# $NetBSD$
#
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#                  Generated by fbsd2pkg                  #
#              Sat Nov 10 09:59:07 CST 2018               #
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# Unconverted and partially converted FreeBSD port syntax:

# TEST_DEPENDS=	bash:shells/bash
# Unknown tool: USE_TOOLS=	localbase
#USE_LDCONFIG=	${PREFIX}/libexec/${PORTNAME}

DISTNAME=	bcftools-${PV}
CATEGORIES=	biology
MASTER_SITES=	${MASTER_SITE_GITHUB:=samtools/}
GITHUB_PROJECT=	bcftools
GITHUB_TAG=	${PV}

MAINTAINER=	bacon@NetBSD.org
HOMEPAGE=	https://www.htslib.org/
COMMENT=	Tools for manipulating BCF (binary VCF) sequence files
LICENSE=	mit

REPLACE_PERL=	misc/*.pl misc/plot-vcfstats test/test.pl
REPLACE_PYTHON=	misc/*.py

SUBST_CLASSES+=		version
SUBST_STAGE.version=	pre-configure
SUBST_SED.version+=	-e 's|@PORTVERSION@|${PV}|g'
SUBST_FILES.version+=	${WRKSRC}/configure.ac

USE_LANGUAGES=	c c++
USE_TOOLS+=	autoconf automake autoreconf gmake perl
GNU_CONFIGURE=	yes
MAKE_ENV+=	USE_GPL=1

PV=		1.9

pre-configure:
	cd ${WRKSRC} && autoreconf -if

post-install:
	${MV} ${DESTDIR}${PREFIX}/bin/samtools_misc/color-chrs.pl \
		${DESTDIR}${PREFIX}/bin/color-chrs
	${MV} ${DESTDIR}${PREFIX}/bin/samtools_misc/guess-ploidy.py\
	       ${DESTDIR}${PREFIX}/bin/guess-ploidy
	${MV} /${DESTDIR}${PREFIX}/bin/samtools_misc/plot-roh.py \
		${DESTDIR}${PREFIX}/bin/plot-roh
	${MV} ${DESTDIR}${PREFIX}/bin/samtools_misc/run-roh.pl \
		${DESTDIR}${PREFIX}/bin/run-roh
	${MV} ${DESTDIR}${PREFIX}/bin/samtools_misc/vcfutils.pl \
		${DESTDIR}${PREFIX}/bin/vcfutils
	${MV} ${DESTDIR}${PREFIX}/bin/samtools_misc/plot-vcfstats \
		${DESTDIR}${PREFIX}/bin/
	${RMDIR} ${DESTDIR}${PREFIX}/bin/samtools_misc/

.include "../../biology/htslib/buildlink3.mk"
.include "../../devel/zlib/buildlink3.mk"
.include "../../lang/python/application.mk"
.include "../../mk/bsd.pkg.mk"
