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pkgsrc/biology/bcftools/Makefile

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Bump PKGREVISIONs for perl 5.30.0
2019-08-11 15:17:48 +02:00
# $NetBSD: Makefile,v 1.4 2019/08/11 13:17:59 wiz Exp $
bcftools: added version 1.9 BCFtools is a program for variant calling and manipulating files in the Variant Call Format (VCF) and its binary counterpart BCF. All commands work transparently with both VCFs and BCFs, both uncompressed and BGZF-compressed. In order to avoid tedious repetion, throughout this document we will use "VCF" and "BCF" interchangeably, unless specifically noted. Most commands accept VCF, bgzipped VCF and BCF with filetype detected automatically even when streaming from a pipe. Indexed VCF and BCF work in all situations. Unindexed VCF and BCF and streams work in most, but not all situations. In general, whenever multiple VCFs are read simultaneously, they must be indexed and therefore also compressed.
2018-11-15 10:21:24 +01:00
DISTNAME= bcftools-1.9
Bump PKGREVISIONs for perl 5.30.0
2019-08-11 15:17:48 +02:00
PKGREVISION= 2
bcftools: added version 1.9 BCFtools is a program for variant calling and manipulating files in the Variant Call Format (VCF) and its binary counterpart BCF. All commands work transparently with both VCFs and BCFs, both uncompressed and BGZF-compressed. In order to avoid tedious repetion, throughout this document we will use "VCF" and "BCF" interchangeably, unless specifically noted. Most commands accept VCF, bgzipped VCF and BCF with filetype detected automatically even when streaming from a pipe. Indexed VCF and BCF work in all situations. Unindexed VCF and BCF and streams work in most, but not all situations. In general, whenever multiple VCFs are read simultaneously, they must be indexed and therefore also compressed.
2018-11-15 10:21:24 +01:00
CATEGORIES= biology
MASTER_SITES= ${MASTER_SITE_GITHUB:=samtools/}
EXTRACT_SUFX= .tar.bz2
GITHUB_RELEASE= ${PKGVERSION_NOREV}
biology/bcftools: Add zlib dependency for Linux Resolves build failures on CentOS
2019-03-27 16:58:38 +01:00
MAINTAINER= bacon@NetBSD.org
bcftools: added version 1.9 BCFtools is a program for variant calling and manipulating files in the Variant Call Format (VCF) and its binary counterpart BCF. All commands work transparently with both VCFs and BCFs, both uncompressed and BGZF-compressed. In order to avoid tedious repetion, throughout this document we will use "VCF" and "BCF" interchangeably, unless specifically noted. Most commands accept VCF, bgzipped VCF and BCF with filetype detected automatically even when streaming from a pipe. Indexed VCF and BCF work in all situations. Unindexed VCF and BCF and streams work in most, but not all situations. In general, whenever multiple VCFs are read simultaneously, they must be indexed and therefore also compressed.
2018-11-15 10:21:24 +01:00
HOMEPAGE= http://samtools.github.io/bcftools/
COMMENT= Calling and manipulating files VCF and BCF formats
LICENSE= mit
USE_TOOLS+= gmake perl
GNU_CONFIGURE= yes
CONFIGURE_ARGS+= --with-htslib=system
TEST_TARGET= test
BUILDLINK_TRANSFORM+= opt:-ldl:${BUILDLINK_LDADD.dl:M*}
REPLACE_PERL+= misc/*.pl
REPLACE_PERL+= misc/plot-vcfstats
REPLACE_PYTHON+= misc/*.py
biology/bcftools: Add zlib dependency for Linux Resolves build failures on CentOS
2019-03-27 16:58:38 +01:00
.include "../../devel/zlib/buildlink3.mk"
bcftools: added version 1.9 BCFtools is a program for variant calling and manipulating files in the Variant Call Format (VCF) and its binary counterpart BCF. All commands work transparently with both VCFs and BCFs, both uncompressed and BGZF-compressed. In order to avoid tedious repetion, throughout this document we will use "VCF" and "BCF" interchangeably, unless specifically noted. Most commands accept VCF, bgzipped VCF and BCF with filetype detected automatically even when streaming from a pipe. Indexed VCF and BCF work in all situations. Unindexed VCF and BCF and streams work in most, but not all situations. In general, whenever multiple VCFs are read simultaneously, they must be indexed and therefore also compressed.
2018-11-15 10:21:24 +01:00
.include "../../biology/htslib/buildlink3.mk"
.include "../../lang/python/application.mk"
.include "../../mk/dlopen.buildlink3.mk"
.include "../../mk/bsd.pkg.mk"
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