mirror of
https://git.FreeBSD.org/ports.git
synced 2024-12-18 03:46:03 +00:00
62 lines
2.0 KiB
Makefile
62 lines
2.0 KiB
Makefile
# $FreeBSD$
|
|
|
|
PORTNAME= canu
|
|
DISTVERSIONPREFIX= v
|
|
DISTVERSION= 1.7
|
|
CATEGORIES= biology java perl5
|
|
|
|
MAINTAINER= jwb@FreeBSD.org
|
|
COMMENT= Single molecule sequence assembler
|
|
|
|
LICENSE= GPLv2
|
|
LICENSE_FILE= ${WRKDIR}/${PORTNAME}-${PORTVERSION}/README.license.GPL
|
|
|
|
BROKEN_aarch64= fails to link: undefined reference to omp_set_num_threads
|
|
BROKEN_armv6= fails to install: mv: rename site_perl to /wrkdirs/usr/ports/biology/canu/work/canu-1.7/src/usr/local/FreeBSD-armv6/lib/perl5/site_perl: No such file or directory
|
|
BROKEN_armv7= fails to install: mv: rename site_perl to /wrkdirs/usr/ports/biology/canu/work/canu-1.7/src/usr/local/FreeBSD-armv7/lib/perl5/site_perl: No such file or directory
|
|
|
|
LIB_DEPENDS= libboost_regex.so:devel/boost-libs
|
|
RUN_DEPENDS= gnuplot:math/gnuplot
|
|
|
|
USES= compiler:openmp gmake perl5
|
|
USE_JAVA= yes
|
|
JAVA_RUN= yes
|
|
JAVA_VERSION= 1.8+
|
|
USE_GITHUB= yes
|
|
GH_ACCOUNT= marbl
|
|
|
|
WRKSRC_SUBDIR= src
|
|
# Makefile compiles directly into ${DESTDIR}${PREFIX}
|
|
MAKE_ENV+= DESTDIR=${WRKSRC}
|
|
|
|
post-patch:
|
|
${REINPLACE_CMD} \
|
|
-e 's|-O4||g' \
|
|
-e 's|-funroll-loops||g' \
|
|
-e 's|-fexpensive-optimizations||g' \
|
|
-e 's|amd64|${ARCH}|g' \
|
|
${WRKSRC}/Makefile
|
|
${REINPLACE_CMD} -e 's|\\$$bin/mhap-|${JAVAJARDIR}/mhap-|g' \
|
|
${WRKSRC}/pipelines/canu/OverlapMhap.pm
|
|
${REINPLACE_CMD} -e 's|RealBin/lib|RealBin/../${SITE_PERL_REL}/canu|g' \
|
|
${WRKSRC}/pipelines/canu.pl
|
|
|
|
# Upstream does not want to use lib/perl5/site_perl
|
|
post-build:
|
|
${MKDIR} ${WRKSRC}${PREFIX}/FreeBSD-${ARCH}/lib/perl5
|
|
${MV} ${WRKSRC}${PREFIX}/FreeBSD-${ARCH}/lib/site_perl \
|
|
${WRKSRC}${PREFIX}/FreeBSD-${ARCH}/lib/perl5
|
|
|
|
do-install:
|
|
${MKDIR} ${STAGEDIR}${PREFIX}
|
|
(cd ${WRKSRC}${PREFIX}/FreeBSD-${ARCH} && \
|
|
${COPYTREE_BIN} bin ${STAGEDIR}${PREFIX})
|
|
# STRIP_CMD fails without this on 11.1 under poudriere
|
|
@${CHMOD} u+w ${STAGEDIR}${PREFIX}/bin/*
|
|
${STRIP_CMD} \
|
|
`file ${STAGEDIR}${PREFIX}/bin/* | ${GREP} ELF | cut -d : -f 1`
|
|
(cd ${WRKSRC}${PREFIX}/FreeBSD-${ARCH} && \
|
|
${COPYTREE_SHARE} "lib share" ${STAGEDIR}${PREFIX})
|
|
|
|
.include <bsd.port.mk>
|