diff options
| author | Raphael Kubo da Costa <rakuco@FreeBSD.org> | 2016-02-26 17:07:59 +0000 |
|---|---|---|
| committer | Raphael Kubo da Costa <rakuco@FreeBSD.org> | 2016-02-26 17:07:59 +0000 |
| commit | feaee54d6e02c143f5f3567f8c282b6fc408058b (patch) | |
| tree | 9c455ffefa318620a3e3b235bd7b1c2ac46b80a8 /biology | |
| parent | New port: devel/yaggo. (diff) | |
New port: biology/vcftools.
A set of tools written in Perl and C++ for working with VCF files, such as
those generated by the 1000 Genomes Project.
WWW: https://github.com/vcftools/vcftools
PR: 206926
Submitted by: Jason Bacon <bacon4000@gmail.com>
Notes
Notes:
svn path=/head/; revision=409624
Diffstat (limited to 'biology')
| -rw-r--r-- | biology/Makefile | 1 | ||||
| -rw-r--r-- | biology/vcftools/Makefile | 23 | ||||
| -rw-r--r-- | biology/vcftools/distinfo | 2 | ||||
| -rw-r--r-- | biology/vcftools/pkg-descr | 4 | ||||
| -rw-r--r-- | biology/vcftools/pkg-plist | 29 |
5 files changed, 59 insertions, 0 deletions
diff --git a/biology/Makefile b/biology/Makefile index ecc99f382bfa..c2c7b80c4489 100644 --- a/biology/Makefile +++ b/biology/Makefile @@ -94,6 +94,7 @@ SUBDIR += treepuzzle SUBDIR += treeviewx SUBDIR += ugene + SUBDIR += vcftools SUBDIR += velvet SUBDIR += wise SUBDIR += xmolwt diff --git a/biology/vcftools/Makefile b/biology/vcftools/Makefile new file mode 100644 index 000000000000..ef02fc16c34a --- /dev/null +++ b/biology/vcftools/Makefile @@ -0,0 +1,23 @@ +# Created by: Jason Bacon <bacon4000@gmail.com> +# $FreeBSD$ + +PORTNAME= vcftools +PORTVERSION= 0.1.14 +DISTVERSIONPREFIX= v +CATEGORIES= biology +DISTNAME= ${PORTNAME}_${PORTVERSION} + +MAINTAINER= bacon4000@gmail.com +COMMENT= Tools for working with VCF genomics files + +LICENSE= LGPL3 + +USES= autoreconf gmake perl5 pkgconfig + +GNU_CONFIGURE= yes +# No zlib.pc on 9.x +CONFIGURE_ENV= ZLIB_CFLAGS=" " ZLIB_LIBS="-lz" + +USE_GITHUB= yes + +.include <bsd.port.mk> diff --git a/biology/vcftools/distinfo b/biology/vcftools/distinfo new file mode 100644 index 000000000000..b4ab7d46ff00 --- /dev/null +++ b/biology/vcftools/distinfo @@ -0,0 +1,2 @@ +SHA256 (vcftools_0.1.14_GH0.tar.gz) = ba440584645e9901c1eeb6b769ccd828591f0575c73349072cde3efa77da6fdf +SIZE (vcftools_0.1.14_GH0.tar.gz) = 241228 diff --git a/biology/vcftools/pkg-descr b/biology/vcftools/pkg-descr new file mode 100644 index 000000000000..e9ceaa246e18 --- /dev/null +++ b/biology/vcftools/pkg-descr @@ -0,0 +1,4 @@ +A set of tools written in Perl and C++ for working with VCF files, such as +those generated by the 1000 Genomes Project. + +WWW: https://github.com/vcftools/vcftools diff --git a/biology/vcftools/pkg-plist b/biology/vcftools/pkg-plist new file mode 100644 index 000000000000..0ad450ca4f19 --- /dev/null +++ b/biology/vcftools/pkg-plist @@ -0,0 +1,29 @@ +bin/fill-aa +bin/fill-an-ac +bin/fill-fs +bin/fill-ref-md5 +bin/vcf-annotate +bin/vcf-compare +bin/vcf-concat +bin/vcf-consensus +bin/vcf-contrast +bin/vcf-convert +bin/vcf-fix-newlines +bin/vcf-fix-ploidy +bin/vcf-indel-stats +bin/vcf-isec +bin/vcf-merge +bin/vcf-phased-join +bin/vcf-query +bin/vcf-shuffle-cols +bin/vcf-sort +bin/vcf-stats +bin/vcf-subset +bin/vcf-to-tab +bin/vcf-tstv +bin/vcf-validator +bin/vcftools +%%SITE_PERL%%/FaSlice.pm +%%SITE_PERL%%/Vcf.pm +%%SITE_PERL%%/VcfStats.pm +man/man1/vcftools.1.gz |