353678f54b
Symlinks like this libxx.a->libxx.a.N.N.N first looked broken but it turned out that this is intentional. PR: 223273
64 lines
2 KiB
Makefile
64 lines
2 KiB
Makefile
PORTNAME= ncbi-vdb
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DISTVERSION= 2.11.0
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PORTREVISION= 1
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CATEGORIES= biology
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MAINTAINER= mzaki@niid.go.jp
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COMMENT= NCBI's virtualized back-end for accessing Sequence Read Archive
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LICENSE= PD
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LICENSE_FILE= ${WRKSRC}/LICENSE
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ONLY_FOR_ARCHS= amd64 i386
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ONLY_FOR_ARCHS_REASON= libs/search/nucstrstr.c requires SSE2 instructions
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BUILD_DEPENDS= bash:shells/bash \
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libepoll-shim>0:devel/libepoll-shim
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LIB_DEPENDS= libxml2.so:textproc/libxml2 \
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libhdf5.so:science/hdf5 \
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libmbedtls.so:security/mbedtls
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USES= compiler:c11 gmake localbase:ldflags perl5 shebangfix
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USE_PERL5= build
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USE_LDCONFIG= yes
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USE_GITHUB= yes
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GH_ACCOUNT= ncbi
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GH_TUPLE+= ncbi:ngs:${DISTVERSION}:ngs # ported as biology/ngs-sdk
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SHEBANG_GLOB= *.sh *.pl
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GNU_CONFIGURE= yes
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CONFIGURE_ARGS= --with-xml2-prefix=${LOCALBASE} \
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--with-hdf5-prefix=${LOCALBASE} \
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--with-mbedtls-prefix=${LOCALBASE} \
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CC="${CC}" CXX="${CXX}" TOOLS="${CHOSEN_COMPILER_TYPE}"
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MAKE_ARGS+= CCNAME=${CC} CXXNAME=${CXX} PKGCFLAGS="${CFLAGS}"
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CFLAGS+= -I${WRKSRC}/lib
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MAKE_JOBS_UNSAFE= yes
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post-extract:
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@${LN} -sf ${WRKSRC_ngs} ${WRKDIR}/ngs
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@${LN} -sf ${WRKSRC} ${WRKDIR}/${PORTNAME}
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pre-patch:
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@${CP} ${FILESDIR}/Makefile.bsd ${WRKSRC}/build/
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@for f in ${WRKSRC}/build/ld.linux.*.sh; do ${CP} -p $${f} $${f%linux*}bsd$${f#*linux}; done
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@${CP} -p ${WRKSRC}/build/ld.linux.gcc.sh ${WRKSRC}/build/ld.bsd.clang.sh
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@${MKDIR} ${WRKSRC}/interfaces/os/bsd
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@${CP} -p ${WRKSRC}/interfaces/os/mac/endian.h ${WRKSRC}/interfaces/os/bsd/
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post-patch:
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@${GREP} -q '@@PREFIX@@' ${WRKSRC}/libs/kfg/config.c || (echo "@@PREFIX@@ in file/patch-libs_kfg_config.c is overwritten probably due to using 'make makepatch'"; exit 1)
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@${REINPLACE_CMD} -e 's#@@PREFIX@@#"${PREFIX}"#' ${WRKSRC}/libs/kfg/config.c
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post-configure:
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@${ECHO} ${CHOSEN_COMPILER_TYPE} > ${WRKSRC}/build/COMP
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# The 'install' target installs broken-looking static libs with symlinks.
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# This is intentional, see comments https://github.com/ncbi/ncbi-vdb/issues/36#issuecomment-817990790 This may change in future versions.
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.include <bsd.port.mk>
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