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# New ports collection makefile for: emboss
# Date created: 31 July 2000
# Whom: Johann Visagie <johann@egenetics.com>
#
# $FreeBSD$
#
PORTNAME= emboss
PORTVERSION= 2.4.1
CATEGORIES= biology
MASTER_SITES= ftp://ftp.uk.embnet.org/pub/EMBOSS/old/ \
ftp://ftp.es.embnet.org/pub/software/emboss/EMBOSS/ \
ftp://ftp.ebi.ac.uk/pub/software/unix/EMBOSS/
DISTFILES= ${PORTNAME:U}-${PORTVERSION}${EXTRACT_SUFX}
DIST_SUBDIR= ${PORTNAME}
EXTRACT_ONLY= ${PORTNAME:U}-${PORTVERSION}${EXTRACT_SUFX}
MAINTAINER= wjv@FreeBSD.org
COMMENT= A collection of open source tools for genetic sequence analysis
LIB_DEPENDS= gd.2:${PORTSDIR}/graphics/gd
USE_SUBMAKE= yes
USE_GMAKE= yes
GNU_CONFIGURE= yes
INSTALLS_SHLIB= yes
USE_XLIB= yes
USE_MOTIF= yes
PKGMESSAGE= ${WRKDIR}/pkg-message
.if exists(${WRKDIRPREFIX}${.CURDIR}/Makefile.inc)
.include "${WRKDIRPREFIX}${.CURDIR}/Makefile.inc"
.endif
CONFIGURE_ENV+= CPPFLAGS="-I${LOCALBASE}/include/gd" \
LIBS="-L${LOCALBASE}/lib -L${X11BASE}/lib"
SCRIPTS_ENV+= WRKDIRPREFIX="${WRKDIRPREFIX}" \
MKDIR="${MKDIR}" RM="${RM}"
WRKSRC= ${WRKDIR}/${PORTNAME:U}-${PORTVERSION}
EMBASSY_WRKDIR= ${WRKSRC}/EMBASSY
EMNU_VERSION= 1.0.5
HMMER_VERSION= 2.1.1
MEME_VERSION= 2.3.1
MSE_VERSION= 0.0.4
TOPO_VERSION= 0.1
PHYLIP_VERSION= 3.573c
DOC_DIRS= doc/manuals doc/tutorials doc/programs/text doc/programs/html
CONFIG_FILE= ${WRKSRC}/emboss/emboss.default.template
.for app in EMNU HMMER MEME MSE PHYLIP TOPO
SCRIPTS_ENV+= ${app}_VERSION="${${app}_VERSION}"
.if defined(WITH_${app})
APPLIST+= ${app}
${app}_WRKSRC= ${EMBASSY_WRKDIR}/${app}-${${app}_VERSION}
${app}_DISTFILE=${app}-${${app}_VERSION}${EXTRACT_SUFX}
DISTFILES+= ${${app}_DISTFILE}
PLIST_${app}= ""
.else
PLIST_${app}= "@comment "
.endif
PLIST_SUB+= PLIST_${app}=${PLIST_${app}}
.endfor
# Jemboss support is a work in progress.
#
#.if defined(WITH_JEMBOSS)
#USE_JAVA= 1.3+
#CONFIGURE_ARGS+= --with-java=${JAVA_HOME}/include \
# --with-javaos=${JAVA_HOME}/include/${JAVA_OS:L}
#CONFIGURE_ENV+= PATH=${PATH}:${JAVA_HOME}/bin
#MAKE_ENV+= PATH=${PATH}:${JAVA_HOME}/bin
#JEMBOSS_WRKSRC= ${WRKSRC}/jemboss
#.endif
pre-fetch:
@ ${SETENV} ${SCRIPTS_ENV} ${SH} ${SCRIPTDIR}/configure.${PORTNAME}
post-extract:
.for app in ${APPLIST}
@ ${MKDIR} ${EMBASSY_WRKDIR}
@ cd ${EMBASSY_WRKDIR} && ${EXTRACT_CMD} ${EXTRACT_BEFORE_ARGS} \
${_DISTDIR}/${${app}_DISTFILE} ${EXTRACT_AFTER_ARGS}
@ if [ `id -u` = 0 ]; then \
${CHMOD} -R ug-s ${${app}_WRKSRC}; \
${CHOWN} -R 0:0 ${${app}_WRKSRC}; \
fi
.endfor
post-patch:
.for DIR in ${DOC_DIRS}
@ ${PERL} -pi.orig -e \
's#\$$\(prefix\)/share/\$$\(PACKAGE\)/doc#\$$\(datadir\)/doc/\$$\(PACKAGE\)#' \
${WRKSRC}/${DIR}/Makefile.in
.endfor
post-configure:
.for app in ${APPLIST}
@ cd ${${app}_WRKSRC} && \
${SETENV} CC="${CC}" CXX="${CXX}" CFLAGS="${CFLAGS}" \
CXXFLAGS="${CXXFLAGS}" \
INSTALL="/usr/bin/install -c -o ${BINOWN} -g ${BINGRP}" \
INSTALL_DATA="${INSTALL_DATA}" \
INSTALL_PROGRAM="${INSTALL_PROGRAM}" \
INSTALL_SCRIPT="${INSTALL_SCRIPT}" \
${CONFIGURE_ENV} ./${CONFIGURE_SCRIPT} ${CONFIGURE_ARGS}
.endfor
post-build:
.for app in ${APPLIST}
@ cd ${${app}_WRKSRC} && \
${SETENV} ${MAKE_ENV} ${GMAKE} ${MAKE_FLAGS} ${MAKEFILE} \
${MAKE_ARGS}
.endfor
#.if defined(WITH_JEMBOSS)
# @ cd ${JEMBOSS_WRKSRC} && \
# ${SETENV} ${MAKE_ENV} ${GMAKE} ${MAKE_FLAGS} ${MAKEFILE} \
# ${MAKE_ARGS}
#.endif
post-install:
.for app in ${APPLIST}
@ cd ${${app}_WRKSRC} && \
${SETENV} ${MAKE_ENV} ${GMAKE} ${MAKE_FLAGS} ${MAKEFILE} \
${MAKE_ARGS} ${INSTALL_TARGET}
.endfor
@ ${PERL} -pe 's#%%PREFIX%%#${PREFIX}#' \
${CONFIG_FILE} > ${PREFIX}/etc/emboss.default.sample && \
${CHOWN} ${SHAREOWN}:${SHAREGRP} \
${PREFIX}/etc/emboss.default.sample
@ ${PERL} -pe 's#%%PREFIX%%#${PREFIX}#' \
pkg-message > ${PKGMESSAGE}
.if !defined(BATCH)
@ ${CAT} ${PKGMESSAGE}
.endif
post-clean:
@ ${RM} -f ${WRKDIRPREFIX}${.CURDIR}/Makefile.inc
.include <bsd.port.mk>
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