Index: head/biology/ncbi-blast+/Makefile =================================================================== --- head/biology/ncbi-blast+/Makefile (revision 504152) +++ head/biology/ncbi-blast+/Makefile (revision 504153) @@ -1,57 +1,63 @@ # $FreeBSD$ PORTNAME= ncbi-blast+ DISTVERSION= 2.9.0 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= ${WRKSRC}/scripts/projects/blast/LICENSE -BROKEN_powerpc64= fails to build: Error 2 - LIB_DEPENDS= libpcre.so:devel/pcre \ liblmdb.so:databases/lmdb \ liblzo2.so:archivers/lzo2 \ libgnutls.so:security/gnutls \ libtspi.so:security/trousers \ libgmp.so:math/gmp \ libidn2.so:dns/libidn2 \ libnettle.so:security/nettle \ libhogweed.so:security/nettle \ libtasn1.so:security/libtasn1 \ libp11-kit.so:security/p11-kit \ libgcrypt.so:security/libgcrypt \ libgpg-error.so:security/libgpg-error \ libsqlite3.so:databases/sqlite3 -RUN_DEPENDS= p5-List-MoreUtils>=0:lang/p5-List-MoreUtils +RUN_DEPENDS= p5-List-MoreUtils>=0:lang/p5-List-MoreUtils \ + p5-JSON>=0:converters/p5-JSON USES= compiler:openmp gmake shebangfix perl5 python USE_LDCONFIG= yes SHEBANG_FILES= src/app/blast/legacy_blast.pl \ src/app/blast/update_blastdb.pl \ src/app/winmasker/windowmasker_2.2.22_adapter.py \ src/app/blast/get_species_taxids.sh GNU_CONFIGURE= yes # configure chooses /usr/local/bin/ar with no flags # FreeBSD boost port flagged by configure as untested version # --libdir=${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++ WRKSRC_SUBDIR= c++ +.include + +# Force newer GCC on platforms using GCC 4.2 as base +.if ${CHOSEN_COMPILER_TYPE} == gcc +USE_GCC= yes +.endif + post-install: @${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 +.include