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# Created by: Tony Maher <tonym@biolateral.com.au>
# $FreeBSD$
PORTNAME= wise
PORTVERSION= 2.4.1
CATEGORIES= biology
MASTER_SITES= http://www.ebi.ac.uk/~birney/wise2/
DISTNAME= ${PORTNAME}${PORTVERSION}
MAINTAINER= ports@FreeBSD.org
COMMENT= Intelligent algorithms for DNA searches
OPTIONS_DEFINE= DOCS EXAMPLES
BUILD_WRKSRC= ${WRKSRC}/src
USES= pkgconfig
USE_GNOME= glib20
MAKEFILE= makefile
MAKE_JOBS_SAFE= yes
SUB_FILES= pkg-message
PORTDOCS= *
PORTEXAMPLES= *
PLIST_FILES= ${BINFILES:S,^,bin/,} ${DATAFILES:S,^,%%DATADIR%%/,}
PLIST_DIRS= %%DATADIR%%
#
# Actually want an 'ALL_TARGET = all perl' which then requires
# 'USE_PERL5= yes' but the perl sub-build is currently broken.
# The perl stuff is only so you can use the base libraries/functions
# from perl scripts. This is extra, independent functionality for the
# port and not required for the base system which are C applications.
# When the perl part is fixed, it will require an install line
# something like '@cd ${WRKSRC}/perl/Wise2; ${MAKE} install'
#
BINFILES= dba dnal estwise estwisedb genewise genewisedb promoterwise \
psw pswdb scanwise scanwise_server
DATAFILES= BLOSUM30.bla BLOSUM45.bla BLOSUM62.bla BLOSUM80.bla aa.rnd \
cb.tmf codon.table gene.stat gon120.bla gon160.bla \
gon200.bla gon250.bla gon350.bla human.gf human.gp \
human.stats idenity.bla methods pb.gf pombe.gf tm.pri \
wise.2 wise.per worm.gf
.include <bsd.port.options.mk>
post-patch:
@${FIND} ${BUILD_WRKSRC} -name "makefile" | ${XARGS} \
${REINPLACE_CMD} -e \
's|^CC =|CC ?=| ; \
s|^CFLAGS =|CFLAGS +=| ; \
s|-O[0-9] | | ; \
s|-g | | ; \
s|-g[0-9] | | ; \
s|-lpthread|-pthread| ; \
s|glib-config|pkg-config glib-2.0| ; \
/welcome.csh/s|^|#|'
do-install:
.for i in ${BINFILES}
(cd ${BUILD_WRKSRC}/bin && ${INSTALL_PROGRAM} ${i} ${PREFIX}/bin)
.endfor
@${MKDIR} ${DATADIR}
.for i in ${DATAFILES}
(cd ${WRKSRC}/wisecfg && ${INSTALL_DATA} ${i} ${DATADIR})
.endfor
.if ${PORT_OPTIONS:MDOCS}
@${MKDIR} ${DOCSDIR}
@(cd ${WRKSRC}/docs && ${COPYTREE_SHARE} . ${DOCSDIR})
.endif
.if ${PORT_OPTIONS:MEXAMPLES}
@${MKDIR} ${EXAMPLESDIR}
@(cd ${WRKSRC}/test_data && ${COPYTREE_SHARE} . ${EXAMPLESDIR})
.endif
@${CAT} ${PKGMESSAGE}
.include <bsd.port.mk>
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