Date: Tue, 23 Mar 2021 16:32:29 +0000 (UTC) From: "Jason W. Bacon" <jwb@FreeBSD.org> To: ports-committers@freebsd.org, svn-ports-all@freebsd.org, svn-ports-head@freebsd.org Subject: svn commit: r569036 - in head/biology: . vcf2hap Message-ID: <202103231632.12NGWTv1040307@repo.freebsd.org>
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Author: jwb Date: Tue Mar 23 16:32:29 2021 New Revision: 569036 URL: https://svnweb.freebsd.org/changeset/ports/569036 Log: biology/vcf2hap: Generate .hap file from VCF for haplohseq vcf2hap is a simple tool for generating a .hap file from a VCF. The .hap file is required by haplohseq. vcf2hap is extremely fast and requires a trivial amount of memory regardless of the size of the VCF file. Added: head/biology/vcf2hap/ head/biology/vcf2hap/Makefile (contents, props changed) head/biology/vcf2hap/distinfo (contents, props changed) head/biology/vcf2hap/pkg-descr (contents, props changed) Modified: head/biology/Makefile Modified: head/biology/Makefile ============================================================================== --- head/biology/Makefile Tue Mar 23 16:07:47 2021 (r569035) +++ head/biology/Makefile Tue Mar 23 16:32:29 2021 (r569036) @@ -181,6 +181,7 @@ SUBDIR += trimmomatic SUBDIR += ugene SUBDIR += vcf-split + SUBDIR += vcf2hap SUBDIR += vcflib SUBDIR += vcftools SUBDIR += velvet Added: head/biology/vcf2hap/Makefile ============================================================================== --- /dev/null 00:00:00 1970 (empty, because file is newly added) +++ head/biology/vcf2hap/Makefile Tue Mar 23 16:32:29 2021 (r569036) @@ -0,0 +1,26 @@ +# $FreeBSD$ + +PORTNAME= vcf2hap +DISTVERSION= 0.1.2 +CATEGORIES= biology + +MAINTAINER= jwb@FreeBSD.org +COMMENT= Generate .hap file from VCF for haplohseq + +LICENSE= BSD2CLAUSE +LICENSE_FILE= ${WRKSRC}/LICENSE + +BUILD_DEPENDS= biolibc>=0.1.1:biology/biolibc + +USE_GITHUB= yes +GH_ACCOUNT= auerlab + +PLIST_FILES= bin/vcf2hap man/man1/vcf2hap.1.gz + +pre-build: + (cd ${WRKSRC} && ${MAKE} LOCALBASE=${LOCALBASE} depend) + +do-test: + (cd ${WRKSRC}/Test && ./run-test.sh) + +.include <bsd.port.mk> Added: head/biology/vcf2hap/distinfo ============================================================================== --- /dev/null 00:00:00 1970 (empty, because file is newly added) +++ head/biology/vcf2hap/distinfo Tue Mar 23 16:32:29 2021 (r569036) @@ -0,0 +1,3 @@ +TIMESTAMP = 1616515046 +SHA256 (auerlab-vcf2hap-0.1.2_GH0.tar.gz) = 69804e605bdf646582cbc33bb2839387da5cb2e8a3f83a8a03b5a464d01348f1 +SIZE (auerlab-vcf2hap-0.1.2_GH0.tar.gz) = 197782 Added: head/biology/vcf2hap/pkg-descr ============================================================================== --- /dev/null 00:00:00 1970 (empty, because file is newly added) +++ head/biology/vcf2hap/pkg-descr Tue Mar 23 16:32:29 2021 (r569036) @@ -0,0 +1,5 @@ +vcf2hap is a simple tool for generating a .hap file from a VCF. The .hap file +is required by haplohseq. vcf2hap is extremely fast and requires a trivial +amount of memory regardless of the size of the VCF file. + +WWW: https://github.com/auerlab/vcf2hap
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