diff options
| author | Christian Krause | 2017-05-14 23:03:03 +0200 |
|---|---|---|
| committer | Christian Krause | 2017-05-14 23:03:03 +0200 |
| commit | c6047918401e94573d8a10061277c125473e86f9 (patch) | |
| tree | c3c217ef3125434922c38ecd8ac81bc8ce13eeca | |
| parent | 292712615848a243ff84e54e972cb14252c13fb0 (diff) | |
| download | aur-c6047918401e94573d8a10061277c125473e86f9.tar.gz | |
bcftools-1.4.1-1
| -rw-r--r-- | .SRCINFO | 11 | ||||
| -rw-r--r-- | PKGBUILD | 11 | ||||
| -rw-r--r-- | makefile-system-htslib.patch | 2 |
3 files changed, 15 insertions, 9 deletions
@@ -1,8 +1,8 @@ # Generated by mksrcinfo v8 -# Tue Mar 14 06:32:07 UTC 2017 +# Sun May 14 21:02:41 UTC 2017 pkgbase = bcftools pkgdesc = Reading/writing BCF2/VCF/gVCF files and calling/filtering/summarising SNP and short indel sequence variants - pkgver = 1.4 + pkgver = 1.4.1 pkgrel = 1 url = http://samtools.github.io/bcftools/ arch = i686 @@ -10,10 +10,11 @@ pkgbase = bcftools license = GPL depends = gsl depends = htslib - source = https://github.com/samtools/bcftools/releases/download/1.4/bcftools-1.4.tar.bz2 + optdepends = python2: needed for some scripts + source = https://github.com/samtools/bcftools/releases/download/1.4.1/bcftools-1.4.1.tar.bz2 source = makefile-system-htslib.patch - md5sums = 50ccf0a073bd70e99cdb3c8be830416e - md5sums = baba7d2fc8947c7ec29ff4498637ea85 + md5sums = 103729569ca3e265b13d2fed5775016e + md5sums = 1777e7d3bcfd428de407f62c870904cb pkgname = bcftools @@ -1,13 +1,14 @@ # Maintainer: Christian Krause ("wookietreiber") <christian.krause@mailbox.org> pkgname=bcftools -pkgver=1.4 +pkgver=1.4.1 pkgrel=1 pkgdesc="Reading/writing BCF2/VCF/gVCF files and calling/filtering/summarising SNP and short indel sequence variants" arch=('i686' 'x86_64') url="http://samtools.github.io/bcftools/" license=('GPL') depends=('gsl' 'htslib') +optdepends=('python2: needed for some scripts') source=(https://github.com/samtools/bcftools/releases/download/$pkgver/$pkgname-$pkgver.tar.bz2 makefile-system-htslib.patch) @@ -17,6 +18,10 @@ prepare() { # prevent shipped htslib to be used rm -rf htslib-$pkgver + sed -e 's|#!/usr/bin/env python|#!/usr/bin/env python2|' \ + -e 's|#!/usr/bin/python|#!/usr/bin/env python2|' \ + -i misc/plot-roh.py misc/guess-ploidy.py + # patch Makefile to make it work with a system-provided htslib patch -i $srcdir/makefile-system-htslib.patch } @@ -39,5 +44,5 @@ package() { make prefix=/usr plugindir=/usr/lib/$pkgname USE_GPL=1 DESTDIR=$pkgdir install } -md5sums=('50ccf0a073bd70e99cdb3c8be830416e' - 'baba7d2fc8947c7ec29ff4498637ea85') +md5sums=('103729569ca3e265b13d2fed5775016e' + '1777e7d3bcfd428de407f62c870904cb') diff --git a/makefile-system-htslib.patch b/makefile-system-htslib.patch index 5cebf3c5d3b8..7e98ae5d9f98 100644 --- a/makefile-system-htslib.patch +++ b/makefile-system-htslib.patch @@ -4,7 +4,7 @@ all: $(PROG) $(TEST_PROG) # Adjust $(HTSDIR) to point to your top-level htslib directory --HTSDIR = htslib-1.4 +-HTSDIR = htslib-1.4.1 -include $(HTSDIR)/htslib.mk -include $(HTSDIR)/htslib_static.mk -HTSLIB = $(HTSDIR)/libhts.a |