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| author | Jason W. Bacon <jwb@FreeBSD.org> | 2021-03-23 16:32:29 +0000 |
|---|---|---|
| committer | Jason W. Bacon <jwb@FreeBSD.org> | 2021-03-23 16:32:29 +0000 |
| commit | 633c71fbf74172270dbd775c00b3b6f7e46f4ed1 (patch) | |
| tree | fb4bd20fd4f1edd33262d9bcea50ecc579f624c2 /biology | |
| parent | 9b3ddc8d58f9b4092c1b944c7cc357916c985b94 (diff) | |
| download | ports-633c71fbf74172270dbd775c00b3b6f7e46f4ed1.tar.gz ports-633c71fbf74172270dbd775c00b3b6f7e46f4ed1.zip | |
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.
Notes
Notes:
svn path=/head/; revision=569036
Diffstat (limited to 'biology')
| -rw-r--r-- | biology/Makefile | 1 | ||||
| -rw-r--r-- | biology/vcf2hap/Makefile | 26 | ||||
| -rw-r--r-- | biology/vcf2hap/distinfo | 3 | ||||
| -rw-r--r-- | biology/vcf2hap/pkg-descr | 5 |
4 files changed, 35 insertions, 0 deletions
diff --git a/biology/Makefile b/biology/Makefile index 260d2763d896..3ef12bfb358a 100644 --- a/biology/Makefile +++ b/biology/Makefile @@ -181,6 +181,7 @@ SUBDIR += trimmomatic SUBDIR += ugene SUBDIR += vcf-split + SUBDIR += vcf2hap SUBDIR += vcflib SUBDIR += vcftools SUBDIR += velvet diff --git a/biology/vcf2hap/Makefile b/biology/vcf2hap/Makefile new file mode 100644 index 000000000000..bb4a4bd88103 --- /dev/null +++ b/biology/vcf2hap/Makefile @@ -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> diff --git a/biology/vcf2hap/distinfo b/biology/vcf2hap/distinfo new file mode 100644 index 000000000000..7b288bf922c7 --- /dev/null +++ b/biology/vcf2hap/distinfo @@ -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 diff --git a/biology/vcf2hap/pkg-descr b/biology/vcf2hap/pkg-descr new file mode 100644 index 000000000000..540a5393a487 --- /dev/null +++ b/biology/vcf2hap/pkg-descr @@ -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 |