04d6f52202
lang/gcc which have moved from GCC 4.9.4 to GCC 5.4 (at least under some circumstances such as versions of FreeBSD or platforms). This includes ports - with USE_GCC=yes or USE_GCC=any, - with USES=fortran, - using using Mk/bsd.octave.mk which in turn has USES=fortran, and - with USES=compiler specifying openmp, nestedfct, c++11-lib, c++14-lang, c++11-lang, c++0x, c11, or gcc-c++11-lib. PR: 216707
58 lines
1.6 KiB
Makefile
58 lines
1.6 KiB
Makefile
# Created by: Jason Bacon <bacon4000@gmail.com>
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# $FreeBSD$
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PORTNAME= blast+
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PORTVERSION= 2.5.0
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PORTREVISION= 1
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CATEGORIES= biology
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MASTER_SITES= http://ftp.ncbi.nlm.nih.gov/blast/executables/blast+/${PORTVERSION}/ \
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http://acadix.biz/Ports/distfiles/
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PKGNAMEPREFIX= ncbi-
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DISTNAME= ncbi-blast-${PORTVERSION}+-src
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MAINTAINER= bacon4000@gmail.com
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COMMENT= NCBI implementation of Basic Local Alignment Search Tool
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LICENSE= PD
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LICENSE_FILE= ${WRKSRC}/scripts/projects/blast/LICENSE
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LIB_DEPENDS= libpcre.so:devel/pcre
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RUN_DEPENDS= p5-List-MoreUtils>=0:lang/p5-List-MoreUtils
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WRKSRC= ${WRKDIR}/${DISTNAME}/c++
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GNU_CONFIGURE= yes
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USES= gmake shebangfix perl5 python
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SHEBANG_FILES= src/app/blast/legacy_blast.pl \
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src/app/blast/update_blastdb.pl \
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src/app/winmasker/windowmasker_2.2.22_adapter.py
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MAKE_JOBS_UNSAFE= yes
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# Requires openmp
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USE_GCC= yes
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USE_LDCONFIG= yes
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# The test for amq can hang, but amq is not needed so just avoid the test
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CONFIGURE_ENV= ncbi_cv_prog_amq_w=no
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# configure chooses /usr/local/bin/ar with no flags
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# FreeBSD boost port flagged by configure as untested version
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CONFIGURE_ARGS+=AR="ar cr" --without-boost
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# Fix "undefined _ThreadRuneLocale" error on 10.0
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# Fix unknown options in configure
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# Add staging support to configure-generated Makefile
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post-patch:
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${REINPLACE_CMD} \
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-e 's|-D_THREAD_SAFE|-D_THREAD_SAFE -D__RUNETYPE_INTERNAL|' \
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-e '/--infodir=DIR/d' \
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-e '/--mandir=DIR/d' \
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${WRKSRC}/src/build-system/configure
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${REINPLACE_CMD} -e 's|@prefix@|${STAGEDIR}@prefix@|g' \
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${WRKSRC}/src/build-system/Makefile.in.top
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post-install:
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${STRIP_CMD} ${STAGEDIR}${PREFIX}/lib/*.so
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.include <bsd.port.mk>
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