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ea8c8ec7da
as defined in Mk/bsd.default-versions.mk which has moved from GCC 8.3 to GCC 9.1 under most circumstances now after revision 507371. This includes ports - with USE_GCC=yes or USE_GCC=any, - with USES=fortran, - using Mk/bsd.octave.mk which in turn features USES=fortran, and - with USES=compiler specifying openmp, nestedfct, c11, c++0x, c++11-lang, c++11-lib, c++14-lang, c++17-lang, or gcc-c++11-lib plus, everything INDEX-11 shows with a dependency on lang/gcc9 now. PR: 238330
49 lines
1.1 KiB
Makefile
49 lines
1.1 KiB
Makefile
# $FreeBSD$
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PORTNAME= bowtie
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DISTVERSIONPREFIX= v
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DISTVERSION= 1.1.2
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PORTREVISION= 9
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CATEGORIES= biology
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MAINTAINER= jwb@FreeBSD.org
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COMMENT= Ultrafast, memory-efficient short read aligner
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LICENSE= ART10
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# May also work on other 64-bit platforms, but untested
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ONLY_FOR_ARCHS= amd64
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# FIXME: bowtie-align intermittently dumps core when compiled with clang
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# GCC 4.2 does not provide good performance
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USES= gmake perl5 python:run shebangfix
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USE_GCC= yes
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USE_PERL5= run
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USE_GITHUB= yes
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SHEBANG_FILES= scripts/*.pl bowtie bowtie-build bowtie-inspect
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GH_ACCOUNT= BenLangmead
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OPTIONS_DEFINE= DOCS
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post-install:
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${MKDIR} ${STAGEDIR}${DATADIR}/scripts
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${INSTALL_SCRIPT} \
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${WRKSRC}/bowtie \
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${WRKSRC}/bowtie-build \
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${WRKSRC}/bowtie-inspect \
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${STAGEDIR}${PREFIX}/bin
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${INSTALL_SCRIPT} \
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${WRKSRC}/scripts/*.sh \
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${WRKSRC}/scripts/*.pl \
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${STAGEDIR}${DATADIR}/scripts
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cd ${WRKSRC} && ${COPYTREE_SHARE} \
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'genomes indexes reads' \
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${STAGEDIR}${DATADIR}
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cd ${WRKSRC}/doc && ${COPYTREE_SHARE} \
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\* \
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${STAGEDIR}${DOCSDIR}
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${STRIP_CMD} ${STAGEDIR}${PREFIX}/bin/*-[sl]
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.include <bsd.port.mk>
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