# $FreeBSD$

PORTNAME=		bedtools
DISTVERSIONPREFIX=	v
DISTVERSION=		2.29.2
CATEGORIES=		biology

MAINTAINER=	jwb@FreeBSD.org
COMMENT=	Toolset for genome set arithmetic such as intersect, union

LICENSE=	GPLv2
LICENSE_FILE=	${WRKSRC}/LICENSE

TEST_DEPENDS=	bash:shells/bash

USES=		compiler:c++11-lang gmake python
USE_GITHUB=	yes
GH_ACCOUNT=	arq5x
GH_PROJECT=	bedtools2

post-extract:
# Avoid conflict with C++20 <version> by adding .txt suffix
	@${MV} ${WRKSRC}/src/utils/gzstream/version \
		${WRKSRC}/src/utils/gzstream/version.txt

pre-configure:
	@${REINPLACE_CMD} -e 's|python|${PYTHON_CMD}|g' ${WRKSRC}/Makefile
	@${REINPLACE_CMD} -e 's|@\$$(CXX)|$$(CXX)|g' \
		${WRKSRC}/*/Makefile \
		${WRKSRC}/*/*/Makefile \
		${WRKSRC}/*/*/*/Makefile

post-install:
	${STRIP_CMD} ${STAGEDIR}${PREFIX}/bin/bedtools

do-test:
	(cd ${WRKSRC}/test && bash test.sh)

.include <bsd.port.mk>