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64 lines
1.5 KiB
Makefile
64 lines
1.5 KiB
Makefile
PORTNAME= bowtie2
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DISTVERSIONPREFIX= v
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DISTVERSION= 2.4.4
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CATEGORIES= biology perl5 python
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MAINTAINER= jwb@FreeBSD.org
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COMMENT= Ultrafast, memory-efficient short read aligner
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LICENSE= GPLv3+
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LICENSE_FILE= ${WRKSRC}/LICENSE
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# Requires a 64-bit processor and depends on hard-coded asm instructions
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ONLY_FOR_ARCHS= aarch64 amd64 powerpc64 powerpc64le
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RUN_DEPENDS= bash:shells/bash
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USES= gmake localbase:ldflags perl5 python shebangfix
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USE_PERL5= run
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USE_GITHUB= yes
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SHEBANG_FILES= bowtie2 bowtie2-build bowtie2-inspect \
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scripts/bowtie2-hbb.sh scripts/*.pl
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GH_ACCOUNT= BenLangmead
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GH_TUPLE= simd-everywhere:simde-no-tests:f6a0b3b:simde
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OPTIONS_DEFINE= DOCS EXAMPLES
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SUB_FILES= bowtie2-test
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.include <bsd.port.options.mk>
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.if ${ARCH} != amd64
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post-extract:
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(cd ${WRKSRC_simde}; \
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${COPYTREE_SHARE} . ${WRKSRC}/third_party/simde/)
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MAKE_ENV= POPCNT_CAPABILITY=0
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.endif
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pre-configure:
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@${REINPLACE_CMD} \
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-e 's|^RELEASE_FLAGS|# RELEASE_FLAGS|' \
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-e 's|tbbmalloc_proxy|tbbmalloc|' \
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${WRKSRC}/Makefile
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post-install:
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@${MKDIR} ${STAGEDIR}${DATADIR}/scripts
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${INSTALL_PROGRAM} \
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${WRKSRC}/bowtie2*-s \
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${WRKSRC}/bowtie2*-l \
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${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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${INSTALL_SCRIPT} ${WRKDIR}/bowtie2-test ${STAGEDIR}${PREFIX}/bin
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post-install-DOCS-on:
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(cd ${WRKSRC}/doc && ${COPYTREE_SHARE} . ${STAGEDIR}${DOCSDIR})
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post-install-EXAMPLES-on:
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(cd ${WRKSRC}/example && ${COPYTREE_SHARE} . ${STAGEDIR}${EXAMPLESDIR})
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.include <bsd.port.mk>
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