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# $FreeBSD$
PORTNAME= ncbi-blast+
DISTVERSION= 2.7.1
PORTREVISION= 2
CATEGORIES= biology perl5 python
MASTER_SITES= https://ftp.ncbi.nlm.nih.gov/blast/executables/blast+/LATEST/ \
https://ftp.ncbi.nlm.nih.gov/blast/executables/blast+/${PORTVERSION}/
DISTNAME= ncbi-blast-${PORTVERSION}+-src
MAINTAINER= jwb@FreeBSD.org
COMMENT= NCBI implementation of Basic Local Alignment Search Tool
LICENSE= PD
LICENSE_FILE= ${WRKSRC}/scripts/projects/blast/LICENSE
BROKEN_powerpc64= fails to build: Error 2
LIB_DEPENDS= libpcre.so:devel/pcre \
liblmdb.so:databases/lmdb \
liblzo2.so:archivers/lzo2 \
libgnutls.so:security/gnutls \
libtspi.so:security/trousers \
libgmp.so:math/gmp \
libidn2.so:dns/libidn2 \
libnettle.so:security/nettle \
libhogweed.so:security/nettle \
libtasn1.so:security/libtasn1 \
libp11-kit.so:security/p11-kit \
libgcrypt.so:security/libgcrypt \
libgpg-error.so:security/libgpg-error \
libsqlite3.so:databases/sqlite3
RUN_DEPENDS= p5-List-MoreUtils>=0:lang/p5-List-MoreUtils
USES= compiler:openmp gmake shebangfix perl5 python
SHEBANG_FILES= src/app/blast/legacy_blast.pl \
src/app/blast/update_blastdb.pl \
src/app/winmasker/windowmasker_2.2.22_adapter.py
USE_LDCONFIG= yes
GNU_CONFIGURE= yes
# The test for amq can hang, but amq is not needed so just avoid the test
CONFIGURE_ENV= ncbi_cv_prog_amq_w=no
# configure chooses /usr/local/bin/ar with no flags
# FreeBSD boost port flagged by configure as untested version
# --libdir=${PREFIX}/lib/ncbi-tools++ doesn't respect DESTDIR, so do
# a postinstall mv.
CONFIGURE_ARGS+= AR="ar cr" --without-boost --libdir=${PREFIX}/lib/ncbi-tools++
WRKSRC_SUBDIR= c++
MAKE_JOBS_UNSAFE= yes
# Fix "undefined _ThreadRuneLocale" error on 10.0
# Fix unknown options in configure
post-patch:
@${REINPLACE_CMD} \
-e 's|-D_THREAD_SAFE|-D_THREAD_SAFE -D__RUNETYPE_INTERNAL|' \
-e '/--infodir=DIR/d' \
-e '/--mandir=DIR/d' \
${WRKSRC}/src/build-system/configure
post-install:
@${RM} ${STAGEDIR}${PREFIX}/include/ncbi-tools++/*/*/.cvsignore.extra
@${RM} -rf ${STAGEDIR}${PREFIX}/lib/X11
@${RMDIR} ${STAGEDIR}${PREFIX}/lib/debug
${STRIP_CMD} ${STAGEDIR}${PREFIX}/lib/ncbi-tools++/*.so
.include <bsd.port.mk>
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