GenMap 1.3.0 release

cpockrandt · Jun 16, 2020 · c9a8291 · c9a8291
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diff --git a/CHANGELOG.rst b/CHANGELOG.rst
@@ -1,6 +1,21 @@
 Changelog
 ^^^^^^^^^
 
+1.3.0 (2020-06-17)
+""""""""""""""""""
+
+Features
+--------
+
+* **Faster and more efficient index creation (libdivsufsort)**, requires about 6n main memory (for fasta files >2GB about 10n main memory). n is the size of the input fasta files. No additional secondary memory is needed (unlike for Skew)
+* slightly smaller indices (about 0.625n - 0.75n less space). Old indices are still compatible with GenMap 1.3.0, but indices built with 1.3.0 are not compatible with older versions of GenMap.
+
+Fixes
+-----
+
+* indexing will search for fasta files recursively (subfolders were not considered before)
+* updated paper information (replaced bioRxiv with OUP Bioinformatics)
+
 1.2.0 (2020-02-21)
 """"""""""""""""""
 

diff --git a/CMakeLists.txt b/CMakeLists.txt
@@ -18,7 +18,7 @@ project (genmap CXX)
 
 # change this after every release
 set (SEQAN_APP_VERSION_MAJOR "1")
-set (SEQAN_APP_VERSION_MINOR "2")
+set (SEQAN_APP_VERSION_MINOR "3")
 set (SEQAN_APP_VERSION_PATCH "0")
 # don't change the following
 set (SEQAN_APP_VERSION "${SEQAN_APP_VERSION_MAJOR}.${SEQAN_APP_VERSION_MINOR}.${SEQAN_APP_VERSION_PATCH}")

diff --git a/README.rst b/README.rst
@@ -77,13 +77,13 @@ To verify whether your CPU supports these instructions sets you can check the ou
 |   :height: 60px                 | `Mac 64 bit optimized`_   | |VERSION| (|BUILD_DATE|) | requires SSE4               |
 +---------------------------------+---------------------------+--------------------------+-----------------------------+
 
-.. _Linux 64 bit: https://github.com/cpockrandt/genmap/releases/download/genmap-v1.2.0/genmap-1.2.0-Linux-x86_64.zip
-.. _Linux 64 bit optimized: https://github.com/cpockrandt/genmap/releases/download/genmap-v1.2.0/genmap-1.2.0-Linux-x86_64-sse4.zip
-.. _Mac 64 bit: https://github.com/cpockrandt/genmap/releases/download/genmap-v1.2.0/genmap-1.2.0-Darwin-x86_64.zip
-.. _Mac 64 bit optimized: https://github.com/cpockrandt/genmap/releases/download/genmap-v1.2.0/genmap-1.2.0-Darwin-x86_64-sse4.zip
+.. _Linux 64 bit: https://github.com/cpockrandt/genmap/releases/download/genmap-v1.3.0/genmap-1.3.0-Linux-x86_64.zip
+.. _Linux 64 bit optimized: https://github.com/cpockrandt/genmap/releases/download/genmap-v1.3.0/genmap-1.3.0-Linux-x86_64-sse4.zip
+.. _Mac 64 bit: https://github.com/cpockrandt/genmap/releases/download/genmap-v1.3.0/genmap-1.3.0-Darwin-x86_64.zip
+.. _Mac 64 bit optimized: https://github.com/cpockrandt/genmap/releases/download/genmap-v1.3.0/genmap-1.3.0-Darwin-x86_64-sse4.zip
 
-.. |VERSION| replace:: 1.2.0
-.. |BUILD_DATE| replace:: 2020-02-21
+.. |VERSION| replace:: 1.3.0
+.. |BUILD_DATE| replace:: 2020-06-17
 
 Building from source
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