50 lines
1.5 KiB
Makefile
50 lines
1.5 KiB
Makefile
PORTNAME= bio-mocha
|
|
DISTVERSION= 1.14
|
|
PORTREVISION= 1
|
|
CATEGORIES= biology
|
|
MASTER_SITES= https://software.broadinstitute.org/software/mocha/
|
|
DISTFILES+= ${PORTNAME}_${DISTVERSION}-20220112.tar.gz
|
|
|
|
MAINTAINER= jwb@FreeBSD.org
|
|
COMMENT= Bcftools plugin for mosaic chromosomal alteration analysis
|
|
|
|
LICENSE= MIT
|
|
|
|
LIB_DEPENDS= libhts.so:biology/htslib
|
|
BUILD_DEPENDS= bash:shells/bash
|
|
RUN_DEPENDS= bcftools>=${PORTVERSION}:biology/bcftools
|
|
|
|
USES= autoreconf gmake localbase perl5 python:env shebangfix
|
|
USE_GITHUB= yes
|
|
USE_PERL5= test
|
|
|
|
GH_ACCOUNT= samtools
|
|
GH_PROJECT= bcftools
|
|
GH_TAGNAME= 1.15
|
|
GNU_CONFIGURE= yes
|
|
SHEBANG_FILES= misc/* test/test.pl
|
|
|
|
post-extract:
|
|
@${MV} ${WRKDIR}/*.c ${WRKDIR}/*.h ${WRKSRC}/plugins
|
|
@${MKDIR} ${WRKSRC}/MoCha
|
|
@${MV} ${WRKDIR}/*.R ${WRKSRC}/MoCha
|
|
|
|
pre-configure:
|
|
@${REINPLACE_CMD} -e 's|@PORTVERSION@|${PORTVERSION}|g' \
|
|
${WRKSRC}/configure.ac
|
|
|
|
do-install:
|
|
${MKDIR} ${STAGEDIR}${PREFIX}/libexec/bcftools
|
|
${INSTALL_PROGRAM} ${WRKSRC}/plugins/extendFMT.so \
|
|
${STAGEDIR}${PREFIX}/libexec/bcftools
|
|
${INSTALL_PROGRAM} ${WRKSRC}/plugins/mocha.so \
|
|
${STAGEDIR}${PREFIX}/libexec/bcftools
|
|
${INSTALL_PROGRAM} ${WRKSRC}/plugins/mochatools.so \
|
|
${STAGEDIR}${PREFIX}/libexec/bcftools
|
|
${INSTALL_PROGRAM} ${WRKSRC}/plugins/score.so \
|
|
${STAGEDIR}${PREFIX}/libexec/bcftools
|
|
${INSTALL_PROGRAM} ${WRKSRC}/plugins/trio-phase.so \
|
|
${STAGEDIR}${PREFIX}/libexec/bcftools
|
|
(cd ${WRKSRC}/MoCha && ${COPYTREE_SHARE} . ${STAGEDIR}${DATADIR})
|
|
|
|
.include <bsd.port.mk>
|