STRING=\"coot\ 1.x-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I../../coot/src -DUSE_PYTHON -mfpmath=sse -msse -msse2 -pthread -I/opt/user_software/coot/bin-gtk4/lib/libffi-3.2.1/include -I/usr/include/gtk-4.0 -I/usr/include/gio-unix-2.0 -I/usr/include/cairo -I/usr/include/pango-1.0 -I/usr/include/harfbuzz -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/harfbuzz -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/x86_64-linux-gnu -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/graphene-1.0 -I/usr/lib/x86_64-linux-gnu/graphene-1.0/include -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I../../coot -I/opt/user_software/coot/bin-gtk4/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/opt/user_software/coot/bin-gtk4/include -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -I/opt/user_software/coot/bin-gtk4/include -DHAVE_SSMLIB -I/opt/user_software/coot/bin-gtk4/include -DMMDB_HAS_LINK_DISTANCE -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DCLIPPER_HAS_TOP8000 -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR='"/opt/user_software/coot/bin-gtk4/share/coot"' -DPACKAGE_LOCALE_DIR='"/opt/user_software/coot/bin-gtk4/share/coot/locale"' -DPKGPYTHONDIR='"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/coot"' -DPYTHONDIR='"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages"' -DXDATADIR='"/opt/user_software/coot/bin-gtk4/share"' -DCOOT_SYS_BUILD_TYPE='"Linux-x86_64-ubuntu-22.04.4-gtk4"' -DCOOT_BUILD_INFO_STRING='"build-host: gtxr1.srv-local.mpi-dortmund.mpg.de on: Mi 20 Mär 1759.36 CET 2024"' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/opt/user_software/coot/bin-gtk4/include/python3.11 -DHAVE_GSL -fopenmp -g -O -Wall -Wno-unused -std=c++17 -MT coot_pythonmodule.lo -MD -MP -MF .deps/coot_pythonmodule.Tpo -c -o coot_pythonmodule.lo ../../coot/src/coot_pythonmodule.cc libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" "-DPACKAGE_STRING=\"coot 1.x-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I../../coot/src -DUSE_PYTHON -mfpmath=sse -msse -msse2 -pthread -I/opt/user_software/coot/bin-gtk4/lib/libffi-3.2.1/include -I/usr/include/gtk-4.0 -I/usr/include/gio-unix-2.0 -I/usr/include/cairo -I/usr/include/pango-1.0 -I/usr/include/harfbuzz -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/harfbuzz -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/x86_64-linux-gnu -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/graphene-1.0 -I/usr/lib/x86_64-linux-gnu/graphene-1.0/include -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I../../coot -I/opt/user_software/coot/bin-gtk4/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/opt/user_software/coot/bin-gtk4/include -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -I/opt/user_software/coot/bin-gtk4/include -DHAVE_SSMLIB -I/opt/user_software/coot/bin-gtk4/include -DMMDB_HAS_LINK_DISTANCE -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DCLIPPER_HAS_TOP8000 -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR=\"/opt/user_software/coot/bin-gtk4/share/coot\" -DPACKAGE_LOCALE_DIR=\"/opt/user_software/coot/bin-gtk4/share/coot/locale\" -DPKGPYTHONDIR=\"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/coot\" -DPYTHONDIR=\"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages\" -DXDATADIR=\"/opt/user_software/coot/bin-gtk4/share\" -DCOOT_SYS_BUILD_TYPE=\"Linux-x86_64-ubuntu-22.04.4-gtk4\" "-DCOOT_BUILD_INFO_STRING=\"build-host: gtxr1.srv-local.mpi-dortmund.mpg.de on: Mi 20 Mär 1759.36 CET 2024\"" -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/opt/user_software/coot/bin-gtk4/include/python3.11 -DHAVE_GSL -fopenmp -g -O -Wall -Wno-unused -std=c++17 -MT coot-phi-psi.lo -MD -MP -MF .deps/coot-phi-psi.Tpo -c ../../coot/src/coot-phi-psi.cc -fPIC -DPIC -o .libs/coot-phi-psi.o libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" "-DPACKAGE_STRING=\"coot 1.x-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I../../coot/src -DUSE_PYTHON -mfpmath=sse -msse -msse2 -pthread -I/opt/user_software/coot/bin-gtk4/lib/libffi-3.2.1/include -I/usr/include/gtk-4.0 -I/usr/include/gio-unix-2.0 -I/usr/include/cairo -I/usr/include/pango-1.0 -I/usr/include/harfbuzz -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/harfbuzz -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/x86_64-linux-gnu -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/graphene-1.0 -I/usr/lib/x86_64-linux-gnu/graphene-1.0/include -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I../../coot -I/opt/user_software/coot/bin-gtk4/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/opt/user_software/coot/bin-gtk4/include -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -I/opt/user_software/coot/bin-gtk4/include -DHAVE_SSMLIB -I/opt/user_software/coot/bin-gtk4/include -DMMDB_HAS_LINK_DISTANCE -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DCLIPPER_HAS_TOP8000 -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR=\"/opt/user_software/coot/bin-gtk4/share/coot\" -DPACKAGE_LOCALE_DIR=\"/opt/user_software/coot/bin-gtk4/share/coot/locale\" -DPKGPYTHONDIR=\"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/coot\" -DPYTHONDIR=\"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages\" -DXDATADIR=\"/opt/user_software/coot/bin-gtk4/share\" -DCOOT_SYS_BUILD_TYPE=\"Linux-x86_64-ubuntu-22.04.4-gtk4\" "-DCOOT_BUILD_INFO_STRING=\"build-host: gtxr1.srv-local.mpi-dortmund.mpg.de on: Mi 20 Mär 1759.36 CET 2024\"" -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/opt/user_software/coot/bin-gtk4/include/python3.11 -DHAVE_GSL -fopenmp -g -O -Wall -Wno-unused -std=c++17 -MT coot_pythonmodule.lo -MD -MP -MF .deps/coot_pythonmodule.Tpo -c ../../coot/src/coot_pythonmodule.cc -fPIC -DPIC -o .libs/coot_pythonmodule.o In file included from ../../coot/MoleculesToTriangles/CXXClasses/RendererGLSL.hpp:31, from ../../coot/src/graphics-info.h:53, from ../../coot/src/coot_pythonmodule.cc:123: ../../coot/MoleculesToTriangles/CXXClasses/RendererGL.h:61: warning: ignoring ‘#pragma mark ’ [-Wunknown-pragmas] 61 | #pragma mark - | ../../coot/MoleculesToTriangles/CXXClasses/RendererGL.h:62: warning: ignoring ‘#pragma mark Debug’ [-Wunknown-pragmas] 62 | #pragma mark Debug routine | mv -f .deps/coot-phi-psi.Tpo .deps/coot-phi-psi.Plo /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" -DPACKAGE_STRING=\"coot\ 1.x-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I../../coot/src -DUSE_PYTHON -mfpmath=sse -msse -msse2 -pthread -I/opt/user_software/coot/bin-gtk4/lib/libffi-3.2.1/include -I/usr/include/gtk-4.0 -I/usr/include/gio-unix-2.0 -I/usr/include/cairo -I/usr/include/pango-1.0 -I/usr/include/harfbuzz -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/harfbuzz -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/x86_64-linux-gnu -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/graphene-1.0 -I/usr/lib/x86_64-linux-gnu/graphene-1.0/include -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I../../coot -I/opt/user_software/coot/bin-gtk4/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/opt/user_software/coot/bin-gtk4/include -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -I/opt/user_software/coot/bin-gtk4/include -DHAVE_SSMLIB -I/opt/user_software/coot/bin-gtk4/include -DMMDB_HAS_LINK_DISTANCE -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DCLIPPER_HAS_TOP8000 -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR='"/opt/user_software/coot/bin-gtk4/share/coot"' -DPACKAGE_LOCALE_DIR='"/opt/user_software/coot/bin-gtk4/share/coot/locale"' -DPKGPYTHONDIR='"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/coot"' -DPYTHONDIR='"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages"' -DXDATADIR='"/opt/user_software/coot/bin-gtk4/share"' -DCOOT_SYS_BUILD_TYPE='"Linux-x86_64-ubuntu-22.04.4-gtk4"' -DCOOT_BUILD_INFO_STRING='"build-host: gtxr1.srv-local.mpi-dortmund.mpg.de on: Mi 20 Mär 1759.36 CET 2024"' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/opt/user_software/coot/bin-gtk4/include/python3.11 -DHAVE_GSL -fopenmp -g -O -Wall -Wno-unused -std=c++17 -MT coot-setup-python.lo -MD -MP -MF .deps/coot-setup-python.Tpo -c -o coot-setup-python.lo ../../coot/src/coot-setup-python.cc libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" "-DPACKAGE_STRING=\"coot 1.x-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I../../coot/src -DUSE_PYTHON -mfpmath=sse -msse -msse2 -pthread -I/opt/user_software/coot/bin-gtk4/lib/libffi-3.2.1/include -I/usr/include/gtk-4.0 -I/usr/include/gio-unix-2.0 -I/usr/include/cairo -I/usr/include/pango-1.0 -I/usr/include/harfbuzz -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/harfbuzz -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/x86_64-linux-gnu -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/graphene-1.0 -I/usr/lib/x86_64-linux-gnu/graphene-1.0/include -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I../../coot -I/opt/user_software/coot/bin-gtk4/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/opt/user_software/coot/bin-gtk4/include -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -I/opt/user_software/coot/bin-gtk4/include -DHAVE_SSMLIB -I/opt/user_software/coot/bin-gtk4/include -DMMDB_HAS_LINK_DISTANCE -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DCLIPPER_HAS_TOP8000 -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR=\"/opt/user_software/coot/bin-gtk4/share/coot\" -DPACKAGE_LOCALE_DIR=\"/opt/user_software/coot/bin-gtk4/share/coot/locale\" -DPKGPYTHONDIR=\"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/coot\" -DPYTHONDIR=\"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages\" -DXDATADIR=\"/opt/user_software/coot/bin-gtk4/share\" -DCOOT_SYS_BUILD_TYPE=\"Linux-x86_64-ubuntu-22.04.4-gtk4\" "-DCOOT_BUILD_INFO_STRING=\"build-host: gtxr1.srv-local.mpi-dortmund.mpg.de on: Mi 20 Mär 1759.36 CET 2024\"" -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/opt/user_software/coot/bin-gtk4/include/python3.11 -DHAVE_GSL -fopenmp -g -O -Wall -Wno-unused -std=c++17 -MT coot-setup-python.lo -MD -MP -MF .deps/coot-setup-python.Tpo -c ../../coot/src/coot-setup-python.cc -fPIC -DPIC -o .libs/coot-setup-python.o mv -f .deps/cmtz-interface.Tpo .deps/cmtz-interface.Plo swig -o coot_wrap_guile_pre.cc -DUSE_MOLECULES_TO_TRIANGLES -DCOOT_USE_GTK2_INTERFACE -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_LIBCURL -I../../coot/src -I../../coot -guile -c++ ../../coot/src/coot.i mv -f .deps/coot-nomenclature.Tpo .deps/coot-nomenclature.Plo /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" -DPACKAGE_STRING=\"coot\ 1.x-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I../../coot/src -DUSE_PYTHON -mfpmath=sse -msse -msse2 -pthread -I/opt/user_software/coot/bin-gtk4/lib/libffi-3.2.1/include -I/usr/include/gtk-4.0 -I/usr/include/gio-unix-2.0 -I/usr/include/cairo -I/usr/include/pango-1.0 -I/usr/include/harfbuzz -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/harfbuzz -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/x86_64-linux-gnu -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/graphene-1.0 -I/usr/lib/x86_64-linux-gnu/graphene-1.0/include -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I../../coot -I/opt/user_software/coot/bin-gtk4/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/opt/user_software/coot/bin-gtk4/include -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -I/opt/user_software/coot/bin-gtk4/include -DHAVE_SSMLIB -I/opt/user_software/coot/bin-gtk4/include -DMMDB_HAS_LINK_DISTANCE -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DCLIPPER_HAS_TOP8000 -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR='"/opt/user_software/coot/bin-gtk4/share/coot"' -DPACKAGE_LOCALE_DIR='"/opt/user_software/coot/bin-gtk4/share/coot/locale"' -DPKGPYTHONDIR='"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/coot"' -DPYTHONDIR='"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages"' -DXDATADIR='"/opt/user_software/coot/bin-gtk4/share"' -DCOOT_SYS_BUILD_TYPE='"Linux-x86_64-ubuntu-22.04.4-gtk4"' -DCOOT_BUILD_INFO_STRING='"build-host: gtxr1.srv-local.mpi-dortmund.mpg.de on: Mi 20 Mär 1759.36 CET 2024"' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/opt/user_software/coot/bin-gtk4/include/python3.11 -DHAVE_GSL -fopenmp -g -O -Wall -Wno-unused -std=c++17 -MT curlew-gtk4.lo -MD -MP -MF .deps/curlew-gtk4.Tpo -c -o curlew-gtk4.lo ../../coot/src/curlew-gtk4.cc mv -f .deps/coot-application.Tpo .deps/coot-application.Plo /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" -DPACKAGE_STRING=\"coot\ 1.x-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I../../coot/src -DUSE_PYTHON -mfpmath=sse -msse -msse2 -pthread -I/opt/user_software/coot/bin-gtk4/lib/libffi-3.2.1/include -I/usr/include/gtk-4.0 -I/usr/include/gio-unix-2.0 -I/usr/include/cairo -I/usr/include/pango-1.0 -I/usr/include/harfbuzz -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/harfbuzz -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/x86_64-linux-gnu -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/graphene-1.0 -I/usr/lib/x86_64-linux-gnu/graphene-1.0/include -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I../../coot -I/opt/user_software/coot/bin-gtk4/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/opt/user_software/coot/bin-gtk4/include -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -I/opt/user_software/coot/bin-gtk4/include -DHAVE_SSMLIB -I/opt/user_software/coot/bin-gtk4/include -DMMDB_HAS_LINK_DISTANCE -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DCLIPPER_HAS_TOP8000 -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR='"/opt/user_software/coot/bin-gtk4/share/coot"' -DPACKAGE_LOCALE_DIR='"/opt/user_software/coot/bin-gtk4/share/coot/locale"' -DPKGPYTHONDIR='"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/coot"' -DPYTHONDIR='"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages"' -DXDATADIR='"/opt/user_software/coot/bin-gtk4/share"' -DCOOT_SYS_BUILD_TYPE='"Linux-x86_64-ubuntu-22.04.4-gtk4"' -DCOOT_BUILD_INFO_STRING='"build-host: gtxr1.srv-local.mpi-dortmund.mpg.de on: Mi 20 Mär 1759.36 CET 2024"' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/opt/user_software/coot/bin-gtk4/include/python3.11 -DHAVE_GSL -fopenmp -g -O -Wall -Wno-unused -std=c++17 -MT draw.lo -MD -MP -MF .deps/draw.Tpo -c -o draw.lo ../../coot/src/draw.cc mv -f .deps/cfc.Tpo .deps/cfc.Plo /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" -DPACKAGE_STRING=\"coot\ 1.x-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I../../coot/src -DUSE_PYTHON -mfpmath=sse -msse -msse2 -pthread -I/opt/user_software/coot/bin-gtk4/lib/libffi-3.2.1/include -I/usr/include/gtk-4.0 -I/usr/include/gio-unix-2.0 -I/usr/include/cairo -I/usr/include/pango-1.0 -I/usr/include/harfbuzz -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/harfbuzz -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/x86_64-linux-gnu -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/graphene-1.0 -I/usr/lib/x86_64-linux-gnu/graphene-1.0/include -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I../../coot -I/opt/user_software/coot/bin-gtk4/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/opt/user_software/coot/bin-gtk4/include -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -I/opt/user_software/coot/bin-gtk4/include -DHAVE_SSMLIB -I/opt/user_software/coot/bin-gtk4/include -DMMDB_HAS_LINK_DISTANCE -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DCLIPPER_HAS_TOP8000 -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR='"/opt/user_software/coot/bin-gtk4/share/coot"' -DPACKAGE_LOCALE_DIR='"/opt/user_software/coot/bin-gtk4/share/coot/locale"' -DPKGPYTHONDIR='"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/coot"' -DPYTHONDIR='"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages"' -DXDATADIR='"/opt/user_software/coot/bin-gtk4/share"' -DCOOT_SYS_BUILD_TYPE='"Linux-x86_64-ubuntu-22.04.4-gtk4"' -DCOOT_BUILD_INFO_STRING='"build-host: gtxr1.srv-local.mpi-dortmund.mpg.de on: Mi 20 Mär 1759.36 CET 2024"' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/opt/user_software/coot/bin-gtk4/include/python3.11 -DHAVE_GSL -fopenmp -g -O -Wall -Wno-unused -std=c++17 -MT graphics-info-tick-function.lo -MD -MP -MF .deps/graphics-info-tick-function.Tpo -c -o graphics-info-tick-function.lo ../../coot/src/graphics-info-tick-function.cc In file included from ../../coot/MoleculesToTriangles/CXXClasses/RendererGLSL.hpp:31, from ../../coot/src/graphics-info.h:53, from ../../coot/src/coot-setup-python.cc:41: ../../coot/MoleculesToTriangles/CXXClasses/RendererGL.h:61: warning: ignoring ‘#pragma mark ’ [-Wunknown-pragmas] 61 | #pragma mark - | ../../coot/MoleculesToTriangles/CXXClasses/RendererGL.h:62: warning: ignoring ‘#pragma mark Debug’ [-Wunknown-pragmas] 62 | #pragma mark Debug routine | libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" "-DPACKAGE_STRING=\"coot 1.x-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I../../coot/src -DUSE_PYTHON -mfpmath=sse -msse -msse2 -pthread -I/opt/user_software/coot/bin-gtk4/lib/libffi-3.2.1/include -I/usr/include/gtk-4.0 -I/usr/include/gio-unix-2.0 -I/usr/include/cairo -I/usr/include/pango-1.0 -I/usr/include/harfbuzz -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/harfbuzz -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/x86_64-linux-gnu -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/graphene-1.0 -I/usr/lib/x86_64-linux-gnu/graphene-1.0/include -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I../../coot -I/opt/user_software/coot/bin-gtk4/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/opt/user_software/coot/bin-gtk4/include -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -I/opt/user_software/coot/bin-gtk4/include -DHAVE_SSMLIB -I/opt/user_software/coot/bin-gtk4/include -DMMDB_HAS_LINK_DISTANCE -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DCLIPPER_HAS_TOP8000 -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR=\"/opt/user_software/coot/bin-gtk4/share/coot\" -DPACKAGE_LOCALE_DIR=\"/opt/user_software/coot/bin-gtk4/share/coot/locale\" -DPKGPYTHONDIR=\"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/coot\" -DPYTHONDIR=\"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages\" -DXDATADIR=\"/opt/user_software/coot/bin-gtk4/share\" -DCOOT_SYS_BUILD_TYPE=\"Linux-x86_64-ubuntu-22.04.4-gtk4\" "-DCOOT_BUILD_INFO_STRING=\"build-host: gtxr1.srv-local.mpi-dortmund.mpg.de on: Mi 20 Mär 1759.36 CET 2024\"" -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/opt/user_software/coot/bin-gtk4/include/python3.11 -DHAVE_GSL -fopenmp -g -O -Wall -Wno-unused -std=c++17 -MT curlew-gtk4.lo -MD -MP -MF .deps/curlew-gtk4.Tpo -c ../../coot/src/curlew-gtk4.cc -fPIC -DPIC -o .libs/curlew-gtk4.o libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" "-DPACKAGE_STRING=\"coot 1.x-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I../../coot/src -DUSE_PYTHON -mfpmath=sse -msse -msse2 -pthread -I/opt/user_software/coot/bin-gtk4/lib/libffi-3.2.1/include -I/usr/include/gtk-4.0 -I/usr/include/gio-unix-2.0 -I/usr/include/cairo -I/usr/include/pango-1.0 -I/usr/include/harfbuzz -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/harfbuzz -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/x86_64-linux-gnu -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/graphene-1.0 -I/usr/lib/x86_64-linux-gnu/graphene-1.0/include -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I../../coot -I/opt/user_software/coot/bin-gtk4/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/opt/user_software/coot/bin-gtk4/include -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -I/opt/user_software/coot/bin-gtk4/include -DHAVE_SSMLIB -I/opt/user_software/coot/bin-gtk4/include -DMMDB_HAS_LINK_DISTANCE -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DCLIPPER_HAS_TOP8000 -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR=\"/opt/user_software/coot/bin-gtk4/share/coot\" -DPACKAGE_LOCALE_DIR=\"/opt/user_software/coot/bin-gtk4/share/coot/locale\" -DPKGPYTHONDIR=\"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/coot\" -DPYTHONDIR=\"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages\" -DXDATADIR=\"/opt/user_software/coot/bin-gtk4/share\" -DCOOT_SYS_BUILD_TYPE=\"Linux-x86_64-ubuntu-22.04.4-gtk4\" "-DCOOT_BUILD_INFO_STRING=\"build-host: gtxr1.srv-local.mpi-dortmund.mpg.de on: Mi 20 Mär 1759.36 CET 2024\"" -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/opt/user_software/coot/bin-gtk4/include/python3.11 -DHAVE_GSL -fopenmp -g -O -Wall -Wno-unused -std=c++17 -MT draw.lo -MD -MP -MF .deps/draw.Tpo -c ../../coot/src/draw.cc -fPIC -DPIC -o .libs/draw.o /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" -DPACKAGE_STRING=\"coot\ 1.x-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I../../coot/src -DUSE_PYTHON -mfpmath=sse -msse -msse2 -pthread -I/opt/user_software/coot/bin-gtk4/lib/libffi-3.2.1/include -I/usr/include/gtk-4.0 -I/usr/include/gio-unix-2.0 -I/usr/include/cairo -I/usr/include/pango-1.0 -I/usr/include/harfbuzz -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/harfbuzz -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/x86_64-linux-gnu -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/graphene-1.0 -I/usr/lib/x86_64-linux-gnu/graphene-1.0/include -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I../../coot -I/opt/user_software/coot/bin-gtk4/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/opt/user_software/coot/bin-gtk4/include -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -I/opt/user_software/coot/bin-gtk4/include -DHAVE_SSMLIB -I/opt/user_software/coot/bin-gtk4/include -DMMDB_HAS_LINK_DISTANCE -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DCLIPPER_HAS_TOP8000 -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR='"/opt/user_software/coot/bin-gtk4/share/coot"' -DPACKAGE_LOCALE_DIR='"/opt/user_software/coot/bin-gtk4/share/coot/locale"' -DPKGPYTHONDIR='"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/coot"' -DPYTHONDIR='"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages"' -DXDATADIR='"/opt/user_software/coot/bin-gtk4/share"' -DCOOT_SYS_BUILD_TYPE='"Linux-x86_64-ubuntu-22.04.4-gtk4"' -DCOOT_BUILD_INFO_STRING='"build-host: gtxr1.srv-local.mpi-dortmund.mpg.de on: Mi 20 Mär 1759.36 CET 2024"' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/opt/user_software/coot/bin-gtk4/include/python3.11 -DHAVE_GSL -fopenmp -g -O -Wall -Wno-unused -std=c++17 -MT drag-and-drop.lo -MD -MP -MF .deps/drag-and-drop.Tpo -c -o drag-and-drop.lo ../../coot/src/drag-and-drop.cc libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" "-DPACKAGE_STRING=\"coot 1.x-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I../../coot/src -DUSE_PYTHON -mfpmath=sse -msse -msse2 -pthread -I/opt/user_software/coot/bin-gtk4/lib/libffi-3.2.1/include -I/usr/include/gtk-4.0 -I/usr/include/gio-unix-2.0 -I/usr/include/cairo -I/usr/include/pango-1.0 -I/usr/include/harfbuzz -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/harfbuzz -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/x86_64-linux-gnu -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/graphene-1.0 -I/usr/lib/x86_64-linux-gnu/graphene-1.0/include -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I../../coot -I/opt/user_software/coot/bin-gtk4/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/opt/user_software/coot/bin-gtk4/include -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -I/opt/user_software/coot/bin-gtk4/include -DHAVE_SSMLIB -I/opt/user_software/coot/bin-gtk4/include -DMMDB_HAS_LINK_DISTANCE -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DCLIPPER_HAS_TOP8000 -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR=\"/opt/user_software/coot/bin-gtk4/share/coot\" -DPACKAGE_LOCALE_DIR=\"/opt/user_software/coot/bin-gtk4/share/coot/locale\" -DPKGPYTHONDIR=\"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/coot\" -DPYTHONDIR=\"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages\" -DXDATADIR=\"/opt/user_software/coot/bin-gtk4/share\" -DCOOT_SYS_BUILD_TYPE=\"Linux-x86_64-ubuntu-22.04.4-gtk4\" "-DCOOT_BUILD_INFO_STRING=\"build-host: gtxr1.srv-local.mpi-dortmund.mpg.de on: Mi 20 Mär 1759.36 CET 2024\"" -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/opt/user_software/coot/bin-gtk4/include/python3.11 -DHAVE_GSL -fopenmp -g -O -Wall -Wno-unused -std=c++17 -MT graphics-info-tick-function.lo -MD -MP -MF .deps/graphics-info-tick-function.Tpo -c ../../coot/src/graphics-info-tick-function.cc -fPIC -DPIC -o .libs/graphics-info-tick-function.o In file included from ../../coot/MoleculesToTriangles/CXXClasses/RendererGLSL.hpp:31, from ../../coot/src/graphics-info.h:53, from ../../coot/src/curlew-gtk4.cc:7: ../../coot/MoleculesToTriangles/CXXClasses/RendererGL.h:61: warning: ignoring ‘#pragma mark ’ [-Wunknown-pragmas] 61 | #pragma mark - | ../../coot/MoleculesToTriangles/CXXClasses/RendererGL.h:62: warning: ignoring ‘#pragma mark Debug’ [-Wunknown-pragmas] 62 | #pragma mark Debug routine | mv -f .deps/command-line-extern.Tpo .deps/command-line-extern.Plo /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" -DPACKAGE_STRING=\"coot\ 1.x-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I../../coot/src -DUSE_PYTHON -mfpmath=sse -msse -msse2 -pthread -I/opt/user_software/coot/bin-gtk4/lib/libffi-3.2.1/include -I/usr/include/gtk-4.0 -I/usr/include/gio-unix-2.0 -I/usr/include/cairo -I/usr/include/pango-1.0 -I/usr/include/harfbuzz -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/harfbuzz -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/x86_64-linux-gnu -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/graphene-1.0 -I/usr/lib/x86_64-linux-gnu/graphene-1.0/include -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I../../coot -I/opt/user_software/coot/bin-gtk4/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/opt/user_software/coot/bin-gtk4/include -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -I/opt/user_software/coot/bin-gtk4/include -DHAVE_SSMLIB -I/opt/user_software/coot/bin-gtk4/include -DMMDB_HAS_LINK_DISTANCE -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DCLIPPER_HAS_TOP8000 -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR='"/opt/user_software/coot/bin-gtk4/share/coot"' -DPACKAGE_LOCALE_DIR='"/opt/user_software/coot/bin-gtk4/share/coot/locale"' -DPKGPYTHONDIR='"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/coot"' -DPYTHONDIR='"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages"' -DXDATADIR='"/opt/user_software/coot/bin-gtk4/share"' -DCOOT_SYS_BUILD_TYPE='"Linux-x86_64-ubuntu-22.04.4-gtk4"' -DCOOT_BUILD_INFO_STRING='"build-host: gtxr1.srv-local.mpi-dortmund.mpg.de on: Mi 20 Mär 1759.36 CET 2024"' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/opt/user_software/coot/bin-gtk4/include/python3.11 -DHAVE_GSL -fopenmp -g -O -Wall -Wno-unused -std=c++17 -MT draw-generic-display-objects.lo -MD -MP -MF .deps/draw-generic-display-objects.Tpo -c -o draw-generic-display-objects.lo ../../coot/src/draw-generic-display-objects.cc In file included from ../../coot/MoleculesToTriangles/CXXClasses/RendererGLSL.hpp:31, from ../../coot/src/graphics-info.h:53, from ../../coot/src/draw.cc:10: ../../coot/MoleculesToTriangles/CXXClasses/RendererGL.h:61: warning: ignoring ‘#pragma mark ’ [-Wunknown-pragmas] 61 | #pragma mark - | ../../coot/MoleculesToTriangles/CXXClasses/RendererGL.h:62: warning: ignoring ‘#pragma mark Debug’ [-Wunknown-pragmas] 62 | #pragma mark Debug routine | libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" "-DPACKAGE_STRING=\"coot 1.x-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I../../coot/src -DUSE_PYTHON -mfpmath=sse -msse -msse2 -pthread -I/opt/user_software/coot/bin-gtk4/lib/libffi-3.2.1/include -I/usr/include/gtk-4.0 -I/usr/include/gio-unix-2.0 -I/usr/include/cairo -I/usr/include/pango-1.0 -I/usr/include/harfbuzz -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/harfbuzz -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/x86_64-linux-gnu -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/graphene-1.0 -I/usr/lib/x86_64-linux-gnu/graphene-1.0/include -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I../../coot -I/opt/user_software/coot/bin-gtk4/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/opt/user_software/coot/bin-gtk4/include -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -I/opt/user_software/coot/bin-gtk4/include -DHAVE_SSMLIB -I/opt/user_software/coot/bin-gtk4/include -DMMDB_HAS_LINK_DISTANCE -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DCLIPPER_HAS_TOP8000 -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR=\"/opt/user_software/coot/bin-gtk4/share/coot\" -DPACKAGE_LOCALE_DIR=\"/opt/user_software/coot/bin-gtk4/share/coot/locale\" -DPKGPYTHONDIR=\"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/coot\" -DPYTHONDIR=\"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages\" -DXDATADIR=\"/opt/user_software/coot/bin-gtk4/share\" -DCOOT_SYS_BUILD_TYPE=\"Linux-x86_64-ubuntu-22.04.4-gtk4\" "-DCOOT_BUILD_INFO_STRING=\"build-host: gtxr1.srv-local.mpi-dortmund.mpg.de on: Mi 20 Mär 1759.36 CET 2024\"" -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/opt/user_software/coot/bin-gtk4/include/python3.11 -DHAVE_GSL -fopenmp -g -O -Wall -Wno-unused -std=c++17 -MT drag-and-drop.lo -MD -MP -MF .deps/drag-and-drop.Tpo -c ../../coot/src/drag-and-drop.cc -fPIC -DPIC -o .libs/drag-and-drop.o In file included from ../../coot/MoleculesToTriangles/CXXClasses/RendererGLSL.hpp:31, from ../../coot/src/graphics-info.h:53, from ../../coot/src/graphics-info-tick-function.cc:18: ../../coot/MoleculesToTriangles/CXXClasses/RendererGL.h:61: warning: ignoring ‘#pragma mark ’ [-Wunknown-pragmas] 61 | #pragma mark - | ../../coot/MoleculesToTriangles/CXXClasses/RendererGL.h:62: warning: ignoring ‘#pragma mark Debug’ [-Wunknown-pragmas] 62 | #pragma mark Debug routine | libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" "-DPACKAGE_STRING=\"coot 1.x-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I../../coot/src -DUSE_PYTHON -mfpmath=sse -msse -msse2 -pthread -I/opt/user_software/coot/bin-gtk4/lib/libffi-3.2.1/include -I/usr/include/gtk-4.0 -I/usr/include/gio-unix-2.0 -I/usr/include/cairo -I/usr/include/pango-1.0 -I/usr/include/harfbuzz -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/harfbuzz -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/x86_64-linux-gnu -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/graphene-1.0 -I/usr/lib/x86_64-linux-gnu/graphene-1.0/include -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I../../coot -I/opt/user_software/coot/bin-gtk4/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/opt/user_software/coot/bin-gtk4/include -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -I/opt/user_software/coot/bin-gtk4/include -DHAVE_SSMLIB -I/opt/user_software/coot/bin-gtk4/include -DMMDB_HAS_LINK_DISTANCE -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DCLIPPER_HAS_TOP8000 -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR=\"/opt/user_software/coot/bin-gtk4/share/coot\" -DPACKAGE_LOCALE_DIR=\"/opt/user_software/coot/bin-gtk4/share/coot/locale\" -DPKGPYTHONDIR=\"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/coot\" -DPYTHONDIR=\"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages\" -DXDATADIR=\"/opt/user_software/coot/bin-gtk4/share\" -DCOOT_SYS_BUILD_TYPE=\"Linux-x86_64-ubuntu-22.04.4-gtk4\" "-DCOOT_BUILD_INFO_STRING=\"build-host: gtxr1.srv-local.mpi-dortmund.mpg.de on: Mi 20 Mär 1759.36 CET 2024\"" -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/opt/user_software/coot/bin-gtk4/include/python3.11 -DHAVE_GSL -fopenmp -g -O -Wall -Wno-unused -std=c++17 -MT draw-generic-display-objects.lo -MD -MP -MF .deps/draw-generic-display-objects.Tpo -c ../../coot/src/draw-generic-display-objects.cc -fPIC -DPIC -o .libs/draw-generic-display-objects.o mv -f .deps/coot-hydrogens.Tpo .deps/coot-hydrogens.Plo /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" -DPACKAGE_STRING=\"coot\ 1.x-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I../../coot/src -DUSE_PYTHON -mfpmath=sse -msse -msse2 -pthread -I/opt/user_software/coot/bin-gtk4/lib/libffi-3.2.1/include -I/usr/include/gtk-4.0 -I/usr/include/gio-unix-2.0 -I/usr/include/cairo -I/usr/include/pango-1.0 -I/usr/include/harfbuzz -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/harfbuzz -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/x86_64-linux-gnu -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/graphene-1.0 -I/usr/lib/x86_64-linux-gnu/graphene-1.0/include -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I../../coot -I/opt/user_software/coot/bin-gtk4/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/opt/user_software/coot/bin-gtk4/include -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -I/opt/user_software/coot/bin-gtk4/include -DHAVE_SSMLIB -I/opt/user_software/coot/bin-gtk4/include -DMMDB_HAS_LINK_DISTANCE -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DCLIPPER_HAS_TOP8000 -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR='"/opt/user_software/coot/bin-gtk4/share/coot"' -DPACKAGE_LOCALE_DIR='"/opt/user_software/coot/bin-gtk4/share/coot/locale"' -DPKGPYTHONDIR='"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/coot"' -DPYTHONDIR='"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages"' -DXDATADIR='"/opt/user_software/coot/bin-gtk4/share"' -DCOOT_SYS_BUILD_TYPE='"Linux-x86_64-ubuntu-22.04.4-gtk4"' -DCOOT_BUILD_INFO_STRING='"build-host: gtxr1.srv-local.mpi-dortmund.mpg.de on: Mi 20 Mär 1759.36 CET 2024"' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/opt/user_software/coot/bin-gtk4/include/python3.11 -DHAVE_GSL -fopenmp -g -O -Wall -Wno-unused -std=c++17 -MT dynamic-validation.lo -MD -MP -MF .deps/dynamic-validation.Tpo -c -o dynamic-validation.lo ../../coot/src/dynamic-validation.cc In file included from ../../coot/MoleculesToTriangles/CXXClasses/RendererGLSL.hpp:31, from ../../coot/src/graphics-info.h:53, from ../../coot/src/draw-generic-display-objects.cc:13: ../../coot/MoleculesToTriangles/CXXClasses/RendererGL.h:61: warning: ignoring ‘#pragma mark ’ [-Wunknown-pragmas] 61 | #pragma mark - | ../../coot/MoleculesToTriangles/CXXClasses/RendererGL.h:62: warning: ignoring ‘#pragma mark Debug’ [-Wunknown-pragmas] 62 | #pragma mark Debug routine | libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" "-DPACKAGE_STRING=\"coot 1.x-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I../../coot/src -DUSE_PYTHON -mfpmath=sse -msse -msse2 -pthread -I/opt/user_software/coot/bin-gtk4/lib/libffi-3.2.1/include -I/usr/include/gtk-4.0 -I/usr/include/gio-unix-2.0 -I/usr/include/cairo -I/usr/include/pango-1.0 -I/usr/include/harfbuzz -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/harfbuzz -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/x86_64-linux-gnu -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/graphene-1.0 -I/usr/lib/x86_64-linux-gnu/graphene-1.0/include -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I../../coot -I/opt/user_software/coot/bin-gtk4/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/opt/user_software/coot/bin-gtk4/include -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -I/opt/user_software/coot/bin-gtk4/include -DHAVE_SSMLIB -I/opt/user_software/coot/bin-gtk4/include -DMMDB_HAS_LINK_DISTANCE -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DCLIPPER_HAS_TOP8000 -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR=\"/opt/user_software/coot/bin-gtk4/share/coot\" -DPACKAGE_LOCALE_DIR=\"/opt/user_software/coot/bin-gtk4/share/coot/locale\" -DPKGPYTHONDIR=\"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/coot\" -DPYTHONDIR=\"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages\" -DXDATADIR=\"/opt/user_software/coot/bin-gtk4/share\" -DCOOT_SYS_BUILD_TYPE=\"Linux-x86_64-ubuntu-22.04.4-gtk4\" "-DCOOT_BUILD_INFO_STRING=\"build-host: gtxr1.srv-local.mpi-dortmund.mpg.de on: Mi 20 Mär 1759.36 CET 2024\"" -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/opt/user_software/coot/bin-gtk4/include/python3.11 -DHAVE_GSL -fopenmp -g -O -Wall -Wno-unused -std=c++17 -MT dynamic-validation.lo -MD -MP -MF .deps/dynamic-validation.Tpo -c ../../coot/src/dynamic-validation.cc -fPIC -DPIC -o .libs/dynamic-validation.o In file included from ../../coot/MoleculesToTriangles/CXXClasses/RendererGLSL.hpp:31, from ../../coot/src/graphics-info.h:53, from ../../coot/src/dynamic-validation.cc:2: ../../coot/MoleculesToTriangles/CXXClasses/RendererGL.h:61: warning: ignoring ‘#pragma mark ’ [-Wunknown-pragmas] 61 | #pragma mark - | ../../coot/MoleculesToTriangles/CXXClasses/RendererGL.h:62: warning: ignoring ‘#pragma mark Debug’ [-Wunknown-pragmas] 62 | #pragma mark Debug routine | mv -f .deps/drag-and-drop.Tpo .deps/drag-and-drop.Plo /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" -DPACKAGE_STRING=\"coot\ 1.x-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I../../coot/src -DUSE_PYTHON -mfpmath=sse -msse -msse2 -pthread -I/opt/user_software/coot/bin-gtk4/lib/libffi-3.2.1/include -I/usr/include/gtk-4.0 -I/usr/include/gio-unix-2.0 -I/usr/include/cairo -I/usr/include/pango-1.0 -I/usr/include/harfbuzz -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/harfbuzz -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/x86_64-linux-gnu -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/graphene-1.0 -I/usr/lib/x86_64-linux-gnu/graphene-1.0/include -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I../../coot -I/opt/user_software/coot/bin-gtk4/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/opt/user_software/coot/bin-gtk4/include -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -I/opt/user_software/coot/bin-gtk4/include -DHAVE_SSMLIB -I/opt/user_software/coot/bin-gtk4/include -DMMDB_HAS_LINK_DISTANCE -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DCLIPPER_HAS_TOP8000 -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR='"/opt/user_software/coot/bin-gtk4/share/coot"' -DPACKAGE_LOCALE_DIR='"/opt/user_software/coot/bin-gtk4/share/coot/locale"' -DPKGPYTHONDIR='"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/coot"' -DPYTHONDIR='"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages"' -DXDATADIR='"/opt/user_software/coot/bin-gtk4/share"' -DCOOT_SYS_BUILD_TYPE='"Linux-x86_64-ubuntu-22.04.4-gtk4"' -DCOOT_BUILD_INFO_STRING='"build-host: gtxr1.srv-local.mpi-dortmund.mpg.de on: Mi 20 Mär 1759.36 CET 2024"' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/opt/user_software/coot/bin-gtk4/include/python3.11 -DHAVE_GSL -fopenmp -g -O -Wall -Wno-unused -std=c++17 -MT eyes.lo -MD -MP -MF .deps/eyes.Tpo -c -o eyes.lo ../../coot/src/eyes.cc libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" "-DPACKAGE_STRING=\"coot 1.x-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I../../coot/src -DUSE_PYTHON -mfpmath=sse -msse -msse2 -pthread -I/opt/user_software/coot/bin-gtk4/lib/libffi-3.2.1/include -I/usr/include/gtk-4.0 -I/usr/include/gio-unix-2.0 -I/usr/include/cairo -I/usr/include/pango-1.0 -I/usr/include/harfbuzz -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/harfbuzz -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/x86_64-linux-gnu -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/graphene-1.0 -I/usr/lib/x86_64-linux-gnu/graphene-1.0/include -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I../../coot -I/opt/user_software/coot/bin-gtk4/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/opt/user_software/coot/bin-gtk4/include -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -I/opt/user_software/coot/bin-gtk4/include -DHAVE_SSMLIB -I/opt/user_software/coot/bin-gtk4/include -DMMDB_HAS_LINK_DISTANCE -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DCLIPPER_HAS_TOP8000 -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR=\"/opt/user_software/coot/bin-gtk4/share/coot\" -DPACKAGE_LOCALE_DIR=\"/opt/user_software/coot/bin-gtk4/share/coot/locale\" -DPKGPYTHONDIR=\"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/coot\" -DPYTHONDIR=\"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages\" -DXDATADIR=\"/opt/user_software/coot/bin-gtk4/share\" -DCOOT_SYS_BUILD_TYPE=\"Linux-x86_64-ubuntu-22.04.4-gtk4\" "-DCOOT_BUILD_INFO_STRING=\"build-host: gtxr1.srv-local.mpi-dortmund.mpg.de on: Mi 20 Mär 1759.36 CET 2024\"" -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/opt/user_software/coot/bin-gtk4/include/python3.11 -DHAVE_GSL -fopenmp -g -O -Wall -Wno-unused -std=c++17 -MT eyes.lo -MD -MP -MF .deps/eyes.Tpo -c ../../coot/src/eyes.cc -fPIC -DPIC -o .libs/eyes.o ../../coot/src/coot-setup-python.cc: In function ‘void setup_python_basic(int, char**)’: ../../coot/src/coot-setup-python.cc:71:17: warning: ‘void PySys_SetArgv(int, wchar_t**)’ is deprecated [-Wdeprecated-declarations] 71 | PySys_SetArgv(argc, _argv); | ~~~~~~~~~~~~~^~~~~~~~~~~~~ In file included from /opt/user_software/coot/bin-gtk4/include/python3.11/Python.h:96, from ../../coot/src/coot-setup-python.cc:24: /opt/user_software/coot/bin-gtk4/include/python3.11/sysmodule.h:13:38: note: declared here 13 | Py_DEPRECATED(3.11) PyAPI_FUNC(void) PySys_SetArgv(int, wchar_t **); | ^~~~~~~~~~~~~ mv -f .deps/eyes.Tpo .deps/eyes.Plo /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" -DPACKAGE_STRING=\"coot\ 1.x-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I../../coot/src -DUSE_PYTHON -mfpmath=sse -msse -msse2 -pthread -I/opt/user_software/coot/bin-gtk4/lib/libffi-3.2.1/include -I/usr/include/gtk-4.0 -I/usr/include/gio-unix-2.0 -I/usr/include/cairo -I/usr/include/pango-1.0 -I/usr/include/harfbuzz -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/harfbuzz -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/x86_64-linux-gnu -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/graphene-1.0 -I/usr/lib/x86_64-linux-gnu/graphene-1.0/include -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I../../coot -I/opt/user_software/coot/bin-gtk4/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/opt/user_software/coot/bin-gtk4/include -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -I/opt/user_software/coot/bin-gtk4/include -DHAVE_SSMLIB -I/opt/user_software/coot/bin-gtk4/include -DMMDB_HAS_LINK_DISTANCE -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DCLIPPER_HAS_TOP8000 -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR='"/opt/user_software/coot/bin-gtk4/share/coot"' -DPACKAGE_LOCALE_DIR='"/opt/user_software/coot/bin-gtk4/share/coot/locale"' -DPKGPYTHONDIR='"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/coot"' -DPYTHONDIR='"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages"' -DXDATADIR='"/opt/user_software/coot/bin-gtk4/share"' -DCOOT_SYS_BUILD_TYPE='"Linux-x86_64-ubuntu-22.04.4-gtk4"' -DCOOT_BUILD_INFO_STRING='"build-host: gtxr1.srv-local.mpi-dortmund.mpg.de on: Mi 20 Mär 1759.36 CET 2024"' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/opt/user_software/coot/bin-gtk4/include/python3.11 -DHAVE_GSL -fopenmp -g -O -Wall -Wno-unused -std=c++17 -MT event-controller-callbacks.lo -MD -MP -MF .deps/event-controller-callbacks.Tpo -c -o event-controller-callbacks.lo ../../coot/src/event-controller-callbacks.cc mv -f .deps/coot_pythonmodule.Tpo .deps/coot_pythonmodule.Plo /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" -DPACKAGE_STRING=\"coot\ 1.x-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I../../coot/src -DUSE_PYTHON -mfpmath=sse -msse -msse2 -pthread -I/opt/user_software/coot/bin-gtk4/lib/libffi-3.2.1/include -I/usr/include/gtk-4.0 -I/usr/include/gio-unix-2.0 -I/usr/include/cairo -I/usr/include/pango-1.0 -I/usr/include/harfbuzz -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/harfbuzz -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/x86_64-linux-gnu -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/graphene-1.0 -I/usr/lib/x86_64-linux-gnu/graphene-1.0/include -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I../../coot -I/opt/user_software/coot/bin-gtk4/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/opt/user_software/coot/bin-gtk4/include -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -I/opt/user_software/coot/bin-gtk4/include -DHAVE_SSMLIB -I/opt/user_software/coot/bin-gtk4/include -DMMDB_HAS_LINK_DISTANCE -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DCLIPPER_HAS_TOP8000 -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR='"/opt/user_software/coot/bin-gtk4/share/coot"' -DPACKAGE_LOCALE_DIR='"/opt/user_software/coot/bin-gtk4/share/coot/locale"' -DPKGPYTHONDIR='"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/coot"' -DPYTHONDIR='"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages"' -DXDATADIR='"/opt/user_software/coot/bin-gtk4/share"' -DCOOT_SYS_BUILD_TYPE='"Linux-x86_64-ubuntu-22.04.4-gtk4"' -DCOOT_BUILD_INFO_STRING='"build-host: gtxr1.srv-local.mpi-dortmund.mpg.de on: Mi 20 Mär 1759.36 CET 2024"' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/opt/user_software/coot/bin-gtk4/include/python3.11 -DHAVE_GSL -fopenmp -g -O -Wall -Wno-unused -std=c++17 -MT fit-loop-gui.lo -MD -MP -MF .deps/fit-loop-gui.Tpo -c -o fit-loop-gui.lo ../../coot/src/fit-loop-gui.cc libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" "-DPACKAGE_STRING=\"coot 1.x-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I../../coot/src -DUSE_PYTHON -mfpmath=sse -msse -msse2 -pthread -I/opt/user_software/coot/bin-gtk4/lib/libffi-3.2.1/include -I/usr/include/gtk-4.0 -I/usr/include/gio-unix-2.0 -I/usr/include/cairo -I/usr/include/pango-1.0 -I/usr/include/harfbuzz -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/harfbuzz -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/x86_64-linux-gnu -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/graphene-1.0 -I/usr/lib/x86_64-linux-gnu/graphene-1.0/include -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I../../coot -I/opt/user_software/coot/bin-gtk4/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/opt/user_software/coot/bin-gtk4/include -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -I/opt/user_software/coot/bin-gtk4/include -DHAVE_SSMLIB -I/opt/user_software/coot/bin-gtk4/include -DMMDB_HAS_LINK_DISTANCE -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DCLIPPER_HAS_TOP8000 -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR=\"/opt/user_software/coot/bin-gtk4/share/coot\" -DPACKAGE_LOCALE_DIR=\"/opt/user_software/coot/bin-gtk4/share/coot/locale\" -DPKGPYTHONDIR=\"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/coot\" -DPYTHONDIR=\"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages\" -DXDATADIR=\"/opt/user_software/coot/bin-gtk4/share\" -DCOOT_SYS_BUILD_TYPE=\"Linux-x86_64-ubuntu-22.04.4-gtk4\" "-DCOOT_BUILD_INFO_STRING=\"build-host: gtxr1.srv-local.mpi-dortmund.mpg.de on: Mi 20 Mär 1759.36 CET 2024\"" -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/opt/user_software/coot/bin-gtk4/include/python3.11 -DHAVE_GSL -fopenmp -g -O -Wall -Wno-unused -std=c++17 -MT event-controller-callbacks.lo -MD -MP -MF .deps/event-controller-callbacks.Tpo -c ../../coot/src/event-controller-callbacks.cc -fPIC -DPIC -o .libs/event-controller-callbacks.o libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" "-DPACKAGE_STRING=\"coot 1.x-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I../../coot/src -DUSE_PYTHON -mfpmath=sse -msse -msse2 -pthread -I/opt/user_software/coot/bin-gtk4/lib/libffi-3.2.1/include -I/usr/include/gtk-4.0 -I/usr/include/gio-unix-2.0 -I/usr/include/cairo -I/usr/include/pango-1.0 -I/usr/include/harfbuzz -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/harfbuzz -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/x86_64-linux-gnu -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/graphene-1.0 -I/usr/lib/x86_64-linux-gnu/graphene-1.0/include -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I../../coot -I/opt/user_software/coot/bin-gtk4/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/opt/user_software/coot/bin-gtk4/include -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -I/opt/user_software/coot/bin-gtk4/include -DHAVE_SSMLIB -I/opt/user_software/coot/bin-gtk4/include -DMMDB_HAS_LINK_DISTANCE -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DCLIPPER_HAS_TOP8000 -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR=\"/opt/user_software/coot/bin-gtk4/share/coot\" -DPACKAGE_LOCALE_DIR=\"/opt/user_software/coot/bin-gtk4/share/coot/locale\" -DPKGPYTHONDIR=\"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/coot\" -DPYTHONDIR=\"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages\" -DXDATADIR=\"/opt/user_software/coot/bin-gtk4/share\" -DCOOT_SYS_BUILD_TYPE=\"Linux-x86_64-ubuntu-22.04.4-gtk4\" "-DCOOT_BUILD_INFO_STRING=\"build-host: gtxr1.srv-local.mpi-dortmund.mpg.de on: Mi 20 Mär 1759.36 CET 2024\"" -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/opt/user_software/coot/bin-gtk4/include/python3.11 -DHAVE_GSL -fopenmp -g -O -Wall -Wno-unused -std=c++17 -MT fit-loop-gui.lo -MD -MP -MF .deps/fit-loop-gui.Tpo -c ../../coot/src/fit-loop-gui.cc -fPIC -DPIC -o .libs/fit-loop-gui.o In file included from ../../coot/MoleculesToTriangles/CXXClasses/RendererGLSL.hpp:31, from ../../coot/src/graphics-info.h:53, from ../../coot/src/event-controller-callbacks.cc:3: ../../coot/MoleculesToTriangles/CXXClasses/RendererGL.h:61: warning: ignoring ‘#pragma mark ’ [-Wunknown-pragmas] 61 | #pragma mark - | ../../coot/MoleculesToTriangles/CXXClasses/RendererGL.h:62: warning: ignoring ‘#pragma mark Debug’ [-Wunknown-pragmas] 62 | #pragma mark Debug routine | In file included from ../../coot/MoleculesToTriangles/CXXClasses/RendererGLSL.hpp:31, from ../../coot/src/graphics-info.h:53, from ../../coot/src/fit-loop-gui.cc:9: ../../coot/MoleculesToTriangles/CXXClasses/RendererGL.h:61: warning: ignoring ‘#pragma mark ’ [-Wunknown-pragmas] 61 | #pragma mark - | ../../coot/MoleculesToTriangles/CXXClasses/RendererGL.h:62: warning: ignoring ‘#pragma mark Debug’ [-Wunknown-pragmas] 62 | #pragma mark Debug routine | mv -f .deps/coot-setup-python.Tpo .deps/coot-setup-python.Plo /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" -DPACKAGE_STRING=\"coot\ 1.x-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I../../coot/src -DUSE_PYTHON -mfpmath=sse -msse -msse2 -pthread -I/opt/user_software/coot/bin-gtk4/lib/libffi-3.2.1/include -I/usr/include/gtk-4.0 -I/usr/include/gio-unix-2.0 -I/usr/include/cairo -I/usr/include/pango-1.0 -I/usr/include/harfbuzz -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/harfbuzz -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/x86_64-linux-gnu -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/graphene-1.0 -I/usr/lib/x86_64-linux-gnu/graphene-1.0/include -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I../../coot -I/opt/user_software/coot/bin-gtk4/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/opt/user_software/coot/bin-gtk4/include -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -I/opt/user_software/coot/bin-gtk4/include -DHAVE_SSMLIB -I/opt/user_software/coot/bin-gtk4/include -DMMDB_HAS_LINK_DISTANCE -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DCLIPPER_HAS_TOP8000 -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR='"/opt/user_software/coot/bin-gtk4/share/coot"' -DPACKAGE_LOCALE_DIR='"/opt/user_software/coot/bin-gtk4/share/coot/locale"' -DPKGPYTHONDIR='"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/coot"' -DPYTHONDIR='"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages"' -DXDATADIR='"/opt/user_software/coot/bin-gtk4/share"' -DCOOT_SYS_BUILD_TYPE='"Linux-x86_64-ubuntu-22.04.4-gtk4"' -DCOOT_BUILD_INFO_STRING='"build-host: gtxr1.srv-local.mpi-dortmund.mpg.de on: Mi 20 Mär 1759.36 CET 2024"' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/opt/user_software/coot/bin-gtk4/include/python3.11 -DHAVE_GSL -fopenmp -g -O -Wall -Wno-unused -std=c++17 -MT flev.lo -MD -MP -MF .deps/flev.Tpo -c -o flev.lo ../../coot/src/flev.cc libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" "-DPACKAGE_STRING=\"coot 1.x-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I../../coot/src -DUSE_PYTHON -mfpmath=sse -msse -msse2 -pthread -I/opt/user_software/coot/bin-gtk4/lib/libffi-3.2.1/include -I/usr/include/gtk-4.0 -I/usr/include/gio-unix-2.0 -I/usr/include/cairo -I/usr/include/pango-1.0 -I/usr/include/harfbuzz -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/harfbuzz -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/x86_64-linux-gnu -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/graphene-1.0 -I/usr/lib/x86_64-linux-gnu/graphene-1.0/include -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I../../coot -I/opt/user_software/coot/bin-gtk4/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/opt/user_software/coot/bin-gtk4/include -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -I/opt/user_software/coot/bin-gtk4/include -DHAVE_SSMLIB -I/opt/user_software/coot/bin-gtk4/include -DMMDB_HAS_LINK_DISTANCE -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DCLIPPER_HAS_TOP8000 -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR=\"/opt/user_software/coot/bin-gtk4/share/coot\" -DPACKAGE_LOCALE_DIR=\"/opt/user_software/coot/bin-gtk4/share/coot/locale\" -DPKGPYTHONDIR=\"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/coot\" -DPYTHONDIR=\"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages\" -DXDATADIR=\"/opt/user_software/coot/bin-gtk4/share\" -DCOOT_SYS_BUILD_TYPE=\"Linux-x86_64-ubuntu-22.04.4-gtk4\" "-DCOOT_BUILD_INFO_STRING=\"build-host: gtxr1.srv-local.mpi-dortmund.mpg.de on: Mi 20 Mär 1759.36 CET 2024\"" -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/opt/user_software/coot/bin-gtk4/include/python3.11 -DHAVE_GSL -fopenmp -g -O -Wall -Wno-unused -std=c++17 -MT flev.lo -MD -MP -MF .deps/flev.Tpo -c ../../coot/src/flev.cc -fPIC -DPIC -o .libs/flev.o mv -f .deps/graphics-info-tick-function.Tpo .deps/graphics-info-tick-function.Plo /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" -DPACKAGE_STRING=\"coot\ 1.x-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I../../coot/src -DUSE_PYTHON -mfpmath=sse -msse -msse2 -pthread -I/opt/user_software/coot/bin-gtk4/lib/libffi-3.2.1/include -I/usr/include/gtk-4.0 -I/usr/include/gio-unix-2.0 -I/usr/include/cairo -I/usr/include/pango-1.0 -I/usr/include/harfbuzz -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/harfbuzz -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/x86_64-linux-gnu -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/graphene-1.0 -I/usr/lib/x86_64-linux-gnu/graphene-1.0/include -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I../../coot -I/opt/user_software/coot/bin-gtk4/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/opt/user_software/coot/bin-gtk4/include -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -I/opt/user_software/coot/bin-gtk4/include -DHAVE_SSMLIB -I/opt/user_software/coot/bin-gtk4/include -DMMDB_HAS_LINK_DISTANCE -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DCLIPPER_HAS_TOP8000 -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR='"/opt/user_software/coot/bin-gtk4/share/coot"' -DPACKAGE_LOCALE_DIR='"/opt/user_software/coot/bin-gtk4/share/coot/locale"' -DPKGPYTHONDIR='"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/coot"' -DPYTHONDIR='"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages"' -DXDATADIR='"/opt/user_software/coot/bin-gtk4/share"' -DCOOT_SYS_BUILD_TYPE='"Linux-x86_64-ubuntu-22.04.4-gtk4"' -DCOOT_BUILD_INFO_STRING='"build-host: gtxr1.srv-local.mpi-dortmund.mpg.de on: Mi 20 Mär 1759.36 CET 2024"' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/opt/user_software/coot/bin-gtk4/include/python3.11 -DHAVE_GSL -fopenmp -g -O -Wall -Wno-unused -std=c++17 -MT framebuffer.lo -MD -MP -MF .deps/framebuffer.Tpo -c -o framebuffer.lo ../../coot/src/framebuffer.cc In file included from ../../coot/MoleculesToTriangles/CXXClasses/RendererGLSL.hpp:31, from ../../coot/src/graphics-info.h:53, from ../../coot/src/flev.cc:41: ../../coot/MoleculesToTriangles/CXXClasses/RendererGL.h:61: warning: ignoring ‘#pragma mark ’ [-Wunknown-pragmas] 61 | #pragma mark - | ../../coot/MoleculesToTriangles/CXXClasses/RendererGL.h:62: warning: ignoring ‘#pragma mark Debug’ [-Wunknown-pragmas] 62 | #pragma mark Debug routine | libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" "-DPACKAGE_STRING=\"coot 1.x-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I../../coot/src -DUSE_PYTHON -mfpmath=sse -msse -msse2 -pthread -I/opt/user_software/coot/bin-gtk4/lib/libffi-3.2.1/include -I/usr/include/gtk-4.0 -I/usr/include/gio-unix-2.0 -I/usr/include/cairo -I/usr/include/pango-1.0 -I/usr/include/harfbuzz -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/harfbuzz -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/x86_64-linux-gnu -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/graphene-1.0 -I/usr/lib/x86_64-linux-gnu/graphene-1.0/include -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I../../coot -I/opt/user_software/coot/bin-gtk4/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/opt/user_software/coot/bin-gtk4/include -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -I/opt/user_software/coot/bin-gtk4/include -DHAVE_SSMLIB -I/opt/user_software/coot/bin-gtk4/include -DMMDB_HAS_LINK_DISTANCE -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DCLIPPER_HAS_TOP8000 -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR=\"/opt/user_software/coot/bin-gtk4/share/coot\" -DPACKAGE_LOCALE_DIR=\"/opt/user_software/coot/bin-gtk4/share/coot/locale\" -DPKGPYTHONDIR=\"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/coot\" -DPYTHONDIR=\"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages\" -DXDATADIR=\"/opt/user_software/coot/bin-gtk4/share\" -DCOOT_SYS_BUILD_TYPE=\"Linux-x86_64-ubuntu-22.04.4-gtk4\" "-DCOOT_BUILD_INFO_STRING=\"build-host: gtxr1.srv-local.mpi-dortmund.mpg.de on: Mi 20 Mär 1759.36 CET 2024\"" -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/opt/user_software/coot/bin-gtk4/include/python3.11 -DHAVE_GSL -fopenmp -g -O -Wall -Wno-unused -std=c++17 -MT framebuffer.lo -MD -MP -MF .deps/framebuffer.Tpo -c ../../coot/src/framebuffer.cc -fPIC -DPIC -o .libs/framebuffer.o mv -f .deps/draw.Tpo .deps/draw.Plo /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" -DPACKAGE_STRING=\"coot\ 1.x-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I../../coot/src -DUSE_PYTHON -mfpmath=sse -msse -msse2 -pthread -I/opt/user_software/coot/bin-gtk4/lib/libffi-3.2.1/include -I/usr/include/gtk-4.0 -I/usr/include/gio-unix-2.0 -I/usr/include/cairo -I/usr/include/pango-1.0 -I/usr/include/harfbuzz -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/harfbuzz -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/x86_64-linux-gnu -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/graphene-1.0 -I/usr/lib/x86_64-linux-gnu/graphene-1.0/include -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I../../coot -I/opt/user_software/coot/bin-gtk4/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/opt/user_software/coot/bin-gtk4/include -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -I/opt/user_software/coot/bin-gtk4/include -DHAVE_SSMLIB -I/opt/user_software/coot/bin-gtk4/include -DMMDB_HAS_LINK_DISTANCE -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DCLIPPER_HAS_TOP8000 -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR='"/opt/user_software/coot/bin-gtk4/share/coot"' -DPACKAGE_LOCALE_DIR='"/opt/user_software/coot/bin-gtk4/share/coot/locale"' -DPKGPYTHONDIR='"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/coot"' -DPYTHONDIR='"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages"' -DXDATADIR='"/opt/user_software/coot/bin-gtk4/share"' -DCOOT_SYS_BUILD_TYPE='"Linux-x86_64-ubuntu-22.04.4-gtk4"' -DCOOT_BUILD_INFO_STRING='"build-host: gtxr1.srv-local.mpi-dortmund.mpg.de on: Mi 20 Mär 1759.36 CET 2024"' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/opt/user_software/coot/bin-gtk4/include/python3.11 -DHAVE_GSL -fopenmp -g -O -Wall -Wno-unused -std=c++17 -MT old-generic-display-object.lo -MD -MP -MF .deps/old-generic-display-object.Tpo -c -o old-generic-display-object.lo ../../coot/src/old-generic-display-object.cc mv -f .deps/framebuffer.Tpo .deps/framebuffer.Plo /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" -DPACKAGE_STRING=\"coot\ 1.x-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I../../coot/src -DUSE_PYTHON -mfpmath=sse -msse -msse2 -pthread -I/opt/user_software/coot/bin-gtk4/lib/libffi-3.2.1/include -I/usr/include/gtk-4.0 -I/usr/include/gio-unix-2.0 -I/usr/include/cairo -I/usr/include/pango-1.0 -I/usr/include/harfbuzz -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/harfbuzz -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/x86_64-linux-gnu -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/graphene-1.0 -I/usr/lib/x86_64-linux-gnu/graphene-1.0/include -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I../../coot -I/opt/user_software/coot/bin-gtk4/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/opt/user_software/coot/bin-gtk4/include -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -I/opt/user_software/coot/bin-gtk4/include -DHAVE_SSMLIB -I/opt/user_software/coot/bin-gtk4/include -DMMDB_HAS_LINK_DISTANCE -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DCLIPPER_HAS_TOP8000 -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR='"/opt/user_software/coot/bin-gtk4/share/coot"' -DPACKAGE_LOCALE_DIR='"/opt/user_software/coot/bin-gtk4/share/coot/locale"' -DPKGPYTHONDIR='"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/coot"' -DPYTHONDIR='"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages"' -DXDATADIR='"/opt/user_software/coot/bin-gtk4/share"' -DCOOT_SYS_BUILD_TYPE='"Linux-x86_64-ubuntu-22.04.4-gtk4"' -DCOOT_BUILD_INFO_STRING='"build-host: gtxr1.srv-local.mpi-dortmund.mpg.de on: Mi 20 Mär 1759.36 CET 2024"' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/opt/user_software/coot/bin-gtk4/include/python3.11 -DHAVE_GSL -fopenmp -g -O -Wall -Wno-unused -std=c++17 -MT gaussian-surface.lo -MD -MP -MF .deps/gaussian-surface.Tpo -c -o gaussian-surface.lo ../../coot/src/gaussian-surface.cc libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" "-DPACKAGE_STRING=\"coot 1.x-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I../../coot/src -DUSE_PYTHON -mfpmath=sse -msse -msse2 -pthread -I/opt/user_software/coot/bin-gtk4/lib/libffi-3.2.1/include -I/usr/include/gtk-4.0 -I/usr/include/gio-unix-2.0 -I/usr/include/cairo -I/usr/include/pango-1.0 -I/usr/include/harfbuzz -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/harfbuzz -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/x86_64-linux-gnu -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/graphene-1.0 -I/usr/lib/x86_64-linux-gnu/graphene-1.0/include -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I../../coot -I/opt/user_software/coot/bin-gtk4/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/opt/user_software/coot/bin-gtk4/include -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -I/opt/user_software/coot/bin-gtk4/include -DHAVE_SSMLIB -I/opt/user_software/coot/bin-gtk4/include -DMMDB_HAS_LINK_DISTANCE -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DCLIPPER_HAS_TOP8000 -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR=\"/opt/user_software/coot/bin-gtk4/share/coot\" -DPACKAGE_LOCALE_DIR=\"/opt/user_software/coot/bin-gtk4/share/coot/locale\" -DPKGPYTHONDIR=\"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/coot\" -DPYTHONDIR=\"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages\" -DXDATADIR=\"/opt/user_software/coot/bin-gtk4/share\" -DCOOT_SYS_BUILD_TYPE=\"Linux-x86_64-ubuntu-22.04.4-gtk4\" "-DCOOT_BUILD_INFO_STRING=\"build-host: gtxr1.srv-local.mpi-dortmund.mpg.de on: Mi 20 Mär 1759.36 CET 2024\"" -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/opt/user_software/coot/bin-gtk4/include/python3.11 -DHAVE_GSL -fopenmp -g -O -Wall -Wno-unused -std=c++17 -MT old-generic-display-object.lo -MD -MP -MF .deps/old-generic-display-object.Tpo -c ../../coot/src/old-generic-display-object.cc -fPIC -DPIC -o .libs/old-generic-display-object.o libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" "-DPACKAGE_STRING=\"coot 1.x-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I../../coot/src -DUSE_PYTHON -mfpmath=sse -msse -msse2 -pthread -I/opt/user_software/coot/bin-gtk4/lib/libffi-3.2.1/include -I/usr/include/gtk-4.0 -I/usr/include/gio-unix-2.0 -I/usr/include/cairo -I/usr/include/pango-1.0 -I/usr/include/harfbuzz -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/harfbuzz -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/x86_64-linux-gnu -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/graphene-1.0 -I/usr/lib/x86_64-linux-gnu/graphene-1.0/include -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I../../coot -I/opt/user_software/coot/bin-gtk4/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/opt/user_software/coot/bin-gtk4/include -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -I/opt/user_software/coot/bin-gtk4/include -DHAVE_SSMLIB -I/opt/user_software/coot/bin-gtk4/include -DMMDB_HAS_LINK_DISTANCE -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DCLIPPER_HAS_TOP8000 -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR=\"/opt/user_software/coot/bin-gtk4/share/coot\" -DPACKAGE_LOCALE_DIR=\"/opt/user_software/coot/bin-gtk4/share/coot/locale\" -DPKGPYTHONDIR=\"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/coot\" -DPYTHONDIR=\"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages\" -DXDATADIR=\"/opt/user_software/coot/bin-gtk4/share\" -DCOOT_SYS_BUILD_TYPE=\"Linux-x86_64-ubuntu-22.04.4-gtk4\" "-DCOOT_BUILD_INFO_STRING=\"build-host: gtxr1.srv-local.mpi-dortmund.mpg.de on: Mi 20 Mär 1759.36 CET 2024\"" -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/opt/user_software/coot/bin-gtk4/include/python3.11 -DHAVE_GSL -fopenmp -g -O -Wall -Wno-unused -std=c++17 -MT gaussian-surface.lo -MD -MP -MF .deps/gaussian-surface.Tpo -c ../../coot/src/gaussian-surface.cc -fPIC -DPIC -o .libs/gaussian-surface.o In file included from ../../coot/MoleculesToTriangles/CXXClasses/RendererGLSL.hpp:31, from ../../coot/src/graphics-info.h:53, from ../../coot/src/old-generic-display-object.cc:8: ../../coot/MoleculesToTriangles/CXXClasses/RendererGL.h:61: warning: ignoring ‘#pragma mark ’ [-Wunknown-pragmas] 61 | #pragma mark - | ../../coot/MoleculesToTriangles/CXXClasses/RendererGL.h:62: warning: ignoring ‘#pragma mark Debug’ [-Wunknown-pragmas] 62 | #pragma mark Debug routine | mv -f .deps/curlew-gtk4.Tpo .deps/curlew-gtk4.Plo /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" -DPACKAGE_STRING=\"coot\ 1.x-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I../../coot/src -DUSE_PYTHON -mfpmath=sse -msse -msse2 -pthread -I/opt/user_software/coot/bin-gtk4/lib/libffi-3.2.1/include -I/usr/include/gtk-4.0 -I/usr/include/gio-unix-2.0 -I/usr/include/cairo -I/usr/include/pango-1.0 -I/usr/include/harfbuzz -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/harfbuzz -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/x86_64-linux-gnu -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/graphene-1.0 -I/usr/lib/x86_64-linux-gnu/graphene-1.0/include -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I../../coot -I/opt/user_software/coot/bin-gtk4/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/opt/user_software/coot/bin-gtk4/include -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -I/opt/user_software/coot/bin-gtk4/include -DHAVE_SSMLIB -I/opt/user_software/coot/bin-gtk4/include -DMMDB_HAS_LINK_DISTANCE -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DCLIPPER_HAS_TOP8000 -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR='"/opt/user_software/coot/bin-gtk4/share/coot"' -DPACKAGE_LOCALE_DIR='"/opt/user_software/coot/bin-gtk4/share/coot/locale"' -DPKGPYTHONDIR='"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/coot"' -DPYTHONDIR='"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages"' -DXDATADIR='"/opt/user_software/coot/bin-gtk4/share"' -DCOOT_SYS_BUILD_TYPE='"Linux-x86_64-ubuntu-22.04.4-gtk4"' -DCOOT_BUILD_INFO_STRING='"build-host: gtxr1.srv-local.mpi-dortmund.mpg.de on: Mi 20 Mär 1759.36 CET 2024"' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/opt/user_software/coot/bin-gtk4/include/python3.11 -DHAVE_GSL -fopenmp -g -O -Wall -Wno-unused -std=c++17 -MT generic-objects.lo -MD -MP -MF .deps/generic-objects.Tpo -c -o generic-objects.lo ../../coot/src/generic-objects.cc In file included from ../../coot/MoleculesToTriangles/CXXClasses/RendererGLSL.hpp:31, from ../../coot/src/graphics-info.h:53, from ../../coot/src/gaussian-surface.cc:4: ../../coot/MoleculesToTriangles/CXXClasses/RendererGL.h:61: warning: ignoring ‘#pragma mark ’ [-Wunknown-pragmas] 61 | #pragma mark - | ../../coot/MoleculesToTriangles/CXXClasses/RendererGL.h:62: warning: ignoring ‘#pragma mark Debug’ [-Wunknown-pragmas] 62 | #pragma mark Debug routine | mv -f .deps/draw-generic-display-objects.Tpo .deps/draw-generic-display-objects.Plo /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" -DPACKAGE_STRING=\"coot\ 1.x-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I../../coot/src -DUSE_PYTHON -mfpmath=sse -msse -msse2 -pthread -I/opt/user_software/coot/bin-gtk4/lib/libffi-3.2.1/include -I/usr/include/gtk-4.0 -I/usr/include/gio-unix-2.0 -I/usr/include/cairo -I/usr/include/pango-1.0 -I/usr/include/harfbuzz -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/harfbuzz -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/x86_64-linux-gnu -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/graphene-1.0 -I/usr/lib/x86_64-linux-gnu/graphene-1.0/include -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I../../coot -I/opt/user_software/coot/bin-gtk4/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/opt/user_software/coot/bin-gtk4/include -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -I/opt/user_software/coot/bin-gtk4/include -DHAVE_SSMLIB -I/opt/user_software/coot/bin-gtk4/include -DMMDB_HAS_LINK_DISTANCE -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DCLIPPER_HAS_TOP8000 -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR='"/opt/user_software/coot/bin-gtk4/share/coot"' -DPACKAGE_LOCALE_DIR='"/opt/user_software/coot/bin-gtk4/share/coot/locale"' -DPKGPYTHONDIR='"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/coot"' -DPYTHONDIR='"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages"' -DXDATADIR='"/opt/user_software/coot/bin-gtk4/share"' -DCOOT_SYS_BUILD_TYPE='"Linux-x86_64-ubuntu-22.04.4-gtk4"' -DCOOT_BUILD_INFO_STRING='"build-host: gtxr1.srv-local.mpi-dortmund.mpg.de on: Mi 20 Mär 1759.36 CET 2024"' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/opt/user_software/coot/bin-gtk4/include/python3.11 -DHAVE_GSL -fopenmp -g -O -Wall -Wno-unused -std=c++17 -MT geometry-graphs.lo -MD -MP -MF .deps/geometry-graphs.Tpo -c -o geometry-graphs.lo ../../coot/src/geometry-graphs.cc mv -f .deps/dynamic-validation.Tpo .deps/dynamic-validation.Plo /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" -DPACKAGE_STRING=\"coot\ 1.x-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I../../coot/src -DUSE_PYTHON -mfpmath=sse -msse -msse2 -pthread -I/opt/user_software/coot/bin-gtk4/lib/libffi-3.2.1/include -I/usr/include/gtk-4.0 -I/usr/include/gio-unix-2.0 -I/usr/include/cairo -I/usr/include/pango-1.0 -I/usr/include/harfbuzz -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/harfbuzz -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/x86_64-linux-gnu -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/graphene-1.0 -I/usr/lib/x86_64-linux-gnu/graphene-1.0/include -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I../../coot -I/opt/user_software/coot/bin-gtk4/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/opt/user_software/coot/bin-gtk4/include -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -I/opt/user_software/coot/bin-gtk4/include -DHAVE_SSMLIB -I/opt/user_software/coot/bin-gtk4/include -DMMDB_HAS_LINK_DISTANCE -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DCLIPPER_HAS_TOP8000 -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR='"/opt/user_software/coot/bin-gtk4/share/coot"' -DPACKAGE_LOCALE_DIR='"/opt/user_software/coot/bin-gtk4/share/coot/locale"' -DPKGPYTHONDIR='"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/coot"' -DPYTHONDIR='"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages"' -DXDATADIR='"/opt/user_software/coot/bin-gtk4/share"' -DCOOT_SYS_BUILD_TYPE='"Linux-x86_64-ubuntu-22.04.4-gtk4"' -DCOOT_BUILD_INFO_STRING='"build-host: gtxr1.srv-local.mpi-dortmund.mpg.de on: Mi 20 Mär 1759.36 CET 2024"' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/opt/user_software/coot/bin-gtk4/include/python3.11 -DHAVE_GSL -fopenmp -g -O -Wall -Wno-unused -std=c++17 -MT get-residue.lo -MD -MP -MF .deps/get-residue.Tpo -c -o get-residue.lo ../../coot/src/get-residue.cc libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" "-DPACKAGE_STRING=\"coot 1.x-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I../../coot/src -DUSE_PYTHON -mfpmath=sse -msse -msse2 -pthread -I/opt/user_software/coot/bin-gtk4/lib/libffi-3.2.1/include -I/usr/include/gtk-4.0 -I/usr/include/gio-unix-2.0 -I/usr/include/cairo -I/usr/include/pango-1.0 -I/usr/include/harfbuzz -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/harfbuzz -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/x86_64-linux-gnu -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/graphene-1.0 -I/usr/lib/x86_64-linux-gnu/graphene-1.0/include -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I../../coot -I/opt/user_software/coot/bin-gtk4/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/opt/user_software/coot/bin-gtk4/include -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -I/opt/user_software/coot/bin-gtk4/include -DHAVE_SSMLIB -I/opt/user_software/coot/bin-gtk4/include -DMMDB_HAS_LINK_DISTANCE -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DCLIPPER_HAS_TOP8000 -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR=\"/opt/user_software/coot/bin-gtk4/share/coot\" -DPACKAGE_LOCALE_DIR=\"/opt/user_software/coot/bin-gtk4/share/coot/locale\" -DPKGPYTHONDIR=\"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/coot\" -DPYTHONDIR=\"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages\" -DXDATADIR=\"/opt/user_software/coot/bin-gtk4/share\" -DCOOT_SYS_BUILD_TYPE=\"Linux-x86_64-ubuntu-22.04.4-gtk4\" "-DCOOT_BUILD_INFO_STRING=\"build-host: gtxr1.srv-local.mpi-dortmund.mpg.de on: Mi 20 Mär 1759.36 CET 2024\"" -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/opt/user_software/coot/bin-gtk4/include/python3.11 -DHAVE_GSL -fopenmp -g -O -Wall -Wno-unused -std=c++17 -MT generic-objects.lo -MD -MP -MF .deps/generic-objects.Tpo -c ../../coot/src/generic-objects.cc -fPIC -DPIC -o .libs/generic-objects.o libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" "-DPACKAGE_STRING=\"coot 1.x-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I../../coot/src -DUSE_PYTHON -mfpmath=sse -msse -msse2 -pthread -I/opt/user_software/coot/bin-gtk4/lib/libffi-3.2.1/include -I/usr/include/gtk-4.0 -I/usr/include/gio-unix-2.0 -I/usr/include/cairo -I/usr/include/pango-1.0 -I/usr/include/harfbuzz -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/harfbuzz -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/x86_64-linux-gnu -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/graphene-1.0 -I/usr/lib/x86_64-linux-gnu/graphene-1.0/include -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I../../coot -I/opt/user_software/coot/bin-gtk4/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/opt/user_software/coot/bin-gtk4/include -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -I/opt/user_software/coot/bin-gtk4/include -DHAVE_SSMLIB -I/opt/user_software/coot/bin-gtk4/include -DMMDB_HAS_LINK_DISTANCE -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DCLIPPER_HAS_TOP8000 -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR=\"/opt/user_software/coot/bin-gtk4/share/coot\" -DPACKAGE_LOCALE_DIR=\"/opt/user_software/coot/bin-gtk4/share/coot/locale\" -DPKGPYTHONDIR=\"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/coot\" -DPYTHONDIR=\"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages\" -DXDATADIR=\"/opt/user_software/coot/bin-gtk4/share\" -DCOOT_SYS_BUILD_TYPE=\"Linux-x86_64-ubuntu-22.04.4-gtk4\" "-DCOOT_BUILD_INFO_STRING=\"build-host: gtxr1.srv-local.mpi-dortmund.mpg.de on: Mi 20 Mär 1759.36 CET 2024\"" -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/opt/user_software/coot/bin-gtk4/include/python3.11 -DHAVE_GSL -fopenmp -g -O -Wall -Wno-unused -std=c++17 -MT geometry-graphs.lo -MD -MP -MF .deps/geometry-graphs.Tpo -c ../../coot/src/geometry-graphs.cc -fPIC -DPIC -o .libs/geometry-graphs.o mv -f .deps/geometry-graphs.Tpo .deps/geometry-graphs.Plo /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" -DPACKAGE_STRING=\"coot\ 1.x-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I../../coot/src -DUSE_PYTHON -mfpmath=sse -msse -msse2 -pthread -I/opt/user_software/coot/bin-gtk4/lib/libffi-3.2.1/include -I/usr/include/gtk-4.0 -I/usr/include/gio-unix-2.0 -I/usr/include/cairo -I/usr/include/pango-1.0 -I/usr/include/harfbuzz -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/harfbuzz -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/x86_64-linux-gnu -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/graphene-1.0 -I/usr/lib/x86_64-linux-gnu/graphene-1.0/include -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I../../coot -I/opt/user_software/coot/bin-gtk4/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/opt/user_software/coot/bin-gtk4/include -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -I/opt/user_software/coot/bin-gtk4/include -DHAVE_SSMLIB -I/opt/user_software/coot/bin-gtk4/include -DMMDB_HAS_LINK_DISTANCE -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DCLIPPER_HAS_TOP8000 -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR='"/opt/user_software/coot/bin-gtk4/share/coot"' -DPACKAGE_LOCALE_DIR='"/opt/user_software/coot/bin-gtk4/share/coot/locale"' -DPKGPYTHONDIR='"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/coot"' -DPYTHONDIR='"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages"' -DXDATADIR='"/opt/user_software/coot/bin-gtk4/share"' -DCOOT_SYS_BUILD_TYPE='"Linux-x86_64-ubuntu-22.04.4-gtk4"' -DCOOT_BUILD_INFO_STRING='"build-host: gtxr1.srv-local.mpi-dortmund.mpg.de on: Mi 20 Mär 1759.36 CET 2024"' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/opt/user_software/coot/bin-gtk4/include/python3.11 -DHAVE_GSL -fopenmp -g -O -Wall -Wno-unused -std=c++17 -MT get-monomer.lo -MD -MP -MF .deps/get-monomer.Tpo -c -o get-monomer.lo ../../coot/src/get-monomer.cc libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" "-DPACKAGE_STRING=\"coot 1.x-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I../../coot/src -DUSE_PYTHON -mfpmath=sse -msse -msse2 -pthread -I/opt/user_software/coot/bin-gtk4/lib/libffi-3.2.1/include -I/usr/include/gtk-4.0 -I/usr/include/gio-unix-2.0 -I/usr/include/cairo -I/usr/include/pango-1.0 -I/usr/include/harfbuzz -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/harfbuzz -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/x86_64-linux-gnu -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/graphene-1.0 -I/usr/lib/x86_64-linux-gnu/graphene-1.0/include -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I../../coot -I/opt/user_software/coot/bin-gtk4/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/opt/user_software/coot/bin-gtk4/include -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -I/opt/user_software/coot/bin-gtk4/include -DHAVE_SSMLIB -I/opt/user_software/coot/bin-gtk4/include -DMMDB_HAS_LINK_DISTANCE -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DCLIPPER_HAS_TOP8000 -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR=\"/opt/user_software/coot/bin-gtk4/share/coot\" -DPACKAGE_LOCALE_DIR=\"/opt/user_software/coot/bin-gtk4/share/coot/locale\" -DPKGPYTHONDIR=\"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/coot\" -DPYTHONDIR=\"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages\" -DXDATADIR=\"/opt/user_software/coot/bin-gtk4/share\" -DCOOT_SYS_BUILD_TYPE=\"Linux-x86_64-ubuntu-22.04.4-gtk4\" "-DCOOT_BUILD_INFO_STRING=\"build-host: gtxr1.srv-local.mpi-dortmund.mpg.de on: Mi 20 Mär 1759.36 CET 2024\"" -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/opt/user_software/coot/bin-gtk4/include/python3.11 -DHAVE_GSL -fopenmp -g -O -Wall -Wno-unused -std=c++17 -MT get-residue.lo -MD -MP -MF .deps/get-residue.Tpo -c ../../coot/src/get-residue.cc -fPIC -DPIC -o .libs/get-residue.o libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" "-DPACKAGE_STRING=\"coot 1.x-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I../../coot/src -DUSE_PYTHON -mfpmath=sse -msse -msse2 -pthread -I/opt/user_software/coot/bin-gtk4/lib/libffi-3.2.1/include -I/usr/include/gtk-4.0 -I/usr/include/gio-unix-2.0 -I/usr/include/cairo -I/usr/include/pango-1.0 -I/usr/include/harfbuzz -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/harfbuzz -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/x86_64-linux-gnu -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/graphene-1.0 -I/usr/lib/x86_64-linux-gnu/graphene-1.0/include -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I../../coot -I/opt/user_software/coot/bin-gtk4/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/opt/user_software/coot/bin-gtk4/include -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -I/opt/user_software/coot/bin-gtk4/include -DHAVE_SSMLIB -I/opt/user_software/coot/bin-gtk4/include -DMMDB_HAS_LINK_DISTANCE -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DCLIPPER_HAS_TOP8000 -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR=\"/opt/user_software/coot/bin-gtk4/share/coot\" -DPACKAGE_LOCALE_DIR=\"/opt/user_software/coot/bin-gtk4/share/coot/locale\" -DPKGPYTHONDIR=\"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/coot\" -DPYTHONDIR=\"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages\" -DXDATADIR=\"/opt/user_software/coot/bin-gtk4/share\" -DCOOT_SYS_BUILD_TYPE=\"Linux-x86_64-ubuntu-22.04.4-gtk4\" "-DCOOT_BUILD_INFO_STRING=\"build-host: gtxr1.srv-local.mpi-dortmund.mpg.de on: Mi 20 Mär 1759.36 CET 2024\"" -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/opt/user_software/coot/bin-gtk4/include/python3.11 -DHAVE_GSL -fopenmp -g -O -Wall -Wno-unused -std=c++17 -MT get-monomer.lo -MD -MP -MF .deps/get-monomer.Tpo -c ../../coot/src/get-monomer.cc -fPIC -DPIC -o .libs/get-monomer.o In file included from ../../coot/MoleculesToTriangles/CXXClasses/RendererGLSL.hpp:31, from ../../coot/src/graphics-info.h:53, from ../../coot/src/generic-objects.cc:50: ../../coot/MoleculesToTriangles/CXXClasses/RendererGL.h:61: warning: ignoring ‘#pragma mark ’ [-Wunknown-pragmas] 61 | #pragma mark - | ../../coot/MoleculesToTriangles/CXXClasses/RendererGL.h:62: warning: ignoring ‘#pragma mark Debug’ [-Wunknown-pragmas] 62 | #pragma mark Debug routine | mv -f .deps/event-controller-callbacks.Tpo .deps/event-controller-callbacks.Plo /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" -DPACKAGE_STRING=\"coot\ 1.x-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I../../coot/src -DUSE_PYTHON -mfpmath=sse -msse -msse2 -pthread -I/opt/user_software/coot/bin-gtk4/lib/libffi-3.2.1/include -I/usr/include/gtk-4.0 -I/usr/include/gio-unix-2.0 -I/usr/include/cairo -I/usr/include/pango-1.0 -I/usr/include/harfbuzz -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/harfbuzz -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/x86_64-linux-gnu -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/graphene-1.0 -I/usr/lib/x86_64-linux-gnu/graphene-1.0/include -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I../../coot -I/opt/user_software/coot/bin-gtk4/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/opt/user_software/coot/bin-gtk4/include -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -I/opt/user_software/coot/bin-gtk4/include -DHAVE_SSMLIB -I/opt/user_software/coot/bin-gtk4/include -DMMDB_HAS_LINK_DISTANCE -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DCLIPPER_HAS_TOP8000 -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR='"/opt/user_software/coot/bin-gtk4/share/coot"' -DPACKAGE_LOCALE_DIR='"/opt/user_software/coot/bin-gtk4/share/coot/locale"' -DPKGPYTHONDIR='"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/coot"' -DPYTHONDIR='"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages"' -DXDATADIR='"/opt/user_software/coot/bin-gtk4/share"' -DCOOT_SYS_BUILD_TYPE='"Linux-x86_64-ubuntu-22.04.4-gtk4"' -DCOOT_BUILD_INFO_STRING='"build-host: gtxr1.srv-local.mpi-dortmund.mpg.de on: Mi 20 Mär 1759.36 CET 2024"' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/opt/user_software/coot/bin-gtk4/include/python3.11 -DHAVE_GSL -fopenmp -g -O -Wall -Wno-unused -std=c++17 -MT gl-rama-plot.lo -MD -MP -MF .deps/gl-rama-plot.Tpo -c -o gl-rama-plot.lo ../../coot/src/gl-rama-plot.cc In file included from ../../coot/MoleculesToTriangles/CXXClasses/RendererGLSL.hpp:31, from ../../coot/src/graphics-info.h:53, from ../../coot/src/get-residue.cc:9: ../../coot/MoleculesToTriangles/CXXClasses/RendererGL.h:61: warning: ignoring ‘#pragma mark ’ [-Wunknown-pragmas] 61 | #pragma mark - | ../../coot/MoleculesToTriangles/CXXClasses/RendererGL.h:62: warning: ignoring ‘#pragma mark Debug’ [-Wunknown-pragmas] 62 | #pragma mark Debug routine | In file included from ../../coot/MoleculesToTriangles/CXXClasses/RendererGLSL.hpp:31, from ../../coot/src/graphics-info.h:53, from ../../coot/src/get-monomer.cc:29: ../../coot/MoleculesToTriangles/CXXClasses/RendererGL.h:61: warning: ignoring ‘#pragma mark ’ [-Wunknown-pragmas] 61 | #pragma mark - | ../../coot/MoleculesToTriangles/CXXClasses/RendererGL.h:62: warning: ignoring ‘#pragma mark Debug’ [-Wunknown-pragmas] 62 | #pragma mark Debug routine | libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" "-DPACKAGE_STRING=\"coot 1.x-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I../../coot/src -DUSE_PYTHON -mfpmath=sse -msse -msse2 -pthread -I/opt/user_software/coot/bin-gtk4/lib/libffi-3.2.1/include -I/usr/include/gtk-4.0 -I/usr/include/gio-unix-2.0 -I/usr/include/cairo -I/usr/include/pango-1.0 -I/usr/include/harfbuzz -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/harfbuzz -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/x86_64-linux-gnu -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/graphene-1.0 -I/usr/lib/x86_64-linux-gnu/graphene-1.0/include -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I../../coot -I/opt/user_software/coot/bin-gtk4/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/opt/user_software/coot/bin-gtk4/include -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -I/opt/user_software/coot/bin-gtk4/include -DHAVE_SSMLIB -I/opt/user_software/coot/bin-gtk4/include -DMMDB_HAS_LINK_DISTANCE -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DCLIPPER_HAS_TOP8000 -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR=\"/opt/user_software/coot/bin-gtk4/share/coot\" -DPACKAGE_LOCALE_DIR=\"/opt/user_software/coot/bin-gtk4/share/coot/locale\" -DPKGPYTHONDIR=\"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/coot\" -DPYTHONDIR=\"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages\" -DXDATADIR=\"/opt/user_software/coot/bin-gtk4/share\" -DCOOT_SYS_BUILD_TYPE=\"Linux-x86_64-ubuntu-22.04.4-gtk4\" "-DCOOT_BUILD_INFO_STRING=\"build-host: gtxr1.srv-local.mpi-dortmund.mpg.de on: Mi 20 Mär 1759.36 CET 2024\"" -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/opt/user_software/coot/bin-gtk4/include/python3.11 -DHAVE_GSL -fopenmp -g -O -Wall -Wno-unused -std=c++17 -MT gl-rama-plot.lo -MD -MP -MF .deps/gl-rama-plot.Tpo -c ../../coot/src/gl-rama-plot.cc -fPIC -DPIC -o .libs/gl-rama-plot.o mv -f .deps/fit-loop-gui.Tpo .deps/fit-loop-gui.Plo /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" -DPACKAGE_STRING=\"coot\ 1.x-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I../../coot/src -DUSE_PYTHON -mfpmath=sse -msse -msse2 -pthread -I/opt/user_software/coot/bin-gtk4/lib/libffi-3.2.1/include -I/usr/include/gtk-4.0 -I/usr/include/gio-unix-2.0 -I/usr/include/cairo -I/usr/include/pango-1.0 -I/usr/include/harfbuzz -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/harfbuzz -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/x86_64-linux-gnu -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/graphene-1.0 -I/usr/lib/x86_64-linux-gnu/graphene-1.0/include -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I../../coot -I/opt/user_software/coot/bin-gtk4/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/opt/user_software/coot/bin-gtk4/include -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -I/opt/user_software/coot/bin-gtk4/include -DHAVE_SSMLIB -I/opt/user_software/coot/bin-gtk4/include -DMMDB_HAS_LINK_DISTANCE -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DCLIPPER_HAS_TOP8000 -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR='"/opt/user_software/coot/bin-gtk4/share/coot"' -DPACKAGE_LOCALE_DIR='"/opt/user_software/coot/bin-gtk4/share/coot/locale"' -DPKGPYTHONDIR='"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/coot"' -DPYTHONDIR='"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages"' -DXDATADIR='"/opt/user_software/coot/bin-gtk4/share"' -DCOOT_SYS_BUILD_TYPE='"Linux-x86_64-ubuntu-22.04.4-gtk4"' -DCOOT_BUILD_INFO_STRING='"build-host: gtxr1.srv-local.mpi-dortmund.mpg.de on: Mi 20 Mär 1759.36 CET 2024"' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/opt/user_software/coot/bin-gtk4/include/python3.11 -DHAVE_GSL -fopenmp -g -O -Wall -Wno-unused -std=c++17 -MT globjects.lo -MD -MP -MF .deps/globjects.Tpo -c -o globjects.lo ../../coot/src/globjects.cc libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" "-DPACKAGE_STRING=\"coot 1.x-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I../../coot/src -DUSE_PYTHON -mfpmath=sse -msse -msse2 -pthread -I/opt/user_software/coot/bin-gtk4/lib/libffi-3.2.1/include -I/usr/include/gtk-4.0 -I/usr/include/gio-unix-2.0 -I/usr/include/cairo -I/usr/include/pango-1.0 -I/usr/include/harfbuzz -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/harfbuzz -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/x86_64-linux-gnu -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/graphene-1.0 -I/usr/lib/x86_64-linux-gnu/graphene-1.0/include -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I../../coot -I/opt/user_software/coot/bin-gtk4/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/opt/user_software/coot/bin-gtk4/include -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -I/opt/user_software/coot/bin-gtk4/include -DHAVE_SSMLIB -I/opt/user_software/coot/bin-gtk4/include -DMMDB_HAS_LINK_DISTANCE -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DCLIPPER_HAS_TOP8000 -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR=\"/opt/user_software/coot/bin-gtk4/share/coot\" -DPACKAGE_LOCALE_DIR=\"/opt/user_software/coot/bin-gtk4/share/coot/locale\" -DPKGPYTHONDIR=\"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/coot\" -DPYTHONDIR=\"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages\" -DXDATADIR=\"/opt/user_software/coot/bin-gtk4/share\" -DCOOT_SYS_BUILD_TYPE=\"Linux-x86_64-ubuntu-22.04.4-gtk4\" "-DCOOT_BUILD_INFO_STRING=\"build-host: gtxr1.srv-local.mpi-dortmund.mpg.de on: Mi 20 Mär 1759.36 CET 2024\"" -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/opt/user_software/coot/bin-gtk4/include/python3.11 -DHAVE_GSL -fopenmp -g -O -Wall -Wno-unused -std=c++17 -MT globjects.lo -MD -MP -MF .deps/globjects.Tpo -c ../../coot/src/globjects.cc -fPIC -DPIC -o .libs/globjects.o mv -f .deps/globjects.Tpo .deps/globjects.Plo /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" -DPACKAGE_STRING=\"coot\ 1.x-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I../../coot/src -DUSE_PYTHON -mfpmath=sse -msse -msse2 -pthread -I/opt/user_software/coot/bin-gtk4/lib/libffi-3.2.1/include -I/usr/include/gtk-4.0 -I/usr/include/gio-unix-2.0 -I/usr/include/cairo -I/usr/include/pango-1.0 -I/usr/include/harfbuzz -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/harfbuzz -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/x86_64-linux-gnu -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/graphene-1.0 -I/usr/lib/x86_64-linux-gnu/graphene-1.0/include -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I../../coot -I/opt/user_software/coot/bin-gtk4/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/opt/user_software/coot/bin-gtk4/include -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -I/opt/user_software/coot/bin-gtk4/include -DHAVE_SSMLIB -I/opt/user_software/coot/bin-gtk4/include -DMMDB_HAS_LINK_DISTANCE -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DCLIPPER_HAS_TOP8000 -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR='"/opt/user_software/coot/bin-gtk4/share/coot"' -DPACKAGE_LOCALE_DIR='"/opt/user_software/coot/bin-gtk4/share/coot/locale"' -DPKGPYTHONDIR='"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/coot"' -DPYTHONDIR='"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages"' -DXDATADIR='"/opt/user_software/coot/bin-gtk4/share"' -DCOOT_SYS_BUILD_TYPE='"Linux-x86_64-ubuntu-22.04.4-gtk4"' -DCOOT_BUILD_INFO_STRING='"build-host: gtxr1.srv-local.mpi-dortmund.mpg.de on: Mi 20 Mär 1759.36 CET 2024"' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/opt/user_software/coot/bin-gtk4/include/python3.11 -DHAVE_GSL -fopenmp -g -O -Wall -Wno-unused -std=c++17 -MT globularize.lo -MD -MP -MF .deps/globularize.Tpo -c -o globularize.lo ../../coot/src/globularize.cc mv -f .deps/gl-rama-plot.Tpo .deps/gl-rama-plot.Plo /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" -DPACKAGE_STRING=\"coot\ 1.x-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I../../coot/src -DUSE_PYTHON -mfpmath=sse -msse -msse2 -pthread -I/opt/user_software/coot/bin-gtk4/lib/libffi-3.2.1/include -I/usr/include/gtk-4.0 -I/usr/include/gio-unix-2.0 -I/usr/include/cairo -I/usr/include/pango-1.0 -I/usr/include/harfbuzz -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/harfbuzz -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/x86_64-linux-gnu -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/graphene-1.0 -I/usr/lib/x86_64-linux-gnu/graphene-1.0/include -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I../../coot -I/opt/user_software/coot/bin-gtk4/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/opt/user_software/coot/bin-gtk4/include -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -I/opt/user_software/coot/bin-gtk4/include -DHAVE_SSMLIB -I/opt/user_software/coot/bin-gtk4/include -DMMDB_HAS_LINK_DISTANCE -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DCLIPPER_HAS_TOP8000 -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR='"/opt/user_software/coot/bin-gtk4/share/coot"' -DPACKAGE_LOCALE_DIR='"/opt/user_software/coot/bin-gtk4/share/coot/locale"' -DPKGPYTHONDIR='"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/coot"' -DPYTHONDIR='"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages"' -DXDATADIR='"/opt/user_software/coot/bin-gtk4/share"' -DCOOT_SYS_BUILD_TYPE='"Linux-x86_64-ubuntu-22.04.4-gtk4"' -DCOOT_BUILD_INFO_STRING='"build-host: gtxr1.srv-local.mpi-dortmund.mpg.de on: Mi 20 Mär 1759.36 CET 2024"' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/opt/user_software/coot/bin-gtk4/include/python3.11 -DHAVE_GSL -fopenmp -g -O -Wall -Wno-unused -std=c++17 -MT graphics-info.lo -MD -MP -MF .deps/graphics-info.Tpo -c -o graphics-info.lo ../../coot/src/graphics-info.cc libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" "-DPACKAGE_STRING=\"coot 1.x-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I../../coot/src -DUSE_PYTHON -mfpmath=sse -msse -msse2 -pthread -I/opt/user_software/coot/bin-gtk4/lib/libffi-3.2.1/include -I/usr/include/gtk-4.0 -I/usr/include/gio-unix-2.0 -I/usr/include/cairo -I/usr/include/pango-1.0 -I/usr/include/harfbuzz -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/harfbuzz -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/x86_64-linux-gnu -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/graphene-1.0 -I/usr/lib/x86_64-linux-gnu/graphene-1.0/include -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I../../coot -I/opt/user_software/coot/bin-gtk4/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/opt/user_software/coot/bin-gtk4/include -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -I/opt/user_software/coot/bin-gtk4/include -DHAVE_SSMLIB -I/opt/user_software/coot/bin-gtk4/include -DMMDB_HAS_LINK_DISTANCE -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DCLIPPER_HAS_TOP8000 -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR=\"/opt/user_software/coot/bin-gtk4/share/coot\" -DPACKAGE_LOCALE_DIR=\"/opt/user_software/coot/bin-gtk4/share/coot/locale\" -DPKGPYTHONDIR=\"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/coot\" -DPYTHONDIR=\"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages\" -DXDATADIR=\"/opt/user_software/coot/bin-gtk4/share\" -DCOOT_SYS_BUILD_TYPE=\"Linux-x86_64-ubuntu-22.04.4-gtk4\" "-DCOOT_BUILD_INFO_STRING=\"build-host: gtxr1.srv-local.mpi-dortmund.mpg.de on: Mi 20 Mär 1759.36 CET 2024\"" -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/opt/user_software/coot/bin-gtk4/include/python3.11 -DHAVE_GSL -fopenmp -g -O -Wall -Wno-unused -std=c++17 -MT globularize.lo -MD -MP -MF .deps/globularize.Tpo -c ../../coot/src/globularize.cc -fPIC -DPIC -o .libs/globularize.o libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" "-DPACKAGE_STRING=\"coot 1.x-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I../../coot/src -DUSE_PYTHON -mfpmath=sse -msse -msse2 -pthread -I/opt/user_software/coot/bin-gtk4/lib/libffi-3.2.1/include -I/usr/include/gtk-4.0 -I/usr/include/gio-unix-2.0 -I/usr/include/cairo -I/usr/include/pango-1.0 -I/usr/include/harfbuzz -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/harfbuzz -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/x86_64-linux-gnu -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/graphene-1.0 -I/usr/lib/x86_64-linux-gnu/graphene-1.0/include -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I../../coot -I/opt/user_software/coot/bin-gtk4/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/opt/user_software/coot/bin-gtk4/include -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -I/opt/user_software/coot/bin-gtk4/include -DHAVE_SSMLIB -I/opt/user_software/coot/bin-gtk4/include -DMMDB_HAS_LINK_DISTANCE -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DCLIPPER_HAS_TOP8000 -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR=\"/opt/user_software/coot/bin-gtk4/share/coot\" -DPACKAGE_LOCALE_DIR=\"/opt/user_software/coot/bin-gtk4/share/coot/locale\" -DPKGPYTHONDIR=\"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/coot\" -DPYTHONDIR=\"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages\" -DXDATADIR=\"/opt/user_software/coot/bin-gtk4/share\" -DCOOT_SYS_BUILD_TYPE=\"Linux-x86_64-ubuntu-22.04.4-gtk4\" "-DCOOT_BUILD_INFO_STRING=\"build-host: gtxr1.srv-local.mpi-dortmund.mpg.de on: Mi 20 Mär 1759.36 CET 2024\"" -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/opt/user_software/coot/bin-gtk4/include/python3.11 -DHAVE_GSL -fopenmp -g -O -Wall -Wno-unused -std=c++17 -MT graphics-info.lo -MD -MP -MF .deps/graphics-info.Tpo -c ../../coot/src/graphics-info.cc -fPIC -DPIC -o .libs/graphics-info.o In file included from ../../coot/MoleculesToTriangles/CXXClasses/RendererGLSL.hpp:31, from ../../coot/src/graphics-info.h:53, from ../../coot/src/globularize.cc:6: ../../coot/MoleculesToTriangles/CXXClasses/RendererGL.h:61: warning: ignoring ‘#pragma mark ’ [-Wunknown-pragmas] 61 | #pragma mark - | ../../coot/MoleculesToTriangles/CXXClasses/RendererGL.h:62: warning: ignoring ‘#pragma mark Debug’ [-Wunknown-pragmas] 62 | #pragma mark Debug routine | In file included from ../../coot/MoleculesToTriangles/CXXClasses/RendererGLSL.hpp:31, from ../../coot/src/graphics-info.h:53, from ../../coot/src/graphics-info.cc:72: ../../coot/MoleculesToTriangles/CXXClasses/RendererGL.h:61: warning: ignoring ‘#pragma mark ’ [-Wunknown-pragmas] 61 | #pragma mark - | ../../coot/MoleculesToTriangles/CXXClasses/RendererGL.h:62: warning: ignoring ‘#pragma mark Debug’ [-Wunknown-pragmas] 62 | #pragma mark Debug routine | mv -f .deps/flev.Tpo .deps/flev.Plo /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" -DPACKAGE_STRING=\"coot\ 1.x-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I../../coot/src -DUSE_PYTHON -mfpmath=sse -msse -msse2 -pthread -I/opt/user_software/coot/bin-gtk4/lib/libffi-3.2.1/include -I/usr/include/gtk-4.0 -I/usr/include/gio-unix-2.0 -I/usr/include/cairo -I/usr/include/pango-1.0 -I/usr/include/harfbuzz -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/harfbuzz -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/x86_64-linux-gnu -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/graphene-1.0 -I/usr/lib/x86_64-linux-gnu/graphene-1.0/include -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I../../coot -I/opt/user_software/coot/bin-gtk4/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/opt/user_software/coot/bin-gtk4/include -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -I/opt/user_software/coot/bin-gtk4/include -DHAVE_SSMLIB -I/opt/user_software/coot/bin-gtk4/include -DMMDB_HAS_LINK_DISTANCE -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DCLIPPER_HAS_TOP8000 -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR='"/opt/user_software/coot/bin-gtk4/share/coot"' -DPACKAGE_LOCALE_DIR='"/opt/user_software/coot/bin-gtk4/share/coot/locale"' -DPKGPYTHONDIR='"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/coot"' -DPYTHONDIR='"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages"' -DXDATADIR='"/opt/user_software/coot/bin-gtk4/share"' -DCOOT_SYS_BUILD_TYPE='"Linux-x86_64-ubuntu-22.04.4-gtk4"' -DCOOT_BUILD_INFO_STRING='"build-host: gtxr1.srv-local.mpi-dortmund.mpg.de on: Mi 20 Mär 1759.36 CET 2024"' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/opt/user_software/coot/bin-gtk4/include/python3.11 -DHAVE_GSL -fopenmp -g -O -Wall -Wno-unused -std=c++17 -MT graphics-info-defines.lo -MD -MP -MF .deps/graphics-info-defines.Tpo -c -o graphics-info-defines.lo ../../coot/src/graphics-info-defines.cc mv -f .deps/get-residue.Tpo .deps/get-residue.Plo /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" -DPACKAGE_STRING=\"coot\ 1.x-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I../../coot/src -DUSE_PYTHON -mfpmath=sse -msse -msse2 -pthread -I/opt/user_software/coot/bin-gtk4/lib/libffi-3.2.1/include -I/usr/include/gtk-4.0 -I/usr/include/gio-unix-2.0 -I/usr/include/cairo -I/usr/include/pango-1.0 -I/usr/include/harfbuzz -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/harfbuzz -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/x86_64-linux-gnu -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/graphene-1.0 -I/usr/lib/x86_64-linux-gnu/graphene-1.0/include -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I../../coot -I/opt/user_software/coot/bin-gtk4/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/opt/user_software/coot/bin-gtk4/include -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -I/opt/user_software/coot/bin-gtk4/include -DHAVE_SSMLIB -I/opt/user_software/coot/bin-gtk4/include -DMMDB_HAS_LINK_DISTANCE -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DCLIPPER_HAS_TOP8000 -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR='"/opt/user_software/coot/bin-gtk4/share/coot"' -DPACKAGE_LOCALE_DIR='"/opt/user_software/coot/bin-gtk4/share/coot/locale"' -DPKGPYTHONDIR='"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/coot"' -DPYTHONDIR='"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages"' -DXDATADIR='"/opt/user_software/coot/bin-gtk4/share"' -DCOOT_SYS_BUILD_TYPE='"Linux-x86_64-ubuntu-22.04.4-gtk4"' -DCOOT_BUILD_INFO_STRING='"build-host: gtxr1.srv-local.mpi-dortmund.mpg.de on: Mi 20 Mär 1759.36 CET 2024"' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/opt/user_software/coot/bin-gtk4/include/python3.11 -DHAVE_GSL -fopenmp -g -O -Wall -Wno-unused -std=c++17 -MT graphics-info-defines-gtk4.lo -MD -MP -MF .deps/graphics-info-defines-gtk4.Tpo -c -o graphics-info-defines-gtk4.lo ../../coot/src/graphics-info-defines-gtk4.cc mv -f .deps/old-generic-display-object.Tpo .deps/old-generic-display-object.Plo /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" -DPACKAGE_STRING=\"coot\ 1.x-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I../../coot/src -DUSE_PYTHON -mfpmath=sse -msse -msse2 -pthread -I/opt/user_software/coot/bin-gtk4/lib/libffi-3.2.1/include -I/usr/include/gtk-4.0 -I/usr/include/gio-unix-2.0 -I/usr/include/cairo -I/usr/include/pango-1.0 -I/usr/include/harfbuzz -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/harfbuzz -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/x86_64-linux-gnu -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/graphene-1.0 -I/usr/lib/x86_64-linux-gnu/graphene-1.0/include -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I../../coot -I/opt/user_software/coot/bin-gtk4/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/opt/user_software/coot/bin-gtk4/include -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -I/opt/user_software/coot/bin-gtk4/include -DHAVE_SSMLIB -I/opt/user_software/coot/bin-gtk4/include -DMMDB_HAS_LINK_DISTANCE -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DCLIPPER_HAS_TOP8000 -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR='"/opt/user_software/coot/bin-gtk4/share/coot"' -DPACKAGE_LOCALE_DIR='"/opt/user_software/coot/bin-gtk4/share/coot/locale"' -DPKGPYTHONDIR='"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/coot"' -DPYTHONDIR='"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages"' -DXDATADIR='"/opt/user_software/coot/bin-gtk4/share"' -DCOOT_SYS_BUILD_TYPE='"Linux-x86_64-ubuntu-22.04.4-gtk4"' -DCOOT_BUILD_INFO_STRING='"build-host: gtxr1.srv-local.mpi-dortmund.mpg.de on: Mi 20 Mär 1759.36 CET 2024"' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/opt/user_software/coot/bin-gtk4/include/python3.11 -DHAVE_GSL -fopenmp -g -O -Wall -Wno-unused -std=c++17 -MT graphics-info-draw.lo -MD -MP -MF .deps/graphics-info-draw.Tpo -c -o graphics-info-draw.lo ../../coot/src/graphics-info-draw.cc mv -f .deps/gaussian-surface.Tpo .deps/gaussian-surface.Plo /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" -DPACKAGE_STRING=\"coot\ 1.x-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I../../coot/src -DUSE_PYTHON -mfpmath=sse -msse -msse2 -pthread -I/opt/user_software/coot/bin-gtk4/lib/libffi-3.2.1/include -I/usr/include/gtk-4.0 -I/usr/include/gio-unix-2.0 -I/usr/include/cairo -I/usr/include/pango-1.0 -I/usr/include/harfbuzz -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/harfbuzz -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/x86_64-linux-gnu -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/graphene-1.0 -I/usr/lib/x86_64-linux-gnu/graphene-1.0/include -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I../../coot -I/opt/user_software/coot/bin-gtk4/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/opt/user_software/coot/bin-gtk4/include -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -I/opt/user_software/coot/bin-gtk4/include -DHAVE_SSMLIB -I/opt/user_software/coot/bin-gtk4/include -DMMDB_HAS_LINK_DISTANCE -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DCLIPPER_HAS_TOP8000 -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR='"/opt/user_software/coot/bin-gtk4/share/coot"' -DPACKAGE_LOCALE_DIR='"/opt/user_software/coot/bin-gtk4/share/coot/locale"' -DPKGPYTHONDIR='"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/coot"' -DPYTHONDIR='"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages"' -DXDATADIR='"/opt/user_software/coot/bin-gtk4/share"' -DCOOT_SYS_BUILD_TYPE='"Linux-x86_64-ubuntu-22.04.4-gtk4"' -DCOOT_BUILD_INFO_STRING='"build-host: gtxr1.srv-local.mpi-dortmund.mpg.de on: Mi 20 Mär 1759.36 CET 2024"' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/opt/user_software/coot/bin-gtk4/include/python3.11 -DHAVE_GSL -fopenmp -g -O -Wall -Wno-unused -std=c++17 -MT graphics-info-draw-models.lo -MD -MP -MF .deps/graphics-info-draw-models.Tpo -c -o graphics-info-draw-models.lo ../../coot/src/graphics-info-draw-models.cc libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" "-DPACKAGE_STRING=\"coot 1.x-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I../../coot/src -DUSE_PYTHON -mfpmath=sse -msse -msse2 -pthread -I/opt/user_software/coot/bin-gtk4/lib/libffi-3.2.1/include -I/usr/include/gtk-4.0 -I/usr/include/gio-unix-2.0 -I/usr/include/cairo -I/usr/include/pango-1.0 -I/usr/include/harfbuzz -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/harfbuzz -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/x86_64-linux-gnu -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/graphene-1.0 -I/usr/lib/x86_64-linux-gnu/graphene-1.0/include -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I../../coot -I/opt/user_software/coot/bin-gtk4/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/opt/user_software/coot/bin-gtk4/include -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -I/opt/user_software/coot/bin-gtk4/include -DHAVE_SSMLIB -I/opt/user_software/coot/bin-gtk4/include -DMMDB_HAS_LINK_DISTANCE -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DCLIPPER_HAS_TOP8000 -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR=\"/opt/user_software/coot/bin-gtk4/share/coot\" -DPACKAGE_LOCALE_DIR=\"/opt/user_software/coot/bin-gtk4/share/coot/locale\" -DPKGPYTHONDIR=\"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/coot\" -DPYTHONDIR=\"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages\" -DXDATADIR=\"/opt/user_software/coot/bin-gtk4/share\" -DCOOT_SYS_BUILD_TYPE=\"Linux-x86_64-ubuntu-22.04.4-gtk4\" "-DCOOT_BUILD_INFO_STRING=\"build-host: gtxr1.srv-local.mpi-dortmund.mpg.de on: Mi 20 Mär 1759.36 CET 2024\"" -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/opt/user_software/coot/bin-gtk4/include/python3.11 -DHAVE_GSL -fopenmp -g -O -Wall -Wno-unused -std=c++17 -MT graphics-info-defines.lo -MD -MP -MF .deps/graphics-info-defines.Tpo -c ../../coot/src/graphics-info-defines.cc -fPIC -DPIC -o .libs/graphics-info-defines.o libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" "-DPACKAGE_STRING=\"coot 1.x-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I../../coot/src -DUSE_PYTHON -mfpmath=sse -msse -msse2 -pthread -I/opt/user_software/coot/bin-gtk4/lib/libffi-3.2.1/include -I/usr/include/gtk-4.0 -I/usr/include/gio-unix-2.0 -I/usr/include/cairo -I/usr/include/pango-1.0 -I/usr/include/harfbuzz -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/harfbuzz -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/x86_64-linux-gnu -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/graphene-1.0 -I/usr/lib/x86_64-linux-gnu/graphene-1.0/include -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I../../coot -I/opt/user_software/coot/bin-gtk4/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/opt/user_software/coot/bin-gtk4/include -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -I/opt/user_software/coot/bin-gtk4/include -DHAVE_SSMLIB -I/opt/user_software/coot/bin-gtk4/include -DMMDB_HAS_LINK_DISTANCE -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DCLIPPER_HAS_TOP8000 -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR=\"/opt/user_software/coot/bin-gtk4/share/coot\" -DPACKAGE_LOCALE_DIR=\"/opt/user_software/coot/bin-gtk4/share/coot/locale\" -DPKGPYTHONDIR=\"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/coot\" -DPYTHONDIR=\"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages\" -DXDATADIR=\"/opt/user_software/coot/bin-gtk4/share\" -DCOOT_SYS_BUILD_TYPE=\"Linux-x86_64-ubuntu-22.04.4-gtk4\" "-DCOOT_BUILD_INFO_STRING=\"build-host: gtxr1.srv-local.mpi-dortmund.mpg.de on: Mi 20 Mär 1759.36 CET 2024\"" -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/opt/user_software/coot/bin-gtk4/include/python3.11 -DHAVE_GSL -fopenmp -g -O -Wall -Wno-unused -std=c++17 -MT graphics-info-defines-gtk4.lo -MD -MP -MF .deps/graphics-info-defines-gtk4.Tpo -c ../../coot/src/graphics-info-defines-gtk4.cc -fPIC -DPIC -o .libs/graphics-info-defines-gtk4.o libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" "-DPACKAGE_STRING=\"coot 1.x-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I../../coot/src -DUSE_PYTHON -mfpmath=sse -msse -msse2 -pthread -I/opt/user_software/coot/bin-gtk4/lib/libffi-3.2.1/include -I/usr/include/gtk-4.0 -I/usr/include/gio-unix-2.0 -I/usr/include/cairo -I/usr/include/pango-1.0 -I/usr/include/harfbuzz -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/harfbuzz -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/x86_64-linux-gnu -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/graphene-1.0 -I/usr/lib/x86_64-linux-gnu/graphene-1.0/include -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I../../coot -I/opt/user_software/coot/bin-gtk4/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/opt/user_software/coot/bin-gtk4/include -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -I/opt/user_software/coot/bin-gtk4/include -DHAVE_SSMLIB -I/opt/user_software/coot/bin-gtk4/include -DMMDB_HAS_LINK_DISTANCE -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DCLIPPER_HAS_TOP8000 -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR=\"/opt/user_software/coot/bin-gtk4/share/coot\" -DPACKAGE_LOCALE_DIR=\"/opt/user_software/coot/bin-gtk4/share/coot/locale\" -DPKGPYTHONDIR=\"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/coot\" -DPYTHONDIR=\"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages\" -DXDATADIR=\"/opt/user_software/coot/bin-gtk4/share\" -DCOOT_SYS_BUILD_TYPE=\"Linux-x86_64-ubuntu-22.04.4-gtk4\" "-DCOOT_BUILD_INFO_STRING=\"build-host: gtxr1.srv-local.mpi-dortmund.mpg.de on: Mi 20 Mär 1759.36 CET 2024\"" -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/opt/user_software/coot/bin-gtk4/include/python3.11 -DHAVE_GSL -fopenmp -g -O -Wall -Wno-unused -std=c++17 -MT graphics-info-draw.lo -MD -MP -MF .deps/graphics-info-draw.Tpo -c ../../coot/src/graphics-info-draw.cc -fPIC -DPIC -o .libs/graphics-info-draw.o libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" "-DPACKAGE_STRING=\"coot 1.x-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I../../coot/src -DUSE_PYTHON -mfpmath=sse -msse -msse2 -pthread -I/opt/user_software/coot/bin-gtk4/lib/libffi-3.2.1/include -I/usr/include/gtk-4.0 -I/usr/include/gio-unix-2.0 -I/usr/include/cairo -I/usr/include/pango-1.0 -I/usr/include/harfbuzz -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/harfbuzz -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/x86_64-linux-gnu -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/graphene-1.0 -I/usr/lib/x86_64-linux-gnu/graphene-1.0/include -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I../../coot -I/opt/user_software/coot/bin-gtk4/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/opt/user_software/coot/bin-gtk4/include -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -I/opt/user_software/coot/bin-gtk4/include -DHAVE_SSMLIB -I/opt/user_software/coot/bin-gtk4/include -DMMDB_HAS_LINK_DISTANCE -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DCLIPPER_HAS_TOP8000 -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR=\"/opt/user_software/coot/bin-gtk4/share/coot\" -DPACKAGE_LOCALE_DIR=\"/opt/user_software/coot/bin-gtk4/share/coot/locale\" -DPKGPYTHONDIR=\"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/coot\" -DPYTHONDIR=\"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages\" -DXDATADIR=\"/opt/user_software/coot/bin-gtk4/share\" -DCOOT_SYS_BUILD_TYPE=\"Linux-x86_64-ubuntu-22.04.4-gtk4\" "-DCOOT_BUILD_INFO_STRING=\"build-host: gtxr1.srv-local.mpi-dortmund.mpg.de on: Mi 20 Mär 1759.36 CET 2024\"" -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/opt/user_software/coot/bin-gtk4/include/python3.11 -DHAVE_GSL -fopenmp -g -O -Wall -Wno-unused -std=c++17 -MT graphics-info-draw-models.lo -MD -MP -MF .deps/graphics-info-draw-models.Tpo -c ../../coot/src/graphics-info-draw-models.cc -fPIC -DPIC -o .libs/graphics-info-draw-models.o In file included from ../../coot/MoleculesToTriangles/CXXClasses/RendererGLSL.hpp:31, from ../../coot/src/graphics-info.h:53, from ../../coot/src/graphics-info-defines.cc:36: ../../coot/MoleculesToTriangles/CXXClasses/RendererGL.h:61: warning: ignoring ‘#pragma mark ’ [-Wunknown-pragmas] 61 | #pragma mark - | ../../coot/MoleculesToTriangles/CXXClasses/RendererGL.h:62: warning: ignoring ‘#pragma mark Debug’ [-Wunknown-pragmas] 62 | #pragma mark Debug routine | In file included from ../../coot/MoleculesToTriangles/CXXClasses/RendererGLSL.hpp:31, from ../../coot/src/graphics-info.h:53, from ../../coot/src/graphics-info-draw.cc:22: ../../coot/MoleculesToTriangles/CXXClasses/RendererGL.h:61: warning: ignoring ‘#pragma mark ’ [-Wunknown-pragmas] 61 | #pragma mark - | ../../coot/MoleculesToTriangles/CXXClasses/RendererGL.h:62: warning: ignoring ‘#pragma mark Debug’ [-Wunknown-pragmas] 62 | #pragma mark Debug routine | In file included from ../../coot/MoleculesToTriangles/CXXClasses/RendererGLSL.hpp:31, from ../../coot/src/graphics-info.h:53, from ../../coot/src/graphics-info-draw-models.cc:2: ../../coot/MoleculesToTriangles/CXXClasses/RendererGL.h:61: warning: ignoring ‘#pragma mark ’ [-Wunknown-pragmas] 61 | #pragma mark - | ../../coot/MoleculesToTriangles/CXXClasses/RendererGL.h:62: warning: ignoring ‘#pragma mark Debug’ [-Wunknown-pragmas] 62 | #pragma mark Debug routine | In file included from ../../coot/MoleculesToTriangles/CXXClasses/RendererGLSL.hpp:31, from ../../coot/src/graphics-info.h:53, from ../../coot/src/graphics-info-defines-gtk4.cc:2: ../../coot/MoleculesToTriangles/CXXClasses/RendererGL.h:61: warning: ignoring ‘#pragma mark ’ [-Wunknown-pragmas] 61 | #pragma mark - | ../../coot/MoleculesToTriangles/CXXClasses/RendererGL.h:62: warning: ignoring ‘#pragma mark Debug’ [-Wunknown-pragmas] 62 | #pragma mark Debug routine | mv -f .deps/get-monomer.Tpo .deps/get-monomer.Plo /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" -DPACKAGE_STRING=\"coot\ 1.x-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I../../coot/src -DUSE_PYTHON -mfpmath=sse -msse -msse2 -pthread -I/opt/user_software/coot/bin-gtk4/lib/libffi-3.2.1/include -I/usr/include/gtk-4.0 -I/usr/include/gio-unix-2.0 -I/usr/include/cairo -I/usr/include/pango-1.0 -I/usr/include/harfbuzz -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/harfbuzz -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/x86_64-linux-gnu -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/graphene-1.0 -I/usr/lib/x86_64-linux-gnu/graphene-1.0/include -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I../../coot -I/opt/user_software/coot/bin-gtk4/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/opt/user_software/coot/bin-gtk4/include -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -I/opt/user_software/coot/bin-gtk4/include -DHAVE_SSMLIB -I/opt/user_software/coot/bin-gtk4/include -DMMDB_HAS_LINK_DISTANCE -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DCLIPPER_HAS_TOP8000 -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR='"/opt/user_software/coot/bin-gtk4/share/coot"' -DPACKAGE_LOCALE_DIR='"/opt/user_software/coot/bin-gtk4/share/coot/locale"' -DPKGPYTHONDIR='"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/coot"' -DPYTHONDIR='"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages"' -DXDATADIR='"/opt/user_software/coot/bin-gtk4/share"' -DCOOT_SYS_BUILD_TYPE='"Linux-x86_64-ubuntu-22.04.4-gtk4"' -DCOOT_BUILD_INFO_STRING='"build-host: gtxr1.srv-local.mpi-dortmund.mpg.de on: Mi 20 Mär 1759.36 CET 2024"' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/opt/user_software/coot/bin-gtk4/include/python3.11 -DHAVE_GSL -fopenmp -g -O -Wall -Wno-unused -std=c++17 -MT graphics-info-graphs.lo -MD -MP -MF .deps/graphics-info-graphs.Tpo -c -o graphics-info-graphs.lo ../../coot/src/graphics-info-graphs.cc libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" "-DPACKAGE_STRING=\"coot 1.x-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I../../coot/src -DUSE_PYTHON -mfpmath=sse -msse -msse2 -pthread -I/opt/user_software/coot/bin-gtk4/lib/libffi-3.2.1/include -I/usr/include/gtk-4.0 -I/usr/include/gio-unix-2.0 -I/usr/include/cairo -I/usr/include/pango-1.0 -I/usr/include/harfbuzz -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/harfbuzz -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/x86_64-linux-gnu -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/graphene-1.0 -I/usr/lib/x86_64-linux-gnu/graphene-1.0/include -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I../../coot -I/opt/user_software/coot/bin-gtk4/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/opt/user_software/coot/bin-gtk4/include -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -I/opt/user_software/coot/bin-gtk4/include -DHAVE_SSMLIB -I/opt/user_software/coot/bin-gtk4/include -DMMDB_HAS_LINK_DISTANCE -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DCLIPPER_HAS_TOP8000 -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR=\"/opt/user_software/coot/bin-gtk4/share/coot\" -DPACKAGE_LOCALE_DIR=\"/opt/user_software/coot/bin-gtk4/share/coot/locale\" -DPKGPYTHONDIR=\"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/coot\" -DPYTHONDIR=\"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages\" -DXDATADIR=\"/opt/user_software/coot/bin-gtk4/share\" -DCOOT_SYS_BUILD_TYPE=\"Linux-x86_64-ubuntu-22.04.4-gtk4\" "-DCOOT_BUILD_INFO_STRING=\"build-host: gtxr1.srv-local.mpi-dortmund.mpg.de on: Mi 20 Mär 1759.36 CET 2024\"" -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/opt/user_software/coot/bin-gtk4/include/python3.11 -DHAVE_GSL -fopenmp -g -O -Wall -Wno-unused -std=c++17 -MT graphics-info-graphs.lo -MD -MP -MF .deps/graphics-info-graphs.Tpo -c ../../coot/src/graphics-info-graphs.cc -fPIC -DPIC -o .libs/graphics-info-graphs.o mv -f .deps/globularize.Tpo .deps/globularize.Plo /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" -DPACKAGE_STRING=\"coot\ 1.x-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I../../coot/src -DUSE_PYTHON -mfpmath=sse -msse -msse2 -pthread -I/opt/user_software/coot/bin-gtk4/lib/libffi-3.2.1/include -I/usr/include/gtk-4.0 -I/usr/include/gio-unix-2.0 -I/usr/include/cairo -I/usr/include/pango-1.0 -I/usr/include/harfbuzz -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/harfbuzz -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/x86_64-linux-gnu -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/graphene-1.0 -I/usr/lib/x86_64-linux-gnu/graphene-1.0/include -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I../../coot -I/opt/user_software/coot/bin-gtk4/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/opt/user_software/coot/bin-gtk4/include -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -I/opt/user_software/coot/bin-gtk4/include -DHAVE_SSMLIB -I/opt/user_software/coot/bin-gtk4/include -DMMDB_HAS_LINK_DISTANCE -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DCLIPPER_HAS_TOP8000 -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR='"/opt/user_software/coot/bin-gtk4/share/coot"' -DPACKAGE_LOCALE_DIR='"/opt/user_software/coot/bin-gtk4/share/coot/locale"' -DPKGPYTHONDIR='"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/coot"' -DPYTHONDIR='"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages"' -DXDATADIR='"/opt/user_software/coot/bin-gtk4/share"' -DCOOT_SYS_BUILD_TYPE='"Linux-x86_64-ubuntu-22.04.4-gtk4"' -DCOOT_BUILD_INFO_STRING='"build-host: gtxr1.srv-local.mpi-dortmund.mpg.de on: Mi 20 Mär 1759.36 CET 2024"' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/opt/user_software/coot/bin-gtk4/include/python3.11 -DHAVE_GSL -fopenmp -g -O -Wall -Wno-unused -std=c++17 -MT graphics-info-gui.lo -MD -MP -MF .deps/graphics-info-gui.Tpo -c -o graphics-info-gui.lo ../../coot/src/graphics-info-gui.cc In file included from ../../coot/MoleculesToTriangles/CXXClasses/RendererGLSL.hpp:31, from ../../coot/src/graphics-info.h:53, from ../../coot/src/graphics-info-graphs.cc:60: ../../coot/MoleculesToTriangles/CXXClasses/RendererGL.h:61: warning: ignoring ‘#pragma mark ’ [-Wunknown-pragmas] 61 | #pragma mark - | ../../coot/MoleculesToTriangles/CXXClasses/RendererGL.h:62: warning: ignoring ‘#pragma mark Debug’ [-Wunknown-pragmas] 62 | #pragma mark Debug routine | mv -f .deps/generic-objects.Tpo .deps/generic-objects.Plo /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" -DPACKAGE_STRING=\"coot\ 1.x-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I../../coot/src -DUSE_PYTHON -mfpmath=sse -msse -msse2 -pthread -I/opt/user_software/coot/bin-gtk4/lib/libffi-3.2.1/include -I/usr/include/gtk-4.0 -I/usr/include/gio-unix-2.0 -I/usr/include/cairo -I/usr/include/pango-1.0 -I/usr/include/harfbuzz -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/harfbuzz -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/x86_64-linux-gnu -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/graphene-1.0 -I/usr/lib/x86_64-linux-gnu/graphene-1.0/include -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I../../coot -I/opt/user_software/coot/bin-gtk4/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/opt/user_software/coot/bin-gtk4/include -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -I/opt/user_software/coot/bin-gtk4/include -DHAVE_SSMLIB -I/opt/user_software/coot/bin-gtk4/include -DMMDB_HAS_LINK_DISTANCE -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DCLIPPER_HAS_TOP8000 -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR='"/opt/user_software/coot/bin-gtk4/share/coot"' -DPACKAGE_LOCALE_DIR='"/opt/user_software/coot/bin-gtk4/share/coot/locale"' -DPKGPYTHONDIR='"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/coot"' -DPYTHONDIR='"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages"' -DXDATADIR='"/opt/user_software/coot/bin-gtk4/share"' -DCOOT_SYS_BUILD_TYPE='"Linux-x86_64-ubuntu-22.04.4-gtk4"' -DCOOT_BUILD_INFO_STRING='"build-host: gtxr1.srv-local.mpi-dortmund.mpg.de on: Mi 20 Mär 1759.36 CET 2024"' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/opt/user_software/coot/bin-gtk4/include/python3.11 -DHAVE_GSL -fopenmp -g -O -Wall -Wno-unused -std=c++17 -MT graphics-info-init.lo -MD -MP -MF .deps/graphics-info-init.Tpo -c -o graphics-info-init.lo ../../coot/src/graphics-info-init.cc libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" "-DPACKAGE_STRING=\"coot 1.x-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I../../coot/src -DUSE_PYTHON -mfpmath=sse -msse -msse2 -pthread -I/opt/user_software/coot/bin-gtk4/lib/libffi-3.2.1/include -I/usr/include/gtk-4.0 -I/usr/include/gio-unix-2.0 -I/usr/include/cairo -I/usr/include/pango-1.0 -I/usr/include/harfbuzz -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/harfbuzz -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/x86_64-linux-gnu -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/graphene-1.0 -I/usr/lib/x86_64-linux-gnu/graphene-1.0/include -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I../../coot -I/opt/user_software/coot/bin-gtk4/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/opt/user_software/coot/bin-gtk4/include -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -I/opt/user_software/coot/bin-gtk4/include -DHAVE_SSMLIB -I/opt/user_software/coot/bin-gtk4/include -DMMDB_HAS_LINK_DISTANCE -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DCLIPPER_HAS_TOP8000 -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR=\"/opt/user_software/coot/bin-gtk4/share/coot\" -DPACKAGE_LOCALE_DIR=\"/opt/user_software/coot/bin-gtk4/share/coot/locale\" -DPKGPYTHONDIR=\"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/coot\" -DPYTHONDIR=\"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages\" -DXDATADIR=\"/opt/user_software/coot/bin-gtk4/share\" -DCOOT_SYS_BUILD_TYPE=\"Linux-x86_64-ubuntu-22.04.4-gtk4\" "-DCOOT_BUILD_INFO_STRING=\"build-host: gtxr1.srv-local.mpi-dortmund.mpg.de on: Mi 20 Mär 1759.36 CET 2024\"" -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/opt/user_software/coot/bin-gtk4/include/python3.11 -DHAVE_GSL -fopenmp -g -O -Wall -Wno-unused -std=c++17 -MT graphics-info-gui.lo -MD -MP -MF .deps/graphics-info-gui.Tpo -c ../../coot/src/graphics-info-gui.cc -fPIC -DPIC -o .libs/graphics-info-gui.o libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" "-DPACKAGE_STRING=\"coot 1.x-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I../../coot/src -DUSE_PYTHON -mfpmath=sse -msse -msse2 -pthread -I/opt/user_software/coot/bin-gtk4/lib/libffi-3.2.1/include -I/usr/include/gtk-4.0 -I/usr/include/gio-unix-2.0 -I/usr/include/cairo -I/usr/include/pango-1.0 -I/usr/include/harfbuzz -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/harfbuzz -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/x86_64-linux-gnu -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/graphene-1.0 -I/usr/lib/x86_64-linux-gnu/graphene-1.0/include -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I../../coot -I/opt/user_software/coot/bin-gtk4/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/opt/user_software/coot/bin-gtk4/include -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -I/opt/user_software/coot/bin-gtk4/include -DHAVE_SSMLIB -I/opt/user_software/coot/bin-gtk4/include -DMMDB_HAS_LINK_DISTANCE -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DCLIPPER_HAS_TOP8000 -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR=\"/opt/user_software/coot/bin-gtk4/share/coot\" -DPACKAGE_LOCALE_DIR=\"/opt/user_software/coot/bin-gtk4/share/coot/locale\" -DPKGPYTHONDIR=\"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/coot\" -DPYTHONDIR=\"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages\" -DXDATADIR=\"/opt/user_software/coot/bin-gtk4/share\" -DCOOT_SYS_BUILD_TYPE=\"Linux-x86_64-ubuntu-22.04.4-gtk4\" "-DCOOT_BUILD_INFO_STRING=\"build-host: gtxr1.srv-local.mpi-dortmund.mpg.de on: Mi 20 Mär 1759.36 CET 2024\"" -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/opt/user_software/coot/bin-gtk4/include/python3.11 -DHAVE_GSL -fopenmp -g -O -Wall -Wno-unused -std=c++17 -MT graphics-info-init.lo -MD -MP -MF .deps/graphics-info-init.Tpo -c ../../coot/src/graphics-info-init.cc -fPIC -DPIC -o .libs/graphics-info-init.o In file included from ../../coot/MoleculesToTriangles/CXXClasses/RendererGLSL.hpp:31, from ../../coot/src/graphics-info.h:53, from ../../coot/src/graphics-info-gui.cc:71: ../../coot/MoleculesToTriangles/CXXClasses/RendererGL.h:61: warning: ignoring ‘#pragma mark ’ [-Wunknown-pragmas] 61 | #pragma mark - | ../../coot/MoleculesToTriangles/CXXClasses/RendererGL.h:62: warning: ignoring ‘#pragma mark Debug’ [-Wunknown-pragmas] 62 | #pragma mark Debug routine | In file included from ../../coot/MoleculesToTriangles/CXXClasses/RendererGLSL.hpp:31, from ../../coot/src/graphics-info.h:53, from ../../coot/src/graphics-info-init.cc:7: ../../coot/MoleculesToTriangles/CXXClasses/RendererGL.h:61: warning: ignoring ‘#pragma mark ’ [-Wunknown-pragmas] 61 | #pragma mark - | ../../coot/MoleculesToTriangles/CXXClasses/RendererGL.h:62: warning: ignoring ‘#pragma mark Debug’ [-Wunknown-pragmas] 62 | #pragma mark Debug routine | mv -f .deps/graphics-info-draw-models.Tpo .deps/graphics-info-draw-models.Plo /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" -DPACKAGE_STRING=\"coot\ 1.x-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I../../coot/src -DUSE_PYTHON -mfpmath=sse -msse -msse2 -pthread -I/opt/user_software/coot/bin-gtk4/lib/libffi-3.2.1/include -I/usr/include/gtk-4.0 -I/usr/include/gio-unix-2.0 -I/usr/include/cairo -I/usr/include/pango-1.0 -I/usr/include/harfbuzz -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/harfbuzz -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/x86_64-linux-gnu -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/graphene-1.0 -I/usr/lib/x86_64-linux-gnu/graphene-1.0/include -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I../../coot -I/opt/user_software/coot/bin-gtk4/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/opt/user_software/coot/bin-gtk4/include -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -I/opt/user_software/coot/bin-gtk4/include -DHAVE_SSMLIB -I/opt/user_software/coot/bin-gtk4/include -DMMDB_HAS_LINK_DISTANCE -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DCLIPPER_HAS_TOP8000 -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR='"/opt/user_software/coot/bin-gtk4/share/coot"' -DPACKAGE_LOCALE_DIR='"/opt/user_software/coot/bin-gtk4/share/coot/locale"' -DPKGPYTHONDIR='"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/coot"' -DPYTHONDIR='"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages"' -DXDATADIR='"/opt/user_software/coot/bin-gtk4/share"' -DCOOT_SYS_BUILD_TYPE='"Linux-x86_64-ubuntu-22.04.4-gtk4"' -DCOOT_BUILD_INFO_STRING='"build-host: gtxr1.srv-local.mpi-dortmund.mpg.de on: Mi 20 Mär 1759.36 CET 2024"' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/opt/user_software/coot/bin-gtk4/include/python3.11 -DHAVE_GSL -fopenmp -g -O -Wall -Wno-unused -std=c++17 -MT graphics-info-intermediate.lo -MD -MP -MF .deps/graphics-info-intermediate.Tpo -c -o graphics-info-intermediate.lo ../../coot/src/graphics-info-intermediate.cc libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" "-DPACKAGE_STRING=\"coot 1.x-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I../../coot/src -DUSE_PYTHON -mfpmath=sse -msse -msse2 -pthread -I/opt/user_software/coot/bin-gtk4/lib/libffi-3.2.1/include -I/usr/include/gtk-4.0 -I/usr/include/gio-unix-2.0 -I/usr/include/cairo -I/usr/include/pango-1.0 -I/usr/include/harfbuzz -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/harfbuzz -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/x86_64-linux-gnu -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/graphene-1.0 -I/usr/lib/x86_64-linux-gnu/graphene-1.0/include -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I../../coot -I/opt/user_software/coot/bin-gtk4/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/opt/user_software/coot/bin-gtk4/include -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -I/opt/user_software/coot/bin-gtk4/include -DHAVE_SSMLIB -I/opt/user_software/coot/bin-gtk4/include -DMMDB_HAS_LINK_DISTANCE -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DCLIPPER_HAS_TOP8000 -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR=\"/opt/user_software/coot/bin-gtk4/share/coot\" -DPACKAGE_LOCALE_DIR=\"/opt/user_software/coot/bin-gtk4/share/coot/locale\" -DPKGPYTHONDIR=\"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/coot\" -DPYTHONDIR=\"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages\" -DXDATADIR=\"/opt/user_software/coot/bin-gtk4/share\" -DCOOT_SYS_BUILD_TYPE=\"Linux-x86_64-ubuntu-22.04.4-gtk4\" "-DCOOT_BUILD_INFO_STRING=\"build-host: gtxr1.srv-local.mpi-dortmund.mpg.de on: Mi 20 Mär 1759.36 CET 2024\"" -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/opt/user_software/coot/bin-gtk4/include/python3.11 -DHAVE_GSL -fopenmp -g -O -Wall -Wno-unused -std=c++17 -MT graphics-info-intermediate.lo -MD -MP -MF .deps/graphics-info-intermediate.Tpo -c ../../coot/src/graphics-info-intermediate.cc -fPIC -DPIC -o .libs/graphics-info-intermediate.o mv -f .deps/graphics-info-defines.Tpo .deps/graphics-info-defines.Plo /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" -DPACKAGE_STRING=\"coot\ 1.x-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I../../coot/src -DUSE_PYTHON -mfpmath=sse -msse -msse2 -pthread -I/opt/user_software/coot/bin-gtk4/lib/libffi-3.2.1/include -I/usr/include/gtk-4.0 -I/usr/include/gio-unix-2.0 -I/usr/include/cairo -I/usr/include/pango-1.0 -I/usr/include/harfbuzz -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/harfbuzz -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/x86_64-linux-gnu -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/graphene-1.0 -I/usr/lib/x86_64-linux-gnu/graphene-1.0/include -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I../../coot -I/opt/user_software/coot/bin-gtk4/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/opt/user_software/coot/bin-gtk4/include -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -I/opt/user_software/coot/bin-gtk4/include -DHAVE_SSMLIB -I/opt/user_software/coot/bin-gtk4/include -DMMDB_HAS_LINK_DISTANCE -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DCLIPPER_HAS_TOP8000 -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR='"/opt/user_software/coot/bin-gtk4/share/coot"' -DPACKAGE_LOCALE_DIR='"/opt/user_software/coot/bin-gtk4/share/coot/locale"' -DPKGPYTHONDIR='"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/coot"' -DPYTHONDIR='"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages"' -DXDATADIR='"/opt/user_software/coot/bin-gtk4/share"' -DCOOT_SYS_BUILD_TYPE='"Linux-x86_64-ubuntu-22.04.4-gtk4"' -DCOOT_BUILD_INFO_STRING='"build-host: gtxr1.srv-local.mpi-dortmund.mpg.de on: Mi 20 Mär 1759.36 CET 2024"' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/opt/user_software/coot/bin-gtk4/include/python3.11 -DHAVE_GSL -fopenmp -g -O -Wall -Wno-unused -std=c++17 -MT graphics-info-modelling.lo -MD -MP -MF .deps/graphics-info-modelling.Tpo -c -o graphics-info-modelling.lo ../../coot/src/graphics-info-modelling.cc In file included from ../../coot/MoleculesToTriangles/CXXClasses/RendererGLSL.hpp:31, from ../../coot/src/graphics-info.h:53, from ../../coot/src/graphics-info-intermediate.cc:8: ../../coot/MoleculesToTriangles/CXXClasses/RendererGL.h:61: warning: ignoring ‘#pragma mark ’ [-Wunknown-pragmas] 61 | #pragma mark - | ../../coot/MoleculesToTriangles/CXXClasses/RendererGL.h:62: warning: ignoring ‘#pragma mark Debug’ [-Wunknown-pragmas] 62 | #pragma mark Debug routine | libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" "-DPACKAGE_STRING=\"coot 1.x-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I../../coot/src -DUSE_PYTHON -mfpmath=sse -msse -msse2 -pthread -I/opt/user_software/coot/bin-gtk4/lib/libffi-3.2.1/include -I/usr/include/gtk-4.0 -I/usr/include/gio-unix-2.0 -I/usr/include/cairo -I/usr/include/pango-1.0 -I/usr/include/harfbuzz -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/harfbuzz -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/x86_64-linux-gnu -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/graphene-1.0 -I/usr/lib/x86_64-linux-gnu/graphene-1.0/include -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I../../coot -I/opt/user_software/coot/bin-gtk4/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/opt/user_software/coot/bin-gtk4/include -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -I/opt/user_software/coot/bin-gtk4/include -DHAVE_SSMLIB -I/opt/user_software/coot/bin-gtk4/include -DMMDB_HAS_LINK_DISTANCE -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DCLIPPER_HAS_TOP8000 -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR=\"/opt/user_software/coot/bin-gtk4/share/coot\" -DPACKAGE_LOCALE_DIR=\"/opt/user_software/coot/bin-gtk4/share/coot/locale\" -DPKGPYTHONDIR=\"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/coot\" -DPYTHONDIR=\"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages\" -DXDATADIR=\"/opt/user_software/coot/bin-gtk4/share\" -DCOOT_SYS_BUILD_TYPE=\"Linux-x86_64-ubuntu-22.04.4-gtk4\" "-DCOOT_BUILD_INFO_STRING=\"build-host: gtxr1.srv-local.mpi-dortmund.mpg.de on: Mi 20 Mär 1759.36 CET 2024\"" -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/opt/user_software/coot/bin-gtk4/include/python3.11 -DHAVE_GSL -fopenmp -g -O -Wall -Wno-unused -std=c++17 -MT graphics-info-modelling.lo -MD -MP -MF .deps/graphics-info-modelling.Tpo -c ../../coot/src/graphics-info-modelling.cc -fPIC -DPIC -o .libs/graphics-info-modelling.o In file included from ../../coot/MoleculesToTriangles/CXXClasses/RendererGLSL.hpp:31, from ../../coot/src/graphics-info.h:53, from ../../coot/src/graphics-info-modelling.cc:80: ../../coot/MoleculesToTriangles/CXXClasses/RendererGL.h:61: warning: ignoring ‘#pragma mark ’ [-Wunknown-pragmas] 61 | #pragma mark - | ../../coot/MoleculesToTriangles/CXXClasses/RendererGL.h:62: warning: ignoring ‘#pragma mark Debug’ [-Wunknown-pragmas] 62 | #pragma mark Debug routine | mv -f .deps/graphics-info-defines-gtk4.Tpo .deps/graphics-info-defines-gtk4.Plo /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" -DPACKAGE_STRING=\"coot\ 1.x-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I../../coot/src -DUSE_PYTHON -mfpmath=sse -msse -msse2 -pthread -I/opt/user_software/coot/bin-gtk4/lib/libffi-3.2.1/include -I/usr/include/gtk-4.0 -I/usr/include/gio-unix-2.0 -I/usr/include/cairo -I/usr/include/pango-1.0 -I/usr/include/harfbuzz -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/harfbuzz -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/x86_64-linux-gnu -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/graphene-1.0 -I/usr/lib/x86_64-linux-gnu/graphene-1.0/include -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I../../coot -I/opt/user_software/coot/bin-gtk4/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/opt/user_software/coot/bin-gtk4/include -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -I/opt/user_software/coot/bin-gtk4/include -DHAVE_SSMLIB -I/opt/user_software/coot/bin-gtk4/include -DMMDB_HAS_LINK_DISTANCE -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DCLIPPER_HAS_TOP8000 -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR='"/opt/user_software/coot/bin-gtk4/share/coot"' -DPACKAGE_LOCALE_DIR='"/opt/user_software/coot/bin-gtk4/share/coot/locale"' -DPKGPYTHONDIR='"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/coot"' -DPYTHONDIR='"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages"' -DXDATADIR='"/opt/user_software/coot/bin-gtk4/share"' -DCOOT_SYS_BUILD_TYPE='"Linux-x86_64-ubuntu-22.04.4-gtk4"' -DCOOT_BUILD_INFO_STRING='"build-host: gtxr1.srv-local.mpi-dortmund.mpg.de on: Mi 20 Mär 1759.36 CET 2024"' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/opt/user_software/coot/bin-gtk4/include/python3.11 -DHAVE_GSL -fopenmp -g -O -Wall -Wno-unused -std=c++17 -MT graphics-info-navigation.lo -MD -MP -MF .deps/graphics-info-navigation.Tpo -c -o graphics-info-navigation.lo ../../coot/src/graphics-info-navigation.cc libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" "-DPACKAGE_STRING=\"coot 1.x-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I../../coot/src -DUSE_PYTHON -mfpmath=sse -msse -msse2 -pthread -I/opt/user_software/coot/bin-gtk4/lib/libffi-3.2.1/include -I/usr/include/gtk-4.0 -I/usr/include/gio-unix-2.0 -I/usr/include/cairo -I/usr/include/pango-1.0 -I/usr/include/harfbuzz -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/harfbuzz -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/x86_64-linux-gnu -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/graphene-1.0 -I/usr/lib/x86_64-linux-gnu/graphene-1.0/include -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I../../coot -I/opt/user_software/coot/bin-gtk4/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/opt/user_software/coot/bin-gtk4/include -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -I/opt/user_software/coot/bin-gtk4/include -DHAVE_SSMLIB -I/opt/user_software/coot/bin-gtk4/include -DMMDB_HAS_LINK_DISTANCE -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DCLIPPER_HAS_TOP8000 -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR=\"/opt/user_software/coot/bin-gtk4/share/coot\" -DPACKAGE_LOCALE_DIR=\"/opt/user_software/coot/bin-gtk4/share/coot/locale\" -DPKGPYTHONDIR=\"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/coot\" -DPYTHONDIR=\"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages\" -DXDATADIR=\"/opt/user_software/coot/bin-gtk4/share\" -DCOOT_SYS_BUILD_TYPE=\"Linux-x86_64-ubuntu-22.04.4-gtk4\" "-DCOOT_BUILD_INFO_STRING=\"build-host: gtxr1.srv-local.mpi-dortmund.mpg.de on: Mi 20 Mär 1759.36 CET 2024\"" -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/opt/user_software/coot/bin-gtk4/include/python3.11 -DHAVE_GSL -fopenmp -g -O -Wall -Wno-unused -std=c++17 -MT graphics-info-navigation.lo -MD -MP -MF .deps/graphics-info-navigation.Tpo -c ../../coot/src/graphics-info-navigation.cc -fPIC -DPIC -o .libs/graphics-info-navigation.o In file included from ../../coot/MoleculesToTriangles/CXXClasses/RendererGLSL.hpp:31, from ../../coot/src/graphics-info.h:53, from ../../coot/src/graphics-info-navigation.cc:61: ../../coot/MoleculesToTriangles/CXXClasses/RendererGL.h:61: warning: ignoring ‘#pragma mark ’ [-Wunknown-pragmas] 61 | #pragma mark - | ../../coot/MoleculesToTriangles/CXXClasses/RendererGL.h:62: warning: ignoring ‘#pragma mark Debug’ [-Wunknown-pragmas] 62 | #pragma mark Debug routine | mv -f .deps/graphics-info-graphs.Tpo .deps/graphics-info-graphs.Plo /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" -DPACKAGE_STRING=\"coot\ 1.x-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I../../coot/src -DUSE_PYTHON -mfpmath=sse -msse -msse2 -pthread -I/opt/user_software/coot/bin-gtk4/lib/libffi-3.2.1/include -I/usr/include/gtk-4.0 -I/usr/include/gio-unix-2.0 -I/usr/include/cairo -I/usr/include/pango-1.0 -I/usr/include/harfbuzz -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/harfbuzz -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/x86_64-linux-gnu -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/graphene-1.0 -I/usr/lib/x86_64-linux-gnu/graphene-1.0/include -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I../../coot -I/opt/user_software/coot/bin-gtk4/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/opt/user_software/coot/bin-gtk4/include -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -I/opt/user_software/coot/bin-gtk4/include -DHAVE_SSMLIB -I/opt/user_software/coot/bin-gtk4/include -DMMDB_HAS_LINK_DISTANCE -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DCLIPPER_HAS_TOP8000 -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR='"/opt/user_software/coot/bin-gtk4/share/coot"' -DPACKAGE_LOCALE_DIR='"/opt/user_software/coot/bin-gtk4/share/coot/locale"' -DPKGPYTHONDIR='"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/coot"' -DPYTHONDIR='"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages"' -DXDATADIR='"/opt/user_software/coot/bin-gtk4/share"' -DCOOT_SYS_BUILD_TYPE='"Linux-x86_64-ubuntu-22.04.4-gtk4"' -DCOOT_BUILD_INFO_STRING='"build-host: gtxr1.srv-local.mpi-dortmund.mpg.de on: Mi 20 Mär 1759.36 CET 2024"' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/opt/user_software/coot/bin-gtk4/include/python3.11 -DHAVE_GSL -fopenmp -g -O -Wall -Wno-unused -std=c++17 -MT graphics-info-navigation-gtk2.lo -MD -MP -MF .deps/graphics-info-navigation-gtk2.Tpo -c -o graphics-info-navigation-gtk2.lo ../../coot/src/graphics-info-navigation-gtk2.cc mv -f .deps/graphics-info.Tpo .deps/graphics-info.Plo /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" -DPACKAGE_STRING=\"coot\ 1.x-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I../../coot/src -DUSE_PYTHON -mfpmath=sse -msse -msse2 -pthread -I/opt/user_software/coot/bin-gtk4/lib/libffi-3.2.1/include -I/usr/include/gtk-4.0 -I/usr/include/gio-unix-2.0 -I/usr/include/cairo -I/usr/include/pango-1.0 -I/usr/include/harfbuzz -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/harfbuzz -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/x86_64-linux-gnu -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/graphene-1.0 -I/usr/lib/x86_64-linux-gnu/graphene-1.0/include -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I../../coot -I/opt/user_software/coot/bin-gtk4/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/opt/user_software/coot/bin-gtk4/include -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -I/opt/user_software/coot/bin-gtk4/include -DHAVE_SSMLIB -I/opt/user_software/coot/bin-gtk4/include -DMMDB_HAS_LINK_DISTANCE -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DCLIPPER_HAS_TOP8000 -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR='"/opt/user_software/coot/bin-gtk4/share/coot"' -DPACKAGE_LOCALE_DIR='"/opt/user_software/coot/bin-gtk4/share/coot/locale"' -DPKGPYTHONDIR='"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/coot"' -DPYTHONDIR='"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages"' -DXDATADIR='"/opt/user_software/coot/bin-gtk4/share"' -DCOOT_SYS_BUILD_TYPE='"Linux-x86_64-ubuntu-22.04.4-gtk4"' -DCOOT_BUILD_INFO_STRING='"build-host: gtxr1.srv-local.mpi-dortmund.mpg.de on: Mi 20 Mär 1759.36 CET 2024"' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/opt/user_software/coot/bin-gtk4/include/python3.11 -DHAVE_GSL -fopenmp -g -O -Wall -Wno-unused -std=c++17 -MT graphics-info-preferences.lo -MD -MP -MF .deps/graphics-info-preferences.Tpo -c -o graphics-info-preferences.lo ../../coot/src/graphics-info-preferences.cc libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" "-DPACKAGE_STRING=\"coot 1.x-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I../../coot/src -DUSE_PYTHON -mfpmath=sse -msse -msse2 -pthread -I/opt/user_software/coot/bin-gtk4/lib/libffi-3.2.1/include -I/usr/include/gtk-4.0 -I/usr/include/gio-unix-2.0 -I/usr/include/cairo -I/usr/include/pango-1.0 -I/usr/include/harfbuzz -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/harfbuzz -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/x86_64-linux-gnu -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/graphene-1.0 -I/usr/lib/x86_64-linux-gnu/graphene-1.0/include -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I../../coot -I/opt/user_software/coot/bin-gtk4/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/opt/user_software/coot/bin-gtk4/include -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -I/opt/user_software/coot/bin-gtk4/include -DHAVE_SSMLIB -I/opt/user_software/coot/bin-gtk4/include -DMMDB_HAS_LINK_DISTANCE -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DCLIPPER_HAS_TOP8000 -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR=\"/opt/user_software/coot/bin-gtk4/share/coot\" -DPACKAGE_LOCALE_DIR=\"/opt/user_software/coot/bin-gtk4/share/coot/locale\" -DPKGPYTHONDIR=\"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/coot\" -DPYTHONDIR=\"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages\" -DXDATADIR=\"/opt/user_software/coot/bin-gtk4/share\" -DCOOT_SYS_BUILD_TYPE=\"Linux-x86_64-ubuntu-22.04.4-gtk4\" "-DCOOT_BUILD_INFO_STRING=\"build-host: gtxr1.srv-local.mpi-dortmund.mpg.de on: Mi 20 Mär 1759.36 CET 2024\"" -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/opt/user_software/coot/bin-gtk4/include/python3.11 -DHAVE_GSL -fopenmp -g -O -Wall -Wno-unused -std=c++17 -MT graphics-info-navigation-gtk2.lo -MD -MP -MF .deps/graphics-info-navigation-gtk2.Tpo -c ../../coot/src/graphics-info-navigation-gtk2.cc -fPIC -DPIC -o .libs/graphics-info-navigation-gtk2.o libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" "-DPACKAGE_STRING=\"coot 1.x-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I../../coot/src -DUSE_PYTHON -mfpmath=sse -msse -msse2 -pthread -I/opt/user_software/coot/bin-gtk4/lib/libffi-3.2.1/include -I/usr/include/gtk-4.0 -I/usr/include/gio-unix-2.0 -I/usr/include/cairo -I/usr/include/pango-1.0 -I/usr/include/harfbuzz -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/harfbuzz -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/x86_64-linux-gnu -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/graphene-1.0 -I/usr/lib/x86_64-linux-gnu/graphene-1.0/include -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I../../coot -I/opt/user_software/coot/bin-gtk4/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/opt/user_software/coot/bin-gtk4/include -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -I/opt/user_software/coot/bin-gtk4/include -DHAVE_SSMLIB -I/opt/user_software/coot/bin-gtk4/include -DMMDB_HAS_LINK_DISTANCE -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DCLIPPER_HAS_TOP8000 -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR=\"/opt/user_software/coot/bin-gtk4/share/coot\" -DPACKAGE_LOCALE_DIR=\"/opt/user_software/coot/bin-gtk4/share/coot/locale\" -DPKGPYTHONDIR=\"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/coot\" -DPYTHONDIR=\"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages\" -DXDATADIR=\"/opt/user_software/coot/bin-gtk4/share\" -DCOOT_SYS_BUILD_TYPE=\"Linux-x86_64-ubuntu-22.04.4-gtk4\" "-DCOOT_BUILD_INFO_STRING=\"build-host: gtxr1.srv-local.mpi-dortmund.mpg.de on: Mi 20 Mär 1759.36 CET 2024\"" -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/opt/user_software/coot/bin-gtk4/include/python3.11 -DHAVE_GSL -fopenmp -g -O -Wall -Wno-unused -std=c++17 -MT graphics-info-preferences.lo -MD -MP -MF .deps/graphics-info-preferences.Tpo -c ../../coot/src/graphics-info-preferences.cc -fPIC -DPIC -o .libs/graphics-info-preferences.o mv -f .deps/graphics-info-gui.Tpo .deps/graphics-info-gui.Plo /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" -DPACKAGE_STRING=\"coot\ 1.x-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I../../coot/src -DUSE_PYTHON -mfpmath=sse -msse -msse2 -pthread -I/opt/user_software/coot/bin-gtk4/lib/libffi-3.2.1/include -I/usr/include/gtk-4.0 -I/usr/include/gio-unix-2.0 -I/usr/include/cairo -I/usr/include/pango-1.0 -I/usr/include/harfbuzz -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/harfbuzz -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/x86_64-linux-gnu -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/graphene-1.0 -I/usr/lib/x86_64-linux-gnu/graphene-1.0/include -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I../../coot -I/opt/user_software/coot/bin-gtk4/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/opt/user_software/coot/bin-gtk4/include -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -I/opt/user_software/coot/bin-gtk4/include -DHAVE_SSMLIB -I/opt/user_software/coot/bin-gtk4/include -DMMDB_HAS_LINK_DISTANCE -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DCLIPPER_HAS_TOP8000 -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR='"/opt/user_software/coot/bin-gtk4/share/coot"' -DPACKAGE_LOCALE_DIR='"/opt/user_software/coot/bin-gtk4/share/coot/locale"' -DPKGPYTHONDIR='"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/coot"' -DPYTHONDIR='"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages"' -DXDATADIR='"/opt/user_software/coot/bin-gtk4/share"' -DCOOT_SYS_BUILD_TYPE='"Linux-x86_64-ubuntu-22.04.4-gtk4"' -DCOOT_BUILD_INFO_STRING='"build-host: gtxr1.srv-local.mpi-dortmund.mpg.de on: Mi 20 Mär 1759.36 CET 2024"' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/opt/user_software/coot/bin-gtk4/include/python3.11 -DHAVE_GSL -fopenmp -g -O -Wall -Wno-unused -std=c++17 -MT graphics-info-network.lo -MD -MP -MF .deps/graphics-info-network.Tpo -c -o graphics-info-network.lo ../../coot/src/graphics-info-network.cc In file included from ../../coot/MoleculesToTriangles/CXXClasses/RendererGLSL.hpp:31, from ../../coot/src/graphics-info.h:53, from ../../coot/src/graphics-info-navigation-gtk2.cc:42: ../../coot/MoleculesToTriangles/CXXClasses/RendererGL.h:61: warning: ignoring ‘#pragma mark ’ [-Wunknown-pragmas] 61 | #pragma mark - | ../../coot/MoleculesToTriangles/CXXClasses/RendererGL.h:62: warning: ignoring ‘#pragma mark Debug’ [-Wunknown-pragmas] 62 | #pragma mark Debug routine | In file included from ../../coot/MoleculesToTriangles/CXXClasses/RendererGLSL.hpp:31, from ../../coot/src/graphics-info.h:53, from ../../coot/src/graphics-info-preferences.cc:35: ../../coot/MoleculesToTriangles/CXXClasses/RendererGL.h:61: warning: ignoring ‘#pragma mark ’ [-Wunknown-pragmas] 61 | #pragma mark - | ../../coot/MoleculesToTriangles/CXXClasses/RendererGL.h:62: warning: ignoring ‘#pragma mark Debug’ [-Wunknown-pragmas] 62 | #pragma mark Debug routine | libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" "-DPACKAGE_STRING=\"coot 1.x-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I../../coot/src -DUSE_PYTHON -mfpmath=sse -msse -msse2 -pthread -I/opt/user_software/coot/bin-gtk4/lib/libffi-3.2.1/include -I/usr/include/gtk-4.0 -I/usr/include/gio-unix-2.0 -I/usr/include/cairo -I/usr/include/pango-1.0 -I/usr/include/harfbuzz -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/harfbuzz -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/x86_64-linux-gnu -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/graphene-1.0 -I/usr/lib/x86_64-linux-gnu/graphene-1.0/include -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I../../coot -I/opt/user_software/coot/bin-gtk4/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/opt/user_software/coot/bin-gtk4/include -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -I/opt/user_software/coot/bin-gtk4/include -DHAVE_SSMLIB -I/opt/user_software/coot/bin-gtk4/include -DMMDB_HAS_LINK_DISTANCE -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DCLIPPER_HAS_TOP8000 -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR=\"/opt/user_software/coot/bin-gtk4/share/coot\" -DPACKAGE_LOCALE_DIR=\"/opt/user_software/coot/bin-gtk4/share/coot/locale\" -DPKGPYTHONDIR=\"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/coot\" -DPYTHONDIR=\"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages\" -DXDATADIR=\"/opt/user_software/coot/bin-gtk4/share\" -DCOOT_SYS_BUILD_TYPE=\"Linux-x86_64-ubuntu-22.04.4-gtk4\" "-DCOOT_BUILD_INFO_STRING=\"build-host: gtxr1.srv-local.mpi-dortmund.mpg.de on: Mi 20 Mär 1759.36 CET 2024\"" -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/opt/user_software/coot/bin-gtk4/include/python3.11 -DHAVE_GSL -fopenmp -g -O -Wall -Wno-unused -std=c++17 -MT graphics-info-network.lo -MD -MP -MF .deps/graphics-info-network.Tpo -c ../../coot/src/graphics-info-network.cc -fPIC -DPIC -o .libs/graphics-info-network.o In file included from ../../coot/MoleculesToTriangles/CXXClasses/RendererGLSL.hpp:31, from ../../coot/src/graphics-info.h:53, from ../../coot/src/graphics-info-network.cc:8: ../../coot/MoleculesToTriangles/CXXClasses/RendererGL.h:61: warning: ignoring ‘#pragma mark ’ [-Wunknown-pragmas] 61 | #pragma mark - | ../../coot/MoleculesToTriangles/CXXClasses/RendererGL.h:62: warning: ignoring ‘#pragma mark Debug’ [-Wunknown-pragmas] 62 | #pragma mark Debug routine | mv -f .deps/graphics-info-init.Tpo .deps/graphics-info-init.Plo /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" -DPACKAGE_STRING=\"coot\ 1.x-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I../../coot/src -DUSE_PYTHON -mfpmath=sse -msse -msse2 -pthread -I/opt/user_software/coot/bin-gtk4/lib/libffi-3.2.1/include -I/usr/include/gtk-4.0 -I/usr/include/gio-unix-2.0 -I/usr/include/cairo -I/usr/include/pango-1.0 -I/usr/include/harfbuzz -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/harfbuzz -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/x86_64-linux-gnu -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/graphene-1.0 -I/usr/lib/x86_64-linux-gnu/graphene-1.0/include -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I../../coot -I/opt/user_software/coot/bin-gtk4/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/opt/user_software/coot/bin-gtk4/include -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -I/opt/user_software/coot/bin-gtk4/include -DHAVE_SSMLIB -I/opt/user_software/coot/bin-gtk4/include -DMMDB_HAS_LINK_DISTANCE -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DCLIPPER_HAS_TOP8000 -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR='"/opt/user_software/coot/bin-gtk4/share/coot"' -DPACKAGE_LOCALE_DIR='"/opt/user_software/coot/bin-gtk4/share/coot/locale"' -DPKGPYTHONDIR='"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/coot"' -DPYTHONDIR='"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages"' -DXDATADIR='"/opt/user_software/coot/bin-gtk4/share"' -DCOOT_SYS_BUILD_TYPE='"Linux-x86_64-ubuntu-22.04.4-gtk4"' -DCOOT_BUILD_INFO_STRING='"build-host: gtxr1.srv-local.mpi-dortmund.mpg.de on: Mi 20 Mär 1759.36 CET 2024"' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/opt/user_software/coot/bin-gtk4/include/python3.11 -DHAVE_GSL -fopenmp -g -O -Wall -Wno-unused -std=c++17 -MT graphics-info-mutate.lo -MD -MP -MF .deps/graphics-info-mutate.Tpo -c -o graphics-info-mutate.lo ../../coot/src/graphics-info-mutate.cc libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" "-DPACKAGE_STRING=\"coot 1.x-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I../../coot/src -DUSE_PYTHON -mfpmath=sse -msse -msse2 -pthread -I/opt/user_software/coot/bin-gtk4/lib/libffi-3.2.1/include -I/usr/include/gtk-4.0 -I/usr/include/gio-unix-2.0 -I/usr/include/cairo -I/usr/include/pango-1.0 -I/usr/include/harfbuzz -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/harfbuzz -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/x86_64-linux-gnu -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/graphene-1.0 -I/usr/lib/x86_64-linux-gnu/graphene-1.0/include -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I../../coot -I/opt/user_software/coot/bin-gtk4/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/opt/user_software/coot/bin-gtk4/include -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -I/opt/user_software/coot/bin-gtk4/include -DHAVE_SSMLIB -I/opt/user_software/coot/bin-gtk4/include -DMMDB_HAS_LINK_DISTANCE -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DCLIPPER_HAS_TOP8000 -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR=\"/opt/user_software/coot/bin-gtk4/share/coot\" -DPACKAGE_LOCALE_DIR=\"/opt/user_software/coot/bin-gtk4/share/coot/locale\" -DPKGPYTHONDIR=\"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/coot\" -DPYTHONDIR=\"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages\" -DXDATADIR=\"/opt/user_software/coot/bin-gtk4/share\" -DCOOT_SYS_BUILD_TYPE=\"Linux-x86_64-ubuntu-22.04.4-gtk4\" "-DCOOT_BUILD_INFO_STRING=\"build-host: gtxr1.srv-local.mpi-dortmund.mpg.de on: Mi 20 Mär 1759.36 CET 2024\"" -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/opt/user_software/coot/bin-gtk4/include/python3.11 -DHAVE_GSL -fopenmp -g -O -Wall -Wno-unused -std=c++17 -MT graphics-info-mutate.lo -MD -MP -MF .deps/graphics-info-mutate.Tpo -c ../../coot/src/graphics-info-mutate.cc -fPIC -DPIC -o .libs/graphics-info-mutate.o mv -f .deps/graphics-info-draw.Tpo .deps/graphics-info-draw.Plo /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" -DPACKAGE_STRING=\"coot\ 1.x-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I../../coot/src -DUSE_PYTHON -mfpmath=sse -msse -msse2 -pthread -I/opt/user_software/coot/bin-gtk4/lib/libffi-3.2.1/include -I/usr/include/gtk-4.0 -I/usr/include/gio-unix-2.0 -I/usr/include/cairo -I/usr/include/pango-1.0 -I/usr/include/harfbuzz -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/harfbuzz -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/x86_64-linux-gnu -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/graphene-1.0 -I/usr/lib/x86_64-linux-gnu/graphene-1.0/include -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I../../coot -I/opt/user_software/coot/bin-gtk4/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/opt/user_software/coot/bin-gtk4/include -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -I/opt/user_software/coot/bin-gtk4/include -DHAVE_SSMLIB -I/opt/user_software/coot/bin-gtk4/include -DMMDB_HAS_LINK_DISTANCE -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DCLIPPER_HAS_TOP8000 -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR='"/opt/user_software/coot/bin-gtk4/share/coot"' -DPACKAGE_LOCALE_DIR='"/opt/user_software/coot/bin-gtk4/share/coot/locale"' -DPKGPYTHONDIR='"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/coot"' -DPYTHONDIR='"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages"' -DXDATADIR='"/opt/user_software/coot/bin-gtk4/share"' -DCOOT_SYS_BUILD_TYPE='"Linux-x86_64-ubuntu-22.04.4-gtk4"' -DCOOT_BUILD_INFO_STRING='"build-host: gtxr1.srv-local.mpi-dortmund.mpg.de on: Mi 20 Mär 1759.36 CET 2024"' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/opt/user_software/coot/bin-gtk4/include/python3.11 -DHAVE_GSL -fopenmp -g -O -Wall -Wno-unused -std=c++17 -MT graphics-info-lsq.lo -MD -MP -MF .deps/graphics-info-lsq.Tpo -c -o graphics-info-lsq.lo ../../coot/src/graphics-info-lsq.cc In file included from ../../coot/MoleculesToTriangles/CXXClasses/RendererGLSL.hpp:31, from ../../coot/src/graphics-info.h:53, from ../../coot/src/graphics-info-mutate.cc:61: ../../coot/MoleculesToTriangles/CXXClasses/RendererGL.h:61: warning: ignoring ‘#pragma mark ’ [-Wunknown-pragmas] 61 | #pragma mark - | ../../coot/MoleculesToTriangles/CXXClasses/RendererGL.h:62: warning: ignoring ‘#pragma mark Debug’ [-Wunknown-pragmas] 62 | #pragma mark Debug routine | libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" "-DPACKAGE_STRING=\"coot 1.x-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I../../coot/src -DUSE_PYTHON -mfpmath=sse -msse -msse2 -pthread -I/opt/user_software/coot/bin-gtk4/lib/libffi-3.2.1/include -I/usr/include/gtk-4.0 -I/usr/include/gio-unix-2.0 -I/usr/include/cairo -I/usr/include/pango-1.0 -I/usr/include/harfbuzz -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/harfbuzz -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/x86_64-linux-gnu -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/graphene-1.0 -I/usr/lib/x86_64-linux-gnu/graphene-1.0/include -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I../../coot -I/opt/user_software/coot/bin-gtk4/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/opt/user_software/coot/bin-gtk4/include -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -I/opt/user_software/coot/bin-gtk4/include -DHAVE_SSMLIB -I/opt/user_software/coot/bin-gtk4/include -DMMDB_HAS_LINK_DISTANCE -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DCLIPPER_HAS_TOP8000 -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR=\"/opt/user_software/coot/bin-gtk4/share/coot\" -DPACKAGE_LOCALE_DIR=\"/opt/user_software/coot/bin-gtk4/share/coot/locale\" -DPKGPYTHONDIR=\"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/coot\" -DPYTHONDIR=\"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages\" -DXDATADIR=\"/opt/user_software/coot/bin-gtk4/share\" -DCOOT_SYS_BUILD_TYPE=\"Linux-x86_64-ubuntu-22.04.4-gtk4\" "-DCOOT_BUILD_INFO_STRING=\"build-host: gtxr1.srv-local.mpi-dortmund.mpg.de on: Mi 20 Mär 1759.36 CET 2024\"" -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/opt/user_software/coot/bin-gtk4/include/python3.11 -DHAVE_GSL -fopenmp -g -O -Wall -Wno-unused -std=c++17 -MT graphics-info-lsq.lo -MD -MP -MF .deps/graphics-info-lsq.Tpo -c ../../coot/src/graphics-info-lsq.cc -fPIC -DPIC -o .libs/graphics-info-lsq.o In file included from ../../coot/MoleculesToTriangles/CXXClasses/RendererGLSL.hpp:31, from ../../coot/src/graphics-info.h:53, from ../../coot/src/graphics-info-lsq.cc:51: ../../coot/MoleculesToTriangles/CXXClasses/RendererGL.h:61: warning: ignoring ‘#pragma mark ’ [-Wunknown-pragmas] 61 | #pragma mark - | ../../coot/MoleculesToTriangles/CXXClasses/RendererGL.h:62: warning: ignoring ‘#pragma mark Debug’ [-Wunknown-pragmas] 62 | #pragma mark Debug routine | mv -f .deps/graphics-info-navigation.Tpo .deps/graphics-info-navigation.Plo /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" -DPACKAGE_STRING=\"coot\ 1.x-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I../../coot/src -DUSE_PYTHON -mfpmath=sse -msse -msse2 -pthread -I/opt/user_software/coot/bin-gtk4/lib/libffi-3.2.1/include -I/usr/include/gtk-4.0 -I/usr/include/gio-unix-2.0 -I/usr/include/cairo -I/usr/include/pango-1.0 -I/usr/include/harfbuzz -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/harfbuzz -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/x86_64-linux-gnu -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/graphene-1.0 -I/usr/lib/x86_64-linux-gnu/graphene-1.0/include -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I../../coot -I/opt/user_software/coot/bin-gtk4/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/opt/user_software/coot/bin-gtk4/include -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -I/opt/user_software/coot/bin-gtk4/include -DHAVE_SSMLIB -I/opt/user_software/coot/bin-gtk4/include -DMMDB_HAS_LINK_DISTANCE -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DCLIPPER_HAS_TOP8000 -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR='"/opt/user_software/coot/bin-gtk4/share/coot"' -DPACKAGE_LOCALE_DIR='"/opt/user_software/coot/bin-gtk4/share/coot/locale"' -DPKGPYTHONDIR='"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/coot"' -DPYTHONDIR='"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages"' -DXDATADIR='"/opt/user_software/coot/bin-gtk4/share"' -DCOOT_SYS_BUILD_TYPE='"Linux-x86_64-ubuntu-22.04.4-gtk4"' -DCOOT_BUILD_INFO_STRING='"build-host: gtxr1.srv-local.mpi-dortmund.mpg.de on: Mi 20 Mär 1759.36 CET 2024"' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/opt/user_software/coot/bin-gtk4/include/python3.11 -DHAVE_GSL -fopenmp -g -O -Wall -Wno-unused -std=c++17 -MT graphics-info-opengl.lo -MD -MP -MF .deps/graphics-info-opengl.Tpo -c -o graphics-info-opengl.lo ../../coot/src/graphics-info-opengl.cc libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" "-DPACKAGE_STRING=\"coot 1.x-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I../../coot/src -DUSE_PYTHON -mfpmath=sse -msse -msse2 -pthread -I/opt/user_software/coot/bin-gtk4/lib/libffi-3.2.1/include -I/usr/include/gtk-4.0 -I/usr/include/gio-unix-2.0 -I/usr/include/cairo -I/usr/include/pango-1.0 -I/usr/include/harfbuzz -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/harfbuzz -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/x86_64-linux-gnu -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/graphene-1.0 -I/usr/lib/x86_64-linux-gnu/graphene-1.0/include -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I../../coot -I/opt/user_software/coot/bin-gtk4/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/opt/user_software/coot/bin-gtk4/include -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -I/opt/user_software/coot/bin-gtk4/include -DHAVE_SSMLIB -I/opt/user_software/coot/bin-gtk4/include -DMMDB_HAS_LINK_DISTANCE -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DCLIPPER_HAS_TOP8000 -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR=\"/opt/user_software/coot/bin-gtk4/share/coot\" -DPACKAGE_LOCALE_DIR=\"/opt/user_software/coot/bin-gtk4/share/coot/locale\" -DPKGPYTHONDIR=\"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/coot\" -DPYTHONDIR=\"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages\" -DXDATADIR=\"/opt/user_software/coot/bin-gtk4/share\" -DCOOT_SYS_BUILD_TYPE=\"Linux-x86_64-ubuntu-22.04.4-gtk4\" "-DCOOT_BUILD_INFO_STRING=\"build-host: gtxr1.srv-local.mpi-dortmund.mpg.de on: Mi 20 Mär 1759.36 CET 2024\"" -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/opt/user_software/coot/bin-gtk4/include/python3.11 -DHAVE_GSL -fopenmp -g -O -Wall -Wno-unused -std=c++17 -MT graphics-info-opengl.lo -MD -MP -MF .deps/graphics-info-opengl.Tpo -c ../../coot/src/graphics-info-opengl.cc -fPIC -DPIC -o .libs/graphics-info-opengl.o mv -f .deps/graphics-info-intermediate.Tpo .deps/graphics-info-intermediate.Plo /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" -DPACKAGE_STRING=\"coot\ 1.x-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I../../coot/src -DUSE_PYTHON -mfpmath=sse -msse -msse2 -pthread -I/opt/user_software/coot/bin-gtk4/lib/libffi-3.2.1/include -I/usr/include/gtk-4.0 -I/usr/include/gio-unix-2.0 -I/usr/include/cairo -I/usr/include/pango-1.0 -I/usr/include/harfbuzz -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/harfbuzz -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/x86_64-linux-gnu -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/graphene-1.0 -I/usr/lib/x86_64-linux-gnu/graphene-1.0/include -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I../../coot -I/opt/user_software/coot/bin-gtk4/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/opt/user_software/coot/bin-gtk4/include -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -I/opt/user_software/coot/bin-gtk4/include -DHAVE_SSMLIB -I/opt/user_software/coot/bin-gtk4/include -DMMDB_HAS_LINK_DISTANCE -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DCLIPPER_HAS_TOP8000 -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR='"/opt/user_software/coot/bin-gtk4/share/coot"' -DPACKAGE_LOCALE_DIR='"/opt/user_software/coot/bin-gtk4/share/coot/locale"' -DPKGPYTHONDIR='"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/coot"' -DPYTHONDIR='"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages"' -DXDATADIR='"/opt/user_software/coot/bin-gtk4/share"' -DCOOT_SYS_BUILD_TYPE='"Linux-x86_64-ubuntu-22.04.4-gtk4"' -DCOOT_BUILD_INFO_STRING='"build-host: gtxr1.srv-local.mpi-dortmund.mpg.de on: Mi 20 Mär 1759.36 CET 2024"' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/opt/user_software/coot/bin-gtk4/include/python3.11 -DHAVE_GSL -fopenmp -g -O -Wall -Wno-unused -std=c++17 -MT graphics-info-pick.lo -MD -MP -MF .deps/graphics-info-pick.Tpo -c -o graphics-info-pick.lo ../../coot/src/graphics-info-pick.cc In file included from ../../coot/MoleculesToTriangles/CXXClasses/RendererGLSL.hpp:31, from ../../coot/src/graphics-info.h:53, from ../../coot/src/graphics-info-opengl.cc:13: ../../coot/MoleculesToTriangles/CXXClasses/RendererGL.h:61: warning: ignoring ‘#pragma mark ’ [-Wunknown-pragmas] 61 | #pragma mark - | ../../coot/MoleculesToTriangles/CXXClasses/RendererGL.h:62: warning: ignoring ‘#pragma mark Debug’ [-Wunknown-pragmas] 62 | #pragma mark Debug routine | libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" "-DPACKAGE_STRING=\"coot 1.x-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I../../coot/src -DUSE_PYTHON -mfpmath=sse -msse -msse2 -pthread -I/opt/user_software/coot/bin-gtk4/lib/libffi-3.2.1/include -I/usr/include/gtk-4.0 -I/usr/include/gio-unix-2.0 -I/usr/include/cairo -I/usr/include/pango-1.0 -I/usr/include/harfbuzz -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/harfbuzz -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/x86_64-linux-gnu -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/graphene-1.0 -I/usr/lib/x86_64-linux-gnu/graphene-1.0/include -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I../../coot -I/opt/user_software/coot/bin-gtk4/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/opt/user_software/coot/bin-gtk4/include -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -I/opt/user_software/coot/bin-gtk4/include -DHAVE_SSMLIB -I/opt/user_software/coot/bin-gtk4/include -DMMDB_HAS_LINK_DISTANCE -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DCLIPPER_HAS_TOP8000 -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR=\"/opt/user_software/coot/bin-gtk4/share/coot\" -DPACKAGE_LOCALE_DIR=\"/opt/user_software/coot/bin-gtk4/share/coot/locale\" -DPKGPYTHONDIR=\"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/coot\" -DPYTHONDIR=\"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages\" -DXDATADIR=\"/opt/user_software/coot/bin-gtk4/share\" -DCOOT_SYS_BUILD_TYPE=\"Linux-x86_64-ubuntu-22.04.4-gtk4\" "-DCOOT_BUILD_INFO_STRING=\"build-host: gtxr1.srv-local.mpi-dortmund.mpg.de on: Mi 20 Mär 1759.36 CET 2024\"" -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/opt/user_software/coot/bin-gtk4/include/python3.11 -DHAVE_GSL -fopenmp -g -O -Wall -Wno-unused -std=c++17 -MT graphics-info-pick.lo -MD -MP -MF .deps/graphics-info-pick.Tpo -c ../../coot/src/graphics-info-pick.cc -fPIC -DPIC -o .libs/graphics-info-pick.o In file included from ../../coot/MoleculesToTriangles/CXXClasses/RendererGLSL.hpp:31, from ../../coot/src/graphics-info.h:53, from ../../coot/src/graphics-info-pick.cc:42: ../../coot/MoleculesToTriangles/CXXClasses/RendererGL.h:61: warning: ignoring ‘#pragma mark ’ [-Wunknown-pragmas] 61 | #pragma mark - | ../../coot/MoleculesToTriangles/CXXClasses/RendererGL.h:62: warning: ignoring ‘#pragma mark Debug’ [-Wunknown-pragmas] 62 | #pragma mark Debug routine | mv -f .deps/graphics-info-navigation-gtk2.Tpo .deps/graphics-info-navigation-gtk2.Plo /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" -DPACKAGE_STRING=\"coot\ 1.x-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I../../coot/src -DUSE_PYTHON -mfpmath=sse -msse -msse2 -pthread -I/opt/user_software/coot/bin-gtk4/lib/libffi-3.2.1/include -I/usr/include/gtk-4.0 -I/usr/include/gio-unix-2.0 -I/usr/include/cairo -I/usr/include/pango-1.0 -I/usr/include/harfbuzz -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/harfbuzz -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/x86_64-linux-gnu -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/graphene-1.0 -I/usr/lib/x86_64-linux-gnu/graphene-1.0/include -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I../../coot -I/opt/user_software/coot/bin-gtk4/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/opt/user_software/coot/bin-gtk4/include -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -I/opt/user_software/coot/bin-gtk4/include -DHAVE_SSMLIB -I/opt/user_software/coot/bin-gtk4/include -DMMDB_HAS_LINK_DISTANCE -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DCLIPPER_HAS_TOP8000 -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR='"/opt/user_software/coot/bin-gtk4/share/coot"' -DPACKAGE_LOCALE_DIR='"/opt/user_software/coot/bin-gtk4/share/coot/locale"' -DPKGPYTHONDIR='"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/coot"' -DPYTHONDIR='"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages"' -DXDATADIR='"/opt/user_software/coot/bin-gtk4/share"' -DCOOT_SYS_BUILD_TYPE='"Linux-x86_64-ubuntu-22.04.4-gtk4"' -DCOOT_BUILD_INFO_STRING='"build-host: gtxr1.srv-local.mpi-dortmund.mpg.de on: Mi 20 Mär 1759.36 CET 2024"' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/opt/user_software/coot/bin-gtk4/include/python3.11 -DHAVE_GSL -fopenmp -g -O -Wall -Wno-unused -std=c++17 -MT graphics-info-refmac.lo -MD -MP -MF .deps/graphics-info-refmac.Tpo -c -o graphics-info-refmac.lo ../../coot/src/graphics-info-refmac.cc mv -f .deps/graphics-info-preferences.Tpo .deps/graphics-info-preferences.Plo /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" -DPACKAGE_STRING=\"coot\ 1.x-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I../../coot/src -DUSE_PYTHON -mfpmath=sse -msse -msse2 -pthread -I/opt/user_software/coot/bin-gtk4/lib/libffi-3.2.1/include -I/usr/include/gtk-4.0 -I/usr/include/gio-unix-2.0 -I/usr/include/cairo -I/usr/include/pango-1.0 -I/usr/include/harfbuzz -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/harfbuzz -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/x86_64-linux-gnu -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/graphene-1.0 -I/usr/lib/x86_64-linux-gnu/graphene-1.0/include -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I../../coot -I/opt/user_software/coot/bin-gtk4/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/opt/user_software/coot/bin-gtk4/include -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -I/opt/user_software/coot/bin-gtk4/include -DHAVE_SSMLIB -I/opt/user_software/coot/bin-gtk4/include -DMMDB_HAS_LINK_DISTANCE -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DCLIPPER_HAS_TOP8000 -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR='"/opt/user_software/coot/bin-gtk4/share/coot"' -DPACKAGE_LOCALE_DIR='"/opt/user_software/coot/bin-gtk4/share/coot/locale"' -DPKGPYTHONDIR='"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/coot"' -DPYTHONDIR='"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages"' -DXDATADIR='"/opt/user_software/coot/bin-gtk4/share"' -DCOOT_SYS_BUILD_TYPE='"Linux-x86_64-ubuntu-22.04.4-gtk4"' -DCOOT_BUILD_INFO_STRING='"build-host: gtxr1.srv-local.mpi-dortmund.mpg.de on: Mi 20 Mär 1759.36 CET 2024"' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/opt/user_software/coot/bin-gtk4/include/python3.11 -DHAVE_GSL -fopenmp -g -O -Wall -Wno-unused -std=c++17 -MT graphics-info-render.lo -MD -MP -MF .deps/graphics-info-render.Tpo -c -o graphics-info-render.lo ../../coot/src/graphics-info-render.cc libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" "-DPACKAGE_STRING=\"coot 1.x-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I../../coot/src -DUSE_PYTHON -mfpmath=sse -msse -msse2 -pthread -I/opt/user_software/coot/bin-gtk4/lib/libffi-3.2.1/include -I/usr/include/gtk-4.0 -I/usr/include/gio-unix-2.0 -I/usr/include/cairo -I/usr/include/pango-1.0 -I/usr/include/harfbuzz -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/harfbuzz -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/x86_64-linux-gnu -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/graphene-1.0 -I/usr/lib/x86_64-linux-gnu/graphene-1.0/include -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I../../coot -I/opt/user_software/coot/bin-gtk4/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/opt/user_software/coot/bin-gtk4/include -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -I/opt/user_software/coot/bin-gtk4/include -DHAVE_SSMLIB -I/opt/user_software/coot/bin-gtk4/include -DMMDB_HAS_LINK_DISTANCE -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DCLIPPER_HAS_TOP8000 -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR=\"/opt/user_software/coot/bin-gtk4/share/coot\" -DPACKAGE_LOCALE_DIR=\"/opt/user_software/coot/bin-gtk4/share/coot/locale\" -DPKGPYTHONDIR=\"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/coot\" -DPYTHONDIR=\"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages\" -DXDATADIR=\"/opt/user_software/coot/bin-gtk4/share\" -DCOOT_SYS_BUILD_TYPE=\"Linux-x86_64-ubuntu-22.04.4-gtk4\" "-DCOOT_BUILD_INFO_STRING=\"build-host: gtxr1.srv-local.mpi-dortmund.mpg.de on: Mi 20 Mär 1759.36 CET 2024\"" -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/opt/user_software/coot/bin-gtk4/include/python3.11 -DHAVE_GSL -fopenmp -g -O -Wall -Wno-unused -std=c++17 -MT graphics-info-refmac.lo -MD -MP -MF .deps/graphics-info-refmac.Tpo -c ../../coot/src/graphics-info-refmac.cc -fPIC -DPIC -o .libs/graphics-info-refmac.o libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" "-DPACKAGE_STRING=\"coot 1.x-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I../../coot/src -DUSE_PYTHON -mfpmath=sse -msse -msse2 -pthread -I/opt/user_software/coot/bin-gtk4/lib/libffi-3.2.1/include -I/usr/include/gtk-4.0 -I/usr/include/gio-unix-2.0 -I/usr/include/cairo -I/usr/include/pango-1.0 -I/usr/include/harfbuzz -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/harfbuzz -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/x86_64-linux-gnu -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/graphene-1.0 -I/usr/lib/x86_64-linux-gnu/graphene-1.0/include -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I../../coot -I/opt/user_software/coot/bin-gtk4/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/opt/user_software/coot/bin-gtk4/include -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -I/opt/user_software/coot/bin-gtk4/include -DHAVE_SSMLIB -I/opt/user_software/coot/bin-gtk4/include -DMMDB_HAS_LINK_DISTANCE -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DCLIPPER_HAS_TOP8000 -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR=\"/opt/user_software/coot/bin-gtk4/share/coot\" -DPACKAGE_LOCALE_DIR=\"/opt/user_software/coot/bin-gtk4/share/coot/locale\" -DPKGPYTHONDIR=\"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/coot\" -DPYTHONDIR=\"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages\" -DXDATADIR=\"/opt/user_software/coot/bin-gtk4/share\" -DCOOT_SYS_BUILD_TYPE=\"Linux-x86_64-ubuntu-22.04.4-gtk4\" "-DCOOT_BUILD_INFO_STRING=\"build-host: gtxr1.srv-local.mpi-dortmund.mpg.de on: Mi 20 Mär 1759.36 CET 2024\"" -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/opt/user_software/coot/bin-gtk4/include/python3.11 -DHAVE_GSL -fopenmp -g -O -Wall -Wno-unused -std=c++17 -MT graphics-info-render.lo -MD -MP -MF .deps/graphics-info-render.Tpo -c ../../coot/src/graphics-info-render.cc -fPIC -DPIC -o .libs/graphics-info-render.o In file included from ../../coot/MoleculesToTriangles/CXXClasses/RendererGLSL.hpp:31, from ../../coot/src/graphics-info.h:53, from ../../coot/src/graphics-info-refmac.cc:79: ../../coot/MoleculesToTriangles/CXXClasses/RendererGL.h:61: warning: ignoring ‘#pragma mark ’ [-Wunknown-pragmas] 61 | #pragma mark - | ../../coot/MoleculesToTriangles/CXXClasses/RendererGL.h:62: warning: ignoring ‘#pragma mark Debug’ [-Wunknown-pragmas] 62 | #pragma mark Debug routine | mv -f .deps/graphics-info-network.Tpo .deps/graphics-info-network.Plo /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" -DPACKAGE_STRING=\"coot\ 1.x-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I../../coot/src -DUSE_PYTHON -mfpmath=sse -msse -msse2 -pthread -I/opt/user_software/coot/bin-gtk4/lib/libffi-3.2.1/include -I/usr/include/gtk-4.0 -I/usr/include/gio-unix-2.0 -I/usr/include/cairo -I/usr/include/pango-1.0 -I/usr/include/harfbuzz -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/harfbuzz -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/x86_64-linux-gnu -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/graphene-1.0 -I/usr/lib/x86_64-linux-gnu/graphene-1.0/include -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I../../coot -I/opt/user_software/coot/bin-gtk4/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/opt/user_software/coot/bin-gtk4/include -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -I/opt/user_software/coot/bin-gtk4/include -DHAVE_SSMLIB -I/opt/user_software/coot/bin-gtk4/include -DMMDB_HAS_LINK_DISTANCE -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DCLIPPER_HAS_TOP8000 -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR='"/opt/user_software/coot/bin-gtk4/share/coot"' -DPACKAGE_LOCALE_DIR='"/opt/user_software/coot/bin-gtk4/share/coot/locale"' -DPKGPYTHONDIR='"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/coot"' -DPYTHONDIR='"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages"' -DXDATADIR='"/opt/user_software/coot/bin-gtk4/share"' -DCOOT_SYS_BUILD_TYPE='"Linux-x86_64-ubuntu-22.04.4-gtk4"' -DCOOT_BUILD_INFO_STRING='"build-host: gtxr1.srv-local.mpi-dortmund.mpg.de on: Mi 20 Mär 1759.36 CET 2024"' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/opt/user_software/coot/bin-gtk4/include/python3.11 -DHAVE_GSL -fopenmp -g -O -Wall -Wno-unused -std=c++17 -MT graphics-info-render-scene.lo -MD -MP -MF .deps/graphics-info-render-scene.Tpo -c -o graphics-info-render-scene.lo ../../coot/src/graphics-info-render-scene.cc In file included from ../../coot/MoleculesToTriangles/CXXClasses/RendererGLSL.hpp:31, from ../../coot/src/graphics-info.h:53, from ../../coot/src/graphics-info-render.cc:38: ../../coot/MoleculesToTriangles/CXXClasses/RendererGL.h:61: warning: ignoring ‘#pragma mark ’ [-Wunknown-pragmas] 61 | #pragma mark - | ../../coot/MoleculesToTriangles/CXXClasses/RendererGL.h:62: warning: ignoring ‘#pragma mark Debug’ [-Wunknown-pragmas] 62 | #pragma mark Debug routine | libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" "-DPACKAGE_STRING=\"coot 1.x-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I../../coot/src -DUSE_PYTHON -mfpmath=sse -msse -msse2 -pthread -I/opt/user_software/coot/bin-gtk4/lib/libffi-3.2.1/include -I/usr/include/gtk-4.0 -I/usr/include/gio-unix-2.0 -I/usr/include/cairo -I/usr/include/pango-1.0 -I/usr/include/harfbuzz -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/harfbuzz -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/x86_64-linux-gnu -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/graphene-1.0 -I/usr/lib/x86_64-linux-gnu/graphene-1.0/include -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I../../coot -I/opt/user_software/coot/bin-gtk4/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/opt/user_software/coot/bin-gtk4/include -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -I/opt/user_software/coot/bin-gtk4/include -DHAVE_SSMLIB -I/opt/user_software/coot/bin-gtk4/include -DMMDB_HAS_LINK_DISTANCE -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DCLIPPER_HAS_TOP8000 -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR=\"/opt/user_software/coot/bin-gtk4/share/coot\" -DPACKAGE_LOCALE_DIR=\"/opt/user_software/coot/bin-gtk4/share/coot/locale\" -DPKGPYTHONDIR=\"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/coot\" -DPYTHONDIR=\"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages\" -DXDATADIR=\"/opt/user_software/coot/bin-gtk4/share\" -DCOOT_SYS_BUILD_TYPE=\"Linux-x86_64-ubuntu-22.04.4-gtk4\" "-DCOOT_BUILD_INFO_STRING=\"build-host: gtxr1.srv-local.mpi-dortmund.mpg.de on: Mi 20 Mär 1759.36 CET 2024\"" -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/opt/user_software/coot/bin-gtk4/include/python3.11 -DHAVE_GSL -fopenmp -g -O -Wall -Wno-unused -std=c++17 -MT graphics-info-render-scene.lo -MD -MP -MF .deps/graphics-info-render-scene.Tpo -c ../../coot/src/graphics-info-render-scene.cc -fPIC -DPIC -o .libs/graphics-info-render-scene.o In file included from ../../coot/MoleculesToTriangles/CXXClasses/RendererGLSL.hpp:31, from ../../coot/src/graphics-info.h:53, from ../../coot/src/graphics-info-render-scene.cc:15: ../../coot/MoleculesToTriangles/CXXClasses/RendererGL.h:61: warning: ignoring ‘#pragma mark ’ [-Wunknown-pragmas] 61 | #pragma mark - | ../../coot/MoleculesToTriangles/CXXClasses/RendererGL.h:62: warning: ignoring ‘#pragma mark Debug’ [-Wunknown-pragmas] 62 | #pragma mark Debug routine | mv -f .deps/graphics-info-modelling.Tpo .deps/graphics-info-modelling.Plo /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" -DPACKAGE_STRING=\"coot\ 1.x-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I../../coot/src -DUSE_PYTHON -mfpmath=sse -msse -msse2 -pthread -I/opt/user_software/coot/bin-gtk4/lib/libffi-3.2.1/include -I/usr/include/gtk-4.0 -I/usr/include/gio-unix-2.0 -I/usr/include/cairo -I/usr/include/pango-1.0 -I/usr/include/harfbuzz -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/harfbuzz -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/x86_64-linux-gnu -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/graphene-1.0 -I/usr/lib/x86_64-linux-gnu/graphene-1.0/include -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I../../coot -I/opt/user_software/coot/bin-gtk4/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/opt/user_software/coot/bin-gtk4/include -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -I/opt/user_software/coot/bin-gtk4/include -DHAVE_SSMLIB -I/opt/user_software/coot/bin-gtk4/include -DMMDB_HAS_LINK_DISTANCE -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DCLIPPER_HAS_TOP8000 -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR='"/opt/user_software/coot/bin-gtk4/share/coot"' -DPACKAGE_LOCALE_DIR='"/opt/user_software/coot/bin-gtk4/share/coot/locale"' -DPKGPYTHONDIR='"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/coot"' -DPYTHONDIR='"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages"' -DXDATADIR='"/opt/user_software/coot/bin-gtk4/share"' -DCOOT_SYS_BUILD_TYPE='"Linux-x86_64-ubuntu-22.04.4-gtk4"' -DCOOT_BUILD_INFO_STRING='"build-host: gtxr1.srv-local.mpi-dortmund.mpg.de on: Mi 20 Mär 1759.36 CET 2024"' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/opt/user_software/coot/bin-gtk4/include/python3.11 -DHAVE_GSL -fopenmp -g -O -Wall -Wno-unused -std=c++17 -MT graphics-info-residues.lo -MD -MP -MF .deps/graphics-info-residues.Tpo -c -o graphics-info-residues.lo ../../coot/src/graphics-info-residues.cc libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" "-DPACKAGE_STRING=\"coot 1.x-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I../../coot/src -DUSE_PYTHON -mfpmath=sse -msse -msse2 -pthread -I/opt/user_software/coot/bin-gtk4/lib/libffi-3.2.1/include -I/usr/include/gtk-4.0 -I/usr/include/gio-unix-2.0 -I/usr/include/cairo -I/usr/include/pango-1.0 -I/usr/include/harfbuzz -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/harfbuzz -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/x86_64-linux-gnu -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/graphene-1.0 -I/usr/lib/x86_64-linux-gnu/graphene-1.0/include -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I../../coot -I/opt/user_software/coot/bin-gtk4/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/opt/user_software/coot/bin-gtk4/include -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -I/opt/user_software/coot/bin-gtk4/include -DHAVE_SSMLIB -I/opt/user_software/coot/bin-gtk4/include -DMMDB_HAS_LINK_DISTANCE -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DCLIPPER_HAS_TOP8000 -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR=\"/opt/user_software/coot/bin-gtk4/share/coot\" -DPACKAGE_LOCALE_DIR=\"/opt/user_software/coot/bin-gtk4/share/coot/locale\" -DPKGPYTHONDIR=\"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/coot\" -DPYTHONDIR=\"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages\" -DXDATADIR=\"/opt/user_software/coot/bin-gtk4/share\" -DCOOT_SYS_BUILD_TYPE=\"Linux-x86_64-ubuntu-22.04.4-gtk4\" "-DCOOT_BUILD_INFO_STRING=\"build-host: gtxr1.srv-local.mpi-dortmund.mpg.de on: Mi 20 Mär 1759.36 CET 2024\"" -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/opt/user_software/coot/bin-gtk4/include/python3.11 -DHAVE_GSL -fopenmp -g -O -Wall -Wno-unused -std=c++17 -MT graphics-info-residues.lo -MD -MP -MF .deps/graphics-info-residues.Tpo -c ../../coot/src/graphics-info-residues.cc -fPIC -DPIC -o .libs/graphics-info-residues.o In file included from ../../coot/MoleculesToTriangles/CXXClasses/RendererGLSL.hpp:31, from ../../coot/src/graphics-info.h:53, from ../../coot/src/graphics-info-residues.cc:30: ../../coot/MoleculesToTriangles/CXXClasses/RendererGL.h:61: warning: ignoring ‘#pragma mark ’ [-Wunknown-pragmas] 61 | #pragma mark - | ../../coot/MoleculesToTriangles/CXXClasses/RendererGL.h:62: warning: ignoring ‘#pragma mark Debug’ [-Wunknown-pragmas] 62 | #pragma mark Debug routine | mv -f .deps/graphics-info-lsq.Tpo .deps/graphics-info-lsq.Plo /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" -DPACKAGE_STRING=\"coot\ 1.x-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I../../coot/src -DUSE_PYTHON -mfpmath=sse -msse -msse2 -pthread -I/opt/user_software/coot/bin-gtk4/lib/libffi-3.2.1/include -I/usr/include/gtk-4.0 -I/usr/include/gio-unix-2.0 -I/usr/include/cairo -I/usr/include/pango-1.0 -I/usr/include/harfbuzz -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/harfbuzz -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/x86_64-linux-gnu -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/graphene-1.0 -I/usr/lib/x86_64-linux-gnu/graphene-1.0/include -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I../../coot -I/opt/user_software/coot/bin-gtk4/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/opt/user_software/coot/bin-gtk4/include -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -I/opt/user_software/coot/bin-gtk4/include -DHAVE_SSMLIB -I/opt/user_software/coot/bin-gtk4/include -DMMDB_HAS_LINK_DISTANCE -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DCLIPPER_HAS_TOP8000 -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR='"/opt/user_software/coot/bin-gtk4/share/coot"' -DPACKAGE_LOCALE_DIR='"/opt/user_software/coot/bin-gtk4/share/coot/locale"' -DPKGPYTHONDIR='"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/coot"' -DPYTHONDIR='"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages"' -DXDATADIR='"/opt/user_software/coot/bin-gtk4/share"' -DCOOT_SYS_BUILD_TYPE='"Linux-x86_64-ubuntu-22.04.4-gtk4"' -DCOOT_BUILD_INFO_STRING='"build-host: gtxr1.srv-local.mpi-dortmund.mpg.de on: Mi 20 Mär 1759.36 CET 2024"' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/opt/user_software/coot/bin-gtk4/include/python3.11 -DHAVE_GSL -fopenmp -g -O -Wall -Wno-unused -std=c++17 -MT graphics-info-refine.lo -MD -MP -MF .deps/graphics-info-refine.Tpo -c -o graphics-info-refine.lo ../../coot/src/graphics-info-refine.cc libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" "-DPACKAGE_STRING=\"coot 1.x-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I../../coot/src -DUSE_PYTHON -mfpmath=sse -msse -msse2 -pthread -I/opt/user_software/coot/bin-gtk4/lib/libffi-3.2.1/include -I/usr/include/gtk-4.0 -I/usr/include/gio-unix-2.0 -I/usr/include/cairo -I/usr/include/pango-1.0 -I/usr/include/harfbuzz -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/harfbuzz -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/x86_64-linux-gnu -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/graphene-1.0 -I/usr/lib/x86_64-linux-gnu/graphene-1.0/include -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I../../coot -I/opt/user_software/coot/bin-gtk4/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/opt/user_software/coot/bin-gtk4/include -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -I/opt/user_software/coot/bin-gtk4/include -DHAVE_SSMLIB -I/opt/user_software/coot/bin-gtk4/include -DMMDB_HAS_LINK_DISTANCE -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DCLIPPER_HAS_TOP8000 -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR=\"/opt/user_software/coot/bin-gtk4/share/coot\" -DPACKAGE_LOCALE_DIR=\"/opt/user_software/coot/bin-gtk4/share/coot/locale\" -DPKGPYTHONDIR=\"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/coot\" -DPYTHONDIR=\"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages\" -DXDATADIR=\"/opt/user_software/coot/bin-gtk4/share\" -DCOOT_SYS_BUILD_TYPE=\"Linux-x86_64-ubuntu-22.04.4-gtk4\" "-DCOOT_BUILD_INFO_STRING=\"build-host: gtxr1.srv-local.mpi-dortmund.mpg.de on: Mi 20 Mär 1759.36 CET 2024\"" -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/opt/user_software/coot/bin-gtk4/include/python3.11 -DHAVE_GSL -fopenmp -g -O -Wall -Wno-unused -std=c++17 -MT graphics-info-refine.lo -MD -MP -MF .deps/graphics-info-refine.Tpo -c ../../coot/src/graphics-info-refine.cc -fPIC -DPIC -o .libs/graphics-info-refine.o In file included from ../../coot/MoleculesToTriangles/CXXClasses/RendererGLSL.hpp:31, from ../../coot/src/graphics-info.h:53, from ../../coot/src/graphics-info-refine.cc:6: ../../coot/MoleculesToTriangles/CXXClasses/RendererGL.h:61: warning: ignoring ‘#pragma mark ’ [-Wunknown-pragmas] 61 | #pragma mark - | ../../coot/MoleculesToTriangles/CXXClasses/RendererGL.h:62: warning: ignoring ‘#pragma mark Debug’ [-Wunknown-pragmas] 62 | #pragma mark Debug routine | mv -f .deps/graphics-info-mutate.Tpo .deps/graphics-info-mutate.Plo /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" -DPACKAGE_STRING=\"coot\ 1.x-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I../../coot/src -DUSE_PYTHON -mfpmath=sse -msse -msse2 -pthread -I/opt/user_software/coot/bin-gtk4/lib/libffi-3.2.1/include -I/usr/include/gtk-4.0 -I/usr/include/gio-unix-2.0 -I/usr/include/cairo -I/usr/include/pango-1.0 -I/usr/include/harfbuzz -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/harfbuzz -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/x86_64-linux-gnu -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/graphene-1.0 -I/usr/lib/x86_64-linux-gnu/graphene-1.0/include -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I../../coot -I/opt/user_software/coot/bin-gtk4/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/opt/user_software/coot/bin-gtk4/include -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -I/opt/user_software/coot/bin-gtk4/include -DHAVE_SSMLIB -I/opt/user_software/coot/bin-gtk4/include -DMMDB_HAS_LINK_DISTANCE -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DCLIPPER_HAS_TOP8000 -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR='"/opt/user_software/coot/bin-gtk4/share/coot"' -DPACKAGE_LOCALE_DIR='"/opt/user_software/coot/bin-gtk4/share/coot/locale"' -DPKGPYTHONDIR='"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/coot"' -DPYTHONDIR='"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages"' -DXDATADIR='"/opt/user_software/coot/bin-gtk4/share"' -DCOOT_SYS_BUILD_TYPE='"Linux-x86_64-ubuntu-22.04.4-gtk4"' -DCOOT_BUILD_INFO_STRING='"build-host: gtxr1.srv-local.mpi-dortmund.mpg.de on: Mi 20 Mär 1759.36 CET 2024"' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/opt/user_software/coot/bin-gtk4/include/python3.11 -DHAVE_GSL -fopenmp -g -O -Wall -Wno-unused -std=c++17 -MT graphics-info-scripting.lo -MD -MP -MF .deps/graphics-info-scripting.Tpo -c -o graphics-info-scripting.lo ../../coot/src/graphics-info-scripting.cc libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" "-DPACKAGE_STRING=\"coot 1.x-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I../../coot/src -DUSE_PYTHON -mfpmath=sse -msse -msse2 -pthread -I/opt/user_software/coot/bin-gtk4/lib/libffi-3.2.1/include -I/usr/include/gtk-4.0 -I/usr/include/gio-unix-2.0 -I/usr/include/cairo -I/usr/include/pango-1.0 -I/usr/include/harfbuzz -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/harfbuzz -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/x86_64-linux-gnu -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/graphene-1.0 -I/usr/lib/x86_64-linux-gnu/graphene-1.0/include -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I../../coot -I/opt/user_software/coot/bin-gtk4/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/opt/user_software/coot/bin-gtk4/include -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -I/opt/user_software/coot/bin-gtk4/include -DHAVE_SSMLIB -I/opt/user_software/coot/bin-gtk4/include -DMMDB_HAS_LINK_DISTANCE -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DCLIPPER_HAS_TOP8000 -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR=\"/opt/user_software/coot/bin-gtk4/share/coot\" -DPACKAGE_LOCALE_DIR=\"/opt/user_software/coot/bin-gtk4/share/coot/locale\" -DPKGPYTHONDIR=\"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/coot\" -DPYTHONDIR=\"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages\" -DXDATADIR=\"/opt/user_software/coot/bin-gtk4/share\" -DCOOT_SYS_BUILD_TYPE=\"Linux-x86_64-ubuntu-22.04.4-gtk4\" "-DCOOT_BUILD_INFO_STRING=\"build-host: gtxr1.srv-local.mpi-dortmund.mpg.de on: Mi 20 Mär 1759.36 CET 2024\"" -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/opt/user_software/coot/bin-gtk4/include/python3.11 -DHAVE_GSL -fopenmp -g -O -Wall -Wno-unused -std=c++17 -MT graphics-info-scripting.lo -MD -MP -MF .deps/graphics-info-scripting.Tpo -c ../../coot/src/graphics-info-scripting.cc -fPIC -DPIC -o .libs/graphics-info-scripting.o In file included from ../../coot/MoleculesToTriangles/CXXClasses/RendererGLSL.hpp:31, from ../../coot/src/graphics-info.h:53, from ../../coot/src/graphics-info-scripting.cc:9: ../../coot/MoleculesToTriangles/CXXClasses/RendererGL.h:61: warning: ignoring ‘#pragma mark ’ [-Wunknown-pragmas] 61 | #pragma mark - | ../../coot/MoleculesToTriangles/CXXClasses/RendererGL.h:62: warning: ignoring ‘#pragma mark Debug’ [-Wunknown-pragmas] 62 | #pragma mark Debug routine | mv -f .deps/graphics-info-opengl.Tpo .deps/graphics-info-opengl.Plo /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" -DPACKAGE_STRING=\"coot\ 1.x-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I../../coot/src -DUSE_PYTHON -mfpmath=sse -msse -msse2 -pthread -I/opt/user_software/coot/bin-gtk4/lib/libffi-3.2.1/include -I/usr/include/gtk-4.0 -I/usr/include/gio-unix-2.0 -I/usr/include/cairo -I/usr/include/pango-1.0 -I/usr/include/harfbuzz -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/harfbuzz -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/x86_64-linux-gnu -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/graphene-1.0 -I/usr/lib/x86_64-linux-gnu/graphene-1.0/include -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I../../coot -I/opt/user_software/coot/bin-gtk4/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/opt/user_software/coot/bin-gtk4/include -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -I/opt/user_software/coot/bin-gtk4/include -DHAVE_SSMLIB -I/opt/user_software/coot/bin-gtk4/include -DMMDB_HAS_LINK_DISTANCE -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DCLIPPER_HAS_TOP8000 -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR='"/opt/user_software/coot/bin-gtk4/share/coot"' -DPACKAGE_LOCALE_DIR='"/opt/user_software/coot/bin-gtk4/share/coot/locale"' -DPKGPYTHONDIR='"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/coot"' -DPYTHONDIR='"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages"' -DXDATADIR='"/opt/user_software/coot/bin-gtk4/share"' -DCOOT_SYS_BUILD_TYPE='"Linux-x86_64-ubuntu-22.04.4-gtk4"' -DCOOT_BUILD_INFO_STRING='"build-host: gtxr1.srv-local.mpi-dortmund.mpg.de on: Mi 20 Mär 1759.36 CET 2024"' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/opt/user_software/coot/bin-gtk4/include/python3.11 -DHAVE_GSL -fopenmp -g -O -Wall -Wno-unused -std=c++17 -MT graphics-info-state.lo -MD -MP -MF .deps/graphics-info-state.Tpo -c -o graphics-info-state.lo ../../coot/src/graphics-info-state.cc mv -f .deps/graphics-info-pick.Tpo .deps/graphics-info-pick.Plo /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" -DPACKAGE_STRING=\"coot\ 1.x-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I../../coot/src -DUSE_PYTHON -mfpmath=sse -msse -msse2 -pthread -I/opt/user_software/coot/bin-gtk4/lib/libffi-3.2.1/include -I/usr/include/gtk-4.0 -I/usr/include/gio-unix-2.0 -I/usr/include/cairo -I/usr/include/pango-1.0 -I/usr/include/harfbuzz -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/harfbuzz -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/x86_64-linux-gnu -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/graphene-1.0 -I/usr/lib/x86_64-linux-gnu/graphene-1.0/include -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I../../coot -I/opt/user_software/coot/bin-gtk4/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/opt/user_software/coot/bin-gtk4/include -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -I/opt/user_software/coot/bin-gtk4/include -DHAVE_SSMLIB -I/opt/user_software/coot/bin-gtk4/include -DMMDB_HAS_LINK_DISTANCE -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DCLIPPER_HAS_TOP8000 -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR='"/opt/user_software/coot/bin-gtk4/share/coot"' -DPACKAGE_LOCALE_DIR='"/opt/user_software/coot/bin-gtk4/share/coot/locale"' -DPKGPYTHONDIR='"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/coot"' -DPYTHONDIR='"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages"' -DXDATADIR='"/opt/user_software/coot/bin-gtk4/share"' -DCOOT_SYS_BUILD_TYPE='"Linux-x86_64-ubuntu-22.04.4-gtk4"' -DCOOT_BUILD_INFO_STRING='"build-host: gtxr1.srv-local.mpi-dortmund.mpg.de on: Mi 20 Mär 1759.36 CET 2024"' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/opt/user_software/coot/bin-gtk4/include/python3.11 -DHAVE_GSL -fopenmp -g -O -Wall -Wno-unused -std=c++17 -MT graphics-info-statics.lo -MD -MP -MF .deps/graphics-info-statics.Tpo -c -o graphics-info-statics.lo ../../coot/src/graphics-info-statics.cc libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" "-DPACKAGE_STRING=\"coot 1.x-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I../../coot/src -DUSE_PYTHON -mfpmath=sse -msse -msse2 -pthread -I/opt/user_software/coot/bin-gtk4/lib/libffi-3.2.1/include -I/usr/include/gtk-4.0 -I/usr/include/gio-unix-2.0 -I/usr/include/cairo -I/usr/include/pango-1.0 -I/usr/include/harfbuzz -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/harfbuzz -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/x86_64-linux-gnu -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/graphene-1.0 -I/usr/lib/x86_64-linux-gnu/graphene-1.0/include -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I../../coot -I/opt/user_software/coot/bin-gtk4/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/opt/user_software/coot/bin-gtk4/include -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -I/opt/user_software/coot/bin-gtk4/include -DHAVE_SSMLIB -I/opt/user_software/coot/bin-gtk4/include -DMMDB_HAS_LINK_DISTANCE -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DCLIPPER_HAS_TOP8000 -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR=\"/opt/user_software/coot/bin-gtk4/share/coot\" -DPACKAGE_LOCALE_DIR=\"/opt/user_software/coot/bin-gtk4/share/coot/locale\" -DPKGPYTHONDIR=\"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/coot\" -DPYTHONDIR=\"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages\" -DXDATADIR=\"/opt/user_software/coot/bin-gtk4/share\" -DCOOT_SYS_BUILD_TYPE=\"Linux-x86_64-ubuntu-22.04.4-gtk4\" "-DCOOT_BUILD_INFO_STRING=\"build-host: gtxr1.srv-local.mpi-dortmund.mpg.de on: Mi 20 Mär 1759.36 CET 2024\"" -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/opt/user_software/coot/bin-gtk4/include/python3.11 -DHAVE_GSL -fopenmp -g -O -Wall -Wno-unused -std=c++17 -MT graphics-info-state.lo -MD -MP -MF .deps/graphics-info-state.Tpo -c ../../coot/src/graphics-info-state.cc -fPIC -DPIC -o .libs/graphics-info-state.o libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" "-DPACKAGE_STRING=\"coot 1.x-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I../../coot/src -DUSE_PYTHON -mfpmath=sse -msse -msse2 -pthread -I/opt/user_software/coot/bin-gtk4/lib/libffi-3.2.1/include -I/usr/include/gtk-4.0 -I/usr/include/gio-unix-2.0 -I/usr/include/cairo -I/usr/include/pango-1.0 -I/usr/include/harfbuzz -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/harfbuzz -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/x86_64-linux-gnu -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/graphene-1.0 -I/usr/lib/x86_64-linux-gnu/graphene-1.0/include -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I../../coot -I/opt/user_software/coot/bin-gtk4/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/opt/user_software/coot/bin-gtk4/include -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -I/opt/user_software/coot/bin-gtk4/include -DHAVE_SSMLIB -I/opt/user_software/coot/bin-gtk4/include -DMMDB_HAS_LINK_DISTANCE -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DCLIPPER_HAS_TOP8000 -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR=\"/opt/user_software/coot/bin-gtk4/share/coot\" -DPACKAGE_LOCALE_DIR=\"/opt/user_software/coot/bin-gtk4/share/coot/locale\" -DPKGPYTHONDIR=\"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/coot\" -DPYTHONDIR=\"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages\" -DXDATADIR=\"/opt/user_software/coot/bin-gtk4/share\" -DCOOT_SYS_BUILD_TYPE=\"Linux-x86_64-ubuntu-22.04.4-gtk4\" "-DCOOT_BUILD_INFO_STRING=\"build-host: gtxr1.srv-local.mpi-dortmund.mpg.de on: Mi 20 Mär 1759.36 CET 2024\"" -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/opt/user_software/coot/bin-gtk4/include/python3.11 -DHAVE_GSL -fopenmp -g -O -Wall -Wno-unused -std=c++17 -MT graphics-info-statics.lo -MD -MP -MF .deps/graphics-info-statics.Tpo -c ../../coot/src/graphics-info-statics.cc -fPIC -DPIC -o .libs/graphics-info-statics.o In file included from ../../coot/MoleculesToTriangles/CXXClasses/RendererGLSL.hpp:31, from ../../coot/src/graphics-info.h:53, from ../../coot/src/graphics-info-state.cc:37: ../../coot/MoleculesToTriangles/CXXClasses/RendererGL.h:61: warning: ignoring ‘#pragma mark ’ [-Wunknown-pragmas] 61 | #pragma mark - | ../../coot/MoleculesToTriangles/CXXClasses/RendererGL.h:62: warning: ignoring ‘#pragma mark Debug’ [-Wunknown-pragmas] 62 | #pragma mark Debug routine | In file included from ../../coot/MoleculesToTriangles/CXXClasses/RendererGLSL.hpp:31, from ../../coot/src/graphics-info.h:53, from ../../coot/src/graphics-info-statics.cc:6: ../../coot/MoleculesToTriangles/CXXClasses/RendererGL.h:61: warning: ignoring ‘#pragma mark ’ [-Wunknown-pragmas] 61 | #pragma mark - | ../../coot/MoleculesToTriangles/CXXClasses/RendererGL.h:62: warning: ignoring ‘#pragma mark Debug’ [-Wunknown-pragmas] 62 | #pragma mark Debug routine | mv -f .deps/graphics-info-render.Tpo .deps/graphics-info-render.Plo /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" -DPACKAGE_STRING=\"coot\ 1.x-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I../../coot/src -DUSE_PYTHON -mfpmath=sse -msse -msse2 -pthread -I/opt/user_software/coot/bin-gtk4/lib/libffi-3.2.1/include -I/usr/include/gtk-4.0 -I/usr/include/gio-unix-2.0 -I/usr/include/cairo -I/usr/include/pango-1.0 -I/usr/include/harfbuzz -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/harfbuzz -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/x86_64-linux-gnu -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/graphene-1.0 -I/usr/lib/x86_64-linux-gnu/graphene-1.0/include -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I../../coot -I/opt/user_software/coot/bin-gtk4/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/opt/user_software/coot/bin-gtk4/include -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -I/opt/user_software/coot/bin-gtk4/include -DHAVE_SSMLIB -I/opt/user_software/coot/bin-gtk4/include -DMMDB_HAS_LINK_DISTANCE -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DCLIPPER_HAS_TOP8000 -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR='"/opt/user_software/coot/bin-gtk4/share/coot"' -DPACKAGE_LOCALE_DIR='"/opt/user_software/coot/bin-gtk4/share/coot/locale"' -DPKGPYTHONDIR='"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/coot"' -DPYTHONDIR='"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages"' -DXDATADIR='"/opt/user_software/coot/bin-gtk4/share"' -DCOOT_SYS_BUILD_TYPE='"Linux-x86_64-ubuntu-22.04.4-gtk4"' -DCOOT_BUILD_INFO_STRING='"build-host: gtxr1.srv-local.mpi-dortmund.mpg.de on: Mi 20 Mär 1759.36 CET 2024"' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/opt/user_software/coot/bin-gtk4/include/python3.11 -DHAVE_GSL -fopenmp -g -O -Wall -Wno-unused -std=c++17 -MT graphics-info-superpose.lo -MD -MP -MF .deps/graphics-info-superpose.Tpo -c -o graphics-info-superpose.lo ../../coot/src/graphics-info-superpose.cc mv -f .deps/graphics-info-refmac.Tpo .deps/graphics-info-refmac.Plo /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" -DPACKAGE_STRING=\"coot\ 1.x-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I../../coot/src -DUSE_PYTHON -mfpmath=sse -msse -msse2 -pthread -I/opt/user_software/coot/bin-gtk4/lib/libffi-3.2.1/include -I/usr/include/gtk-4.0 -I/usr/include/gio-unix-2.0 -I/usr/include/cairo -I/usr/include/pango-1.0 -I/usr/include/harfbuzz -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/harfbuzz -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/x86_64-linux-gnu -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/graphene-1.0 -I/usr/lib/x86_64-linux-gnu/graphene-1.0/include -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I../../coot -I/opt/user_software/coot/bin-gtk4/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/opt/user_software/coot/bin-gtk4/include -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -I/opt/user_software/coot/bin-gtk4/include -DHAVE_SSMLIB -I/opt/user_software/coot/bin-gtk4/include -DMMDB_HAS_LINK_DISTANCE -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DCLIPPER_HAS_TOP8000 -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR='"/opt/user_software/coot/bin-gtk4/share/coot"' -DPACKAGE_LOCALE_DIR='"/opt/user_software/coot/bin-gtk4/share/coot/locale"' -DPKGPYTHONDIR='"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/coot"' -DPYTHONDIR='"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages"' -DXDATADIR='"/opt/user_software/coot/bin-gtk4/share"' -DCOOT_SYS_BUILD_TYPE='"Linux-x86_64-ubuntu-22.04.4-gtk4"' -DCOOT_BUILD_INFO_STRING='"build-host: gtxr1.srv-local.mpi-dortmund.mpg.de on: Mi 20 Mär 1759.36 CET 2024"' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/opt/user_software/coot/bin-gtk4/include/python3.11 -DHAVE_GSL -fopenmp -g -O -Wall -Wno-unused -std=c++17 -MT graphics-info-trackball.lo -MD -MP -MF .deps/graphics-info-trackball.Tpo -c -o graphics-info-trackball.lo ../../coot/src/graphics-info-trackball.cc mv -f .deps/graphics-info-render-scene.Tpo .deps/graphics-info-render-scene.Plo /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" -DPACKAGE_STRING=\"coot\ 1.x-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I../../coot/src -DUSE_PYTHON -mfpmath=sse -msse -msse2 -pthread -I/opt/user_software/coot/bin-gtk4/lib/libffi-3.2.1/include -I/usr/include/gtk-4.0 -I/usr/include/gio-unix-2.0 -I/usr/include/cairo -I/usr/include/pango-1.0 -I/usr/include/harfbuzz -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/harfbuzz -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/x86_64-linux-gnu -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/graphene-1.0 -I/usr/lib/x86_64-linux-gnu/graphene-1.0/include -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I../../coot -I/opt/user_software/coot/bin-gtk4/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/opt/user_software/coot/bin-gtk4/include -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -I/opt/user_software/coot/bin-gtk4/include -DHAVE_SSMLIB -I/opt/user_software/coot/bin-gtk4/include -DMMDB_HAS_LINK_DISTANCE -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DCLIPPER_HAS_TOP8000 -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR='"/opt/user_software/coot/bin-gtk4/share/coot"' -DPACKAGE_LOCALE_DIR='"/opt/user_software/coot/bin-gtk4/share/coot/locale"' -DPKGPYTHONDIR='"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/coot"' -DPYTHONDIR='"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages"' -DXDATADIR='"/opt/user_software/coot/bin-gtk4/share"' -DCOOT_SYS_BUILD_TYPE='"Linux-x86_64-ubuntu-22.04.4-gtk4"' -DCOOT_BUILD_INFO_STRING='"build-host: gtxr1.srv-local.mpi-dortmund.mpg.de on: Mi 20 Mär 1759.36 CET 2024"' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/opt/user_software/coot/bin-gtk4/include/python3.11 -DHAVE_GSL -fopenmp -g -O -Wall -Wno-unused -std=c++17 -MT graphics-ligand-view.lo -MD -MP -MF .deps/graphics-ligand-view.Tpo -c -o graphics-ligand-view.lo ../../coot/src/graphics-ligand-view.cc libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" "-DPACKAGE_STRING=\"coot 1.x-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I../../coot/src -DUSE_PYTHON -mfpmath=sse -msse -msse2 -pthread -I/opt/user_software/coot/bin-gtk4/lib/libffi-3.2.1/include -I/usr/include/gtk-4.0 -I/usr/include/gio-unix-2.0 -I/usr/include/cairo -I/usr/include/pango-1.0 -I/usr/include/harfbuzz -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/harfbuzz -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/x86_64-linux-gnu -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/graphene-1.0 -I/usr/lib/x86_64-linux-gnu/graphene-1.0/include -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I../../coot -I/opt/user_software/coot/bin-gtk4/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/opt/user_software/coot/bin-gtk4/include -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -I/opt/user_software/coot/bin-gtk4/include -DHAVE_SSMLIB -I/opt/user_software/coot/bin-gtk4/include -DMMDB_HAS_LINK_DISTANCE -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DCLIPPER_HAS_TOP8000 -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR=\"/opt/user_software/coot/bin-gtk4/share/coot\" -DPACKAGE_LOCALE_DIR=\"/opt/user_software/coot/bin-gtk4/share/coot/locale\" -DPKGPYTHONDIR=\"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/coot\" -DPYTHONDIR=\"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages\" -DXDATADIR=\"/opt/user_software/coot/bin-gtk4/share\" -DCOOT_SYS_BUILD_TYPE=\"Linux-x86_64-ubuntu-22.04.4-gtk4\" "-DCOOT_BUILD_INFO_STRING=\"build-host: gtxr1.srv-local.mpi-dortmund.mpg.de on: Mi 20 Mär 1759.36 CET 2024\"" -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/opt/user_software/coot/bin-gtk4/include/python3.11 -DHAVE_GSL -fopenmp -g -O -Wall -Wno-unused -std=c++17 -MT graphics-info-superpose.lo -MD -MP -MF .deps/graphics-info-superpose.Tpo -c ../../coot/src/graphics-info-superpose.cc -fPIC -DPIC -o .libs/graphics-info-superpose.o libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" "-DPACKAGE_STRING=\"coot 1.x-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I../../coot/src -DUSE_PYTHON -mfpmath=sse -msse -msse2 -pthread -I/opt/user_software/coot/bin-gtk4/lib/libffi-3.2.1/include -I/usr/include/gtk-4.0 -I/usr/include/gio-unix-2.0 -I/usr/include/cairo -I/usr/include/pango-1.0 -I/usr/include/harfbuzz -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/harfbuzz -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/x86_64-linux-gnu -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/graphene-1.0 -I/usr/lib/x86_64-linux-gnu/graphene-1.0/include -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I../../coot -I/opt/user_software/coot/bin-gtk4/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/opt/user_software/coot/bin-gtk4/include -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -I/opt/user_software/coot/bin-gtk4/include -DHAVE_SSMLIB -I/opt/user_software/coot/bin-gtk4/include -DMMDB_HAS_LINK_DISTANCE -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DCLIPPER_HAS_TOP8000 -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR=\"/opt/user_software/coot/bin-gtk4/share/coot\" -DPACKAGE_LOCALE_DIR=\"/opt/user_software/coot/bin-gtk4/share/coot/locale\" -DPKGPYTHONDIR=\"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/coot\" -DPYTHONDIR=\"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages\" -DXDATADIR=\"/opt/user_software/coot/bin-gtk4/share\" -DCOOT_SYS_BUILD_TYPE=\"Linux-x86_64-ubuntu-22.04.4-gtk4\" "-DCOOT_BUILD_INFO_STRING=\"build-host: gtxr1.srv-local.mpi-dortmund.mpg.de on: Mi 20 Mär 1759.36 CET 2024\"" -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/opt/user_software/coot/bin-gtk4/include/python3.11 -DHAVE_GSL -fopenmp -g -O -Wall -Wno-unused -std=c++17 -MT graphics-info-trackball.lo -MD -MP -MF .deps/graphics-info-trackball.Tpo -c ../../coot/src/graphics-info-trackball.cc -fPIC -DPIC -o .libs/graphics-info-trackball.o libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" "-DPACKAGE_STRING=\"coot 1.x-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I../../coot/src -DUSE_PYTHON -mfpmath=sse -msse -msse2 -pthread -I/opt/user_software/coot/bin-gtk4/lib/libffi-3.2.1/include -I/usr/include/gtk-4.0 -I/usr/include/gio-unix-2.0 -I/usr/include/cairo -I/usr/include/pango-1.0 -I/usr/include/harfbuzz -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/harfbuzz -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/x86_64-linux-gnu -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/graphene-1.0 -I/usr/lib/x86_64-linux-gnu/graphene-1.0/include -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I../../coot -I/opt/user_software/coot/bin-gtk4/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/opt/user_software/coot/bin-gtk4/include -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -I/opt/user_software/coot/bin-gtk4/include -DHAVE_SSMLIB -I/opt/user_software/coot/bin-gtk4/include -DMMDB_HAS_LINK_DISTANCE -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DCLIPPER_HAS_TOP8000 -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR=\"/opt/user_software/coot/bin-gtk4/share/coot\" -DPACKAGE_LOCALE_DIR=\"/opt/user_software/coot/bin-gtk4/share/coot/locale\" -DPKGPYTHONDIR=\"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/coot\" -DPYTHONDIR=\"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages\" -DXDATADIR=\"/opt/user_software/coot/bin-gtk4/share\" -DCOOT_SYS_BUILD_TYPE=\"Linux-x86_64-ubuntu-22.04.4-gtk4\" "-DCOOT_BUILD_INFO_STRING=\"build-host: gtxr1.srv-local.mpi-dortmund.mpg.de on: Mi 20 Mär 1759.36 CET 2024\"" -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/opt/user_software/coot/bin-gtk4/include/python3.11 -DHAVE_GSL -fopenmp -g -O -Wall -Wno-unused -std=c++17 -MT graphics-ligand-view.lo -MD -MP -MF .deps/graphics-ligand-view.Tpo -c ../../coot/src/graphics-ligand-view.cc -fPIC -DPIC -o .libs/graphics-ligand-view.o In file included from ../../coot/MoleculesToTriangles/CXXClasses/RendererGLSL.hpp:31, from ../../coot/src/graphics-info.h:53, from ../../coot/src/graphics-info-superpose.cc:33: ../../coot/MoleculesToTriangles/CXXClasses/RendererGL.h:61: warning: ignoring ‘#pragma mark ’ [-Wunknown-pragmas] 61 | #pragma mark - | ../../coot/MoleculesToTriangles/CXXClasses/RendererGL.h:62: warning: ignoring ‘#pragma mark Debug’ [-Wunknown-pragmas] 62 | #pragma mark Debug routine | In file included from ../../coot/MoleculesToTriangles/CXXClasses/RendererGLSL.hpp:31, from ../../coot/src/graphics-info.h:53, from ../../coot/src/graphics-info-trackball.cc:57: ../../coot/MoleculesToTriangles/CXXClasses/RendererGL.h:61: warning: ignoring ‘#pragma mark ’ [-Wunknown-pragmas] 61 | #pragma mark - | ../../coot/MoleculesToTriangles/CXXClasses/RendererGL.h:62: warning: ignoring ‘#pragma mark Debug’ [-Wunknown-pragmas] 62 | #pragma mark Debug routine | mv -f .deps/graphics-info-refine.Tpo .deps/graphics-info-refine.Plo /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" -DPACKAGE_STRING=\"coot\ 1.x-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I../../coot/src -DUSE_PYTHON -mfpmath=sse -msse -msse2 -pthread -I/opt/user_software/coot/bin-gtk4/lib/libffi-3.2.1/include -I/usr/include/gtk-4.0 -I/usr/include/gio-unix-2.0 -I/usr/include/cairo -I/usr/include/pango-1.0 -I/usr/include/harfbuzz -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/harfbuzz -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/x86_64-linux-gnu -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/graphene-1.0 -I/usr/lib/x86_64-linux-gnu/graphene-1.0/include -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I../../coot -I/opt/user_software/coot/bin-gtk4/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/opt/user_software/coot/bin-gtk4/include -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -I/opt/user_software/coot/bin-gtk4/include -DHAVE_SSMLIB -I/opt/user_software/coot/bin-gtk4/include -DMMDB_HAS_LINK_DISTANCE -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DCLIPPER_HAS_TOP8000 -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR='"/opt/user_software/coot/bin-gtk4/share/coot"' -DPACKAGE_LOCALE_DIR='"/opt/user_software/coot/bin-gtk4/share/coot/locale"' -DPKGPYTHONDIR='"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/coot"' -DPYTHONDIR='"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages"' -DXDATADIR='"/opt/user_software/coot/bin-gtk4/share"' -DCOOT_SYS_BUILD_TYPE='"Linux-x86_64-ubuntu-22.04.4-gtk4"' -DCOOT_BUILD_INFO_STRING='"build-host: gtxr1.srv-local.mpi-dortmund.mpg.de on: Mi 20 Mär 1759.36 CET 2024"' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/opt/user_software/coot/bin-gtk4/include/python3.11 -DHAVE_GSL -fopenmp -g -O -Wall -Wno-unused -std=c++17 -MT graphics-ligand-mesh-molecule.lo -MD -MP -MF .deps/graphics-ligand-mesh-molecule.Tpo -c -o graphics-ligand-mesh-molecule.lo ../../coot/src/graphics-ligand-mesh-molecule.cc mv -f .deps/graphics-info-residues.Tpo .deps/graphics-info-residues.Plo /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" -DPACKAGE_STRING=\"coot\ 1.x-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I../../coot/src -DUSE_PYTHON -mfpmath=sse -msse -msse2 -pthread -I/opt/user_software/coot/bin-gtk4/lib/libffi-3.2.1/include -I/usr/include/gtk-4.0 -I/usr/include/gio-unix-2.0 -I/usr/include/cairo -I/usr/include/pango-1.0 -I/usr/include/harfbuzz -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/harfbuzz -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/x86_64-linux-gnu -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/graphene-1.0 -I/usr/lib/x86_64-linux-gnu/graphene-1.0/include -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I../../coot -I/opt/user_software/coot/bin-gtk4/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/opt/user_software/coot/bin-gtk4/include -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -I/opt/user_software/coot/bin-gtk4/include -DHAVE_SSMLIB -I/opt/user_software/coot/bin-gtk4/include -DMMDB_HAS_LINK_DISTANCE -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DCLIPPER_HAS_TOP8000 -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR='"/opt/user_software/coot/bin-gtk4/share/coot"' -DPACKAGE_LOCALE_DIR='"/opt/user_software/coot/bin-gtk4/share/coot/locale"' -DPKGPYTHONDIR='"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/coot"' -DPYTHONDIR='"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages"' -DXDATADIR='"/opt/user_software/coot/bin-gtk4/share"' -DCOOT_SYS_BUILD_TYPE='"Linux-x86_64-ubuntu-22.04.4-gtk4"' -DCOOT_BUILD_INFO_STRING='"build-host: gtxr1.srv-local.mpi-dortmund.mpg.de on: Mi 20 Mär 1759.36 CET 2024"' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/opt/user_software/coot/bin-gtk4/include/python3.11 -DHAVE_GSL -fopenmp -g -O -Wall -Wno-unused -std=c++17 -MT gl-matrix.lo -MD -MP -MF .deps/gl-matrix.Tpo -c -o gl-matrix.lo ../../coot/src/gl-matrix.cc libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" "-DPACKAGE_STRING=\"coot 1.x-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I../../coot/src -DUSE_PYTHON -mfpmath=sse -msse -msse2 -pthread -I/opt/user_software/coot/bin-gtk4/lib/libffi-3.2.1/include -I/usr/include/gtk-4.0 -I/usr/include/gio-unix-2.0 -I/usr/include/cairo -I/usr/include/pango-1.0 -I/usr/include/harfbuzz -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/harfbuzz -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/x86_64-linux-gnu -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/graphene-1.0 -I/usr/lib/x86_64-linux-gnu/graphene-1.0/include -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I../../coot -I/opt/user_software/coot/bin-gtk4/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/opt/user_software/coot/bin-gtk4/include -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -I/opt/user_software/coot/bin-gtk4/include -DHAVE_SSMLIB -I/opt/user_software/coot/bin-gtk4/include -DMMDB_HAS_LINK_DISTANCE -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DCLIPPER_HAS_TOP8000 -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR=\"/opt/user_software/coot/bin-gtk4/share/coot\" -DPACKAGE_LOCALE_DIR=\"/opt/user_software/coot/bin-gtk4/share/coot/locale\" -DPKGPYTHONDIR=\"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/coot\" -DPYTHONDIR=\"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages\" -DXDATADIR=\"/opt/user_software/coot/bin-gtk4/share\" -DCOOT_SYS_BUILD_TYPE=\"Linux-x86_64-ubuntu-22.04.4-gtk4\" "-DCOOT_BUILD_INFO_STRING=\"build-host: gtxr1.srv-local.mpi-dortmund.mpg.de on: Mi 20 Mär 1759.36 CET 2024\"" -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/opt/user_software/coot/bin-gtk4/include/python3.11 -DHAVE_GSL -fopenmp -g -O -Wall -Wno-unused -std=c++17 -MT graphics-ligand-mesh-molecule.lo -MD -MP -MF .deps/graphics-ligand-mesh-molecule.Tpo -c ../../coot/src/graphics-ligand-mesh-molecule.cc -fPIC -DPIC -o .libs/graphics-ligand-mesh-molecule.o libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" "-DPACKAGE_STRING=\"coot 1.x-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I../../coot/src -DUSE_PYTHON -mfpmath=sse -msse -msse2 -pthread -I/opt/user_software/coot/bin-gtk4/lib/libffi-3.2.1/include -I/usr/include/gtk-4.0 -I/usr/include/gio-unix-2.0 -I/usr/include/cairo -I/usr/include/pango-1.0 -I/usr/include/harfbuzz -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/harfbuzz -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/x86_64-linux-gnu -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/graphene-1.0 -I/usr/lib/x86_64-linux-gnu/graphene-1.0/include -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I../../coot -I/opt/user_software/coot/bin-gtk4/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/opt/user_software/coot/bin-gtk4/include -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -I/opt/user_software/coot/bin-gtk4/include -DHAVE_SSMLIB -I/opt/user_software/coot/bin-gtk4/include -DMMDB_HAS_LINK_DISTANCE -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DCLIPPER_HAS_TOP8000 -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR=\"/opt/user_software/coot/bin-gtk4/share/coot\" -DPACKAGE_LOCALE_DIR=\"/opt/user_software/coot/bin-gtk4/share/coot/locale\" -DPKGPYTHONDIR=\"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/coot\" -DPYTHONDIR=\"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages\" -DXDATADIR=\"/opt/user_software/coot/bin-gtk4/share\" -DCOOT_SYS_BUILD_TYPE=\"Linux-x86_64-ubuntu-22.04.4-gtk4\" "-DCOOT_BUILD_INFO_STRING=\"build-host: gtxr1.srv-local.mpi-dortmund.mpg.de on: Mi 20 Mär 1759.36 CET 2024\"" -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/opt/user_software/coot/bin-gtk4/include/python3.11 -DHAVE_GSL -fopenmp -g -O -Wall -Wno-unused -std=c++17 -MT gl-matrix.lo -MD -MP -MF .deps/gl-matrix.Tpo -c ../../coot/src/gl-matrix.cc -fPIC -DPIC -o .libs/gl-matrix.o In file included from ../../coot/MoleculesToTriangles/CXXClasses/RendererGLSL.hpp:31, from ../../coot/src/graphics-info.h:53, from ../../coot/src/graphics-ligand-mesh-molecule.cc:11: ../../coot/MoleculesToTriangles/CXXClasses/RendererGL.h:61: warning: ignoring ‘#pragma mark ’ [-Wunknown-pragmas] 61 | #pragma mark - | ../../coot/MoleculesToTriangles/CXXClasses/RendererGL.h:62: warning: ignoring ‘#pragma mark Debug’ [-Wunknown-pragmas] 62 | #pragma mark Debug routine | mv -f .deps/gl-matrix.Tpo .deps/gl-matrix.Plo /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" -DPACKAGE_STRING=\"coot\ 1.x-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I../../coot/src -DUSE_PYTHON -mfpmath=sse -msse -msse2 -pthread -I/opt/user_software/coot/bin-gtk4/lib/libffi-3.2.1/include -I/usr/include/gtk-4.0 -I/usr/include/gio-unix-2.0 -I/usr/include/cairo -I/usr/include/pango-1.0 -I/usr/include/harfbuzz -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/harfbuzz -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/x86_64-linux-gnu -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/graphene-1.0 -I/usr/lib/x86_64-linux-gnu/graphene-1.0/include -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I../../coot -I/opt/user_software/coot/bin-gtk4/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/opt/user_software/coot/bin-gtk4/include -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -I/opt/user_software/coot/bin-gtk4/include -DHAVE_SSMLIB -I/opt/user_software/coot/bin-gtk4/include -DMMDB_HAS_LINK_DISTANCE -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DCLIPPER_HAS_TOP8000 -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR='"/opt/user_software/coot/bin-gtk4/share/coot"' -DPACKAGE_LOCALE_DIR='"/opt/user_software/coot/bin-gtk4/share/coot/locale"' -DPKGPYTHONDIR='"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/coot"' -DPYTHONDIR='"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages"' -DXDATADIR='"/opt/user_software/coot/bin-gtk4/share"' -DCOOT_SYS_BUILD_TYPE='"Linux-x86_64-ubuntu-22.04.4-gtk4"' -DCOOT_BUILD_INFO_STRING='"build-host: gtxr1.srv-local.mpi-dortmund.mpg.de on: Mi 20 Mär 1759.36 CET 2024"' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/opt/user_software/coot/bin-gtk4/include/python3.11 -DHAVE_GSL -fopenmp -g -O -Wall -Wno-unused -std=c++17 -MT gtkglarea-rama-plot.lo -MD -MP -MF .deps/gtkglarea-rama-plot.Tpo -c -o gtkglarea-rama-plot.lo ../../coot/src/gtkglarea-rama-plot.cc libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" "-DPACKAGE_STRING=\"coot 1.x-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I../../coot/src -DUSE_PYTHON -mfpmath=sse -msse -msse2 -pthread -I/opt/user_software/coot/bin-gtk4/lib/libffi-3.2.1/include -I/usr/include/gtk-4.0 -I/usr/include/gio-unix-2.0 -I/usr/include/cairo -I/usr/include/pango-1.0 -I/usr/include/harfbuzz -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/harfbuzz -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/x86_64-linux-gnu -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/graphene-1.0 -I/usr/lib/x86_64-linux-gnu/graphene-1.0/include -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I../../coot -I/opt/user_software/coot/bin-gtk4/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/opt/user_software/coot/bin-gtk4/include -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -I/opt/user_software/coot/bin-gtk4/include -DHAVE_SSMLIB -I/opt/user_software/coot/bin-gtk4/include -DMMDB_HAS_LINK_DISTANCE -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DCLIPPER_HAS_TOP8000 -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR=\"/opt/user_software/coot/bin-gtk4/share/coot\" -DPACKAGE_LOCALE_DIR=\"/opt/user_software/coot/bin-gtk4/share/coot/locale\" -DPKGPYTHONDIR=\"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/coot\" -DPYTHONDIR=\"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages\" -DXDATADIR=\"/opt/user_software/coot/bin-gtk4/share\" -DCOOT_SYS_BUILD_TYPE=\"Linux-x86_64-ubuntu-22.04.4-gtk4\" "-DCOOT_BUILD_INFO_STRING=\"build-host: gtxr1.srv-local.mpi-dortmund.mpg.de on: Mi 20 Mär 1759.36 CET 2024\"" -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/opt/user_software/coot/bin-gtk4/include/python3.11 -DHAVE_GSL -fopenmp -g -O -Wall -Wno-unused -std=c++17 -MT gtkglarea-rama-plot.lo -MD -MP -MF .deps/gtkglarea-rama-plot.Tpo -c ../../coot/src/gtkglarea-rama-plot.cc -fPIC -DPIC -o .libs/gtkglarea-rama-plot.o In file included from ../../coot/MoleculesToTriangles/CXXClasses/RendererGLSL.hpp:31, from ../../coot/src/graphics-info.h:53, from ../../coot/src/gtkglarea-rama-plot.cc:23: ../../coot/MoleculesToTriangles/CXXClasses/RendererGL.h:61: warning: ignoring ‘#pragma mark ’ [-Wunknown-pragmas] 61 | #pragma mark - | ../../coot/MoleculesToTriangles/CXXClasses/RendererGL.h:62: warning: ignoring ‘#pragma mark Debug’ [-Wunknown-pragmas] 62 | #pragma mark Debug routine | mv -f .deps/graphics-info-scripting.Tpo .deps/graphics-info-scripting.Plo /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" -DPACKAGE_STRING=\"coot\ 1.x-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I../../coot/src -DUSE_PYTHON -mfpmath=sse -msse -msse2 -pthread -I/opt/user_software/coot/bin-gtk4/lib/libffi-3.2.1/include -I/usr/include/gtk-4.0 -I/usr/include/gio-unix-2.0 -I/usr/include/cairo -I/usr/include/pango-1.0 -I/usr/include/harfbuzz -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/harfbuzz -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/x86_64-linux-gnu -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/graphene-1.0 -I/usr/lib/x86_64-linux-gnu/graphene-1.0/include -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I../../coot -I/opt/user_software/coot/bin-gtk4/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/opt/user_software/coot/bin-gtk4/include -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -I/opt/user_software/coot/bin-gtk4/include -DHAVE_SSMLIB -I/opt/user_software/coot/bin-gtk4/include -DMMDB_HAS_LINK_DISTANCE -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DCLIPPER_HAS_TOP8000 -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR='"/opt/user_software/coot/bin-gtk4/share/coot"' -DPACKAGE_LOCALE_DIR='"/opt/user_software/coot/bin-gtk4/share/coot/locale"' -DPKGPYTHONDIR='"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/coot"' -DPYTHONDIR='"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages"' -DXDATADIR='"/opt/user_software/coot/bin-gtk4/share"' -DCOOT_SYS_BUILD_TYPE='"Linux-x86_64-ubuntu-22.04.4-gtk4"' -DCOOT_BUILD_INFO_STRING='"build-host: gtxr1.srv-local.mpi-dortmund.mpg.de on: Mi 20 Mär 1759.36 CET 2024"' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/opt/user_software/coot/bin-gtk4/include/python3.11 -DHAVE_GSL -fopenmp -g -O -Wall -Wno-unused -std=c++17 -MT gtk-manual.lo -MD -MP -MF .deps/gtk-manual.Tpo -c -o gtk-manual.lo ../../coot/src/gtk-manual.cc libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" "-DPACKAGE_STRING=\"coot 1.x-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I../../coot/src -DUSE_PYTHON -mfpmath=sse -msse -msse2 -pthread -I/opt/user_software/coot/bin-gtk4/lib/libffi-3.2.1/include -I/usr/include/gtk-4.0 -I/usr/include/gio-unix-2.0 -I/usr/include/cairo -I/usr/include/pango-1.0 -I/usr/include/harfbuzz -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/harfbuzz -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/x86_64-linux-gnu -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/graphene-1.0 -I/usr/lib/x86_64-linux-gnu/graphene-1.0/include -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I../../coot -I/opt/user_software/coot/bin-gtk4/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/opt/user_software/coot/bin-gtk4/include -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -I/opt/user_software/coot/bin-gtk4/include -DHAVE_SSMLIB -I/opt/user_software/coot/bin-gtk4/include -DMMDB_HAS_LINK_DISTANCE -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DCLIPPER_HAS_TOP8000 -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR=\"/opt/user_software/coot/bin-gtk4/share/coot\" -DPACKAGE_LOCALE_DIR=\"/opt/user_software/coot/bin-gtk4/share/coot/locale\" -DPKGPYTHONDIR=\"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/coot\" -DPYTHONDIR=\"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages\" -DXDATADIR=\"/opt/user_software/coot/bin-gtk4/share\" -DCOOT_SYS_BUILD_TYPE=\"Linux-x86_64-ubuntu-22.04.4-gtk4\" "-DCOOT_BUILD_INFO_STRING=\"build-host: gtxr1.srv-local.mpi-dortmund.mpg.de on: Mi 20 Mär 1759.36 CET 2024\"" -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/opt/user_software/coot/bin-gtk4/include/python3.11 -DHAVE_GSL -fopenmp -g -O -Wall -Wno-unused -std=c++17 -MT gtk-manual.lo -MD -MP -MF .deps/gtk-manual.Tpo -c ../../coot/src/gtk-manual.cc -fPIC -DPIC -o .libs/gtk-manual.o In file included from ../../coot/MoleculesToTriangles/CXXClasses/RendererGLSL.hpp:31, from ../../coot/src/graphics-info.h:53, from ../../coot/src/gtk-manual.cc:46: ../../coot/MoleculesToTriangles/CXXClasses/RendererGL.h:61: warning: ignoring ‘#pragma mark ’ [-Wunknown-pragmas] 61 | #pragma mark - | ../../coot/MoleculesToTriangles/CXXClasses/RendererGL.h:62: warning: ignoring ‘#pragma mark Debug’ [-Wunknown-pragmas] 62 | #pragma mark Debug routine | mv -f .deps/graphics-ligand-view.Tpo .deps/graphics-ligand-view.Plo /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" -DPACKAGE_STRING=\"coot\ 1.x-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I../../coot/src -DUSE_PYTHON -mfpmath=sse -msse -msse2 -pthread -I/opt/user_software/coot/bin-gtk4/lib/libffi-3.2.1/include -I/usr/include/gtk-4.0 -I/usr/include/gio-unix-2.0 -I/usr/include/cairo -I/usr/include/pango-1.0 -I/usr/include/harfbuzz -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/harfbuzz -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/x86_64-linux-gnu -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/graphene-1.0 -I/usr/lib/x86_64-linux-gnu/graphene-1.0/include -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I../../coot -I/opt/user_software/coot/bin-gtk4/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/opt/user_software/coot/bin-gtk4/include -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -I/opt/user_software/coot/bin-gtk4/include -DHAVE_SSMLIB -I/opt/user_software/coot/bin-gtk4/include -DMMDB_HAS_LINK_DISTANCE -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DCLIPPER_HAS_TOP8000 -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR='"/opt/user_software/coot/bin-gtk4/share/coot"' -DPACKAGE_LOCALE_DIR='"/opt/user_software/coot/bin-gtk4/share/coot/locale"' -DPKGPYTHONDIR='"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/coot"' -DPYTHONDIR='"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages"' -DXDATADIR='"/opt/user_software/coot/bin-gtk4/share"' -DCOOT_SYS_BUILD_TYPE='"Linux-x86_64-ubuntu-22.04.4-gtk4"' -DCOOT_BUILD_INFO_STRING='"build-host: gtxr1.srv-local.mpi-dortmund.mpg.de on: Mi 20 Mär 1759.36 CET 2024"' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/opt/user_software/coot/bin-gtk4/include/python3.11 -DHAVE_GSL -fopenmp -g -O -Wall -Wno-unused -std=c++17 -MT gtk-widget-conversion-utils.lo -MD -MP -MF .deps/gtk-widget-conversion-utils.Tpo -c -o gtk-widget-conversion-utils.lo ../../coot/src/gtk-widget-conversion-utils.cc libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" "-DPACKAGE_STRING=\"coot 1.x-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I../../coot/src -DUSE_PYTHON -mfpmath=sse -msse -msse2 -pthread -I/opt/user_software/coot/bin-gtk4/lib/libffi-3.2.1/include -I/usr/include/gtk-4.0 -I/usr/include/gio-unix-2.0 -I/usr/include/cairo -I/usr/include/pango-1.0 -I/usr/include/harfbuzz -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/harfbuzz -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/x86_64-linux-gnu -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/graphene-1.0 -I/usr/lib/x86_64-linux-gnu/graphene-1.0/include -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I../../coot -I/opt/user_software/coot/bin-gtk4/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/opt/user_software/coot/bin-gtk4/include -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -I/opt/user_software/coot/bin-gtk4/include -DHAVE_SSMLIB -I/opt/user_software/coot/bin-gtk4/include -DMMDB_HAS_LINK_DISTANCE -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DCLIPPER_HAS_TOP8000 -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR=\"/opt/user_software/coot/bin-gtk4/share/coot\" -DPACKAGE_LOCALE_DIR=\"/opt/user_software/coot/bin-gtk4/share/coot/locale\" -DPKGPYTHONDIR=\"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/coot\" -DPYTHONDIR=\"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages\" -DXDATADIR=\"/opt/user_software/coot/bin-gtk4/share\" -DCOOT_SYS_BUILD_TYPE=\"Linux-x86_64-ubuntu-22.04.4-gtk4\" "-DCOOT_BUILD_INFO_STRING=\"build-host: gtxr1.srv-local.mpi-dortmund.mpg.de on: Mi 20 Mär 1759.36 CET 2024\"" -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/opt/user_software/coot/bin-gtk4/include/python3.11 -DHAVE_GSL -fopenmp -g -O -Wall -Wno-unused -std=c++17 -MT gtk-widget-conversion-utils.lo -MD -MP -MF .deps/gtk-widget-conversion-utils.Tpo -c ../../coot/src/gtk-widget-conversion-utils.cc -fPIC -DPIC -o .libs/gtk-widget-conversion-utils.o mv -f .deps/graphics-info-superpose.Tpo .deps/graphics-info-superpose.Plo /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" -DPACKAGE_STRING=\"coot\ 1.x-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I../../coot/src -DUSE_PYTHON -mfpmath=sse -msse -msse2 -pthread -I/opt/user_software/coot/bin-gtk4/lib/libffi-3.2.1/include -I/usr/include/gtk-4.0 -I/usr/include/gio-unix-2.0 -I/usr/include/cairo -I/usr/include/pango-1.0 -I/usr/include/harfbuzz -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/harfbuzz -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/x86_64-linux-gnu -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/graphene-1.0 -I/usr/lib/x86_64-linux-gnu/graphene-1.0/include -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I../../coot -I/opt/user_software/coot/bin-gtk4/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/opt/user_software/coot/bin-gtk4/include -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -I/opt/user_software/coot/bin-gtk4/include -DHAVE_SSMLIB -I/opt/user_software/coot/bin-gtk4/include -DMMDB_HAS_LINK_DISTANCE -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DCLIPPER_HAS_TOP8000 -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR='"/opt/user_software/coot/bin-gtk4/share/coot"' -DPACKAGE_LOCALE_DIR='"/opt/user_software/coot/bin-gtk4/share/coot/locale"' -DPKGPYTHONDIR='"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/coot"' -DPYTHONDIR='"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages"' -DXDATADIR='"/opt/user_software/coot/bin-gtk4/share"' -DCOOT_SYS_BUILD_TYPE='"Linux-x86_64-ubuntu-22.04.4-gtk4"' -DCOOT_BUILD_INFO_STRING='"build-host: gtxr1.srv-local.mpi-dortmund.mpg.de on: Mi 20 Mär 1759.36 CET 2024"' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/opt/user_software/coot/bin-gtk4/include/python3.11 -DHAVE_GSL -fopenmp -g -O -Wall -Wno-unused -std=c++17 -MT gtk-utils.lo -MD -MP -MF .deps/gtk-utils.Tpo -c -o gtk-utils.lo ../../coot/src/gtk-utils.cc mv -f .deps/gtk-widget-conversion-utils.Tpo .deps/gtk-widget-conversion-utils.Plo /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" -DPACKAGE_STRING=\"coot\ 1.x-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I../../coot/src -DUSE_PYTHON -mfpmath=sse -msse -msse2 -pthread -I/opt/user_software/coot/bin-gtk4/lib/libffi-3.2.1/include -I/usr/include/gtk-4.0 -I/usr/include/gio-unix-2.0 -I/usr/include/cairo -I/usr/include/pango-1.0 -I/usr/include/harfbuzz -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/harfbuzz -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/x86_64-linux-gnu -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/graphene-1.0 -I/usr/lib/x86_64-linux-gnu/graphene-1.0/include -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I../../coot -I/opt/user_software/coot/bin-gtk4/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/opt/user_software/coot/bin-gtk4/include -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -I/opt/user_software/coot/bin-gtk4/include -DHAVE_SSMLIB -I/opt/user_software/coot/bin-gtk4/include -DMMDB_HAS_LINK_DISTANCE -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DCLIPPER_HAS_TOP8000 -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR='"/opt/user_software/coot/bin-gtk4/share/coot"' -DPACKAGE_LOCALE_DIR='"/opt/user_software/coot/bin-gtk4/share/coot/locale"' -DPKGPYTHONDIR='"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/coot"' -DPYTHONDIR='"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages"' -DXDATADIR='"/opt/user_software/coot/bin-gtk4/share"' -DCOOT_SYS_BUILD_TYPE='"Linux-x86_64-ubuntu-22.04.4-gtk4"' -DCOOT_BUILD_INFO_STRING='"build-host: gtxr1.srv-local.mpi-dortmund.mpg.de on: Mi 20 Mär 1759.36 CET 2024"' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/opt/user_software/coot/bin-gtk4/include/python3.11 -DHAVE_GSL -fopenmp -g -O -Wall -Wno-unused -std=c++17 -MT HUDMesh.lo -MD -MP -MF .deps/HUDMesh.Tpo -c -o HUDMesh.lo ../../coot/src/HUDMesh.cc libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" "-DPACKAGE_STRING=\"coot 1.x-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I../../coot/src -DUSE_PYTHON -mfpmath=sse -msse -msse2 -pthread -I/opt/user_software/coot/bin-gtk4/lib/libffi-3.2.1/include -I/usr/include/gtk-4.0 -I/usr/include/gio-unix-2.0 -I/usr/include/cairo -I/usr/include/pango-1.0 -I/usr/include/harfbuzz -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/harfbuzz -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/x86_64-linux-gnu -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/graphene-1.0 -I/usr/lib/x86_64-linux-gnu/graphene-1.0/include -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I../../coot -I/opt/user_software/coot/bin-gtk4/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/opt/user_software/coot/bin-gtk4/include -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -I/opt/user_software/coot/bin-gtk4/include -DHAVE_SSMLIB -I/opt/user_software/coot/bin-gtk4/include -DMMDB_HAS_LINK_DISTANCE -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DCLIPPER_HAS_TOP8000 -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR=\"/opt/user_software/coot/bin-gtk4/share/coot\" -DPACKAGE_LOCALE_DIR=\"/opt/user_software/coot/bin-gtk4/share/coot/locale\" -DPKGPYTHONDIR=\"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/coot\" -DPYTHONDIR=\"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages\" -DXDATADIR=\"/opt/user_software/coot/bin-gtk4/share\" -DCOOT_SYS_BUILD_TYPE=\"Linux-x86_64-ubuntu-22.04.4-gtk4\" "-DCOOT_BUILD_INFO_STRING=\"build-host: gtxr1.srv-local.mpi-dortmund.mpg.de on: Mi 20 Mär 1759.36 CET 2024\"" -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/opt/user_software/coot/bin-gtk4/include/python3.11 -DHAVE_GSL -fopenmp -g -O -Wall -Wno-unused -std=c++17 -MT gtk-utils.lo -MD -MP -MF .deps/gtk-utils.Tpo -c ../../coot/src/gtk-utils.cc -fPIC -DPIC -o .libs/gtk-utils.o mv -f .deps/graphics-info-trackball.Tpo .deps/graphics-info-trackball.Plo /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" -DPACKAGE_STRING=\"coot\ 1.x-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I../../coot/src -DUSE_PYTHON -mfpmath=sse -msse -msse2 -pthread -I/opt/user_software/coot/bin-gtk4/lib/libffi-3.2.1/include -I/usr/include/gtk-4.0 -I/usr/include/gio-unix-2.0 -I/usr/include/cairo -I/usr/include/pango-1.0 -I/usr/include/harfbuzz -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/harfbuzz -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/x86_64-linux-gnu -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/graphene-1.0 -I/usr/lib/x86_64-linux-gnu/graphene-1.0/include -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I../../coot -I/opt/user_software/coot/bin-gtk4/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/opt/user_software/coot/bin-gtk4/include -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -I/opt/user_software/coot/bin-gtk4/include -DHAVE_SSMLIB -I/opt/user_software/coot/bin-gtk4/include -DMMDB_HAS_LINK_DISTANCE -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DCLIPPER_HAS_TOP8000 -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR='"/opt/user_software/coot/bin-gtk4/share/coot"' -DPACKAGE_LOCALE_DIR='"/opt/user_software/coot/bin-gtk4/share/coot/locale"' -DPKGPYTHONDIR='"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/coot"' -DPYTHONDIR='"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages"' -DXDATADIR='"/opt/user_software/coot/bin-gtk4/share"' -DCOOT_SYS_BUILD_TYPE='"Linux-x86_64-ubuntu-22.04.4-gtk4"' -DCOOT_BUILD_INFO_STRING='"build-host: gtxr1.srv-local.mpi-dortmund.mpg.de on: Mi 20 Mär 1759.36 CET 2024"' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/opt/user_software/coot/bin-gtk4/include/python3.11 -DHAVE_GSL -fopenmp -g -O -Wall -Wno-unused -std=c++17 -MT HUDTextureMesh.lo -MD -MP -MF .deps/HUDTextureMesh.Tpo -c -o HUDTextureMesh.lo ../../coot/src/HUDTextureMesh.cc libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" "-DPACKAGE_STRING=\"coot 1.x-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I../../coot/src -DUSE_PYTHON -mfpmath=sse -msse -msse2 -pthread -I/opt/user_software/coot/bin-gtk4/lib/libffi-3.2.1/include -I/usr/include/gtk-4.0 -I/usr/include/gio-unix-2.0 -I/usr/include/cairo -I/usr/include/pango-1.0 -I/usr/include/harfbuzz -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/harfbuzz -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/x86_64-linux-gnu -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/graphene-1.0 -I/usr/lib/x86_64-linux-gnu/graphene-1.0/include -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I../../coot -I/opt/user_software/coot/bin-gtk4/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/opt/user_software/coot/bin-gtk4/include -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -I/opt/user_software/coot/bin-gtk4/include -DHAVE_SSMLIB -I/opt/user_software/coot/bin-gtk4/include -DMMDB_HAS_LINK_DISTANCE -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DCLIPPER_HAS_TOP8000 -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR=\"/opt/user_software/coot/bin-gtk4/share/coot\" -DPACKAGE_LOCALE_DIR=\"/opt/user_software/coot/bin-gtk4/share/coot/locale\" -DPKGPYTHONDIR=\"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/coot\" -DPYTHONDIR=\"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages\" -DXDATADIR=\"/opt/user_software/coot/bin-gtk4/share\" -DCOOT_SYS_BUILD_TYPE=\"Linux-x86_64-ubuntu-22.04.4-gtk4\" "-DCOOT_BUILD_INFO_STRING=\"build-host: gtxr1.srv-local.mpi-dortmund.mpg.de on: Mi 20 Mär 1759.36 CET 2024\"" -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/opt/user_software/coot/bin-gtk4/include/python3.11 -DHAVE_GSL -fopenmp -g -O -Wall -Wno-unused -std=c++17 -MT HUDMesh.lo -MD -MP -MF .deps/HUDMesh.Tpo -c ../../coot/src/HUDMesh.cc -fPIC -DPIC -o .libs/HUDMesh.o In file included from ../../coot/MoleculesToTriangles/CXXClasses/RendererGLSL.hpp:31, from ../../coot/src/graphics-info.h:53, from ../../coot/src/gtk-utils.cc:26: ../../coot/MoleculesToTriangles/CXXClasses/RendererGL.h:61: warning: ignoring ‘#pragma mark ’ [-Wunknown-pragmas] 61 | #pragma mark - | ../../coot/MoleculesToTriangles/CXXClasses/RendererGL.h:62: warning: ignoring ‘#pragma mark Debug’ [-Wunknown-pragmas] 62 | #pragma mark Debug routine | mv -f .deps/graphics-info-statics.Tpo .deps/graphics-info-statics.Plo /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" -DPACKAGE_STRING=\"coot\ 1.x-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I../../coot/src -DUSE_PYTHON -mfpmath=sse -msse -msse2 -pthread -I/opt/user_software/coot/bin-gtk4/lib/libffi-3.2.1/include -I/usr/include/gtk-4.0 -I/usr/include/gio-unix-2.0 -I/usr/include/cairo -I/usr/include/pango-1.0 -I/usr/include/harfbuzz -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/harfbuzz -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/x86_64-linux-gnu -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/graphene-1.0 -I/usr/lib/x86_64-linux-gnu/graphene-1.0/include -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I../../coot -I/opt/user_software/coot/bin-gtk4/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/opt/user_software/coot/bin-gtk4/include -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -I/opt/user_software/coot/bin-gtk4/include -DHAVE_SSMLIB -I/opt/user_software/coot/bin-gtk4/include -DMMDB_HAS_LINK_DISTANCE -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DCLIPPER_HAS_TOP8000 -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR='"/opt/user_software/coot/bin-gtk4/share/coot"' -DPACKAGE_LOCALE_DIR='"/opt/user_software/coot/bin-gtk4/share/coot/locale"' -DPKGPYTHONDIR='"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/coot"' -DPYTHONDIR='"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages"' -DXDATADIR='"/opt/user_software/coot/bin-gtk4/share"' -DCOOT_SYS_BUILD_TYPE='"Linux-x86_64-ubuntu-22.04.4-gtk4"' -DCOOT_BUILD_INFO_STRING='"build-host: gtxr1.srv-local.mpi-dortmund.mpg.de on: Mi 20 Mär 1759.36 CET 2024"' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/opt/user_software/coot/bin-gtk4/include/python3.11 -DHAVE_GSL -fopenmp -g -O -Wall -Wno-unused -std=c++17 -MT Instanced-Markup-Mesh.lo -MD -MP -MF .deps/Instanced-Markup-Mesh.Tpo -c -o Instanced-Markup-Mesh.lo ../../coot/src/Instanced-Markup-Mesh.cc libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" "-DPACKAGE_STRING=\"coot 1.x-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I../../coot/src -DUSE_PYTHON -mfpmath=sse -msse -msse2 -pthread -I/opt/user_software/coot/bin-gtk4/lib/libffi-3.2.1/include -I/usr/include/gtk-4.0 -I/usr/include/gio-unix-2.0 -I/usr/include/cairo -I/usr/include/pango-1.0 -I/usr/include/harfbuzz -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/harfbuzz -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/x86_64-linux-gnu -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/graphene-1.0 -I/usr/lib/x86_64-linux-gnu/graphene-1.0/include -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I../../coot -I/opt/user_software/coot/bin-gtk4/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/opt/user_software/coot/bin-gtk4/include -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -I/opt/user_software/coot/bin-gtk4/include -DHAVE_SSMLIB -I/opt/user_software/coot/bin-gtk4/include -DMMDB_HAS_LINK_DISTANCE -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DCLIPPER_HAS_TOP8000 -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR=\"/opt/user_software/coot/bin-gtk4/share/coot\" -DPACKAGE_LOCALE_DIR=\"/opt/user_software/coot/bin-gtk4/share/coot/locale\" -DPKGPYTHONDIR=\"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/coot\" -DPYTHONDIR=\"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages\" -DXDATADIR=\"/opt/user_software/coot/bin-gtk4/share\" -DCOOT_SYS_BUILD_TYPE=\"Linux-x86_64-ubuntu-22.04.4-gtk4\" "-DCOOT_BUILD_INFO_STRING=\"build-host: gtxr1.srv-local.mpi-dortmund.mpg.de on: Mi 20 Mär 1759.36 CET 2024\"" -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/opt/user_software/coot/bin-gtk4/include/python3.11 -DHAVE_GSL -fopenmp -g -O -Wall -Wno-unused -std=c++17 -MT HUDTextureMesh.lo -MD -MP -MF .deps/HUDTextureMesh.Tpo -c ../../coot/src/HUDTextureMesh.cc -fPIC -DPIC -o .libs/HUDTextureMesh.o libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" "-DPACKAGE_STRING=\"coot 1.x-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I../../coot/src -DUSE_PYTHON -mfpmath=sse -msse -msse2 -pthread -I/opt/user_software/coot/bin-gtk4/lib/libffi-3.2.1/include -I/usr/include/gtk-4.0 -I/usr/include/gio-unix-2.0 -I/usr/include/cairo -I/usr/include/pango-1.0 -I/usr/include/harfbuzz -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/harfbuzz -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/x86_64-linux-gnu -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/graphene-1.0 -I/usr/lib/x86_64-linux-gnu/graphene-1.0/include -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I../../coot -I/opt/user_software/coot/bin-gtk4/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/opt/user_software/coot/bin-gtk4/include -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -I/opt/user_software/coot/bin-gtk4/include -DHAVE_SSMLIB -I/opt/user_software/coot/bin-gtk4/include -DMMDB_HAS_LINK_DISTANCE -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DCLIPPER_HAS_TOP8000 -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR=\"/opt/user_software/coot/bin-gtk4/share/coot\" -DPACKAGE_LOCALE_DIR=\"/opt/user_software/coot/bin-gtk4/share/coot/locale\" -DPKGPYTHONDIR=\"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/coot\" -DPYTHONDIR=\"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages\" -DXDATADIR=\"/opt/user_software/coot/bin-gtk4/share\" -DCOOT_SYS_BUILD_TYPE=\"Linux-x86_64-ubuntu-22.04.4-gtk4\" "-DCOOT_BUILD_INFO_STRING=\"build-host: gtxr1.srv-local.mpi-dortmund.mpg.de on: Mi 20 Mär 1759.36 CET 2024\"" -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/opt/user_software/coot/bin-gtk4/include/python3.11 -DHAVE_GSL -fopenmp -g -O -Wall -Wno-unused -std=c++17 -MT Instanced-Markup-Mesh.lo -MD -MP -MF .deps/Instanced-Markup-Mesh.Tpo -c ../../coot/src/Instanced-Markup-Mesh.cc -fPIC -DPIC -o .libs/Instanced-Markup-Mesh.o mv -f .deps/HUDMesh.Tpo .deps/HUDMesh.Plo /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" -DPACKAGE_STRING=\"coot\ 1.x-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I../../coot/src -DUSE_PYTHON -mfpmath=sse -msse -msse2 -pthread -I/opt/user_software/coot/bin-gtk4/lib/libffi-3.2.1/include -I/usr/include/gtk-4.0 -I/usr/include/gio-unix-2.0 -I/usr/include/cairo -I/usr/include/pango-1.0 -I/usr/include/harfbuzz -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/harfbuzz -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/x86_64-linux-gnu -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/graphene-1.0 -I/usr/lib/x86_64-linux-gnu/graphene-1.0/include -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I../../coot -I/opt/user_software/coot/bin-gtk4/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/opt/user_software/coot/bin-gtk4/include -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -I/opt/user_software/coot/bin-gtk4/include -DHAVE_SSMLIB -I/opt/user_software/coot/bin-gtk4/include -DMMDB_HAS_LINK_DISTANCE -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DCLIPPER_HAS_TOP8000 -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR='"/opt/user_software/coot/bin-gtk4/share/coot"' -DPACKAGE_LOCALE_DIR='"/opt/user_software/coot/bin-gtk4/share/coot/locale"' -DPKGPYTHONDIR='"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/coot"' -DPYTHONDIR='"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages"' -DXDATADIR='"/opt/user_software/coot/bin-gtk4/share"' -DCOOT_SYS_BUILD_TYPE='"Linux-x86_64-ubuntu-22.04.4-gtk4"' -DCOOT_BUILD_INFO_STRING='"build-host: gtxr1.srv-local.mpi-dortmund.mpg.de on: Mi 20 Mär 1759.36 CET 2024"' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/opt/user_software/coot/bin-gtk4/include/python3.11 -DHAVE_GSL -fopenmp -g -O -Wall -Wno-unused -std=c++17 -MT init-from-gtkbuilder.lo -MD -MP -MF .deps/init-from-gtkbuilder.Tpo -c -o init-from-gtkbuilder.lo ../../coot/src/init-from-gtkbuilder.cc mv -f .deps/graphics-info-state.Tpo .deps/graphics-info-state.Plo /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" -DPACKAGE_STRING=\"coot\ 1.x-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I../../coot/src -DUSE_PYTHON -mfpmath=sse -msse -msse2 -pthread -I/opt/user_software/coot/bin-gtk4/lib/libffi-3.2.1/include -I/usr/include/gtk-4.0 -I/usr/include/gio-unix-2.0 -I/usr/include/cairo -I/usr/include/pango-1.0 -I/usr/include/harfbuzz -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/harfbuzz -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/x86_64-linux-gnu -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/graphene-1.0 -I/usr/lib/x86_64-linux-gnu/graphene-1.0/include -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I../../coot -I/opt/user_software/coot/bin-gtk4/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/opt/user_software/coot/bin-gtk4/include -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -I/opt/user_software/coot/bin-gtk4/include -DHAVE_SSMLIB -I/opt/user_software/coot/bin-gtk4/include -DMMDB_HAS_LINK_DISTANCE -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DCLIPPER_HAS_TOP8000 -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR='"/opt/user_software/coot/bin-gtk4/share/coot"' -DPACKAGE_LOCALE_DIR='"/opt/user_software/coot/bin-gtk4/share/coot/locale"' -DPKGPYTHONDIR='"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/coot"' -DPYTHONDIR='"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages"' -DXDATADIR='"/opt/user_software/coot/bin-gtk4/share"' -DCOOT_SYS_BUILD_TYPE='"Linux-x86_64-ubuntu-22.04.4-gtk4"' -DCOOT_BUILD_INFO_STRING='"build-host: gtxr1.srv-local.mpi-dortmund.mpg.de on: Mi 20 Mär 1759.36 CET 2024"' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/opt/user_software/coot/bin-gtk4/include/python3.11 -DHAVE_GSL -fopenmp -g -O -Wall -Wno-unused -std=c++17 -MT key-bindings.lo -MD -MP -MF .deps/key-bindings.Tpo -c -o key-bindings.lo ../../coot/src/key-bindings.cc libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" "-DPACKAGE_STRING=\"coot 1.x-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I../../coot/src -DUSE_PYTHON -mfpmath=sse -msse -msse2 -pthread -I/opt/user_software/coot/bin-gtk4/lib/libffi-3.2.1/include -I/usr/include/gtk-4.0 -I/usr/include/gio-unix-2.0 -I/usr/include/cairo -I/usr/include/pango-1.0 -I/usr/include/harfbuzz -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/harfbuzz -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/x86_64-linux-gnu -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/graphene-1.0 -I/usr/lib/x86_64-linux-gnu/graphene-1.0/include -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I../../coot -I/opt/user_software/coot/bin-gtk4/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/opt/user_software/coot/bin-gtk4/include -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -I/opt/user_software/coot/bin-gtk4/include -DHAVE_SSMLIB -I/opt/user_software/coot/bin-gtk4/include -DMMDB_HAS_LINK_DISTANCE -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DCLIPPER_HAS_TOP8000 -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR=\"/opt/user_software/coot/bin-gtk4/share/coot\" -DPACKAGE_LOCALE_DIR=\"/opt/user_software/coot/bin-gtk4/share/coot/locale\" -DPKGPYTHONDIR=\"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/coot\" -DPYTHONDIR=\"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages\" -DXDATADIR=\"/opt/user_software/coot/bin-gtk4/share\" -DCOOT_SYS_BUILD_TYPE=\"Linux-x86_64-ubuntu-22.04.4-gtk4\" "-DCOOT_BUILD_INFO_STRING=\"build-host: gtxr1.srv-local.mpi-dortmund.mpg.de on: Mi 20 Mär 1759.36 CET 2024\"" -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/opt/user_software/coot/bin-gtk4/include/python3.11 -DHAVE_GSL -fopenmp -g -O -Wall -Wno-unused -std=c++17 -MT init-from-gtkbuilder.lo -MD -MP -MF .deps/init-from-gtkbuilder.Tpo -c ../../coot/src/init-from-gtkbuilder.cc -fPIC -DPIC -o .libs/init-from-gtkbuilder.o mv -f .deps/HUDTextureMesh.Tpo .deps/HUDTextureMesh.Plo /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" -DPACKAGE_STRING=\"coot\ 1.x-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I../../coot/src -DUSE_PYTHON -mfpmath=sse -msse -msse2 -pthread -I/opt/user_software/coot/bin-gtk4/lib/libffi-3.2.1/include -I/usr/include/gtk-4.0 -I/usr/include/gio-unix-2.0 -I/usr/include/cairo -I/usr/include/pango-1.0 -I/usr/include/harfbuzz -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/harfbuzz -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/x86_64-linux-gnu -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/graphene-1.0 -I/usr/lib/x86_64-linux-gnu/graphene-1.0/include -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I../../coot -I/opt/user_software/coot/bin-gtk4/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/opt/user_software/coot/bin-gtk4/include -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -I/opt/user_software/coot/bin-gtk4/include -DHAVE_SSMLIB -I/opt/user_software/coot/bin-gtk4/include -DMMDB_HAS_LINK_DISTANCE -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DCLIPPER_HAS_TOP8000 -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR='"/opt/user_software/coot/bin-gtk4/share/coot"' -DPACKAGE_LOCALE_DIR='"/opt/user_software/coot/bin-gtk4/share/coot/locale"' -DPKGPYTHONDIR='"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/coot"' -DPYTHONDIR='"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages"' -DXDATADIR='"/opt/user_software/coot/bin-gtk4/share"' -DCOOT_SYS_BUILD_TYPE='"Linux-x86_64-ubuntu-22.04.4-gtk4"' -DCOOT_BUILD_INFO_STRING='"build-host: gtxr1.srv-local.mpi-dortmund.mpg.de on: Mi 20 Mär 1759.36 CET 2024"' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/opt/user_software/coot/bin-gtk4/include/python3.11 -DHAVE_GSL -fopenmp -g -O -Wall -Wno-unused -std=c++17 -MT LinesMesh.lo -MD -MP -MF .deps/LinesMesh.Tpo -c -o LinesMesh.lo ../../coot/src/LinesMesh.cc libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" "-DPACKAGE_STRING=\"coot 1.x-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I../../coot/src -DUSE_PYTHON -mfpmath=sse -msse -msse2 -pthread -I/opt/user_software/coot/bin-gtk4/lib/libffi-3.2.1/include -I/usr/include/gtk-4.0 -I/usr/include/gio-unix-2.0 -I/usr/include/cairo -I/usr/include/pango-1.0 -I/usr/include/harfbuzz -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/harfbuzz -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/x86_64-linux-gnu -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/graphene-1.0 -I/usr/lib/x86_64-linux-gnu/graphene-1.0/include -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I../../coot -I/opt/user_software/coot/bin-gtk4/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/opt/user_software/coot/bin-gtk4/include -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -I/opt/user_software/coot/bin-gtk4/include -DHAVE_SSMLIB -I/opt/user_software/coot/bin-gtk4/include -DMMDB_HAS_LINK_DISTANCE -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DCLIPPER_HAS_TOP8000 -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR=\"/opt/user_software/coot/bin-gtk4/share/coot\" -DPACKAGE_LOCALE_DIR=\"/opt/user_software/coot/bin-gtk4/share/coot/locale\" -DPKGPYTHONDIR=\"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/coot\" -DPYTHONDIR=\"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages\" -DXDATADIR=\"/opt/user_software/coot/bin-gtk4/share\" -DCOOT_SYS_BUILD_TYPE=\"Linux-x86_64-ubuntu-22.04.4-gtk4\" "-DCOOT_BUILD_INFO_STRING=\"build-host: gtxr1.srv-local.mpi-dortmund.mpg.de on: Mi 20 Mär 1759.36 CET 2024\"" -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/opt/user_software/coot/bin-gtk4/include/python3.11 -DHAVE_GSL -fopenmp -g -O -Wall -Wno-unused -std=c++17 -MT key-bindings.lo -MD -MP -MF .deps/key-bindings.Tpo -c ../../coot/src/key-bindings.cc -fPIC -DPIC -o .libs/key-bindings.o In file included from ../../coot/MoleculesToTriangles/CXXClasses/RendererGLSL.hpp:31, from ../../coot/src/graphics-info.h:53, from ../../coot/src/init-from-gtkbuilder.cc:2: ../../coot/MoleculesToTriangles/CXXClasses/RendererGL.h:61: warning: ignoring ‘#pragma mark ’ [-Wunknown-pragmas] 61 | #pragma mark - | ../../coot/MoleculesToTriangles/CXXClasses/RendererGL.h:62: warning: ignoring ‘#pragma mark Debug’ [-Wunknown-pragmas] 62 | #pragma mark Debug routine | libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" "-DPACKAGE_STRING=\"coot 1.x-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I../../coot/src -DUSE_PYTHON -mfpmath=sse -msse -msse2 -pthread -I/opt/user_software/coot/bin-gtk4/lib/libffi-3.2.1/include -I/usr/include/gtk-4.0 -I/usr/include/gio-unix-2.0 -I/usr/include/cairo -I/usr/include/pango-1.0 -I/usr/include/harfbuzz -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/harfbuzz -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/x86_64-linux-gnu -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/graphene-1.0 -I/usr/lib/x86_64-linux-gnu/graphene-1.0/include -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I../../coot -I/opt/user_software/coot/bin-gtk4/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/opt/user_software/coot/bin-gtk4/include -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -I/opt/user_software/coot/bin-gtk4/include -DHAVE_SSMLIB -I/opt/user_software/coot/bin-gtk4/include -DMMDB_HAS_LINK_DISTANCE -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DCLIPPER_HAS_TOP8000 -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR=\"/opt/user_software/coot/bin-gtk4/share/coot\" -DPACKAGE_LOCALE_DIR=\"/opt/user_software/coot/bin-gtk4/share/coot/locale\" -DPKGPYTHONDIR=\"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/coot\" -DPYTHONDIR=\"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages\" -DXDATADIR=\"/opt/user_software/coot/bin-gtk4/share\" -DCOOT_SYS_BUILD_TYPE=\"Linux-x86_64-ubuntu-22.04.4-gtk4\" "-DCOOT_BUILD_INFO_STRING=\"build-host: gtxr1.srv-local.mpi-dortmund.mpg.de on: Mi 20 Mär 1759.36 CET 2024\"" -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/opt/user_software/coot/bin-gtk4/include/python3.11 -DHAVE_GSL -fopenmp -g -O -Wall -Wno-unused -std=c++17 -MT LinesMesh.lo -MD -MP -MF .deps/LinesMesh.Tpo -c ../../coot/src/LinesMesh.cc -fPIC -DPIC -o .libs/LinesMesh.o mv -f .deps/Instanced-Markup-Mesh.Tpo .deps/Instanced-Markup-Mesh.Plo /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" -DPACKAGE_STRING=\"coot\ 1.x-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I../../coot/src -DUSE_PYTHON -mfpmath=sse -msse -msse2 -pthread -I/opt/user_software/coot/bin-gtk4/lib/libffi-3.2.1/include -I/usr/include/gtk-4.0 -I/usr/include/gio-unix-2.0 -I/usr/include/cairo -I/usr/include/pango-1.0 -I/usr/include/harfbuzz -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/harfbuzz -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/x86_64-linux-gnu -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/graphene-1.0 -I/usr/lib/x86_64-linux-gnu/graphene-1.0/include -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I../../coot -I/opt/user_software/coot/bin-gtk4/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/opt/user_software/coot/bin-gtk4/include -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -I/opt/user_software/coot/bin-gtk4/include -DHAVE_SSMLIB -I/opt/user_software/coot/bin-gtk4/include -DMMDB_HAS_LINK_DISTANCE -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DCLIPPER_HAS_TOP8000 -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR='"/opt/user_software/coot/bin-gtk4/share/coot"' -DPACKAGE_LOCALE_DIR='"/opt/user_software/coot/bin-gtk4/share/coot/locale"' -DPKGPYTHONDIR='"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/coot"' -DPYTHONDIR='"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages"' -DXDATADIR='"/opt/user_software/coot/bin-gtk4/share"' -DCOOT_SYS_BUILD_TYPE='"Linux-x86_64-ubuntu-22.04.4-gtk4"' -DCOOT_BUILD_INFO_STRING='"build-host: gtxr1.srv-local.mpi-dortmund.mpg.de on: Mi 20 Mär 1759.36 CET 2024"' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/opt/user_software/coot/bin-gtk4/include/python3.11 -DHAVE_GSL -fopenmp -g -O -Wall -Wno-unused -std=c++17 -MT LigandViewMesh.lo -MD -MP -MF .deps/LigandViewMesh.Tpo -c -o LigandViewMesh.lo ../../coot/src/LigandViewMesh.cc In file included from /opt/user_software/coot/bin-gtk4/include/python3.11/Python.h:95, from ../../coot/src/key-bindings.cc:3: ../../coot/src/key-bindings.cc: In member function ‘gboolean key_bindings_t::run() const’: /opt/user_software/coot/bin-gtk4/include/python3.11/ceval.h:34:34: warning: ‘PyObject* PyEval_CallObjectWithKeywords(PyObject*, PyObject*, PyObject*)’ is deprecated [-Wdeprecated-declarations] 34 | PyEval_CallObjectWithKeywords(callable, arg, (PyObject *)NULL) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ ../../coot/src/key-bindings.cc:30:32: note: in expansion of macro ‘PyEval_CallObject’ 30 | PyObject *result_py = PyEval_CallObject(function_py, arg_list); | ^~~~~~~~~~~~~~~~~ /opt/user_software/coot/bin-gtk4/include/python3.11/ceval.h:27:43: note: declared here 27 | Py_DEPRECATED(3.9) PyAPI_FUNC(PyObject *) PyEval_CallObjectWithKeywords( | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~ mv -f .deps/key-bindings.Tpo .deps/key-bindings.Plo /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" -DPACKAGE_STRING=\"coot\ 1.x-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I../../coot/src -DUSE_PYTHON -mfpmath=sse -msse -msse2 -pthread -I/opt/user_software/coot/bin-gtk4/lib/libffi-3.2.1/include -I/usr/include/gtk-4.0 -I/usr/include/gio-unix-2.0 -I/usr/include/cairo -I/usr/include/pango-1.0 -I/usr/include/harfbuzz -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/harfbuzz -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/x86_64-linux-gnu -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/graphene-1.0 -I/usr/lib/x86_64-linux-gnu/graphene-1.0/include -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I../../coot -I/opt/user_software/coot/bin-gtk4/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/opt/user_software/coot/bin-gtk4/include -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -I/opt/user_software/coot/bin-gtk4/include -DHAVE_SSMLIB -I/opt/user_software/coot/bin-gtk4/include -DMMDB_HAS_LINK_DISTANCE -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DCLIPPER_HAS_TOP8000 -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR='"/opt/user_software/coot/bin-gtk4/share/coot"' -DPACKAGE_LOCALE_DIR='"/opt/user_software/coot/bin-gtk4/share/coot/locale"' -DPKGPYTHONDIR='"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/coot"' -DPYTHONDIR='"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages"' -DXDATADIR='"/opt/user_software/coot/bin-gtk4/share"' -DCOOT_SYS_BUILD_TYPE='"Linux-x86_64-ubuntu-22.04.4-gtk4"' -DCOOT_BUILD_INFO_STRING='"build-host: gtxr1.srv-local.mpi-dortmund.mpg.de on: Mi 20 Mär 1759.36 CET 2024"' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/opt/user_software/coot/bin-gtk4/include/python3.11 -DHAVE_GSL -fopenmp -g -O -Wall -Wno-unused -std=c++17 -MT lbg-callbacks-outer.lo -MD -MP -MF .deps/lbg-callbacks-outer.Tpo -c -o lbg-callbacks-outer.lo ../../coot/src/lbg-callbacks-outer.cc mv -f .deps/gtkglarea-rama-plot.Tpo .deps/gtkglarea-rama-plot.Plo /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" -DPACKAGE_STRING=\"coot\ 1.x-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I../../coot/src -DUSE_PYTHON -mfpmath=sse -msse -msse2 -pthread -I/opt/user_software/coot/bin-gtk4/lib/libffi-3.2.1/include -I/usr/include/gtk-4.0 -I/usr/include/gio-unix-2.0 -I/usr/include/cairo -I/usr/include/pango-1.0 -I/usr/include/harfbuzz -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/harfbuzz -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/x86_64-linux-gnu -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/graphene-1.0 -I/usr/lib/x86_64-linux-gnu/graphene-1.0/include -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I../../coot -I/opt/user_software/coot/bin-gtk4/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/opt/user_software/coot/bin-gtk4/include -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -I/opt/user_software/coot/bin-gtk4/include -DHAVE_SSMLIB -I/opt/user_software/coot/bin-gtk4/include -DMMDB_HAS_LINK_DISTANCE -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DCLIPPER_HAS_TOP8000 -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR='"/opt/user_software/coot/bin-gtk4/share/coot"' -DPACKAGE_LOCALE_DIR='"/opt/user_software/coot/bin-gtk4/share/coot/locale"' -DPKGPYTHONDIR='"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/coot"' -DPYTHONDIR='"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages"' -DXDATADIR='"/opt/user_software/coot/bin-gtk4/share"' -DCOOT_SYS_BUILD_TYPE='"Linux-x86_64-ubuntu-22.04.4-gtk4"' -DCOOT_BUILD_INFO_STRING='"build-host: gtxr1.srv-local.mpi-dortmund.mpg.de on: Mi 20 Mär 1759.36 CET 2024"' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/opt/user_software/coot/bin-gtk4/include/python3.11 -DHAVE_GSL -fopenmp -g -O -Wall -Wno-unused -std=c++17 -MT lbg-interface.lo -MD -MP -MF .deps/lbg-interface.Tpo -c -o lbg-interface.lo ../../coot/src/lbg-interface.cc libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" "-DPACKAGE_STRING=\"coot 1.x-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I../../coot/src -DUSE_PYTHON -mfpmath=sse -msse -msse2 -pthread -I/opt/user_software/coot/bin-gtk4/lib/libffi-3.2.1/include -I/usr/include/gtk-4.0 -I/usr/include/gio-unix-2.0 -I/usr/include/cairo -I/usr/include/pango-1.0 -I/usr/include/harfbuzz -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/harfbuzz -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/x86_64-linux-gnu -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/graphene-1.0 -I/usr/lib/x86_64-linux-gnu/graphene-1.0/include -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I../../coot -I/opt/user_software/coot/bin-gtk4/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/opt/user_software/coot/bin-gtk4/include -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -I/opt/user_software/coot/bin-gtk4/include -DHAVE_SSMLIB -I/opt/user_software/coot/bin-gtk4/include -DMMDB_HAS_LINK_DISTANCE -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DCLIPPER_HAS_TOP8000 -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR=\"/opt/user_software/coot/bin-gtk4/share/coot\" -DPACKAGE_LOCALE_DIR=\"/opt/user_software/coot/bin-gtk4/share/coot/locale\" -DPKGPYTHONDIR=\"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/coot\" -DPYTHONDIR=\"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages\" -DXDATADIR=\"/opt/user_software/coot/bin-gtk4/share\" -DCOOT_SYS_BUILD_TYPE=\"Linux-x86_64-ubuntu-22.04.4-gtk4\" "-DCOOT_BUILD_INFO_STRING=\"build-host: gtxr1.srv-local.mpi-dortmund.mpg.de on: Mi 20 Mär 1759.36 CET 2024\"" -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/opt/user_software/coot/bin-gtk4/include/python3.11 -DHAVE_GSL -fopenmp -g -O -Wall -Wno-unused -std=c++17 -MT LigandViewMesh.lo -MD -MP -MF .deps/LigandViewMesh.Tpo -c ../../coot/src/LigandViewMesh.cc -fPIC -DPIC -o .libs/LigandViewMesh.o libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" "-DPACKAGE_STRING=\"coot 1.x-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I../../coot/src -DUSE_PYTHON -mfpmath=sse -msse -msse2 -pthread -I/opt/user_software/coot/bin-gtk4/lib/libffi-3.2.1/include -I/usr/include/gtk-4.0 -I/usr/include/gio-unix-2.0 -I/usr/include/cairo -I/usr/include/pango-1.0 -I/usr/include/harfbuzz -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/harfbuzz -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/x86_64-linux-gnu -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/graphene-1.0 -I/usr/lib/x86_64-linux-gnu/graphene-1.0/include -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I../../coot -I/opt/user_software/coot/bin-gtk4/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/opt/user_software/coot/bin-gtk4/include -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -I/opt/user_software/coot/bin-gtk4/include -DHAVE_SSMLIB -I/opt/user_software/coot/bin-gtk4/include -DMMDB_HAS_LINK_DISTANCE -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DCLIPPER_HAS_TOP8000 -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR=\"/opt/user_software/coot/bin-gtk4/share/coot\" -DPACKAGE_LOCALE_DIR=\"/opt/user_software/coot/bin-gtk4/share/coot/locale\" -DPKGPYTHONDIR=\"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/coot\" -DPYTHONDIR=\"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages\" -DXDATADIR=\"/opt/user_software/coot/bin-gtk4/share\" -DCOOT_SYS_BUILD_TYPE=\"Linux-x86_64-ubuntu-22.04.4-gtk4\" "-DCOOT_BUILD_INFO_STRING=\"build-host: gtxr1.srv-local.mpi-dortmund.mpg.de on: Mi 20 Mär 1759.36 CET 2024\"" -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/opt/user_software/coot/bin-gtk4/include/python3.11 -DHAVE_GSL -fopenmp -g -O -Wall -Wno-unused -std=c++17 -MT lbg-callbacks-outer.lo -MD -MP -MF .deps/lbg-callbacks-outer.Tpo -c ../../coot/src/lbg-callbacks-outer.cc -fPIC -DPIC -o .libs/lbg-callbacks-outer.o mv -f .deps/lbg-callbacks-outer.Tpo .deps/lbg-callbacks-outer.Plo /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" -DPACKAGE_STRING=\"coot\ 1.x-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" 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-I/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/opt/user_software/coot/bin-gtk4/include/python3.11 -DHAVE_GSL -fopenmp -g -O -Wall -Wno-unused -std=c++17 -MT Model.lo -MD -MP -MF .deps/Model.Tpo -c -o Model.lo ../../coot/src/Model.cc libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" "-DPACKAGE_STRING=\"coot 1.x-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I../../coot/src -DUSE_PYTHON -mfpmath=sse -msse -msse2 -pthread -I/opt/user_software/coot/bin-gtk4/lib/libffi-3.2.1/include -I/usr/include/gtk-4.0 -I/usr/include/gio-unix-2.0 -I/usr/include/cairo -I/usr/include/pango-1.0 -I/usr/include/harfbuzz -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/harfbuzz -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/x86_64-linux-gnu -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/graphene-1.0 -I/usr/lib/x86_64-linux-gnu/graphene-1.0/include -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I../../coot -I/opt/user_software/coot/bin-gtk4/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/opt/user_software/coot/bin-gtk4/include -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -I/opt/user_software/coot/bin-gtk4/include -DHAVE_SSMLIB -I/opt/user_software/coot/bin-gtk4/include -DMMDB_HAS_LINK_DISTANCE 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-std=c++17 -MT lbg-interface.lo -MD -MP -MF .deps/lbg-interface.Tpo -c ../../coot/src/lbg-interface.cc -fPIC -DPIC -o .libs/lbg-interface.o libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" "-DPACKAGE_STRING=\"coot 1.x-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I../../coot/src -DUSE_PYTHON -mfpmath=sse -msse -msse2 -pthread -I/opt/user_software/coot/bin-gtk4/lib/libffi-3.2.1/include -I/usr/include/gtk-4.0 -I/usr/include/gio-unix-2.0 -I/usr/include/cairo -I/usr/include/pango-1.0 -I/usr/include/harfbuzz -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/harfbuzz -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/x86_64-linux-gnu -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/graphene-1.0 -I/usr/lib/x86_64-linux-gnu/graphene-1.0/include -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I../../coot -I/opt/user_software/coot/bin-gtk4/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/opt/user_software/coot/bin-gtk4/include -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -I/opt/user_software/coot/bin-gtk4/include -DHAVE_SSMLIB -I/opt/user_software/coot/bin-gtk4/include -DMMDB_HAS_LINK_DISTANCE -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DCLIPPER_HAS_TOP8000 -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR=\"/opt/user_software/coot/bin-gtk4/share/coot\" -DPACKAGE_LOCALE_DIR=\"/opt/user_software/coot/bin-gtk4/share/coot/locale\" -DPKGPYTHONDIR=\"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/coot\" -DPYTHONDIR=\"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages\" -DXDATADIR=\"/opt/user_software/coot/bin-gtk4/share\" -DCOOT_SYS_BUILD_TYPE=\"Linux-x86_64-ubuntu-22.04.4-gtk4\" "-DCOOT_BUILD_INFO_STRING=\"build-host: gtxr1.srv-local.mpi-dortmund.mpg.de on: Mi 20 Mär 1759.36 CET 2024\"" -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/opt/user_software/coot/bin-gtk4/include/python3.11 -DHAVE_GSL -fopenmp -g -O -Wall -Wno-unused -std=c++17 -MT Model.lo -MD -MP -MF .deps/Model.Tpo -c ../../coot/src/Model.cc -fPIC -DPIC -o .libs/Model.o mv -f .deps/LigandViewMesh.Tpo .deps/LigandViewMesh.Plo /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" -DPACKAGE_STRING=\"coot\ 1.x-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I../../coot/src -DUSE_PYTHON -mfpmath=sse -msse -msse2 -pthread -I/opt/user_software/coot/bin-gtk4/lib/libffi-3.2.1/include -I/usr/include/gtk-4.0 -I/usr/include/gio-unix-2.0 -I/usr/include/cairo -I/usr/include/pango-1.0 -I/usr/include/harfbuzz -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/harfbuzz -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/x86_64-linux-gnu -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/graphene-1.0 -I/usr/lib/x86_64-linux-gnu/graphene-1.0/include -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I../../coot -I/opt/user_software/coot/bin-gtk4/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/opt/user_software/coot/bin-gtk4/include -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -I/opt/user_software/coot/bin-gtk4/include -DHAVE_SSMLIB -I/opt/user_software/coot/bin-gtk4/include -DMMDB_HAS_LINK_DISTANCE -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DCLIPPER_HAS_TOP8000 -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR='"/opt/user_software/coot/bin-gtk4/share/coot"' -DPACKAGE_LOCALE_DIR='"/opt/user_software/coot/bin-gtk4/share/coot/locale"' -DPKGPYTHONDIR='"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/coot"' -DPYTHONDIR='"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages"' -DXDATADIR='"/opt/user_software/coot/bin-gtk4/share"' -DCOOT_SYS_BUILD_TYPE='"Linux-x86_64-ubuntu-22.04.4-gtk4"' -DCOOT_BUILD_INFO_STRING='"build-host: gtxr1.srv-local.mpi-dortmund.mpg.de on: Mi 20 Mär 1759.36 CET 2024"' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/opt/user_software/coot/bin-gtk4/include/python3.11 -DHAVE_GSL -fopenmp -g -O -Wall -Wno-unused -std=c++17 -MT make-a-dodec.lo -MD -MP -MF .deps/make-a-dodec.Tpo -c -o make-a-dodec.lo ../../coot/src/make-a-dodec.cc In file included from ../../coot/MoleculesToTriangles/CXXClasses/RendererGLSL.hpp:31, from ../../coot/src/graphics-info.h:53, from ../../coot/src/lbg-interface.cc:28: ../../coot/MoleculesToTriangles/CXXClasses/RendererGL.h:61: warning: ignoring ‘#pragma mark ’ [-Wunknown-pragmas] 61 | #pragma mark - | ../../coot/MoleculesToTriangles/CXXClasses/RendererGL.h:62: warning: ignoring ‘#pragma mark Debug’ [-Wunknown-pragmas] 62 | #pragma mark Debug routine | mv -f .deps/LinesMesh.Tpo .deps/LinesMesh.Plo /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" -DPACKAGE_STRING=\"coot\ 1.x-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I../../coot/src -DUSE_PYTHON -mfpmath=sse -msse -msse2 -pthread -I/opt/user_software/coot/bin-gtk4/lib/libffi-3.2.1/include -I/usr/include/gtk-4.0 -I/usr/include/gio-unix-2.0 -I/usr/include/cairo -I/usr/include/pango-1.0 -I/usr/include/harfbuzz -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/harfbuzz -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/x86_64-linux-gnu -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/graphene-1.0 -I/usr/lib/x86_64-linux-gnu/graphene-1.0/include -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I../../coot -I/opt/user_software/coot/bin-gtk4/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/opt/user_software/coot/bin-gtk4/include -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -I/opt/user_software/coot/bin-gtk4/include -DHAVE_SSMLIB -I/opt/user_software/coot/bin-gtk4/include -DMMDB_HAS_LINK_DISTANCE -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DCLIPPER_HAS_TOP8000 -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR='"/opt/user_software/coot/bin-gtk4/share/coot"' -DPACKAGE_LOCALE_DIR='"/opt/user_software/coot/bin-gtk4/share/coot/locale"' -DPKGPYTHONDIR='"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/coot"' -DPYTHONDIR='"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages"' -DXDATADIR='"/opt/user_software/coot/bin-gtk4/share"' -DCOOT_SYS_BUILD_TYPE='"Linux-x86_64-ubuntu-22.04.4-gtk4"' -DCOOT_BUILD_INFO_STRING='"build-host: gtxr1.srv-local.mpi-dortmund.mpg.de on: Mi 20 Mär 1759.36 CET 2024"' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/opt/user_software/coot/bin-gtk4/include/python3.11 -DHAVE_GSL -fopenmp -g -O -Wall -Wno-unused -std=c++17 -MT matrix-utils.lo -MD -MP -MF .deps/matrix-utils.Tpo -c -o matrix-utils.lo ../../coot/src/matrix-utils.cc In file included from ../../coot/src/molecular-mesh-generator.hh:18, from ../../coot/src/Model.hh:14, from ../../coot/src/Model.cc:12: ../../coot/MoleculesToTriangles/CXXClasses/RendererGL.h:61: warning: ignoring ‘#pragma mark ’ [-Wunknown-pragmas] 61 | #pragma mark - | ../../coot/MoleculesToTriangles/CXXClasses/RendererGL.h:62: warning: ignoring ‘#pragma mark Debug’ [-Wunknown-pragmas] 62 | #pragma mark Debug routine | libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" "-DPACKAGE_STRING=\"coot 1.x-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I../../coot/src -DUSE_PYTHON -mfpmath=sse -msse -msse2 -pthread -I/opt/user_software/coot/bin-gtk4/lib/libffi-3.2.1/include -I/usr/include/gtk-4.0 -I/usr/include/gio-unix-2.0 -I/usr/include/cairo -I/usr/include/pango-1.0 -I/usr/include/harfbuzz -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/harfbuzz -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/x86_64-linux-gnu -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/graphene-1.0 -I/usr/lib/x86_64-linux-gnu/graphene-1.0/include -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I../../coot -I/opt/user_software/coot/bin-gtk4/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/opt/user_software/coot/bin-gtk4/include -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -I/opt/user_software/coot/bin-gtk4/include -DHAVE_SSMLIB -I/opt/user_software/coot/bin-gtk4/include -DMMDB_HAS_LINK_DISTANCE -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DCLIPPER_HAS_TOP8000 -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR=\"/opt/user_software/coot/bin-gtk4/share/coot\" -DPACKAGE_LOCALE_DIR=\"/opt/user_software/coot/bin-gtk4/share/coot/locale\" -DPKGPYTHONDIR=\"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/coot\" -DPYTHONDIR=\"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages\" -DXDATADIR=\"/opt/user_software/coot/bin-gtk4/share\" -DCOOT_SYS_BUILD_TYPE=\"Linux-x86_64-ubuntu-22.04.4-gtk4\" "-DCOOT_BUILD_INFO_STRING=\"build-host: gtxr1.srv-local.mpi-dortmund.mpg.de on: Mi 20 Mär 1759.36 CET 2024\"" -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/opt/user_software/coot/bin-gtk4/include/python3.11 -DHAVE_GSL -fopenmp -g -O -Wall -Wno-unused -std=c++17 -MT make-a-dodec.lo -MD -MP -MF .deps/make-a-dodec.Tpo -c ../../coot/src/make-a-dodec.cc -fPIC -DPIC -o .libs/make-a-dodec.o libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" "-DPACKAGE_STRING=\"coot 1.x-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I../../coot/src -DUSE_PYTHON -mfpmath=sse -msse -msse2 -pthread -I/opt/user_software/coot/bin-gtk4/lib/libffi-3.2.1/include -I/usr/include/gtk-4.0 -I/usr/include/gio-unix-2.0 -I/usr/include/cairo -I/usr/include/pango-1.0 -I/usr/include/harfbuzz -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/harfbuzz -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/x86_64-linux-gnu -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/graphene-1.0 -I/usr/lib/x86_64-linux-gnu/graphene-1.0/include -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I../../coot -I/opt/user_software/coot/bin-gtk4/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/opt/user_software/coot/bin-gtk4/include -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -I/opt/user_software/coot/bin-gtk4/include -DHAVE_SSMLIB -I/opt/user_software/coot/bin-gtk4/include -DMMDB_HAS_LINK_DISTANCE -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DCLIPPER_HAS_TOP8000 -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR=\"/opt/user_software/coot/bin-gtk4/share/coot\" -DPACKAGE_LOCALE_DIR=\"/opt/user_software/coot/bin-gtk4/share/coot/locale\" -DPKGPYTHONDIR=\"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/coot\" -DPYTHONDIR=\"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages\" -DXDATADIR=\"/opt/user_software/coot/bin-gtk4/share\" -DCOOT_SYS_BUILD_TYPE=\"Linux-x86_64-ubuntu-22.04.4-gtk4\" "-DCOOT_BUILD_INFO_STRING=\"build-host: gtxr1.srv-local.mpi-dortmund.mpg.de on: Mi 20 Mär 1759.36 CET 2024\"" -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/opt/user_software/coot/bin-gtk4/include/python3.11 -DHAVE_GSL -fopenmp -g -O -Wall -Wno-unused -std=c++17 -MT matrix-utils.lo -MD -MP -MF .deps/matrix-utils.Tpo -c ../../coot/src/matrix-utils.cc -fPIC -DPIC -o .libs/matrix-utils.o mv -f .deps/gtk-manual.Tpo .deps/gtk-manual.Plo /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" -DPACKAGE_STRING=\"coot\ 1.x-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I../../coot/src -DUSE_PYTHON -mfpmath=sse -msse -msse2 -pthread -I/opt/user_software/coot/bin-gtk4/lib/libffi-3.2.1/include -I/usr/include/gtk-4.0 -I/usr/include/gio-unix-2.0 -I/usr/include/cairo -I/usr/include/pango-1.0 -I/usr/include/harfbuzz -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/harfbuzz -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/x86_64-linux-gnu -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/graphene-1.0 -I/usr/lib/x86_64-linux-gnu/graphene-1.0/include -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I../../coot -I/opt/user_software/coot/bin-gtk4/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/opt/user_software/coot/bin-gtk4/include -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -I/opt/user_software/coot/bin-gtk4/include -DHAVE_SSMLIB -I/opt/user_software/coot/bin-gtk4/include -DMMDB_HAS_LINK_DISTANCE -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DCLIPPER_HAS_TOP8000 -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR='"/opt/user_software/coot/bin-gtk4/share/coot"' -DPACKAGE_LOCALE_DIR='"/opt/user_software/coot/bin-gtk4/share/coot/locale"' -DPKGPYTHONDIR='"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/coot"' -DPYTHONDIR='"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages"' -DXDATADIR='"/opt/user_software/coot/bin-gtk4/share"' -DCOOT_SYS_BUILD_TYPE='"Linux-x86_64-ubuntu-22.04.4-gtk4"' -DCOOT_BUILD_INFO_STRING='"build-host: gtxr1.srv-local.mpi-dortmund.mpg.de on: Mi 20 Mär 1759.36 CET 2024"' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/opt/user_software/coot/bin-gtk4/include/python3.11 -DHAVE_GSL -fopenmp -g -O -Wall -Wno-unused -std=c++17 -MT Mesh.lo -MD -MP -MF .deps/Mesh.Tpo -c -o Mesh.lo ../../coot/src/Mesh.cc mv -f .deps/matrix-utils.Tpo .deps/matrix-utils.Plo /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" -DPACKAGE_STRING=\"coot\ 1.x-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I../../coot/src -DUSE_PYTHON -mfpmath=sse -msse -msse2 -pthread -I/opt/user_software/coot/bin-gtk4/lib/libffi-3.2.1/include -I/usr/include/gtk-4.0 -I/usr/include/gio-unix-2.0 -I/usr/include/cairo -I/usr/include/pango-1.0 -I/usr/include/harfbuzz -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/harfbuzz -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/x86_64-linux-gnu -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/graphene-1.0 -I/usr/lib/x86_64-linux-gnu/graphene-1.0/include -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I../../coot -I/opt/user_software/coot/bin-gtk4/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/opt/user_software/coot/bin-gtk4/include -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -I/opt/user_software/coot/bin-gtk4/include -DHAVE_SSMLIB -I/opt/user_software/coot/bin-gtk4/include -DMMDB_HAS_LINK_DISTANCE -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DCLIPPER_HAS_TOP8000 -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR='"/opt/user_software/coot/bin-gtk4/share/coot"' -DPACKAGE_LOCALE_DIR='"/opt/user_software/coot/bin-gtk4/share/coot/locale"' -DPKGPYTHONDIR='"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/coot"' -DPYTHONDIR='"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages"' -DXDATADIR='"/opt/user_software/coot/bin-gtk4/share"' -DCOOT_SYS_BUILD_TYPE='"Linux-x86_64-ubuntu-22.04.4-gtk4"' -DCOOT_BUILD_INFO_STRING='"build-host: gtxr1.srv-local.mpi-dortmund.mpg.de on: Mi 20 Mär 1759.36 CET 2024"' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/opt/user_software/coot/bin-gtk4/include/python3.11 -DHAVE_GSL -fopenmp -g -O -Wall -Wno-unused -std=c++17 -MT Mesh-from-glTF.lo -MD -MP -MF .deps/Mesh-from-glTF.Tpo -c -o Mesh-from-glTF.lo ../../coot/src/Mesh-from-glTF.cc libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" "-DPACKAGE_STRING=\"coot 1.x-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I../../coot/src -DUSE_PYTHON -mfpmath=sse -msse -msse2 -pthread -I/opt/user_software/coot/bin-gtk4/lib/libffi-3.2.1/include -I/usr/include/gtk-4.0 -I/usr/include/gio-unix-2.0 -I/usr/include/cairo -I/usr/include/pango-1.0 -I/usr/include/harfbuzz -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/harfbuzz -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/x86_64-linux-gnu -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/graphene-1.0 -I/usr/lib/x86_64-linux-gnu/graphene-1.0/include -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I../../coot -I/opt/user_software/coot/bin-gtk4/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/opt/user_software/coot/bin-gtk4/include -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -I/opt/user_software/coot/bin-gtk4/include -DHAVE_SSMLIB -I/opt/user_software/coot/bin-gtk4/include -DMMDB_HAS_LINK_DISTANCE -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DCLIPPER_HAS_TOP8000 -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR=\"/opt/user_software/coot/bin-gtk4/share/coot\" -DPACKAGE_LOCALE_DIR=\"/opt/user_software/coot/bin-gtk4/share/coot/locale\" -DPKGPYTHONDIR=\"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/coot\" -DPYTHONDIR=\"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages\" -DXDATADIR=\"/opt/user_software/coot/bin-gtk4/share\" -DCOOT_SYS_BUILD_TYPE=\"Linux-x86_64-ubuntu-22.04.4-gtk4\" "-DCOOT_BUILD_INFO_STRING=\"build-host: gtxr1.srv-local.mpi-dortmund.mpg.de on: Mi 20 Mär 1759.36 CET 2024\"" -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/opt/user_software/coot/bin-gtk4/include/python3.11 -DHAVE_GSL -fopenmp -g -O -Wall -Wno-unused -std=c++17 -MT Mesh.lo -MD -MP -MF .deps/Mesh.Tpo -c ../../coot/src/Mesh.cc -fPIC -DPIC -o .libs/Mesh.o mv -f .deps/make-a-dodec.Tpo .deps/make-a-dodec.Plo /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" -DPACKAGE_STRING=\"coot\ 1.x-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I../../coot/src -DUSE_PYTHON -mfpmath=sse -msse -msse2 -pthread -I/opt/user_software/coot/bin-gtk4/lib/libffi-3.2.1/include -I/usr/include/gtk-4.0 -I/usr/include/gio-unix-2.0 -I/usr/include/cairo -I/usr/include/pango-1.0 -I/usr/include/harfbuzz -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/harfbuzz -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/x86_64-linux-gnu -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/graphene-1.0 -I/usr/lib/x86_64-linux-gnu/graphene-1.0/include -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I../../coot -I/opt/user_software/coot/bin-gtk4/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/opt/user_software/coot/bin-gtk4/include -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -I/opt/user_software/coot/bin-gtk4/include -DHAVE_SSMLIB -I/opt/user_software/coot/bin-gtk4/include -DMMDB_HAS_LINK_DISTANCE -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DCLIPPER_HAS_TOP8000 -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR='"/opt/user_software/coot/bin-gtk4/share/coot"' -DPACKAGE_LOCALE_DIR='"/opt/user_software/coot/bin-gtk4/share/coot/locale"' -DPKGPYTHONDIR='"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/coot"' -DPYTHONDIR='"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages"' -DXDATADIR='"/opt/user_software/coot/bin-gtk4/share"' -DCOOT_SYS_BUILD_TYPE='"Linux-x86_64-ubuntu-22.04.4-gtk4"' -DCOOT_BUILD_INFO_STRING='"build-host: gtxr1.srv-local.mpi-dortmund.mpg.de on: Mi 20 Mär 1759.36 CET 2024"' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/opt/user_software/coot/bin-gtk4/include/python3.11 -DHAVE_GSL -fopenmp -g -O -Wall -Wno-unused -std=c++17 -MT Mesh-from-graphical-bonds-instanced.lo -MD -MP -MF .deps/Mesh-from-graphical-bonds-instanced.Tpo -c -o Mesh-from-graphical-bonds-instanced.lo ../../coot/src/Mesh-from-graphical-bonds-instanced.cc libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" "-DPACKAGE_STRING=\"coot 1.x-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I../../coot/src -DUSE_PYTHON -mfpmath=sse -msse -msse2 -pthread -I/opt/user_software/coot/bin-gtk4/lib/libffi-3.2.1/include -I/usr/include/gtk-4.0 -I/usr/include/gio-unix-2.0 -I/usr/include/cairo -I/usr/include/pango-1.0 -I/usr/include/harfbuzz -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/harfbuzz -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/x86_64-linux-gnu -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/graphene-1.0 -I/usr/lib/x86_64-linux-gnu/graphene-1.0/include -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I../../coot -I/opt/user_software/coot/bin-gtk4/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/opt/user_software/coot/bin-gtk4/include -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -I/opt/user_software/coot/bin-gtk4/include -DHAVE_SSMLIB -I/opt/user_software/coot/bin-gtk4/include -DMMDB_HAS_LINK_DISTANCE -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DCLIPPER_HAS_TOP8000 -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR=\"/opt/user_software/coot/bin-gtk4/share/coot\" -DPACKAGE_LOCALE_DIR=\"/opt/user_software/coot/bin-gtk4/share/coot/locale\" -DPKGPYTHONDIR=\"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/coot\" -DPYTHONDIR=\"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages\" -DXDATADIR=\"/opt/user_software/coot/bin-gtk4/share\" -DCOOT_SYS_BUILD_TYPE=\"Linux-x86_64-ubuntu-22.04.4-gtk4\" "-DCOOT_BUILD_INFO_STRING=\"build-host: gtxr1.srv-local.mpi-dortmund.mpg.de on: Mi 20 Mär 1759.36 CET 2024\"" -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/opt/user_software/coot/bin-gtk4/include/python3.11 -DHAVE_GSL -fopenmp -g -O -Wall -Wno-unused -std=c++17 -MT Mesh-from-glTF.lo -MD -MP -MF .deps/Mesh-from-glTF.Tpo -c ../../coot/src/Mesh-from-glTF.cc -fPIC -DPIC -o .libs/Mesh-from-glTF.o libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" "-DPACKAGE_STRING=\"coot 1.x-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I../../coot/src -DUSE_PYTHON -mfpmath=sse -msse -msse2 -pthread -I/opt/user_software/coot/bin-gtk4/lib/libffi-3.2.1/include -I/usr/include/gtk-4.0 -I/usr/include/gio-unix-2.0 -I/usr/include/cairo -I/usr/include/pango-1.0 -I/usr/include/harfbuzz -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/harfbuzz -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/x86_64-linux-gnu -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/graphene-1.0 -I/usr/lib/x86_64-linux-gnu/graphene-1.0/include -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I../../coot -I/opt/user_software/coot/bin-gtk4/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/opt/user_software/coot/bin-gtk4/include -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -I/opt/user_software/coot/bin-gtk4/include -DHAVE_SSMLIB -I/opt/user_software/coot/bin-gtk4/include -DMMDB_HAS_LINK_DISTANCE -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DCLIPPER_HAS_TOP8000 -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR=\"/opt/user_software/coot/bin-gtk4/share/coot\" -DPACKAGE_LOCALE_DIR=\"/opt/user_software/coot/bin-gtk4/share/coot/locale\" -DPKGPYTHONDIR=\"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/coot\" -DPYTHONDIR=\"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages\" -DXDATADIR=\"/opt/user_software/coot/bin-gtk4/share\" -DCOOT_SYS_BUILD_TYPE=\"Linux-x86_64-ubuntu-22.04.4-gtk4\" "-DCOOT_BUILD_INFO_STRING=\"build-host: gtxr1.srv-local.mpi-dortmund.mpg.de on: Mi 20 Mär 1759.36 CET 2024\"" -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/opt/user_software/coot/bin-gtk4/include/python3.11 -DHAVE_GSL -fopenmp -g -O -Wall -Wno-unused -std=c++17 -MT Mesh-from-graphical-bonds-instanced.lo -MD -MP -MF .deps/Mesh-from-graphical-bonds-instanced.Tpo -c ../../coot/src/Mesh-from-graphical-bonds-instanced.cc -fPIC -DPIC -o .libs/Mesh-from-graphical-bonds-instanced.o mv -f .deps/Model.Tpo .deps/Model.Plo /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" -DPACKAGE_STRING=\"coot\ 1.x-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I../../coot/src -DUSE_PYTHON -mfpmath=sse -msse -msse2 -pthread -I/opt/user_software/coot/bin-gtk4/lib/libffi-3.2.1/include -I/usr/include/gtk-4.0 -I/usr/include/gio-unix-2.0 -I/usr/include/cairo -I/usr/include/pango-1.0 -I/usr/include/harfbuzz -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/harfbuzz -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/x86_64-linux-gnu -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/graphene-1.0 -I/usr/lib/x86_64-linux-gnu/graphene-1.0/include -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I../../coot -I/opt/user_software/coot/bin-gtk4/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/opt/user_software/coot/bin-gtk4/include -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -I/opt/user_software/coot/bin-gtk4/include -DHAVE_SSMLIB -I/opt/user_software/coot/bin-gtk4/include -DMMDB_HAS_LINK_DISTANCE -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DCLIPPER_HAS_TOP8000 -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR='"/opt/user_software/coot/bin-gtk4/share/coot"' -DPACKAGE_LOCALE_DIR='"/opt/user_software/coot/bin-gtk4/share/coot/locale"' -DPKGPYTHONDIR='"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/coot"' -DPYTHONDIR='"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages"' -DXDATADIR='"/opt/user_software/coot/bin-gtk4/share"' -DCOOT_SYS_BUILD_TYPE='"Linux-x86_64-ubuntu-22.04.4-gtk4"' -DCOOT_BUILD_INFO_STRING='"build-host: gtxr1.srv-local.mpi-dortmund.mpg.de on: Mi 20 Mär 1759.36 CET 2024"' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/opt/user_software/coot/bin-gtk4/include/python3.11 -DHAVE_GSL -fopenmp -g -O -Wall -Wno-unused -std=c++17 -MT Mesh-from-graphical-bonds.lo -MD -MP -MF .deps/Mesh-from-graphical-bonds.Tpo -c -o Mesh-from-graphical-bonds.lo ../../coot/src/Mesh-from-graphical-bonds.cc mv -f .deps/graphics-ligand-mesh-molecule.Tpo .deps/graphics-ligand-mesh-molecule.Plo /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" -DPACKAGE_STRING=\"coot\ 1.x-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I../../coot/src -DUSE_PYTHON -mfpmath=sse -msse -msse2 -pthread -I/opt/user_software/coot/bin-gtk4/lib/libffi-3.2.1/include -I/usr/include/gtk-4.0 -I/usr/include/gio-unix-2.0 -I/usr/include/cairo -I/usr/include/pango-1.0 -I/usr/include/harfbuzz -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/harfbuzz -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/x86_64-linux-gnu -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/graphene-1.0 -I/usr/lib/x86_64-linux-gnu/graphene-1.0/include -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I../../coot -I/opt/user_software/coot/bin-gtk4/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/opt/user_software/coot/bin-gtk4/include -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -I/opt/user_software/coot/bin-gtk4/include -DHAVE_SSMLIB -I/opt/user_software/coot/bin-gtk4/include -DMMDB_HAS_LINK_DISTANCE -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DCLIPPER_HAS_TOP8000 -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR='"/opt/user_software/coot/bin-gtk4/share/coot"' -DPACKAGE_LOCALE_DIR='"/opt/user_software/coot/bin-gtk4/share/coot/locale"' -DPKGPYTHONDIR='"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/coot"' -DPYTHONDIR='"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages"' -DXDATADIR='"/opt/user_software/coot/bin-gtk4/share"' -DCOOT_SYS_BUILD_TYPE='"Linux-x86_64-ubuntu-22.04.4-gtk4"' -DCOOT_BUILD_INFO_STRING='"build-host: gtxr1.srv-local.mpi-dortmund.mpg.de on: Mi 20 Mär 1759.36 CET 2024"' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/opt/user_software/coot/bin-gtk4/include/python3.11 -DHAVE_GSL -fopenmp -g -O -Wall -Wno-unused -std=c++17 -MT meshed-generic-display-object.lo -MD -MP -MF .deps/meshed-generic-display-object.Tpo -c -o meshed-generic-display-object.lo ../../coot/src/meshed-generic-display-object.cc mv -f .deps/gtk-utils.Tpo .deps/gtk-utils.Plo /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" -DPACKAGE_STRING=\"coot\ 1.x-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I../../coot/src -DUSE_PYTHON -mfpmath=sse -msse -msse2 -pthread -I/opt/user_software/coot/bin-gtk4/lib/libffi-3.2.1/include -I/usr/include/gtk-4.0 -I/usr/include/gio-unix-2.0 -I/usr/include/cairo -I/usr/include/pango-1.0 -I/usr/include/harfbuzz -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/harfbuzz -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/x86_64-linux-gnu -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/graphene-1.0 -I/usr/lib/x86_64-linux-gnu/graphene-1.0/include -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I../../coot -I/opt/user_software/coot/bin-gtk4/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/opt/user_software/coot/bin-gtk4/include -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -I/opt/user_software/coot/bin-gtk4/include -DHAVE_SSMLIB -I/opt/user_software/coot/bin-gtk4/include -DMMDB_HAS_LINK_DISTANCE -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DCLIPPER_HAS_TOP8000 -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR='"/opt/user_software/coot/bin-gtk4/share/coot"' -DPACKAGE_LOCALE_DIR='"/opt/user_software/coot/bin-gtk4/share/coot/locale"' -DPKGPYTHONDIR='"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/coot"' -DPYTHONDIR='"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages"' -DXDATADIR='"/opt/user_software/coot/bin-gtk4/share"' -DCOOT_SYS_BUILD_TYPE='"Linux-x86_64-ubuntu-22.04.4-gtk4"' -DCOOT_BUILD_INFO_STRING='"build-host: gtxr1.srv-local.mpi-dortmund.mpg.de on: Mi 20 Mär 1759.36 CET 2024"' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/opt/user_software/coot/bin-gtk4/include/python3.11 -DHAVE_GSL -fopenmp -g -O -Wall -Wno-unused -std=c++17 -MT model-molecule-meshes.lo -MD -MP -MF .deps/model-molecule-meshes.Tpo -c -o model-molecule-meshes.lo ../../coot/src/model-molecule-meshes.cc libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" "-DPACKAGE_STRING=\"coot 1.x-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I../../coot/src -DUSE_PYTHON -mfpmath=sse -msse -msse2 -pthread -I/opt/user_software/coot/bin-gtk4/lib/libffi-3.2.1/include -I/usr/include/gtk-4.0 -I/usr/include/gio-unix-2.0 -I/usr/include/cairo -I/usr/include/pango-1.0 -I/usr/include/harfbuzz -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/harfbuzz -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/x86_64-linux-gnu -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/graphene-1.0 -I/usr/lib/x86_64-linux-gnu/graphene-1.0/include -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I../../coot -I/opt/user_software/coot/bin-gtk4/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/opt/user_software/coot/bin-gtk4/include -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -I/opt/user_software/coot/bin-gtk4/include -DHAVE_SSMLIB -I/opt/user_software/coot/bin-gtk4/include -DMMDB_HAS_LINK_DISTANCE -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DCLIPPER_HAS_TOP8000 -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR=\"/opt/user_software/coot/bin-gtk4/share/coot\" -DPACKAGE_LOCALE_DIR=\"/opt/user_software/coot/bin-gtk4/share/coot/locale\" -DPKGPYTHONDIR=\"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/coot\" -DPYTHONDIR=\"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages\" -DXDATADIR=\"/opt/user_software/coot/bin-gtk4/share\" -DCOOT_SYS_BUILD_TYPE=\"Linux-x86_64-ubuntu-22.04.4-gtk4\" "-DCOOT_BUILD_INFO_STRING=\"build-host: gtxr1.srv-local.mpi-dortmund.mpg.de on: Mi 20 Mär 1759.36 CET 2024\"" -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/opt/user_software/coot/bin-gtk4/include/python3.11 -DHAVE_GSL -fopenmp -g -O -Wall -Wno-unused -std=c++17 -MT Mesh-from-graphical-bonds.lo -MD -MP -MF .deps/Mesh-from-graphical-bonds.Tpo -c ../../coot/src/Mesh-from-graphical-bonds.cc -fPIC -DPIC -o .libs/Mesh-from-graphical-bonds.o libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" "-DPACKAGE_STRING=\"coot 1.x-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I../../coot/src -DUSE_PYTHON -mfpmath=sse -msse -msse2 -pthread -I/opt/user_software/coot/bin-gtk4/lib/libffi-3.2.1/include -I/usr/include/gtk-4.0 -I/usr/include/gio-unix-2.0 -I/usr/include/cairo -I/usr/include/pango-1.0 -I/usr/include/harfbuzz -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/harfbuzz -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/x86_64-linux-gnu -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/graphene-1.0 -I/usr/lib/x86_64-linux-gnu/graphene-1.0/include -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I../../coot -I/opt/user_software/coot/bin-gtk4/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/opt/user_software/coot/bin-gtk4/include -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -I/opt/user_software/coot/bin-gtk4/include -DHAVE_SSMLIB -I/opt/user_software/coot/bin-gtk4/include -DMMDB_HAS_LINK_DISTANCE -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DCLIPPER_HAS_TOP8000 -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR=\"/opt/user_software/coot/bin-gtk4/share/coot\" -DPACKAGE_LOCALE_DIR=\"/opt/user_software/coot/bin-gtk4/share/coot/locale\" -DPKGPYTHONDIR=\"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/coot\" -DPYTHONDIR=\"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages\" -DXDATADIR=\"/opt/user_software/coot/bin-gtk4/share\" -DCOOT_SYS_BUILD_TYPE=\"Linux-x86_64-ubuntu-22.04.4-gtk4\" "-DCOOT_BUILD_INFO_STRING=\"build-host: gtxr1.srv-local.mpi-dortmund.mpg.de on: Mi 20 Mär 1759.36 CET 2024\"" -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/opt/user_software/coot/bin-gtk4/include/python3.11 -DHAVE_GSL -fopenmp -g -O -Wall -Wno-unused -std=c++17 -MT meshed-generic-display-object.lo -MD -MP -MF .deps/meshed-generic-display-object.Tpo -c ../../coot/src/meshed-generic-display-object.cc -fPIC -DPIC -o .libs/meshed-generic-display-object.o In file included from ../../coot/src/molecular-mesh-generator.hh:18, from ../../coot/src/Mesh-from-graphical-bonds.cc:678: ../../coot/MoleculesToTriangles/CXXClasses/RendererGL.h:61: warning: ignoring ‘#pragma mark ’ [-Wunknown-pragmas] 61 | #pragma mark - | ../../coot/MoleculesToTriangles/CXXClasses/RendererGL.h:62: warning: ignoring ‘#pragma mark Debug’ [-Wunknown-pragmas] 62 | #pragma mark Debug routine | libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" "-DPACKAGE_STRING=\"coot 1.x-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I../../coot/src -DUSE_PYTHON -mfpmath=sse -msse -msse2 -pthread -I/opt/user_software/coot/bin-gtk4/lib/libffi-3.2.1/include -I/usr/include/gtk-4.0 -I/usr/include/gio-unix-2.0 -I/usr/include/cairo -I/usr/include/pango-1.0 -I/usr/include/harfbuzz -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/harfbuzz -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/x86_64-linux-gnu -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/graphene-1.0 -I/usr/lib/x86_64-linux-gnu/graphene-1.0/include -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I../../coot -I/opt/user_software/coot/bin-gtk4/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/opt/user_software/coot/bin-gtk4/include -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -I/opt/user_software/coot/bin-gtk4/include -DHAVE_SSMLIB -I/opt/user_software/coot/bin-gtk4/include -DMMDB_HAS_LINK_DISTANCE -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DCLIPPER_HAS_TOP8000 -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR=\"/opt/user_software/coot/bin-gtk4/share/coot\" -DPACKAGE_LOCALE_DIR=\"/opt/user_software/coot/bin-gtk4/share/coot/locale\" -DPKGPYTHONDIR=\"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/coot\" -DPYTHONDIR=\"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages\" -DXDATADIR=\"/opt/user_software/coot/bin-gtk4/share\" -DCOOT_SYS_BUILD_TYPE=\"Linux-x86_64-ubuntu-22.04.4-gtk4\" "-DCOOT_BUILD_INFO_STRING=\"build-host: gtxr1.srv-local.mpi-dortmund.mpg.de on: Mi 20 Mär 1759.36 CET 2024\"" -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/opt/user_software/coot/bin-gtk4/include/python3.11 -DHAVE_GSL -fopenmp -g -O -Wall -Wno-unused -std=c++17 -MT model-molecule-meshes.lo -MD -MP -MF .deps/model-molecule-meshes.Tpo -c ../../coot/src/model-molecule-meshes.cc -fPIC -DPIC -o .libs/model-molecule-meshes.o In file included from ../../coot/MoleculesToTriangles/CXXClasses/RendererGLSL.hpp:31, from ../../coot/src/graphics-info.h:53, from ../../coot/src/meshed-generic-display-object.cc:12: ../../coot/MoleculesToTriangles/CXXClasses/RendererGL.h:61: warning: ignoring ‘#pragma mark ’ [-Wunknown-pragmas] 61 | #pragma mark - | ../../coot/MoleculesToTriangles/CXXClasses/RendererGL.h:62: warning: ignoring ‘#pragma mark Debug’ [-Wunknown-pragmas] 62 | #pragma mark Debug routine | In file included from ../../coot/MoleculesToTriangles/CXXClasses/RendererGLSL.hpp:31, from ../../coot/src/graphics-info.h:53, from ../../coot/src/model-molecule-meshes.cc:9: ../../coot/MoleculesToTriangles/CXXClasses/RendererGL.h:61: warning: ignoring ‘#pragma mark ’ [-Wunknown-pragmas] 61 | #pragma mark - | ../../coot/MoleculesToTriangles/CXXClasses/RendererGL.h:62: warning: ignoring ‘#pragma mark Debug’ [-Wunknown-pragmas] 62 | #pragma mark Debug routine | mv -f .deps/init-from-gtkbuilder.Tpo .deps/init-from-gtkbuilder.Plo /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" -DPACKAGE_STRING=\"coot\ 1.x-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I../../coot/src -DUSE_PYTHON -mfpmath=sse -msse -msse2 -pthread -I/opt/user_software/coot/bin-gtk4/lib/libffi-3.2.1/include -I/usr/include/gtk-4.0 -I/usr/include/gio-unix-2.0 -I/usr/include/cairo -I/usr/include/pango-1.0 -I/usr/include/harfbuzz -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/harfbuzz -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/x86_64-linux-gnu -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/graphene-1.0 -I/usr/lib/x86_64-linux-gnu/graphene-1.0/include -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I../../coot -I/opt/user_software/coot/bin-gtk4/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/opt/user_software/coot/bin-gtk4/include -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -I/opt/user_software/coot/bin-gtk4/include -DHAVE_SSMLIB -I/opt/user_software/coot/bin-gtk4/include -DMMDB_HAS_LINK_DISTANCE -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DCLIPPER_HAS_TOP8000 -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR='"/opt/user_software/coot/bin-gtk4/share/coot"' -DPACKAGE_LOCALE_DIR='"/opt/user_software/coot/bin-gtk4/share/coot/locale"' -DPKGPYTHONDIR='"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/coot"' -DPYTHONDIR='"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages"' -DXDATADIR='"/opt/user_software/coot/bin-gtk4/share"' -DCOOT_SYS_BUILD_TYPE='"Linux-x86_64-ubuntu-22.04.4-gtk4"' -DCOOT_BUILD_INFO_STRING='"build-host: gtxr1.srv-local.mpi-dortmund.mpg.de on: Mi 20 Mär 1759.36 CET 2024"' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/opt/user_software/coot/bin-gtk4/include/python3.11 -DHAVE_GSL -fopenmp -g -O -Wall -Wno-unused -std=c++17 -MT molecule-class-info.lo -MD -MP -MF .deps/molecule-class-info.Tpo -c -o molecule-class-info.lo ../../coot/src/molecule-class-info.cc mv -f .deps/Mesh-from-graphical-bonds-instanced.Tpo .deps/Mesh-from-graphical-bonds-instanced.Plo /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" -DPACKAGE_STRING=\"coot\ 1.x-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I../../coot/src -DUSE_PYTHON -mfpmath=sse -msse -msse2 -pthread -I/opt/user_software/coot/bin-gtk4/lib/libffi-3.2.1/include -I/usr/include/gtk-4.0 -I/usr/include/gio-unix-2.0 -I/usr/include/cairo -I/usr/include/pango-1.0 -I/usr/include/harfbuzz -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/harfbuzz -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/x86_64-linux-gnu -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/graphene-1.0 -I/usr/lib/x86_64-linux-gnu/graphene-1.0/include -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I../../coot -I/opt/user_software/coot/bin-gtk4/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/opt/user_software/coot/bin-gtk4/include -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -I/opt/user_software/coot/bin-gtk4/include -DHAVE_SSMLIB -I/opt/user_software/coot/bin-gtk4/include -DMMDB_HAS_LINK_DISTANCE -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DCLIPPER_HAS_TOP8000 -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR='"/opt/user_software/coot/bin-gtk4/share/coot"' -DPACKAGE_LOCALE_DIR='"/opt/user_software/coot/bin-gtk4/share/coot/locale"' -DPKGPYTHONDIR='"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/coot"' -DPYTHONDIR='"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages"' -DXDATADIR='"/opt/user_software/coot/bin-gtk4/share"' -DCOOT_SYS_BUILD_TYPE='"Linux-x86_64-ubuntu-22.04.4-gtk4"' -DCOOT_BUILD_INFO_STRING='"build-host: gtxr1.srv-local.mpi-dortmund.mpg.de on: Mi 20 Mär 1759.36 CET 2024"' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/opt/user_software/coot/bin-gtk4/include/python3.11 -DHAVE_GSL -fopenmp -g -O -Wall -Wno-unused -std=c++17 -MT molecule-class-info-alignment.lo -MD -MP -MF .deps/molecule-class-info-alignment.Tpo -c -o molecule-class-info-alignment.lo ../../coot/src/molecule-class-info-alignment.cc libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" "-DPACKAGE_STRING=\"coot 1.x-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I../../coot/src -DUSE_PYTHON -mfpmath=sse -msse -msse2 -pthread -I/opt/user_software/coot/bin-gtk4/lib/libffi-3.2.1/include -I/usr/include/gtk-4.0 -I/usr/include/gio-unix-2.0 -I/usr/include/cairo -I/usr/include/pango-1.0 -I/usr/include/harfbuzz -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/harfbuzz -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/x86_64-linux-gnu -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/graphene-1.0 -I/usr/lib/x86_64-linux-gnu/graphene-1.0/include -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I../../coot -I/opt/user_software/coot/bin-gtk4/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/opt/user_software/coot/bin-gtk4/include -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -I/opt/user_software/coot/bin-gtk4/include -DHAVE_SSMLIB -I/opt/user_software/coot/bin-gtk4/include -DMMDB_HAS_LINK_DISTANCE -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DCLIPPER_HAS_TOP8000 -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR=\"/opt/user_software/coot/bin-gtk4/share/coot\" -DPACKAGE_LOCALE_DIR=\"/opt/user_software/coot/bin-gtk4/share/coot/locale\" -DPKGPYTHONDIR=\"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/coot\" -DPYTHONDIR=\"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages\" -DXDATADIR=\"/opt/user_software/coot/bin-gtk4/share\" -DCOOT_SYS_BUILD_TYPE=\"Linux-x86_64-ubuntu-22.04.4-gtk4\" "-DCOOT_BUILD_INFO_STRING=\"build-host: gtxr1.srv-local.mpi-dortmund.mpg.de on: Mi 20 Mär 1759.36 CET 2024\"" -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/opt/user_software/coot/bin-gtk4/include/python3.11 -DHAVE_GSL -fopenmp -g -O -Wall -Wno-unused -std=c++17 -MT molecule-class-info.lo -MD -MP -MF .deps/molecule-class-info.Tpo -c ../../coot/src/molecule-class-info.cc -fPIC -DPIC -o .libs/molecule-class-info.o libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" "-DPACKAGE_STRING=\"coot 1.x-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I../../coot/src -DUSE_PYTHON -mfpmath=sse -msse -msse2 -pthread -I/opt/user_software/coot/bin-gtk4/lib/libffi-3.2.1/include -I/usr/include/gtk-4.0 -I/usr/include/gio-unix-2.0 -I/usr/include/cairo -I/usr/include/pango-1.0 -I/usr/include/harfbuzz -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/harfbuzz -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/x86_64-linux-gnu -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/graphene-1.0 -I/usr/lib/x86_64-linux-gnu/graphene-1.0/include -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I../../coot -I/opt/user_software/coot/bin-gtk4/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/opt/user_software/coot/bin-gtk4/include -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -I/opt/user_software/coot/bin-gtk4/include -DHAVE_SSMLIB -I/opt/user_software/coot/bin-gtk4/include -DMMDB_HAS_LINK_DISTANCE -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DCLIPPER_HAS_TOP8000 -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR=\"/opt/user_software/coot/bin-gtk4/share/coot\" -DPACKAGE_LOCALE_DIR=\"/opt/user_software/coot/bin-gtk4/share/coot/locale\" -DPKGPYTHONDIR=\"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/coot\" -DPYTHONDIR=\"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages\" -DXDATADIR=\"/opt/user_software/coot/bin-gtk4/share\" -DCOOT_SYS_BUILD_TYPE=\"Linux-x86_64-ubuntu-22.04.4-gtk4\" "-DCOOT_BUILD_INFO_STRING=\"build-host: gtxr1.srv-local.mpi-dortmund.mpg.de on: Mi 20 Mär 1759.36 CET 2024\"" -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/opt/user_software/coot/bin-gtk4/include/python3.11 -DHAVE_GSL -fopenmp -g -O -Wall -Wno-unused -std=c++17 -MT molecule-class-info-alignment.lo -MD -MP -MF .deps/molecule-class-info-alignment.Tpo -c ../../coot/src/molecule-class-info-alignment.cc -fPIC -DPIC -o .libs/molecule-class-info-alignment.o In file included from ../../coot/MoleculesToTriangles/CXXClasses/RendererGLSL.hpp:31, from ../../coot/src/graphics-info.h:53, from ../../coot/src/molecule-class-info.cc:90: ../../coot/MoleculesToTriangles/CXXClasses/RendererGL.h:61: warning: ignoring ‘#pragma mark ’ [-Wunknown-pragmas] 61 | #pragma mark - | ../../coot/MoleculesToTriangles/CXXClasses/RendererGL.h:62: warning: ignoring ‘#pragma mark Debug’ [-Wunknown-pragmas] 62 | #pragma mark Debug routine | mv -f .deps/Mesh.Tpo .deps/Mesh.Plo /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" -DPACKAGE_STRING=\"coot\ 1.x-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I../../coot/src -DUSE_PYTHON -mfpmath=sse -msse -msse2 -pthread -I/opt/user_software/coot/bin-gtk4/lib/libffi-3.2.1/include -I/usr/include/gtk-4.0 -I/usr/include/gio-unix-2.0 -I/usr/include/cairo -I/usr/include/pango-1.0 -I/usr/include/harfbuzz -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/harfbuzz -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/x86_64-linux-gnu -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/graphene-1.0 -I/usr/lib/x86_64-linux-gnu/graphene-1.0/include -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I../../coot -I/opt/user_software/coot/bin-gtk4/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/opt/user_software/coot/bin-gtk4/include -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -I/opt/user_software/coot/bin-gtk4/include -DHAVE_SSMLIB -I/opt/user_software/coot/bin-gtk4/include -DMMDB_HAS_LINK_DISTANCE -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DCLIPPER_HAS_TOP8000 -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR='"/opt/user_software/coot/bin-gtk4/share/coot"' -DPACKAGE_LOCALE_DIR='"/opt/user_software/coot/bin-gtk4/share/coot/locale"' -DPKGPYTHONDIR='"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/coot"' -DPYTHONDIR='"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages"' -DXDATADIR='"/opt/user_software/coot/bin-gtk4/share"' -DCOOT_SYS_BUILD_TYPE='"Linux-x86_64-ubuntu-22.04.4-gtk4"' -DCOOT_BUILD_INFO_STRING='"build-host: gtxr1.srv-local.mpi-dortmund.mpg.de on: Mi 20 Mär 1759.36 CET 2024"' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/opt/user_software/coot/bin-gtk4/include/python3.11 -DHAVE_GSL -fopenmp -g -O -Wall -Wno-unused -std=c++17 -MT molecule-class-info-analysis.lo -MD -MP -MF .deps/molecule-class-info-analysis.Tpo -c -o molecule-class-info-analysis.lo ../../coot/src/molecule-class-info-analysis.cc In file included from ../../coot/src/molecule-class-info.h:59, from ../../coot/src/molecule-class-info-alignment.cc:2: ../../coot/MoleculesToTriangles/CXXClasses/RendererGL.h:61: warning: ignoring ‘#pragma mark ’ [-Wunknown-pragmas] 61 | #pragma mark - | ../../coot/MoleculesToTriangles/CXXClasses/RendererGL.h:62: warning: ignoring ‘#pragma mark Debug’ [-Wunknown-pragmas] 62 | #pragma mark Debug routine | mv -f .deps/Mesh-from-graphical-bonds.Tpo .deps/Mesh-from-graphical-bonds.Plo /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" -DPACKAGE_STRING=\"coot\ 1.x-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I../../coot/src -DUSE_PYTHON -mfpmath=sse -msse -msse2 -pthread -I/opt/user_software/coot/bin-gtk4/lib/libffi-3.2.1/include -I/usr/include/gtk-4.0 -I/usr/include/gio-unix-2.0 -I/usr/include/cairo -I/usr/include/pango-1.0 -I/usr/include/harfbuzz -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/harfbuzz -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/x86_64-linux-gnu -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/graphene-1.0 -I/usr/lib/x86_64-linux-gnu/graphene-1.0/include -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I../../coot -I/opt/user_software/coot/bin-gtk4/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/opt/user_software/coot/bin-gtk4/include -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -I/opt/user_software/coot/bin-gtk4/include -DHAVE_SSMLIB -I/opt/user_software/coot/bin-gtk4/include -DMMDB_HAS_LINK_DISTANCE -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DCLIPPER_HAS_TOP8000 -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR='"/opt/user_software/coot/bin-gtk4/share/coot"' -DPACKAGE_LOCALE_DIR='"/opt/user_software/coot/bin-gtk4/share/coot/locale"' -DPKGPYTHONDIR='"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/coot"' -DPYTHONDIR='"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages"' -DXDATADIR='"/opt/user_software/coot/bin-gtk4/share"' -DCOOT_SYS_BUILD_TYPE='"Linux-x86_64-ubuntu-22.04.4-gtk4"' -DCOOT_BUILD_INFO_STRING='"build-host: gtxr1.srv-local.mpi-dortmund.mpg.de on: Mi 20 Mär 1759.36 CET 2024"' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/opt/user_software/coot/bin-gtk4/include/python3.11 -DHAVE_GSL -fopenmp -g -O -Wall -Wno-unused -std=c++17 -MT molecule-class-info-bonds.lo -MD -MP -MF .deps/molecule-class-info-bonds.Tpo -c -o molecule-class-info-bonds.lo ../../coot/src/molecule-class-info-bonds.cc libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" "-DPACKAGE_STRING=\"coot 1.x-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I../../coot/src -DUSE_PYTHON -mfpmath=sse -msse -msse2 -pthread -I/opt/user_software/coot/bin-gtk4/lib/libffi-3.2.1/include -I/usr/include/gtk-4.0 -I/usr/include/gio-unix-2.0 -I/usr/include/cairo -I/usr/include/pango-1.0 -I/usr/include/harfbuzz -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/harfbuzz -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/x86_64-linux-gnu -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/graphene-1.0 -I/usr/lib/x86_64-linux-gnu/graphene-1.0/include -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I../../coot -I/opt/user_software/coot/bin-gtk4/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/opt/user_software/coot/bin-gtk4/include -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -I/opt/user_software/coot/bin-gtk4/include -DHAVE_SSMLIB -I/opt/user_software/coot/bin-gtk4/include -DMMDB_HAS_LINK_DISTANCE -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DCLIPPER_HAS_TOP8000 -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR=\"/opt/user_software/coot/bin-gtk4/share/coot\" -DPACKAGE_LOCALE_DIR=\"/opt/user_software/coot/bin-gtk4/share/coot/locale\" -DPKGPYTHONDIR=\"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/coot\" -DPYTHONDIR=\"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages\" -DXDATADIR=\"/opt/user_software/coot/bin-gtk4/share\" -DCOOT_SYS_BUILD_TYPE=\"Linux-x86_64-ubuntu-22.04.4-gtk4\" "-DCOOT_BUILD_INFO_STRING=\"build-host: gtxr1.srv-local.mpi-dortmund.mpg.de on: Mi 20 Mär 1759.36 CET 2024\"" -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/opt/user_software/coot/bin-gtk4/include/python3.11 -DHAVE_GSL -fopenmp -g -O -Wall -Wno-unused -std=c++17 -MT molecule-class-info-analysis.lo -MD -MP -MF .deps/molecule-class-info-analysis.Tpo -c ../../coot/src/molecule-class-info-analysis.cc -fPIC -DPIC -o .libs/molecule-class-info-analysis.o In file included from ../../coot/src/molecule-class-info.h:59, from ../../coot/src/molecule-class-info-analysis.cc:3: ../../coot/MoleculesToTriangles/CXXClasses/RendererGL.h:61: warning: ignoring ‘#pragma mark ’ [-Wunknown-pragmas] 61 | #pragma mark - | ../../coot/MoleculesToTriangles/CXXClasses/RendererGL.h:62: warning: ignoring ‘#pragma mark Debug’ [-Wunknown-pragmas] 62 | #pragma mark Debug routine | libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" "-DPACKAGE_STRING=\"coot 1.x-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I../../coot/src -DUSE_PYTHON -mfpmath=sse -msse -msse2 -pthread -I/opt/user_software/coot/bin-gtk4/lib/libffi-3.2.1/include -I/usr/include/gtk-4.0 -I/usr/include/gio-unix-2.0 -I/usr/include/cairo -I/usr/include/pango-1.0 -I/usr/include/harfbuzz -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/harfbuzz -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/x86_64-linux-gnu -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/graphene-1.0 -I/usr/lib/x86_64-linux-gnu/graphene-1.0/include -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I../../coot -I/opt/user_software/coot/bin-gtk4/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/opt/user_software/coot/bin-gtk4/include -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -I/opt/user_software/coot/bin-gtk4/include -DHAVE_SSMLIB -I/opt/user_software/coot/bin-gtk4/include -DMMDB_HAS_LINK_DISTANCE -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DCLIPPER_HAS_TOP8000 -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR=\"/opt/user_software/coot/bin-gtk4/share/coot\" -DPACKAGE_LOCALE_DIR=\"/opt/user_software/coot/bin-gtk4/share/coot/locale\" -DPKGPYTHONDIR=\"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/coot\" -DPYTHONDIR=\"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages\" -DXDATADIR=\"/opt/user_software/coot/bin-gtk4/share\" -DCOOT_SYS_BUILD_TYPE=\"Linux-x86_64-ubuntu-22.04.4-gtk4\" "-DCOOT_BUILD_INFO_STRING=\"build-host: gtxr1.srv-local.mpi-dortmund.mpg.de on: Mi 20 Mär 1759.36 CET 2024\"" -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/opt/user_software/coot/bin-gtk4/include/python3.11 -DHAVE_GSL -fopenmp -g -O -Wall -Wno-unused -std=c++17 -MT molecule-class-info-bonds.lo -MD -MP -MF .deps/molecule-class-info-bonds.Tpo -c ../../coot/src/molecule-class-info-bonds.cc -fPIC -DPIC -o .libs/molecule-class-info-bonds.o In file included from ../../coot/src/molecule-class-info.h:59, from ../../coot/src/molecule-class-info-bonds.cc:22: ../../coot/MoleculesToTriangles/CXXClasses/RendererGL.h:61: warning: ignoring ‘#pragma mark ’ [-Wunknown-pragmas] 61 | #pragma mark - | ../../coot/MoleculesToTriangles/CXXClasses/RendererGL.h:62: warning: ignoring ‘#pragma mark Debug’ [-Wunknown-pragmas] 62 | #pragma mark Debug routine | mv -f .deps/Mesh-from-glTF.Tpo .deps/Mesh-from-glTF.Plo /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" -DPACKAGE_STRING=\"coot\ 1.x-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I../../coot/src -DUSE_PYTHON -mfpmath=sse -msse -msse2 -pthread -I/opt/user_software/coot/bin-gtk4/lib/libffi-3.2.1/include -I/usr/include/gtk-4.0 -I/usr/include/gio-unix-2.0 -I/usr/include/cairo -I/usr/include/pango-1.0 -I/usr/include/harfbuzz -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/harfbuzz -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/x86_64-linux-gnu -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/graphene-1.0 -I/usr/lib/x86_64-linux-gnu/graphene-1.0/include -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I../../coot -I/opt/user_software/coot/bin-gtk4/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/opt/user_software/coot/bin-gtk4/include -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -I/opt/user_software/coot/bin-gtk4/include -DHAVE_SSMLIB -I/opt/user_software/coot/bin-gtk4/include -DMMDB_HAS_LINK_DISTANCE -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DCLIPPER_HAS_TOP8000 -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR='"/opt/user_software/coot/bin-gtk4/share/coot"' -DPACKAGE_LOCALE_DIR='"/opt/user_software/coot/bin-gtk4/share/coot/locale"' -DPKGPYTHONDIR='"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/coot"' -DPYTHONDIR='"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages"' -DXDATADIR='"/opt/user_software/coot/bin-gtk4/share"' -DCOOT_SYS_BUILD_TYPE='"Linux-x86_64-ubuntu-22.04.4-gtk4"' -DCOOT_BUILD_INFO_STRING='"build-host: gtxr1.srv-local.mpi-dortmund.mpg.de on: Mi 20 Mär 1759.36 CET 2024"' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/opt/user_software/coot/bin-gtk4/include/python3.11 -DHAVE_GSL -fopenmp -g -O -Wall -Wno-unused -std=c++17 -MT molecule-class-info-build.lo -MD -MP -MF .deps/molecule-class-info-build.Tpo -c -o molecule-class-info-build.lo ../../coot/src/molecule-class-info-build.cc libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" "-DPACKAGE_STRING=\"coot 1.x-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I../../coot/src -DUSE_PYTHON -mfpmath=sse -msse -msse2 -pthread -I/opt/user_software/coot/bin-gtk4/lib/libffi-3.2.1/include -I/usr/include/gtk-4.0 -I/usr/include/gio-unix-2.0 -I/usr/include/cairo -I/usr/include/pango-1.0 -I/usr/include/harfbuzz -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/harfbuzz -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/x86_64-linux-gnu -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/graphene-1.0 -I/usr/lib/x86_64-linux-gnu/graphene-1.0/include -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I../../coot -I/opt/user_software/coot/bin-gtk4/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/opt/user_software/coot/bin-gtk4/include -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -I/opt/user_software/coot/bin-gtk4/include -DHAVE_SSMLIB -I/opt/user_software/coot/bin-gtk4/include -DMMDB_HAS_LINK_DISTANCE -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DCLIPPER_HAS_TOP8000 -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR=\"/opt/user_software/coot/bin-gtk4/share/coot\" -DPACKAGE_LOCALE_DIR=\"/opt/user_software/coot/bin-gtk4/share/coot/locale\" -DPKGPYTHONDIR=\"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/coot\" -DPYTHONDIR=\"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages\" -DXDATADIR=\"/opt/user_software/coot/bin-gtk4/share\" -DCOOT_SYS_BUILD_TYPE=\"Linux-x86_64-ubuntu-22.04.4-gtk4\" "-DCOOT_BUILD_INFO_STRING=\"build-host: gtxr1.srv-local.mpi-dortmund.mpg.de on: Mi 20 Mär 1759.36 CET 2024\"" -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/opt/user_software/coot/bin-gtk4/include/python3.11 -DHAVE_GSL -fopenmp -g -O -Wall -Wno-unused -std=c++17 -MT molecule-class-info-build.lo -MD -MP -MF .deps/molecule-class-info-build.Tpo -c ../../coot/src/molecule-class-info-build.cc -fPIC -DPIC -o .libs/molecule-class-info-build.o mv -f .deps/lbg-interface.Tpo .deps/lbg-interface.Plo /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" -DPACKAGE_STRING=\"coot\ 1.x-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I../../coot/src -DUSE_PYTHON -mfpmath=sse -msse -msse2 -pthread -I/opt/user_software/coot/bin-gtk4/lib/libffi-3.2.1/include -I/usr/include/gtk-4.0 -I/usr/include/gio-unix-2.0 -I/usr/include/cairo -I/usr/include/pango-1.0 -I/usr/include/harfbuzz -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/harfbuzz -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/x86_64-linux-gnu -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/graphene-1.0 -I/usr/lib/x86_64-linux-gnu/graphene-1.0/include -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I../../coot -I/opt/user_software/coot/bin-gtk4/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/opt/user_software/coot/bin-gtk4/include -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -I/opt/user_software/coot/bin-gtk4/include -DHAVE_SSMLIB -I/opt/user_software/coot/bin-gtk4/include -DMMDB_HAS_LINK_DISTANCE -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DCLIPPER_HAS_TOP8000 -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR='"/opt/user_software/coot/bin-gtk4/share/coot"' -DPACKAGE_LOCALE_DIR='"/opt/user_software/coot/bin-gtk4/share/coot/locale"' -DPKGPYTHONDIR='"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/coot"' -DPYTHONDIR='"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages"' -DXDATADIR='"/opt/user_software/coot/bin-gtk4/share"' -DCOOT_SYS_BUILD_TYPE='"Linux-x86_64-ubuntu-22.04.4-gtk4"' -DCOOT_BUILD_INFO_STRING='"build-host: gtxr1.srv-local.mpi-dortmund.mpg.de on: Mi 20 Mär 1759.36 CET 2024"' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/opt/user_software/coot/bin-gtk4/include/python3.11 -DHAVE_GSL -fopenmp -g -O -Wall -Wno-unused -std=c++17 -MT molecule-class-info-maps.lo -MD -MP -MF .deps/molecule-class-info-maps.Tpo -c -o molecule-class-info-maps.lo ../../coot/src/molecule-class-info-maps.cc In file included from ../../coot/src/molecule-class-info.h:59, from ../../coot/src/molecule-class-info-build.cc:36: ../../coot/MoleculesToTriangles/CXXClasses/RendererGL.h:61: warning: ignoring ‘#pragma mark ’ [-Wunknown-pragmas] 61 | #pragma mark - | ../../coot/MoleculesToTriangles/CXXClasses/RendererGL.h:62: warning: ignoring ‘#pragma mark Debug’ [-Wunknown-pragmas] 62 | #pragma mark Debug routine | libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" "-DPACKAGE_STRING=\"coot 1.x-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I../../coot/src -DUSE_PYTHON -mfpmath=sse -msse -msse2 -pthread -I/opt/user_software/coot/bin-gtk4/lib/libffi-3.2.1/include -I/usr/include/gtk-4.0 -I/usr/include/gio-unix-2.0 -I/usr/include/cairo -I/usr/include/pango-1.0 -I/usr/include/harfbuzz -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/harfbuzz -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/x86_64-linux-gnu -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/graphene-1.0 -I/usr/lib/x86_64-linux-gnu/graphene-1.0/include -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I../../coot -I/opt/user_software/coot/bin-gtk4/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/opt/user_software/coot/bin-gtk4/include -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -I/opt/user_software/coot/bin-gtk4/include -DHAVE_SSMLIB -I/opt/user_software/coot/bin-gtk4/include -DMMDB_HAS_LINK_DISTANCE -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DCLIPPER_HAS_TOP8000 -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR=\"/opt/user_software/coot/bin-gtk4/share/coot\" -DPACKAGE_LOCALE_DIR=\"/opt/user_software/coot/bin-gtk4/share/coot/locale\" -DPKGPYTHONDIR=\"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/coot\" -DPYTHONDIR=\"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages\" -DXDATADIR=\"/opt/user_software/coot/bin-gtk4/share\" -DCOOT_SYS_BUILD_TYPE=\"Linux-x86_64-ubuntu-22.04.4-gtk4\" "-DCOOT_BUILD_INFO_STRING=\"build-host: gtxr1.srv-local.mpi-dortmund.mpg.de on: Mi 20 Mär 1759.36 CET 2024\"" -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/opt/user_software/coot/bin-gtk4/include/python3.11 -DHAVE_GSL -fopenmp -g -O -Wall -Wno-unused -std=c++17 -MT molecule-class-info-maps.lo -MD -MP -MF .deps/molecule-class-info-maps.Tpo -c ../../coot/src/molecule-class-info-maps.cc -fPIC -DPIC -o .libs/molecule-class-info-maps.o In file included from ../../coot/src/molecule-class-info.h:59, from ../../coot/src/molecule-class-info-maps.cc:55: ../../coot/MoleculesToTriangles/CXXClasses/RendererGL.h:61: warning: ignoring ‘#pragma mark ’ [-Wunknown-pragmas] 61 | #pragma mark - | ../../coot/MoleculesToTriangles/CXXClasses/RendererGL.h:62: warning: ignoring ‘#pragma mark Debug’ [-Wunknown-pragmas] 62 | #pragma mark Debug routine | mv -f .deps/molecule-class-info-alignment.Tpo .deps/molecule-class-info-alignment.Plo /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" -DPACKAGE_STRING=\"coot\ 1.x-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I../../coot/src -DUSE_PYTHON -mfpmath=sse -msse -msse2 -pthread -I/opt/user_software/coot/bin-gtk4/lib/libffi-3.2.1/include -I/usr/include/gtk-4.0 -I/usr/include/gio-unix-2.0 -I/usr/include/cairo -I/usr/include/pango-1.0 -I/usr/include/harfbuzz -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/harfbuzz -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/x86_64-linux-gnu -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/graphene-1.0 -I/usr/lib/x86_64-linux-gnu/graphene-1.0/include -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I../../coot -I/opt/user_software/coot/bin-gtk4/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/opt/user_software/coot/bin-gtk4/include -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -I/opt/user_software/coot/bin-gtk4/include -DHAVE_SSMLIB -I/opt/user_software/coot/bin-gtk4/include -DMMDB_HAS_LINK_DISTANCE -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DCLIPPER_HAS_TOP8000 -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR='"/opt/user_software/coot/bin-gtk4/share/coot"' -DPACKAGE_LOCALE_DIR='"/opt/user_software/coot/bin-gtk4/share/coot/locale"' -DPKGPYTHONDIR='"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/coot"' -DPYTHONDIR='"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages"' -DXDATADIR='"/opt/user_software/coot/bin-gtk4/share"' -DCOOT_SYS_BUILD_TYPE='"Linux-x86_64-ubuntu-22.04.4-gtk4"' -DCOOT_BUILD_INFO_STRING='"build-host: gtxr1.srv-local.mpi-dortmund.mpg.de on: Mi 20 Mär 1759.36 CET 2024"' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/opt/user_software/coot/bin-gtk4/include/python3.11 -DHAVE_GSL -fopenmp -g -O -Wall -Wno-unused -std=c++17 -MT molecule-class-info-maps-2.lo -MD -MP -MF .deps/molecule-class-info-maps-2.Tpo -c -o molecule-class-info-maps-2.lo ../../coot/src/molecule-class-info-maps-2.cc mv -f .deps/meshed-generic-display-object.Tpo .deps/meshed-generic-display-object.Plo /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" -DPACKAGE_STRING=\"coot\ 1.x-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I../../coot/src -DUSE_PYTHON -mfpmath=sse -msse -msse2 -pthread -I/opt/user_software/coot/bin-gtk4/lib/libffi-3.2.1/include -I/usr/include/gtk-4.0 -I/usr/include/gio-unix-2.0 -I/usr/include/cairo -I/usr/include/pango-1.0 -I/usr/include/harfbuzz -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/harfbuzz -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/x86_64-linux-gnu -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/graphene-1.0 -I/usr/lib/x86_64-linux-gnu/graphene-1.0/include -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I../../coot -I/opt/user_software/coot/bin-gtk4/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/opt/user_software/coot/bin-gtk4/include -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -I/opt/user_software/coot/bin-gtk4/include -DHAVE_SSMLIB -I/opt/user_software/coot/bin-gtk4/include -DMMDB_HAS_LINK_DISTANCE -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DCLIPPER_HAS_TOP8000 -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR='"/opt/user_software/coot/bin-gtk4/share/coot"' -DPACKAGE_LOCALE_DIR='"/opt/user_software/coot/bin-gtk4/share/coot/locale"' -DPKGPYTHONDIR='"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/coot"' -DPYTHONDIR='"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages"' -DXDATADIR='"/opt/user_software/coot/bin-gtk4/share"' -DCOOT_SYS_BUILD_TYPE='"Linux-x86_64-ubuntu-22.04.4-gtk4"' -DCOOT_BUILD_INFO_STRING='"build-host: gtxr1.srv-local.mpi-dortmund.mpg.de on: Mi 20 Mär 1759.36 CET 2024"' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/opt/user_software/coot/bin-gtk4/include/python3.11 -DHAVE_GSL -fopenmp -g -O -Wall -Wno-unused -std=c++17 -MT molecule-class-info-molecular-symmetry.lo -MD -MP -MF .deps/molecule-class-info-molecular-symmetry.Tpo -c -o molecule-class-info-molecular-symmetry.lo ../../coot/src/molecule-class-info-molecular-symmetry.cc mv -f .deps/molecule-class-info-analysis.Tpo .deps/molecule-class-info-analysis.Plo /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" -DPACKAGE_STRING=\"coot\ 1.x-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I../../coot/src -DUSE_PYTHON -mfpmath=sse -msse -msse2 -pthread -I/opt/user_software/coot/bin-gtk4/lib/libffi-3.2.1/include -I/usr/include/gtk-4.0 -I/usr/include/gio-unix-2.0 -I/usr/include/cairo -I/usr/include/pango-1.0 -I/usr/include/harfbuzz -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/harfbuzz -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/x86_64-linux-gnu -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/graphene-1.0 -I/usr/lib/x86_64-linux-gnu/graphene-1.0/include -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I../../coot -I/opt/user_software/coot/bin-gtk4/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/opt/user_software/coot/bin-gtk4/include -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -I/opt/user_software/coot/bin-gtk4/include -DHAVE_SSMLIB -I/opt/user_software/coot/bin-gtk4/include -DMMDB_HAS_LINK_DISTANCE -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DCLIPPER_HAS_TOP8000 -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR='"/opt/user_software/coot/bin-gtk4/share/coot"' -DPACKAGE_LOCALE_DIR='"/opt/user_software/coot/bin-gtk4/share/coot/locale"' -DPKGPYTHONDIR='"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/coot"' -DPYTHONDIR='"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages"' -DXDATADIR='"/opt/user_software/coot/bin-gtk4/share"' -DCOOT_SYS_BUILD_TYPE='"Linux-x86_64-ubuntu-22.04.4-gtk4"' -DCOOT_BUILD_INFO_STRING='"build-host: gtxr1.srv-local.mpi-dortmund.mpg.de on: Mi 20 Mär 1759.36 CET 2024"' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/opt/user_software/coot/bin-gtk4/include/python3.11 -DHAVE_GSL -fopenmp -g -O -Wall -Wno-unused -std=c++17 -MT molecule-class-info-kdc.lo -MD -MP -MF .deps/molecule-class-info-kdc.Tpo -c -o molecule-class-info-kdc.lo ../../coot/src/molecule-class-info-kdc.cc libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" "-DPACKAGE_STRING=\"coot 1.x-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I../../coot/src -DUSE_PYTHON -mfpmath=sse -msse -msse2 -pthread -I/opt/user_software/coot/bin-gtk4/lib/libffi-3.2.1/include -I/usr/include/gtk-4.0 -I/usr/include/gio-unix-2.0 -I/usr/include/cairo -I/usr/include/pango-1.0 -I/usr/include/harfbuzz -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/harfbuzz -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/x86_64-linux-gnu -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/graphene-1.0 -I/usr/lib/x86_64-linux-gnu/graphene-1.0/include -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I../../coot -I/opt/user_software/coot/bin-gtk4/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/opt/user_software/coot/bin-gtk4/include -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -I/opt/user_software/coot/bin-gtk4/include -DHAVE_SSMLIB -I/opt/user_software/coot/bin-gtk4/include -DMMDB_HAS_LINK_DISTANCE -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DCLIPPER_HAS_TOP8000 -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR=\"/opt/user_software/coot/bin-gtk4/share/coot\" -DPACKAGE_LOCALE_DIR=\"/opt/user_software/coot/bin-gtk4/share/coot/locale\" -DPKGPYTHONDIR=\"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/coot\" -DPYTHONDIR=\"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages\" -DXDATADIR=\"/opt/user_software/coot/bin-gtk4/share\" -DCOOT_SYS_BUILD_TYPE=\"Linux-x86_64-ubuntu-22.04.4-gtk4\" "-DCOOT_BUILD_INFO_STRING=\"build-host: gtxr1.srv-local.mpi-dortmund.mpg.de on: Mi 20 Mär 1759.36 CET 2024\"" -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/opt/user_software/coot/bin-gtk4/include/python3.11 -DHAVE_GSL -fopenmp -g -O -Wall -Wno-unused -std=c++17 -MT molecule-class-info-maps-2.lo -MD -MP -MF .deps/molecule-class-info-maps-2.Tpo -c ../../coot/src/molecule-class-info-maps-2.cc -fPIC -DPIC -o .libs/molecule-class-info-maps-2.o libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" "-DPACKAGE_STRING=\"coot 1.x-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I../../coot/src -DUSE_PYTHON -mfpmath=sse -msse -msse2 -pthread -I/opt/user_software/coot/bin-gtk4/lib/libffi-3.2.1/include -I/usr/include/gtk-4.0 -I/usr/include/gio-unix-2.0 -I/usr/include/cairo -I/usr/include/pango-1.0 -I/usr/include/harfbuzz -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/harfbuzz -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/x86_64-linux-gnu -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/graphene-1.0 -I/usr/lib/x86_64-linux-gnu/graphene-1.0/include -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I../../coot -I/opt/user_software/coot/bin-gtk4/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/opt/user_software/coot/bin-gtk4/include -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -I/opt/user_software/coot/bin-gtk4/include -DHAVE_SSMLIB -I/opt/user_software/coot/bin-gtk4/include -DMMDB_HAS_LINK_DISTANCE -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DCLIPPER_HAS_TOP8000 -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR=\"/opt/user_software/coot/bin-gtk4/share/coot\" -DPACKAGE_LOCALE_DIR=\"/opt/user_software/coot/bin-gtk4/share/coot/locale\" -DPKGPYTHONDIR=\"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/coot\" -DPYTHONDIR=\"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages\" -DXDATADIR=\"/opt/user_software/coot/bin-gtk4/share\" -DCOOT_SYS_BUILD_TYPE=\"Linux-x86_64-ubuntu-22.04.4-gtk4\" "-DCOOT_BUILD_INFO_STRING=\"build-host: gtxr1.srv-local.mpi-dortmund.mpg.de on: Mi 20 Mär 1759.36 CET 2024\"" -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/opt/user_software/coot/bin-gtk4/include/python3.11 -DHAVE_GSL -fopenmp -g -O -Wall -Wno-unused -std=c++17 -MT molecule-class-info-molecular-symmetry.lo -MD -MP -MF .deps/molecule-class-info-molecular-symmetry.Tpo -c ../../coot/src/molecule-class-info-molecular-symmetry.cc -fPIC -DPIC -o .libs/molecule-class-info-molecular-symmetry.o In file included from ../../coot/src/molecule-class-info.h:59, from ../../coot/src/molecule-class-info-molecular-symmetry.cc:22: ../../coot/MoleculesToTriangles/CXXClasses/RendererGL.h:61: warning: ignoring ‘#pragma mark ’ [-Wunknown-pragmas] 61 | #pragma mark - | ../../coot/MoleculesToTriangles/CXXClasses/RendererGL.h:62: warning: ignoring ‘#pragma mark Debug’ [-Wunknown-pragmas] 62 | #pragma mark Debug routine | In file included from ../../coot/src/molecule-class-info.h:59, from ../../coot/src/molecule-class-info-maps-2.cc:26: ../../coot/MoleculesToTriangles/CXXClasses/RendererGL.h:61: warning: ignoring ‘#pragma mark ’ [-Wunknown-pragmas] 61 | #pragma mark - | ../../coot/MoleculesToTriangles/CXXClasses/RendererGL.h:62: warning: ignoring ‘#pragma mark Debug’ [-Wunknown-pragmas] 62 | #pragma mark Debug routine | libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" "-DPACKAGE_STRING=\"coot 1.x-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I../../coot/src -DUSE_PYTHON -mfpmath=sse -msse -msse2 -pthread -I/opt/user_software/coot/bin-gtk4/lib/libffi-3.2.1/include -I/usr/include/gtk-4.0 -I/usr/include/gio-unix-2.0 -I/usr/include/cairo -I/usr/include/pango-1.0 -I/usr/include/harfbuzz -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/harfbuzz -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/x86_64-linux-gnu -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/graphene-1.0 -I/usr/lib/x86_64-linux-gnu/graphene-1.0/include -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I../../coot -I/opt/user_software/coot/bin-gtk4/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/opt/user_software/coot/bin-gtk4/include -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -I/opt/user_software/coot/bin-gtk4/include -DHAVE_SSMLIB -I/opt/user_software/coot/bin-gtk4/include -DMMDB_HAS_LINK_DISTANCE -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DCLIPPER_HAS_TOP8000 -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR=\"/opt/user_software/coot/bin-gtk4/share/coot\" -DPACKAGE_LOCALE_DIR=\"/opt/user_software/coot/bin-gtk4/share/coot/locale\" -DPKGPYTHONDIR=\"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/coot\" -DPYTHONDIR=\"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages\" -DXDATADIR=\"/opt/user_software/coot/bin-gtk4/share\" -DCOOT_SYS_BUILD_TYPE=\"Linux-x86_64-ubuntu-22.04.4-gtk4\" "-DCOOT_BUILD_INFO_STRING=\"build-host: gtxr1.srv-local.mpi-dortmund.mpg.de on: Mi 20 Mär 1759.36 CET 2024\"" -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/opt/user_software/coot/bin-gtk4/include/python3.11 -DHAVE_GSL -fopenmp -g -O -Wall -Wno-unused -std=c++17 -MT molecule-class-info-kdc.lo -MD -MP -MF .deps/molecule-class-info-kdc.Tpo -c ../../coot/src/molecule-class-info-kdc.cc -fPIC -DPIC -o .libs/molecule-class-info-kdc.o In file included from ../../coot/src/molecule-class-info.h:59, from ../../coot/src/molecule-class-info-kdc.cc:32: ../../coot/MoleculesToTriangles/CXXClasses/RendererGL.h:61: warning: ignoring ‘#pragma mark ’ [-Wunknown-pragmas] 61 | #pragma mark - | ../../coot/MoleculesToTriangles/CXXClasses/RendererGL.h:62: warning: ignoring ‘#pragma mark Debug’ [-Wunknown-pragmas] 62 | #pragma mark Debug routine | mv -f .deps/model-molecule-meshes.Tpo .deps/model-molecule-meshes.Plo /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" -DPACKAGE_STRING=\"coot\ 1.x-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I../../coot/src -DUSE_PYTHON -mfpmath=sse -msse -msse2 -pthread -I/opt/user_software/coot/bin-gtk4/lib/libffi-3.2.1/include -I/usr/include/gtk-4.0 -I/usr/include/gio-unix-2.0 -I/usr/include/cairo -I/usr/include/pango-1.0 -I/usr/include/harfbuzz -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/harfbuzz -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/x86_64-linux-gnu -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/graphene-1.0 -I/usr/lib/x86_64-linux-gnu/graphene-1.0/include -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I../../coot -I/opt/user_software/coot/bin-gtk4/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/opt/user_software/coot/bin-gtk4/include -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -I/opt/user_software/coot/bin-gtk4/include -DHAVE_SSMLIB -I/opt/user_software/coot/bin-gtk4/include -DMMDB_HAS_LINK_DISTANCE -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DCLIPPER_HAS_TOP8000 -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR='"/opt/user_software/coot/bin-gtk4/share/coot"' -DPACKAGE_LOCALE_DIR='"/opt/user_software/coot/bin-gtk4/share/coot/locale"' -DPKGPYTHONDIR='"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/coot"' -DPYTHONDIR='"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages"' -DXDATADIR='"/opt/user_software/coot/bin-gtk4/share"' -DCOOT_SYS_BUILD_TYPE='"Linux-x86_64-ubuntu-22.04.4-gtk4"' -DCOOT_BUILD_INFO_STRING='"build-host: gtxr1.srv-local.mpi-dortmund.mpg.de on: Mi 20 Mär 1759.36 CET 2024"' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/opt/user_software/coot/bin-gtk4/include/python3.11 -DHAVE_GSL -fopenmp -g -O -Wall -Wno-unused -std=c++17 -MT molecule-class-info-dots.lo -MD -MP -MF .deps/molecule-class-info-dots.Tpo -c -o molecule-class-info-dots.lo ../../coot/src/molecule-class-info-dots.cc libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" "-DPACKAGE_STRING=\"coot 1.x-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I../../coot/src -DUSE_PYTHON -mfpmath=sse -msse -msse2 -pthread -I/opt/user_software/coot/bin-gtk4/lib/libffi-3.2.1/include -I/usr/include/gtk-4.0 -I/usr/include/gio-unix-2.0 -I/usr/include/cairo -I/usr/include/pango-1.0 -I/usr/include/harfbuzz -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/harfbuzz -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/x86_64-linux-gnu -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/graphene-1.0 -I/usr/lib/x86_64-linux-gnu/graphene-1.0/include -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I../../coot -I/opt/user_software/coot/bin-gtk4/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/opt/user_software/coot/bin-gtk4/include -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -I/opt/user_software/coot/bin-gtk4/include -DHAVE_SSMLIB -I/opt/user_software/coot/bin-gtk4/include -DMMDB_HAS_LINK_DISTANCE -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DCLIPPER_HAS_TOP8000 -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR=\"/opt/user_software/coot/bin-gtk4/share/coot\" -DPACKAGE_LOCALE_DIR=\"/opt/user_software/coot/bin-gtk4/share/coot/locale\" -DPKGPYTHONDIR=\"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/coot\" -DPYTHONDIR=\"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages\" -DXDATADIR=\"/opt/user_software/coot/bin-gtk4/share\" -DCOOT_SYS_BUILD_TYPE=\"Linux-x86_64-ubuntu-22.04.4-gtk4\" "-DCOOT_BUILD_INFO_STRING=\"build-host: gtxr1.srv-local.mpi-dortmund.mpg.de on: Mi 20 Mär 1759.36 CET 2024\"" -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/opt/user_software/coot/bin-gtk4/include/python3.11 -DHAVE_GSL -fopenmp -g -O -Wall -Wno-unused -std=c++17 -MT molecule-class-info-dots.lo -MD -MP -MF .deps/molecule-class-info-dots.Tpo -c ../../coot/src/molecule-class-info-dots.cc -fPIC -DPIC -o .libs/molecule-class-info-dots.o mv -f .deps/molecule-class-info-build.Tpo .deps/molecule-class-info-build.Plo /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" -DPACKAGE_STRING=\"coot\ 1.x-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I../../coot/src -DUSE_PYTHON -mfpmath=sse -msse -msse2 -pthread -I/opt/user_software/coot/bin-gtk4/lib/libffi-3.2.1/include -I/usr/include/gtk-4.0 -I/usr/include/gio-unix-2.0 -I/usr/include/cairo -I/usr/include/pango-1.0 -I/usr/include/harfbuzz -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/harfbuzz -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/x86_64-linux-gnu -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/graphene-1.0 -I/usr/lib/x86_64-linux-gnu/graphene-1.0/include -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I../../coot -I/opt/user_software/coot/bin-gtk4/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/opt/user_software/coot/bin-gtk4/include -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -I/opt/user_software/coot/bin-gtk4/include -DHAVE_SSMLIB -I/opt/user_software/coot/bin-gtk4/include -DMMDB_HAS_LINK_DISTANCE -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DCLIPPER_HAS_TOP8000 -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR='"/opt/user_software/coot/bin-gtk4/share/coot"' -DPACKAGE_LOCALE_DIR='"/opt/user_software/coot/bin-gtk4/share/coot/locale"' -DPKGPYTHONDIR='"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/coot"' -DPYTHONDIR='"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages"' -DXDATADIR='"/opt/user_software/coot/bin-gtk4/share"' -DCOOT_SYS_BUILD_TYPE='"Linux-x86_64-ubuntu-22.04.4-gtk4"' -DCOOT_BUILD_INFO_STRING='"build-host: gtxr1.srv-local.mpi-dortmund.mpg.de on: Mi 20 Mär 1759.36 CET 2024"' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/opt/user_software/coot/bin-gtk4/include/python3.11 -DHAVE_GSL -fopenmp -g -O -Wall -Wno-unused -std=c++17 -MT molecule-class-info-dots-internal.lo -MD -MP -MF .deps/molecule-class-info-dots-internal.Tpo -c -o molecule-class-info-dots-internal.lo ../../coot/src/molecule-class-info-dots-internal.cc libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" "-DPACKAGE_STRING=\"coot 1.x-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I../../coot/src -DUSE_PYTHON -mfpmath=sse -msse -msse2 -pthread -I/opt/user_software/coot/bin-gtk4/lib/libffi-3.2.1/include -I/usr/include/gtk-4.0 -I/usr/include/gio-unix-2.0 -I/usr/include/cairo -I/usr/include/pango-1.0 -I/usr/include/harfbuzz -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/harfbuzz -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/x86_64-linux-gnu -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/graphene-1.0 -I/usr/lib/x86_64-linux-gnu/graphene-1.0/include -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I../../coot -I/opt/user_software/coot/bin-gtk4/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/opt/user_software/coot/bin-gtk4/include -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -I/opt/user_software/coot/bin-gtk4/include -DHAVE_SSMLIB -I/opt/user_software/coot/bin-gtk4/include -DMMDB_HAS_LINK_DISTANCE -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DCLIPPER_HAS_TOP8000 -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR=\"/opt/user_software/coot/bin-gtk4/share/coot\" -DPACKAGE_LOCALE_DIR=\"/opt/user_software/coot/bin-gtk4/share/coot/locale\" -DPKGPYTHONDIR=\"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/coot\" -DPYTHONDIR=\"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages\" -DXDATADIR=\"/opt/user_software/coot/bin-gtk4/share\" -DCOOT_SYS_BUILD_TYPE=\"Linux-x86_64-ubuntu-22.04.4-gtk4\" "-DCOOT_BUILD_INFO_STRING=\"build-host: gtxr1.srv-local.mpi-dortmund.mpg.de on: Mi 20 Mär 1759.36 CET 2024\"" -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/opt/user_software/coot/bin-gtk4/include/python3.11 -DHAVE_GSL -fopenmp -g -O -Wall -Wno-unused -std=c++17 -MT molecule-class-info-dots-internal.lo -MD -MP -MF .deps/molecule-class-info-dots-internal.Tpo -c ../../coot/src/molecule-class-info-dots-internal.cc -fPIC -DPIC -o .libs/molecule-class-info-dots-internal.o mv -f .deps/molecule-class-info-dots-internal.Tpo .deps/molecule-class-info-dots-internal.Plo /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" -DPACKAGE_STRING=\"coot\ 1.x-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I../../coot/src -DUSE_PYTHON -mfpmath=sse -msse -msse2 -pthread -I/opt/user_software/coot/bin-gtk4/lib/libffi-3.2.1/include -I/usr/include/gtk-4.0 -I/usr/include/gio-unix-2.0 -I/usr/include/cairo -I/usr/include/pango-1.0 -I/usr/include/harfbuzz -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/harfbuzz -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/x86_64-linux-gnu -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/graphene-1.0 -I/usr/lib/x86_64-linux-gnu/graphene-1.0/include -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I../../coot -I/opt/user_software/coot/bin-gtk4/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/opt/user_software/coot/bin-gtk4/include -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -I/opt/user_software/coot/bin-gtk4/include -DHAVE_SSMLIB -I/opt/user_software/coot/bin-gtk4/include -DMMDB_HAS_LINK_DISTANCE -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DCLIPPER_HAS_TOP8000 -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR='"/opt/user_software/coot/bin-gtk4/share/coot"' -DPACKAGE_LOCALE_DIR='"/opt/user_software/coot/bin-gtk4/share/coot/locale"' -DPKGPYTHONDIR='"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/coot"' -DPYTHONDIR='"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages"' -DXDATADIR='"/opt/user_software/coot/bin-gtk4/share"' -DCOOT_SYS_BUILD_TYPE='"Linux-x86_64-ubuntu-22.04.4-gtk4"' -DCOOT_BUILD_INFO_STRING='"build-host: gtxr1.srv-local.mpi-dortmund.mpg.de on: Mi 20 Mär 1759.36 CET 2024"' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/opt/user_software/coot/bin-gtk4/include/python3.11 -DHAVE_GSL -fopenmp -g -O -Wall -Wno-unused -std=c++17 -MT molecule-class-info-other.lo -MD -MP -MF .deps/molecule-class-info-other.Tpo -c -o molecule-class-info-other.lo ../../coot/src/molecule-class-info-other.cc In file included from ../../coot/MoleculesToTriangles/CXXClasses/RendererGLSL.hpp:31, from ../../coot/src/graphics-info.h:53, from ../../coot/src/molecule-class-info-dots.cc:3: ../../coot/MoleculesToTriangles/CXXClasses/RendererGL.h:61: warning: ignoring ‘#pragma mark ’ [-Wunknown-pragmas] 61 | #pragma mark - | ../../coot/MoleculesToTriangles/CXXClasses/RendererGL.h:62: warning: ignoring ‘#pragma mark Debug’ [-Wunknown-pragmas] 62 | #pragma mark Debug routine | mv -f .deps/molecule-class-info-bonds.Tpo .deps/molecule-class-info-bonds.Plo /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" -DPACKAGE_STRING=\"coot\ 1.x-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I../../coot/src -DUSE_PYTHON -mfpmath=sse -msse -msse2 -pthread -I/opt/user_software/coot/bin-gtk4/lib/libffi-3.2.1/include -I/usr/include/gtk-4.0 -I/usr/include/gio-unix-2.0 -I/usr/include/cairo -I/usr/include/pango-1.0 -I/usr/include/harfbuzz -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/harfbuzz -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/x86_64-linux-gnu -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/graphene-1.0 -I/usr/lib/x86_64-linux-gnu/graphene-1.0/include -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I../../coot -I/opt/user_software/coot/bin-gtk4/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/opt/user_software/coot/bin-gtk4/include -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -I/opt/user_software/coot/bin-gtk4/include -DHAVE_SSMLIB -I/opt/user_software/coot/bin-gtk4/include -DMMDB_HAS_LINK_DISTANCE -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DCLIPPER_HAS_TOP8000 -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR='"/opt/user_software/coot/bin-gtk4/share/coot"' -DPACKAGE_LOCALE_DIR='"/opt/user_software/coot/bin-gtk4/share/coot/locale"' -DPKGPYTHONDIR='"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/coot"' -DPYTHONDIR='"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages"' -DXDATADIR='"/opt/user_software/coot/bin-gtk4/share"' -DCOOT_SYS_BUILD_TYPE='"Linux-x86_64-ubuntu-22.04.4-gtk4"' -DCOOT_BUILD_INFO_STRING='"build-host: gtxr1.srv-local.mpi-dortmund.mpg.de on: Mi 20 Mär 1759.36 CET 2024"' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/opt/user_software/coot/bin-gtk4/include/python3.11 -DHAVE_GSL -fopenmp -g -O -Wall -Wno-unused -std=c++17 -MT molecule-class-info-mutate.lo -MD -MP -MF .deps/molecule-class-info-mutate.Tpo -c -o molecule-class-info-mutate.lo ../../coot/src/molecule-class-info-mutate.cc libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" "-DPACKAGE_STRING=\"coot 1.x-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I../../coot/src -DUSE_PYTHON -mfpmath=sse -msse -msse2 -pthread -I/opt/user_software/coot/bin-gtk4/lib/libffi-3.2.1/include -I/usr/include/gtk-4.0 -I/usr/include/gio-unix-2.0 -I/usr/include/cairo -I/usr/include/pango-1.0 -I/usr/include/harfbuzz -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/harfbuzz -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/x86_64-linux-gnu -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/graphene-1.0 -I/usr/lib/x86_64-linux-gnu/graphene-1.0/include -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I../../coot -I/opt/user_software/coot/bin-gtk4/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/opt/user_software/coot/bin-gtk4/include -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -I/opt/user_software/coot/bin-gtk4/include -DHAVE_SSMLIB -I/opt/user_software/coot/bin-gtk4/include -DMMDB_HAS_LINK_DISTANCE -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DCLIPPER_HAS_TOP8000 -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR=\"/opt/user_software/coot/bin-gtk4/share/coot\" -DPACKAGE_LOCALE_DIR=\"/opt/user_software/coot/bin-gtk4/share/coot/locale\" -DPKGPYTHONDIR=\"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/coot\" -DPYTHONDIR=\"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages\" -DXDATADIR=\"/opt/user_software/coot/bin-gtk4/share\" -DCOOT_SYS_BUILD_TYPE=\"Linux-x86_64-ubuntu-22.04.4-gtk4\" "-DCOOT_BUILD_INFO_STRING=\"build-host: gtxr1.srv-local.mpi-dortmund.mpg.de on: Mi 20 Mär 1759.36 CET 2024\"" -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/opt/user_software/coot/bin-gtk4/include/python3.11 -DHAVE_GSL -fopenmp -g -O -Wall -Wno-unused -std=c++17 -MT molecule-class-info-other.lo -MD -MP -MF .deps/molecule-class-info-other.Tpo -c ../../coot/src/molecule-class-info-other.cc -fPIC -DPIC -o .libs/molecule-class-info-other.o In file included from ../../coot/MoleculesToTriangles/CXXClasses/RendererGLSL.hpp:31, from ../../coot/src/graphics-info.h:53, from ../../coot/src/molecule-class-info-other.cc:67: ../../coot/MoleculesToTriangles/CXXClasses/RendererGL.h:61: warning: ignoring ‘#pragma mark ’ [-Wunknown-pragmas] 61 | #pragma mark - | ../../coot/MoleculesToTriangles/CXXClasses/RendererGL.h:62: warning: ignoring ‘#pragma mark Debug’ [-Wunknown-pragmas] 62 | #pragma mark Debug routine | libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" "-DPACKAGE_STRING=\"coot 1.x-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I../../coot/src -DUSE_PYTHON -mfpmath=sse -msse -msse2 -pthread -I/opt/user_software/coot/bin-gtk4/lib/libffi-3.2.1/include -I/usr/include/gtk-4.0 -I/usr/include/gio-unix-2.0 -I/usr/include/cairo -I/usr/include/pango-1.0 -I/usr/include/harfbuzz -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/harfbuzz -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/x86_64-linux-gnu -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/graphene-1.0 -I/usr/lib/x86_64-linux-gnu/graphene-1.0/include -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I../../coot -I/opt/user_software/coot/bin-gtk4/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/opt/user_software/coot/bin-gtk4/include -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -I/opt/user_software/coot/bin-gtk4/include -DHAVE_SSMLIB -I/opt/user_software/coot/bin-gtk4/include -DMMDB_HAS_LINK_DISTANCE -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DCLIPPER_HAS_TOP8000 -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR=\"/opt/user_software/coot/bin-gtk4/share/coot\" -DPACKAGE_LOCALE_DIR=\"/opt/user_software/coot/bin-gtk4/share/coot/locale\" -DPKGPYTHONDIR=\"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/coot\" -DPYTHONDIR=\"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages\" -DXDATADIR=\"/opt/user_software/coot/bin-gtk4/share\" -DCOOT_SYS_BUILD_TYPE=\"Linux-x86_64-ubuntu-22.04.4-gtk4\" "-DCOOT_BUILD_INFO_STRING=\"build-host: gtxr1.srv-local.mpi-dortmund.mpg.de on: Mi 20 Mär 1759.36 CET 2024\"" -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/opt/user_software/coot/bin-gtk4/include/python3.11 -DHAVE_GSL -fopenmp -g -O -Wall -Wno-unused -std=c++17 -MT molecule-class-info-mutate.lo -MD -MP -MF .deps/molecule-class-info-mutate.Tpo -c ../../coot/src/molecule-class-info-mutate.cc -fPIC -DPIC -o .libs/molecule-class-info-mutate.o mv -f .deps/molecule-class-info-molecular-symmetry.Tpo .deps/molecule-class-info-molecular-symmetry.Plo /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" -DPACKAGE_STRING=\"coot\ 1.x-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I../../coot/src -DUSE_PYTHON -mfpmath=sse -msse -msse2 -pthread -I/opt/user_software/coot/bin-gtk4/lib/libffi-3.2.1/include -I/usr/include/gtk-4.0 -I/usr/include/gio-unix-2.0 -I/usr/include/cairo -I/usr/include/pango-1.0 -I/usr/include/harfbuzz -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/harfbuzz -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/x86_64-linux-gnu -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/graphene-1.0 -I/usr/lib/x86_64-linux-gnu/graphene-1.0/include -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I../../coot -I/opt/user_software/coot/bin-gtk4/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/opt/user_software/coot/bin-gtk4/include -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -I/opt/user_software/coot/bin-gtk4/include -DHAVE_SSMLIB -I/opt/user_software/coot/bin-gtk4/include -DMMDB_HAS_LINK_DISTANCE -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DCLIPPER_HAS_TOP8000 -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR='"/opt/user_software/coot/bin-gtk4/share/coot"' -DPACKAGE_LOCALE_DIR='"/opt/user_software/coot/bin-gtk4/share/coot/locale"' -DPKGPYTHONDIR='"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/coot"' -DPYTHONDIR='"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages"' -DXDATADIR='"/opt/user_software/coot/bin-gtk4/share"' -DCOOT_SYS_BUILD_TYPE='"Linux-x86_64-ubuntu-22.04.4-gtk4"' -DCOOT_BUILD_INFO_STRING='"build-host: gtxr1.srv-local.mpi-dortmund.mpg.de on: Mi 20 Mär 1759.36 CET 2024"' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/opt/user_software/coot/bin-gtk4/include/python3.11 -DHAVE_GSL -fopenmp -g -O -Wall -Wno-unused -std=c++17 -MT molecule-class-info-residues.lo -MD -MP -MF .deps/molecule-class-info-residues.Tpo -c -o molecule-class-info-residues.lo ../../coot/src/molecule-class-info-residues.cc In file included from ../../coot/MoleculesToTriangles/CXXClasses/RendererGLSL.hpp:31, from ../../coot/src/graphics-info.h:53, from ../../coot/src/molecule-class-info-mutate.cc:52: ../../coot/MoleculesToTriangles/CXXClasses/RendererGL.h:61: warning: ignoring ‘#pragma mark ’ [-Wunknown-pragmas] 61 | #pragma mark - | ../../coot/MoleculesToTriangles/CXXClasses/RendererGL.h:62: warning: ignoring ‘#pragma mark Debug’ [-Wunknown-pragmas] 62 | #pragma mark Debug routine | libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" "-DPACKAGE_STRING=\"coot 1.x-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I../../coot/src -DUSE_PYTHON -mfpmath=sse -msse -msse2 -pthread -I/opt/user_software/coot/bin-gtk4/lib/libffi-3.2.1/include -I/usr/include/gtk-4.0 -I/usr/include/gio-unix-2.0 -I/usr/include/cairo -I/usr/include/pango-1.0 -I/usr/include/harfbuzz -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/harfbuzz -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/x86_64-linux-gnu -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/graphene-1.0 -I/usr/lib/x86_64-linux-gnu/graphene-1.0/include -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I../../coot -I/opt/user_software/coot/bin-gtk4/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/opt/user_software/coot/bin-gtk4/include -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -I/opt/user_software/coot/bin-gtk4/include -DHAVE_SSMLIB -I/opt/user_software/coot/bin-gtk4/include -DMMDB_HAS_LINK_DISTANCE -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DCLIPPER_HAS_TOP8000 -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR=\"/opt/user_software/coot/bin-gtk4/share/coot\" -DPACKAGE_LOCALE_DIR=\"/opt/user_software/coot/bin-gtk4/share/coot/locale\" -DPKGPYTHONDIR=\"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/coot\" -DPYTHONDIR=\"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages\" -DXDATADIR=\"/opt/user_software/coot/bin-gtk4/share\" -DCOOT_SYS_BUILD_TYPE=\"Linux-x86_64-ubuntu-22.04.4-gtk4\" "-DCOOT_BUILD_INFO_STRING=\"build-host: gtxr1.srv-local.mpi-dortmund.mpg.de on: Mi 20 Mär 1759.36 CET 2024\"" -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/opt/user_software/coot/bin-gtk4/include/python3.11 -DHAVE_GSL -fopenmp -g -O -Wall -Wno-unused -std=c++17 -MT molecule-class-info-residues.lo -MD -MP -MF .deps/molecule-class-info-residues.Tpo -c ../../coot/src/molecule-class-info-residues.cc -fPIC -DPIC -o .libs/molecule-class-info-residues.o In file included from ../../coot/MoleculesToTriangles/CXXClasses/RendererGLSL.hpp:31, from ../../coot/src/graphics-info.h:53, from ../../coot/src/molecule-class-info-residues.cc:45: ../../coot/MoleculesToTriangles/CXXClasses/RendererGL.h:61: warning: ignoring ‘#pragma mark ’ [-Wunknown-pragmas] 61 | #pragma mark - | ../../coot/MoleculesToTriangles/CXXClasses/RendererGL.h:62: warning: ignoring ‘#pragma mark Debug’ [-Wunknown-pragmas] 62 | #pragma mark Debug routine | mv -f .deps/molecule-class-info-maps-2.Tpo .deps/molecule-class-info-maps-2.Plo /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" -DPACKAGE_STRING=\"coot\ 1.x-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I../../coot/src -DUSE_PYTHON -mfpmath=sse -msse -msse2 -pthread -I/opt/user_software/coot/bin-gtk4/lib/libffi-3.2.1/include -I/usr/include/gtk-4.0 -I/usr/include/gio-unix-2.0 -I/usr/include/cairo -I/usr/include/pango-1.0 -I/usr/include/harfbuzz -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/harfbuzz -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/x86_64-linux-gnu -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/graphene-1.0 -I/usr/lib/x86_64-linux-gnu/graphene-1.0/include -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I../../coot -I/opt/user_software/coot/bin-gtk4/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/opt/user_software/coot/bin-gtk4/include -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -I/opt/user_software/coot/bin-gtk4/include -DHAVE_SSMLIB -I/opt/user_software/coot/bin-gtk4/include -DMMDB_HAS_LINK_DISTANCE -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DCLIPPER_HAS_TOP8000 -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR='"/opt/user_software/coot/bin-gtk4/share/coot"' -DPACKAGE_LOCALE_DIR='"/opt/user_software/coot/bin-gtk4/share/coot/locale"' -DPKGPYTHONDIR='"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/coot"' -DPYTHONDIR='"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages"' -DXDATADIR='"/opt/user_software/coot/bin-gtk4/share"' -DCOOT_SYS_BUILD_TYPE='"Linux-x86_64-ubuntu-22.04.4-gtk4"' -DCOOT_BUILD_INFO_STRING='"build-host: gtxr1.srv-local.mpi-dortmund.mpg.de on: Mi 20 Mär 1759.36 CET 2024"' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/opt/user_software/coot/bin-gtk4/include/python3.11 -DHAVE_GSL -fopenmp -g -O -Wall -Wno-unused -std=c++17 -MT molecule-class-info-refine.lo -MD -MP -MF .deps/molecule-class-info-refine.Tpo -c -o molecule-class-info-refine.lo ../../coot/src/molecule-class-info-refine.cc libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" "-DPACKAGE_STRING=\"coot 1.x-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I../../coot/src -DUSE_PYTHON -mfpmath=sse -msse -msse2 -pthread -I/opt/user_software/coot/bin-gtk4/lib/libffi-3.2.1/include -I/usr/include/gtk-4.0 -I/usr/include/gio-unix-2.0 -I/usr/include/cairo -I/usr/include/pango-1.0 -I/usr/include/harfbuzz -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/harfbuzz -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/x86_64-linux-gnu -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/graphene-1.0 -I/usr/lib/x86_64-linux-gnu/graphene-1.0/include -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I../../coot -I/opt/user_software/coot/bin-gtk4/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/opt/user_software/coot/bin-gtk4/include -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -I/opt/user_software/coot/bin-gtk4/include -DHAVE_SSMLIB -I/opt/user_software/coot/bin-gtk4/include -DMMDB_HAS_LINK_DISTANCE -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DCLIPPER_HAS_TOP8000 -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR=\"/opt/user_software/coot/bin-gtk4/share/coot\" -DPACKAGE_LOCALE_DIR=\"/opt/user_software/coot/bin-gtk4/share/coot/locale\" -DPKGPYTHONDIR=\"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/coot\" -DPYTHONDIR=\"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages\" -DXDATADIR=\"/opt/user_software/coot/bin-gtk4/share\" -DCOOT_SYS_BUILD_TYPE=\"Linux-x86_64-ubuntu-22.04.4-gtk4\" "-DCOOT_BUILD_INFO_STRING=\"build-host: gtxr1.srv-local.mpi-dortmund.mpg.de on: Mi 20 Mär 1759.36 CET 2024\"" -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/opt/user_software/coot/bin-gtk4/include/python3.11 -DHAVE_GSL -fopenmp -g -O -Wall -Wno-unused -std=c++17 -MT molecule-class-info-refine.lo -MD -MP -MF .deps/molecule-class-info-refine.Tpo -c ../../coot/src/molecule-class-info-refine.cc -fPIC -DPIC -o .libs/molecule-class-info-refine.o mv -f .deps/molecule-class-info.Tpo .deps/molecule-class-info.Plo /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" -DPACKAGE_STRING=\"coot\ 1.x-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I../../coot/src -DUSE_PYTHON -mfpmath=sse -msse -msse2 -pthread -I/opt/user_software/coot/bin-gtk4/lib/libffi-3.2.1/include -I/usr/include/gtk-4.0 -I/usr/include/gio-unix-2.0 -I/usr/include/cairo -I/usr/include/pango-1.0 -I/usr/include/harfbuzz -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/harfbuzz -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/x86_64-linux-gnu -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/graphene-1.0 -I/usr/lib/x86_64-linux-gnu/graphene-1.0/include -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I../../coot -I/opt/user_software/coot/bin-gtk4/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/opt/user_software/coot/bin-gtk4/include -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -I/opt/user_software/coot/bin-gtk4/include -DHAVE_SSMLIB -I/opt/user_software/coot/bin-gtk4/include -DMMDB_HAS_LINK_DISTANCE -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DCLIPPER_HAS_TOP8000 -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR='"/opt/user_software/coot/bin-gtk4/share/coot"' -DPACKAGE_LOCALE_DIR='"/opt/user_software/coot/bin-gtk4/share/coot/locale"' -DPKGPYTHONDIR='"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/coot"' -DPYTHONDIR='"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages"' -DXDATADIR='"/opt/user_software/coot/bin-gtk4/share"' -DCOOT_SYS_BUILD_TYPE='"Linux-x86_64-ubuntu-22.04.4-gtk4"' -DCOOT_BUILD_INFO_STRING='"build-host: gtxr1.srv-local.mpi-dortmund.mpg.de on: Mi 20 Mär 1759.36 CET 2024"' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/opt/user_software/coot/bin-gtk4/include/python3.11 -DHAVE_GSL -fopenmp -g -O -Wall -Wno-unused -std=c++17 -MT molecule-class-info-kk.lo -MD -MP -MF .deps/molecule-class-info-kk.Tpo -c -o molecule-class-info-kk.lo ../../coot/src/molecule-class-info-kk.cc In file included from ../../coot/src/molecule-class-info.h:59, from ../../coot/src/molecule-class-info-refine.cc:40: ../../coot/MoleculesToTriangles/CXXClasses/RendererGL.h:61: warning: ignoring ‘#pragma mark ’ [-Wunknown-pragmas] 61 | #pragma mark - | ../../coot/MoleculesToTriangles/CXXClasses/RendererGL.h:62: warning: ignoring ‘#pragma mark Debug’ [-Wunknown-pragmas] 62 | #pragma mark Debug routine | mv -f .deps/molecule-class-info-kdc.Tpo .deps/molecule-class-info-kdc.Plo /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" -DPACKAGE_STRING=\"coot\ 1.x-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I../../coot/src -DUSE_PYTHON -mfpmath=sse -msse -msse2 -pthread -I/opt/user_software/coot/bin-gtk4/lib/libffi-3.2.1/include -I/usr/include/gtk-4.0 -I/usr/include/gio-unix-2.0 -I/usr/include/cairo -I/usr/include/pango-1.0 -I/usr/include/harfbuzz -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/harfbuzz -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/x86_64-linux-gnu -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/graphene-1.0 -I/usr/lib/x86_64-linux-gnu/graphene-1.0/include -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I../../coot -I/opt/user_software/coot/bin-gtk4/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/opt/user_software/coot/bin-gtk4/include -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -I/opt/user_software/coot/bin-gtk4/include -DHAVE_SSMLIB -I/opt/user_software/coot/bin-gtk4/include -DMMDB_HAS_LINK_DISTANCE -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DCLIPPER_HAS_TOP8000 -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR='"/opt/user_software/coot/bin-gtk4/share/coot"' -DPACKAGE_LOCALE_DIR='"/opt/user_software/coot/bin-gtk4/share/coot/locale"' -DPKGPYTHONDIR='"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/coot"' -DPYTHONDIR='"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages"' -DXDATADIR='"/opt/user_software/coot/bin-gtk4/share"' -DCOOT_SYS_BUILD_TYPE='"Linux-x86_64-ubuntu-22.04.4-gtk4"' -DCOOT_BUILD_INFO_STRING='"build-host: gtxr1.srv-local.mpi-dortmund.mpg.de on: Mi 20 Mär 1759.36 CET 2024"' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/opt/user_software/coot/bin-gtk4/include/python3.11 -DHAVE_GSL -fopenmp -g -O -Wall -Wno-unused -std=c++17 -MT molecule-class-info-surface.lo -MD -MP -MF .deps/molecule-class-info-surface.Tpo -c -o molecule-class-info-surface.lo ../../coot/src/molecule-class-info-surface.cc libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" "-DPACKAGE_STRING=\"coot 1.x-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I../../coot/src -DUSE_PYTHON -mfpmath=sse -msse -msse2 -pthread -I/opt/user_software/coot/bin-gtk4/lib/libffi-3.2.1/include -I/usr/include/gtk-4.0 -I/usr/include/gio-unix-2.0 -I/usr/include/cairo -I/usr/include/pango-1.0 -I/usr/include/harfbuzz -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/harfbuzz -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/x86_64-linux-gnu -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/graphene-1.0 -I/usr/lib/x86_64-linux-gnu/graphene-1.0/include -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I../../coot -I/opt/user_software/coot/bin-gtk4/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/opt/user_software/coot/bin-gtk4/include -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -I/opt/user_software/coot/bin-gtk4/include -DHAVE_SSMLIB -I/opt/user_software/coot/bin-gtk4/include -DMMDB_HAS_LINK_DISTANCE -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DCLIPPER_HAS_TOP8000 -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR=\"/opt/user_software/coot/bin-gtk4/share/coot\" -DPACKAGE_LOCALE_DIR=\"/opt/user_software/coot/bin-gtk4/share/coot/locale\" -DPKGPYTHONDIR=\"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/coot\" -DPYTHONDIR=\"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages\" -DXDATADIR=\"/opt/user_software/coot/bin-gtk4/share\" -DCOOT_SYS_BUILD_TYPE=\"Linux-x86_64-ubuntu-22.04.4-gtk4\" "-DCOOT_BUILD_INFO_STRING=\"build-host: gtxr1.srv-local.mpi-dortmund.mpg.de on: Mi 20 Mär 1759.36 CET 2024\"" -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/opt/user_software/coot/bin-gtk4/include/python3.11 -DHAVE_GSL -fopenmp -g -O -Wall -Wno-unused -std=c++17 -MT molecule-class-info-kk.lo -MD -MP -MF .deps/molecule-class-info-kk.Tpo -c ../../coot/src/molecule-class-info-kk.cc -fPIC -DPIC -o .libs/molecule-class-info-kk.o libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" "-DPACKAGE_STRING=\"coot 1.x-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I../../coot/src -DUSE_PYTHON -mfpmath=sse -msse -msse2 -pthread -I/opt/user_software/coot/bin-gtk4/lib/libffi-3.2.1/include -I/usr/include/gtk-4.0 -I/usr/include/gio-unix-2.0 -I/usr/include/cairo -I/usr/include/pango-1.0 -I/usr/include/harfbuzz -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/harfbuzz -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/x86_64-linux-gnu -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/graphene-1.0 -I/usr/lib/x86_64-linux-gnu/graphene-1.0/include -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I../../coot -I/opt/user_software/coot/bin-gtk4/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/opt/user_software/coot/bin-gtk4/include -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -I/opt/user_software/coot/bin-gtk4/include -DHAVE_SSMLIB -I/opt/user_software/coot/bin-gtk4/include -DMMDB_HAS_LINK_DISTANCE -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DCLIPPER_HAS_TOP8000 -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR=\"/opt/user_software/coot/bin-gtk4/share/coot\" -DPACKAGE_LOCALE_DIR=\"/opt/user_software/coot/bin-gtk4/share/coot/locale\" -DPKGPYTHONDIR=\"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/coot\" -DPYTHONDIR=\"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages\" -DXDATADIR=\"/opt/user_software/coot/bin-gtk4/share\" -DCOOT_SYS_BUILD_TYPE=\"Linux-x86_64-ubuntu-22.04.4-gtk4\" "-DCOOT_BUILD_INFO_STRING=\"build-host: gtxr1.srv-local.mpi-dortmund.mpg.de on: Mi 20 Mär 1759.36 CET 2024\"" -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/opt/user_software/coot/bin-gtk4/include/python3.11 -DHAVE_GSL -fopenmp -g -O -Wall -Wno-unused -std=c++17 -MT molecule-class-info-surface.lo -MD -MP -MF .deps/molecule-class-info-surface.Tpo -c ../../coot/src/molecule-class-info-surface.cc -fPIC -DPIC -o .libs/molecule-class-info-surface.o In file included from ../../coot/src/molecule-class-info.h:59, from ../../coot/src/molecule-class-info-kk.cc:25: ../../coot/MoleculesToTriangles/CXXClasses/RendererGL.h:61: warning: ignoring ‘#pragma mark ’ [-Wunknown-pragmas] 61 | #pragma mark - | ../../coot/MoleculesToTriangles/CXXClasses/RendererGL.h:62: warning: ignoring ‘#pragma mark Debug’ [-Wunknown-pragmas] 62 | #pragma mark Debug routine | In file included from ../../coot/MoleculesToTriangles/CXXClasses/RendererGLSL.hpp:31, from ../../coot/src/graphics-info.h:53, from ../../coot/src/molecule-class-info-surface.cc:39: ../../coot/MoleculesToTriangles/CXXClasses/RendererGL.h:61: warning: ignoring ‘#pragma mark ’ [-Wunknown-pragmas] 61 | #pragma mark - | ../../coot/MoleculesToTriangles/CXXClasses/RendererGL.h:62: warning: ignoring ‘#pragma mark Debug’ [-Wunknown-pragmas] 62 | #pragma mark Debug routine | mv -f .deps/molecule-class-info-dots.Tpo .deps/molecule-class-info-dots.Plo /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" -DPACKAGE_STRING=\"coot\ 1.x-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I../../coot/src -DUSE_PYTHON -mfpmath=sse -msse -msse2 -pthread -I/opt/user_software/coot/bin-gtk4/lib/libffi-3.2.1/include -I/usr/include/gtk-4.0 -I/usr/include/gio-unix-2.0 -I/usr/include/cairo -I/usr/include/pango-1.0 -I/usr/include/harfbuzz -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/harfbuzz -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/x86_64-linux-gnu -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/graphene-1.0 -I/usr/lib/x86_64-linux-gnu/graphene-1.0/include -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I../../coot -I/opt/user_software/coot/bin-gtk4/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/opt/user_software/coot/bin-gtk4/include -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -I/opt/user_software/coot/bin-gtk4/include -DHAVE_SSMLIB -I/opt/user_software/coot/bin-gtk4/include -DMMDB_HAS_LINK_DISTANCE -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DCLIPPER_HAS_TOP8000 -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR='"/opt/user_software/coot/bin-gtk4/share/coot"' -DPACKAGE_LOCALE_DIR='"/opt/user_software/coot/bin-gtk4/share/coot/locale"' -DPKGPYTHONDIR='"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/coot"' -DPYTHONDIR='"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages"' -DXDATADIR='"/opt/user_software/coot/bin-gtk4/share"' -DCOOT_SYS_BUILD_TYPE='"Linux-x86_64-ubuntu-22.04.4-gtk4"' -DCOOT_BUILD_INFO_STRING='"build-host: gtxr1.srv-local.mpi-dortmund.mpg.de on: Mi 20 Mär 1759.36 CET 2024"' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/opt/user_software/coot/bin-gtk4/include/python3.11 -DHAVE_GSL -fopenmp -g -O -Wall -Wno-unused -std=c++17 -MT molecule-class-info-string.lo -MD -MP -MF .deps/molecule-class-info-string.Tpo -c -o molecule-class-info-string.lo ../../coot/src/molecule-class-info-string.cc libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" "-DPACKAGE_STRING=\"coot 1.x-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I../../coot/src -DUSE_PYTHON -mfpmath=sse -msse -msse2 -pthread -I/opt/user_software/coot/bin-gtk4/lib/libffi-3.2.1/include -I/usr/include/gtk-4.0 -I/usr/include/gio-unix-2.0 -I/usr/include/cairo -I/usr/include/pango-1.0 -I/usr/include/harfbuzz -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/harfbuzz -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/x86_64-linux-gnu -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/graphene-1.0 -I/usr/lib/x86_64-linux-gnu/graphene-1.0/include -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I../../coot -I/opt/user_software/coot/bin-gtk4/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/opt/user_software/coot/bin-gtk4/include -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -I/opt/user_software/coot/bin-gtk4/include -DHAVE_SSMLIB -I/opt/user_software/coot/bin-gtk4/include -DMMDB_HAS_LINK_DISTANCE -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DCLIPPER_HAS_TOP8000 -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR=\"/opt/user_software/coot/bin-gtk4/share/coot\" -DPACKAGE_LOCALE_DIR=\"/opt/user_software/coot/bin-gtk4/share/coot/locale\" -DPKGPYTHONDIR=\"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/coot\" -DPYTHONDIR=\"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages\" -DXDATADIR=\"/opt/user_software/coot/bin-gtk4/share\" -DCOOT_SYS_BUILD_TYPE=\"Linux-x86_64-ubuntu-22.04.4-gtk4\" "-DCOOT_BUILD_INFO_STRING=\"build-host: gtxr1.srv-local.mpi-dortmund.mpg.de on: Mi 20 Mär 1759.36 CET 2024\"" -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/opt/user_software/coot/bin-gtk4/include/python3.11 -DHAVE_GSL -fopenmp -g -O -Wall -Wno-unused -std=c++17 -MT molecule-class-info-string.lo -MD -MP -MF .deps/molecule-class-info-string.Tpo -c ../../coot/src/molecule-class-info-string.cc -fPIC -DPIC -o .libs/molecule-class-info-string.o mv -f .deps/molecule-class-info-maps.Tpo .deps/molecule-class-info-maps.Plo /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" -DPACKAGE_STRING=\"coot\ 1.x-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I../../coot/src -DUSE_PYTHON -mfpmath=sse -msse -msse2 -pthread -I/opt/user_software/coot/bin-gtk4/lib/libffi-3.2.1/include -I/usr/include/gtk-4.0 -I/usr/include/gio-unix-2.0 -I/usr/include/cairo -I/usr/include/pango-1.0 -I/usr/include/harfbuzz -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/harfbuzz -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/x86_64-linux-gnu -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/graphene-1.0 -I/usr/lib/x86_64-linux-gnu/graphene-1.0/include -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I../../coot -I/opt/user_software/coot/bin-gtk4/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/opt/user_software/coot/bin-gtk4/include -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -I/opt/user_software/coot/bin-gtk4/include -DHAVE_SSMLIB -I/opt/user_software/coot/bin-gtk4/include -DMMDB_HAS_LINK_DISTANCE -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DCLIPPER_HAS_TOP8000 -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR='"/opt/user_software/coot/bin-gtk4/share/coot"' -DPACKAGE_LOCALE_DIR='"/opt/user_software/coot/bin-gtk4/share/coot/locale"' -DPKGPYTHONDIR='"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/coot"' -DPYTHONDIR='"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages"' -DXDATADIR='"/opt/user_software/coot/bin-gtk4/share"' -DCOOT_SYS_BUILD_TYPE='"Linux-x86_64-ubuntu-22.04.4-gtk4"' -DCOOT_BUILD_INFO_STRING='"build-host: gtxr1.srv-local.mpi-dortmund.mpg.de on: Mi 20 Mär 1759.36 CET 2024"' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/opt/user_software/coot/bin-gtk4/include/python3.11 -DHAVE_GSL -fopenmp -g -O -Wall -Wno-unused -std=c++17 -MT molecule-class-info-patterson.lo -MD -MP -MF .deps/molecule-class-info-patterson.Tpo -c -o molecule-class-info-patterson.lo ../../coot/src/molecule-class-info-patterson.cc In file included from ../../coot/src/molecule-class-info.h:59, from ../../coot/src/molecule-class-info-string.cc:7: ../../coot/MoleculesToTriangles/CXXClasses/RendererGL.h:61: warning: ignoring ‘#pragma mark ’ [-Wunknown-pragmas] 61 | #pragma mark - | ../../coot/MoleculesToTriangles/CXXClasses/RendererGL.h:62: warning: ignoring ‘#pragma mark Debug’ [-Wunknown-pragmas] 62 | #pragma mark Debug routine | libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" "-DPACKAGE_STRING=\"coot 1.x-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I../../coot/src -DUSE_PYTHON -mfpmath=sse -msse -msse2 -pthread -I/opt/user_software/coot/bin-gtk4/lib/libffi-3.2.1/include -I/usr/include/gtk-4.0 -I/usr/include/gio-unix-2.0 -I/usr/include/cairo -I/usr/include/pango-1.0 -I/usr/include/harfbuzz -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/harfbuzz -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/x86_64-linux-gnu -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/graphene-1.0 -I/usr/lib/x86_64-linux-gnu/graphene-1.0/include -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I../../coot -I/opt/user_software/coot/bin-gtk4/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/opt/user_software/coot/bin-gtk4/include -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -I/opt/user_software/coot/bin-gtk4/include -DHAVE_SSMLIB -I/opt/user_software/coot/bin-gtk4/include -DMMDB_HAS_LINK_DISTANCE -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DCLIPPER_HAS_TOP8000 -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR=\"/opt/user_software/coot/bin-gtk4/share/coot\" -DPACKAGE_LOCALE_DIR=\"/opt/user_software/coot/bin-gtk4/share/coot/locale\" -DPKGPYTHONDIR=\"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/coot\" -DPYTHONDIR=\"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages\" -DXDATADIR=\"/opt/user_software/coot/bin-gtk4/share\" -DCOOT_SYS_BUILD_TYPE=\"Linux-x86_64-ubuntu-22.04.4-gtk4\" "-DCOOT_BUILD_INFO_STRING=\"build-host: gtxr1.srv-local.mpi-dortmund.mpg.de on: Mi 20 Mär 1759.36 CET 2024\"" -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/opt/user_software/coot/bin-gtk4/include/python3.11 -DHAVE_GSL -fopenmp -g -O -Wall -Wno-unused -std=c++17 -MT molecule-class-info-patterson.lo -MD -MP -MF .deps/molecule-class-info-patterson.Tpo -c ../../coot/src/molecule-class-info-patterson.cc -fPIC -DPIC -o .libs/molecule-class-info-patterson.o In file included from ../../coot/src/molecule-class-info.h:59, from ../../coot/src/molecule-class-info-patterson.cc:45: ../../coot/MoleculesToTriangles/CXXClasses/RendererGL.h:61: warning: ignoring ‘#pragma mark ’ [-Wunknown-pragmas] 61 | #pragma mark - | ../../coot/MoleculesToTriangles/CXXClasses/RendererGL.h:62: warning: ignoring ‘#pragma mark Debug’ [-Wunknown-pragmas] 62 | #pragma mark Debug routine | mv -f .deps/molecule-class-info-mutate.Tpo .deps/molecule-class-info-mutate.Plo /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" -DPACKAGE_STRING=\"coot\ 1.x-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I../../coot/src -DUSE_PYTHON -mfpmath=sse -msse -msse2 -pthread -I/opt/user_software/coot/bin-gtk4/lib/libffi-3.2.1/include -I/usr/include/gtk-4.0 -I/usr/include/gio-unix-2.0 -I/usr/include/cairo -I/usr/include/pango-1.0 -I/usr/include/harfbuzz -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/harfbuzz -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/x86_64-linux-gnu -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/graphene-1.0 -I/usr/lib/x86_64-linux-gnu/graphene-1.0/include -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I../../coot -I/opt/user_software/coot/bin-gtk4/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/opt/user_software/coot/bin-gtk4/include -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -I/opt/user_software/coot/bin-gtk4/include -DHAVE_SSMLIB -I/opt/user_software/coot/bin-gtk4/include -DMMDB_HAS_LINK_DISTANCE -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DCLIPPER_HAS_TOP8000 -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR='"/opt/user_software/coot/bin-gtk4/share/coot"' -DPACKAGE_LOCALE_DIR='"/opt/user_software/coot/bin-gtk4/share/coot/locale"' -DPKGPYTHONDIR='"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/coot"' -DPYTHONDIR='"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages"' -DXDATADIR='"/opt/user_software/coot/bin-gtk4/share"' -DCOOT_SYS_BUILD_TYPE='"Linux-x86_64-ubuntu-22.04.4-gtk4"' -DCOOT_BUILD_INFO_STRING='"build-host: gtxr1.srv-local.mpi-dortmund.mpg.de on: Mi 20 Mär 1759.36 CET 2024"' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/opt/user_software/coot/bin-gtk4/include/python3.11 -DHAVE_GSL -fopenmp -g -O -Wall -Wno-unused -std=c++17 -MT molecule-class-info-ncs.lo -MD -MP -MF .deps/molecule-class-info-ncs.Tpo -c -o molecule-class-info-ncs.lo ../../coot/src/molecule-class-info-ncs.cc mv -f .deps/molecule-class-info-kk.Tpo .deps/molecule-class-info-kk.Plo /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" -DPACKAGE_STRING=\"coot\ 1.x-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I../../coot/src -DUSE_PYTHON -mfpmath=sse -msse -msse2 -pthread -I/opt/user_software/coot/bin-gtk4/lib/libffi-3.2.1/include -I/usr/include/gtk-4.0 -I/usr/include/gio-unix-2.0 -I/usr/include/cairo -I/usr/include/pango-1.0 -I/usr/include/harfbuzz -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/harfbuzz -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/x86_64-linux-gnu -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/graphene-1.0 -I/usr/lib/x86_64-linux-gnu/graphene-1.0/include -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I../../coot -I/opt/user_software/coot/bin-gtk4/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/opt/user_software/coot/bin-gtk4/include -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -I/opt/user_software/coot/bin-gtk4/include -DHAVE_SSMLIB -I/opt/user_software/coot/bin-gtk4/include -DMMDB_HAS_LINK_DISTANCE -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DCLIPPER_HAS_TOP8000 -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR='"/opt/user_software/coot/bin-gtk4/share/coot"' -DPACKAGE_LOCALE_DIR='"/opt/user_software/coot/bin-gtk4/share/coot/locale"' -DPKGPYTHONDIR='"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/coot"' -DPYTHONDIR='"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages"' -DXDATADIR='"/opt/user_software/coot/bin-gtk4/share"' -DCOOT_SYS_BUILD_TYPE='"Linux-x86_64-ubuntu-22.04.4-gtk4"' -DCOOT_BUILD_INFO_STRING='"build-host: gtxr1.srv-local.mpi-dortmund.mpg.de on: Mi 20 Mär 1759.36 CET 2024"' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/opt/user_software/coot/bin-gtk4/include/python3.11 -DHAVE_GSL -fopenmp -g -O -Wall -Wno-unused -std=c++17 -MT molecule-class-info-mol-tris.lo -MD -MP -MF .deps/molecule-class-info-mol-tris.Tpo -c -o molecule-class-info-mol-tris.lo ../../coot/src/molecule-class-info-mol-tris.cc libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" "-DPACKAGE_STRING=\"coot 1.x-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I../../coot/src -DUSE_PYTHON -mfpmath=sse -msse -msse2 -pthread -I/opt/user_software/coot/bin-gtk4/lib/libffi-3.2.1/include -I/usr/include/gtk-4.0 -I/usr/include/gio-unix-2.0 -I/usr/include/cairo -I/usr/include/pango-1.0 -I/usr/include/harfbuzz -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/harfbuzz -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/x86_64-linux-gnu -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/graphene-1.0 -I/usr/lib/x86_64-linux-gnu/graphene-1.0/include -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I../../coot -I/opt/user_software/coot/bin-gtk4/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/opt/user_software/coot/bin-gtk4/include -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -I/opt/user_software/coot/bin-gtk4/include -DHAVE_SSMLIB -I/opt/user_software/coot/bin-gtk4/include -DMMDB_HAS_LINK_DISTANCE -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DCLIPPER_HAS_TOP8000 -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR=\"/opt/user_software/coot/bin-gtk4/share/coot\" -DPACKAGE_LOCALE_DIR=\"/opt/user_software/coot/bin-gtk4/share/coot/locale\" -DPKGPYTHONDIR=\"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/coot\" -DPYTHONDIR=\"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages\" -DXDATADIR=\"/opt/user_software/coot/bin-gtk4/share\" -DCOOT_SYS_BUILD_TYPE=\"Linux-x86_64-ubuntu-22.04.4-gtk4\" "-DCOOT_BUILD_INFO_STRING=\"build-host: gtxr1.srv-local.mpi-dortmund.mpg.de on: Mi 20 Mär 1759.36 CET 2024\"" -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/opt/user_software/coot/bin-gtk4/include/python3.11 -DHAVE_GSL -fopenmp -g -O -Wall -Wno-unused -std=c++17 -MT molecule-class-info-ncs.lo -MD -MP -MF .deps/molecule-class-info-ncs.Tpo -c ../../coot/src/molecule-class-info-ncs.cc -fPIC -DPIC -o .libs/molecule-class-info-ncs.o libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" "-DPACKAGE_STRING=\"coot 1.x-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I../../coot/src -DUSE_PYTHON -mfpmath=sse -msse -msse2 -pthread -I/opt/user_software/coot/bin-gtk4/lib/libffi-3.2.1/include -I/usr/include/gtk-4.0 -I/usr/include/gio-unix-2.0 -I/usr/include/cairo -I/usr/include/pango-1.0 -I/usr/include/harfbuzz -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/harfbuzz -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/x86_64-linux-gnu -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/graphene-1.0 -I/usr/lib/x86_64-linux-gnu/graphene-1.0/include -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I../../coot -I/opt/user_software/coot/bin-gtk4/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/opt/user_software/coot/bin-gtk4/include -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -I/opt/user_software/coot/bin-gtk4/include -DHAVE_SSMLIB -I/opt/user_software/coot/bin-gtk4/include -DMMDB_HAS_LINK_DISTANCE -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DCLIPPER_HAS_TOP8000 -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR=\"/opt/user_software/coot/bin-gtk4/share/coot\" -DPACKAGE_LOCALE_DIR=\"/opt/user_software/coot/bin-gtk4/share/coot/locale\" -DPKGPYTHONDIR=\"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/coot\" -DPYTHONDIR=\"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages\" -DXDATADIR=\"/opt/user_software/coot/bin-gtk4/share\" -DCOOT_SYS_BUILD_TYPE=\"Linux-x86_64-ubuntu-22.04.4-gtk4\" "-DCOOT_BUILD_INFO_STRING=\"build-host: gtxr1.srv-local.mpi-dortmund.mpg.de on: Mi 20 Mär 1759.36 CET 2024\"" -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/opt/user_software/coot/bin-gtk4/include/python3.11 -DHAVE_GSL -fopenmp -g -O -Wall -Wno-unused -std=c++17 -MT molecule-class-info-mol-tris.lo -MD -MP -MF .deps/molecule-class-info-mol-tris.Tpo -c ../../coot/src/molecule-class-info-mol-tris.cc -fPIC -DPIC -o .libs/molecule-class-info-mol-tris.o In file included from ../../coot/src/molecule-class-info.h:59, from ../../coot/src/molecule-class-info-ncs.cc:47: ../../coot/MoleculesToTriangles/CXXClasses/RendererGL.h:61: warning: ignoring ‘#pragma mark ’ [-Wunknown-pragmas] 61 | #pragma mark - | ../../coot/MoleculesToTriangles/CXXClasses/RendererGL.h:62: warning: ignoring ‘#pragma mark Debug’ [-Wunknown-pragmas] 62 | #pragma mark Debug routine | In file included from ../../coot/MoleculesToTriangles/CXXClasses/RendererGLSL.hpp:31, from ../../coot/src/graphics-info.h:53, from ../../coot/src/molecule-class-info-mol-tris.cc:6: ../../coot/MoleculesToTriangles/CXXClasses/RendererGL.h:61: warning: ignoring ‘#pragma mark ’ [-Wunknown-pragmas] 61 | #pragma mark - | ../../coot/MoleculesToTriangles/CXXClasses/RendererGL.h:62: warning: ignoring ‘#pragma mark Debug’ [-Wunknown-pragmas] 62 | #pragma mark Debug routine | mv -f .deps/molecule-class-info-refine.Tpo .deps/molecule-class-info-refine.Plo /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" -DPACKAGE_STRING=\"coot\ 1.x-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I../../coot/src -DUSE_PYTHON -mfpmath=sse -msse -msse2 -pthread -I/opt/user_software/coot/bin-gtk4/lib/libffi-3.2.1/include -I/usr/include/gtk-4.0 -I/usr/include/gio-unix-2.0 -I/usr/include/cairo -I/usr/include/pango-1.0 -I/usr/include/harfbuzz -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/harfbuzz -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/x86_64-linux-gnu -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/graphene-1.0 -I/usr/lib/x86_64-linux-gnu/graphene-1.0/include -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I../../coot -I/opt/user_software/coot/bin-gtk4/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/opt/user_software/coot/bin-gtk4/include -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -I/opt/user_software/coot/bin-gtk4/include -DHAVE_SSMLIB -I/opt/user_software/coot/bin-gtk4/include -DMMDB_HAS_LINK_DISTANCE -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DCLIPPER_HAS_TOP8000 -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR='"/opt/user_software/coot/bin-gtk4/share/coot"' -DPACKAGE_LOCALE_DIR='"/opt/user_software/coot/bin-gtk4/share/coot/locale"' -DPKGPYTHONDIR='"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/coot"' -DPYTHONDIR='"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages"' -DXDATADIR='"/opt/user_software/coot/bin-gtk4/share"' -DCOOT_SYS_BUILD_TYPE='"Linux-x86_64-ubuntu-22.04.4-gtk4"' -DCOOT_BUILD_INFO_STRING='"build-host: gtxr1.srv-local.mpi-dortmund.mpg.de on: Mi 20 Mär 1759.36 CET 2024"' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/opt/user_software/coot/bin-gtk4/include/python3.11 -DHAVE_GSL -fopenmp -g -O -Wall -Wno-unused -std=c++17 -MT molecule-class-info-widget-work.lo -MD -MP -MF .deps/molecule-class-info-widget-work.Tpo -c -o molecule-class-info-widget-work.lo ../../coot/src/molecule-class-info-widget-work.cc mv -f .deps/molecule-class-info-surface.Tpo .deps/molecule-class-info-surface.Plo /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" -DPACKAGE_STRING=\"coot\ 1.x-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I../../coot/src -DUSE_PYTHON -mfpmath=sse -msse -msse2 -pthread -I/opt/user_software/coot/bin-gtk4/lib/libffi-3.2.1/include -I/usr/include/gtk-4.0 -I/usr/include/gio-unix-2.0 -I/usr/include/cairo -I/usr/include/pango-1.0 -I/usr/include/harfbuzz -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/harfbuzz -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/x86_64-linux-gnu -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/graphene-1.0 -I/usr/lib/x86_64-linux-gnu/graphene-1.0/include -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I../../coot -I/opt/user_software/coot/bin-gtk4/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/opt/user_software/coot/bin-gtk4/include -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -I/opt/user_software/coot/bin-gtk4/include -DHAVE_SSMLIB -I/opt/user_software/coot/bin-gtk4/include -DMMDB_HAS_LINK_DISTANCE -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DCLIPPER_HAS_TOP8000 -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR='"/opt/user_software/coot/bin-gtk4/share/coot"' -DPACKAGE_LOCALE_DIR='"/opt/user_software/coot/bin-gtk4/share/coot/locale"' -DPKGPYTHONDIR='"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/coot"' -DPYTHONDIR='"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages"' -DXDATADIR='"/opt/user_software/coot/bin-gtk4/share"' -DCOOT_SYS_BUILD_TYPE='"Linux-x86_64-ubuntu-22.04.4-gtk4"' -DCOOT_BUILD_INFO_STRING='"build-host: gtxr1.srv-local.mpi-dortmund.mpg.de on: Mi 20 Mär 1759.36 CET 2024"' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/opt/user_software/coot/bin-gtk4/include/python3.11 -DHAVE_GSL -fopenmp -g -O -Wall -Wno-unused -std=c++17 -MT molecule-class-info-geometry.lo -MD -MP -MF .deps/molecule-class-info-geometry.Tpo -c -o molecule-class-info-geometry.lo ../../coot/src/molecule-class-info-geometry.cc libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" "-DPACKAGE_STRING=\"coot 1.x-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I../../coot/src -DUSE_PYTHON -mfpmath=sse -msse -msse2 -pthread -I/opt/user_software/coot/bin-gtk4/lib/libffi-3.2.1/include -I/usr/include/gtk-4.0 -I/usr/include/gio-unix-2.0 -I/usr/include/cairo -I/usr/include/pango-1.0 -I/usr/include/harfbuzz -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/harfbuzz -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/x86_64-linux-gnu -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/graphene-1.0 -I/usr/lib/x86_64-linux-gnu/graphene-1.0/include -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I../../coot -I/opt/user_software/coot/bin-gtk4/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/opt/user_software/coot/bin-gtk4/include -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -I/opt/user_software/coot/bin-gtk4/include -DHAVE_SSMLIB -I/opt/user_software/coot/bin-gtk4/include -DMMDB_HAS_LINK_DISTANCE -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DCLIPPER_HAS_TOP8000 -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR=\"/opt/user_software/coot/bin-gtk4/share/coot\" -DPACKAGE_LOCALE_DIR=\"/opt/user_software/coot/bin-gtk4/share/coot/locale\" -DPKGPYTHONDIR=\"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/coot\" -DPYTHONDIR=\"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages\" -DXDATADIR=\"/opt/user_software/coot/bin-gtk4/share\" -DCOOT_SYS_BUILD_TYPE=\"Linux-x86_64-ubuntu-22.04.4-gtk4\" "-DCOOT_BUILD_INFO_STRING=\"build-host: gtxr1.srv-local.mpi-dortmund.mpg.de on: Mi 20 Mär 1759.36 CET 2024\"" -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/opt/user_software/coot/bin-gtk4/include/python3.11 -DHAVE_GSL -fopenmp -g -O -Wall -Wno-unused -std=c++17 -MT molecule-class-info-widget-work.lo -MD -MP -MF .deps/molecule-class-info-widget-work.Tpo -c ../../coot/src/molecule-class-info-widget-work.cc -fPIC -DPIC -o .libs/molecule-class-info-widget-work.o In file included from ../../coot/src/molecule-class-info.h:59, from ../../coot/src/molecule-class-info-widget-work.cc:27: ../../coot/MoleculesToTriangles/CXXClasses/RendererGL.h:61: warning: ignoring ‘#pragma mark ’ [-Wunknown-pragmas] 61 | #pragma mark - | ../../coot/MoleculesToTriangles/CXXClasses/RendererGL.h:62: warning: ignoring ‘#pragma mark Debug’ [-Wunknown-pragmas] 62 | #pragma mark Debug routine | libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" "-DPACKAGE_STRING=\"coot 1.x-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I../../coot/src -DUSE_PYTHON -mfpmath=sse -msse -msse2 -pthread -I/opt/user_software/coot/bin-gtk4/lib/libffi-3.2.1/include -I/usr/include/gtk-4.0 -I/usr/include/gio-unix-2.0 -I/usr/include/cairo -I/usr/include/pango-1.0 -I/usr/include/harfbuzz -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/harfbuzz -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/x86_64-linux-gnu -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/graphene-1.0 -I/usr/lib/x86_64-linux-gnu/graphene-1.0/include -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I../../coot -I/opt/user_software/coot/bin-gtk4/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/opt/user_software/coot/bin-gtk4/include -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -I/opt/user_software/coot/bin-gtk4/include -DHAVE_SSMLIB -I/opt/user_software/coot/bin-gtk4/include -DMMDB_HAS_LINK_DISTANCE -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DCLIPPER_HAS_TOP8000 -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR=\"/opt/user_software/coot/bin-gtk4/share/coot\" -DPACKAGE_LOCALE_DIR=\"/opt/user_software/coot/bin-gtk4/share/coot/locale\" -DPKGPYTHONDIR=\"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/coot\" -DPYTHONDIR=\"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages\" -DXDATADIR=\"/opt/user_software/coot/bin-gtk4/share\" -DCOOT_SYS_BUILD_TYPE=\"Linux-x86_64-ubuntu-22.04.4-gtk4\" "-DCOOT_BUILD_INFO_STRING=\"build-host: gtxr1.srv-local.mpi-dortmund.mpg.de on: Mi 20 Mär 1759.36 CET 2024\"" -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/opt/user_software/coot/bin-gtk4/include/python3.11 -DHAVE_GSL -fopenmp -g -O -Wall -Wno-unused -std=c++17 -MT molecule-class-info-geometry.lo -MD -MP -MF .deps/molecule-class-info-geometry.Tpo -c ../../coot/src/molecule-class-info-geometry.cc -fPIC -DPIC -o .libs/molecule-class-info-geometry.o mv -f .deps/molecule-class-info-patterson.Tpo .deps/molecule-class-info-patterson.Plo /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" -DPACKAGE_STRING=\"coot\ 1.x-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I../../coot/src -DUSE_PYTHON -mfpmath=sse -msse -msse2 -pthread -I/opt/user_software/coot/bin-gtk4/lib/libffi-3.2.1/include -I/usr/include/gtk-4.0 -I/usr/include/gio-unix-2.0 -I/usr/include/cairo -I/usr/include/pango-1.0 -I/usr/include/harfbuzz -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/harfbuzz -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/x86_64-linux-gnu -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/graphene-1.0 -I/usr/lib/x86_64-linux-gnu/graphene-1.0/include -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I../../coot -I/opt/user_software/coot/bin-gtk4/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/opt/user_software/coot/bin-gtk4/include -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -I/opt/user_software/coot/bin-gtk4/include -DHAVE_SSMLIB -I/opt/user_software/coot/bin-gtk4/include -DMMDB_HAS_LINK_DISTANCE -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DCLIPPER_HAS_TOP8000 -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR='"/opt/user_software/coot/bin-gtk4/share/coot"' -DPACKAGE_LOCALE_DIR='"/opt/user_software/coot/bin-gtk4/share/coot/locale"' -DPKGPYTHONDIR='"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/coot"' -DPYTHONDIR='"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages"' -DXDATADIR='"/opt/user_software/coot/bin-gtk4/share"' -DCOOT_SYS_BUILD_TYPE='"Linux-x86_64-ubuntu-22.04.4-gtk4"' -DCOOT_BUILD_INFO_STRING='"build-host: gtxr1.srv-local.mpi-dortmund.mpg.de on: Mi 20 Mär 1759.36 CET 2024"' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/opt/user_software/coot/bin-gtk4/include/python3.11 -DHAVE_GSL -fopenmp -g -O -Wall -Wno-unused -std=c++17 -MT molecular-mesh-generator.lo -MD -MP -MF .deps/molecular-mesh-generator.Tpo -c -o molecular-mesh-generator.lo ../../coot/src/molecular-mesh-generator.cc In file included from ../../coot/src/molecule-class-info.h:59, from ../../coot/src/molecule-class-info-geometry.cc:4: ../../coot/MoleculesToTriangles/CXXClasses/RendererGL.h:61: warning: ignoring ‘#pragma mark ’ [-Wunknown-pragmas] 61 | #pragma mark - | ../../coot/MoleculesToTriangles/CXXClasses/RendererGL.h:62: warning: ignoring ‘#pragma mark Debug’ [-Wunknown-pragmas] 62 | #pragma mark Debug routine | mv -f .deps/molecule-class-info-residues.Tpo .deps/molecule-class-info-residues.Plo /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" -DPACKAGE_STRING=\"coot\ 1.x-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I../../coot/src -DUSE_PYTHON -mfpmath=sse -msse -msse2 -pthread -I/opt/user_software/coot/bin-gtk4/lib/libffi-3.2.1/include -I/usr/include/gtk-4.0 -I/usr/include/gio-unix-2.0 -I/usr/include/cairo -I/usr/include/pango-1.0 -I/usr/include/harfbuzz -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/harfbuzz -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/x86_64-linux-gnu -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/graphene-1.0 -I/usr/lib/x86_64-linux-gnu/graphene-1.0/include -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I../../coot -I/opt/user_software/coot/bin-gtk4/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/opt/user_software/coot/bin-gtk4/include -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -I/opt/user_software/coot/bin-gtk4/include -DHAVE_SSMLIB -I/opt/user_software/coot/bin-gtk4/include -DMMDB_HAS_LINK_DISTANCE -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DCLIPPER_HAS_TOP8000 -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR='"/opt/user_software/coot/bin-gtk4/share/coot"' -DPACKAGE_LOCALE_DIR='"/opt/user_software/coot/bin-gtk4/share/coot/locale"' -DPKGPYTHONDIR='"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/coot"' -DPYTHONDIR='"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages"' -DXDATADIR='"/opt/user_software/coot/bin-gtk4/share"' -DCOOT_SYS_BUILD_TYPE='"Linux-x86_64-ubuntu-22.04.4-gtk4"' -DCOOT_BUILD_INFO_STRING='"build-host: gtxr1.srv-local.mpi-dortmund.mpg.de on: Mi 20 Mär 1759.36 CET 2024"' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/opt/user_software/coot/bin-gtk4/include/python3.11 -DHAVE_GSL -fopenmp -g -O -Wall -Wno-unused -std=c++17 -MT molecular-mesh-generator-mol-tris.lo -MD -MP -MF .deps/molecular-mesh-generator-mol-tris.Tpo -c -o molecular-mesh-generator-mol-tris.lo ../../coot/src/molecular-mesh-generator-mol-tris.cc libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" "-DPACKAGE_STRING=\"coot 1.x-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I../../coot/src -DUSE_PYTHON -mfpmath=sse -msse -msse2 -pthread -I/opt/user_software/coot/bin-gtk4/lib/libffi-3.2.1/include -I/usr/include/gtk-4.0 -I/usr/include/gio-unix-2.0 -I/usr/include/cairo -I/usr/include/pango-1.0 -I/usr/include/harfbuzz -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/harfbuzz -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/x86_64-linux-gnu -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/graphene-1.0 -I/usr/lib/x86_64-linux-gnu/graphene-1.0/include -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I../../coot -I/opt/user_software/coot/bin-gtk4/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/opt/user_software/coot/bin-gtk4/include -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -I/opt/user_software/coot/bin-gtk4/include -DHAVE_SSMLIB -I/opt/user_software/coot/bin-gtk4/include -DMMDB_HAS_LINK_DISTANCE -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DCLIPPER_HAS_TOP8000 -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR=\"/opt/user_software/coot/bin-gtk4/share/coot\" -DPACKAGE_LOCALE_DIR=\"/opt/user_software/coot/bin-gtk4/share/coot/locale\" -DPKGPYTHONDIR=\"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/coot\" -DPYTHONDIR=\"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages\" -DXDATADIR=\"/opt/user_software/coot/bin-gtk4/share\" -DCOOT_SYS_BUILD_TYPE=\"Linux-x86_64-ubuntu-22.04.4-gtk4\" "-DCOOT_BUILD_INFO_STRING=\"build-host: gtxr1.srv-local.mpi-dortmund.mpg.de on: Mi 20 Mär 1759.36 CET 2024\"" -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/opt/user_software/coot/bin-gtk4/include/python3.11 -DHAVE_GSL -fopenmp -g -O -Wall -Wno-unused -std=c++17 -MT molecular-mesh-generator.lo -MD -MP -MF .deps/molecular-mesh-generator.Tpo -c ../../coot/src/molecular-mesh-generator.cc -fPIC -DPIC -o .libs/molecular-mesh-generator.o mv -f .deps/molecule-class-info-other.Tpo .deps/molecule-class-info-other.Plo /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" -DPACKAGE_STRING=\"coot\ 1.x-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I../../coot/src -DUSE_PYTHON -mfpmath=sse -msse -msse2 -pthread -I/opt/user_software/coot/bin-gtk4/lib/libffi-3.2.1/include -I/usr/include/gtk-4.0 -I/usr/include/gio-unix-2.0 -I/usr/include/cairo -I/usr/include/pango-1.0 -I/usr/include/harfbuzz -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/harfbuzz -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/x86_64-linux-gnu -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/graphene-1.0 -I/usr/lib/x86_64-linux-gnu/graphene-1.0/include -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I../../coot -I/opt/user_software/coot/bin-gtk4/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/opt/user_software/coot/bin-gtk4/include -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -I/opt/user_software/coot/bin-gtk4/include -DHAVE_SSMLIB -I/opt/user_software/coot/bin-gtk4/include -DMMDB_HAS_LINK_DISTANCE -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DCLIPPER_HAS_TOP8000 -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR='"/opt/user_software/coot/bin-gtk4/share/coot"' -DPACKAGE_LOCALE_DIR='"/opt/user_software/coot/bin-gtk4/share/coot/locale"' -DPKGPYTHONDIR='"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/coot"' -DPYTHONDIR='"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages"' -DXDATADIR='"/opt/user_software/coot/bin-gtk4/share"' -DCOOT_SYS_BUILD_TYPE='"Linux-x86_64-ubuntu-22.04.4-gtk4"' -DCOOT_BUILD_INFO_STRING='"build-host: gtxr1.srv-local.mpi-dortmund.mpg.de on: Mi 20 Mär 1759.36 CET 2024"' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/opt/user_software/coot/bin-gtk4/include/python3.11 -DHAVE_GSL -fopenmp -g -O -Wall -Wno-unused -std=c++17 -MT obj_loader.lo -MD -MP -MF .deps/obj_loader.Tpo -c -o obj_loader.lo ../../coot/src/obj_loader.cc In file included from ../../coot/src/molecular-mesh-generator.cc:18: ../../coot/MoleculesToTriangles/CXXClasses/RendererGL.h:61: warning: ignoring ‘#pragma mark ’ [-Wunknown-pragmas] 61 | #pragma mark - | ../../coot/MoleculesToTriangles/CXXClasses/RendererGL.h:62: warning: ignoring ‘#pragma mark Debug’ [-Wunknown-pragmas] 62 | #pragma mark Debug routine | libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" "-DPACKAGE_STRING=\"coot 1.x-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I../../coot/src -DUSE_PYTHON -mfpmath=sse -msse -msse2 -pthread -I/opt/user_software/coot/bin-gtk4/lib/libffi-3.2.1/include -I/usr/include/gtk-4.0 -I/usr/include/gio-unix-2.0 -I/usr/include/cairo -I/usr/include/pango-1.0 -I/usr/include/harfbuzz -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/harfbuzz -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/x86_64-linux-gnu -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/graphene-1.0 -I/usr/lib/x86_64-linux-gnu/graphene-1.0/include -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I../../coot -I/opt/user_software/coot/bin-gtk4/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/opt/user_software/coot/bin-gtk4/include -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -I/opt/user_software/coot/bin-gtk4/include -DHAVE_SSMLIB -I/opt/user_software/coot/bin-gtk4/include -DMMDB_HAS_LINK_DISTANCE -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DCLIPPER_HAS_TOP8000 -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR=\"/opt/user_software/coot/bin-gtk4/share/coot\" -DPACKAGE_LOCALE_DIR=\"/opt/user_software/coot/bin-gtk4/share/coot/locale\" -DPKGPYTHONDIR=\"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/coot\" -DPYTHONDIR=\"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages\" -DXDATADIR=\"/opt/user_software/coot/bin-gtk4/share\" -DCOOT_SYS_BUILD_TYPE=\"Linux-x86_64-ubuntu-22.04.4-gtk4\" "-DCOOT_BUILD_INFO_STRING=\"build-host: gtxr1.srv-local.mpi-dortmund.mpg.de on: Mi 20 Mär 1759.36 CET 2024\"" -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/opt/user_software/coot/bin-gtk4/include/python3.11 -DHAVE_GSL -fopenmp -g -O -Wall -Wno-unused -std=c++17 -MT molecular-mesh-generator-mol-tris.lo -MD -MP -MF .deps/molecular-mesh-generator-mol-tris.Tpo -c ../../coot/src/molecular-mesh-generator-mol-tris.cc -fPIC -DPIC -o .libs/molecular-mesh-generator-mol-tris.o mv -f .deps/molecule-class-info-string.Tpo .deps/molecule-class-info-string.Plo /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" -DPACKAGE_STRING=\"coot\ 1.x-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I../../coot/src -DUSE_PYTHON -mfpmath=sse -msse -msse2 -pthread -I/opt/user_software/coot/bin-gtk4/lib/libffi-3.2.1/include -I/usr/include/gtk-4.0 -I/usr/include/gio-unix-2.0 -I/usr/include/cairo -I/usr/include/pango-1.0 -I/usr/include/harfbuzz -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/harfbuzz -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/x86_64-linux-gnu -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/graphene-1.0 -I/usr/lib/x86_64-linux-gnu/graphene-1.0/include -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I../../coot -I/opt/user_software/coot/bin-gtk4/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/opt/user_software/coot/bin-gtk4/include -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -I/opt/user_software/coot/bin-gtk4/include -DHAVE_SSMLIB -I/opt/user_software/coot/bin-gtk4/include -DMMDB_HAS_LINK_DISTANCE -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DCLIPPER_HAS_TOP8000 -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR='"/opt/user_software/coot/bin-gtk4/share/coot"' -DPACKAGE_LOCALE_DIR='"/opt/user_software/coot/bin-gtk4/share/coot/locale"' -DPKGPYTHONDIR='"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/coot"' -DPYTHONDIR='"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages"' -DXDATADIR='"/opt/user_software/coot/bin-gtk4/share"' -DCOOT_SYS_BUILD_TYPE='"Linux-x86_64-ubuntu-22.04.4-gtk4"' -DCOOT_BUILD_INFO_STRING='"build-host: gtxr1.srv-local.mpi-dortmund.mpg.de on: Mi 20 Mär 1759.36 CET 2024"' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/opt/user_software/coot/bin-gtk4/include/python3.11 -DHAVE_GSL -fopenmp -g -O -Wall -Wno-unused -std=c++17 -MT pick.lo -MD -MP -MF .deps/pick.Tpo -c -o pick.lo ../../coot/src/pick.cc In file included from ../../coot/src/molecular-mesh-generator-mol-tris.cc:10: ../../coot/MoleculesToTriangles/CXXClasses/RendererGL.h:61: warning: ignoring ‘#pragma mark ’ [-Wunknown-pragmas] 61 | #pragma mark - | ../../coot/MoleculesToTriangles/CXXClasses/RendererGL.h:62: warning: ignoring ‘#pragma mark Debug’ [-Wunknown-pragmas] 62 | #pragma mark Debug routine | libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" "-DPACKAGE_STRING=\"coot 1.x-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I../../coot/src -DUSE_PYTHON -mfpmath=sse -msse -msse2 -pthread -I/opt/user_software/coot/bin-gtk4/lib/libffi-3.2.1/include -I/usr/include/gtk-4.0 -I/usr/include/gio-unix-2.0 -I/usr/include/cairo -I/usr/include/pango-1.0 -I/usr/include/harfbuzz -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/harfbuzz -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/x86_64-linux-gnu -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/graphene-1.0 -I/usr/lib/x86_64-linux-gnu/graphene-1.0/include -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I../../coot -I/opt/user_software/coot/bin-gtk4/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/opt/user_software/coot/bin-gtk4/include -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -I/opt/user_software/coot/bin-gtk4/include -DHAVE_SSMLIB -I/opt/user_software/coot/bin-gtk4/include -DMMDB_HAS_LINK_DISTANCE -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DCLIPPER_HAS_TOP8000 -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR=\"/opt/user_software/coot/bin-gtk4/share/coot\" -DPACKAGE_LOCALE_DIR=\"/opt/user_software/coot/bin-gtk4/share/coot/locale\" -DPKGPYTHONDIR=\"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/coot\" -DPYTHONDIR=\"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages\" -DXDATADIR=\"/opt/user_software/coot/bin-gtk4/share\" -DCOOT_SYS_BUILD_TYPE=\"Linux-x86_64-ubuntu-22.04.4-gtk4\" "-DCOOT_BUILD_INFO_STRING=\"build-host: gtxr1.srv-local.mpi-dortmund.mpg.de on: Mi 20 Mär 1759.36 CET 2024\"" -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/opt/user_software/coot/bin-gtk4/include/python3.11 -DHAVE_GSL -fopenmp -g -O -Wall -Wno-unused -std=c++17 -MT obj_loader.lo -MD -MP -MF .deps/obj_loader.Tpo -c ../../coot/src/obj_loader.cc -fPIC -DPIC -o .libs/obj_loader.o libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" "-DPACKAGE_STRING=\"coot 1.x-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I../../coot/src -DUSE_PYTHON -mfpmath=sse -msse -msse2 -pthread -I/opt/user_software/coot/bin-gtk4/lib/libffi-3.2.1/include -I/usr/include/gtk-4.0 -I/usr/include/gio-unix-2.0 -I/usr/include/cairo -I/usr/include/pango-1.0 -I/usr/include/harfbuzz -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/harfbuzz -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/x86_64-linux-gnu -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/graphene-1.0 -I/usr/lib/x86_64-linux-gnu/graphene-1.0/include -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I../../coot -I/opt/user_software/coot/bin-gtk4/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/opt/user_software/coot/bin-gtk4/include -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -I/opt/user_software/coot/bin-gtk4/include -DHAVE_SSMLIB -I/opt/user_software/coot/bin-gtk4/include -DMMDB_HAS_LINK_DISTANCE -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DCLIPPER_HAS_TOP8000 -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR=\"/opt/user_software/coot/bin-gtk4/share/coot\" -DPACKAGE_LOCALE_DIR=\"/opt/user_software/coot/bin-gtk4/share/coot/locale\" -DPKGPYTHONDIR=\"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/coot\" -DPYTHONDIR=\"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages\" -DXDATADIR=\"/opt/user_software/coot/bin-gtk4/share\" -DCOOT_SYS_BUILD_TYPE=\"Linux-x86_64-ubuntu-22.04.4-gtk4\" "-DCOOT_BUILD_INFO_STRING=\"build-host: gtxr1.srv-local.mpi-dortmund.mpg.de on: Mi 20 Mär 1759.36 CET 2024\"" -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/opt/user_software/coot/bin-gtk4/include/python3.11 -DHAVE_GSL -fopenmp -g -O -Wall -Wno-unused -std=c++17 -MT pick.lo -MD -MP -MF .deps/pick.Tpo -c ../../coot/src/pick.cc -fPIC -DPIC -o .libs/pick.o In file included from ../../coot/MoleculesToTriangles/CXXClasses/RendererGLSL.hpp:31, from ../../coot/src/graphics-info.h:53, from ../../coot/src/pick.cc:43: ../../coot/MoleculesToTriangles/CXXClasses/RendererGL.h:61: warning: ignoring ‘#pragma mark ’ [-Wunknown-pragmas] 61 | #pragma mark - | ../../coot/MoleculesToTriangles/CXXClasses/RendererGL.h:62: warning: ignoring ‘#pragma mark Debug’ [-Wunknown-pragmas] 62 | #pragma mark Debug routine | mv -f .deps/obj_loader.Tpo .deps/obj_loader.Plo /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" -DPACKAGE_STRING=\"coot\ 1.x-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I../../coot/src -DUSE_PYTHON -mfpmath=sse -msse -msse2 -pthread -I/opt/user_software/coot/bin-gtk4/lib/libffi-3.2.1/include -I/usr/include/gtk-4.0 -I/usr/include/gio-unix-2.0 -I/usr/include/cairo -I/usr/include/pango-1.0 -I/usr/include/harfbuzz -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/harfbuzz -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/x86_64-linux-gnu -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/graphene-1.0 -I/usr/lib/x86_64-linux-gnu/graphene-1.0/include -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I../../coot -I/opt/user_software/coot/bin-gtk4/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/opt/user_software/coot/bin-gtk4/include -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -I/opt/user_software/coot/bin-gtk4/include -DHAVE_SSMLIB -I/opt/user_software/coot/bin-gtk4/include -DMMDB_HAS_LINK_DISTANCE -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DCLIPPER_HAS_TOP8000 -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR='"/opt/user_software/coot/bin-gtk4/share/coot"' -DPACKAGE_LOCALE_DIR='"/opt/user_software/coot/bin-gtk4/share/coot/locale"' -DPKGPYTHONDIR='"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/coot"' -DPYTHONDIR='"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages"' -DXDATADIR='"/opt/user_software/coot/bin-gtk4/share"' -DCOOT_SYS_BUILD_TYPE='"Linux-x86_64-ubuntu-22.04.4-gtk4"' -DCOOT_BUILD_INFO_STRING='"build-host: gtxr1.srv-local.mpi-dortmund.mpg.de on: Mi 20 Mär 1759.36 CET 2024"' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/opt/user_software/coot/bin-gtk4/include/python3.11 -DHAVE_GSL -fopenmp -g -O -Wall -Wno-unused -std=c++17 -MT probe-clash-score.lo -MD -MP -MF .deps/probe-clash-score.Tpo -c -o probe-clash-score.lo ../../coot/src/probe-clash-score.cc libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" "-DPACKAGE_STRING=\"coot 1.x-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I../../coot/src -DUSE_PYTHON -mfpmath=sse -msse -msse2 -pthread -I/opt/user_software/coot/bin-gtk4/lib/libffi-3.2.1/include -I/usr/include/gtk-4.0 -I/usr/include/gio-unix-2.0 -I/usr/include/cairo -I/usr/include/pango-1.0 -I/usr/include/harfbuzz -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/harfbuzz -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/x86_64-linux-gnu -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/graphene-1.0 -I/usr/lib/x86_64-linux-gnu/graphene-1.0/include -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I../../coot -I/opt/user_software/coot/bin-gtk4/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/opt/user_software/coot/bin-gtk4/include -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -I/opt/user_software/coot/bin-gtk4/include -DHAVE_SSMLIB -I/opt/user_software/coot/bin-gtk4/include -DMMDB_HAS_LINK_DISTANCE -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DCLIPPER_HAS_TOP8000 -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR=\"/opt/user_software/coot/bin-gtk4/share/coot\" -DPACKAGE_LOCALE_DIR=\"/opt/user_software/coot/bin-gtk4/share/coot/locale\" -DPKGPYTHONDIR=\"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/coot\" -DPYTHONDIR=\"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages\" -DXDATADIR=\"/opt/user_software/coot/bin-gtk4/share\" -DCOOT_SYS_BUILD_TYPE=\"Linux-x86_64-ubuntu-22.04.4-gtk4\" "-DCOOT_BUILD_INFO_STRING=\"build-host: gtxr1.srv-local.mpi-dortmund.mpg.de on: Mi 20 Mär 1759.36 CET 2024\"" -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/opt/user_software/coot/bin-gtk4/include/python3.11 -DHAVE_GSL -fopenmp -g -O -Wall -Wno-unused -std=c++17 -MT probe-clash-score.lo -MD -MP -MF .deps/probe-clash-score.Tpo -c ../../coot/src/probe-clash-score.cc -fPIC -DPIC -o .libs/probe-clash-score.o mv -f .deps/molecule-class-info-mol-tris.Tpo .deps/molecule-class-info-mol-tris.Plo /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" -DPACKAGE_STRING=\"coot\ 1.x-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I../../coot/src -DUSE_PYTHON -mfpmath=sse -msse -msse2 -pthread -I/opt/user_software/coot/bin-gtk4/lib/libffi-3.2.1/include -I/usr/include/gtk-4.0 -I/usr/include/gio-unix-2.0 -I/usr/include/cairo -I/usr/include/pango-1.0 -I/usr/include/harfbuzz -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/harfbuzz -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/x86_64-linux-gnu -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/graphene-1.0 -I/usr/lib/x86_64-linux-gnu/graphene-1.0/include -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I../../coot -I/opt/user_software/coot/bin-gtk4/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/opt/user_software/coot/bin-gtk4/include -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -I/opt/user_software/coot/bin-gtk4/include -DHAVE_SSMLIB -I/opt/user_software/coot/bin-gtk4/include -DMMDB_HAS_LINK_DISTANCE -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DCLIPPER_HAS_TOP8000 -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR='"/opt/user_software/coot/bin-gtk4/share/coot"' -DPACKAGE_LOCALE_DIR='"/opt/user_software/coot/bin-gtk4/share/coot/locale"' -DPKGPYTHONDIR='"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/coot"' -DPYTHONDIR='"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages"' -DXDATADIR='"/opt/user_software/coot/bin-gtk4/share"' -DCOOT_SYS_BUILD_TYPE='"Linux-x86_64-ubuntu-22.04.4-gtk4"' -DCOOT_BUILD_INFO_STRING='"build-host: gtxr1.srv-local.mpi-dortmund.mpg.de on: Mi 20 Mär 1759.36 CET 2024"' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/opt/user_software/coot/bin-gtk4/include/python3.11 -DHAVE_GSL -fopenmp -g -O -Wall -Wno-unused -std=c++17 -MT protein_db-interface.lo -MD -MP -MF .deps/protein_db-interface.Tpo -c -o protein_db-interface.lo ../../coot/src/protein_db-interface.cc libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" "-DPACKAGE_STRING=\"coot 1.x-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I../../coot/src -DUSE_PYTHON -mfpmath=sse -msse -msse2 -pthread -I/opt/user_software/coot/bin-gtk4/lib/libffi-3.2.1/include -I/usr/include/gtk-4.0 -I/usr/include/gio-unix-2.0 -I/usr/include/cairo -I/usr/include/pango-1.0 -I/usr/include/harfbuzz -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/harfbuzz -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/x86_64-linux-gnu -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/graphene-1.0 -I/usr/lib/x86_64-linux-gnu/graphene-1.0/include -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I../../coot -I/opt/user_software/coot/bin-gtk4/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/opt/user_software/coot/bin-gtk4/include -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -I/opt/user_software/coot/bin-gtk4/include -DHAVE_SSMLIB -I/opt/user_software/coot/bin-gtk4/include -DMMDB_HAS_LINK_DISTANCE -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DCLIPPER_HAS_TOP8000 -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR=\"/opt/user_software/coot/bin-gtk4/share/coot\" -DPACKAGE_LOCALE_DIR=\"/opt/user_software/coot/bin-gtk4/share/coot/locale\" -DPKGPYTHONDIR=\"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/coot\" -DPYTHONDIR=\"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages\" -DXDATADIR=\"/opt/user_software/coot/bin-gtk4/share\" -DCOOT_SYS_BUILD_TYPE=\"Linux-x86_64-ubuntu-22.04.4-gtk4\" "-DCOOT_BUILD_INFO_STRING=\"build-host: gtxr1.srv-local.mpi-dortmund.mpg.de on: Mi 20 Mär 1759.36 CET 2024\"" -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/opt/user_software/coot/bin-gtk4/include/python3.11 -DHAVE_GSL -fopenmp -g -O -Wall -Wno-unused -std=c++17 -MT protein_db-interface.lo -MD -MP -MF .deps/protein_db-interface.Tpo -c ../../coot/src/protein_db-interface.cc -fPIC -DPIC -o .libs/protein_db-interface.o mv -f .deps/molecular-mesh-generator-mol-tris.Tpo .deps/molecular-mesh-generator-mol-tris.Plo /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" -DPACKAGE_STRING=\"coot\ 1.x-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I../../coot/src -DUSE_PYTHON -mfpmath=sse -msse -msse2 -pthread -I/opt/user_software/coot/bin-gtk4/lib/libffi-3.2.1/include -I/usr/include/gtk-4.0 -I/usr/include/gio-unix-2.0 -I/usr/include/cairo -I/usr/include/pango-1.0 -I/usr/include/harfbuzz -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/harfbuzz -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/x86_64-linux-gnu -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/graphene-1.0 -I/usr/lib/x86_64-linux-gnu/graphene-1.0/include -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I../../coot -I/opt/user_software/coot/bin-gtk4/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/opt/user_software/coot/bin-gtk4/include -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -I/opt/user_software/coot/bin-gtk4/include -DHAVE_SSMLIB -I/opt/user_software/coot/bin-gtk4/include -DMMDB_HAS_LINK_DISTANCE -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DCLIPPER_HAS_TOP8000 -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR='"/opt/user_software/coot/bin-gtk4/share/coot"' -DPACKAGE_LOCALE_DIR='"/opt/user_software/coot/bin-gtk4/share/coot/locale"' -DPKGPYTHONDIR='"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/coot"' -DPYTHONDIR='"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages"' -DXDATADIR='"/opt/user_software/coot/bin-gtk4/share"' -DCOOT_SYS_BUILD_TYPE='"Linux-x86_64-ubuntu-22.04.4-gtk4"' -DCOOT_BUILD_INFO_STRING='"build-host: gtxr1.srv-local.mpi-dortmund.mpg.de on: Mi 20 Mär 1759.36 CET 2024"' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/opt/user_software/coot/bin-gtk4/include/python3.11 -DHAVE_GSL -fopenmp -g -O -Wall -Wno-unused -std=c++17 -MT pumpkin.lo -MD -MP -MF .deps/pumpkin.Tpo -c -o pumpkin.lo ../../coot/src/pumpkin.cc libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" "-DPACKAGE_STRING=\"coot 1.x-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I../../coot/src -DUSE_PYTHON -mfpmath=sse -msse -msse2 -pthread -I/opt/user_software/coot/bin-gtk4/lib/libffi-3.2.1/include -I/usr/include/gtk-4.0 -I/usr/include/gio-unix-2.0 -I/usr/include/cairo -I/usr/include/pango-1.0 -I/usr/include/harfbuzz -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/harfbuzz -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/x86_64-linux-gnu -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/graphene-1.0 -I/usr/lib/x86_64-linux-gnu/graphene-1.0/include -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I../../coot -I/opt/user_software/coot/bin-gtk4/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/opt/user_software/coot/bin-gtk4/include -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -I/opt/user_software/coot/bin-gtk4/include -DHAVE_SSMLIB -I/opt/user_software/coot/bin-gtk4/include -DMMDB_HAS_LINK_DISTANCE -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DCLIPPER_HAS_TOP8000 -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR=\"/opt/user_software/coot/bin-gtk4/share/coot\" -DPACKAGE_LOCALE_DIR=\"/opt/user_software/coot/bin-gtk4/share/coot/locale\" -DPKGPYTHONDIR=\"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/coot\" -DPYTHONDIR=\"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages\" -DXDATADIR=\"/opt/user_software/coot/bin-gtk4/share\" -DCOOT_SYS_BUILD_TYPE=\"Linux-x86_64-ubuntu-22.04.4-gtk4\" "-DCOOT_BUILD_INFO_STRING=\"build-host: gtxr1.srv-local.mpi-dortmund.mpg.de on: Mi 20 Mär 1759.36 CET 2024\"" -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/opt/user_software/coot/bin-gtk4/include/python3.11 -DHAVE_GSL -fopenmp -g -O -Wall -Wno-unused -std=c++17 -MT pumpkin.lo -MD -MP -MF .deps/pumpkin.Tpo -c ../../coot/src/pumpkin.cc -fPIC -DPIC -o .libs/pumpkin.o mv -f .deps/molecule-class-info-geometry.Tpo .deps/molecule-class-info-geometry.Plo /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" -DPACKAGE_STRING=\"coot\ 1.x-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I../../coot/src -DUSE_PYTHON -mfpmath=sse -msse -msse2 -pthread -I/opt/user_software/coot/bin-gtk4/lib/libffi-3.2.1/include -I/usr/include/gtk-4.0 -I/usr/include/gio-unix-2.0 -I/usr/include/cairo -I/usr/include/pango-1.0 -I/usr/include/harfbuzz -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/harfbuzz -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/x86_64-linux-gnu -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/graphene-1.0 -I/usr/lib/x86_64-linux-gnu/graphene-1.0/include -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I../../coot -I/opt/user_software/coot/bin-gtk4/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/opt/user_software/coot/bin-gtk4/include -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -I/opt/user_software/coot/bin-gtk4/include -DHAVE_SSMLIB -I/opt/user_software/coot/bin-gtk4/include -DMMDB_HAS_LINK_DISTANCE -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DCLIPPER_HAS_TOP8000 -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR='"/opt/user_software/coot/bin-gtk4/share/coot"' -DPACKAGE_LOCALE_DIR='"/opt/user_software/coot/bin-gtk4/share/coot/locale"' -DPKGPYTHONDIR='"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/coot"' -DPYTHONDIR='"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages"' -DXDATADIR='"/opt/user_software/coot/bin-gtk4/share"' -DCOOT_SYS_BUILD_TYPE='"Linux-x86_64-ubuntu-22.04.4-gtk4"' -DCOOT_BUILD_INFO_STRING='"build-host: gtxr1.srv-local.mpi-dortmund.mpg.de on: Mi 20 Mär 1759.36 CET 2024"' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/opt/user_software/coot/bin-gtk4/include/python3.11 -DHAVE_GSL -fopenmp -g -O -Wall -Wno-unused -std=c++17 -MT python-classes.lo -MD -MP -MF .deps/python-classes.Tpo -c -o python-classes.lo ../../coot/src/python-classes.cc mv -f .deps/probe-clash-score.Tpo .deps/probe-clash-score.Plo /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" -DPACKAGE_STRING=\"coot\ 1.x-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I../../coot/src -DUSE_PYTHON -mfpmath=sse -msse -msse2 -pthread -I/opt/user_software/coot/bin-gtk4/lib/libffi-3.2.1/include -I/usr/include/gtk-4.0 -I/usr/include/gio-unix-2.0 -I/usr/include/cairo -I/usr/include/pango-1.0 -I/usr/include/harfbuzz -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/harfbuzz -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/x86_64-linux-gnu -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/graphene-1.0 -I/usr/lib/x86_64-linux-gnu/graphene-1.0/include -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I../../coot -I/opt/user_software/coot/bin-gtk4/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/opt/user_software/coot/bin-gtk4/include -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -I/opt/user_software/coot/bin-gtk4/include -DHAVE_SSMLIB -I/opt/user_software/coot/bin-gtk4/include -DMMDB_HAS_LINK_DISTANCE -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DCLIPPER_HAS_TOP8000 -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR='"/opt/user_software/coot/bin-gtk4/share/coot"' -DPACKAGE_LOCALE_DIR='"/opt/user_software/coot/bin-gtk4/share/coot/locale"' -DPKGPYTHONDIR='"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/coot"' -DPYTHONDIR='"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages"' -DXDATADIR='"/opt/user_software/coot/bin-gtk4/share"' -DCOOT_SYS_BUILD_TYPE='"Linux-x86_64-ubuntu-22.04.4-gtk4"' -DCOOT_BUILD_INFO_STRING='"build-host: gtxr1.srv-local.mpi-dortmund.mpg.de on: Mi 20 Mär 1759.36 CET 2024"' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/opt/user_software/coot/bin-gtk4/include/python3.11 -DHAVE_GSL -fopenmp -g -O -Wall -Wno-unused -std=c++17 -MT Particle.lo -MD -MP -MF .deps/Particle.Tpo -c -o Particle.lo ../../coot/src/Particle.cc mv -f .deps/protein_db-interface.Tpo .deps/protein_db-interface.Plo /bin/bash ../libtool --tag=CC --mode=compile gcc -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" -DPACKAGE_STRING=\"coot\ 1.x-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I../../coot/src -DUSE_PYTHON -mfpmath=sse -msse -msse2 -pthread -I/opt/user_software/coot/bin-gtk4/lib/libffi-3.2.1/include -I/usr/include/gtk-4.0 -I/usr/include/gio-unix-2.0 -I/usr/include/cairo -I/usr/include/pango-1.0 -I/usr/include/harfbuzz -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/harfbuzz -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/x86_64-linux-gnu -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/graphene-1.0 -I/usr/lib/x86_64-linux-gnu/graphene-1.0/include -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I../../coot -I/opt/user_software/coot/bin-gtk4/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/opt/user_software/coot/bin-gtk4/include -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -I/opt/user_software/coot/bin-gtk4/include -DHAVE_SSMLIB -I/opt/user_software/coot/bin-gtk4/include -DMMDB_HAS_LINK_DISTANCE -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DCLIPPER_HAS_TOP8000 -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DPKGDATADIR='"/opt/user_software/coot/bin-gtk4/share/coot"' -DHAVE_SYS_STDTYPES_H=0 -I/opt/user_software/coot/bin-gtk4/include/python3.11 -g -O2 -Wall -Wunused -MT read-phs.lo -MD -MP -MF .deps/read-phs.Tpo -c -o read-phs.lo ../../coot/src/read-phs.c mv -f .deps/molecular-mesh-generator.Tpo .deps/molecular-mesh-generator.Plo /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" -DPACKAGE_STRING=\"coot\ 1.x-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I../../coot/src -DUSE_PYTHON -mfpmath=sse -msse -msse2 -pthread -I/opt/user_software/coot/bin-gtk4/lib/libffi-3.2.1/include -I/usr/include/gtk-4.0 -I/usr/include/gio-unix-2.0 -I/usr/include/cairo -I/usr/include/pango-1.0 -I/usr/include/harfbuzz -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/harfbuzz -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/x86_64-linux-gnu -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/graphene-1.0 -I/usr/lib/x86_64-linux-gnu/graphene-1.0/include -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I../../coot -I/opt/user_software/coot/bin-gtk4/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/opt/user_software/coot/bin-gtk4/include -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -I/opt/user_software/coot/bin-gtk4/include -DHAVE_SSMLIB -I/opt/user_software/coot/bin-gtk4/include -DMMDB_HAS_LINK_DISTANCE -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DCLIPPER_HAS_TOP8000 -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR='"/opt/user_software/coot/bin-gtk4/share/coot"' -DPACKAGE_LOCALE_DIR='"/opt/user_software/coot/bin-gtk4/share/coot/locale"' -DPKGPYTHONDIR='"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/coot"' -DPYTHONDIR='"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages"' -DXDATADIR='"/opt/user_software/coot/bin-gtk4/share"' -DCOOT_SYS_BUILD_TYPE='"Linux-x86_64-ubuntu-22.04.4-gtk4"' -DCOOT_BUILD_INFO_STRING='"build-host: gtxr1.srv-local.mpi-dortmund.mpg.de on: Mi 20 Mär 1759.36 CET 2024"' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/opt/user_software/coot/bin-gtk4/include/python3.11 -DHAVE_GSL -fopenmp -g -O -Wall -Wno-unused -std=c++17 -MT read-cif.lo -MD -MP -MF .deps/read-cif.Tpo -c -o read-cif.lo ../../coot/src/read-cif.cc libtool: compile: gcc -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" "-DPACKAGE_STRING=\"coot 1.x-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I../../coot/src -DUSE_PYTHON -mfpmath=sse -msse -msse2 -pthread -I/opt/user_software/coot/bin-gtk4/lib/libffi-3.2.1/include -I/usr/include/gtk-4.0 -I/usr/include/gio-unix-2.0 -I/usr/include/cairo -I/usr/include/pango-1.0 -I/usr/include/harfbuzz -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/harfbuzz -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/x86_64-linux-gnu -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/graphene-1.0 -I/usr/lib/x86_64-linux-gnu/graphene-1.0/include -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I../../coot -I/opt/user_software/coot/bin-gtk4/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/opt/user_software/coot/bin-gtk4/include -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -I/opt/user_software/coot/bin-gtk4/include -DHAVE_SSMLIB -I/opt/user_software/coot/bin-gtk4/include -DMMDB_HAS_LINK_DISTANCE -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DCLIPPER_HAS_TOP8000 -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DPKGDATADIR=\"/opt/user_software/coot/bin-gtk4/share/coot\" -DHAVE_SYS_STDTYPES_H=0 -I/opt/user_software/coot/bin-gtk4/include/python3.11 -g -O2 -Wall -Wunused -MT read-phs.lo -MD -MP -MF .deps/read-phs.Tpo -c ../../coot/src/read-phs.c -fPIC -DPIC -o .libs/read-phs.o libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" "-DPACKAGE_STRING=\"coot 1.x-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I../../coot/src -DUSE_PYTHON -mfpmath=sse -msse -msse2 -pthread -I/opt/user_software/coot/bin-gtk4/lib/libffi-3.2.1/include -I/usr/include/gtk-4.0 -I/usr/include/gio-unix-2.0 -I/usr/include/cairo -I/usr/include/pango-1.0 -I/usr/include/harfbuzz -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/harfbuzz -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/x86_64-linux-gnu -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/graphene-1.0 -I/usr/lib/x86_64-linux-gnu/graphene-1.0/include -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I../../coot -I/opt/user_software/coot/bin-gtk4/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/opt/user_software/coot/bin-gtk4/include -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES 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-I/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/opt/user_software/coot/bin-gtk4/include/python3.11 -DHAVE_GSL -fopenmp -g -O -Wall -Wno-unused -std=c++17 -MT python-classes.lo -MD -MP -MF .deps/python-classes.Tpo -c ../../coot/src/python-classes.cc -fPIC -DPIC -o .libs/python-classes.o libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" "-DPACKAGE_STRING=\"coot 1.x-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I../../coot/src -DUSE_PYTHON -mfpmath=sse 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-I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DCLIPPER_HAS_TOP8000 -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR=\"/opt/user_software/coot/bin-gtk4/share/coot\" -DPACKAGE_LOCALE_DIR=\"/opt/user_software/coot/bin-gtk4/share/coot/locale\" -DPKGPYTHONDIR=\"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/coot\" -DPYTHONDIR=\"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages\" -DXDATADIR=\"/opt/user_software/coot/bin-gtk4/share\" -DCOOT_SYS_BUILD_TYPE=\"Linux-x86_64-ubuntu-22.04.4-gtk4\" "-DCOOT_BUILD_INFO_STRING=\"build-host: gtxr1.srv-local.mpi-dortmund.mpg.de on: Mi 20 Mär 1759.36 CET 2024\"" -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/opt/user_software/coot/bin-gtk4/include/python3.11 -DHAVE_GSL -fopenmp -g -O -Wall -Wno-unused -std=c++17 -MT Particle.lo -MD -MP -MF .deps/Particle.Tpo -c ../../coot/src/Particle.cc -fPIC -DPIC -o .libs/Particle.o mv -f .deps/pumpkin.Tpo .deps/pumpkin.Plo /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" -DPACKAGE_STRING=\"coot\ 1.x-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I../../coot/src -DUSE_PYTHON -mfpmath=sse -msse -msse2 -pthread -I/opt/user_software/coot/bin-gtk4/lib/libffi-3.2.1/include -I/usr/include/gtk-4.0 -I/usr/include/gio-unix-2.0 -I/usr/include/cairo -I/usr/include/pango-1.0 -I/usr/include/harfbuzz -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/harfbuzz -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/x86_64-linux-gnu -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/graphene-1.0 -I/usr/lib/x86_64-linux-gnu/graphene-1.0/include -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I../../coot -I/opt/user_software/coot/bin-gtk4/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/opt/user_software/coot/bin-gtk4/include -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -I/opt/user_software/coot/bin-gtk4/include -DHAVE_SSMLIB -I/opt/user_software/coot/bin-gtk4/include -DMMDB_HAS_LINK_DISTANCE -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DCLIPPER_HAS_TOP8000 -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR='"/opt/user_software/coot/bin-gtk4/share/coot"' -DPACKAGE_LOCALE_DIR='"/opt/user_software/coot/bin-gtk4/share/coot/locale"' -DPKGPYTHONDIR='"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/coot"' -DPYTHONDIR='"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages"' -DXDATADIR='"/opt/user_software/coot/bin-gtk4/share"' -DCOOT_SYS_BUILD_TYPE='"Linux-x86_64-ubuntu-22.04.4-gtk4"' -DCOOT_BUILD_INFO_STRING='"build-host: gtxr1.srv-local.mpi-dortmund.mpg.de on: Mi 20 Mär 1759.36 CET 2024"' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/opt/user_software/coot/bin-gtk4/include/python3.11 -DHAVE_GSL -fopenmp -g -O -Wall -Wno-unused -std=c++17 -MT rama_mousey.lo -MD -MP -MF .deps/rama_mousey.Tpo -c -o rama_mousey.lo ../../coot/src/rama_mousey.cc mv -f .deps/read-phs.Tpo .deps/read-phs.Plo /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" -DPACKAGE_STRING=\"coot\ 1.x-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I../../coot/src -DUSE_PYTHON -mfpmath=sse -msse -msse2 -pthread -I/opt/user_software/coot/bin-gtk4/lib/libffi-3.2.1/include -I/usr/include/gtk-4.0 -I/usr/include/gio-unix-2.0 -I/usr/include/cairo -I/usr/include/pango-1.0 -I/usr/include/harfbuzz -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/harfbuzz -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/x86_64-linux-gnu -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/graphene-1.0 -I/usr/lib/x86_64-linux-gnu/graphene-1.0/include -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I../../coot -I/opt/user_software/coot/bin-gtk4/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/opt/user_software/coot/bin-gtk4/include -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -I/opt/user_software/coot/bin-gtk4/include -DHAVE_SSMLIB -I/opt/user_software/coot/bin-gtk4/include -DMMDB_HAS_LINK_DISTANCE -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DCLIPPER_HAS_TOP8000 -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR='"/opt/user_software/coot/bin-gtk4/share/coot"' -DPACKAGE_LOCALE_DIR='"/opt/user_software/coot/bin-gtk4/share/coot/locale"' -DPKGPYTHONDIR='"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/coot"' -DPYTHONDIR='"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages"' -DXDATADIR='"/opt/user_software/coot/bin-gtk4/share"' -DCOOT_SYS_BUILD_TYPE='"Linux-x86_64-ubuntu-22.04.4-gtk4"' -DCOOT_BUILD_INFO_STRING='"build-host: gtxr1.srv-local.mpi-dortmund.mpg.de on: Mi 20 Mär 1759.36 CET 2024"' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/opt/user_software/coot/bin-gtk4/include/python3.11 -DHAVE_GSL -fopenmp -g -O -Wall -Wno-unused -std=c++17 -MT rama_plot_with_canvas.lo -MD -MP -MF .deps/rama_plot_with_canvas.Tpo -c -o rama_plot_with_canvas.lo ../../coot/src/rama_plot_with_canvas.cc libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" "-DPACKAGE_STRING=\"coot 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-I/usr/lib/x86_64-linux-gnu/graphene-1.0/include -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I../../coot -I/opt/user_software/coot/bin-gtk4/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/opt/user_software/coot/bin-gtk4/include -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -I/opt/user_software/coot/bin-gtk4/include -DHAVE_SSMLIB -I/opt/user_software/coot/bin-gtk4/include -DMMDB_HAS_LINK_DISTANCE -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DCLIPPER_HAS_TOP8000 -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR=\"/opt/user_software/coot/bin-gtk4/share/coot\" -DPACKAGE_LOCALE_DIR=\"/opt/user_software/coot/bin-gtk4/share/coot/locale\" -DPKGPYTHONDIR=\"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/coot\" -DPYTHONDIR=\"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages\" -DXDATADIR=\"/opt/user_software/coot/bin-gtk4/share\" -DCOOT_SYS_BUILD_TYPE=\"Linux-x86_64-ubuntu-22.04.4-gtk4\" "-DCOOT_BUILD_INFO_STRING=\"build-host: gtxr1.srv-local.mpi-dortmund.mpg.de on: Mi 20 Mär 1759.36 CET 2024\"" -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/opt/user_software/coot/bin-gtk4/include/python3.11 -DHAVE_GSL -fopenmp -g -O -Wall -Wno-unused -std=c++17 -MT read-cif.lo -MD -MP -MF .deps/read-cif.Tpo -c ../../coot/src/read-cif.cc -fPIC -DPIC -o .libs/read-cif.o mv -f .deps/python-classes.Tpo .deps/python-classes.Plo /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" -DPACKAGE_STRING=\"coot\ 1.x-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I../../coot/src -DUSE_PYTHON -mfpmath=sse -msse -msse2 -pthread -I/opt/user_software/coot/bin-gtk4/lib/libffi-3.2.1/include -I/usr/include/gtk-4.0 -I/usr/include/gio-unix-2.0 -I/usr/include/cairo -I/usr/include/pango-1.0 -I/usr/include/harfbuzz -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/harfbuzz -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/x86_64-linux-gnu -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/graphene-1.0 -I/usr/lib/x86_64-linux-gnu/graphene-1.0/include -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I../../coot -I/opt/user_software/coot/bin-gtk4/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/opt/user_software/coot/bin-gtk4/include -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -I/opt/user_software/coot/bin-gtk4/include -DHAVE_SSMLIB -I/opt/user_software/coot/bin-gtk4/include -DMMDB_HAS_LINK_DISTANCE -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DCLIPPER_HAS_TOP8000 -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR='"/opt/user_software/coot/bin-gtk4/share/coot"' -DPACKAGE_LOCALE_DIR='"/opt/user_software/coot/bin-gtk4/share/coot/locale"' -DPKGPYTHONDIR='"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/coot"' -DPYTHONDIR='"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages"' -DXDATADIR='"/opt/user_software/coot/bin-gtk4/share"' -DCOOT_SYS_BUILD_TYPE='"Linux-x86_64-ubuntu-22.04.4-gtk4"' -DCOOT_BUILD_INFO_STRING='"build-host: gtxr1.srv-local.mpi-dortmund.mpg.de on: Mi 20 Mär 1759.36 CET 2024"' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/opt/user_software/coot/bin-gtk4/include/python3.11 -DHAVE_GSL -fopenmp -g -O -Wall -Wno-unused -std=c++17 -MT text-rendering-utils.lo -MD -MP -MF .deps/text-rendering-utils.Tpo -c -o text-rendering-utils.lo ../../coot/src/text-rendering-utils.cc libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" "-DPACKAGE_STRING=\"coot 1.x-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I../../coot/src -DUSE_PYTHON -mfpmath=sse -msse -msse2 -pthread -I/opt/user_software/coot/bin-gtk4/lib/libffi-3.2.1/include -I/usr/include/gtk-4.0 -I/usr/include/gio-unix-2.0 -I/usr/include/cairo -I/usr/include/pango-1.0 -I/usr/include/harfbuzz -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/harfbuzz -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/x86_64-linux-gnu -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/graphene-1.0 -I/usr/lib/x86_64-linux-gnu/graphene-1.0/include -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I../../coot -I/opt/user_software/coot/bin-gtk4/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/opt/user_software/coot/bin-gtk4/include 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-I/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/opt/user_software/coot/bin-gtk4/include/python3.11 -DHAVE_GSL -fopenmp -g -O -Wall -Wno-unused -std=c++17 -MT rama_mousey.lo -MD -MP -MF .deps/rama_mousey.Tpo -c ../../coot/src/rama_mousey.cc -fPIC -DPIC -o .libs/rama_mousey.o libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" "-DPACKAGE_STRING=\"coot 1.x-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I../../coot/src -DUSE_PYTHON -mfpmath=sse -msse -msse2 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-I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DCLIPPER_HAS_TOP8000 -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR=\"/opt/user_software/coot/bin-gtk4/share/coot\" -DPACKAGE_LOCALE_DIR=\"/opt/user_software/coot/bin-gtk4/share/coot/locale\" -DPKGPYTHONDIR=\"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/coot\" -DPYTHONDIR=\"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages\" -DXDATADIR=\"/opt/user_software/coot/bin-gtk4/share\" -DCOOT_SYS_BUILD_TYPE=\"Linux-x86_64-ubuntu-22.04.4-gtk4\" "-DCOOT_BUILD_INFO_STRING=\"build-host: gtxr1.srv-local.mpi-dortmund.mpg.de on: Mi 20 Mär 1759.36 CET 2024\"" -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/opt/user_software/coot/bin-gtk4/include/python3.11 -DHAVE_GSL -fopenmp -g -O -Wall -Wno-unused -std=c++17 -MT rama_plot_with_canvas.lo -MD -MP -MF .deps/rama_plot_with_canvas.Tpo -c ../../coot/src/rama_plot_with_canvas.cc -fPIC -DPIC -o .libs/rama_plot_with_canvas.o mv -f .deps/rama_plot_with_canvas.Tpo .deps/rama_plot_with_canvas.Plo /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" -DPACKAGE_STRING=\"coot\ 1.x-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I../../coot/src -DUSE_PYTHON -mfpmath=sse -msse -msse2 -pthread -I/opt/user_software/coot/bin-gtk4/lib/libffi-3.2.1/include -I/usr/include/gtk-4.0 -I/usr/include/gio-unix-2.0 -I/usr/include/cairo -I/usr/include/pango-1.0 -I/usr/include/harfbuzz -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/harfbuzz -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/x86_64-linux-gnu -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/graphene-1.0 -I/usr/lib/x86_64-linux-gnu/graphene-1.0/include -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I../../coot -I/opt/user_software/coot/bin-gtk4/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/opt/user_software/coot/bin-gtk4/include -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -I/opt/user_software/coot/bin-gtk4/include -DHAVE_SSMLIB -I/opt/user_software/coot/bin-gtk4/include -DMMDB_HAS_LINK_DISTANCE -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include 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-DPACKAGE_STRING=\"coot\ 1.x-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I../../coot/src -DUSE_PYTHON -mfpmath=sse -msse -msse2 -pthread -I/opt/user_software/coot/bin-gtk4/lib/libffi-3.2.1/include -I/usr/include/gtk-4.0 -I/usr/include/gio-unix-2.0 -I/usr/include/cairo -I/usr/include/pango-1.0 -I/usr/include/harfbuzz -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/harfbuzz -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/x86_64-linux-gnu -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/graphene-1.0 -I/usr/lib/x86_64-linux-gnu/graphene-1.0/include -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I../../coot -I/opt/user_software/coot/bin-gtk4/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/opt/user_software/coot/bin-gtk4/include -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -I/opt/user_software/coot/bin-gtk4/include -DHAVE_SSMLIB -I/opt/user_software/coot/bin-gtk4/include -DMMDB_HAS_LINK_DISTANCE -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DCLIPPER_HAS_TOP8000 -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR='"/opt/user_software/coot/bin-gtk4/share/coot"' -DPACKAGE_LOCALE_DIR='"/opt/user_software/coot/bin-gtk4/share/coot/locale"' -DPKGPYTHONDIR='"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/coot"' -DPYTHONDIR='"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages"' -DXDATADIR='"/opt/user_software/coot/bin-gtk4/share"' -DCOOT_SYS_BUILD_TYPE='"Linux-x86_64-ubuntu-22.04.4-gtk4"' -DCOOT_BUILD_INFO_STRING='"build-host: gtxr1.srv-local.mpi-dortmund.mpg.de on: Mi 20 Mär 1759.36 CET 2024"' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/opt/user_software/coot/bin-gtk4/include/python3.11 -DHAVE_GSL -fopenmp -g -O -Wall -Wno-unused -std=c++17 -MT screendump-tga.lo -MD -MP -MF .deps/screendump-tga.Tpo -c -o screendump-tga.lo ../../coot/src/screendump-tga.cc mv -f .deps/read-cif.Tpo .deps/read-cif.Plo /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" -DPACKAGE_STRING=\"coot\ 1.x-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I../../coot/src -DUSE_PYTHON -mfpmath=sse -msse -msse2 -pthread -I/opt/user_software/coot/bin-gtk4/lib/libffi-3.2.1/include -I/usr/include/gtk-4.0 -I/usr/include/gio-unix-2.0 -I/usr/include/cairo -I/usr/include/pango-1.0 -I/usr/include/harfbuzz -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/harfbuzz -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/x86_64-linux-gnu -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/graphene-1.0 -I/usr/lib/x86_64-linux-gnu/graphene-1.0/include -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I../../coot -I/opt/user_software/coot/bin-gtk4/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/opt/user_software/coot/bin-gtk4/include -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -I/opt/user_software/coot/bin-gtk4/include -DHAVE_SSMLIB -I/opt/user_software/coot/bin-gtk4/include -DMMDB_HAS_LINK_DISTANCE -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DCLIPPER_HAS_TOP8000 -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR='"/opt/user_software/coot/bin-gtk4/share/coot"' -DPACKAGE_LOCALE_DIR='"/opt/user_software/coot/bin-gtk4/share/coot/locale"' -DPKGPYTHONDIR='"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/coot"' -DPYTHONDIR='"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages"' -DXDATADIR='"/opt/user_software/coot/bin-gtk4/share"' -DCOOT_SYS_BUILD_TYPE='"Linux-x86_64-ubuntu-22.04.4-gtk4"' -DCOOT_BUILD_INFO_STRING='"build-host: gtxr1.srv-local.mpi-dortmund.mpg.de on: Mi 20 Mär 1759.36 CET 2024"' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/opt/user_software/coot/bin-gtk4/include/python3.11 -DHAVE_GSL -fopenmp -g -O -Wall -Wno-unused -std=c++17 -MT sdf-interface.lo -MD -MP -MF .deps/sdf-interface.Tpo -c -o sdf-interface.lo ../../coot/src/sdf-interface.cc libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" "-DPACKAGE_STRING=\"coot 1.x-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I../../coot/src -DUSE_PYTHON -mfpmath=sse -msse -msse2 -pthread -I/opt/user_software/coot/bin-gtk4/lib/libffi-3.2.1/include -I/usr/include/gtk-4.0 -I/usr/include/gio-unix-2.0 -I/usr/include/cairo -I/usr/include/pango-1.0 -I/usr/include/harfbuzz -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/harfbuzz -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/x86_64-linux-gnu -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/graphene-1.0 -I/usr/lib/x86_64-linux-gnu/graphene-1.0/include -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I../../coot -I/opt/user_software/coot/bin-gtk4/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/opt/user_software/coot/bin-gtk4/include -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -I/opt/user_software/coot/bin-gtk4/include -DHAVE_SSMLIB -I/opt/user_software/coot/bin-gtk4/include -DMMDB_HAS_LINK_DISTANCE -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DCLIPPER_HAS_TOP8000 -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR=\"/opt/user_software/coot/bin-gtk4/share/coot\" -DPACKAGE_LOCALE_DIR=\"/opt/user_software/coot/bin-gtk4/share/coot/locale\" -DPKGPYTHONDIR=\"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/coot\" -DPYTHONDIR=\"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages\" -DXDATADIR=\"/opt/user_software/coot/bin-gtk4/share\" -DCOOT_SYS_BUILD_TYPE=\"Linux-x86_64-ubuntu-22.04.4-gtk4\" "-DCOOT_BUILD_INFO_STRING=\"build-host: gtxr1.srv-local.mpi-dortmund.mpg.de on: Mi 20 Mär 1759.36 CET 2024\"" -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/opt/user_software/coot/bin-gtk4/include/python3.11 -DHAVE_GSL -fopenmp -g -O -Wall -Wno-unused -std=c++17 -MT rsr-functions.lo -MD -MP -MF .deps/rsr-functions.Tpo -c ../../coot/src/rsr-functions.cc -fPIC -DPIC -o .libs/rsr-functions.o libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" "-DPACKAGE_STRING=\"coot 1.x-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I../../coot/src -DUSE_PYTHON -mfpmath=sse -msse -msse2 -pthread -I/opt/user_software/coot/bin-gtk4/lib/libffi-3.2.1/include -I/usr/include/gtk-4.0 -I/usr/include/gio-unix-2.0 -I/usr/include/cairo -I/usr/include/pango-1.0 -I/usr/include/harfbuzz -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/harfbuzz -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/x86_64-linux-gnu -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/graphene-1.0 -I/usr/lib/x86_64-linux-gnu/graphene-1.0/include -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I../../coot -I/opt/user_software/coot/bin-gtk4/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/opt/user_software/coot/bin-gtk4/include -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -I/opt/user_software/coot/bin-gtk4/include -DHAVE_SSMLIB -I/opt/user_software/coot/bin-gtk4/include -DMMDB_HAS_LINK_DISTANCE -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DCLIPPER_HAS_TOP8000 -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR=\"/opt/user_software/coot/bin-gtk4/share/coot\" -DPACKAGE_LOCALE_DIR=\"/opt/user_software/coot/bin-gtk4/share/coot/locale\" -DPKGPYTHONDIR=\"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/coot\" -DPYTHONDIR=\"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages\" -DXDATADIR=\"/opt/user_software/coot/bin-gtk4/share\" -DCOOT_SYS_BUILD_TYPE=\"Linux-x86_64-ubuntu-22.04.4-gtk4\" "-DCOOT_BUILD_INFO_STRING=\"build-host: gtxr1.srv-local.mpi-dortmund.mpg.de on: Mi 20 Mär 1759.36 CET 2024\"" -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/opt/user_software/coot/bin-gtk4/include/python3.11 -DHAVE_GSL -fopenmp -g -O -Wall -Wno-unused -std=c++17 -MT restraints-editor.lo -MD -MP -MF .deps/restraints-editor.Tpo -c ../../coot/src/restraints-editor.cc -fPIC -DPIC -o .libs/restraints-editor.o In file included from ../../coot/MoleculesToTriangles/CXXClasses/RendererGLSL.hpp:31, from ../../coot/src/graphics-info.h:53, from ../../coot/src/text-rendering-utils.cc:26: ../../coot/MoleculesToTriangles/CXXClasses/RendererGL.h:61: warning: ignoring ‘#pragma mark ’ [-Wunknown-pragmas] 61 | #pragma mark - | ../../coot/MoleculesToTriangles/CXXClasses/RendererGL.h:62: warning: ignoring ‘#pragma mark Debug’ [-Wunknown-pragmas] 62 | #pragma mark Debug routine | libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" "-DPACKAGE_STRING=\"coot 1.x-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I../../coot/src -DUSE_PYTHON -mfpmath=sse -msse -msse2 -pthread -I/opt/user_software/coot/bin-gtk4/lib/libffi-3.2.1/include -I/usr/include/gtk-4.0 -I/usr/include/gio-unix-2.0 -I/usr/include/cairo -I/usr/include/pango-1.0 -I/usr/include/harfbuzz -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/harfbuzz -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/x86_64-linux-gnu -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/graphene-1.0 -I/usr/lib/x86_64-linux-gnu/graphene-1.0/include -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I../../coot -I/opt/user_software/coot/bin-gtk4/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/opt/user_software/coot/bin-gtk4/include -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -I/opt/user_software/coot/bin-gtk4/include -DHAVE_SSMLIB -I/opt/user_software/coot/bin-gtk4/include -DMMDB_HAS_LINK_DISTANCE -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DCLIPPER_HAS_TOP8000 -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR=\"/opt/user_software/coot/bin-gtk4/share/coot\" -DPACKAGE_LOCALE_DIR=\"/opt/user_software/coot/bin-gtk4/share/coot/locale\" -DPKGPYTHONDIR=\"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/coot\" -DPYTHONDIR=\"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages\" -DXDATADIR=\"/opt/user_software/coot/bin-gtk4/share\" -DCOOT_SYS_BUILD_TYPE=\"Linux-x86_64-ubuntu-22.04.4-gtk4\" "-DCOOT_BUILD_INFO_STRING=\"build-host: gtxr1.srv-local.mpi-dortmund.mpg.de on: Mi 20 Mär 1759.36 CET 2024\"" -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/opt/user_software/coot/bin-gtk4/include/python3.11 -DHAVE_GSL -fopenmp -g -O -Wall -Wno-unused -std=c++17 -MT screendump-tga.lo -MD -MP -MF .deps/screendump-tga.Tpo -c ../../coot/src/screendump-tga.cc -fPIC -DPIC -o .libs/screendump-tga.o libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" "-DPACKAGE_STRING=\"coot 1.x-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I../../coot/src -DUSE_PYTHON -mfpmath=sse -msse -msse2 -pthread -I/opt/user_software/coot/bin-gtk4/lib/libffi-3.2.1/include -I/usr/include/gtk-4.0 -I/usr/include/gio-unix-2.0 -I/usr/include/cairo -I/usr/include/pango-1.0 -I/usr/include/harfbuzz -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/harfbuzz -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/x86_64-linux-gnu -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/graphene-1.0 -I/usr/lib/x86_64-linux-gnu/graphene-1.0/include -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I../../coot -I/opt/user_software/coot/bin-gtk4/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/opt/user_software/coot/bin-gtk4/include -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -I/opt/user_software/coot/bin-gtk4/include -DHAVE_SSMLIB -I/opt/user_software/coot/bin-gtk4/include -DMMDB_HAS_LINK_DISTANCE -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DCLIPPER_HAS_TOP8000 -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR=\"/opt/user_software/coot/bin-gtk4/share/coot\" -DPACKAGE_LOCALE_DIR=\"/opt/user_software/coot/bin-gtk4/share/coot/locale\" -DPKGPYTHONDIR=\"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/coot\" -DPYTHONDIR=\"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages\" -DXDATADIR=\"/opt/user_software/coot/bin-gtk4/share\" -DCOOT_SYS_BUILD_TYPE=\"Linux-x86_64-ubuntu-22.04.4-gtk4\" "-DCOOT_BUILD_INFO_STRING=\"build-host: gtxr1.srv-local.mpi-dortmund.mpg.de on: Mi 20 Mär 1759.36 CET 2024\"" -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/opt/user_software/coot/bin-gtk4/include/python3.11 -DHAVE_GSL -fopenmp -g -O -Wall -Wno-unused -std=c++17 -MT sdf-interface.lo -MD -MP -MF .deps/sdf-interface.Tpo -c ../../coot/src/sdf-interface.cc -fPIC -DPIC -o .libs/sdf-interface.o In file included from ../../coot/MoleculesToTriangles/CXXClasses/RendererGLSL.hpp:31, from ../../coot/src/graphics-info.h:53, from ../../coot/src/rsr-functions.cc:2: ../../coot/MoleculesToTriangles/CXXClasses/RendererGL.h:61: warning: ignoring ‘#pragma mark ’ [-Wunknown-pragmas] 61 | #pragma mark - | ../../coot/MoleculesToTriangles/CXXClasses/RendererGL.h:62: warning: ignoring ‘#pragma mark Debug’ [-Wunknown-pragmas] 62 | #pragma mark Debug routine | In file included from ../../coot/MoleculesToTriangles/CXXClasses/RendererGLSL.hpp:31, from ../../coot/src/graphics-info.h:53, from ../../coot/src/restraints-editor.cc:49: ../../coot/MoleculesToTriangles/CXXClasses/RendererGL.h:61: warning: ignoring ‘#pragma mark ’ [-Wunknown-pragmas] 61 | #pragma mark - | ../../coot/MoleculesToTriangles/CXXClasses/RendererGL.h:62: warning: ignoring ‘#pragma mark Debug’ [-Wunknown-pragmas] 62 | #pragma mark Debug routine | In file included from ../../coot/MoleculesToTriangles/CXXClasses/RendererGLSL.hpp:31, from ../../coot/src/graphics-info.h:53, from ../../coot/src/screendump-tga.cc:11: ../../coot/MoleculesToTriangles/CXXClasses/RendererGL.h:61: warning: ignoring ‘#pragma mark ’ [-Wunknown-pragmas] 61 | #pragma mark - | ../../coot/MoleculesToTriangles/CXXClasses/RendererGL.h:62: warning: ignoring ‘#pragma mark Debug’ [-Wunknown-pragmas] 62 | #pragma mark Debug routine | In file included from ../../coot/MoleculesToTriangles/CXXClasses/RendererGLSL.hpp:31, from ../../coot/src/graphics-info.h:53, from ../../coot/src/sdf-interface.cc:43: ../../coot/MoleculesToTriangles/CXXClasses/RendererGL.h:61: warning: ignoring ‘#pragma mark ’ [-Wunknown-pragmas] 61 | #pragma mark - | ../../coot/MoleculesToTriangles/CXXClasses/RendererGL.h:62: warning: ignoring ‘#pragma mark Debug’ [-Wunknown-pragmas] 62 | #pragma mark Debug routine | mv -f .deps/molecule-class-info-ncs.Tpo .deps/molecule-class-info-ncs.Plo /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" -DPACKAGE_STRING=\"coot\ 1.x-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I../../coot/src -DUSE_PYTHON -mfpmath=sse -msse -msse2 -pthread -I/opt/user_software/coot/bin-gtk4/lib/libffi-3.2.1/include -I/usr/include/gtk-4.0 -I/usr/include/gio-unix-2.0 -I/usr/include/cairo -I/usr/include/pango-1.0 -I/usr/include/harfbuzz -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/harfbuzz -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/x86_64-linux-gnu -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/graphene-1.0 -I/usr/lib/x86_64-linux-gnu/graphene-1.0/include -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I../../coot -I/opt/user_software/coot/bin-gtk4/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/opt/user_software/coot/bin-gtk4/include -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -I/opt/user_software/coot/bin-gtk4/include -DHAVE_SSMLIB -I/opt/user_software/coot/bin-gtk4/include -DMMDB_HAS_LINK_DISTANCE -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DCLIPPER_HAS_TOP8000 -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR='"/opt/user_software/coot/bin-gtk4/share/coot"' -DPACKAGE_LOCALE_DIR='"/opt/user_software/coot/bin-gtk4/share/coot/locale"' -DPKGPYTHONDIR='"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/coot"' -DPYTHONDIR='"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages"' -DXDATADIR='"/opt/user_software/coot/bin-gtk4/share"' -DCOOT_SYS_BUILD_TYPE='"Linux-x86_64-ubuntu-22.04.4-gtk4"' -DCOOT_BUILD_INFO_STRING='"build-host: gtxr1.srv-local.mpi-dortmund.mpg.de on: Mi 20 Mär 1759.36 CET 2024"' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/opt/user_software/coot/bin-gtk4/include/python3.11 -DHAVE_GSL -fopenmp -g -O -Wall -Wno-unused -std=c++17 -MT sequence-view.lo -MD -MP -MF .deps/sequence-view.Tpo -c -o sequence-view.lo ../../coot/src/sequence-view.cc mv -f .deps/molecule-class-info-widget-work.Tpo .deps/molecule-class-info-widget-work.Plo /bin/bash ../libtool --tag=CC --mode=compile gcc -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" -DPACKAGE_STRING=\"coot\ 1.x-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I../../coot/src -DUSE_PYTHON -mfpmath=sse -msse -msse2 -pthread -I/opt/user_software/coot/bin-gtk4/lib/libffi-3.2.1/include -I/usr/include/gtk-4.0 -I/usr/include/gio-unix-2.0 -I/usr/include/cairo -I/usr/include/pango-1.0 -I/usr/include/harfbuzz -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/harfbuzz -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/x86_64-linux-gnu -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/graphene-1.0 -I/usr/lib/x86_64-linux-gnu/graphene-1.0/include -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I../../coot -I/opt/user_software/coot/bin-gtk4/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/opt/user_software/coot/bin-gtk4/include -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -I/opt/user_software/coot/bin-gtk4/include -DHAVE_SSMLIB -I/opt/user_software/coot/bin-gtk4/include -DMMDB_HAS_LINK_DISTANCE -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DCLIPPER_HAS_TOP8000 -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DPKGDATADIR='"/opt/user_software/coot/bin-gtk4/share/coot"' -DHAVE_SYS_STDTYPES_H=0 -I/opt/user_software/coot/bin-gtk4/include/python3.11 -g -O2 -Wall -Wunused -MT seq-view-interface.lo -MD -MP -MF .deps/seq-view-interface.Tpo -c -o seq-view-interface.lo ../../coot/src/seq-view-interface.c libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" "-DPACKAGE_STRING=\"coot 1.x-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I../../coot/src -DUSE_PYTHON -mfpmath=sse -msse -msse2 -pthread -I/opt/user_software/coot/bin-gtk4/lib/libffi-3.2.1/include -I/usr/include/gtk-4.0 -I/usr/include/gio-unix-2.0 -I/usr/include/cairo -I/usr/include/pango-1.0 -I/usr/include/harfbuzz -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/harfbuzz -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/x86_64-linux-gnu -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/graphene-1.0 -I/usr/lib/x86_64-linux-gnu/graphene-1.0/include -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I../../coot -I/opt/user_software/coot/bin-gtk4/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/opt/user_software/coot/bin-gtk4/include -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -I/opt/user_software/coot/bin-gtk4/include -DHAVE_SSMLIB -I/opt/user_software/coot/bin-gtk4/include -DMMDB_HAS_LINK_DISTANCE -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DCLIPPER_HAS_TOP8000 -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR=\"/opt/user_software/coot/bin-gtk4/share/coot\" -DPACKAGE_LOCALE_DIR=\"/opt/user_software/coot/bin-gtk4/share/coot/locale\" -DPKGPYTHONDIR=\"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/coot\" -DPYTHONDIR=\"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages\" -DXDATADIR=\"/opt/user_software/coot/bin-gtk4/share\" -DCOOT_SYS_BUILD_TYPE=\"Linux-x86_64-ubuntu-22.04.4-gtk4\" "-DCOOT_BUILD_INFO_STRING=\"build-host: gtxr1.srv-local.mpi-dortmund.mpg.de on: Mi 20 Mär 1759.36 CET 2024\"" -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/opt/user_software/coot/bin-gtk4/include/python3.11 -DHAVE_GSL -fopenmp -g -O -Wall -Wno-unused -std=c++17 -MT sequence-view.lo -MD -MP -MF .deps/sequence-view.Tpo -c ../../coot/src/sequence-view.cc -fPIC -DPIC -o .libs/sequence-view.o mv -f .deps/sequence-view.Tpo .deps/sequence-view.Plo /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" -DPACKAGE_STRING=\"coot\ 1.x-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I../../coot/src -DUSE_PYTHON -mfpmath=sse -msse -msse2 -pthread -I/opt/user_software/coot/bin-gtk4/lib/libffi-3.2.1/include -I/usr/include/gtk-4.0 -I/usr/include/gio-unix-2.0 -I/usr/include/cairo -I/usr/include/pango-1.0 -I/usr/include/harfbuzz -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/harfbuzz -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/x86_64-linux-gnu -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/graphene-1.0 -I/usr/lib/x86_64-linux-gnu/graphene-1.0/include -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I../../coot -I/opt/user_software/coot/bin-gtk4/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/opt/user_software/coot/bin-gtk4/include -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -I/opt/user_software/coot/bin-gtk4/include -DHAVE_SSMLIB -I/opt/user_software/coot/bin-gtk4/include -DMMDB_HAS_LINK_DISTANCE -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DCLIPPER_HAS_TOP8000 -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR='"/opt/user_software/coot/bin-gtk4/share/coot"' -DPACKAGE_LOCALE_DIR='"/opt/user_software/coot/bin-gtk4/share/coot/locale"' -DPKGPYTHONDIR='"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/coot"' -DPYTHONDIR='"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages"' -DXDATADIR='"/opt/user_software/coot/bin-gtk4/share"' -DCOOT_SYS_BUILD_TYPE='"Linux-x86_64-ubuntu-22.04.4-gtk4"' -DCOOT_BUILD_INFO_STRING='"build-host: gtxr1.srv-local.mpi-dortmund.mpg.de on: Mi 20 Mär 1759.36 CET 2024"' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/opt/user_software/coot/bin-gtk4/include/python3.11 -DHAVE_GSL -fopenmp -g -O -Wall -Wno-unused -std=c++17 -MT Shader.lo -MD -MP -MF .deps/Shader.Tpo -c -o Shader.lo ../../coot/src/Shader.cc libtool: compile: gcc -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" "-DPACKAGE_STRING=\"coot 1.x-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I../../coot/src -DUSE_PYTHON -mfpmath=sse -msse -msse2 -pthread -I/opt/user_software/coot/bin-gtk4/lib/libffi-3.2.1/include -I/usr/include/gtk-4.0 -I/usr/include/gio-unix-2.0 -I/usr/include/cairo -I/usr/include/pango-1.0 -I/usr/include/harfbuzz -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/harfbuzz -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/x86_64-linux-gnu -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/graphene-1.0 -I/usr/lib/x86_64-linux-gnu/graphene-1.0/include -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I../../coot -I/opt/user_software/coot/bin-gtk4/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/opt/user_software/coot/bin-gtk4/include -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -I/opt/user_software/coot/bin-gtk4/include -DHAVE_SSMLIB -I/opt/user_software/coot/bin-gtk4/include -DMMDB_HAS_LINK_DISTANCE -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DCLIPPER_HAS_TOP8000 -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DPKGDATADIR=\"/opt/user_software/coot/bin-gtk4/share/coot\" -DHAVE_SYS_STDTYPES_H=0 -I/opt/user_software/coot/bin-gtk4/include/python3.11 -g -O2 -Wall -Wunused -MT seq-view-interface.lo -MD -MP -MF .deps/seq-view-interface.Tpo -c ../../coot/src/seq-view-interface.c -fPIC -DPIC -o .libs/seq-view-interface.o ../../coot/src/seq-view-interface.c: In function ‘seq_lookup_widget’: ../../coot/src/seq-view-interface.c:31:14: warning: unused variable ‘parent’ [-Wunused-variable] 31 | GtkWidget *parent = NULL, *found_widget = NULL; | ^~~~~~ ../../coot/src/seq-view-interface.c: In function ‘on_sequence_view_close_button_clicked’: ../../coot/src/seq-view-interface.c:132:15: warning: unused variable ‘window’ [-Wunused-variable] 132 | GtkWidget *window = seq_lookup_widget(GTK_WIDGET(button), "sequence_view_dialog"); | ^~~~~~ mv -f .deps/seq-view-interface.Tpo .deps/seq-view-interface.Plo /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" -DPACKAGE_STRING=\"coot\ 1.x-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I../../coot/src -DUSE_PYTHON -mfpmath=sse -msse -msse2 -pthread -I/opt/user_software/coot/bin-gtk4/lib/libffi-3.2.1/include -I/usr/include/gtk-4.0 -I/usr/include/gio-unix-2.0 -I/usr/include/cairo -I/usr/include/pango-1.0 -I/usr/include/harfbuzz -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/harfbuzz -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/x86_64-linux-gnu -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/graphene-1.0 -I/usr/lib/x86_64-linux-gnu/graphene-1.0/include -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I../../coot -I/opt/user_software/coot/bin-gtk4/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/opt/user_software/coot/bin-gtk4/include -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -I/opt/user_software/coot/bin-gtk4/include -DHAVE_SSMLIB -I/opt/user_software/coot/bin-gtk4/include -DMMDB_HAS_LINK_DISTANCE -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DCLIPPER_HAS_TOP8000 -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR='"/opt/user_software/coot/bin-gtk4/share/coot"' -DPACKAGE_LOCALE_DIR='"/opt/user_software/coot/bin-gtk4/share/coot/locale"' -DPKGPYTHONDIR='"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/coot"' -DPYTHONDIR='"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages"' -DXDATADIR='"/opt/user_software/coot/bin-gtk4/share"' -DCOOT_SYS_BUILD_TYPE='"Linux-x86_64-ubuntu-22.04.4-gtk4"' -DCOOT_BUILD_INFO_STRING='"build-host: gtxr1.srv-local.mpi-dortmund.mpg.de on: Mi 20 Mär 1759.36 CET 2024"' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/opt/user_software/coot/bin-gtk4/include/python3.11 -DHAVE_GSL -fopenmp -g -O -Wall -Wno-unused -std=c++17 -MT sound.lo -MD -MP -MF .deps/sound.Tpo -c -o sound.lo ../../coot/src/sound.cc libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" "-DPACKAGE_STRING=\"coot 1.x-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I../../coot/src -DUSE_PYTHON -mfpmath=sse -msse -msse2 -pthread -I/opt/user_software/coot/bin-gtk4/lib/libffi-3.2.1/include -I/usr/include/gtk-4.0 -I/usr/include/gio-unix-2.0 -I/usr/include/cairo -I/usr/include/pango-1.0 -I/usr/include/harfbuzz -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/harfbuzz -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/x86_64-linux-gnu -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/graphene-1.0 -I/usr/lib/x86_64-linux-gnu/graphene-1.0/include -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I../../coot -I/opt/user_software/coot/bin-gtk4/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/opt/user_software/coot/bin-gtk4/include -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -I/opt/user_software/coot/bin-gtk4/include -DHAVE_SSMLIB -I/opt/user_software/coot/bin-gtk4/include -DMMDB_HAS_LINK_DISTANCE -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DCLIPPER_HAS_TOP8000 -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR=\"/opt/user_software/coot/bin-gtk4/share/coot\" -DPACKAGE_LOCALE_DIR=\"/opt/user_software/coot/bin-gtk4/share/coot/locale\" -DPKGPYTHONDIR=\"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/coot\" -DPYTHONDIR=\"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages\" -DXDATADIR=\"/opt/user_software/coot/bin-gtk4/share\" -DCOOT_SYS_BUILD_TYPE=\"Linux-x86_64-ubuntu-22.04.4-gtk4\" "-DCOOT_BUILD_INFO_STRING=\"build-host: gtxr1.srv-local.mpi-dortmund.mpg.de on: Mi 20 Mär 1759.36 CET 2024\"" -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/opt/user_software/coot/bin-gtk4/include/python3.11 -DHAVE_GSL -fopenmp -g -O -Wall -Wno-unused -std=c++17 -MT Shader.lo -MD -MP -MF .deps/Shader.Tpo -c ../../coot/src/Shader.cc -fPIC -DPIC -o .libs/Shader.o libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" "-DPACKAGE_STRING=\"coot 1.x-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I../../coot/src -DUSE_PYTHON -mfpmath=sse -msse -msse2 -pthread -I/opt/user_software/coot/bin-gtk4/lib/libffi-3.2.1/include -I/usr/include/gtk-4.0 -I/usr/include/gio-unix-2.0 -I/usr/include/cairo -I/usr/include/pango-1.0 -I/usr/include/harfbuzz -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/harfbuzz -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/x86_64-linux-gnu -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/graphene-1.0 -I/usr/lib/x86_64-linux-gnu/graphene-1.0/include -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I../../coot -I/opt/user_software/coot/bin-gtk4/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/opt/user_software/coot/bin-gtk4/include -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -I/opt/user_software/coot/bin-gtk4/include -DHAVE_SSMLIB -I/opt/user_software/coot/bin-gtk4/include -DMMDB_HAS_LINK_DISTANCE -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DCLIPPER_HAS_TOP8000 -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR=\"/opt/user_software/coot/bin-gtk4/share/coot\" -DPACKAGE_LOCALE_DIR=\"/opt/user_software/coot/bin-gtk4/share/coot/locale\" -DPKGPYTHONDIR=\"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/coot\" -DPYTHONDIR=\"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages\" -DXDATADIR=\"/opt/user_software/coot/bin-gtk4/share\" -DCOOT_SYS_BUILD_TYPE=\"Linux-x86_64-ubuntu-22.04.4-gtk4\" "-DCOOT_BUILD_INFO_STRING=\"build-host: gtxr1.srv-local.mpi-dortmund.mpg.de on: Mi 20 Mär 1759.36 CET 2024\"" -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/opt/user_software/coot/bin-gtk4/include/python3.11 -DHAVE_GSL -fopenmp -g -O -Wall -Wno-unused -std=c++17 -MT sound.lo -MD -MP -MF .deps/sound.Tpo -c ../../coot/src/sound.cc -fPIC -DPIC -o .libs/sound.o In file included from ../../coot/MoleculesToTriangles/CXXClasses/RendererGLSL.hpp:31, from ../../coot/src/graphics-info.h:53, from ../../coot/src/sound.cc:20: ../../coot/MoleculesToTriangles/CXXClasses/RendererGL.h:61: warning: ignoring ‘#pragma mark ’ [-Wunknown-pragmas] 61 | #pragma mark - | ../../coot/MoleculesToTriangles/CXXClasses/RendererGL.h:62: warning: ignoring ‘#pragma mark Debug’ [-Wunknown-pragmas] 62 | #pragma mark Debug routine | mv -f .deps/pick.Tpo .deps/pick.Plo /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" -DPACKAGE_STRING=\"coot\ 1.x-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I../../coot/src -DUSE_PYTHON -mfpmath=sse -msse -msse2 -pthread -I/opt/user_software/coot/bin-gtk4/lib/libffi-3.2.1/include -I/usr/include/gtk-4.0 -I/usr/include/gio-unix-2.0 -I/usr/include/cairo -I/usr/include/pango-1.0 -I/usr/include/harfbuzz -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/harfbuzz -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/x86_64-linux-gnu -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/graphene-1.0 -I/usr/lib/x86_64-linux-gnu/graphene-1.0/include -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I../../coot -I/opt/user_software/coot/bin-gtk4/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/opt/user_software/coot/bin-gtk4/include -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -I/opt/user_software/coot/bin-gtk4/include -DHAVE_SSMLIB -I/opt/user_software/coot/bin-gtk4/include -DMMDB_HAS_LINK_DISTANCE -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DCLIPPER_HAS_TOP8000 -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR='"/opt/user_software/coot/bin-gtk4/share/coot"' -DPACKAGE_LOCALE_DIR='"/opt/user_software/coot/bin-gtk4/share/coot/locale"' -DPKGPYTHONDIR='"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/coot"' -DPYTHONDIR='"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages"' -DXDATADIR='"/opt/user_software/coot/bin-gtk4/share"' -DCOOT_SYS_BUILD_TYPE='"Linux-x86_64-ubuntu-22.04.4-gtk4"' -DCOOT_BUILD_INFO_STRING='"build-host: gtxr1.srv-local.mpi-dortmund.mpg.de on: Mi 20 Mär 1759.36 CET 2024"' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/opt/user_software/coot/bin-gtk4/include/python3.11 -DHAVE_GSL -fopenmp -g -O -Wall -Wno-unused -std=c++17 -MT startup-utils.lo -MD -MP -MF .deps/startup-utils.Tpo -c -o startup-utils.lo ../../coot/src/startup-utils.cc mv -f .deps/Shader.Tpo .deps/Shader.Plo /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" -DPACKAGE_STRING=\"coot\ 1.x-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I../../coot/src -DUSE_PYTHON -mfpmath=sse -msse -msse2 -pthread -I/opt/user_software/coot/bin-gtk4/lib/libffi-3.2.1/include -I/usr/include/gtk-4.0 -I/usr/include/gio-unix-2.0 -I/usr/include/cairo -I/usr/include/pango-1.0 -I/usr/include/harfbuzz -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/harfbuzz -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/x86_64-linux-gnu -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/graphene-1.0 -I/usr/lib/x86_64-linux-gnu/graphene-1.0/include -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I../../coot -I/opt/user_software/coot/bin-gtk4/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/opt/user_software/coot/bin-gtk4/include -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -I/opt/user_software/coot/bin-gtk4/include -DHAVE_SSMLIB -I/opt/user_software/coot/bin-gtk4/include -DMMDB_HAS_LINK_DISTANCE -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DCLIPPER_HAS_TOP8000 -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR='"/opt/user_software/coot/bin-gtk4/share/coot"' -DPACKAGE_LOCALE_DIR='"/opt/user_software/coot/bin-gtk4/share/coot/locale"' -DPKGPYTHONDIR='"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/coot"' -DPYTHONDIR='"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages"' -DXDATADIR='"/opt/user_software/coot/bin-gtk4/share"' -DCOOT_SYS_BUILD_TYPE='"Linux-x86_64-ubuntu-22.04.4-gtk4"' -DCOOT_BUILD_INFO_STRING='"build-host: gtxr1.srv-local.mpi-dortmund.mpg.de on: Mi 20 Mär 1759.36 CET 2024"' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/opt/user_software/coot/bin-gtk4/include/python3.11 -DHAVE_GSL -fopenmp -g -O -Wall -Wno-unused -std=c++17 -MT testing.lo -MD -MP -MF .deps/testing.Tpo -c -o testing.lo ../../coot/src/testing.cc libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" "-DPACKAGE_STRING=\"coot 1.x-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I../../coot/src -DUSE_PYTHON -mfpmath=sse -msse -msse2 -pthread -I/opt/user_software/coot/bin-gtk4/lib/libffi-3.2.1/include -I/usr/include/gtk-4.0 -I/usr/include/gio-unix-2.0 -I/usr/include/cairo -I/usr/include/pango-1.0 -I/usr/include/harfbuzz -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/harfbuzz -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/x86_64-linux-gnu -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/graphene-1.0 -I/usr/lib/x86_64-linux-gnu/graphene-1.0/include -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I../../coot -I/opt/user_software/coot/bin-gtk4/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/opt/user_software/coot/bin-gtk4/include -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -I/opt/user_software/coot/bin-gtk4/include -DHAVE_SSMLIB -I/opt/user_software/coot/bin-gtk4/include -DMMDB_HAS_LINK_DISTANCE -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DCLIPPER_HAS_TOP8000 -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR=\"/opt/user_software/coot/bin-gtk4/share/coot\" -DPACKAGE_LOCALE_DIR=\"/opt/user_software/coot/bin-gtk4/share/coot/locale\" -DPKGPYTHONDIR=\"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/coot\" -DPYTHONDIR=\"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages\" -DXDATADIR=\"/opt/user_software/coot/bin-gtk4/share\" -DCOOT_SYS_BUILD_TYPE=\"Linux-x86_64-ubuntu-22.04.4-gtk4\" "-DCOOT_BUILD_INFO_STRING=\"build-host: gtxr1.srv-local.mpi-dortmund.mpg.de on: Mi 20 Mär 1759.36 CET 2024\"" -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/opt/user_software/coot/bin-gtk4/include/python3.11 -DHAVE_GSL -fopenmp -g -O -Wall -Wno-unused -std=c++17 -MT startup-utils.lo -MD -MP -MF .deps/startup-utils.Tpo -c ../../coot/src/startup-utils.cc -fPIC -DPIC -o .libs/startup-utils.o mv -f .deps/startup-utils.Tpo .deps/startup-utils.Plo /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" -DPACKAGE_STRING=\"coot\ 1.x-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I../../coot/src -DUSE_PYTHON -mfpmath=sse -msse -msse2 -pthread -I/opt/user_software/coot/bin-gtk4/lib/libffi-3.2.1/include -I/usr/include/gtk-4.0 -I/usr/include/gio-unix-2.0 -I/usr/include/cairo -I/usr/include/pango-1.0 -I/usr/include/harfbuzz -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/harfbuzz -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/x86_64-linux-gnu -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/graphene-1.0 -I/usr/lib/x86_64-linux-gnu/graphene-1.0/include -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I../../coot -I/opt/user_software/coot/bin-gtk4/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/opt/user_software/coot/bin-gtk4/include -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -I/opt/user_software/coot/bin-gtk4/include -DHAVE_SSMLIB -I/opt/user_software/coot/bin-gtk4/include -DMMDB_HAS_LINK_DISTANCE -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DCLIPPER_HAS_TOP8000 -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR='"/opt/user_software/coot/bin-gtk4/share/coot"' -DPACKAGE_LOCALE_DIR='"/opt/user_software/coot/bin-gtk4/share/coot/locale"' -DPKGPYTHONDIR='"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/coot"' -DPYTHONDIR='"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages"' -DXDATADIR='"/opt/user_software/coot/bin-gtk4/share"' -DCOOT_SYS_BUILD_TYPE='"Linux-x86_64-ubuntu-22.04.4-gtk4"' -DCOOT_BUILD_INFO_STRING='"build-host: gtxr1.srv-local.mpi-dortmund.mpg.de on: Mi 20 Mär 1759.36 CET 2024"' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/opt/user_software/coot/bin-gtk4/include/python3.11 -DHAVE_GSL -fopenmp -g -O -Wall -Wno-unused -std=c++17 -MT testing-2.lo -MD -MP -MF .deps/testing-2.Tpo -c -o testing-2.lo ../../coot/src/testing-2.cc libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" "-DPACKAGE_STRING=\"coot 1.x-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I../../coot/src -DUSE_PYTHON -mfpmath=sse -msse -msse2 -pthread -I/opt/user_software/coot/bin-gtk4/lib/libffi-3.2.1/include -I/usr/include/gtk-4.0 -I/usr/include/gio-unix-2.0 -I/usr/include/cairo -I/usr/include/pango-1.0 -I/usr/include/harfbuzz -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/harfbuzz -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/x86_64-linux-gnu -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/graphene-1.0 -I/usr/lib/x86_64-linux-gnu/graphene-1.0/include -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I../../coot -I/opt/user_software/coot/bin-gtk4/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/opt/user_software/coot/bin-gtk4/include -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -I/opt/user_software/coot/bin-gtk4/include -DHAVE_SSMLIB -I/opt/user_software/coot/bin-gtk4/include -DMMDB_HAS_LINK_DISTANCE -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DCLIPPER_HAS_TOP8000 -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR=\"/opt/user_software/coot/bin-gtk4/share/coot\" -DPACKAGE_LOCALE_DIR=\"/opt/user_software/coot/bin-gtk4/share/coot/locale\" -DPKGPYTHONDIR=\"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/coot\" -DPYTHONDIR=\"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages\" -DXDATADIR=\"/opt/user_software/coot/bin-gtk4/share\" -DCOOT_SYS_BUILD_TYPE=\"Linux-x86_64-ubuntu-22.04.4-gtk4\" "-DCOOT_BUILD_INFO_STRING=\"build-host: gtxr1.srv-local.mpi-dortmund.mpg.de on: Mi 20 Mär 1759.36 CET 2024\"" -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/opt/user_software/coot/bin-gtk4/include/python3.11 -DHAVE_GSL -fopenmp -g -O -Wall -Wno-unused -std=c++17 -MT testing.lo -MD -MP -MF .deps/testing.Tpo -c ../../coot/src/testing.cc -fPIC -DPIC -o .libs/testing.o libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" "-DPACKAGE_STRING=\"coot 1.x-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I../../coot/src -DUSE_PYTHON -mfpmath=sse -msse -msse2 -pthread -I/opt/user_software/coot/bin-gtk4/lib/libffi-3.2.1/include -I/usr/include/gtk-4.0 -I/usr/include/gio-unix-2.0 -I/usr/include/cairo -I/usr/include/pango-1.0 -I/usr/include/harfbuzz -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/harfbuzz -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/x86_64-linux-gnu -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/graphene-1.0 -I/usr/lib/x86_64-linux-gnu/graphene-1.0/include -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I../../coot -I/opt/user_software/coot/bin-gtk4/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/opt/user_software/coot/bin-gtk4/include -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -I/opt/user_software/coot/bin-gtk4/include -DHAVE_SSMLIB -I/opt/user_software/coot/bin-gtk4/include -DMMDB_HAS_LINK_DISTANCE -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DCLIPPER_HAS_TOP8000 -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR=\"/opt/user_software/coot/bin-gtk4/share/coot\" -DPACKAGE_LOCALE_DIR=\"/opt/user_software/coot/bin-gtk4/share/coot/locale\" -DPKGPYTHONDIR=\"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/coot\" -DPYTHONDIR=\"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages\" -DXDATADIR=\"/opt/user_software/coot/bin-gtk4/share\" -DCOOT_SYS_BUILD_TYPE=\"Linux-x86_64-ubuntu-22.04.4-gtk4\" "-DCOOT_BUILD_INFO_STRING=\"build-host: gtxr1.srv-local.mpi-dortmund.mpg.de on: Mi 20 Mär 1759.36 CET 2024\"" -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/opt/user_software/coot/bin-gtk4/include/python3.11 -DHAVE_GSL -fopenmp -g -O -Wall -Wno-unused -std=c++17 -MT testing-2.lo -MD -MP -MF .deps/testing-2.Tpo -c ../../coot/src/testing-2.cc -fPIC -DPIC -o .libs/testing-2.o In file included from ../../coot/MoleculesToTriangles/CXXClasses/RendererGLSL.hpp:31, from ../../coot/src/graphics-info.h:53, from ../../coot/src/testing.cc:67: ../../coot/MoleculesToTriangles/CXXClasses/RendererGL.h:61: warning: ignoring ‘#pragma mark ’ [-Wunknown-pragmas] 61 | #pragma mark - | ../../coot/MoleculesToTriangles/CXXClasses/RendererGL.h:62: warning: ignoring ‘#pragma mark Debug’ [-Wunknown-pragmas] 62 | #pragma mark Debug routine | mv -f .deps/text-rendering-utils.Tpo .deps/text-rendering-utils.Plo /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" -DPACKAGE_STRING=\"coot\ 1.x-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I../../coot/src -DUSE_PYTHON -mfpmath=sse -msse -msse2 -pthread -I/opt/user_software/coot/bin-gtk4/lib/libffi-3.2.1/include -I/usr/include/gtk-4.0 -I/usr/include/gio-unix-2.0 -I/usr/include/cairo -I/usr/include/pango-1.0 -I/usr/include/harfbuzz -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/harfbuzz -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/x86_64-linux-gnu -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/graphene-1.0 -I/usr/lib/x86_64-linux-gnu/graphene-1.0/include -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I../../coot -I/opt/user_software/coot/bin-gtk4/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/opt/user_software/coot/bin-gtk4/include -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -I/opt/user_software/coot/bin-gtk4/include -DHAVE_SSMLIB -I/opt/user_software/coot/bin-gtk4/include -DMMDB_HAS_LINK_DISTANCE -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DCLIPPER_HAS_TOP8000 -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR='"/opt/user_software/coot/bin-gtk4/share/coot"' -DPACKAGE_LOCALE_DIR='"/opt/user_software/coot/bin-gtk4/share/coot/locale"' -DPKGPYTHONDIR='"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/coot"' -DPYTHONDIR='"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages"' -DXDATADIR='"/opt/user_software/coot/bin-gtk4/share"' -DCOOT_SYS_BUILD_TYPE='"Linux-x86_64-ubuntu-22.04.4-gtk4"' -DCOOT_BUILD_INFO_STRING='"build-host: gtxr1.srv-local.mpi-dortmund.mpg.de on: Mi 20 Mär 1759.36 CET 2024"' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/opt/user_software/coot/bin-gtk4/include/python3.11 -DHAVE_GSL -fopenmp -g -O -Wall -Wno-unused -std=c++17 -MT Texture.lo -MD -MP -MF .deps/Texture.Tpo -c -o Texture.lo ../../coot/src/Texture.cc mv -f .deps/screendump-tga.Tpo .deps/screendump-tga.Plo /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" -DPACKAGE_STRING=\"coot\ 1.x-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I../../coot/src -DUSE_PYTHON -mfpmath=sse -msse -msse2 -pthread -I/opt/user_software/coot/bin-gtk4/lib/libffi-3.2.1/include -I/usr/include/gtk-4.0 -I/usr/include/gio-unix-2.0 -I/usr/include/cairo -I/usr/include/pango-1.0 -I/usr/include/harfbuzz -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/harfbuzz -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/x86_64-linux-gnu -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/graphene-1.0 -I/usr/lib/x86_64-linux-gnu/graphene-1.0/include -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I../../coot -I/opt/user_software/coot/bin-gtk4/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/opt/user_software/coot/bin-gtk4/include -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -I/opt/user_software/coot/bin-gtk4/include -DHAVE_SSMLIB -I/opt/user_software/coot/bin-gtk4/include -DMMDB_HAS_LINK_DISTANCE -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DCLIPPER_HAS_TOP8000 -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR='"/opt/user_software/coot/bin-gtk4/share/coot"' -DPACKAGE_LOCALE_DIR='"/opt/user_software/coot/bin-gtk4/share/coot/locale"' -DPKGPYTHONDIR='"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/coot"' -DPYTHONDIR='"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages"' -DXDATADIR='"/opt/user_software/coot/bin-gtk4/share"' -DCOOT_SYS_BUILD_TYPE='"Linux-x86_64-ubuntu-22.04.4-gtk4"' -DCOOT_BUILD_INFO_STRING='"build-host: gtxr1.srv-local.mpi-dortmund.mpg.de on: Mi 20 Mär 1759.36 CET 2024"' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/opt/user_software/coot/bin-gtk4/include/python3.11 -DHAVE_GSL -fopenmp -g -O -Wall -Wno-unused -std=c++17 -MT TextureMesh.lo -MD -MP -MF .deps/TextureMesh.Tpo -c -o TextureMesh.lo ../../coot/src/TextureMesh.cc libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" "-DPACKAGE_STRING=\"coot 1.x-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I../../coot/src -DUSE_PYTHON -mfpmath=sse -msse -msse2 -pthread -I/opt/user_software/coot/bin-gtk4/lib/libffi-3.2.1/include -I/usr/include/gtk-4.0 -I/usr/include/gio-unix-2.0 -I/usr/include/cairo -I/usr/include/pango-1.0 -I/usr/include/harfbuzz -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/harfbuzz -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/x86_64-linux-gnu -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/graphene-1.0 -I/usr/lib/x86_64-linux-gnu/graphene-1.0/include -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I../../coot -I/opt/user_software/coot/bin-gtk4/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/opt/user_software/coot/bin-gtk4/include -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -I/opt/user_software/coot/bin-gtk4/include -DHAVE_SSMLIB -I/opt/user_software/coot/bin-gtk4/include -DMMDB_HAS_LINK_DISTANCE -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DCLIPPER_HAS_TOP8000 -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR=\"/opt/user_software/coot/bin-gtk4/share/coot\" -DPACKAGE_LOCALE_DIR=\"/opt/user_software/coot/bin-gtk4/share/coot/locale\" -DPKGPYTHONDIR=\"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/coot\" -DPYTHONDIR=\"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages\" -DXDATADIR=\"/opt/user_software/coot/bin-gtk4/share\" -DCOOT_SYS_BUILD_TYPE=\"Linux-x86_64-ubuntu-22.04.4-gtk4\" "-DCOOT_BUILD_INFO_STRING=\"build-host: gtxr1.srv-local.mpi-dortmund.mpg.de on: Mi 20 Mär 1759.36 CET 2024\"" -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/opt/user_software/coot/bin-gtk4/include/python3.11 -DHAVE_GSL -fopenmp -g -O -Wall -Wno-unused -std=c++17 -MT Texture.lo -MD -MP -MF .deps/Texture.Tpo -c ../../coot/src/Texture.cc -fPIC -DPIC -o .libs/Texture.o libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" "-DPACKAGE_STRING=\"coot 1.x-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I../../coot/src -DUSE_PYTHON -mfpmath=sse -msse -msse2 -pthread -I/opt/user_software/coot/bin-gtk4/lib/libffi-3.2.1/include -I/usr/include/gtk-4.0 -I/usr/include/gio-unix-2.0 -I/usr/include/cairo -I/usr/include/pango-1.0 -I/usr/include/harfbuzz -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/harfbuzz -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/x86_64-linux-gnu -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/graphene-1.0 -I/usr/lib/x86_64-linux-gnu/graphene-1.0/include -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I../../coot -I/opt/user_software/coot/bin-gtk4/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/opt/user_software/coot/bin-gtk4/include -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -I/opt/user_software/coot/bin-gtk4/include -DHAVE_SSMLIB -I/opt/user_software/coot/bin-gtk4/include -DMMDB_HAS_LINK_DISTANCE -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DCLIPPER_HAS_TOP8000 -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR=\"/opt/user_software/coot/bin-gtk4/share/coot\" -DPACKAGE_LOCALE_DIR=\"/opt/user_software/coot/bin-gtk4/share/coot/locale\" -DPKGPYTHONDIR=\"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/coot\" -DPYTHONDIR=\"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages\" -DXDATADIR=\"/opt/user_software/coot/bin-gtk4/share\" -DCOOT_SYS_BUILD_TYPE=\"Linux-x86_64-ubuntu-22.04.4-gtk4\" "-DCOOT_BUILD_INFO_STRING=\"build-host: gtxr1.srv-local.mpi-dortmund.mpg.de on: Mi 20 Mär 1759.36 CET 2024\"" -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/opt/user_software/coot/bin-gtk4/include/python3.11 -DHAVE_GSL -fopenmp -g -O -Wall -Wno-unused -std=c++17 -MT TextureMesh.lo -MD -MP -MF .deps/TextureMesh.Tpo -c ../../coot/src/TextureMesh.cc -fPIC -DPIC -o .libs/TextureMesh.o mv -f .deps/rsr-functions.Tpo .deps/rsr-functions.Plo /bin/bash ../libtool --tag=CC --mode=compile gcc -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" -DPACKAGE_STRING=\"coot\ 1.x-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I../../coot/src -DUSE_PYTHON -mfpmath=sse -msse -msse2 -pthread -I/opt/user_software/coot/bin-gtk4/lib/libffi-3.2.1/include -I/usr/include/gtk-4.0 -I/usr/include/gio-unix-2.0 -I/usr/include/cairo -I/usr/include/pango-1.0 -I/usr/include/harfbuzz -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/harfbuzz -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/x86_64-linux-gnu -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/graphene-1.0 -I/usr/lib/x86_64-linux-gnu/graphene-1.0/include -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I../../coot -I/opt/user_software/coot/bin-gtk4/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/opt/user_software/coot/bin-gtk4/include -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -I/opt/user_software/coot/bin-gtk4/include -DHAVE_SSMLIB -I/opt/user_software/coot/bin-gtk4/include -DMMDB_HAS_LINK_DISTANCE -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DCLIPPER_HAS_TOP8000 -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DPKGDATADIR='"/opt/user_software/coot/bin-gtk4/share/coot"' -DHAVE_SYS_STDTYPES_H=0 -I/opt/user_software/coot/bin-gtk4/include/python3.11 -g -O2 -Wall -Wunused -MT trackball.lo -MD -MP -MF .deps/trackball.Tpo -c -o trackball.lo ../../coot/src/trackball.c libtool: compile: gcc -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" "-DPACKAGE_STRING=\"coot 1.x-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I../../coot/src -DUSE_PYTHON -mfpmath=sse -msse -msse2 -pthread -I/opt/user_software/coot/bin-gtk4/lib/libffi-3.2.1/include -I/usr/include/gtk-4.0 -I/usr/include/gio-unix-2.0 -I/usr/include/cairo -I/usr/include/pango-1.0 -I/usr/include/harfbuzz -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/harfbuzz -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/x86_64-linux-gnu -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/graphene-1.0 -I/usr/lib/x86_64-linux-gnu/graphene-1.0/include -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I../../coot -I/opt/user_software/coot/bin-gtk4/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/opt/user_software/coot/bin-gtk4/include -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -I/opt/user_software/coot/bin-gtk4/include -DHAVE_SSMLIB -I/opt/user_software/coot/bin-gtk4/include -DMMDB_HAS_LINK_DISTANCE -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DCLIPPER_HAS_TOP8000 -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DPKGDATADIR=\"/opt/user_software/coot/bin-gtk4/share/coot\" -DHAVE_SYS_STDTYPES_H=0 -I/opt/user_software/coot/bin-gtk4/include/python3.11 -g -O2 -Wall -Wunused -MT trackball.lo -MD -MP -MF .deps/trackball.Tpo -c ../../coot/src/trackball.c -fPIC -DPIC -o .libs/trackball.o ../../coot/src/trackball.c:262:17: warning: argument 1 of type ‘float[4]’ with mismatched bound [-Warray-parameter=] 262 | add_quats(float q1[4], float q2[4], float dest[4]) | ~~~~~~^~~~~ In file included from ../../coot/src/trackball.c:54: ../../coot/src/trackball.h:82:18: note: previously declared as ‘float *’ 82 | add_quats(float *q1, float *q2, float *dest); | ~~~~~~~^~ ../../coot/src/trackball.c:262:30: warning: argument 2 of type ‘float[4]’ with mismatched bound [-Warray-parameter=] 262 | add_quats(float q1[4], float q2[4], float dest[4]) | ~~~~~~^~~~~ In file included from ../../coot/src/trackball.c:54: ../../coot/src/trackball.h:82:29: note: previously declared as ‘float *’ 82 | add_quats(float *q1, float *q2, float *dest); | ~~~~~~~^~ ../../coot/src/trackball.c:262:43: warning: argument 3 of type ‘float[4]’ with mismatched bound [-Warray-parameter=] 262 | add_quats(float q1[4], float q2[4], float dest[4]) | ~~~~~~^~~~~~~ In file included from ../../coot/src/trackball.c:54: ../../coot/src/trackball.h:82:40: note: previously declared as ‘float *’ 82 | add_quats(float *q1, float *q2, float *dest); | ~~~~~~~^~~~ In file included from ../../coot/MoleculesToTriangles/CXXClasses/RendererGLSL.hpp:31, from ../../coot/src/graphics-info.h:53, from ../../coot/src/TextureMesh.cc:20: ../../coot/MoleculesToTriangles/CXXClasses/RendererGL.h:61: warning: ignoring ‘#pragma mark ’ [-Wunknown-pragmas] 61 | #pragma mark - | ../../coot/MoleculesToTriangles/CXXClasses/RendererGL.h:62: warning: ignoring ‘#pragma mark Debug’ [-Wunknown-pragmas] 62 | #pragma mark Debug routine | mv -f .deps/trackball.Tpo .deps/trackball.Plo /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" -DPACKAGE_STRING=\"coot\ 1.x-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I../../coot/src -DUSE_PYTHON -mfpmath=sse -msse -msse2 -pthread -I/opt/user_software/coot/bin-gtk4/lib/libffi-3.2.1/include -I/usr/include/gtk-4.0 -I/usr/include/gio-unix-2.0 -I/usr/include/cairo -I/usr/include/pango-1.0 -I/usr/include/harfbuzz -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/harfbuzz -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/x86_64-linux-gnu -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/graphene-1.0 -I/usr/lib/x86_64-linux-gnu/graphene-1.0/include -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I../../coot -I/opt/user_software/coot/bin-gtk4/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/opt/user_software/coot/bin-gtk4/include -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -I/opt/user_software/coot/bin-gtk4/include -DHAVE_SSMLIB -I/opt/user_software/coot/bin-gtk4/include -DMMDB_HAS_LINK_DISTANCE -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DCLIPPER_HAS_TOP8000 -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR='"/opt/user_software/coot/bin-gtk4/share/coot"' -DPACKAGE_LOCALE_DIR='"/opt/user_software/coot/bin-gtk4/share/coot/locale"' -DPKGPYTHONDIR='"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/coot"' -DPYTHONDIR='"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages"' -DXDATADIR='"/opt/user_software/coot/bin-gtk4/share"' -DCOOT_SYS_BUILD_TYPE='"Linux-x86_64-ubuntu-22.04.4-gtk4"' -DCOOT_BUILD_INFO_STRING='"build-host: gtxr1.srv-local.mpi-dortmund.mpg.de on: Mi 20 Mär 1759.36 CET 2024"' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/opt/user_software/coot/bin-gtk4/include/python3.11 -DHAVE_GSL -fopenmp -g -O -Wall -Wno-unused -std=c++17 -MT user-mods.lo -MD -MP -MF .deps/user-mods.Tpo -c -o user-mods.lo ../../coot/src/user-mods.cc libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" "-DPACKAGE_STRING=\"coot 1.x-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I../../coot/src -DUSE_PYTHON -mfpmath=sse -msse -msse2 -pthread -I/opt/user_software/coot/bin-gtk4/lib/libffi-3.2.1/include -I/usr/include/gtk-4.0 -I/usr/include/gio-unix-2.0 -I/usr/include/cairo -I/usr/include/pango-1.0 -I/usr/include/harfbuzz -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/harfbuzz -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/x86_64-linux-gnu -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/graphene-1.0 -I/usr/lib/x86_64-linux-gnu/graphene-1.0/include -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I../../coot -I/opt/user_software/coot/bin-gtk4/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/opt/user_software/coot/bin-gtk4/include -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -I/opt/user_software/coot/bin-gtk4/include -DHAVE_SSMLIB -I/opt/user_software/coot/bin-gtk4/include -DMMDB_HAS_LINK_DISTANCE -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DCLIPPER_HAS_TOP8000 -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR=\"/opt/user_software/coot/bin-gtk4/share/coot\" -DPACKAGE_LOCALE_DIR=\"/opt/user_software/coot/bin-gtk4/share/coot/locale\" -DPKGPYTHONDIR=\"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/coot\" -DPYTHONDIR=\"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages\" -DXDATADIR=\"/opt/user_software/coot/bin-gtk4/share\" -DCOOT_SYS_BUILD_TYPE=\"Linux-x86_64-ubuntu-22.04.4-gtk4\" "-DCOOT_BUILD_INFO_STRING=\"build-host: gtxr1.srv-local.mpi-dortmund.mpg.de on: Mi 20 Mär 1759.36 CET 2024\"" -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/opt/user_software/coot/bin-gtk4/include/python3.11 -DHAVE_GSL -fopenmp -g -O -Wall -Wno-unused -std=c++17 -MT user-mods.lo -MD -MP -MF .deps/user-mods.Tpo -c ../../coot/src/user-mods.cc -fPIC -DPIC -o .libs/user-mods.o mv -f .deps/Texture.Tpo .deps/Texture.Plo /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" -DPACKAGE_STRING=\"coot\ 1.x-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I../../coot/src -DUSE_PYTHON -mfpmath=sse -msse -msse2 -pthread -I/opt/user_software/coot/bin-gtk4/lib/libffi-3.2.1/include -I/usr/include/gtk-4.0 -I/usr/include/gio-unix-2.0 -I/usr/include/cairo -I/usr/include/pango-1.0 -I/usr/include/harfbuzz -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/harfbuzz -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/x86_64-linux-gnu -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/graphene-1.0 -I/usr/lib/x86_64-linux-gnu/graphene-1.0/include -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I../../coot -I/opt/user_software/coot/bin-gtk4/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/opt/user_software/coot/bin-gtk4/include -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -I/opt/user_software/coot/bin-gtk4/include -DHAVE_SSMLIB -I/opt/user_software/coot/bin-gtk4/include -DMMDB_HAS_LINK_DISTANCE -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DCLIPPER_HAS_TOP8000 -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR='"/opt/user_software/coot/bin-gtk4/share/coot"' -DPACKAGE_LOCALE_DIR='"/opt/user_software/coot/bin-gtk4/share/coot/locale"' -DPKGPYTHONDIR='"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/coot"' -DPYTHONDIR='"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages"' -DXDATADIR='"/opt/user_software/coot/bin-gtk4/share"' -DCOOT_SYS_BUILD_TYPE='"Linux-x86_64-ubuntu-22.04.4-gtk4"' -DCOOT_BUILD_INFO_STRING='"build-host: gtxr1.srv-local.mpi-dortmund.mpg.de on: Mi 20 Mär 1759.36 CET 2024"' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/opt/user_software/coot/bin-gtk4/include/python3.11 -DHAVE_GSL -fopenmp -g -O -Wall -Wno-unused -std=c++17 -MT xmap-utils.lo -MD -MP -MF .deps/xmap-utils.Tpo -c -o xmap-utils.lo ../../coot/src/xmap-utils.cc mv -f .deps/restraints-editor.Tpo .deps/restraints-editor.Plo /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" -DPACKAGE_STRING=\"coot\ 1.x-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I../../coot/src -DUSE_PYTHON -mfpmath=sse -msse -msse2 -pthread -I/opt/user_software/coot/bin-gtk4/lib/libffi-3.2.1/include -I/usr/include/gtk-4.0 -I/usr/include/gio-unix-2.0 -I/usr/include/cairo -I/usr/include/pango-1.0 -I/usr/include/harfbuzz -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/harfbuzz -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/x86_64-linux-gnu -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/graphene-1.0 -I/usr/lib/x86_64-linux-gnu/graphene-1.0/include -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I../../coot -I/opt/user_software/coot/bin-gtk4/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/opt/user_software/coot/bin-gtk4/include -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -I/opt/user_software/coot/bin-gtk4/include -DHAVE_SSMLIB -I/opt/user_software/coot/bin-gtk4/include -DMMDB_HAS_LINK_DISTANCE -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DCLIPPER_HAS_TOP8000 -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR='"/opt/user_software/coot/bin-gtk4/share/coot"' -DPACKAGE_LOCALE_DIR='"/opt/user_software/coot/bin-gtk4/share/coot/locale"' -DPKGPYTHONDIR='"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/coot"' -DPYTHONDIR='"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages"' -DXDATADIR='"/opt/user_software/coot/bin-gtk4/share"' -DCOOT_SYS_BUILD_TYPE='"Linux-x86_64-ubuntu-22.04.4-gtk4"' -DCOOT_BUILD_INFO_STRING='"build-host: gtxr1.srv-local.mpi-dortmund.mpg.de on: Mi 20 Mär 1759.36 CET 2024"' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/opt/user_software/coot/bin-gtk4/include/python3.11 -DHAVE_GSL -fopenmp -g -O -Wall -Wno-unused -std=c++17 -MT rama-plot-phi-psi.lo -MD -MP -MF .deps/rama-plot-phi-psi.Tpo -c -o rama-plot-phi-psi.lo ../../coot/src/rama-plot-phi-psi.cc libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" "-DPACKAGE_STRING=\"coot 1.x-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 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-I/opt/user_software/coot/bin-gtk4/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/opt/user_software/coot/bin-gtk4/include -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -I/opt/user_software/coot/bin-gtk4/include -DHAVE_SSMLIB -I/opt/user_software/coot/bin-gtk4/include -DMMDB_HAS_LINK_DISTANCE -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DCLIPPER_HAS_TOP8000 -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR=\"/opt/user_software/coot/bin-gtk4/share/coot\" -DPACKAGE_LOCALE_DIR=\"/opt/user_software/coot/bin-gtk4/share/coot/locale\" -DPKGPYTHONDIR=\"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/coot\" -DPYTHONDIR=\"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages\" -DXDATADIR=\"/opt/user_software/coot/bin-gtk4/share\" -DCOOT_SYS_BUILD_TYPE=\"Linux-x86_64-ubuntu-22.04.4-gtk4\" "-DCOOT_BUILD_INFO_STRING=\"build-host: gtxr1.srv-local.mpi-dortmund.mpg.de on: Mi 20 Mär 1759.36 CET 2024\"" -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/opt/user_software/coot/bin-gtk4/include/python3.11 -DHAVE_GSL -fopenmp -g -O -Wall -Wno-unused -std=c++17 -MT rama-plot-phi-psi.lo -MD -MP -MF .deps/rama-plot-phi-psi.Tpo -c ../../coot/src/rama-plot-phi-psi.cc -fPIC -DPIC -o .libs/rama-plot-phi-psi.o libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" "-DPACKAGE_STRING=\"coot 1.x-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I../../coot/src -DUSE_PYTHON -mfpmath=sse -msse -msse2 -pthread -I/opt/user_software/coot/bin-gtk4/lib/libffi-3.2.1/include -I/usr/include/gtk-4.0 -I/usr/include/gio-unix-2.0 -I/usr/include/cairo -I/usr/include/pango-1.0 -I/usr/include/harfbuzz -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/harfbuzz -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/x86_64-linux-gnu -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/graphene-1.0 -I/usr/lib/x86_64-linux-gnu/graphene-1.0/include -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I../../coot -I/opt/user_software/coot/bin-gtk4/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/opt/user_software/coot/bin-gtk4/include -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 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-I/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/opt/user_software/coot/bin-gtk4/include/python3.11 -DHAVE_GSL -fopenmp -g -O -Wall -Wno-unused -std=c++17 -MT xmap-utils.lo -MD -MP -MF .deps/xmap-utils.Tpo -c ../../coot/src/xmap-utils.cc -fPIC -DPIC -o .libs/xmap-utils.o mv -f .deps/testing-2.Tpo .deps/testing-2.Plo /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" -DPACKAGE_STRING=\"coot\ 1.x-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I../../coot/src -DUSE_PYTHON -mfpmath=sse -msse -msse2 -pthread -I/opt/user_software/coot/bin-gtk4/lib/libffi-3.2.1/include -I/usr/include/gtk-4.0 -I/usr/include/gio-unix-2.0 -I/usr/include/cairo -I/usr/include/pango-1.0 -I/usr/include/harfbuzz -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/harfbuzz -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/x86_64-linux-gnu -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/graphene-1.0 -I/usr/lib/x86_64-linux-gnu/graphene-1.0/include -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I../../coot -I/opt/user_software/coot/bin-gtk4/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/opt/user_software/coot/bin-gtk4/include -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -I/opt/user_software/coot/bin-gtk4/include -DHAVE_SSMLIB 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-I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I../../coot -I/opt/user_software/coot/bin-gtk4/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/opt/user_software/coot/bin-gtk4/include -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -I/opt/user_software/coot/bin-gtk4/include -DHAVE_SSMLIB -I/opt/user_software/coot/bin-gtk4/include -DMMDB_HAS_LINK_DISTANCE -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DCLIPPER_HAS_TOP8000 -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR=\"/opt/user_software/coot/bin-gtk4/share/coot\" -DPACKAGE_LOCALE_DIR=\"/opt/user_software/coot/bin-gtk4/share/coot/locale\" -DPKGPYTHONDIR=\"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/coot\" -DPYTHONDIR=\"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages\" -DXDATADIR=\"/opt/user_software/coot/bin-gtk4/share\" -DCOOT_SYS_BUILD_TYPE=\"Linux-x86_64-ubuntu-22.04.4-gtk4\" "-DCOOT_BUILD_INFO_STRING=\"build-host: gtxr1.srv-local.mpi-dortmund.mpg.de on: Mi 20 Mär 1759.36 CET 2024\"" -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/opt/user_software/coot/bin-gtk4/include/python3.11 -DHAVE_GSL -fopenmp -g -O -Wall -Wno-unused -std=c++17 -MT single-map-properties-dialog.lo -MD -MP -MF .deps/single-map-properties-dialog.Tpo -c ../../coot/src/single-map-properties-dialog.cc -fPIC -DPIC -o .libs/single-map-properties-dialog.o libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" "-DPACKAGE_STRING=\"coot 1.x-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I../../coot/src -DUSE_PYTHON -mfpmath=sse -msse -msse2 -pthread -I/opt/user_software/coot/bin-gtk4/lib/libffi-3.2.1/include -I/usr/include/gtk-4.0 -I/usr/include/gio-unix-2.0 -I/usr/include/cairo -I/usr/include/pango-1.0 -I/usr/include/harfbuzz -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/harfbuzz -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/x86_64-linux-gnu -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/graphene-1.0 -I/usr/lib/x86_64-linux-gnu/graphene-1.0/include -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I../../coot -I/opt/user_software/coot/bin-gtk4/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/opt/user_software/coot/bin-gtk4/include -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -I/opt/user_software/coot/bin-gtk4/include -DHAVE_SSMLIB -I/opt/user_software/coot/bin-gtk4/include -DMMDB_HAS_LINK_DISTANCE -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DCLIPPER_HAS_TOP8000 -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR=\"/opt/user_software/coot/bin-gtk4/share/coot\" -DPACKAGE_LOCALE_DIR=\"/opt/user_software/coot/bin-gtk4/share/coot/locale\" -DPKGPYTHONDIR=\"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/coot\" -DPYTHONDIR=\"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages\" -DXDATADIR=\"/opt/user_software/coot/bin-gtk4/share\" -DCOOT_SYS_BUILD_TYPE=\"Linux-x86_64-ubuntu-22.04.4-gtk4\" "-DCOOT_BUILD_INFO_STRING=\"build-host: gtxr1.srv-local.mpi-dortmund.mpg.de on: Mi 20 Mär 1759.36 CET 2024\"" -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/opt/user_software/coot/bin-gtk4/include/python3.11 -DHAVE_GSL -fopenmp -g -O -Wall -Wno-unused -std=c++17 -MT validation.lo -MD -MP -MF .deps/validation.Tpo -c ../../coot/src/validation.cc -fPIC -DPIC -o .libs/validation.o libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" "-DPACKAGE_STRING=\"coot 1.x-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I../../coot/src -DUSE_PYTHON -mfpmath=sse -msse -msse2 -pthread -I/opt/user_software/coot/bin-gtk4/lib/libffi-3.2.1/include -I/usr/include/gtk-4.0 -I/usr/include/gio-unix-2.0 -I/usr/include/cairo -I/usr/include/pango-1.0 -I/usr/include/harfbuzz -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/harfbuzz -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/x86_64-linux-gnu -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/graphene-1.0 -I/usr/lib/x86_64-linux-gnu/graphene-1.0/include -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I../../coot -I/opt/user_software/coot/bin-gtk4/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/opt/user_software/coot/bin-gtk4/include -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -I/opt/user_software/coot/bin-gtk4/include -DHAVE_SSMLIB -I/opt/user_software/coot/bin-gtk4/include -DMMDB_HAS_LINK_DISTANCE -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DCLIPPER_HAS_TOP8000 -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR=\"/opt/user_software/coot/bin-gtk4/share/coot\" -DPACKAGE_LOCALE_DIR=\"/opt/user_software/coot/bin-gtk4/share/coot/locale\" -DPKGPYTHONDIR=\"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/coot\" -DPYTHONDIR=\"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages\" -DXDATADIR=\"/opt/user_software/coot/bin-gtk4/share\" -DCOOT_SYS_BUILD_TYPE=\"Linux-x86_64-ubuntu-22.04.4-gtk4\" "-DCOOT_BUILD_INFO_STRING=\"build-host: gtxr1.srv-local.mpi-dortmund.mpg.de on: Mi 20 Mär 1759.36 CET 2024\"" -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/opt/user_software/coot/bin-gtk4/include/python3.11 -DHAVE_GSL -fopenmp -g -O -Wall -Wno-unused -std=c++17 -MT view.lo -MD -MP -MF .deps/view.Tpo -c ../../coot/src/view.cc -fPIC -DPIC -o .libs/view.o In file included from ../../coot/MoleculesToTriangles/CXXClasses/RendererGLSL.hpp:31, from ../../coot/src/graphics-info.h:53, from ../../coot/src/spherical-density.cc:5: ../../coot/MoleculesToTriangles/CXXClasses/RendererGL.h:61: warning: ignoring ‘#pragma mark ’ [-Wunknown-pragmas] 61 | #pragma mark - | ../../coot/MoleculesToTriangles/CXXClasses/RendererGL.h:62: warning: ignoring ‘#pragma mark Debug’ [-Wunknown-pragmas] 62 | #pragma mark Debug routine | In file included from ../../coot/MoleculesToTriangles/CXXClasses/RendererGLSL.hpp:31, from ../../coot/src/graphics-info.h:53, from ../../coot/src/single-map-properties-dialog.cc:7: ../../coot/MoleculesToTriangles/CXXClasses/RendererGL.h:61: warning: ignoring ‘#pragma mark ’ [-Wunknown-pragmas] 61 | #pragma mark - | ../../coot/MoleculesToTriangles/CXXClasses/RendererGL.h:62: warning: ignoring ‘#pragma mark Debug’ [-Wunknown-pragmas] 62 | #pragma mark Debug routine | In file included from ../../coot/MoleculesToTriangles/CXXClasses/RendererGLSL.hpp:31, from ../../coot/src/graphics-info.h:53, from ../../coot/src/validation.cc:3: ../../coot/MoleculesToTriangles/CXXClasses/RendererGL.h:61: warning: ignoring ‘#pragma mark ’ [-Wunknown-pragmas] 61 | #pragma mark - | ../../coot/MoleculesToTriangles/CXXClasses/RendererGL.h:62: warning: ignoring ‘#pragma mark Debug’ [-Wunknown-pragmas] 62 | #pragma mark Debug routine | In file included from ../../coot/MoleculesToTriangles/CXXClasses/RendererGLSL.hpp:31, from ../../coot/src/graphics-info.h:53, from ../../coot/src/view.cc:27: ../../coot/MoleculesToTriangles/CXXClasses/RendererGL.h:61: warning: ignoring ‘#pragma mark ’ [-Wunknown-pragmas] 61 | #pragma mark - | ../../coot/MoleculesToTriangles/CXXClasses/RendererGL.h:62: warning: ignoring ‘#pragma mark Debug’ [-Wunknown-pragmas] 62 | #pragma mark Debug routine | mv -f .deps/user-mods.Tpo .deps/user-mods.Plo /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" -DPACKAGE_STRING=\"coot\ 1.x-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I../../coot/src -DUSE_PYTHON -mfpmath=sse -msse -msse2 -pthread -I/opt/user_software/coot/bin-gtk4/lib/libffi-3.2.1/include -I/usr/include/gtk-4.0 -I/usr/include/gio-unix-2.0 -I/usr/include/cairo -I/usr/include/pango-1.0 -I/usr/include/harfbuzz -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/harfbuzz -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/x86_64-linux-gnu -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/graphene-1.0 -I/usr/lib/x86_64-linux-gnu/graphene-1.0/include -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I../../coot -I/opt/user_software/coot/bin-gtk4/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/opt/user_software/coot/bin-gtk4/include -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -I/opt/user_software/coot/bin-gtk4/include -DHAVE_SSMLIB -I/opt/user_software/coot/bin-gtk4/include -DMMDB_HAS_LINK_DISTANCE -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DCLIPPER_HAS_TOP8000 -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR='"/opt/user_software/coot/bin-gtk4/share/coot"' -DPACKAGE_LOCALE_DIR='"/opt/user_software/coot/bin-gtk4/share/coot/locale"' -DPKGPYTHONDIR='"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/coot"' -DPYTHONDIR='"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages"' -DXDATADIR='"/opt/user_software/coot/bin-gtk4/share"' -DCOOT_SYS_BUILD_TYPE='"Linux-x86_64-ubuntu-22.04.4-gtk4"' -DCOOT_BUILD_INFO_STRING='"build-host: gtxr1.srv-local.mpi-dortmund.mpg.de on: Mi 20 Mär 1759.36 CET 2024"' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/opt/user_software/coot/bin-gtk4/include/python3.11 -DHAVE_GSL -fopenmp -g -O -Wall -Wno-unused -std=c++17 -MT widget-from-builder.lo -MD -MP -MF .deps/widget-from-builder.Tpo -c -o widget-from-builder.lo ../../coot/src/widget-from-builder.cc mv -f .deps/sdf-interface.Tpo .deps/sdf-interface.Plo /bin/bash ../../coot/src/post-process-coot-wrap-guile.sh coot_wrap_guile_pre.cc coot_wrap_guile.cc adding gtk2 and guile ifdefs from coot_wrap_guile_pre.cc coot_wrap_guile.cc /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" -DPACKAGE_STRING=\"coot\ 1.x-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I../../coot/src -DUSE_PYTHON -mfpmath=sse -msse -msse2 -pthread -I/opt/user_software/coot/bin-gtk4/lib/libffi-3.2.1/include -I/usr/include/gtk-4.0 -I/usr/include/gio-unix-2.0 -I/usr/include/cairo -I/usr/include/pango-1.0 -I/usr/include/harfbuzz -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/harfbuzz -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/x86_64-linux-gnu -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/graphene-1.0 -I/usr/lib/x86_64-linux-gnu/graphene-1.0/include -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I../../coot -I/opt/user_software/coot/bin-gtk4/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/opt/user_software/coot/bin-gtk4/include -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -I/opt/user_software/coot/bin-gtk4/include -DHAVE_SSMLIB -I/opt/user_software/coot/bin-gtk4/include -DMMDB_HAS_LINK_DISTANCE -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DCLIPPER_HAS_TOP8000 -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR='"/opt/user_software/coot/bin-gtk4/share/coot"' -DPACKAGE_LOCALE_DIR='"/opt/user_software/coot/bin-gtk4/share/coot/locale"' -DPKGPYTHONDIR='"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/coot"' -DPYTHONDIR='"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages"' -DXDATADIR='"/opt/user_software/coot/bin-gtk4/share"' -DCOOT_SYS_BUILD_TYPE='"Linux-x86_64-ubuntu-22.04.4-gtk4"' -DCOOT_BUILD_INFO_STRING='"build-host: gtxr1.srv-local.mpi-dortmund.mpg.de on: Mi 20 Mär 1759.36 CET 2024"' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/opt/user_software/coot/bin-gtk4/include/python3.11 -DHAVE_GSL -fopenmp -g -O -Wall -Wno-unused -std=c++17 -MT coot_wrap_guile.lo -MD -MP -MF .deps/coot_wrap_guile.Tpo -c -o coot_wrap_guile.lo coot_wrap_guile.cc libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" "-DPACKAGE_STRING=\"coot 1.x-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I../../coot/src -DUSE_PYTHON -mfpmath=sse -msse -msse2 -pthread -I/opt/user_software/coot/bin-gtk4/lib/libffi-3.2.1/include -I/usr/include/gtk-4.0 -I/usr/include/gio-unix-2.0 -I/usr/include/cairo -I/usr/include/pango-1.0 -I/usr/include/harfbuzz -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/harfbuzz -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/x86_64-linux-gnu -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/graphene-1.0 -I/usr/lib/x86_64-linux-gnu/graphene-1.0/include -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I../../coot -I/opt/user_software/coot/bin-gtk4/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/opt/user_software/coot/bin-gtk4/include -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -I/opt/user_software/coot/bin-gtk4/include -DHAVE_SSMLIB -I/opt/user_software/coot/bin-gtk4/include -DMMDB_HAS_LINK_DISTANCE -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DCLIPPER_HAS_TOP8000 -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR=\"/opt/user_software/coot/bin-gtk4/share/coot\" -DPACKAGE_LOCALE_DIR=\"/opt/user_software/coot/bin-gtk4/share/coot/locale\" -DPKGPYTHONDIR=\"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/coot\" -DPYTHONDIR=\"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages\" -DXDATADIR=\"/opt/user_software/coot/bin-gtk4/share\" -DCOOT_SYS_BUILD_TYPE=\"Linux-x86_64-ubuntu-22.04.4-gtk4\" "-DCOOT_BUILD_INFO_STRING=\"build-host: gtxr1.srv-local.mpi-dortmund.mpg.de on: Mi 20 Mär 1759.36 CET 2024\"" -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/opt/user_software/coot/bin-gtk4/include/python3.11 -DHAVE_GSL -fopenmp -g -O -Wall -Wno-unused -std=c++17 -MT widget-from-builder.lo -MD -MP -MF .deps/widget-from-builder.Tpo -c ../../coot/src/widget-from-builder.cc -fPIC -DPIC -o .libs/widget-from-builder.o libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" "-DPACKAGE_STRING=\"coot 1.x-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I../../coot/src -DUSE_PYTHON -mfpmath=sse -msse -msse2 -pthread -I/opt/user_software/coot/bin-gtk4/lib/libffi-3.2.1/include -I/usr/include/gtk-4.0 -I/usr/include/gio-unix-2.0 -I/usr/include/cairo -I/usr/include/pango-1.0 -I/usr/include/harfbuzz -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/harfbuzz -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/x86_64-linux-gnu -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/graphene-1.0 -I/usr/lib/x86_64-linux-gnu/graphene-1.0/include -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I../../coot -I/opt/user_software/coot/bin-gtk4/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/opt/user_software/coot/bin-gtk4/include -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -I/opt/user_software/coot/bin-gtk4/include -DHAVE_SSMLIB -I/opt/user_software/coot/bin-gtk4/include -DMMDB_HAS_LINK_DISTANCE -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DCLIPPER_HAS_TOP8000 -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR=\"/opt/user_software/coot/bin-gtk4/share/coot\" -DPACKAGE_LOCALE_DIR=\"/opt/user_software/coot/bin-gtk4/share/coot/locale\" -DPKGPYTHONDIR=\"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/coot\" -DPYTHONDIR=\"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages\" -DXDATADIR=\"/opt/user_software/coot/bin-gtk4/share\" -DCOOT_SYS_BUILD_TYPE=\"Linux-x86_64-ubuntu-22.04.4-gtk4\" "-DCOOT_BUILD_INFO_STRING=\"build-host: gtxr1.srv-local.mpi-dortmund.mpg.de on: Mi 20 Mär 1759.36 CET 2024\"" -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/opt/user_software/coot/bin-gtk4/include/python3.11 -DHAVE_GSL -fopenmp -g -O -Wall -Wno-unused -std=c++17 -MT coot_wrap_guile.lo -MD -MP -MF .deps/coot_wrap_guile.Tpo -c coot_wrap_guile.cc -fPIC -DPIC -o .libs/coot_wrap_guile.o In file included from ../../coot/MoleculesToTriangles/CXXClasses/RendererGLSL.hpp:31, from ../../coot/src/graphics-info.h:53, from ../../coot/src/widget-from-builder.cc:3: ../../coot/MoleculesToTriangles/CXXClasses/RendererGL.h:61: warning: ignoring ‘#pragma mark ’ [-Wunknown-pragmas] 61 | #pragma mark - | ../../coot/MoleculesToTriangles/CXXClasses/RendererGL.h:62: warning: ignoring ‘#pragma mark Debug’ [-Wunknown-pragmas] 62 | #pragma mark Debug routine | mv -f .deps/coot_wrap_guile.Tpo .deps/coot_wrap_guile.Plo mv -f .deps/TextureMesh.Tpo .deps/TextureMesh.Plo mv -f .deps/spherical-density.Tpo .deps/spherical-density.Plo mv -f .deps/single-map-properties-dialog.Tpo .deps/single-map-properties-dialog.Plo mv -f .deps/validation.Tpo .deps/validation.Plo mv -f .deps/widget-from-builder.Tpo .deps/widget-from-builder.Plo mv -f .deps/view.Tpo .deps/view.Plo mv -f .deps/testing.Tpo .deps/testing.Plo /bin/bash ../libtool --tag=CXX --mode=link g++ -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR='"/opt/user_software/coot/bin-gtk4/share/coot"' -DPACKAGE_LOCALE_DIR='"/opt/user_software/coot/bin-gtk4/share/coot/locale"' -DPKGPYTHONDIR='"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/coot"' -DPYTHONDIR='"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages"' -DXDATADIR='"/opt/user_software/coot/bin-gtk4/share"' -DCOOT_SYS_BUILD_TYPE='"Linux-x86_64-ubuntu-22.04.4-gtk4"' -DCOOT_BUILD_INFO_STRING='"build-host: gtxr1.srv-local.mpi-dortmund.mpg.de on: Mi 20 Mär 1759.36 CET 2024"' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/opt/user_software/coot/bin-gtk4/include/python3.11 -DHAVE_GSL -fopenmp -g -O -Wall -Wno-unused -std=c++17 -o libcootsumo.la -rpath /opt/user_software/coot/bin-gtk4/lib init_coot_as_python_module.lo boids.lo boot-python.lo atom-overlaps.lo git-revision-count.lo scm-boot-guile.lo c-interface-analysis.lo c-interface-bonds.lo c-interface-build.lo c-interface-build-morph.lo c-interface-build-main-chain.lo c-interface-build-side-chain.lo c-interface-build-symmetry.lo c-interface-build-gui.lo c-interface-curlew.lo c-interface-database.lo c-interface-gui.lo c-interface-gtk2.lo c-interface-info.lo c-interface-kk.lo c-interface-image.lo c-interface-ligands-gui.lo c-interface-ligands.lo c-interface-maps.lo c-interface-mmdb.lo c-interface-mogul.lo c-interface-mogul-scripting.lo c-interface-mutate.lo c-interface-ncs.lo c-interface-network.lo c-interface-nucleotides.lo c-interface-pisa.lo c-interface-pisa-gui.lo c-interface-preferences.lo c-interface-python.lo c-interface-refine.lo c-interface-residues.lo c-interface-refmac.lo simple-refmac.lo c-interface-scm.lo c-interface-sequence.lo c-interface-sfs.lo c-interface-sharpen.lo c-interface-superpose.lo c-interface-validate.lo c-interface-view.lo c-interface-widgets.lo c-interface-waters.lo c-interface-waters-gui.lo c-interface.lo c-interface-test.lo cc-interface-alignment.lo cc-interface-graphics.lo cc-interface-merge.lo cc-interface-molecular-representation.lo cc-interface-molecular-symmetry.lo cc-interface-scripting.lo cc-interface-map-utils.lo cc-interface-png.lo cc-interface-user-defined-atom-colours.lo cfc.lo change-dir.lo cmtz-interface.lo command-line.lo command-line-extern.lo coot-application.lo coot-colour.lo coot-align.lo coot-nomenclature.lo coot-glue-gtk2.lo coot-glue-gtk2-python.lo coot-hydrogens.lo coot-phi-psi.lo coot_pythonmodule.lo coot-setup-python.lo coot_wrap_guile.lo curlew-gtk4.lo draw.lo graphics-info-tick-function.lo drag-and-drop.lo draw-generic-display-objects.lo dynamic-validation.lo eyes.lo event-controller-callbacks.lo fit-loop-gui.lo flev.lo framebuffer.lo old-generic-display-object.lo gaussian-surface.lo generic-objects.lo geometry-graphs.lo get-residue.lo get-monomer.lo gl-rama-plot.lo globjects.lo globularize.lo graphics-info.lo graphics-info-defines.lo graphics-info-defines-gtk4.lo graphics-info-draw.lo graphics-info-draw-models.lo graphics-info-graphs.lo graphics-info-gui.lo graphics-info-init.lo graphics-info-intermediate.lo graphics-info-modelling.lo graphics-info-navigation.lo graphics-info-navigation-gtk2.lo graphics-info-preferences.lo graphics-info-network.lo graphics-info-mutate.lo graphics-info-lsq.lo graphics-info-opengl.lo graphics-info-pick.lo graphics-info-refmac.lo graphics-info-render.lo graphics-info-render-scene.lo graphics-info-residues.lo graphics-info-refine.lo graphics-info-scripting.lo graphics-info-state.lo graphics-info-statics.lo graphics-info-superpose.lo graphics-info-trackball.lo graphics-ligand-view.lo graphics-ligand-mesh-molecule.lo gl-matrix.lo gtkglarea-rama-plot.lo gtk-manual.lo gtk-widget-conversion-utils.lo gtk-utils.lo HUDMesh.lo HUDTextureMesh.lo Instanced-Markup-Mesh.lo init-from-gtkbuilder.lo key-bindings.lo LinesMesh.lo LigandViewMesh.lo lbg-callbacks-outer.lo lbg-interface.lo Model.lo make-a-dodec.lo matrix-utils.lo Mesh.lo Mesh-from-glTF.lo Mesh-from-graphical-bonds-instanced.lo Mesh-from-graphical-bonds.lo meshed-generic-display-object.lo model-molecule-meshes.lo molecule-class-info.lo molecule-class-info-alignment.lo molecule-class-info-analysis.lo molecule-class-info-bonds.lo molecule-class-info-build.lo molecule-class-info-maps.lo molecule-class-info-maps-2.lo molecule-class-info-molecular-symmetry.lo molecule-class-info-kdc.lo molecule-class-info-dots.lo molecule-class-info-dots-internal.lo molecule-class-info-other.lo molecule-class-info-mutate.lo molecule-class-info-residues.lo molecule-class-info-refine.lo molecule-class-info-kk.lo molecule-class-info-surface.lo molecule-class-info-string.lo molecule-class-info-patterson.lo molecule-class-info-ncs.lo molecule-class-info-mol-tris.lo molecule-class-info-widget-work.lo molecule-class-info-geometry.lo molecular-mesh-generator.lo molecular-mesh-generator-mol-tris.lo obj_loader.lo pick.lo probe-clash-score.lo protein_db-interface.lo pumpkin.lo python-classes.lo Particle.lo read-phs.lo read-cif.lo rama_mousey.lo rama_plot_with_canvas.lo text-rendering-utils.lo restraints-editor.lo rsr-functions.lo screendump-tga.lo sdf-interface.lo sequence-view.lo seq-view-interface.lo Shader.lo sound.lo startup-utils.lo testing.lo testing-2.lo Texture.lo TextureMesh.lo trackball.lo user-mods.lo xmap-utils.lo rama-plot-phi-psi.lo spherical-density.lo single-map-properties-dialog.lo validation.lo view.lo widget-from-builder.lo -fopenmp ../api/libcoot-api.la ../pli/libcoot-pli.la ../layla/libcoot-layla.la ../ligand/libcoot-res-tracer.la ../ligand/libcoot-ligand.la ../validation-graphs/libcoot-validation-graphs.la ../lidia-core/libcoot-lidia-core.la ../density-contour/libcoot-isosurface.la ../build/libcoot-cabuild.la ../skeleton/libcoot-skeleton.la ../angles/libcoot-AngleInfo.la ../db-main/libcoot-db-main.la ../high-res/libcoot-high-res.la ../ideal/libcoot-ideal.la ../geometry/libcoot-geometry.la ../coords/libcoot-coords.la ../ccp4mg-utils/libccp4mg-utils.la ../coot-utils/libcoot-map-heavy.la ../coot-utils/libcoot-map-utils.la ../coot-utils/libcoot-coord-extras.la ../coot-utils/libcoot-coord-utils.la ../utils/libcoot-utils.la ../mini-mol/libcoot-mini-mol.la ../analysis/libcoot-analysis.la ../protein_db/libcoot-protein-db.la ../cootilus/libcootilus.la ../cootaneer/libcootaneer.la ../MoleculesToTriangles/CXXClasses/libMoleculesToTrianglesCXXClasses.la ../MoleculesToTriangles/CXXSurface/libMoleculesToTrianglesCXXSurface.la ../compat/libcoot-compat.la -lgtk-4 -lpangocairo-1.0 -lpango-1.0 -lharfbuzz -lgdk_pixbuf-2.0 -lcairo-gobject -lcairo -lgraphene-1.0 -lgio-2.0 -lgobject-2.0 -lglib-2.0 -L/opt/user_software/coot/bin-gtk4/lib -lclipper-ccp4 -lclipper-cif -lclipper-minimol -lclipper-mmdb -lclipper-cns -lclipper-phs -lclipper-contrib -lclipper-core -lccp4c -lmmdb2 -L/opt/user_software/coot/bin-gtk4/lib -lssm -lmmdb2 -L/opt/user_software/coot/bin-gtk4/lib -lmmdb2 -L/opt/user_software/coot/bin-gtk4/lib -lpython3.11 -lepoxy -L/opt/user_software/coot/bin-gtk4/lib -lgsl -lgslcblas -lm -lblas -L/opt/user_software/coot/bin-gtk4/lib -lcurl -L/opt/user_software/coot/bin-gtk4/lib -lRDKitMolDraw2D -lRDKitForceFieldHelpers -lRDKitDescriptors -lRDKitForceField -lRDKitSubstructMatch -lRDKitOptimizer -lRDKitDistGeomHelpers -lRDKitDistGeometry -lRDKitChemReactions -lRDKitAlignment -lRDKitEigenSolvers -lRDKitDepictor -lRDKitcoordgen -lRDKitMolChemicalFeatures -lRDKitPartialCharges -lRDKitFileParsers -lRDKitRDGeometryLib -lRDKitGraphMol -lRDKitShapeHelpers -lRDKitFingerprints -lRDKitMolAlign -lRDKitMolTransforms -lRDKitChemTransforms -lRDKitSmilesParse -lRDKitGenericGroups -lRDKitRingDecomposerLib -lRDKitFilterCatalog -lRDKitCatalogs -lRDKitSubgraphs -lRDKitPartialCharges -lRDKitRDGeneral -lRDKitDataStructs -lboost_serialization -lboost_iostreams -L/opt/user_software/coot/bin-gtk4/lib -lboost_python311 -lfreetype -lpthread libtool: link: g++ -fPIC -DPIC -shared -nostdlib /usr/lib/gcc/x86_64-linux-gnu/11/../../../x86_64-linux-gnu/crti.o /usr/lib/gcc/x86_64-linux-gnu/11/crtbeginS.o .libs/init_coot_as_python_module.o .libs/boids.o .libs/boot-python.o .libs/atom-overlaps.o .libs/git-revision-count.o .libs/scm-boot-guile.o .libs/c-interface-analysis.o .libs/c-interface-bonds.o .libs/c-interface-build.o .libs/c-interface-build-morph.o .libs/c-interface-build-main-chain.o .libs/c-interface-build-side-chain.o .libs/c-interface-build-symmetry.o .libs/c-interface-build-gui.o .libs/c-interface-curlew.o .libs/c-interface-database.o .libs/c-interface-gui.o .libs/c-interface-gtk2.o .libs/c-interface-info.o .libs/c-interface-kk.o .libs/c-interface-image.o .libs/c-interface-ligands-gui.o .libs/c-interface-ligands.o .libs/c-interface-maps.o .libs/c-interface-mmdb.o .libs/c-interface-mogul.o .libs/c-interface-mogul-scripting.o .libs/c-interface-mutate.o .libs/c-interface-ncs.o .libs/c-interface-network.o .libs/c-interface-nucleotides.o .libs/c-interface-pisa.o .libs/c-interface-pisa-gui.o .libs/c-interface-preferences.o .libs/c-interface-python.o .libs/c-interface-refine.o .libs/c-interface-residues.o .libs/c-interface-refmac.o .libs/simple-refmac.o .libs/c-interface-scm.o .libs/c-interface-sequence.o .libs/c-interface-sfs.o .libs/c-interface-sharpen.o .libs/c-interface-superpose.o .libs/c-interface-validate.o .libs/c-interface-view.o .libs/c-interface-widgets.o .libs/c-interface-waters.o .libs/c-interface-waters-gui.o .libs/c-interface.o .libs/c-interface-test.o .libs/cc-interface-alignment.o .libs/cc-interface-graphics.o .libs/cc-interface-merge.o .libs/cc-interface-molecular-representation.o .libs/cc-interface-molecular-symmetry.o .libs/cc-interface-scripting.o .libs/cc-interface-map-utils.o .libs/cc-interface-png.o .libs/cc-interface-user-defined-atom-colours.o .libs/cfc.o .libs/change-dir.o .libs/cmtz-interface.o .libs/command-line.o .libs/command-line-extern.o .libs/coot-application.o .libs/coot-colour.o .libs/coot-align.o .libs/coot-nomenclature.o .libs/coot-glue-gtk2.o .libs/coot-glue-gtk2-python.o .libs/coot-hydrogens.o .libs/coot-phi-psi.o .libs/coot_pythonmodule.o .libs/coot-setup-python.o .libs/coot_wrap_guile.o .libs/curlew-gtk4.o .libs/draw.o .libs/graphics-info-tick-function.o .libs/drag-and-drop.o .libs/draw-generic-display-objects.o .libs/dynamic-validation.o .libs/eyes.o .libs/event-controller-callbacks.o .libs/fit-loop-gui.o .libs/flev.o .libs/framebuffer.o .libs/old-generic-display-object.o .libs/gaussian-surface.o .libs/generic-objects.o .libs/geometry-graphs.o .libs/get-residue.o .libs/get-monomer.o .libs/gl-rama-plot.o .libs/globjects.o .libs/globularize.o .libs/graphics-info.o .libs/graphics-info-defines.o .libs/graphics-info-defines-gtk4.o .libs/graphics-info-draw.o .libs/graphics-info-draw-models.o .libs/graphics-info-graphs.o .libs/graphics-info-gui.o .libs/graphics-info-init.o .libs/graphics-info-intermediate.o .libs/graphics-info-modelling.o .libs/graphics-info-navigation.o .libs/graphics-info-navigation-gtk2.o .libs/graphics-info-preferences.o .libs/graphics-info-network.o .libs/graphics-info-mutate.o .libs/graphics-info-lsq.o .libs/graphics-info-opengl.o .libs/graphics-info-pick.o .libs/graphics-info-refmac.o .libs/graphics-info-render.o .libs/graphics-info-render-scene.o .libs/graphics-info-residues.o .libs/graphics-info-refine.o .libs/graphics-info-scripting.o .libs/graphics-info-state.o .libs/graphics-info-statics.o .libs/graphics-info-superpose.o .libs/graphics-info-trackball.o .libs/graphics-ligand-view.o .libs/graphics-ligand-mesh-molecule.o .libs/gl-matrix.o .libs/gtkglarea-rama-plot.o .libs/gtk-manual.o .libs/gtk-widget-conversion-utils.o .libs/gtk-utils.o .libs/HUDMesh.o .libs/HUDTextureMesh.o .libs/Instanced-Markup-Mesh.o .libs/init-from-gtkbuilder.o .libs/key-bindings.o .libs/LinesMesh.o .libs/LigandViewMesh.o .libs/lbg-callbacks-outer.o .libs/lbg-interface.o .libs/Model.o .libs/make-a-dodec.o .libs/matrix-utils.o .libs/Mesh.o .libs/Mesh-from-glTF.o .libs/Mesh-from-graphical-bonds-instanced.o .libs/Mesh-from-graphical-bonds.o .libs/meshed-generic-display-object.o .libs/model-molecule-meshes.o .libs/molecule-class-info.o .libs/molecule-class-info-alignment.o .libs/molecule-class-info-analysis.o .libs/molecule-class-info-bonds.o .libs/molecule-class-info-build.o .libs/molecule-class-info-maps.o .libs/molecule-class-info-maps-2.o .libs/molecule-class-info-molecular-symmetry.o .libs/molecule-class-info-kdc.o .libs/molecule-class-info-dots.o .libs/molecule-class-info-dots-internal.o .libs/molecule-class-info-other.o .libs/molecule-class-info-mutate.o .libs/molecule-class-info-residues.o .libs/molecule-class-info-refine.o .libs/molecule-class-info-kk.o .libs/molecule-class-info-surface.o .libs/molecule-class-info-string.o .libs/molecule-class-info-patterson.o .libs/molecule-class-info-ncs.o .libs/molecule-class-info-mol-tris.o .libs/molecule-class-info-widget-work.o .libs/molecule-class-info-geometry.o .libs/molecular-mesh-generator.o .libs/molecular-mesh-generator-mol-tris.o .libs/obj_loader.o .libs/pick.o .libs/probe-clash-score.o .libs/protein_db-interface.o .libs/pumpkin.o .libs/python-classes.o .libs/Particle.o .libs/read-phs.o .libs/read-cif.o .libs/rama_mousey.o .libs/rama_plot_with_canvas.o .libs/text-rendering-utils.o .libs/restraints-editor.o .libs/rsr-functions.o .libs/screendump-tga.o .libs/sdf-interface.o .libs/sequence-view.o .libs/seq-view-interface.o .libs/Shader.o .libs/sound.o .libs/startup-utils.o .libs/testing.o .libs/testing-2.o .libs/Texture.o .libs/TextureMesh.o .libs/trackball.o .libs/user-mods.o .libs/xmap-utils.o .libs/rama-plot-phi-psi.o .libs/spherical-density.o .libs/single-map-properties-dialog.o .libs/validation.o .libs/view.o .libs/widget-from-builder.o -Wl,-rpath -Wl,/opt/user_software/coot/src/build-coot/api/.libs -Wl,-rpath -Wl,/opt/user_software/coot/src/build-coot/MoleculesToTriangles/CXXClasses/.libs -Wl,-rpath -Wl,/opt/user_software/coot/src/build-coot/pli/.libs -Wl,-rpath -Wl,/opt/user_software/coot/src/build-coot/density-contour/.libs -Wl,-rpath -Wl,/opt/user_software/coot/src/build-coot/layla/.libs -Wl,-rpath -Wl,/opt/user_software/coot/src/build-coot/ligand/.libs -Wl,-rpath -Wl,/opt/user_software/coot/src/build-coot/validation-graphs/.libs -Wl,-rpath -Wl,/opt/user_software/coot/src/build-coot/lidia-core/.libs -Wl,-rpath -Wl,/opt/user_software/coot/src/build-coot/build/.libs -Wl,-rpath -Wl,/opt/user_software/coot/src/build-coot/skeleton/.libs -Wl,-rpath -Wl,/opt/user_software/coot/src/build-coot/angles/.libs -Wl,-rpath -Wl,/opt/user_software/coot/src/build-coot/db-main/.libs -Wl,-rpath -Wl,/opt/user_software/coot/src/build-coot/high-res/.libs -Wl,-rpath -Wl,/opt/user_software/coot/src/build-coot/coords/.libs -Wl,-rpath -Wl,/opt/user_software/coot/src/build-coot/ideal/.libs -Wl,-rpath -Wl,/opt/user_software/coot/src/build-coot/geometry/.libs -Wl,-rpath -Wl,/opt/user_software/coot/src/build-coot/coot-utils/.libs -Wl,-rpath -Wl,/opt/user_software/coot/src/build-coot/ccp4mg-utils/.libs -Wl,-rpath -Wl,/opt/user_software/coot/src/build-coot/analysis/.libs -Wl,-rpath -Wl,/opt/user_software/coot/src/build-coot/cootaneer/.libs -Wl,-rpath -Wl,/opt/user_software/coot/src/build-coot/utils/.libs -Wl,-rpath -Wl,/opt/user_software/coot/src/build-coot/mini-mol/.libs -Wl,-rpath -Wl,/opt/user_software/coot/src/build-coot/protein_db/.libs -Wl,-rpath -Wl,/opt/user_software/coot/src/build-coot/compat/.libs -Wl,-rpath -Wl,/opt/user_software/coot/src/build-coot/cootilus/.libs -Wl,-rpath -Wl,/opt/user_software/coot/src/build-coot/MoleculesToTriangles/CXXSurface/.libs -Wl,-rpath -Wl,/opt/user_software/coot/bin-gtk4/lib -Wl,-rpath -Wl,/opt/user_software/coot/bin-gtk4/lib -L/opt/user_software/coot/src/build-coot/MoleculesToTriangles/CXXClasses/.libs -L/opt/user_software/coot/src/build-coot/pli/.libs -L/opt/user_software/coot/src/build-coot/density-contour/.libs -L/opt/user_software/coot/src/build-coot/ligand/.libs -L/opt/user_software/coot/src/build-coot/lidia-core/.libs -L/opt/user_software/coot/src/build-coot/angles/.libs -L/opt/user_software/coot/src/build-coot/db-main/.libs -L/opt/user_software/coot/src/build-coot/coords/.libs -L/opt/user_software/coot/src/build-coot/ideal/.libs -L/opt/user_software/coot/src/build-coot/geometry/.libs -L/opt/user_software/coot/src/build-coot/coot-utils/.libs -L/opt/user_software/coot/src/build-coot/ccp4mg-utils/.libs -L/opt/user_software/coot/src/build-coot/analysis/.libs -L/opt/user_software/coot/src/build-coot/cootaneer/.libs -L/opt/user_software/coot/src/build-coot/utils/.libs -L/opt/user_software/coot/src/build-coot/mini-mol/.libs -L/opt/user_software/coot/src/build-coot/protein_db/.libs -L/opt/user_software/coot/src/build-coot/compat/.libs -L/opt/user_software/coot/src/build-coot/MoleculesToTriangles/CXXSurface/.libs ../api/.libs/libcoot-api.so -L/opt/user_software/coot/bin-gtk4/lib -L=/opt/user_software/coot/bin-gtk4/lib:-L/opt/user_software/coot/bin-gtk4/lib: /opt/user_software/coot/src/build-coot/MoleculesToTriangles/CXXClasses/.libs/libMoleculesToTrianglesCXXClasses.so /opt/user_software/coot/src/build-coot/pli/.libs/libcoot-pli.so /opt/user_software/coot/src/build-coot/density-contour/.libs/libcoot-isosurface.so ../pli/.libs/libcoot-pli.so ../layla/.libs/libcoot-layla.so ../ligand/.libs/libcoot-res-tracer.so ../ligand/.libs/libcoot-ligand.so ../validation-graphs/.libs/libcoot-validation-graphs.so ../lidia-core/.libs/libcoot-lidia-core.so ../density-contour/.libs/libcoot-isosurface.so ../build/.libs/libcoot-cabuild.so ../skeleton/.libs/libcoot-skeleton.so /opt/user_software/coot/src/build-coot/angles/.libs/libcoot-AngleInfo.so ../angles/.libs/libcoot-AngleInfo.so ../db-main/.libs/libcoot-db-main.so ../high-res/.libs/libcoot-high-res.so /opt/user_software/coot/src/build-coot/coords/.libs/libcoot-coords.so ../ideal/.libs/libcoot-ideal.so ../geometry/.libs/libcoot-geometry.so ../coords/.libs/libcoot-coords.so /opt/user_software/coot/src/build-coot/ligand/.libs/libcoot-ligand.so /opt/user_software/coot/src/build-coot/ideal/.libs/libcoot-ideal.so /opt/user_software/coot/src/build-coot/coot-utils/.libs/libcoot-map-heavy.so /opt/user_software/coot/src/build-coot/db-main/.libs/libcoot-db-main.so /opt/user_software/coot/src/build-coot/ccp4mg-utils/.libs/libccp4mg-utils.so /opt/user_software/coot/src/build-coot/analysis/.libs/libcoot-analysis.so /opt/user_software/coot/src/build-coot/coot-utils/.libs/libcoot-coord-extras.so /opt/user_software/coot/src/build-coot/cootaneer/.libs/libcootaneer.so ../ccp4mg-utils/.libs/libccp4mg-utils.so -lpng16 ../coot-utils/.libs/libcoot-map-heavy.so ../coot-utils/.libs/libcoot-map-utils.so ../coot-utils/.libs/libcoot-coord-extras.so ../coot-utils/.libs/libcoot-coord-utils.so ../utils/.libs/libcoot-utils.so ../mini-mol/.libs/libcoot-mini-mol.so ../analysis/.libs/libcoot-analysis.so /opt/user_software/coot/src/build-coot/coot-utils/.libs/libcoot-map-utils.so /opt/user_software/coot/src/build-coot/coot-utils/.libs/libcoot-coord-utils.so /opt/user_software/coot/src/build-coot/protein_db/.libs/libcoot-protein-db.so /opt/user_software/coot/src/build-coot/lidia-core/.libs/libcoot-lidia-core.so /opt/user_software/coot/src/build-coot/geometry/.libs/libcoot-geometry.so /opt/user_software/coot/src/build-coot/compat/.libs/libcoot-compat.so /opt/user_software/coot/src/build-coot/mini-mol/.libs/libcoot-mini-mol.so /opt/user_software/coot/src/build-coot/utils/.libs/libcoot-utils.so ../protein_db/.libs/libcoot-protein-db.so ../cootilus/.libs/libcootilus.so ../cootaneer/.libs/libcootaneer.so ../MoleculesToTriangles/CXXClasses/.libs/libMoleculesToTrianglesCXXClasses.so /opt/user_software/coot/src/build-coot/MoleculesToTriangles/CXXSurface/.libs/libMoleculesToTrianglesCXXSurface.so ../MoleculesToTriangles/CXXSurface/.libs/libMoleculesToTrianglesCXXSurface.so ../compat/.libs/libcoot-compat.so -lgtk-4 -lpangocairo-1.0 -lpango-1.0 -lharfbuzz -lgdk_pixbuf-2.0 -lcairo-gobject -lcairo -lgraphene-1.0 -lgio-2.0 -lgobject-2.0 -lglib-2.0 /opt/user_software/coot/bin-gtk4/lib/libclipper-ccp4.so /opt/user_software/coot/bin-gtk4/lib/libclipper-cif.so /opt/user_software/coot/bin-gtk4/lib/libclipper-minimol.so /opt/user_software/coot/bin-gtk4/lib/libclipper-mmdb.so /opt/user_software/coot/bin-gtk4/lib/libclipper-cns.so /opt/user_software/coot/bin-gtk4/lib/libclipper-phs.so /opt/user_software/coot/bin-gtk4/lib/libclipper-contrib.so /opt/user_software/coot/bin-gtk4/lib/libclipper-core.so /opt/user_software/coot/bin-gtk4/lib/librfftw.so /opt/user_software/coot/bin-gtk4/lib/libfftw.so /opt/user_software/coot/bin-gtk4/lib/libccp4c.so /opt/user_software/coot/bin-gtk4/lib/libssm.so /opt/user_software/coot/bin-gtk4/lib/libmmdb2.so -lpython3.11 -lepoxy /opt/user_software/coot/bin-gtk4/lib/libgsl.so /opt/user_software/coot/bin-gtk4/lib/libgslcblas.so -lblas /opt/user_software/coot/bin-gtk4/lib/libcurl.so /opt/user_software/coot/bin-gtk4/lib/libidn2.so -lssl -lcrypto -lbrotlidec -lz -lRDKitMolDraw2D -lRDKitForceFieldHelpers -lRDKitDescriptors -lRDKitForceField -lRDKitSubstructMatch -lRDKitOptimizer -lRDKitDistGeomHelpers -lRDKitDistGeometry -lRDKitChemReactions -lRDKitAlignment -lRDKitEigenSolvers -lRDKitDepictor -lRDKitcoordgen -lRDKitMolChemicalFeatures -lRDKitFileParsers -lRDKitRDGeometryLib -lRDKitGraphMol -lRDKitShapeHelpers -lRDKitFingerprints -lRDKitMolAlign -lRDKitMolTransforms -lRDKitChemTransforms -lRDKitSmilesParse -lRDKitGenericGroups -lRDKitRingDecomposerLib -lRDKitFilterCatalog -lRDKitCatalogs -lRDKitSubgraphs -lRDKitPartialCharges -lRDKitRDGeneral -lRDKitDataStructs -lboost_serialization -lboost_iostreams -lboost_python311 -lfreetype -lpthread -L/usr/lib/gcc/x86_64-linux-gnu/11 -L/usr/lib/gcc/x86_64-linux-gnu/11/../../../x86_64-linux-gnu -L/usr/lib/gcc/x86_64-linux-gnu/11/../../../../lib -L/lib/x86_64-linux-gnu -L/lib/../lib -L/usr/lib/x86_64-linux-gnu -L/usr/lib/../lib -L/usr/lib/gcc/x86_64-linux-gnu/11/../../.. -lstdc++ -lm -lc -lgcc_s /usr/lib/gcc/x86_64-linux-gnu/11/crtendS.o /usr/lib/gcc/x86_64-linux-gnu/11/../../../x86_64-linux-gnu/crtn.o -fopenmp -g -O -fopenmp -fopenmp -Wl,-soname -Wl,libcootsumo.so.0 -o .libs/libcootsumo.so.0.0.0 libtool: link: (cd ".libs" && rm -f "libcootsumo.so.0" && ln -s "libcootsumo.so.0.0.0" "libcootsumo.so.0") libtool: link: (cd ".libs" && rm -f "libcootsumo.so" && ln -s "libcootsumo.so.0.0.0" "libcootsumo.so") libtool: link: ( cd ".libs" && rm -f "libcootsumo.la" && ln -s "../libcootsumo.la" "libcootsumo.la" ) make all-am make[2]: Entering directory '/opt/user_software/coot/src/build-coot/src' g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" -DPACKAGE_STRING=\"coot\ 1.x-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I../../coot/src -DUSE_PYTHON -mfpmath=sse -msse -msse2 -pthread -I/opt/user_software/coot/bin-gtk4/lib/libffi-3.2.1/include -I/usr/include/gtk-4.0 -I/usr/include/gio-unix-2.0 -I/usr/include/cairo -I/usr/include/pango-1.0 -I/usr/include/harfbuzz -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/harfbuzz -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/x86_64-linux-gnu -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/graphene-1.0 -I/usr/lib/x86_64-linux-gnu/graphene-1.0/include -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I../../coot -I/opt/user_software/coot/bin-gtk4/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/opt/user_software/coot/bin-gtk4/include -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -I/opt/user_software/coot/bin-gtk4/include -DHAVE_SSMLIB -I/opt/user_software/coot/bin-gtk4/include -DMMDB_HAS_LINK_DISTANCE -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DCLIPPER_HAS_TOP8000 -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR='"/opt/user_software/coot/bin-gtk4/share/coot"' -DPACKAGE_LOCALE_DIR='"/opt/user_software/coot/bin-gtk4/share/coot/locale"' -DPKGPYTHONDIR='"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/coot"' -DPYTHONDIR='"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages"' -DXDATADIR='"/opt/user_software/coot/bin-gtk4/share"' -DCOOT_SYS_BUILD_TYPE='"Linux-x86_64-ubuntu-22.04.4-gtk4"' -DCOOT_BUILD_INFO_STRING='"build-host: gtxr1.srv-local.mpi-dortmund.mpg.de on: Mi 20 Mär 1759.36 CET 2024"' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/opt/user_software/coot/bin-gtk4/include/python3.11 -DHAVE_GSL -fopenmp -g -O -Wall -Wno-unused -std=c++17 -MT main.o -MD -MP -MF .deps/main.Tpo -c -o main.o ../../coot/src/main.cc g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" -DPACKAGE_STRING=\"coot\ 1.x-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I../../coot/src -DUSE_PYTHON -mfpmath=sse -msse -msse2 -pthread -I/opt/user_software/coot/bin-gtk4/lib/libffi-3.2.1/include -I/usr/include/gtk-4.0 -I/usr/include/gio-unix-2.0 -I/usr/include/cairo -I/usr/include/pango-1.0 -I/usr/include/harfbuzz -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/harfbuzz -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/x86_64-linux-gnu -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/graphene-1.0 -I/usr/lib/x86_64-linux-gnu/graphene-1.0/include -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I../../coot -I/opt/user_software/coot/bin-gtk4/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/opt/user_software/coot/bin-gtk4/include -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -I/opt/user_software/coot/bin-gtk4/include -DHAVE_SSMLIB -I/opt/user_software/coot/bin-gtk4/include -DMMDB_HAS_LINK_DISTANCE -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DCLIPPER_HAS_TOP8000 -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR='"/opt/user_software/coot/bin-gtk4/share/coot"' -DPACKAGE_LOCALE_DIR='"/opt/user_software/coot/bin-gtk4/share/coot/locale"' -DPKGPYTHONDIR='"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/coot"' -DPYTHONDIR='"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages"' -DXDATADIR='"/opt/user_software/coot/bin-gtk4/share"' -DCOOT_SYS_BUILD_TYPE='"Linux-x86_64-ubuntu-22.04.4-gtk4"' -DCOOT_BUILD_INFO_STRING='"build-host: gtxr1.srv-local.mpi-dortmund.mpg.de on: Mi 20 Mär 1759.36 CET 2024"' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/opt/user_software/coot/bin-gtk4/include/python3.11 -DHAVE_GSL -fopenmp -g -O -Wall -Wno-unused -std=c++17 -MT glade-callbacks.o -MD -MP -MF .deps/glade-callbacks.Tpo -c -o glade-callbacks.o ../../coot/src/glade-callbacks.cc g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" -DPACKAGE_STRING=\"coot\ 1.x-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I../../coot/src -DUSE_PYTHON -mfpmath=sse -msse -msse2 -pthread -I/opt/user_software/coot/bin-gtk4/lib/libffi-3.2.1/include -I/usr/include/gtk-4.0 -I/usr/include/gio-unix-2.0 -I/usr/include/cairo -I/usr/include/pango-1.0 -I/usr/include/harfbuzz -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/harfbuzz -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/x86_64-linux-gnu -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/graphene-1.0 -I/usr/lib/x86_64-linux-gnu/graphene-1.0/include -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I../../coot -I/opt/user_software/coot/bin-gtk4/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/opt/user_software/coot/bin-gtk4/include -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -I/opt/user_software/coot/bin-gtk4/include -DHAVE_SSMLIB -I/opt/user_software/coot/bin-gtk4/include -DMMDB_HAS_LINK_DISTANCE -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DCLIPPER_HAS_TOP8000 -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR='"/opt/user_software/coot/bin-gtk4/share/coot"' -DPACKAGE_LOCALE_DIR='"/opt/user_software/coot/bin-gtk4/share/coot/locale"' -DPKGPYTHONDIR='"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/coot"' -DPYTHONDIR='"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages"' -DXDATADIR='"/opt/user_software/coot/bin-gtk4/share"' -DCOOT_SYS_BUILD_TYPE='"Linux-x86_64-ubuntu-22.04.4-gtk4"' -DCOOT_BUILD_INFO_STRING='"build-host: gtxr1.srv-local.mpi-dortmund.mpg.de on: Mi 20 Mär 1759.36 CET 2024"' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/opt/user_software/coot/bin-gtk4/include/python3.11 -DHAVE_GSL -fopenmp -g -O -Wall -Wno-unused -std=c++17 -MT glade-callbacks-main-window.o -MD -MP -MF .deps/glade-callbacks-main-window.Tpo -c -o glade-callbacks-main-window.o ../../coot/src/glade-callbacks-main-window.cc g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" -DPACKAGE_STRING=\"coot\ 1.x-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I../../coot/src -DUSE_PYTHON -mfpmath=sse -msse -msse2 -pthread -I/opt/user_software/coot/bin-gtk4/lib/libffi-3.2.1/include -I/usr/include/gtk-4.0 -I/usr/include/gio-unix-2.0 -I/usr/include/cairo -I/usr/include/pango-1.0 -I/usr/include/harfbuzz -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/harfbuzz -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/x86_64-linux-gnu -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/graphene-1.0 -I/usr/lib/x86_64-linux-gnu/graphene-1.0/include -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I../../coot -I/opt/user_software/coot/bin-gtk4/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/opt/user_software/coot/bin-gtk4/include -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -I/opt/user_software/coot/bin-gtk4/include -DHAVE_SSMLIB -I/opt/user_software/coot/bin-gtk4/include -DMMDB_HAS_LINK_DISTANCE -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DCLIPPER_HAS_TOP8000 -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR='"/opt/user_software/coot/bin-gtk4/share/coot"' -DPACKAGE_LOCALE_DIR='"/opt/user_software/coot/bin-gtk4/share/coot/locale"' -DPKGPYTHONDIR='"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/coot"' -DPYTHONDIR='"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages"' -DXDATADIR='"/opt/user_software/coot/bin-gtk4/share"' -DCOOT_SYS_BUILD_TYPE='"Linux-x86_64-ubuntu-22.04.4-gtk4"' -DCOOT_BUILD_INFO_STRING='"build-host: gtxr1.srv-local.mpi-dortmund.mpg.de on: Mi 20 Mär 1759.36 CET 2024"' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/opt/user_software/coot/bin-gtk4/include/python3.11 -DHAVE_GSL -fopenmp -g -O -Wall -Wno-unused -std=c++17 -MT glade-callbacks-preferences.o -MD -MP -MF .deps/glade-callbacks-preferences.Tpo -c -o glade-callbacks-preferences.o ../../coot/src/glade-callbacks-preferences.cc g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" -DPACKAGE_STRING=\"coot\ 1.x-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I../../coot/src -DUSE_PYTHON -mfpmath=sse -msse -msse2 -pthread -I/opt/user_software/coot/bin-gtk4/lib/libffi-3.2.1/include -I/usr/include/gtk-4.0 -I/usr/include/gio-unix-2.0 -I/usr/include/cairo -I/usr/include/pango-1.0 -I/usr/include/harfbuzz -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/harfbuzz -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/x86_64-linux-gnu -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/graphene-1.0 -I/usr/lib/x86_64-linux-gnu/graphene-1.0/include -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I../../coot -I/opt/user_software/coot/bin-gtk4/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/opt/user_software/coot/bin-gtk4/include -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -I/opt/user_software/coot/bin-gtk4/include -DHAVE_SSMLIB -I/opt/user_software/coot/bin-gtk4/include -DMMDB_HAS_LINK_DISTANCE -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DCLIPPER_HAS_TOP8000 -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR='"/opt/user_software/coot/bin-gtk4/share/coot"' -DPACKAGE_LOCALE_DIR='"/opt/user_software/coot/bin-gtk4/share/coot/locale"' -DPKGPYTHONDIR='"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/coot"' -DPYTHONDIR='"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages"' -DXDATADIR='"/opt/user_software/coot/bin-gtk4/share"' -DCOOT_SYS_BUILD_TYPE='"Linux-x86_64-ubuntu-22.04.4-gtk4"' -DCOOT_BUILD_INFO_STRING='"build-host: gtxr1.srv-local.mpi-dortmund.mpg.de on: Mi 20 Mär 1759.36 CET 2024"' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/opt/user_software/coot/bin-gtk4/include/python3.11 -DHAVE_GSL -fopenmp -g -O -Wall -Wno-unused -std=c++17 -MT glade-callbacks-shader-settings.o -MD -MP -MF .deps/glade-callbacks-shader-settings.Tpo -c -o glade-callbacks-shader-settings.o ../../coot/src/glade-callbacks-shader-settings.cc g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" -DPACKAGE_STRING=\"coot\ 1.x-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I../../coot/src -DUSE_PYTHON -mfpmath=sse -msse -msse2 -pthread -I/opt/user_software/coot/bin-gtk4/lib/libffi-3.2.1/include -I/usr/include/gtk-4.0 -I/usr/include/gio-unix-2.0 -I/usr/include/cairo -I/usr/include/pango-1.0 -I/usr/include/harfbuzz -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/harfbuzz -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/x86_64-linux-gnu -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/graphene-1.0 -I/usr/lib/x86_64-linux-gnu/graphene-1.0/include -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I../../coot -I/opt/user_software/coot/bin-gtk4/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/opt/user_software/coot/bin-gtk4/include -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -I/opt/user_software/coot/bin-gtk4/include -DHAVE_SSMLIB -I/opt/user_software/coot/bin-gtk4/include -DMMDB_HAS_LINK_DISTANCE -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DCLIPPER_HAS_TOP8000 -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR='"/opt/user_software/coot/bin-gtk4/share/coot"' -DPACKAGE_LOCALE_DIR='"/opt/user_software/coot/bin-gtk4/share/coot/locale"' -DPKGPYTHONDIR='"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/coot"' -DPYTHONDIR='"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages"' -DXDATADIR='"/opt/user_software/coot/bin-gtk4/share"' -DCOOT_SYS_BUILD_TYPE='"Linux-x86_64-ubuntu-22.04.4-gtk4"' -DCOOT_BUILD_INFO_STRING='"build-host: gtxr1.srv-local.mpi-dortmund.mpg.de on: Mi 20 Mär 1759.36 CET 2024"' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/opt/user_software/coot/bin-gtk4/include/python3.11 -DHAVE_GSL -fopenmp -g -O -Wall -Wno-unused -std=c++17 -MT new-startup.o -MD -MP -MF .deps/new-startup.Tpo -c -o new-startup.o ../../coot/src/new-startup.cc g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" -DPACKAGE_STRING=\"coot\ 1.x-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I../../coot/src -DUSE_PYTHON -mfpmath=sse -msse -msse2 -pthread -I/opt/user_software/coot/bin-gtk4/lib/libffi-3.2.1/include -I/usr/include/gtk-4.0 -I/usr/include/gio-unix-2.0 -I/usr/include/cairo -I/usr/include/pango-1.0 -I/usr/include/harfbuzz -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/harfbuzz -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/x86_64-linux-gnu -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/graphene-1.0 -I/usr/lib/x86_64-linux-gnu/graphene-1.0/include -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I../../coot -I/opt/user_software/coot/bin-gtk4/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/opt/user_software/coot/bin-gtk4/include -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -I/opt/user_software/coot/bin-gtk4/include -DHAVE_SSMLIB -I/opt/user_software/coot/bin-gtk4/include -DMMDB_HAS_LINK_DISTANCE -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DCLIPPER_HAS_TOP8000 -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR='"/opt/user_software/coot/bin-gtk4/share/coot"' -DPACKAGE_LOCALE_DIR='"/opt/user_software/coot/bin-gtk4/share/coot/locale"' -DPKGPYTHONDIR='"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/coot"' -DPYTHONDIR='"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages"' -DXDATADIR='"/opt/user_software/coot/bin-gtk4/share"' -DCOOT_SYS_BUILD_TYPE='"Linux-x86_64-ubuntu-22.04.4-gtk4"' -DCOOT_BUILD_INFO_STRING='"build-host: gtxr1.srv-local.mpi-dortmund.mpg.de on: Mi 20 Mär 1759.36 CET 2024"' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/opt/user_software/coot/bin-gtk4/include/python3.11 -DHAVE_GSL -fopenmp -g -O -Wall -Wno-unused -std=c++17 -MT setup-gui-components.o -MD -MP -MF .deps/setup-gui-components.Tpo -c -o setup-gui-components.o ../../coot/src/setup-gui-components.cc g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" -DPACKAGE_STRING=\"coot\ 1.x-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I../../coot/src -DUSE_PYTHON -mfpmath=sse -msse -msse2 -pthread -I/opt/user_software/coot/bin-gtk4/lib/libffi-3.2.1/include -I/usr/include/gtk-4.0 -I/usr/include/gio-unix-2.0 -I/usr/include/cairo -I/usr/include/pango-1.0 -I/usr/include/harfbuzz -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/harfbuzz -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/x86_64-linux-gnu -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/graphene-1.0 -I/usr/lib/x86_64-linux-gnu/graphene-1.0/include -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I../../coot -I/opt/user_software/coot/bin-gtk4/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/opt/user_software/coot/bin-gtk4/include -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -I/opt/user_software/coot/bin-gtk4/include -DHAVE_SSMLIB -I/opt/user_software/coot/bin-gtk4/include -DMMDB_HAS_LINK_DISTANCE -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DCLIPPER_HAS_TOP8000 -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR='"/opt/user_software/coot/bin-gtk4/share/coot"' -DPACKAGE_LOCALE_DIR='"/opt/user_software/coot/bin-gtk4/share/coot/locale"' -DPKGPYTHONDIR='"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/coot"' -DPYTHONDIR='"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages"' -DXDATADIR='"/opt/user_software/coot/bin-gtk4/share"' -DCOOT_SYS_BUILD_TYPE='"Linux-x86_64-ubuntu-22.04.4-gtk4"' -DCOOT_BUILD_INFO_STRING='"build-host: gtxr1.srv-local.mpi-dortmund.mpg.de on: Mi 20 Mär 1759.36 CET 2024"' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/opt/user_software/coot/bin-gtk4/include/python3.11 -DHAVE_GSL -fopenmp -g -O -Wall -Wno-unused -std=c++17 -MT create-menu-item-actions.o -MD -MP -MF .deps/create-menu-item-actions.Tpo -c -o create-menu-item-actions.o ../../coot/src/create-menu-item-actions.cc In file included from ../../coot/MoleculesToTriangles/CXXClasses/RendererGLSL.hpp:31, from ../../coot/src/graphics-info.h:53, from ../../coot/src/create-menu-item-actions.cc:6: ../../coot/MoleculesToTriangles/CXXClasses/RendererGL.h:61: warning: ignoring ‘#pragma mark ’ [-Wunknown-pragmas] 61 | #pragma mark - | ../../coot/MoleculesToTriangles/CXXClasses/RendererGL.h:62: warning: ignoring ‘#pragma mark Debug’ [-Wunknown-pragmas] 62 | #pragma mark Debug routine | In file included from ../../coot/MoleculesToTriangles/CXXClasses/RendererGLSL.hpp:31, from ../../coot/src/graphics-info.h:53, from ../../coot/src/main.cc:81: ../../coot/MoleculesToTriangles/CXXClasses/RendererGL.h:61: warning: ignoring ‘#pragma mark ’ [-Wunknown-pragmas] 61 | #pragma mark - | ../../coot/MoleculesToTriangles/CXXClasses/RendererGL.h:62: warning: ignoring ‘#pragma mark Debug’ [-Wunknown-pragmas] 62 | #pragma mark Debug routine | In file included from ../../coot/MoleculesToTriangles/CXXClasses/RendererGLSL.hpp:31, from ../../coot/src/graphics-info.h:53, from ../../coot/src/setup-gui-components.cc:3: ../../coot/MoleculesToTriangles/CXXClasses/RendererGL.h:61: warning: ignoring ‘#pragma mark ’ [-Wunknown-pragmas] 61 | #pragma mark - | ../../coot/MoleculesToTriangles/CXXClasses/RendererGL.h:62: warning: ignoring ‘#pragma mark Debug’ [-Wunknown-pragmas] 62 | #pragma mark Debug routine | In file included from ../../coot/MoleculesToTriangles/CXXClasses/RendererGLSL.hpp:31, from ../../coot/src/graphics-info.h:53, from ../../coot/src/new-startup.cc:7: ../../coot/MoleculesToTriangles/CXXClasses/RendererGL.h:61: warning: ignoring ‘#pragma mark ’ [-Wunknown-pragmas] 61 | #pragma mark - | ../../coot/MoleculesToTriangles/CXXClasses/RendererGL.h:62: warning: ignoring ‘#pragma mark Debug’ [-Wunknown-pragmas] 62 | #pragma mark Debug routine | In file included from ../../coot/MoleculesToTriangles/CXXClasses/RendererGLSL.hpp:31, from ../../coot/src/graphics-info.h:53, from ../../coot/src/glade-callbacks-main-window.cc:57: ../../coot/MoleculesToTriangles/CXXClasses/RendererGL.h:61: warning: ignoring ‘#pragma mark ’ [-Wunknown-pragmas] 61 | #pragma mark - | ../../coot/MoleculesToTriangles/CXXClasses/RendererGL.h:62: warning: ignoring ‘#pragma mark Debug’ [-Wunknown-pragmas] 62 | #pragma mark Debug routine | In file included from ../../coot/MoleculesToTriangles/CXXClasses/RendererGLSL.hpp:31, from ../../coot/src/graphics-info.h:53, from ../../coot/src/glade-callbacks.cc:53: ../../coot/MoleculesToTriangles/CXXClasses/RendererGL.h:61: warning: ignoring ‘#pragma mark ’ [-Wunknown-pragmas] 61 | #pragma mark - | ../../coot/MoleculesToTriangles/CXXClasses/RendererGL.h:62: warning: ignoring ‘#pragma mark Debug’ [-Wunknown-pragmas] 62 | #pragma mark Debug routine | mv -f .deps/glade-callbacks-preferences.Tpo .deps/glade-callbacks-preferences.Po g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" -DPACKAGE_STRING=\"coot\ 1.x-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I../../coot/src -DUSE_PYTHON -mfpmath=sse -msse -msse2 -pthread -I/opt/user_software/coot/bin-gtk4/lib/libffi-3.2.1/include -I/usr/include/gtk-4.0 -I/usr/include/gio-unix-2.0 -I/usr/include/cairo -I/usr/include/pango-1.0 -I/usr/include/harfbuzz -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/harfbuzz -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/x86_64-linux-gnu -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/graphene-1.0 -I/usr/lib/x86_64-linux-gnu/graphene-1.0/include -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I../../coot -I/opt/user_software/coot/bin-gtk4/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/opt/user_software/coot/bin-gtk4/include -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -I/opt/user_software/coot/bin-gtk4/include -DHAVE_SSMLIB -I/opt/user_software/coot/bin-gtk4/include -DMMDB_HAS_LINK_DISTANCE -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DCLIPPER_HAS_TOP8000 -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR='"/opt/user_software/coot/bin-gtk4/share/coot"' -DPACKAGE_LOCALE_DIR='"/opt/user_software/coot/bin-gtk4/share/coot/locale"' -DPKGPYTHONDIR='"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/coot"' -DPYTHONDIR='"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages"' -DXDATADIR='"/opt/user_software/coot/bin-gtk4/share"' -DCOOT_SYS_BUILD_TYPE='"Linux-x86_64-ubuntu-22.04.4-gtk4"' -DCOOT_BUILD_INFO_STRING='"build-host: gtxr1.srv-local.mpi-dortmund.mpg.de on: Mi 20 Mär 1759.36 CET 2024"' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/opt/user_software/coot/bin-gtk4/include/python3.11 -DHAVE_GSL -fopenmp -g -O -Wall -Wno-unused -std=c++17 -MT density-score-by-residue-src.o -MD -MP -MF .deps/density-score-by-residue-src.Tpo -c -o density-score-by-residue-src.o ../../coot/src/density-score-by-residue-src.cc mv -f .deps/density-score-by-residue-src.Tpo .deps/density-score-by-residue-src.Po /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" -DPACKAGE_STRING=\"coot\ 1.x-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I../../coot/src -DUSE_PYTHON -mfpmath=sse -msse -msse2 -pthread -I/opt/user_software/coot/bin-gtk4/lib/libffi-3.2.1/include -I/usr/include/gtk-4.0 -I/usr/include/gio-unix-2.0 -I/usr/include/cairo -I/usr/include/pango-1.0 -I/usr/include/harfbuzz -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/harfbuzz -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/x86_64-linux-gnu -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/graphene-1.0 -I/usr/lib/x86_64-linux-gnu/graphene-1.0/include -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I../../coot -I/opt/user_software/coot/bin-gtk4/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/opt/user_software/coot/bin-gtk4/include -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -I/opt/user_software/coot/bin-gtk4/include -DHAVE_SSMLIB -I/opt/user_software/coot/bin-gtk4/include -DMMDB_HAS_LINK_DISTANCE -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DCLIPPER_HAS_TOP8000 -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR='"/opt/user_software/coot/bin-gtk4/share/coot"' -DPACKAGE_LOCALE_DIR='"/opt/user_software/coot/bin-gtk4/share/coot/locale"' -DPKGPYTHONDIR='"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/coot"' -DPYTHONDIR='"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages"' -DXDATADIR='"/opt/user_software/coot/bin-gtk4/share"' -DCOOT_SYS_BUILD_TYPE='"Linux-x86_64-ubuntu-22.04.4-gtk4"' -DCOOT_BUILD_INFO_STRING='"build-host: gtxr1.srv-local.mpi-dortmund.mpg.de on: Mi 20 Mär 1759.36 CET 2024"' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/opt/user_software/coot/bin-gtk4/include/python3.11 -DHAVE_GSL -fopenmp -g -O -Wall -Wno-unused -std=c++17 -MT coot.lo -MD -MP -MF .deps/coot.Tpo -c -o coot.lo ../../coot/src/coot.cc mv -f .deps/glade-callbacks-shader-settings.Tpo .deps/glade-callbacks-shader-settings.Po swig -o coot_wrap_python_pre.cc -DUSE_MOLECULES_TO_TRIANGLES -DCOOT_USE_GTK2_INTERFACE -DMAKE_ENHANCED_LIGAND_TOOLS -I/opt/user_software/coot/bin-gtk4/include/python3.11 -DUSE_PYTHON -DUSE_LIBCURL -I../../coot/src -I../../coot -shadow -python -c++ ../../coot/src/coot.i libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" "-DPACKAGE_STRING=\"coot 1.x-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I../../coot/src -DUSE_PYTHON -mfpmath=sse -msse -msse2 -pthread -I/opt/user_software/coot/bin-gtk4/lib/libffi-3.2.1/include -I/usr/include/gtk-4.0 -I/usr/include/gio-unix-2.0 -I/usr/include/cairo -I/usr/include/pango-1.0 -I/usr/include/harfbuzz -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/harfbuzz -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/x86_64-linux-gnu -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/graphene-1.0 -I/usr/lib/x86_64-linux-gnu/graphene-1.0/include -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I../../coot -I/opt/user_software/coot/bin-gtk4/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/opt/user_software/coot/bin-gtk4/include -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -I/opt/user_software/coot/bin-gtk4/include -DHAVE_SSMLIB -I/opt/user_software/coot/bin-gtk4/include -DMMDB_HAS_LINK_DISTANCE -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DCLIPPER_HAS_TOP8000 -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR=\"/opt/user_software/coot/bin-gtk4/share/coot\" -DPACKAGE_LOCALE_DIR=\"/opt/user_software/coot/bin-gtk4/share/coot/locale\" -DPKGPYTHONDIR=\"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/coot\" -DPYTHONDIR=\"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages\" -DXDATADIR=\"/opt/user_software/coot/bin-gtk4/share\" -DCOOT_SYS_BUILD_TYPE=\"Linux-x86_64-ubuntu-22.04.4-gtk4\" "-DCOOT_BUILD_INFO_STRING=\"build-host: gtxr1.srv-local.mpi-dortmund.mpg.de on: Mi 20 Mär 1759.36 CET 2024\"" -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/opt/user_software/coot/bin-gtk4/include/python3.11 -DHAVE_GSL -fopenmp -g -O -Wall -Wno-unused -std=c++17 -MT coot.lo -MD -MP -MF .deps/coot.Tpo -c ../../coot/src/coot.cc -fPIC -DPIC -o .libs/coot.o mv -f .deps/coot.Tpo .deps/coot.Plo /bin/bash ../libtool --tag=CXX --mode=link g++ -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR='"/opt/user_software/coot/bin-gtk4/share/coot"' -DPACKAGE_LOCALE_DIR='"/opt/user_software/coot/bin-gtk4/share/coot/locale"' -DPKGPYTHONDIR='"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/coot"' -DPYTHONDIR='"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages"' -DXDATADIR='"/opt/user_software/coot/bin-gtk4/share"' -DCOOT_SYS_BUILD_TYPE='"Linux-x86_64-ubuntu-22.04.4-gtk4"' -DCOOT_BUILD_INFO_STRING='"build-host: gtxr1.srv-local.mpi-dortmund.mpg.de on: Mi 20 Mär 1759.36 CET 2024"' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/opt/user_software/coot/bin-gtk4/include/python3.11 -DHAVE_GSL -fopenmp -g -O -Wall -Wno-unused -std=c++17 -o coot-density-score-by-residue-bin density-score-by-residue-src.o libcootsumo.la ../geometry/libcoot-geometry.la ../coot-utils/libcoot-coord-extras.la ../coords/libcoot-coords.la ../mini-mol/libcoot-mini-mol.la ../ligand/libcoot-ligand.la ../analysis/libcoot-analysis.la ../db-main/libcoot-db-main.la ../ideal/libcoot-ideal.la ../ccp4mg-utils/libccp4mg-utils.la ../coot-utils/libcoot-map-utils.la ../coot-utils/libcoot-coord-utils.la ../lidia-core/libcoot-lidia-core.la ../utils/libcoot-utils.la ../cootaneer/libcootaneer.la ../compat/libcoot-compat.la -L/opt/user_software/coot/bin-gtk4/lib -lRDKitMolDraw2D -lRDKitForceFieldHelpers -lRDKitDescriptors -lRDKitForceField -lRDKitSubstructMatch -lRDKitOptimizer -lRDKitDistGeomHelpers -lRDKitDistGeometry -lRDKitChemReactions -lRDKitAlignment -lRDKitEigenSolvers -lRDKitDepictor -lRDKitcoordgen -lRDKitMolChemicalFeatures -lRDKitPartialCharges -lRDKitFileParsers -lRDKitRDGeometryLib -lRDKitGraphMol -lRDKitShapeHelpers -lRDKitFingerprints -lRDKitMolAlign -lRDKitMolTransforms -lRDKitChemTransforms -lRDKitSmilesParse -lRDKitGenericGroups -lRDKitRingDecomposerLib -lRDKitFilterCatalog -lRDKitCatalogs -lRDKitSubgraphs -lRDKitPartialCharges -lRDKitRDGeneral -lRDKitDataStructs -lboost_serialization -lboost_iostreams -L/opt/user_software/coot/bin-gtk4/lib -lclipper-ccp4 -lclipper-cif -lclipper-minimol -lclipper-mmdb -lclipper-cns -lclipper-phs -lclipper-contrib -lclipper-core -lccp4c -lmmdb2 -L/opt/user_software/coot/bin-gtk4/lib -lmmdb2 -L/opt/user_software/coot/bin-gtk4/lib -lgsl -lgslcblas -lm libtool: link: g++ -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR=\"/opt/user_software/coot/bin-gtk4/share/coot\" -DPACKAGE_LOCALE_DIR=\"/opt/user_software/coot/bin-gtk4/share/coot/locale\" -DPKGPYTHONDIR=\"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/coot\" -DPYTHONDIR=\"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages\" -DXDATADIR=\"/opt/user_software/coot/bin-gtk4/share\" -DCOOT_SYS_BUILD_TYPE=\"Linux-x86_64-ubuntu-22.04.4-gtk4\" "-DCOOT_BUILD_INFO_STRING=\"build-host: gtxr1.srv-local.mpi-dortmund.mpg.de on: Mi 20 Mär 1759.36 CET 2024\"" -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/opt/user_software/coot/bin-gtk4/include/python3.11 -DHAVE_GSL -fopenmp -g -O -Wall -Wno-unused -std=c++17 -o .libs/coot-density-score-by-residue-bin density-score-by-residue-src.o ./.libs/libcootsumo.so -L/opt/user_software/coot/bin-gtk4/lib -L=/opt/user_software/coot/bin-gtk4/lib:-L/opt/user_software/coot/bin-gtk4/lib: /opt/user_software/coot/src/build-coot/api/.libs/libcoot-api.so /opt/user_software/coot/src/build-coot/pli/.libs/libcoot-pli.so /opt/user_software/coot/src/build-coot/layla/.libs/libcoot-layla.so /opt/user_software/coot/src/build-coot/ligand/.libs/libcoot-res-tracer.so /opt/user_software/coot/src/build-coot/validation-graphs/.libs/libcoot-validation-graphs.so /opt/user_software/coot/src/build-coot/density-contour/.libs/libcoot-isosurface.so /opt/user_software/coot/src/build-coot/build/.libs/libcoot-cabuild.so /opt/user_software/coot/src/build-coot/skeleton/.libs/libcoot-skeleton.so /opt/user_software/coot/src/build-coot/angles/.libs/libcoot-AngleInfo.so /opt/user_software/coot/src/build-coot/high-res/.libs/libcoot-high-res.so /opt/user_software/coot/src/build-coot/coords/.libs/libcoot-coords.so /opt/user_software/coot/src/build-coot/cootilus/.libs/libcootilus.so /opt/user_software/coot/src/build-coot/MoleculesToTriangles/CXXClasses/.libs/libMoleculesToTrianglesCXXClasses.so /opt/user_software/coot/src/build-coot/MoleculesToTriangles/CXXSurface/.libs/libMoleculesToTrianglesCXXSurface.so -lgtk-4 -lpangocairo-1.0 -lpango-1.0 -lharfbuzz -lgdk_pixbuf-2.0 -lcairo-gobject -lcairo -lgraphene-1.0 -lgio-2.0 -lgobject-2.0 -lglib-2.0 /opt/user_software/coot/bin-gtk4/lib/libssm.so -lpython3.11 -lepoxy -lblas /opt/user_software/coot/bin-gtk4/lib/libcurl.so /opt/user_software/coot/bin-gtk4/lib/libidn2.so -lssl -lcrypto -lbrotlidec -lboost_python311 -lfreetype ../geometry/.libs/libcoot-geometry.so ../coot-utils/.libs/libcoot-coord-extras.so ../coords/.libs/libcoot-coords.so /opt/user_software/coot/src/build-coot/ligand/.libs/libcoot-ligand.so ../mini-mol/.libs/libcoot-mini-mol.so ../ligand/.libs/libcoot-ligand.so /opt/user_software/coot/src/build-coot/ideal/.libs/libcoot-ideal.so /opt/user_software/coot/src/build-coot/cootaneer/.libs/libcootaneer.so /opt/user_software/coot/src/build-coot/db-main/.libs/libcoot-db-main.so /opt/user_software/coot/src/build-coot/ccp4mg-utils/.libs/libccp4mg-utils.so /opt/user_software/coot/src/build-coot/analysis/.libs/libcoot-analysis.so ../analysis/.libs/libcoot-analysis.so ../db-main/.libs/libcoot-db-main.so ../ideal/.libs/libcoot-ideal.so /opt/user_software/coot/src/build-coot/coot-utils/.libs/libcoot-map-heavy.so /opt/user_software/coot/src/build-coot/coot-utils/.libs/libcoot-map-utils.so /opt/user_software/coot/src/build-coot/coot-utils/.libs/libcoot-coord-extras.so ../ccp4mg-utils/.libs/libccp4mg-utils.so -lpng16 ../coot-utils/.libs/libcoot-map-utils.so /opt/user_software/coot/src/build-coot/coot-utils/.libs/libcoot-coord-utils.so -lz ../coot-utils/.libs/libcoot-coord-utils.so /opt/user_software/coot/src/build-coot/lidia-core/.libs/libcoot-lidia-core.so /opt/user_software/coot/src/build-coot/protein_db/.libs/libcoot-protein-db.so ../lidia-core/.libs/libcoot-lidia-core.so /opt/user_software/coot/src/build-coot/geometry/.libs/libcoot-geometry.so /opt/user_software/coot/src/build-coot/compat/.libs/libcoot-compat.so /opt/user_software/coot/src/build-coot/mini-mol/.libs/libcoot-mini-mol.so /opt/user_software/coot/src/build-coot/utils/.libs/libcoot-utils.so ../utils/.libs/libcoot-utils.so ../cootaneer/.libs/libcootaneer.so ../compat/.libs/libcoot-compat.so -lRDKitMolDraw2D -lRDKitForceFieldHelpers -lRDKitDescriptors -lRDKitForceField -lRDKitSubstructMatch -lRDKitOptimizer -lRDKitDistGeomHelpers -lRDKitDistGeometry -lRDKitChemReactions -lRDKitAlignment -lRDKitEigenSolvers -lRDKitDepictor -lRDKitcoordgen -lRDKitMolChemicalFeatures -lRDKitFileParsers -lRDKitRDGeometryLib -lRDKitGraphMol -lRDKitShapeHelpers -lRDKitFingerprints -lRDKitMolAlign -lRDKitMolTransforms -lRDKitChemTransforms -lRDKitSmilesParse -lRDKitGenericGroups -lRDKitRingDecomposerLib -lRDKitFilterCatalog -lRDKitCatalogs -lRDKitSubgraphs -lRDKitPartialCharges -lRDKitRDGeneral -lRDKitDataStructs -lboost_serialization -lboost_iostreams /opt/user_software/coot/bin-gtk4/lib/libclipper-ccp4.so /opt/user_software/coot/bin-gtk4/lib/libclipper-cif.so /opt/user_software/coot/bin-gtk4/lib/libclipper-minimol.so /opt/user_software/coot/bin-gtk4/lib/libclipper-mmdb.so /opt/user_software/coot/bin-gtk4/lib/libclipper-cns.so /opt/user_software/coot/bin-gtk4/lib/libclipper-phs.so /opt/user_software/coot/bin-gtk4/lib/libclipper-contrib.so /opt/user_software/coot/bin-gtk4/lib/libclipper-core.so /opt/user_software/coot/bin-gtk4/lib/librfftw.so /opt/user_software/coot/bin-gtk4/lib/libfftw.so -lpthread /opt/user_software/coot/bin-gtk4/lib/libccp4c.so /opt/user_software/coot/bin-gtk4/lib/libmmdb2.so /opt/user_software/coot/bin-gtk4/lib/libgsl.so /opt/user_software/coot/bin-gtk4/lib/libgslcblas.so -lm -fopenmp -Wl,-rpath -Wl,/opt/user_software/coot/bin-gtk4/lib mv -f .deps/main.Tpo .deps/main.Po mv -f .deps/setup-gui-components.Tpo .deps/setup-gui-components.Po /bin/bash ../../coot/src/post-process-coot-wrap-python.sh gtk2 coot_wrap_python_pre.cc coot_wrap_python.cc /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" -DPACKAGE_STRING=\"coot\ 1.x-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I../../coot/src -DUSE_PYTHON -mfpmath=sse -msse -msse2 -pthread -I/opt/user_software/coot/bin-gtk4/lib/libffi-3.2.1/include -I/usr/include/gtk-4.0 -I/usr/include/gio-unix-2.0 -I/usr/include/cairo -I/usr/include/pango-1.0 -I/usr/include/harfbuzz -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/harfbuzz -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/x86_64-linux-gnu -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/graphene-1.0 -I/usr/lib/x86_64-linux-gnu/graphene-1.0/include -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I../../coot -I/opt/user_software/coot/bin-gtk4/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/opt/user_software/coot/bin-gtk4/include -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -I/opt/user_software/coot/bin-gtk4/include -DHAVE_SSMLIB -I/opt/user_software/coot/bin-gtk4/include -DMMDB_HAS_LINK_DISTANCE -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DCLIPPER_HAS_TOP8000 -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR='"/opt/user_software/coot/bin-gtk4/share/coot"' -DPACKAGE_LOCALE_DIR='"/opt/user_software/coot/bin-gtk4/share/coot/locale"' -DPKGPYTHONDIR='"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/coot"' -DPYTHONDIR='"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages"' -DXDATADIR='"/opt/user_software/coot/bin-gtk4/share"' -DCOOT_SYS_BUILD_TYPE='"Linux-x86_64-ubuntu-22.04.4-gtk4"' -DCOOT_BUILD_INFO_STRING='"build-host: gtxr1.srv-local.mpi-dortmund.mpg.de on: Mi 20 Mär 1759.36 CET 2024"' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/opt/user_software/coot/bin-gtk4/include/python3.11 -DHAVE_GSL -fopenmp -g -O -Wall -Wno-unused -std=c++17 -MT coot_wrap_python.lo -MD -MP -MF .deps/coot_wrap_python.Tpo -c -o coot_wrap_python.lo coot_wrap_python.cc libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.x-pre\" "-DPACKAGE_STRING=\"coot 1.x-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.x-pre\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_PYTHON=\"3.11\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I../../coot/src -DUSE_PYTHON -mfpmath=sse -msse -msse2 -pthread -I/opt/user_software/coot/bin-gtk4/lib/libffi-3.2.1/include -I/usr/include/gtk-4.0 -I/usr/include/gio-unix-2.0 -I/usr/include/cairo -I/usr/include/pango-1.0 -I/usr/include/harfbuzz -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/harfbuzz -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/x86_64-linux-gnu -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/graphene-1.0 -I/usr/lib/x86_64-linux-gnu/graphene-1.0/include -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I../../coot -I/opt/user_software/coot/bin-gtk4/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/opt/user_software/coot/bin-gtk4/include -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -I/opt/user_software/coot/bin-gtk4/include -DHAVE_SSMLIB -I/opt/user_software/coot/bin-gtk4/include -DMMDB_HAS_LINK_DISTANCE -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DCLIPPER_HAS_TOP8000 -I/opt/user_software/coot/bin-gtk4/include -I/opt/user_software/coot/bin-gtk4/include -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR=\"/opt/user_software/coot/bin-gtk4/share/coot\" -DPACKAGE_LOCALE_DIR=\"/opt/user_software/coot/bin-gtk4/share/coot/locale\" -DPKGPYTHONDIR=\"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/coot\" -DPYTHONDIR=\"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages\" -DXDATADIR=\"/opt/user_software/coot/bin-gtk4/share\" -DCOOT_SYS_BUILD_TYPE=\"Linux-x86_64-ubuntu-22.04.4-gtk4\" "-DCOOT_BUILD_INFO_STRING=\"build-host: gtxr1.srv-local.mpi-dortmund.mpg.de on: Mi 20 Mär 1759.36 CET 2024\"" -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/opt/user_software/coot/bin-gtk4/include/python3.11 -DHAVE_GSL -fopenmp -g -O -Wall -Wno-unused -std=c++17 -MT coot_wrap_python.lo -MD -MP -MF .deps/coot_wrap_python.Tpo -c coot_wrap_python.cc -fPIC -DPIC -o .libs/coot_wrap_python.o mv -f .deps/glade-callbacks-main-window.Tpo .deps/glade-callbacks-main-window.Po mv -f .deps/create-menu-item-actions.Tpo .deps/create-menu-item-actions.Po mv -f .deps/glade-callbacks.Tpo .deps/glade-callbacks.Po mv -f .deps/new-startup.Tpo .deps/new-startup.Po /bin/bash ../libtool --tag=CXX --mode=link g++ -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR='"/opt/user_software/coot/bin-gtk4/share/coot"' -DPACKAGE_LOCALE_DIR='"/opt/user_software/coot/bin-gtk4/share/coot/locale"' -DPKGPYTHONDIR='"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/coot"' -DPYTHONDIR='"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages"' -DXDATADIR='"/opt/user_software/coot/bin-gtk4/share"' -DCOOT_SYS_BUILD_TYPE='"Linux-x86_64-ubuntu-22.04.4-gtk4"' -DCOOT_BUILD_INFO_STRING='"build-host: gtxr1.srv-local.mpi-dortmund.mpg.de on: Mi 20 Mär 1759.36 CET 2024"' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/opt/user_software/coot/bin-gtk4/include/python3.11 -DHAVE_GSL -fopenmp -g -O -Wall -Wno-unused -std=c++17 -Wl,--export-dynamic -o coot-bin main.o glade-callbacks.o glade-callbacks-main-window.o glade-callbacks-preferences.o glade-callbacks-shader-settings.o new-startup.o setup-gui-components.o create-menu-item-actions.o libcootsumo.la ../layla/libcoot-layla.la ../coot-utils/libcoot-coord-extras.la ../coot-utils/libcoot-coord-utils.la ../lidia-core/libcoot-lidia-core.la ../geometry/libcoot-geometry.la ../utils/libcoot-utils.la -L/opt/user_software/coot/bin-gtk4/lib -lclipper-ccp4 -lclipper-cif -lclipper-minimol -lclipper-mmdb -lclipper-cns -lclipper-phs -lclipper-contrib -lclipper-core -lccp4c -lmmdb2 -L/opt/user_software/coot/bin-gtk4/lib -lcurl -lgtk-4 -lpangocairo-1.0 -lpango-1.0 -lharfbuzz -lgdk_pixbuf-2.0 -lcairo-gobject -lcairo -lgraphene-1.0 -lgio-2.0 -lgobject-2.0 -lglib-2.0 -lepoxy -L/opt/user_software/coot/bin-gtk4/lib -lpython3.11 libtool: link: g++ -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR=\"/opt/user_software/coot/bin-gtk4/share/coot\" -DPACKAGE_LOCALE_DIR=\"/opt/user_software/coot/bin-gtk4/share/coot/locale\" -DPKGPYTHONDIR=\"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/coot\" -DPYTHONDIR=\"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages\" -DXDATADIR=\"/opt/user_software/coot/bin-gtk4/share\" -DCOOT_SYS_BUILD_TYPE=\"Linux-x86_64-ubuntu-22.04.4-gtk4\" "-DCOOT_BUILD_INFO_STRING=\"build-host: gtxr1.srv-local.mpi-dortmund.mpg.de on: Mi 20 Mär 1759.36 CET 2024\"" -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/opt/user_software/coot/bin-gtk4/include/python3.11 -DHAVE_GSL -fopenmp -g -O -Wall -Wno-unused -std=c++17 -Wl,--export-dynamic -o .libs/coot-bin main.o glade-callbacks.o glade-callbacks-main-window.o glade-callbacks-preferences.o glade-callbacks-shader-settings.o new-startup.o setup-gui-components.o create-menu-item-actions.o ./.libs/libcootsumo.so -L/opt/user_software/coot/bin-gtk4/lib -L=/opt/user_software/coot/bin-gtk4/lib:-L/opt/user_software/coot/bin-gtk4/lib: /opt/user_software/coot/src/build-coot/api/.libs/libcoot-api.so /opt/user_software/coot/src/build-coot/pli/.libs/libcoot-pli.so /opt/user_software/coot/src/build-coot/layla/.libs/libcoot-layla.so /opt/user_software/coot/src/build-coot/ligand/.libs/libcoot-res-tracer.so /opt/user_software/coot/src/build-coot/validation-graphs/.libs/libcoot-validation-graphs.so /opt/user_software/coot/src/build-coot/density-contour/.libs/libcoot-isosurface.so /opt/user_software/coot/src/build-coot/build/.libs/libcoot-cabuild.so /opt/user_software/coot/src/build-coot/skeleton/.libs/libcoot-skeleton.so /opt/user_software/coot/src/build-coot/angles/.libs/libcoot-AngleInfo.so /opt/user_software/coot/src/build-coot/high-res/.libs/libcoot-high-res.so /opt/user_software/coot/src/build-coot/coords/.libs/libcoot-coords.so /opt/user_software/coot/src/build-coot/ligand/.libs/libcoot-ligand.so /opt/user_software/coot/src/build-coot/ideal/.libs/libcoot-ideal.so /opt/user_software/coot/src/build-coot/db-main/.libs/libcoot-db-main.so /opt/user_software/coot/src/build-coot/ccp4mg-utils/.libs/libccp4mg-utils.so -lpng16 /opt/user_software/coot/src/build-coot/coot-utils/.libs/libcoot-map-heavy.so /opt/user_software/coot/src/build-coot/coot-utils/.libs/libcoot-coord-extras.so /opt/user_software/coot/src/build-coot/analysis/.libs/libcoot-analysis.so /opt/user_software/coot/src/build-coot/coot-utils/.libs/libcoot-map-utils.so /opt/user_software/coot/src/build-coot/cootilus/.libs/libcootilus.so /opt/user_software/coot/src/build-coot/cootaneer/.libs/libcootaneer.so /opt/user_software/coot/src/build-coot/MoleculesToTriangles/CXXClasses/.libs/libMoleculesToTrianglesCXXClasses.so /opt/user_software/coot/src/build-coot/MoleculesToTriangles/CXXSurface/.libs/libMoleculesToTrianglesCXXSurface.so /opt/user_software/coot/bin-gtk4/lib/libssm.so -lblas -lboost_python311 -lfreetype ../layla/.libs/libcoot-layla.so ../coot-utils/.libs/libcoot-coord-extras.so /opt/user_software/coot/src/build-coot/coot-utils/.libs/libcoot-coord-utils.so ../coot-utils/.libs/libcoot-coord-utils.so /opt/user_software/coot/src/build-coot/lidia-core/.libs/libcoot-lidia-core.so /opt/user_software/coot/src/build-coot/protein_db/.libs/libcoot-protein-db.so /opt/user_software/coot/bin-gtk4/lib/libgsl.so /opt/user_software/coot/bin-gtk4/lib/libgslcblas.so ../lidia-core/.libs/libcoot-lidia-core.so /opt/user_software/coot/src/build-coot/geometry/.libs/libcoot-geometry.so -lRDKitMolDraw2D -lRDKitForceFieldHelpers -lRDKitDescriptors -lRDKitForceField -lRDKitSubstructMatch -lRDKitOptimizer -lRDKitDistGeomHelpers -lRDKitDistGeometry -lRDKitChemReactions -lRDKitAlignment -lRDKitEigenSolvers -lRDKitDepictor -lRDKitcoordgen -lRDKitMolChemicalFeatures -lRDKitFileParsers -lRDKitRDGeometryLib -lRDKitGraphMol -lRDKitShapeHelpers -lRDKitFingerprints -lRDKitMolAlign -lRDKitMolTransforms -lRDKitChemTransforms -lRDKitSmilesParse -lRDKitGenericGroups -lRDKitRingDecomposerLib -lRDKitFilterCatalog -lRDKitCatalogs -lRDKitSubgraphs -lRDKitPartialCharges -lRDKitRDGeneral -lRDKitDataStructs -lboost_serialization -lboost_iostreams ../geometry/.libs/libcoot-geometry.so /opt/user_software/coot/src/build-coot/mini-mol/.libs/libcoot-mini-mol.so /opt/user_software/coot/src/build-coot/utils/.libs/libcoot-utils.so /opt/user_software/coot/src/build-coot/compat/.libs/libcoot-compat.so ../utils/.libs/libcoot-utils.so /opt/user_software/coot/bin-gtk4/lib/libclipper-ccp4.so /opt/user_software/coot/bin-gtk4/lib/libclipper-cif.so /opt/user_software/coot/bin-gtk4/lib/libclipper-minimol.so /opt/user_software/coot/bin-gtk4/lib/libclipper-mmdb.so /opt/user_software/coot/bin-gtk4/lib/libclipper-cns.so /opt/user_software/coot/bin-gtk4/lib/libclipper-phs.so /opt/user_software/coot/bin-gtk4/lib/libclipper-contrib.so /opt/user_software/coot/bin-gtk4/lib/libclipper-core.so /opt/user_software/coot/bin-gtk4/lib/librfftw.so /opt/user_software/coot/bin-gtk4/lib/libfftw.so -lm -lpthread /opt/user_software/coot/bin-gtk4/lib/libccp4c.so /opt/user_software/coot/bin-gtk4/lib/libmmdb2.so /opt/user_software/coot/bin-gtk4/lib/libcurl.so /opt/user_software/coot/bin-gtk4/lib/libidn2.so -lssl -lcrypto -lbrotlidec -lz -lgtk-4 -lpangocairo-1.0 -lpango-1.0 -lharfbuzz -lgdk_pixbuf-2.0 -lcairo-gobject -lcairo -lgraphene-1.0 -lgio-2.0 -lgobject-2.0 -lglib-2.0 -lepoxy -lpython3.11 -fopenmp -Wl,-rpath -Wl,/opt/user_software/coot/bin-gtk4/lib mv -f .deps/coot_wrap_python.Tpo .deps/coot_wrap_python.Plo /bin/bash ../libtool --tag=CXX --mode=link g++ -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR='"/opt/user_software/coot/bin-gtk4/share/coot"' -DPACKAGE_LOCALE_DIR='"/opt/user_software/coot/bin-gtk4/share/coot/locale"' -DPKGPYTHONDIR='"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/coot"' -DPYTHONDIR='"/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages"' -DXDATADIR='"/opt/user_software/coot/bin-gtk4/share"' -DCOOT_SYS_BUILD_TYPE='"Linux-x86_64-ubuntu-22.04.4-gtk4"' -DCOOT_BUILD_INFO_STRING='"build-host: gtxr1.srv-local.mpi-dortmund.mpg.de on: Mi 20 Mär 1759.36 CET 2024"' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/opt/user_software/coot/bin-gtk4/include/python3.11 -DHAVE_GSL -fopenmp -g -O -Wall -Wno-unused -std=c++17 -module --no-undefined libcootsumo.la ../coot-utils/libcoot-coord-utils.la ../coords/libcoot-coords.la ../geometry/libcoot-geometry.la ../pli/libcoot-pli.la ../lidia-core/libcoot-lidia-core.la ../utils/libcoot-utils.la -L/opt/user_software/coot/bin-gtk4/lib -lpython3.11 -L/opt/user_software/coot/bin-gtk4/lib -lclipper-ccp4 -lclipper-cif -lclipper-minimol -lclipper-mmdb -lclipper-cns -lclipper-phs -lclipper-contrib -lclipper-core -lccp4c -lmmdb2 -o _coot.la -rpath /opt/user_software/coot/bin-gtk4/lib/python3.11/site-packages coot.lo coot_wrap_python.lo libtool: link: g++ -fPIC -DPIC -shared -nostdlib /usr/lib/gcc/x86_64-linux-gnu/11/../../../x86_64-linux-gnu/crti.o /usr/lib/gcc/x86_64-linux-gnu/11/crtbeginS.o .libs/coot.o .libs/coot_wrap_python.o -Wl,-rpath -Wl,/opt/user_software/coot/src/build-coot/src/.libs -Wl,-rpath -Wl,/opt/user_software/coot/src/build-coot/api/.libs -Wl,-rpath -Wl,/opt/user_software/coot/src/build-coot/pli/.libs -Wl,-rpath -Wl,/opt/user_software/coot/src/build-coot/layla/.libs -Wl,-rpath -Wl,/opt/user_software/coot/src/build-coot/ligand/.libs -Wl,-rpath -Wl,/opt/user_software/coot/src/build-coot/validation-graphs/.libs -Wl,-rpath -Wl,/opt/user_software/coot/src/build-coot/density-contour/.libs -Wl,-rpath -Wl,/opt/user_software/coot/src/build-coot/build/.libs -Wl,-rpath -Wl,/opt/user_software/coot/src/build-coot/skeleton/.libs -Wl,-rpath -Wl,/opt/user_software/coot/src/build-coot/angles/.libs -Wl,-rpath -Wl,/opt/user_software/coot/src/build-coot/high-res/.libs -Wl,-rpath -Wl,/opt/user_software/coot/src/build-coot/coords/.libs -Wl,-rpath -Wl,/opt/user_software/coot/src/build-coot/cootilus/.libs -Wl,-rpath -Wl,/opt/user_software/coot/src/build-coot/MoleculesToTriangles/CXXClasses/.libs -Wl,-rpath -Wl,/opt/user_software/coot/src/build-coot/MoleculesToTriangles/CXXSurface/.libs -Wl,-rpath -Wl,/opt/user_software/coot/bin-gtk4/lib -Wl,-rpath -Wl,/opt/user_software/coot/src/build-coot/coot-utils/.libs -Wl,-rpath -Wl,/opt/user_software/coot/src/build-coot/ideal/.libs -Wl,-rpath -Wl,/opt/user_software/coot/src/build-coot/db-main/.libs -Wl,-rpath -Wl,/opt/user_software/coot/src/build-coot/ccp4mg-utils/.libs -Wl,-rpath -Wl,/opt/user_software/coot/src/build-coot/analysis/.libs -Wl,-rpath -Wl,/opt/user_software/coot/src/build-coot/cootaneer/.libs -Wl,-rpath -Wl,/opt/user_software/coot/src/build-coot/geometry/.libs -Wl,-rpath -Wl,/opt/user_software/coot/src/build-coot/protein_db/.libs -Wl,-rpath -Wl,/opt/user_software/coot/src/build-coot/lidia-core/.libs -Wl,-rpath -Wl,/opt/user_software/coot/src/build-coot/compat/.libs -Wl,-rpath -Wl,/opt/user_software/coot/src/build-coot/mini-mol/.libs -Wl,-rpath -Wl,/opt/user_software/coot/src/build-coot/utils/.libs -Wl,-rpath -Wl,/opt/user_software/coot/bin-gtk4/lib -L/opt/user_software/coot/src/build-coot/api/.libs -L/opt/user_software/coot/src/build-coot/pli/.libs -L/opt/user_software/coot/src/build-coot/layla/.libs -L/opt/user_software/coot/src/build-coot/ligand/.libs -L/opt/user_software/coot/src/build-coot/validation-graphs/.libs -L/opt/user_software/coot/src/build-coot/density-contour/.libs -L/opt/user_software/coot/src/build-coot/build/.libs -L/opt/user_software/coot/src/build-coot/skeleton/.libs -L/opt/user_software/coot/src/build-coot/angles/.libs -L/opt/user_software/coot/src/build-coot/high-res/.libs -L/opt/user_software/coot/src/build-coot/coords/.libs -L/opt/user_software/coot/src/build-coot/cootilus/.libs -L/opt/user_software/coot/src/build-coot/MoleculesToTriangles/CXXClasses/.libs -L/opt/user_software/coot/src/build-coot/MoleculesToTriangles/CXXSurface/.libs -L/opt/user_software/coot/src/build-coot/coot-utils/.libs -L/opt/user_software/coot/src/build-coot/ideal/.libs -L/opt/user_software/coot/src/build-coot/db-main/.libs -L/opt/user_software/coot/src/build-coot/ccp4mg-utils/.libs -L/opt/user_software/coot/src/build-coot/analysis/.libs -L/opt/user_software/coot/src/build-coot/cootaneer/.libs -L/opt/user_software/coot/src/build-coot/geometry/.libs -L/opt/user_software/coot/src/build-coot/protein_db/.libs -L/opt/user_software/coot/src/build-coot/lidia-core/.libs -L/opt/user_software/coot/src/build-coot/compat/.libs -L/opt/user_software/coot/src/build-coot/mini-mol/.libs -L/opt/user_software/coot/src/build-coot/utils/.libs ./.libs/libcootsumo.so -L/opt/user_software/coot/bin-gtk4/lib -L=/opt/user_software/coot/bin-gtk4/lib:-L/opt/user_software/coot/bin-gtk4/lib: /opt/user_software/coot/src/build-coot/api/.libs/libcoot-api.so /opt/user_software/coot/src/build-coot/pli/.libs/libcoot-pli.so /opt/user_software/coot/src/build-coot/layla/.libs/libcoot-layla.so /opt/user_software/coot/src/build-coot/ligand/.libs/libcoot-res-tracer.so /opt/user_software/coot/src/build-coot/validation-graphs/.libs/libcoot-validation-graphs.so /opt/user_software/coot/src/build-coot/density-contour/.libs/libcoot-isosurface.so /opt/user_software/coot/src/build-coot/build/.libs/libcoot-cabuild.so /opt/user_software/coot/src/build-coot/skeleton/.libs/libcoot-skeleton.so /opt/user_software/coot/src/build-coot/angles/.libs/libcoot-AngleInfo.so /opt/user_software/coot/src/build-coot/high-res/.libs/libcoot-high-res.so /opt/user_software/coot/src/build-coot/coords/.libs/libcoot-coords.so /opt/user_software/coot/src/build-coot/cootilus/.libs/libcootilus.so /opt/user_software/coot/src/build-coot/MoleculesToTriangles/CXXClasses/.libs/libMoleculesToTrianglesCXXClasses.so /opt/user_software/coot/src/build-coot/MoleculesToTriangles/CXXSurface/.libs/libMoleculesToTrianglesCXXSurface.so -lgtk-4 -lpangocairo-1.0 -lpango-1.0 -lharfbuzz -lgdk_pixbuf-2.0 -lcairo-gobject -lcairo -lgraphene-1.0 -lgio-2.0 -lgobject-2.0 -lglib-2.0 /opt/user_software/coot/bin-gtk4/lib/libssm.so -lepoxy -lblas /opt/user_software/coot/bin-gtk4/lib/libcurl.so /opt/user_software/coot/bin-gtk4/lib/libidn2.so -lssl -lcrypto -lbrotlidec -lboost_python311 -lfreetype ../coot-utils/.libs/libcoot-coord-utils.so ../coords/.libs/libcoot-coords.so /opt/user_software/coot/src/build-coot/ligand/.libs/libcoot-ligand.so /opt/user_software/coot/src/build-coot/ideal/.libs/libcoot-ideal.so /opt/user_software/coot/src/build-coot/coot-utils/.libs/libcoot-map-heavy.so /opt/user_software/coot/src/build-coot/db-main/.libs/libcoot-db-main.so /opt/user_software/coot/src/build-coot/ccp4mg-utils/.libs/libccp4mg-utils.so -lpng16 /opt/user_software/coot/src/build-coot/analysis/.libs/libcoot-analysis.so /opt/user_software/coot/src/build-coot/coot-utils/.libs/libcoot-map-utils.so -lz /opt/user_software/coot/src/build-coot/coot-utils/.libs/libcoot-coord-extras.so /opt/user_software/coot/src/build-coot/cootaneer/.libs/libcootaneer.so ../geometry/.libs/libcoot-geometry.so ../pli/.libs/libcoot-pli.so /opt/user_software/coot/src/build-coot/coot-utils/.libs/libcoot-coord-utils.so /opt/user_software/coot/src/build-coot/protein_db/.libs/libcoot-protein-db.so /opt/user_software/coot/bin-gtk4/lib/libgsl.so /opt/user_software/coot/bin-gtk4/lib/libgslcblas.so /opt/user_software/coot/src/build-coot/lidia-core/.libs/libcoot-lidia-core.so ../lidia-core/.libs/libcoot-lidia-core.so /opt/user_software/coot/src/build-coot/geometry/.libs/libcoot-geometry.so /opt/user_software/coot/src/build-coot/compat/.libs/libcoot-compat.so /opt/user_software/coot/src/build-coot/mini-mol/.libs/libcoot-mini-mol.so /opt/user_software/coot/src/build-coot/utils/.libs/libcoot-utils.so -lRDKitMolDraw2D -lRDKitForceFieldHelpers -lRDKitDescriptors -lRDKitForceField -lRDKitSubstructMatch -lRDKitOptimizer -lRDKitDistGeomHelpers -lRDKitDistGeometry -lRDKitChemReactions -lRDKitAlignment -lRDKitEigenSolvers -lRDKitDepictor -lRDKitcoordgen -lRDKitMolChemicalFeatures -lRDKitFileParsers -lRDKitRDGeometryLib -lRDKitGraphMol -lRDKitShapeHelpers -lRDKitFingerprints -lRDKitMolAlign -lRDKitMolTransforms -lRDKitChemTransforms -lRDKitSmilesParse -lRDKitGenericGroups -lRDKitRingDecomposerLib -lRDKitFilterCatalog -lRDKitCatalogs -lRDKitSubgraphs -lRDKitPartialCharges -lRDKitRDGeneral -lRDKitDataStructs -lboost_serialization -lboost_iostreams ../utils/.libs/libcoot-utils.so -lpython3.11 /opt/user_software/coot/bin-gtk4/lib/libclipper-ccp4.so /opt/user_software/coot/bin-gtk4/lib/libclipper-cif.so /opt/user_software/coot/bin-gtk4/lib/libclipper-minimol.so /opt/user_software/coot/bin-gtk4/lib/libclipper-mmdb.so /opt/user_software/coot/bin-gtk4/lib/libclipper-cns.so /opt/user_software/coot/bin-gtk4/lib/libclipper-phs.so /opt/user_software/coot/bin-gtk4/lib/libclipper-contrib.so /opt/user_software/coot/bin-gtk4/lib/libclipper-core.so /opt/user_software/coot/bin-gtk4/lib/librfftw.so /opt/user_software/coot/bin-gtk4/lib/libfftw.so -lpthread /opt/user_software/coot/bin-gtk4/lib/libccp4c.so /opt/user_software/coot/bin-gtk4/lib/libmmdb2.so -L/usr/lib/gcc/x86_64-linux-gnu/11 -L/usr/lib/gcc/x86_64-linux-gnu/11/../../../x86_64-linux-gnu -L/usr/lib/gcc/x86_64-linux-gnu/11/../../../../lib -L/lib/x86_64-linux-gnu -L/lib/../lib -L/usr/lib/x86_64-linux-gnu -L/usr/lib/../lib -L/usr/lib/gcc/x86_64-linux-gnu/11/../../.. -lstdc++ -lm -lc -lgcc_s /usr/lib/gcc/x86_64-linux-gnu/11/crtendS.o /usr/lib/gcc/x86_64-linux-gnu/11/../../../x86_64-linux-gnu/crtn.o -fopenmp -g -O -fopenmp -Wl,-soname -Wl,_coot.so.0 -o .libs/_coot.so.0.0.0 libtool: link: (cd ".libs" && rm -f "_coot.so.0" && ln -s "_coot.so.0.0.0" "_coot.so.0") libtool: link: (cd ".libs" && rm -f "_coot.so" && ln -s "_coot.so.0.0.0" "_coot.so") libtool: link: ( cd ".libs" && rm -f "_coot.la" && ln -s "../_coot.la" "_coot.la" ) make[2]: Leaving directory '/opt/user_software/coot/src/build-coot/src' make[1]: Leaving directory '/opt/user_software/coot/src/build-coot/src' Making all in ui make[1]: Entering directory '/opt/user_software/coot/src/build-coot/ui' make[1]: Nothing to be done for 'all'. make[1]: Leaving directory '/opt/user_software/coot/src/build-coot/ui' make[1]: Entering directory '/opt/user_software/coot/src/build-coot' make[1]: *** No rule to make target 'colours.def', needed by 'all-am'. Stop. make[1]: Leaving directory '/opt/user_software/coot/src/build-coot' make: *** [Makefile:714: all-recursive] Error 1 === make again === Making all in auxil make[1]: Entering directory '/opt/user_software/coot/src/build-coot/auxil' Making all in catcheck make[2]: Entering directory '/opt/user_software/coot/src/build-coot/auxil/catcheck' make[2]: Nothing to be done for 'all'. make[2]: Leaving directory '/opt/user_software/coot/src/build-coot/auxil/catcheck' Making all in rama make[2]: Entering directory '/opt/user_software/coot/src/build-coot/auxil/rama' make[2]: Nothing to be done for 'all'. make[2]: Leaving directory '/opt/user_software/coot/src/build-coot/auxil/rama' Making all in sec-str make[2]: Entering directory '/opt/user_software/coot/src/build-coot/auxil/sec-str' make[2]: Nothing to be done for 'all'. make[2]: Leaving directory '/opt/user_software/coot/src/build-coot/auxil/sec-str' Making all in strand-analysis make[2]: Entering directory '/opt/user_software/coot/src/build-coot/auxil/strand-analysis' make[2]: Nothing to be done for 'all'. make[2]: Leaving directory '/opt/user_software/coot/src/build-coot/auxil/strand-analysis' Making all in vectors make[2]: Entering directory '/opt/user_software/coot/src/build-coot/auxil/vectors' make[2]: Nothing to be done for 'all'. make[2]: Leaving directory '/opt/user_software/coot/src/build-coot/auxil/vectors' make[2]: Entering directory '/opt/user_software/coot/src/build-coot/auxil' make[2]: Nothing to be done for 'all-am'. make[2]: Leaving directory '/opt/user_software/coot/src/build-coot/auxil' make[1]: Leaving directory '/opt/user_software/coot/src/build-coot/auxil' Making all in scheme make[1]: Entering directory '/opt/user_software/coot/src/build-coot/scheme' make[1]: Nothing to be done for 'all'. make[1]: Leaving directory '/opt/user_software/coot/src/build-coot/scheme' Making all in python make[1]: Entering directory '/opt/user_software/coot/src/build-coot/python' make[1]: Nothing to be done for 'all'. make[1]: Leaving directory '/opt/user_software/coot/src/build-coot/python' Making all in pdb-templates make[1]: Entering directory '/opt/user_software/coot/src/build-coot/pdb-templates' make[1]: Nothing to be done for 'all'. make[1]: Leaving directory '/opt/user_software/coot/src/build-coot/pdb-templates' Making all in macros make[1]: Entering directory '/opt/user_software/coot/src/build-coot/macros' make[1]: Nothing to be done for 'all'. make[1]: Leaving directory '/opt/user_software/coot/src/build-coot/macros' Making all in compat make[1]: Entering directory '/opt/user_software/coot/src/build-coot/compat' make[1]: Nothing to be done for 'all'. make[1]: Leaving directory '/opt/user_software/coot/src/build-coot/compat' Making all in utils make[1]: Entering directory '/opt/user_software/coot/src/build-coot/utils' make[1]: Nothing to be done for 'all'. make[1]: Leaving directory '/opt/user_software/coot/src/build-coot/utils' Making all in protein_db make[1]: Entering directory '/opt/user_software/coot/src/build-coot/protein_db' make[1]: Nothing to be done for 'all'. make[1]: Leaving directory '/opt/user_software/coot/src/build-coot/protein_db' Making all in mini-mol make[1]: Entering directory '/opt/user_software/coot/src/build-coot/mini-mol' make[1]: Nothing to be done for 'all'. make[1]: Leaving directory '/opt/user_software/coot/src/build-coot/mini-mol' Making all in geometry make[1]: Entering directory '/opt/user_software/coot/src/build-coot/geometry' make[1]: Nothing to be done for 'all'. make[1]: Leaving directory '/opt/user_software/coot/src/build-coot/geometry' Making all in lidia-core make[1]: Entering directory '/opt/user_software/coot/src/build-coot/lidia-core' make[1]: Nothing to be done for 'all'. make[1]: Leaving directory '/opt/user_software/coot/src/build-coot/lidia-core' Making all in coot-utils make[1]: Entering directory '/opt/user_software/coot/src/build-coot/coot-utils' make[1]: Nothing to be done for 'all'. make[1]: Leaving directory '/opt/user_software/coot/src/build-coot/coot-utils' Making all in angles make[1]: Entering directory '/opt/user_software/coot/src/build-coot/angles' make[1]: Nothing to be done for 'all'. make[1]: Leaving directory '/opt/user_software/coot/src/build-coot/angles' Making all in ccp4mg-utils make[1]: Entering directory '/opt/user_software/coot/src/build-coot/ccp4mg-utils' make[1]: Nothing to be done for 'all'. make[1]: Leaving directory '/opt/user_software/coot/src/build-coot/ccp4mg-utils' Making all in db-main make[1]: Entering directory '/opt/user_software/coot/src/build-coot/db-main' make[1]: Nothing to be done for 'all'. make[1]: Leaving directory '/opt/user_software/coot/src/build-coot/db-main' Making all in analysis make[1]: Entering directory '/opt/user_software/coot/src/build-coot/analysis' make[1]: Nothing to be done for 'all'. make[1]: Leaving directory '/opt/user_software/coot/src/build-coot/analysis' Making all in cootaneer make[1]: Entering directory '/opt/user_software/coot/src/build-coot/cootaneer' make[1]: Nothing to be done for 'all'. make[1]: Leaving directory '/opt/user_software/coot/src/build-coot/cootaneer' Making all in ideal make[1]: Entering directory '/opt/user_software/coot/src/build-coot/ideal' make[1]: Nothing to be done for 'all'. make[1]: Leaving directory '/opt/user_software/coot/src/build-coot/ideal' Making all in ligand make[1]: Entering directory '/opt/user_software/coot/src/build-coot/ligand' make[1]: Nothing to be done for 'all'. make[1]: Leaving directory '/opt/user_software/coot/src/build-coot/ligand' Making all in coords make[1]: Entering directory '/opt/user_software/coot/src/build-coot/coords' make[1]: Nothing to be done for 'all'. make[1]: Leaving directory '/opt/user_software/coot/src/build-coot/coords' Making all in density-contour make[1]: Entering directory '/opt/user_software/coot/src/build-coot/density-contour' make[1]: Nothing to be done for 'all'. make[1]: Leaving directory '/opt/user_software/coot/src/build-coot/density-contour' Making all in skeleton make[1]: Entering directory '/opt/user_software/coot/src/build-coot/skeleton' make[1]: Nothing to be done for 'all'. make[1]: Leaving directory '/opt/user_software/coot/src/build-coot/skeleton' Making all in high-res make[1]: Entering directory '/opt/user_software/coot/src/build-coot/high-res' make[1]: Nothing to be done for 'all'. make[1]: Leaving directory '/opt/user_software/coot/src/build-coot/high-res' Making all in build make[1]: Entering directory '/opt/user_software/coot/src/build-coot/build' make[1]: Nothing to be done for 'all'. make[1]: Leaving directory '/opt/user_software/coot/src/build-coot/build' Making all in MoleculesToTriangles make[1]: Entering directory '/opt/user_software/coot/src/build-coot/MoleculesToTriangles' Making all in CXXSurface make[2]: Entering directory '/opt/user_software/coot/src/build-coot/MoleculesToTriangles/CXXSurface' make[2]: Nothing to be done for 'all'. make[2]: Leaving directory '/opt/user_software/coot/src/build-coot/MoleculesToTriangles/CXXSurface' Making all in CXXClasses make[2]: Entering directory '/opt/user_software/coot/src/build-coot/MoleculesToTriangles/CXXClasses' make[2]: Nothing to be done for 'all'. make[2]: Leaving directory '/opt/user_software/coot/src/build-coot/MoleculesToTriangles/CXXClasses' make[2]: Entering directory '/opt/user_software/coot/src/build-coot/MoleculesToTriangles' make[2]: Nothing to be done for 'all-am'. make[2]: Leaving directory '/opt/user_software/coot/src/build-coot/MoleculesToTriangles' make[1]: Leaving directory '/opt/user_software/coot/src/build-coot/MoleculesToTriangles' Making all in pli make[1]: Entering directory '/opt/user_software/coot/src/build-coot/pli' make[1]: Nothing to be done for 'all'. make[1]: Leaving directory '/opt/user_software/coot/src/build-coot/pli' Making all in greg-tests make[1]: Entering directory '/opt/user_software/coot/src/build-coot/greg-tests' make[1]: Nothing to be done for 'all'. make[1]: Leaving directory '/opt/user_software/coot/src/build-coot/greg-tests' Making all in python-tests make[1]: Entering directory '/opt/user_software/coot/src/build-coot/python-tests' make[1]: Nothing to be done for 'all'. make[1]: Leaving directory '/opt/user_software/coot/src/build-coot/python-tests' Making all in cootilus make[1]: Entering directory '/opt/user_software/coot/src/build-coot/cootilus' make[1]: Nothing to be done for 'all'. make[1]: Leaving directory '/opt/user_software/coot/src/build-coot/cootilus' Making all in fonts make[1]: Entering directory '/opt/user_software/coot/src/build-coot/fonts' make[1]: Nothing to be done for 'all'. make[1]: Leaving directory '/opt/user_software/coot/src/build-coot/fonts' Making all in pyrogen make[1]: Entering directory '/opt/user_software/coot/src/build-coot/pyrogen' make[1]: Nothing to be done for 'all'. make[1]: Leaving directory '/opt/user_software/coot/src/build-coot/pyrogen' Making all in data make[1]: Entering directory '/opt/user_software/coot/src/build-coot/data' Making all in rama-coeffs make[2]: Entering directory '/opt/user_software/coot/src/build-coot/data/rama-coeffs' make[2]: Nothing to be done for 'all'. make[2]: Leaving directory '/opt/user_software/coot/src/build-coot/data/rama-coeffs' Making all in cho-models make[2]: Entering directory '/opt/user_software/coot/src/build-coot/data/cho-models' make[2]: Nothing to be done for 'all'. make[2]: Leaving directory '/opt/user_software/coot/src/build-coot/data/cho-models' Making all in cho-acedrg make[2]: Entering directory '/opt/user_software/coot/src/build-coot/data/cho-acedrg' make[2]: Nothing to be done for 'all'. make[2]: Leaving directory '/opt/user_software/coot/src/build-coot/data/cho-acedrg' Making all in metal make[2]: Entering directory '/opt/user_software/coot/src/build-coot/data/metal' make[2]: Nothing to be done for 'all'. make[2]: Leaving directory '/opt/user_software/coot/src/build-coot/data/metal' make[2]: Entering directory '/opt/user_software/coot/src/build-coot/data' make[2]: Nothing to be done for 'all-am'. make[2]: Leaving directory '/opt/user_software/coot/src/build-coot/data' make[1]: Leaving directory '/opt/user_software/coot/src/build-coot/data' Making all in man make[1]: Entering directory '/opt/user_software/coot/src/build-coot/man' make[1]: Nothing to be done for 'all'. make[1]: Leaving directory '/opt/user_software/coot/src/build-coot/man' Making all in rama-data make[1]: Entering directory '/opt/user_software/coot/src/build-coot/rama-data' make[1]: Nothing to be done for 'all'. make[1]: Leaving directory '/opt/user_software/coot/src/build-coot/rama-data' Making all in doc make[1]: Entering directory '/opt/user_software/coot/src/build-coot/doc' make[1]: Nothing to be done for 'all'. make[1]: Leaving directory '/opt/user_software/coot/src/build-coot/doc' Making all in glTF make[1]: Entering directory '/opt/user_software/coot/src/build-coot/glTF' make[1]: Nothing to be done for 'all'. make[1]: Leaving directory '/opt/user_software/coot/src/build-coot/glTF' Making all in pixmaps make[1]: Entering directory '/opt/user_software/coot/src/build-coot/pixmaps' Making all in icons make[2]: Entering directory '/opt/user_software/coot/src/build-coot/pixmaps/icons' make[2]: Nothing to be done for 'all'. make[2]: Leaving directory '/opt/user_software/coot/src/build-coot/pixmaps/icons' make[2]: Entering directory '/opt/user_software/coot/src/build-coot/pixmaps' make[2]: Nothing to be done for 'all-am'. make[2]: Leaving directory '/opt/user_software/coot/src/build-coot/pixmaps' make[1]: Leaving directory '/opt/user_software/coot/src/build-coot/pixmaps' Making all in textures make[1]: Entering directory '/opt/user_software/coot/src/build-coot/textures' make[1]: Nothing to be done for 'all'. make[1]: Leaving directory '/opt/user_software/coot/src/build-coot/textures' Making all in sounds make[1]: Entering directory '/opt/user_software/coot/src/build-coot/sounds' make[1]: Nothing to be done for 'all'. make[1]: Leaving directory '/opt/user_software/coot/src/build-coot/sounds' Making all in api make[1]: Entering directory '/opt/user_software/coot/src/build-coot/api' make[1]: Nothing to be done for 'all'. make[1]: Leaving directory '/opt/user_software/coot/src/build-coot/api' Making all in layla make[1]: Entering directory '/opt/user_software/coot/src/build-coot/layla' make[1]: Nothing to be done for 'all'. make[1]: Leaving directory '/opt/user_software/coot/src/build-coot/layla' Making all in validation-graphs make[1]: Entering directory '/opt/user_software/coot/src/build-coot/validation-graphs' make[1]: Nothing to be done for 'all'. make[1]: Leaving directory '/opt/user_software/coot/src/build-coot/validation-graphs' Making all in src make[1]: Entering directory '/opt/user_software/coot/src/build-coot/src' make all-am make[2]: Entering directory '/opt/user_software/coot/src/build-coot/src' make[2]: Nothing to be done for 'all-am'. make[2]: Leaving directory '/opt/user_software/coot/src/build-coot/src' make[1]: Leaving directory '/opt/user_software/coot/src/build-coot/src' Making all in ui make[1]: Entering directory '/opt/user_software/coot/src/build-coot/ui' make[1]: Nothing to be done for 'all'. make[1]: Leaving directory '/opt/user_software/coot/src/build-coot/ui' make[1]: Entering directory '/opt/user_software/coot/src/build-coot' make[1]: *** No rule to make target 'colours.def', needed by 'all-am'. Stop. make[1]: Leaving directory '/opt/user_software/coot/src/build-coot' make: *** [Makefile:714: all-recursive] Error 1 make failed.