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PORTNAME= ncbi-cxx-toolkit
DISTVERSIONPREFIX= release-
DISTVERSION= 28.0.3
PORTREVISION= 1
CATEGORIES= biology science devel
MAINTAINER= yuri@FreeBSD.org
COMMENT= NCBI C++ Toolkit
WWW= https://ncbi.github.io/cxx-toolkit/
LICENSE= PD
LICENSE_FILE= ${WRKSRC}/doc/public/LICENSE
BROKEN_armv6= platform not defined for FreeBSD arm, see https://github.com/ncbi/ncbi-cxx-toolkit-public/issues/2
BROKEN_armv7= link fails due to a missing function, see https://github.com/ncbi/ncbi-cxx-toolkit-public/issues/8
LIB_DEPENDS= libbz2.so:archivers/bzip2 \
libcdd.so:math/cddlib \
liblmdb.so:databases/lmdb \
libpcre.so:devel/pcre \
libunwind.so:devel/libunwind \
libzstd.so:archivers/zstd
RUN_DEPENDS= bash:shells/bash
USES= compiler:c++17-lang gmake mysql perl5 python shebangfix ssl xorg
USE_XORG= x11 xpm
USE_GITHUB= yes
GH_ACCOUNT= ncbi
GH_PROJECT= ${PORTNAME}-public
SHEBANG_FILES= src/app/blast/get_species_taxids.sh
SHEBANG_GLOB= *.pl *.py
GNU_CONFIGURE= yes
CONFIGURE_ARGS= --without-debug --with-dll --without-static \
--without-vdb
CONFLICTS_INSTALL= dakota libxdiff ncbi-blast+ ncbi-toolkit proj \
py*-speedtest-cli # bin/blast_formatter bin/speedtest bin/test_regexp lib/libeutils.so lib/libproj.so lib/libxdiff.so
post-install:
# strip
@${FIND} ${STAGEDIR}${PREFIX}/bin -type f | ${GREP} -v -E '\.(sh|py|pl)$$' | ${XARGS} ${STRIP_CMD}
@${FIND} ${STAGEDIR}${PREFIX}/lib -name "*.so" | ${XARGS} ${STRIP_CMD}
# remove the conflicting files
@${RM} \
${STAGEDIR}${PREFIX}/lib/libcdd.so \
${STAGEDIR}${PREFIX}/lib/liblmdb.so
# autoplist: thousands of files
@cd ${STAGEDIR}${PREFIX} && \
${FIND} * -type f -or -type l >> ${TMPPLIST}
.include <bsd.port.mk>
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