75 lines
2.6 KiB
Makefile
75 lines
2.6 KiB
Makefile
# Created by: Reed A. Cartwright <reed@cartwrig.ht>
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# $FreeBSD$
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PORTNAME= mafft
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PORTVERSION= 7.149
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CATEGORIES= biology
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MASTER_SITES= http://mafft.cbrc.jp/alignment/software/
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DISTNAME= ${PORTNAME}-${PORTVERSION}-without-extensions-src
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MAINTAINER= cartwright@asu.edu
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COMMENT= Multiple alignment program for amino acid or nucleotide sequences
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LICENSE= BSD2CLAUSE
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OPTIONS_DEFINE= DOCS EXAMPLES
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WRKSRC= ${WRKDIR}/${PORTNAME}-${PORTVERSION}-without-extensions
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BUILD_WRKSRC= ${WRKSRC}/core
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USES= gmake shebangfix tar:tgz
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SHEBANG_FILES= core/mafftash_premafft.tmpl
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LIBEXEC_FILES= dvtditr dndfast7 dndblast sextet5 mafft-distance pairlocalalign \
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pair2hat3s multi2hat3s pairash addsingle splittbfast \
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disttbfast tbfast mafft-profile f2cl mccaskillwrap contrafoldwrap \
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countlen seq2regtable regtable2seq score getlag dndpre \
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setcore replaceu restoreu setdirection makedirectionlist version
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PERL_LIBEXEC_FILES= mafftash_premafft.pl
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SCRIPT_FILES= mafft mafft-homologs.rb
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LN_FILES= einsi fftns fftnsi ginsi linsi mafft-einsi mafft-fftns \
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mafft-fftnsi mafft-ginsi mafft-linsi mafft-nwns mafft-nwnsi \
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mafft-qinsi mafft-xinsi nwns nwnsi
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MAN1_FILES= mafft.1 mafft-homologs.1
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.include <bsd.port.pre.mk>
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.if ${ARCH} == "sparc64"
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BROKEN= Does not install on sparc64: depends on thread-local storage
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.endif
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post-patch:
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@${REINPLACE_CMD} -e 's|-lpthread|${PTHREAD_LIBS}|' \
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-e 's|^MANDIR = .*$$|MANDIR = $$(MANPREFIX)/man/man1|' \
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-e 's|^PREFIX = .*$$||' \
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-e 's|^CC = .*$$||' \
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-e 's|^CFLAGS = .*$$||' \
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${BUILD_WRKSRC}/Makefile
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do-install:
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@${MKDIR} ${STAGEDIR}${PREFIX}/libexec/${PORTNAME}
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.for exec in ${LIBEXEC_FILES}
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${INSTALL_PROGRAM} ${WRKSRC}/binaries/${exec} ${STAGEDIR}${PREFIX}/libexec/${PORTNAME}
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.endfor
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.for exec in ${PERL_LIBEXEC_FILES}
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${INSTALL_SCRIPT} ${WRKSRC}/binaries/${exec} ${STAGEDIR}${PREFIX}/libexec/${PORTNAME}
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.endfor
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.for exec in ${SCRIPT_FILES}
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${INSTALL_SCRIPT} ${WRKSRC}/scripts/${exec} ${STAGEDIR}${PREFIX}/bin
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.endfor
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.for exec in ${LN_FILES}
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${LN} -sf mafft ${STAGEDIR}${PREFIX}/bin/${exec}
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.endfor
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${LN} -sf ../libexec/${PORTNAME}/mafft-distance ${STAGEDIR}${PREFIX}/bin/mafft-distance
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${LN} -sf ../libexec/${PORTNAME}/mafft-profile ${STAGEDIR}${PREFIX}/bin/mafft-profile
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.for man in ${MAN1_FILES}
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${INSTALL_MAN} ${WRKSRC}/binaries/${man} ${STAGEDIR}${MAN1PREFIX}/man/man1
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.endfor
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@${MKDIR} ${STAGEDIR}${EXAMPLESDIR}
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${INSTALL_DATA} ${WRKSRC}/test/* ${STAGEDIR}${EXAMPLESDIR}
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@${MKDIR} ${STAGEDIR}${DOCSDIR}
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${INSTALL_DATA} ${WRKSRC}/readme ${STAGEDIR}${DOCSDIR}
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${INSTALL_DATA} ${WRKSRC}/license ${STAGEDIR}${DOCSDIR}
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.include <bsd.port.post.mk>
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