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New port: biology/vcftools.

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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>
This commit is contained in:
Raphael Kubo da Costa 2016-02-26 17:07:59 +00:00
parent 60e4e1d261
commit feaee54d6e
Notes: svn2git 2021-03-31 03:12:20 +00:00 
svn path=/head/; revision=409624
5 changed files with 59 additions and 0 deletions
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1
biology/Makefile
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@ -94,6 +94,7 @@
SUBDIR += treepuzzle
SUBDIR += treeviewx
SUBDIR += ugene
SUBDIR += vcftools
SUBDIR += velvet
SUBDIR += wise
SUBDIR += xmolwt

23
biology/vcftools/Makefile Normal file
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@ -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>

2
biology/vcftools/distinfo Normal file
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@ -0,0 +1,2 @@
SHA256 (vcftools_0.1.14_GH0.tar.gz) = ba440584645e9901c1eeb6b769ccd828591f0575c73349072cde3efa77da6fdf
SIZE (vcftools_0.1.14_GH0.tar.gz) = 241228

4
biology/vcftools/pkg-descr Normal file
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@ -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

29
biology/vcftools/pkg-plist Normal file
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@ -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