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Release minimap2-2.26 (r1175)

This commit is contained in:
Heng Li 2023-04-29 12:21:09 -04:00
parent f8d46a7a30
commit e28a55be86
8 changed files with 18 additions and 9 deletions
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9
NEWS.md
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@ -1,3 +1,12 @@
Release 2.26-r1175 (29 April 2023)
----------------------------------
Fixed the broken Python package. This is the only change.
(2.25: 25 April 2023, r1173)
Release 2.25-r1173 (25 April 2023) Release 2.25-r1173 (25 April 2023)
---------------------------------- ----------------------------------

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README.md
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@ -74,8 +74,8 @@ Detailed evaluations are available from the [minimap2 paper][doi] or the
Minimap2 is optimized for x86-64 CPUs. You can acquire precompiled binaries from Minimap2 is optimized for x86-64 CPUs. You can acquire precompiled binaries from
the [release page][release] with: the [release page][release] with:
```sh ```sh
curl -L https://github.com/lh3/minimap2/releases/download/v2.25/minimap2-2.25_x64-linux.tar.bz2 | tar -jxvf - curl -L https://github.com/lh3/minimap2/releases/download/v2.26/minimap2-2.26_x64-linux.tar.bz2 | tar -jxvf -
./minimap2-2.25_x64-linux/minimap2 ./minimap2-2.26_x64-linux/minimap2
``` ```
If you want to compile from the source, you need to have a C compiler, GNU make If you want to compile from the source, you need to have a C compiler, GNU make
and zlib development files installed. Then type `make` in the source code and zlib development files installed. Then type `make` in the source code

4
cookbook.md
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@ -31,8 +31,8 @@ To acquire the data used in this cookbook and to install minimap2 and paftools,
please follow the command lines below: please follow the command lines below:
```sh ```sh
# install minimap2 executables # install minimap2 executables
curl -L https://github.com/lh3/minimap2/releases/download/v2.25/minimap2-2.25_x64-linux.tar.bz2 | tar jxf - curl -L https://github.com/lh3/minimap2/releases/download/v2.26/minimap2-2.26_x64-linux.tar.bz2 | tar jxf -
cp minimap2-2.25_x64-linux/{minimap2,k8,paftools.js} . # copy executables cp minimap2-2.26_x64-linux/{minimap2,k8,paftools.js} . # copy executables
export PATH="$PATH:"`pwd` # put the current directory on PATH export PATH="$PATH:"`pwd` # put the current directory on PATH
# download example datasets # download example datasets
curl -L https://github.com/lh3/minimap2/releases/download/v2.10/cookbook-data.tgz | tar zxf - curl -L https://github.com/lh3/minimap2/releases/download/v2.10/cookbook-data.tgz | tar zxf -

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minimap.h
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#include <stdio.h> #include <stdio.h>
#include <sys/types.h> #include <sys/types.h>
#define MM_VERSION "2.25-r1173" #define MM_VERSION "2.26-r1175"
#define MM_F_NO_DIAG (0x001LL) // no exact diagonal hit #define MM_F_NO_DIAG (0x001LL) // no exact diagonal hit
#define MM_F_NO_DUAL (0x002LL) // skip pairs where query name is lexicographically larger than target name #define MM_F_NO_DUAL (0x002LL) // skip pairs where query name is lexicographically larger than target name

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minimap2.1
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.TH minimap2 1 "25 April 2023" "minimap2-2.25 (r1173)" "Bioinformatics tools" .TH minimap2 1 "29 April 2023" "minimap2-2.26 (r1175)" "Bioinformatics tools"
.SH NAME .SH NAME
.PP .PP
minimap2 - mapping and alignment between collections of DNA sequences minimap2 - mapping and alignment between collections of DNA sequences

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misc/paftools.js
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#!/usr/bin/env k8 #!/usr/bin/env k8
var paftools_version = '2.25-r1173'; var paftools_version = '2.26-r1175';
/***************************** /*****************************
***** Library functions ***** ***** Library functions *****

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python/mappy.pyx
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@ -3,7 +3,7 @@ from libc.stdlib cimport free
cimport cmappy cimport cmappy
import sys import sys
__version__ = '2.25' __version__ = '2.26'
cmappy.mm_reset_timer() cmappy.mm_reset_timer()

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setup.py
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@ -23,7 +23,7 @@ def readme():
setup( setup(
name = 'mappy', name = 'mappy',
version = '2.25', version = '2.26',
url = 'https://github.com/lh3/minimap2', url = 'https://github.com/lh3/minimap2',
description = 'Minimap2 python binding', description = 'Minimap2 python binding',
long_description = readme(), long_description = readme(),