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130 lines
3.5 KiB
Makefile
130 lines
3.5 KiB
Makefile
# Created by: Fernan Aguero <fernan@iib.unsamn.edu.ar>
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# $FreeBSD$
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PORTNAME= embassy
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PORTVERSION= 6.2.0
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PORTREVISION= 2
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CATEGORIES= biology
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MASTER_SITES= ftp://emboss.open-bio.org/pub/EMBOSS/
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DIST_SUBDIR= emboss
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MAINTAINER= wen@FreeBSD.org
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COMMENT= Collection of contributed EMBOSS applications
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LIB_DEPENDS= libnucleus.so:${PORTSDIR}/biology/emboss
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PREFIX?= ${LOCALBASE}/emboss
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NO_MTREE= yes
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USE_SUBMAKE= yes
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USES= iconv gmake motif
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GNU_CONFIGURE= yes
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USE_XORG= x11
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USE_LDCONFIG= yes
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OPTIONS_DEFINE= DOMAINATRIX DOMALIGN DOMSEARCH SIGNATURE STRUCTURE \
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EMNU ESIM4 HMMER MEMENEW MSE MYEMBOSS PHYLIPNEW TOPO \
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VIENNA MIRA IPRSCAN CBSTOOLS
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DOMAINATRIX_DESC= Protein domain apps
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DOMALIGN_DESC= Protein domain apps
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DOMSEARCH_DESC= Protein domain apps
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SIGNATURE_DESC= Protein domain apps
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STRUCTURE_DESC= Protein domain apps
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EMNU_DESC= EMBOSS simple menu
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ESIM4_DESC= Align cDNA/EST to genome
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HMMER_DESC= HMM alignment and searches
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MEMENEW_DESC= Motif detection
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MSE_DESC= A multiple sequence screen editor
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MYEMBOSS_DESC= Examples for developers of EMBOSS apps
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PHYLIPNEW_DESC= Phylogeny inference
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TOPO_DESC= Transmembrane display
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VIENNA_DESC= RNA folding
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MIRA_DESC= Whole Genome shotgun and EST assembler
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IPRSCAN_DESC= InterPro scan
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CBSTOOLS_DESC= CBS Tools
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OPTIONS_DEFAULT= DOMAINATRIX DOMALIGN DOMSEARCH SIGNATURE STRUCTURE \
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EMNU ESIM4 HMMER MEMENEW MSE MYEMBOSS PHYLIPNEW TOPO \
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VIENNA MIRA IPRSCAN CBSTOOLS
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CPPFLAGS+= -I${PREFIX}/include -I${LOCALBASE}/include -I${LOCALBASE}/emboss/include
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LDFLAGS+= -L${PREFIX}/lib -L${LOCALBASE}/lib -L${LOCALBASE}/emboss/lib
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CONFIGURE_ENV= CPPFLAGS="${CPPFLAGS}" LDFLAGS="${LDFLAGS}"
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EMBASSY_WRKDIR= ${WRKSRC}/EMBASSY
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DOMAINATRIX_VERSION= 0.1.0
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EMNU_VERSION= 1.05
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ESIM4_VERSION= 1.0.0
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HMMER_VERSION= 2.3.2
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MEMENEW_VERSION= 4.0.0
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MSE_VERSION= 3.0.0
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TOPO_VERSION= 2.0.0
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PHYLIPNEW_VERSION= 3.69
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DOMALIGN_VERSION= 0.1.0
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DOMSEARCH_VERSION= 0.1.0
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SIGNATURE_VERSION= 0.1.0
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STRUCTURE_VERSION= 0.1.0
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MYEMBOSS_VERSION= 6.2.0
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VIENNA_VERSION= 1.7.2
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MIRA_VERSION= 2.8.2
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IPRSCAN_VERSION= 4.3.1
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CBSTOOLS_VERSION= 1.0.0
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EMBASSY_APPS= DOMAINATRIX EMNU ESIM4 HMMER MEMENEW MSE PHYLIPNEW \
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TOPO DOMALIGN DOMSEARCH SIGNATURE STRUCTURE MYEMBOSS \
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VIENNA MIRA IPRSCAN CBSTOOLS
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NO_STAGE= yes
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.include <bsd.port.options.mk>
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.for app in ${EMBASSY_APPS}
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.if ${PORT_OPTIONS:M${app}}
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APPLIST+= ${app}
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${app}_WRKSRC= ${EMBASSY_WRKDIR}/${app}-${${app}_VERSION}
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${app}_DISTFILE=${app}-${${app}_VERSION}${EXTRACT_SUFX}
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DISTFILES+= ${${app}_DISTFILE}
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PLIST_${app}= ""
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.else
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PLIST_${app}= "@comment "
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.endif
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PLIST_SUB+= PLIST_${app}=${PLIST_${app}}
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.endfor
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do-extract:
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.for app in ${APPLIST}
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@ ${MKDIR} ${EMBASSY_WRKDIR}
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@ cd ${EMBASSY_WRKDIR} && ${EXTRACT_CMD} ${EXTRACT_BEFORE_ARGS} \
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${_DISTDIR}/${${app}_DISTFILE} ${EXTRACT_AFTER_ARGS}
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@ if [ `id -u` = 0 ]; then \
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${CHMOD} -R ug-s ${${app}_WRKSRC}; \
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${CHOWN} -R 0:0 ${${app}_WRKSRC}; \
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fi
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.endfor
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post-extract:
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@${REINPLACE_CMD} -e 's#emboss_doc##g' ${EMBASSY_WRKDIR}/MIRA-2.8.2/Makefile.in
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post-patch:
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@${FIND} ${WRKSRC} -name configure | ${XARGS} ${REINPLACE_CMD} -e 's|echo aout|echo elf|'
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do-configure:
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.for app in ${APPLIST}
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@ cd ${${app}_WRKSRC} && \
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${SETENV} ${CONFIGURE_ENV} ./${CONFIGURE_SCRIPT} ${CONFIGURE_ARGS}
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.endfor
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do-build:
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.for app in ${APPLIST}
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@ cd ${${app}_WRKSRC} && \
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${SETENV} ${MAKE_ENV} ${GMAKE} ${MAKE_FLAGS} ${MAKEFILE} ${MAKE_ARGS}
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.endfor
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do-install:
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.for app in ${APPLIST}
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@ cd ${${app}_WRKSRC} && \
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${SETENV} ${MAKE_ENV} ${GMAKE} ${MAKE_FLAGS} ${MAKEFILE} \
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${MAKE_ARGS} ${INSTALL_TARGET}
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.endfor
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.include <bsd.port.mk>
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