[package - head-armv7-default][biology/ncbi-blast+] Failed for ncbi-blast+-2.7.1_1 in stage
pkg-fallout at FreeBSD.org
pkg-fallout at FreeBSD.org
Sat Oct 27 09:15:53 UTC 2018
You are receiving this mail as a port that you maintain
is failing to build on the FreeBSD package build server.
Please investigate the failure and submit a PR to fix
build.
Maintainer: jwb at FreeBSD.org
Last committer: gerald at FreeBSD.org
Ident: $FreeBSD: head/biology/ncbi-blast+/Makefile 475857 2018-07-29 22:18:44Z gerald $
Log URL: http://beefy16.nyi.freebsd.org/data/head-armv7-default/p482948_s339695/logs/ncbi-blast+-2.7.1_1.log
Build URL: http://beefy16.nyi.freebsd.org/build.html?mastername=head-armv7-default&build=p482948_s339695
Log:
=>> Building biology/ncbi-blast+
build started at Sat Oct 27 01:31:01 UTC 2018
port directory: /usr/ports/biology/ncbi-blast+
package name: ncbi-blast+-2.7.1_1
building for: FreeBSD head-armv7-default-job-09 13.0-CURRENT FreeBSD 13.0-CURRENT 1300000 arm
maintained by: jwb at FreeBSD.org
Makefile ident: $FreeBSD: head/biology/ncbi-blast+/Makefile 475857 2018-07-29 22:18:44Z gerald $
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=======================<phase: check-sanity >============================
===> License PD accepted by the user
===========================================================================
=======================<phase: pkg-depends >============================
===> ncbi-blast+-2.7.1_1 depends on file: /usr/local/sbin/pkg - not found
===> Installing existing package /packages/All/pkg-1.10.5_5.txz
[head-armv7-default-job-09] Installing pkg-1.10.5_5...
[head-armv7-default-job-09] Extracting pkg-1.10.5_5: .......... done
===> ncbi-blast+-2.7.1_1 depends on file: /usr/local/sbin/pkg - found
===> Returning to build of ncbi-blast+-2.7.1_1
===========================================================================
=======================<phase: fetch-depends >============================
===========================================================================
=======================<phase: fetch >============================
===> License PD accepted by the user
<snip>
~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
/wrkdirs/usr/ports/biology/ncbi-blast+/work/ncbi-blast-2.7.1+-src/c++/include/corelib/ncbistr.hpp: In static member function 'static bool ncbi::NStr::StringToNumeric(ncbi::CTempString, TNumeric*, ncbi::NStr::TStringToNumFlags, int) [with TNumeric = wchar_t; ncbi::NStr::TStringToNumFlags = int]':
/wrkdirs/usr/ports/biology/ncbi-blast+/work/ncbi-blast-2.7.1+-src/c++/include/corelib/ncbistr.hpp:4549:11: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
if (n < numeric_limits<wchar_t>::min() || n > numeric_limits<wchar_t>::max()) {
~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
/wrkdirs/usr/ports/biology/ncbi-blast+/work/ncbi-blast-2.7.1+-src/c++/include/corelib/ncbistr.hpp:4549:51: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
if (n < numeric_limits<wchar_t>::min() || n > numeric_limits<wchar_t>::max()) {
~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
gmake[6]: Entering directory '/wrkdirs/usr/ports/biology/ncbi-blast+/work/ncbi-blast-2.7.1+-src/c++/ReleaseMT/build/app/blastdb'
Updating dependency information for /wrkdirs/usr/ports/biology/ncbi-blast+/work/ncbi-blast-2.7.1+-src/c++/src/app/blastdb/makeprofiledb.cpp.
/usr/local/bin/g++7 -std=gnu++11 -c -Wall -Wno-format-y2k -pthread -fopenmp -O2 -pipe -Wl,-rpath=/usr/local/lib/gcc7 -Wl,-rpath=/usr/local/lib/gcc7 -fPIC -DNCBI_MODULE=BLASTDB -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_MT -D_REENTRANT -D_THREAD_SAFE -D__RUNETYPE_INTERNAL -D__RUNETYPE_INTERNAL -D__RUNETYPE_INTERNAL -I/wrkdirs/usr/ports/biology/ncbi-blast+/work/ncbi-blast-2.7.1+-src/c++/ReleaseMT/inc -I/wrkdirs/usr/ports/biology/ncbi-blast+/work/ncbi-blast-2.7.1+-src/c++/include /wrkdirs/usr/ports/biology/ncbi-blast+/work/ncbi-blast-2.7.1+-src/c++/src/app/blastdb/makeprofiledb.cpp -o makeprofiledb.o
/usr/local/bin/g++7 -std=gnu++11 -Wl,-rpath,/usr/local/lib/gcc7/gcc/armv7-portbld-freebsd13.0/7.3.0/../../.. -Wl,-rpath,/usr/local/lib/ncbi-tools++ -Wl,-rpath,/usr/local/lib -Wl,--enable-new-dtags -Wl,-export-dynamic -pthread -fopenmp -Wl,-rpath=/usr/local/lib/gcc7 -L/usr/local/lib/gcc7 -O makeprofiledb.o -Wl,-rpath-link,/wrkdirs/usr/ports/biology/ncbi-blast+/work/ncbi-blast-2.7.1+-src/c++/ReleaseMT/lib -L/wrkdirs/usr/ports/biology/ncbi-blast+/work/ncbi-blast-2.7.1+-src/c++/ReleaseMT/lib -lwritedb-static -lblastinput-static -lncbi_xloader_blastdb_rmt-static -lncbi_xloader_blastdb-static -lxblastformat-static -lalign_format-static -ltaxon1-static -lblastdb_format-static -lgene_info-static -lxformat-static -lxcleanup-static -lgbseq-static -lmlacli-static -lmla-static -lmedlars-static -lpubmed-static -lvalid-static -ltaxon3-static -lxalnmgr-static -lblastxml-static -lblastxml2-static -lxcgi-static -lxhtml-static -lproteinkmer-static -lxblast-static -lxalgoblastdbindex-static -lcompositi
on_adjustment-static -lxalgodustmask-static -lxalgowinmask-static -lseqmasks_io-static -lseqdb-static -lblast_services-static -lxalnmgr-static -lxobjutil-static -lxobjread-static -lvariation-static -lcreaders-static -lsubmit-static -lxnetblastcli-static -lxnetblast-static -lblastdb-static -lscoremat-static -ltables-static -lncbi_xloader_genbank-static -lncbi_xreader_id1-static -lncbi_xreader_id2-static -lncbi_xreader_cache-static -ldbapi_driver-static -lncbi_xreader-static -lxconnect-static -lid1-static -lid2-static -lxobjmgr-static -lgenome_collection-static -lseqedit-static -lseqsplit-static -lsubmit-static -lseqset-static -lseq-static -lseqcode-static -lsequtil-static -lpub-static -lmedline-static -lbiblio-static -lgeneral-static -lxser-static -lxutil-static -lxncbi-static -lxcompress-static -lz -lbz2 -llzo2 -lgnutls -L/usr/local/lib -lgcrypt -lgpg-error -lz -lz -lm -pthread -o makeprofiledb
strip makeprofiledb
/bin/sh /wrkdirs/usr/ports/biology/ncbi-blast+/work/ncbi-blast-2.7.1+-src/c++/scripts/common/impl/if_diff.sh /bin/ln -f makeprofiledb /wrkdirs/usr/ports/biology/ncbi-blast+/work/ncbi-blast-2.7.1+-src/c++/ReleaseMT/bin
/bin/ln -f makeprofiledb /wrkdirs/usr/ports/biology/ncbi-blast+/work/ncbi-blast-2.7.1+-src/c++/ReleaseMT/bin/makeprofiledb
gmake[6]: Leaving directory '/wrkdirs/usr/ports/biology/ncbi-blast+/work/ncbi-blast-2.7.1+-src/c++/ReleaseMT/build/app/blastdb'
gmake[5]: Leaving directory '/wrkdirs/usr/ports/biology/ncbi-blast+/work/ncbi-blast-2.7.1+-src/c++/ReleaseMT/build/app/blastdb'
gmake[4]: Leaving directory '/wrkdirs/usr/ports/biology/ncbi-blast+/work/ncbi-blast-2.7.1+-src/c++/ReleaseMT/build/app/blastdb'
/usr/local/bin/gmake -C vecscreen -w all_r || exit 5
gmake[4]: Entering directory '/wrkdirs/usr/ports/biology/ncbi-blast+/work/ncbi-blast-2.7.1+-src/c++/ReleaseMT/build/app/vecscreen'
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/usr/local/bin/gmake -C agpconvert -w all_r || exit 5
gmake[4]: Entering directory '/wrkdirs/usr/ports/biology/ncbi-blast+/work/ncbi-blast-2.7.1+-src/c++/ReleaseMT/build/app/agpconvert'
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/usr/local/bin/gmake -C id2_fetch -w all_r || exit 5
gmake[4]: Entering directory '/wrkdirs/usr/ports/biology/ncbi-blast+/work/ncbi-blast-2.7.1+-src/c++/ReleaseMT/build/app/id2_fetch'
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/usr/local/bin/gmake -C agp_validate -w all_r || exit 5
gmake[4]: Entering directory '/wrkdirs/usr/ports/biology/ncbi-blast+/work/ncbi-blast-2.7.1+-src/c++/ReleaseMT/build/app/agp_validate'
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/usr/local/bin/gmake -C objextract -w all_r || exit 5
gmake[4]: Entering directory '/wrkdirs/usr/ports/biology/ncbi-blast+/work/ncbi-blast-2.7.1+-src/c++/ReleaseMT/build/app/objextract'
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/usr/local/bin/gmake -C bdb_env_keeper -w all_r || exit 5
gmake[4]: Entering directory '/wrkdirs/usr/ports/biology/ncbi-blast+/work/ncbi-blast-2.7.1+-src/c++/ReleaseMT/build/app/bdb_env_keeper'
gmake[4]: Leaving directory '/wrkdirs/usr/ports/biology/ncbi-blast+/work/ncbi-blast-2.7.1+-src/c++/ReleaseMT/build/app/bdb_env_keeper'
/usr/local/bin/gmake -C nw_aligner -w all_r || exit 5
gmake[4]: Entering directory '/wrkdirs/usr/ports/biology/ncbi-blast+/work/ncbi-blast-2.7.1+-src/c++/ReleaseMT/build/app/nw_aligner'
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/usr/local/bin/gmake -C speedtest -w all_r || exit 5
gmake[4]: Entering directory '/wrkdirs/usr/ports/biology/ncbi-blast+/work/ncbi-blast-2.7.1+-src/c++/ReleaseMT/build/app/speedtest'
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/usr/local/bin/gmake -C idmapper -w all_r || exit 5
gmake[4]: Entering directory '/wrkdirs/usr/ports/biology/ncbi-blast+/work/ncbi-blast-2.7.1+-src/c++/ReleaseMT/build/app/idmapper'
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/usr/local/bin/gmake -C formatguess -w all_r || exit 5
gmake[4]: Entering directory '/wrkdirs/usr/ports/biology/ncbi-blast+/work/ncbi-blast-2.7.1+-src/c++/ReleaseMT/build/app/formatguess'
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/usr/local/bin/gmake -C multireader -w all_r || exit 5
gmake[4]: Entering directory '/wrkdirs/usr/ports/biology/ncbi-blast+/work/ncbi-blast-2.7.1+-src/c++/ReleaseMT/build/app/multireader'
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/usr/local/bin/gmake -C read_blast_result -w all_r || exit 5
gmake[4]: Entering directory '/wrkdirs/usr/ports/biology/ncbi-blast+/work/ncbi-blast-2.7.1+-src/c++/ReleaseMT/build/app/read_blast_result'
gmake[4]: Leaving directory '/wrkdirs/usr/ports/biology/ncbi-blast+/work/ncbi-blast-2.7.1+-src/c++/ReleaseMT/build/app/read_blast_result'
/usr/local/bin/gmake -C splign -w all_r || exit 5
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/usr/local/bin/gmake -C hfilter -w all_r || exit 5
gmake[4]: Entering directory '/wrkdirs/usr/ports/biology/ncbi-blast+/work/ncbi-blast-2.7.1+-src/c++/ReleaseMT/build/app/hfilter'
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/usr/local/bin/gmake -C annotwriter -w all_r || exit 5
gmake[4]: Entering directory '/wrkdirs/usr/ports/biology/ncbi-blast+/work/ncbi-blast-2.7.1+-src/c++/ReleaseMT/build/app/annotwriter'
gmake[4]: Leaving directory '/wrkdirs/usr/ports/biology/ncbi-blast+/work/ncbi-blast-2.7.1+-src/c++/ReleaseMT/build/app/annotwriter'
/usr/local/bin/gmake -C compart -w all_r || exit 5
gmake[4]: Entering directory '/wrkdirs/usr/ports/biology/ncbi-blast+/work/ncbi-blast-2.7.1+-src/c++/ReleaseMT/build/app/compart'
gmake[4]: Leaving directory '/wrkdirs/usr/ports/biology/ncbi-blast+/work/ncbi-blast-2.7.1+-src/c++/ReleaseMT/build/app/compart'
/usr/local/bin/gmake -C streamtest -w all_r || exit 5
gmake[4]: Entering directory '/wrkdirs/usr/ports/biology/ncbi-blast+/work/ncbi-blast-2.7.1+-src/c++/ReleaseMT/build/app/streamtest'
gmake[4]: Leaving directory '/wrkdirs/usr/ports/biology/ncbi-blast+/work/ncbi-blast-2.7.1+-src/c++/ReleaseMT/build/app/streamtest'
/usr/local/bin/gmake -C lds2_indexer -w all_r || exit 5
gmake[4]: Entering directory '/wrkdirs/usr/ports/biology/ncbi-blast+/work/ncbi-blast-2.7.1+-src/c++/ReleaseMT/build/app/lds2_indexer'
gmake[4]: Leaving directory '/wrkdirs/usr/ports/biology/ncbi-blast+/work/ncbi-blast-2.7.1+-src/c++/ReleaseMT/build/app/lds2_indexer'
/usr/local/bin/gmake -C discrepancy_report -w all_r || exit 5
gmake[4]: Entering directory '/wrkdirs/usr/ports/biology/ncbi-blast+/work/ncbi-blast-2.7.1+-src/c++/ReleaseMT/build/app/discrepancy_report'
gmake[4]: Leaving directory '/wrkdirs/usr/ports/biology/ncbi-blast+/work/ncbi-blast-2.7.1+-src/c++/ReleaseMT/build/app/discrepancy_report'
/usr/local/bin/gmake -C biosample_chk -w all_r || exit 5
gmake[4]: Entering directory '/wrkdirs/usr/ports/biology/ncbi-blast+/work/ncbi-blast-2.7.1+-src/c++/ReleaseMT/build/app/biosample_chk'
gmake[4]: Leaving directory '/wrkdirs/usr/ports/biology/ncbi-blast+/work/ncbi-blast-2.7.1+-src/c++/ReleaseMT/build/app/biosample_chk'
/usr/local/bin/gmake -C gap_stats -w all_r || exit 5
gmake[4]: Entering directory '/wrkdirs/usr/ports/biology/ncbi-blast+/work/ncbi-blast-2.7.1+-src/c++/ReleaseMT/build/app/gap_stats'
gmake[4]: Leaving directory '/wrkdirs/usr/ports/biology/ncbi-blast+/work/ncbi-blast-2.7.1+-src/c++/ReleaseMT/build/app/gap_stats'
/usr/local/bin/gmake -C table2asn -w all_r || exit 5
gmake[4]: Entering directory '/wrkdirs/usr/ports/biology/ncbi-blast+/work/ncbi-blast-2.7.1+-src/c++/ReleaseMT/build/app/table2asn'
gmake[4]: Leaving directory '/wrkdirs/usr/ports/biology/ncbi-blast+/work/ncbi-blast-2.7.1+-src/c++/ReleaseMT/build/app/table2asn'
/usr/local/bin/gmake -C srcchk -w all_r || exit 5
gmake[4]: Entering directory '/wrkdirs/usr/ports/biology/ncbi-blast+/work/ncbi-blast-2.7.1+-src/c++/ReleaseMT/build/app/srcchk'
gmake[4]: Leaving directory '/wrkdirs/usr/ports/biology/ncbi-blast+/work/ncbi-blast-2.7.1+-src/c++/ReleaseMT/build/app/srcchk'
/usr/local/bin/gmake -C tableval -w all_r || exit 5
gmake[4]: Entering directory '/wrkdirs/usr/ports/biology/ncbi-blast+/work/ncbi-blast-2.7.1+-src/c++/ReleaseMT/build/app/tableval'
gmake[4]: Leaving directory '/wrkdirs/usr/ports/biology/ncbi-blast+/work/ncbi-blast-2.7.1+-src/c++/ReleaseMT/build/app/tableval'
/usr/local/bin/gmake -C ncbi_encrypt -w all_r || exit 5
gmake[4]: Entering directory '/wrkdirs/usr/ports/biology/ncbi-blast+/work/ncbi-blast-2.7.1+-src/c++/ReleaseMT/build/app/ncbi_encrypt'
gmake[4]: Leaving directory '/wrkdirs/usr/ports/biology/ncbi-blast+/work/ncbi-blast-2.7.1+-src/c++/ReleaseMT/build/app/ncbi_encrypt'
/usr/local/bin/gmake -C ssub_fork -w all_r || exit 5
gmake[4]: Entering directory '/wrkdirs/usr/ports/biology/ncbi-blast+/work/ncbi-blast-2.7.1+-src/c++/ReleaseMT/build/app/ssub_fork'
gmake[4]: Leaving directory '/wrkdirs/usr/ports/biology/ncbi-blast+/work/ncbi-blast-2.7.1+-src/c++/ReleaseMT/build/app/ssub_fork'
/usr/local/bin/gmake -C asn_cache -w all_r || exit 5
gmake[4]: Entering directory '/wrkdirs/usr/ports/biology/ncbi-blast+/work/ncbi-blast-2.7.1+-src/c++/ReleaseMT/build/app/asn_cache'
gmake[4]: Leaving directory '/wrkdirs/usr/ports/biology/ncbi-blast+/work/ncbi-blast-2.7.1+-src/c++/ReleaseMT/build/app/asn_cache'
/usr/local/bin/gmake -C magicblast -w all_r || exit 5
gmake[4]: Entering directory '/wrkdirs/usr/ports/biology/ncbi-blast+/work/ncbi-blast-2.7.1+-src/c++/ReleaseMT/build/app/magicblast'
gmake[4]: Leaving directory '/wrkdirs/usr/ports/biology/ncbi-blast+/work/ncbi-blast-2.7.1+-src/c++/ReleaseMT/build/app/magicblast'
/usr/local/bin/gmake -C pub_report -w all_r || exit 5
gmake[4]: Entering directory '/wrkdirs/usr/ports/biology/ncbi-blast+/work/ncbi-blast-2.7.1+-src/c++/ReleaseMT/build/app/pub_report'
gmake[4]: Leaving directory '/wrkdirs/usr/ports/biology/ncbi-blast+/work/ncbi-blast-2.7.1+-src/c++/ReleaseMT/build/app/pub_report'
/usr/local/bin/gmake -C prot_match -w all_r || exit 5
gmake[4]: Entering directory '/wrkdirs/usr/ports/biology/ncbi-blast+/work/ncbi-blast-2.7.1+-src/c++/ReleaseMT/build/app/prot_match'
gmake[4]: Leaving directory '/wrkdirs/usr/ports/biology/ncbi-blast+/work/ncbi-blast-2.7.1+-src/c++/ReleaseMT/build/app/prot_match'
/usr/local/bin/gmake -C gff_deconcat -w all_r || exit 5
gmake[4]: Entering directory '/wrkdirs/usr/ports/biology/ncbi-blast+/work/ncbi-blast-2.7.1+-src/c++/ReleaseMT/build/app/gff_deconcat'
gmake[4]: Leaving directory '/wrkdirs/usr/ports/biology/ncbi-blast+/work/ncbi-blast-2.7.1+-src/c++/ReleaseMT/build/app/gff_deconcat'
/usr/local/bin/gmake -C sub_fuse -w all_r || exit 5
gmake[4]: Entering directory '/wrkdirs/usr/ports/biology/ncbi-blast+/work/ncbi-blast-2.7.1+-src/c++/ReleaseMT/build/app/sub_fuse'
gmake[4]: Leaving directory '/wrkdirs/usr/ports/biology/ncbi-blast+/work/ncbi-blast-2.7.1+-src/c++/ReleaseMT/build/app/sub_fuse'
NCBI_BUT_EXPENDABLE=' (but expendable)' /usr/local/bin/gmake -C split_cache -w all_r || exit 5
gmake[4]: Entering directory '/wrkdirs/usr/ports/biology/ncbi-blast+/work/ncbi-blast-2.7.1+-src/c++/ReleaseMT/build/app/split_cache'
gmake[4]: Leaving directory '/wrkdirs/usr/ports/biology/ncbi-blast+/work/ncbi-blast-2.7.1+-src/c++/ReleaseMT/build/app/split_cache'
NCBI_BUT_EXPENDABLE=' (but expendable)' /usr/local/bin/gmake -C wig2table -w all_r || exit 5
gmake[4]: Entering directory '/wrkdirs/usr/ports/biology/ncbi-blast+/work/ncbi-blast-2.7.1+-src/c++/ReleaseMT/build/app/wig2table'
gmake[4]: Leaving directory '/wrkdirs/usr/ports/biology/ncbi-blast+/work/ncbi-blast-2.7.1+-src/c++/ReleaseMT/build/app/wig2table'
NCBI_BUT_EXPENDABLE=' (but expendable)' /usr/local/bin/gmake -C netcache -w all_r || exit 5
gmake[4]: Entering directory '/wrkdirs/usr/ports/biology/ncbi-blast+/work/ncbi-blast-2.7.1+-src/c++/ReleaseMT/build/app/netcache'
gmake[4]: Leaving directory '/wrkdirs/usr/ports/biology/ncbi-blast+/work/ncbi-blast-2.7.1+-src/c++/ReleaseMT/build/app/netcache'
NCBI_BUT_EXPENDABLE=' (but expendable)' /usr/local/bin/gmake -C rmblastn -w all_r || exit 5
gmake[4]: Entering directory '/wrkdirs/usr/ports/biology/ncbi-blast+/work/ncbi-blast-2.7.1+-src/c++/ReleaseMT/build/app/rmblastn'
gmake[4]: Leaving directory '/wrkdirs/usr/ports/biology/ncbi-blast+/work/ncbi-blast-2.7.1+-src/c++/ReleaseMT/build/app/rmblastn'
NCBI_BUT_EXPENDABLE=' (but expendable)' /usr/local/bin/gmake -C dblb -w all_r || exit 5
gmake[4]: Entering directory '/wrkdirs/usr/ports/biology/ncbi-blast+/work/ncbi-blast-2.7.1+-src/c++/ReleaseMT/build/app/dblb'
gmake[4]: Leaving directory '/wrkdirs/usr/ports/biology/ncbi-blast+/work/ncbi-blast-2.7.1+-src/c++/ReleaseMT/build/app/dblb'
NCBI_BUT_EXPENDABLE=' (but expendable)' /usr/local/bin/gmake -C tls -w all_r || exit 5
gmake[4]: Entering directory '/wrkdirs/usr/ports/biology/ncbi-blast+/work/ncbi-blast-2.7.1+-src/c++/ReleaseMT/build/app/tls'
gmake[4]: Leaving directory '/wrkdirs/usr/ports/biology/ncbi-blast+/work/ncbi-blast-2.7.1+-src/c++/ReleaseMT/build/app/tls'
NCBI_BUT_EXPENDABLE=' (but expendable)' /usr/local/bin/gmake -C idfetch -w all_r || exit 5
gmake[4]: Entering directory '/wrkdirs/usr/ports/biology/ncbi-blast+/work/ncbi-blast-2.7.1+-src/c++/ReleaseMT/build/app/idfetch'
gmake[4]: Leaving directory '/wrkdirs/usr/ports/biology/ncbi-blast+/work/ncbi-blast-2.7.1+-src/c++/ReleaseMT/build/app/idfetch'
gmake[3]: Leaving directory '/wrkdirs/usr/ports/biology/ncbi-blast+/work/ncbi-blast-2.7.1+-src/c++/ReleaseMT/build/app'
/usr/local/bin/gmake -C sample -w all_r || exit 5
gmake[3]: Entering directory '/wrkdirs/usr/ports/biology/ncbi-blast+/work/ncbi-blast-2.7.1+-src/c++/ReleaseMT/build/sample'
gmake[3]: Leaving directory '/wrkdirs/usr/ports/biology/ncbi-blast+/work/ncbi-blast-2.7.1+-src/c++/ReleaseMT/build/sample'
/usr/local/bin/gmake -C internal -w all_r || exit 5
gmake[3]: Entering directory '/wrkdirs/usr/ports/biology/ncbi-blast+/work/ncbi-blast-2.7.1+-src/c++/ReleaseMT/build/internal'
gmake[3]: Leaving directory '/wrkdirs/usr/ports/biology/ncbi-blast+/work/ncbi-blast-2.7.1+-src/c++/ReleaseMT/build/internal'
gmake[2]: Leaving directory '/wrkdirs/usr/ports/biology/ncbi-blast+/work/ncbi-blast-2.7.1+-src/c++/ReleaseMT/build'
gmake[1]: Leaving directory '/wrkdirs/usr/ports/biology/ncbi-blast+/work/ncbi-blast-2.7.1+-src/c++'
===========================================================================
=======================<phase: run-depends >============================
===> ncbi-blast+-2.7.1_1 depends on package: p5-List-MoreUtils>=0 - not found
===> Installing existing package /packages/All/p5-List-MoreUtils-0.428.txz
[head-armv7-default-job-09] Installing p5-List-MoreUtils-0.428...
[head-armv7-default-job-09] `-- Installing p5-Exporter-Tiny-1.002001...
[head-armv7-default-job-09] `-- Extracting p5-Exporter-Tiny-1.002001: .......... done
[head-armv7-default-job-09] `-- Installing p5-List-MoreUtils-XS-0.428...
[head-armv7-default-job-09] `-- Extracting p5-List-MoreUtils-XS-0.428: ....... done
[head-armv7-default-job-09] Extracting p5-List-MoreUtils-0.428: .......... done
===> ncbi-blast+-2.7.1_1 depends on package: p5-List-MoreUtils>=0 - found
===> Returning to build of ncbi-blast+-2.7.1_1
===> ncbi-blast+-2.7.1_1 depends on file: /usr/local/bin/python2.7 - found
===> ncbi-blast+-2.7.1_1 depends on executable: gcc7 - found
===> ncbi-blast+-2.7.1_1 depends on package: perl5>=5.26<5.27 - found
===========================================================================
=======================<phase: stage >============================
===> Staging for ncbi-blast+-2.7.1_1
===> Generating temporary packing list
gmake[1]: Entering directory '/wrkdirs/usr/ports/biology/ncbi-blast+/work/ncbi-blast-2.7.1+-src/c++'
if test -d /wrkdirs/usr/ports/biology/ncbi-blast+/work/ncbi-blast-2.7.1+-src/c++/ReleaseMT/bin/gbench; then \
gmake -w install-gbench; \
else \
gmake -w install-toolkit; \
fi
gmake[2]: Entering directory '/wrkdirs/usr/ports/biology/ncbi-blast+/work/ncbi-blast-2.7.1+-src/c++'
/bin/rm -rf /wrkdirs/usr/ports/biology/ncbi-blast+/work/stage/usr/local/include/ncbi-tools++
/usr/bin/install -c -d /wrkdirs/usr/ports/biology/ncbi-blast+/work/stage/usr/local/bin /wrkdirs/usr/ports/biology/ncbi-blast+/work/stage/usr/local/lib/ncbi-tools++ /wrkdirs/usr/ports/biology/ncbi-blast+/work/stage/usr/local/include/ncbi-tools++
/usr/bin/install -c /wrkdirs/usr/ports/biology/ncbi-blast+/work/ncbi-blast-2.7.1+-src/c++/ReleaseMT/bin/* /wrkdirs/usr/ports/biology/ncbi-blast+/work/stage/usr/local/bin
/usr/bin/install -c -m 644 /wrkdirs/usr/ports/biology/ncbi-blast+/work/ncbi-blast-2.7.1+-src/c++/ReleaseMT/lib/*.* /wrkdirs/usr/ports/biology/ncbi-blast+/work/stage/usr/local/lib/ncbi-tools++
if test -d /wrkdirs/usr/ports/biology/ncbi-blast+/work/ncbi-blast-2.7.1+-src/c++/ReleaseMT/lib/ncbi; then \
cp -pPR /wrkdirs/usr/ports/biology/ncbi-blast+/work/ncbi-blast-2.7.1+-src/c++/ReleaseMT/lib/ncbi /wrkdirs/usr/ports/biology/ncbi-blast+/work/stage/usr/local/lib/ncbi-tools++/; \
fi
rm -f /wrkdirs/usr/ports/biology/ncbi-blast+/work/stage/usr/local/lib/ncbi-tools++/lib*-static.a
cd /wrkdirs/usr/ports/biology/ncbi-blast+/work/stage/usr/local/lib/ncbi-tools++ && \
for x in *.a; do \
/bin/ln -s "$x" "`/usr/bin/basename \"$x\" .a`-static.a"; \
done
for d in /wrkdirs/usr/ports/biology/ncbi-blast+/work/ncbi-blast-2.7.1+-src/c++/include /wrkdirs/usr/ports/biology/ncbi-blast+/work/ncbi-blast-2.7.1+-src/c++/ReleaseMT/inc; do \
cd $d && find * -name .svn -prune -o -print | \
cpio -pd /wrkdirs/usr/ports/biology/ncbi-blast+/work/stage/usr/local/include/ncbi-tools++ ; \
done
<jemalloc>: /usr/local/poudriere/jails/head-armv7/usr/src/contrib/jemalloc/include/jemalloc/internal/jemalloc_internal_inlines_c.h:79: Failed assertion: "ALIGNMENT_ADDR2BASE(ret, alignment) == ret"
qemu: uncaught target signal 6 (Abort trap) - core dumped
Abort trap
<jemalloc>: /usr/local/poudriere/jails/head-armv7/usr/src/contrib/jemalloc/include/jemalloc/internal/jemalloc_internal_inlines_c.h:79: Failed assertion: "ALIGNMENT_ADDR2BASE(ret, alignment) == ret"
qemu: uncaught target signal 6 (Abort trap) - core dumped
Abort trap
gmake[2]: *** [Makefile:47: install-toolkit] Error 134
gmake[2]: Leaving directory '/wrkdirs/usr/ports/biology/ncbi-blast+/work/ncbi-blast-2.7.1+-src/c++'
gmake[1]: *** [Makefile:63: install] Error 2
gmake[1]: Leaving directory '/wrkdirs/usr/ports/biology/ncbi-blast+/work/ncbi-blast-2.7.1+-src/c++'
*** Error code 2
Stop.
make: stopped in /usr/ports/biology/ncbi-blast+
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