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# Created by: Jason Bacon <bacon4000@gmail.com>
# $FreeBSD$
PORTNAME= blast+
PORTVERSION= 2.2.30
PORTREVISION= 2
CATEGORIES= biology
MASTER_SITES= http://ftp.ncbi.nlm.nih.gov/blast/executables/blast+/${PORTVERSION}/ \
http://acadix.biz/Ports/distfiles/
PKGNAMEPREFIX= ncbi-
DISTNAME= ncbi-blast-${PORTVERSION}+-src
MAINTAINER= bacon4000@gmail.com
COMMENT= NCBI implementation of Basic Local Alignment Search Tool
LICENSE= Public_domain
LICENSE_NAME= Public Domain
LICENSE_FILE= ${WRKSRC}/scripts/projects/blast/LICENSE
LICENSE_PERMS= dist-mirror dist-sell pkg-mirror pkg-sell auto-accept
LIB_DEPENDS= libpcre.so:${PORTSDIR}/devel/pcre \
libbz2.so:${PORTSDIR}/archivers/bzip2
RUN_DEPENDS= p5-List-MoreUtils>=0:${PORTSDIR}/lang/p5-List-MoreUtils
WRKSRC= ${WRKDIR}/${DISTNAME}/c++
GNU_CONFIGURE= yes
USES= gmake shebangfix perl5 python
SHEBANG_FILES= src/app/blast/legacy_blast.pl \
src/app/blast/update_blastdb.pl \
src/app/winmasker/windowmasker_2.2.22_adapter.py
# Requires openmp
USE_GCC= yes
USE_LDCONFIG= yes
# The test for amq can hang, but amq is not needed so just avoid the test
CONFIGURE_ENV= ncbi_cv_prog_amq_w=no
# configure chooses /usr/local/bin/ar with no flags
# FreeBSD boost port flagged by configure as untested version
CONFIGURE_ARGS+=AR="ar cr" --without-boost
# Fix "undefined _ThreadRuneLocale" error on 10.0
# Fix unknown options in configure
# Add staging support to configure-generated Makefile
post-patch:
${REINPLACE_CMD} \
-e 's|-D_THREAD_SAFE|-D_THREAD_SAFE -D__RUNETYPE_INTERNAL|' \
-e '/--infodir=DIR/d' \
-e '/--mandir=DIR/d' \
${WRKSRC}/src/build-system/configure
${REINPLACE_CMD} -e 's|@prefix@|${STAGEDIR}@prefix@|g' \
${WRKSRC}/src/build-system/Makefile.in.top
post-install:
${STRIP_CMD} ${STAGEDIR}${PREFIX}/lib/*.so
.include <bsd.port.mk>
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