56 lines
1.6 KiB
Makefile
56 lines
1.6 KiB
Makefile
# $NetBSD$
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DISTNAME= bcftools-1.10.2
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CATEGORIES= biology
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MASTER_SITES= ${MASTER_SITE_GITHUB:=samtools/}
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MAINTAINER= bacon@NetBSD.org
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HOMEPAGE= https://www.htslib.org/
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COMMENT= Tools for manipulating BCF and VCF variant call files
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LICENSE= mit
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USE_TOOLS+= autoconf automake autoreconf bash gmake perl
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GNU_CONFIGURE= yes
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SUBST_CLASSES+= version
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SUBST_STAGE.version= pre-configure
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SUBST_SED.version= -e "s|m4_esyscmd_s(\[./version.sh 2>/dev/null\])|[${PKGVERSION_NOREV}]|"
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SUBST_FILES.version= configure.ac
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SUBST_CLASSES+= bash
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SUBST_STAGE.bash= pre-configure
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SUBST_SED.bash+= -e 's|/bin/bash|${TOOLS_PATH.bash}|'
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SUBST_SED.bash+= -e 's|\\/bin\\/bash|${TOOLS_PATH.bash:S,/,\\\/,g}|'
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SUBST_FILES.bash= test/test.pl
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REPLACE_PERL+= misc/*.pl
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REPLACE_PERL+= misc/fix-broken-GATK-Double-vs-Integer
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REPLACE_PERL+= misc/plot-vcfstats
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REPLACE_PERL+= test/test.pl
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REPLACE_PYTHON+= misc/*.py
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CONFIGURE_ARGS+= --with-htslib=system
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MAKE_ENV+= USE_GPL=1
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TEST_TARGET= test
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pre-configure:
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cd ${WRKSRC} && autoreconf -if
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post-install:
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${MV} ${DESTDIR}${PREFIX}/bin/color-chrs.pl \
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${DESTDIR}${PREFIX}/bin/color-chrs
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${MV} ${DESTDIR}${PREFIX}/bin/guess-ploidy.py\
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${DESTDIR}${PREFIX}/bin/guess-ploidy
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${MV} ${DESTDIR}${PREFIX}/bin/plot-roh.py \
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${DESTDIR}${PREFIX}/bin/plot-roh
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${MV} ${DESTDIR}${PREFIX}/bin/run-roh.pl \
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${DESTDIR}${PREFIX}/bin/run-roh
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${MV} ${DESTDIR}${PREFIX}/bin/vcfutils.pl \
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${DESTDIR}${PREFIX}/bin/vcfutils
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BUILDLINK_API_DEPENDS.htslib+= htslib>=1.10.2
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.include "../../biology/htslib/buildlink3.mk"
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.include "../../devel/zlib/buildlink3.mk"
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.include "../../lang/python/application.mk"
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.include "../../mk/bsd.pkg.mk"
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