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PORTNAME= ncbi-blast+
DISTVERSION= 2.12.0
PORTREVISION= 8
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
WWW= http://blast.ncbi.nlm.nih.gov
LICENSE= PD
LICENSE_FILE= ${WRKSRC}/scripts/projects/blast/LICENSE
LIB_DEPENDS= libpcre.so:devel/pcre \
liblmdb.so:databases/lmdb \
liblzo2.so:archivers/lzo2 \
libgnutls.so:security/gnutls \
libtspi.so:security/trousers \
libgmp.so:math/gmp \
libidn2.so:dns/libidn2 \
libnettle.so:security/nettle \
libhogweed.so:security/nettle \
libtasn1.so:security/libtasn1 \
libp11-kit.so:security/p11-kit \
libgcrypt.so:security/libgcrypt \
libgpg-error.so:security/libgpg-error \
libsqlite3.so:databases/sqlite3 \
libuv.so:devel/libuv \
libnghttp2.so:www/libnghttp2 \
libgrpc.so:devel/grpc
RUN_DEPENDS= p5-List-MoreUtils>=0:lang/p5-List-MoreUtils \
p5-JSON>=0:converters/p5-JSON
USES= compiler:c++14-lang gmake localbase:ldflags shebangfix perl5 python:3.6+
USE_LDCONFIG= yes
SHEBANG_FILES= src/app/blast/legacy_blast.pl \
src/app/blast/update_blastdb.pl \
src/app/blast/cleanup-blastdb-volumes.py \
src/app/blast/get_species_taxids.sh \
src/app/winmasker/windowmasker_2.2.22_adapter.py
GNU_CONFIGURE= yes
# configure chooses /usr/local/bin/ar with no flags
# FreeBSD boost port flagged by configure as untested version
# --libdir=${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++
CONFLICTS_INSTALL= ncbi-cxx-toolkit
WRKSRC_SUBDIR= c++
.if !exists(/usr/include/omp.h)
CONFIGURE_ARGS+= --without-openmp
.endif
.include <bsd.port.pre.mk>
.if ${CHOSEN_COMPILER_TYPE} == gcc
# In case of problems: https://bugs.freebsd.org/bugzilla/show_bug.cgi?id=220822
LDFLAGS+= -latomic # Only exists in gcc libs
.endif
post-install:
@${RM} ${STAGEDIR}${PREFIX}/include/ncbi-tools++/*/*/.cvsignore.extra
@${RM} -rf ${STAGEDIR}${PREFIX}/lib/X11
@${RM} ${STAGEDIR}${PREFIX}/include/ncbi-tools++/common/config/ncbiconf_msvc_site.h.in
@${RM} ${STAGEDIR}${PREFIX}/include/ncbi-tools++/common/ncbi_build_ver.h.in
@${RM} ${STAGEDIR}${PREFIX}/include/ncbi-tools++/common/ncbi_revision.h.in
@${RMDIR} ${STAGEDIR}${PREFIX}/lib/debug
${STRIP_CMD} ${STAGEDIR}${PREFIX}/lib/ncbi-tools++/*.so
.include <bsd.port.post.mk>
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