diff --git a/Circall_v0.2.0/.DS_Store b/Circall_v1.0.0/.DS_Store similarity index 100% rename from Circall_v0.2.0/.DS_Store rename to Circall_v1.0.0/.DS_Store diff --git a/Circall_v0.2.0/Circall_source.sh b/Circall_v1.0.0/Circall_source.sh similarity index 100% rename from Circall_v0.2.0/Circall_source.sh rename to Circall_v1.0.0/Circall_source.sh diff --git a/Circall_v0.2.0/Data/Circall_depdata_human.RData b/Circall_v1.0.0/Data/Circall_depdata_human.RData similarity index 100% rename from Circall_v0.2.0/Data/Circall_depdata_human.RData rename to Circall_v1.0.0/Data/Circall_depdata_human.RData diff --git a/Circall_v0.2.0/Data/test_read1.fasta.gz b/Circall_v1.0.0/Data/test_read1.fasta.gz similarity index 100% rename from Circall_v0.2.0/Data/test_read1.fasta.gz rename to Circall_v1.0.0/Data/test_read1.fasta.gz diff --git a/Circall_v0.2.0/Data/test_read2.fasta.gz b/Circall_v1.0.0/Data/test_read2.fasta.gz similarity index 100% rename from Circall_v0.2.0/Data/test_read2.fasta.gz rename to Circall_v1.0.0/Data/test_read2.fasta.gz diff --git a/Circall_v0.2.0/R/Circall_functions.R b/Circall_v1.0.0/R/Circall_functions.R similarity index 100% rename from Circall_v0.2.0/R/Circall_functions.R rename to Circall_v1.0.0/R/Circall_functions.R diff --git a/Circall_v0.2.0/R/Circall_simulator.R b/Circall_v1.0.0/R/Circall_simulator.R similarity index 100% rename from Circall_v0.2.0/R/Circall_simulator.R rename to Circall_v1.0.0/R/Circall_simulator.R diff --git a/Circall_v0.2.0/R/buildBSJdb.R b/Circall_v1.0.0/R/buildBSJdb.R similarity index 100% rename from Circall_v0.2.0/R/buildBSJdb.R rename to Circall_v1.0.0/R/buildBSJdb.R diff --git a/Circall_v0.2.0/R/createSqlite.R b/Circall_v1.0.0/R/createSqlite.R similarity index 100% rename from Circall_v0.2.0/R/createSqlite.R rename to Circall_v1.0.0/R/createSqlite.R diff --git a/Circall_v0.2.0/R/doPairEndFiltering.R b/Circall_v1.0.0/R/doPairEndFiltering.R similarity index 100% rename from Circall_v0.2.0/R/doPairEndFiltering.R rename to Circall_v1.0.0/R/doPairEndFiltering.R diff --git a/Circall_v0.2.0/R/doSingleEndFiltering.R b/Circall_v1.0.0/R/doSingleEndFiltering.R similarity index 100% rename from Circall_v0.2.0/R/doSingleEndFiltering.R rename to Circall_v1.0.0/R/doSingleEndFiltering.R diff --git a/Circall_v0.2.0/R/export.R b/Circall_v1.0.0/R/export.R similarity index 100% rename from Circall_v0.2.0/R/export.R rename to Circall_v1.0.0/R/export.R diff --git a/Circall_v0.2.0/R/getFdr.R b/Circall_v1.0.0/R/getFdr.R similarity index 100% rename from Circall_v0.2.0/R/getFdr.R rename to Circall_v1.0.0/R/getFdr.R diff --git a/Circall_v0.2.0/R/getPseudoCircRNAsequence.R b/Circall_v1.0.0/R/getPseudoCircRNAsequence.R similarity index 100% rename from Circall_v0.2.0/R/getPseudoCircRNAsequence.R rename to Circall_v1.0.0/R/getPseudoCircRNAsequence.R diff --git a/Circall_v0.2.0/R/load_packages.R b/Circall_v1.0.0/R/load_packages.R similarity index 100% rename from Circall_v0.2.0/R/load_packages.R rename to Circall_v1.0.0/R/load_packages.R diff --git a/Circall_v0.2.0/config.sh b/Circall_v1.0.0/config.sh similarity index 100% rename from Circall_v0.2.0/config.sh rename to Circall_v1.0.0/config.sh diff --git a/Circall_v0.2.0/include/EmpiricalDistribution.hpp b/Circall_v1.0.0/include/EmpiricalDistribution.hpp similarity index 100% rename from Circall_v0.2.0/include/EmpiricalDistribution.hpp rename to Circall_v1.0.0/include/EmpiricalDistribution.hpp diff --git a/Circall_v0.2.0/include/EquivalenceClassBuilder.hpp b/Circall_v1.0.0/include/EquivalenceClassBuilder.hpp similarity index 100% rename from Circall_v0.2.0/include/EquivalenceClassBuilder.hpp rename to Circall_v1.0.0/include/EquivalenceClassBuilder.hpp diff --git a/Circall_v0.2.0/include/ExportFeq.hpp b/Circall_v1.0.0/include/ExportFeq.hpp similarity index 100% rename from Circall_v0.2.0/include/ExportFeq.hpp rename to Circall_v1.0.0/include/ExportFeq.hpp diff --git a/Circall_v0.2.0/include/ReadExperiment.hpp b/Circall_v1.0.0/include/ReadExperiment.hpp similarity index 100% rename from Circall_v0.2.0/include/ReadExperiment.hpp rename to Circall_v1.0.0/include/ReadExperiment.hpp diff --git a/Circall_v0.2.0/include/SACollectorCircall.hpp b/Circall_v1.0.0/include/SACollectorCircall.hpp similarity index 100% rename from Circall_v0.2.0/include/SACollectorCircall.hpp rename to Circall_v1.0.0/include/SACollectorCircall.hpp diff --git a/Circall_v0.2.0/include/spdlog/details/format.h b/Circall_v1.0.0/include/spdlog/details/format.h similarity index 100% rename from Circall_v0.2.0/include/spdlog/details/format.h rename to Circall_v1.0.0/include/spdlog/details/format.h diff --git a/Circall_v0.2.0/install.sh b/Circall_v1.0.0/install.sh similarity index 100% rename from Circall_v0.2.0/install.sh rename to Circall_v1.0.0/install.sh diff --git a/Circall_v0.2.0/linux/.DS_Store b/Circall_v1.0.0/linux/.DS_Store similarity index 100% rename from Circall_v0.2.0/linux/.DS_Store rename to Circall_v1.0.0/linux/.DS_Store diff --git a/Circall_v0.2.0/linux/bin/Circall_bsj b/Circall_v1.0.0/linux/bin/Circall_bsj similarity index 100% rename from Circall_v0.2.0/linux/bin/Circall_bsj rename to Circall_v1.0.0/linux/bin/Circall_bsj diff --git a/Circall_v0.2.0/linux/bin/Circall_pseudo b/Circall_v1.0.0/linux/bin/Circall_pseudo similarity index 100% rename from Circall_v0.2.0/linux/bin/Circall_pseudo rename to Circall_v1.0.0/linux/bin/Circall_pseudo diff --git a/Circall_v0.2.0/linux/bin/Circall_wt b/Circall_v1.0.0/linux/bin/Circall_wt similarity index 100% rename from Circall_v0.2.0/linux/bin/Circall_wt rename to Circall_v1.0.0/linux/bin/Circall_wt diff --git a/Circall_v0.2.0/linux/bin/TxIndexer b/Circall_v1.0.0/linux/bin/TxIndexer similarity index 100% rename from Circall_v0.2.0/linux/bin/TxIndexer rename to Circall_v1.0.0/linux/bin/TxIndexer diff --git a/Circall_v0.2.0/linux/bin/buildBSJdb.R b/Circall_v1.0.0/linux/bin/buildBSJdb.R similarity index 100% rename from Circall_v0.2.0/linux/bin/buildBSJdb.R rename to Circall_v1.0.0/linux/bin/buildBSJdb.R diff --git a/Circall_v0.2.0/linux/bin/createSqlite.R b/Circall_v1.0.0/linux/bin/createSqlite.R similarity index 100% rename from Circall_v0.2.0/linux/bin/createSqlite.R rename to Circall_v1.0.0/linux/bin/createSqlite.R diff --git a/Circall_v0.2.0/linux/lib/libgcc_s.so.1 b/Circall_v1.0.0/linux/lib/libgcc_s.so.1 similarity index 100% rename from Circall_v0.2.0/linux/lib/libgcc_s.so.1 rename to Circall_v1.0.0/linux/lib/libgcc_s.so.1 diff --git a/Circall_v0.2.0/linux/lib/libgomp.so.1 b/Circall_v1.0.0/linux/lib/libgomp.so.1 similarity index 100% rename from Circall_v0.2.0/linux/lib/libgomp.so.1 rename to Circall_v1.0.0/linux/lib/libgomp.so.1 diff --git a/Circall_v0.2.0/linux/lib/libm.so.6 b/Circall_v1.0.0/linux/lib/libm.so.6 similarity index 100% rename from Circall_v0.2.0/linux/lib/libm.so.6 rename to Circall_v1.0.0/linux/lib/libm.so.6 diff --git a/Circall_v0.2.0/linux/lib/libsailfish_core.a b/Circall_v1.0.0/linux/lib/libsailfish_core.a similarity index 100% rename from Circall_v0.2.0/linux/lib/libsailfish_core.a rename to Circall_v1.0.0/linux/lib/libsailfish_core.a diff --git a/Circall_v0.2.0/linux/lib/libtbb.so b/Circall_v1.0.0/linux/lib/libtbb.so similarity index 100% rename from Circall_v0.2.0/linux/lib/libtbb.so rename to Circall_v1.0.0/linux/lib/libtbb.so diff --git a/Circall_v0.2.0/linux/lib/libtbb.so.2 b/Circall_v1.0.0/linux/lib/libtbb.so.2 similarity index 100% rename from Circall_v0.2.0/linux/lib/libtbb.so.2 rename to Circall_v1.0.0/linux/lib/libtbb.so.2 diff --git a/Circall_v0.2.0/linux/lib/libtbbmalloc.so b/Circall_v1.0.0/linux/lib/libtbbmalloc.so similarity index 100% rename from Circall_v0.2.0/linux/lib/libtbbmalloc.so rename to Circall_v1.0.0/linux/lib/libtbbmalloc.so diff --git a/Circall_v0.2.0/linux/lib/libtbbmalloc.so.2 b/Circall_v1.0.0/linux/lib/libtbbmalloc.so.2 similarity index 100% rename from Circall_v0.2.0/linux/lib/libtbbmalloc.so.2 rename to Circall_v1.0.0/linux/lib/libtbbmalloc.so.2 diff --git a/Circall_v0.2.0/linux/lib/libtbbmalloc_proxy.so b/Circall_v1.0.0/linux/lib/libtbbmalloc_proxy.so similarity index 100% rename from Circall_v0.2.0/linux/lib/libtbbmalloc_proxy.so rename to Circall_v1.0.0/linux/lib/libtbbmalloc_proxy.so diff --git a/Circall_v0.2.0/linux/lib/libtbbmalloc_proxy.so.2 b/Circall_v1.0.0/linux/lib/libtbbmalloc_proxy.so.2 similarity index 100% rename from Circall_v0.2.0/linux/lib/libtbbmalloc_proxy.so.2 rename to Circall_v1.0.0/linux/lib/libtbbmalloc_proxy.so.2 diff --git a/Circall_v0.2.0/src/CMakeLists.txt b/Circall_v1.0.0/src/CMakeLists.txt similarity index 100% rename from Circall_v0.2.0/src/CMakeLists.txt rename to Circall_v1.0.0/src/CMakeLists.txt diff --git a/Circall_v0.2.0/src/Circall_bsj.cpp b/Circall_v1.0.0/src/Circall_bsj.cpp similarity index 100% rename from Circall_v0.2.0/src/Circall_bsj.cpp rename to Circall_v1.0.0/src/Circall_bsj.cpp diff --git a/Circall_v0.2.0/src/Circall_pseudo.cpp b/Circall_v1.0.0/src/Circall_pseudo.cpp similarity index 100% rename from Circall_v0.2.0/src/Circall_pseudo.cpp rename to Circall_v1.0.0/src/Circall_pseudo.cpp diff --git a/Circall_v0.2.0/src/Circall_wt.cpp b/Circall_v1.0.0/src/Circall_wt.cpp similarity index 100% rename from Circall_v0.2.0/src/Circall_wt.cpp rename to Circall_v1.0.0/src/Circall_wt.cpp diff --git a/Circall_v0.2.0/src/EmpiricalDistribution.cpp b/Circall_v1.0.0/src/EmpiricalDistribution.cpp similarity index 100% rename from Circall_v0.2.0/src/EmpiricalDistribution.cpp rename to Circall_v1.0.0/src/EmpiricalDistribution.cpp diff --git a/Circall_v0.2.0/src/ExportFeq.cpp b/Circall_v1.0.0/src/ExportFeq.cpp similarity index 100% rename from Circall_v0.2.0/src/ExportFeq.cpp rename to Circall_v1.0.0/src/ExportFeq.cpp diff --git a/Circall_v0.2.0/src/TxIndexer.cpp b/Circall_v1.0.0/src/TxIndexer.cpp similarity index 100% rename from Circall_v0.2.0/src/TxIndexer.cpp rename to Circall_v1.0.0/src/TxIndexer.cpp diff --git a/Dockerfile b/Dockerfile index c1b8c17..006a6a8 100644 --- a/Dockerfile +++ b/Dockerfile @@ -6,7 +6,7 @@ LABEL authors="Dat T Nguyen" \ ADD environment.yml / -ADD Circall_v0.2.0 /Circall +ADD Circall_v1.0.0 /Circall RUN conda install mamba -n base -c conda-forge -y