From c9a82917bd77a5b28a4cf57c86491d768cfff19f Mon Sep 17 00:00:00 2001 From: Christopher Pockrandt Date: Tue, 16 Jun 2020 14:55:14 +0200 Subject: [PATCH] GenMap 1.3.0 release --- CHANGELOG.rst | 15 +++++++++++++++ CMakeLists.txt | 2 +- README.rst | 12 ++++++------ 3 files changed, 22 insertions(+), 7 deletions(-) diff --git a/CHANGELOG.rst b/CHANGELOG.rst index 3aeca28..7da2ffd 100644 --- 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 index 445eab2..c3017f4 100644 --- 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 index bbc96a4..d093367 100644 --- 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 """"""""""""""""""""