diff --git a/NEWS.md b/NEWS.md index 49bdb90f..5de4ea62 100644 --- a/NEWS.md +++ b/NEWS.md @@ -1,3 +1,17 @@ +Release 2.24-r1122 (26 December 2021) +------------------------------------- + +This release improves alignment around long poorly aligned regions. Older +minimap2 may chain through such regions in rare cases which may result in +missing alignments later. The issue has become worse since the the change of +the chaining algorithm in v2.19. v2.23 implements an incomplete remedy. This +release provides a better solution with a X-drop-like heuristic and by enabling +two-bandwidth chaining in the assembly mode. + +(2.24: 26 December 2021, r1122) + + + Release 2.23-r1111 (18 November 2021) ------------------------------------- diff --git a/README.md b/README.md index 6c8a2323..13c49382 100644 --- a/README.md +++ b/README.md @@ -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 the [release page][release] with: ```sh -curl -L https://github.com/lh3/minimap2/releases/download/v2.23/minimap2-2.23_x64-linux.tar.bz2 | tar -jxvf - -./minimap2-2.23_x64-linux/minimap2 +curl -L https://github.com/lh3/minimap2/releases/download/v2.24/minimap2-2.24_x64-linux.tar.bz2 | tar -jxvf - +./minimap2-2.24_x64-linux/minimap2 ``` 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 diff --git a/cookbook.md b/cookbook.md index adaac591..8b3c1053 100644 --- a/cookbook.md +++ b/cookbook.md @@ -31,8 +31,8 @@ To acquire the data used in this cookbook and to install minimap2 and paftools, please follow the command lines below: ```sh # install minimap2 executables -curl -L https://github.com/lh3/minimap2/releases/download/v2.23/minimap2-2.23_x64-linux.tar.bz2 | tar jxf - -cp minimap2-2.23_x64-linux/{minimap2,k8,paftools.js} . # copy executables +curl -L https://github.com/lh3/minimap2/releases/download/v2.24/minimap2-2.24_x64-linux.tar.bz2 | tar jxf - +cp minimap2-2.24_x64-linux/{minimap2,k8,paftools.js} . # copy executables export PATH="$PATH:"`pwd` # put the current directory on PATH # download example datasets curl -L https://github.com/lh3/minimap2/releases/download/v2.10/cookbook-data.tgz | tar zxf - diff --git a/main.c b/main.c index e5ed5424..0be99335 100644 --- a/main.c +++ b/main.c @@ -7,7 +7,7 @@ #include "mmpriv.h" #include "ketopt.h" -#define MM_VERSION "2.23-r1119-dirty" +#define MM_VERSION "2.24-r1122" #ifdef __linux__ #include diff --git a/minimap2.1 b/minimap2.1 index ca4a27b6..a91c9d05 100644 --- a/minimap2.1 +++ b/minimap2.1 @@ -1,4 +1,4 @@ -.TH minimap2 1 "18 December 2021" "minimap2-2.24 (r1121)" "Bioinformatics tools" +.TH minimap2 1 "18 December 2021" "minimap2-2.24 (r1122)" "Bioinformatics tools" .SH NAME .PP minimap2 - mapping and alignment between collections of DNA sequences diff --git a/misc/paftools.js b/misc/paftools.js index 8cca14b5..35b9acb0 100755 --- a/misc/paftools.js +++ b/misc/paftools.js @@ -1,6 +1,6 @@ #!/usr/bin/env k8 -var paftools_version = '2.23-r1111'; +var paftools_version = '2.24-r1122'; /***************************** ***** Library functions ***** diff --git a/python/mappy.pyx b/python/mappy.pyx index 23a4772b..cf476320 100644 --- a/python/mappy.pyx +++ b/python/mappy.pyx @@ -3,7 +3,7 @@ from libc.stdlib cimport free cimport cmappy import sys -__version__ = '2.23' +__version__ = '2.24' cmappy.mm_reset_timer() diff --git a/setup.py b/setup.py index a7760fd7..e6766fa3 100644 --- a/setup.py +++ b/setup.py @@ -23,7 +23,7 @@ def readme(): setup( name = 'mappy', - version = '2.23', + version = '2.24', url = 'https://github.com/lh3/minimap2', description = 'Minimap2 python binding', long_description = readme(),