[package - main-amd64-default][biology/ncbi-cxx-toolkit] Failed for ncbi-cxx-toolkit-26.0.1 in build
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Date: Fri, 13 May 2022 04:21:18 UTC
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: yuri@FreeBSD.org
Log URL: http://beefy18.nyi.freebsd.org/data/main-amd64-default/pf0c279ef0f2b_s5326ebfd05/logs/ncbi-cxx-toolkit-26.0.1.log
Build URL: http://beefy18.nyi.freebsd.org/build.html?mastername=main-amd64-default&build=pf0c279ef0f2b_s5326ebfd05
Log:
=>> Building biology/ncbi-cxx-toolkit
build started at Fri May 13 02:34:24 UTC 2022
port directory: /usr/ports/biology/ncbi-cxx-toolkit
package name: ncbi-cxx-toolkit-26.0.1
building for: FreeBSD main-amd64-default-job-06 14.0-CURRENT FreeBSD 14.0-CURRENT 1400058 amd64
maintained by: yuri@FreeBSD.org
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=======================<phase: check-sanity >============================
===> License PD accepted by the user
===========================================================================
=======================<phase: pkg-depends >============================
===> ncbi-cxx-toolkit-26.0.1 depends on file: /usr/local/sbin/pkg - not found
===> Installing existing package /packages/All/pkg-1.17.5_1.pkg
[main-amd64-default-job-06] Installing pkg-1.17.5_1...
[main-amd64-default-job-06] Extracting pkg-1.17.5_1: .......... done
===> ncbi-cxx-toolkit-26.0.1 depends on file: /usr/local/sbin/pkg - found
===> Returning to build of ncbi-cxx-toolkit-26.0.1
===========================================================================
=======================<phase: fetch-depends >============================
===========================================================================
=======================<phase: fetch >============================
===> License PD accepted by the user
===> Fetching all distfiles required by ncbi-cxx-toolkit-26.0.1 for building
===========================================================================
=======================<phase: checksum >============================
===> License PD accepted by the user
===> Fetching all distfiles required by ncbi-cxx-toolkit-26.0.1 for building
=> SHA256 Checksum OK for ncbi-ncbi-cxx-toolkit-public-release-26.0.1_GH0.tar.gz.
===========================================================================
=======================<phase: extract-depends>============================
===========================================================================
=======================<phase: extract >============================
===> License PD accepted by the user
===> Fetching all distfiles required by ncbi-cxx-toolkit-26.0.1 for building
===> Extracting for ncbi-cxx-toolkit-26.0.1
=> SHA256 Checksum OK for ncbi-ncbi-cxx-toolkit-public-release-26.0.1_GH0.tar.gz.
===========================================================================
=======================<phase: patch-depends >============================
===========================================================================
=======================<phase: patch >============================
===> Patching for ncbi-cxx-toolkit-26.0.1
===> Applying FreeBSD patches for ncbi-cxx-toolkit-26.0.1 from /usr/ports/biology/ncbi-cxx-toolkit/files
===========================================================================
=======================<phase: build-depends >============================
===> ncbi-cxx-toolkit-26.0.1 depends on package: gmake>=4.3 - not found
===> Installing existing package /packages/All/gmake-4.3_2.pkg
[main-amd64-default-job-06] Installing gmake-4.3_2...
[main-amd64-default-job-06] `-- Installing gettext-runtime-0.21...
[main-amd64-default-job-06] | `-- Installing indexinfo-0.3.1...
[main-amd64-default-job-06] | `-- Extracting indexinfo-0.3.1: .... done
[main-amd64-default-job-06] `-- Extracting gettext-runtime-0.21: .......... done
[main-amd64-default-job-06] Extracting gmake-4.3_2: .......... done
<snip>
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/usr/bin/cc -std=gnu18 -fgnu89-inline -c -Wall -Wno-format-y2k -pthread -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -Wno-deprecated-register -fPIC -DNCBI_MODULE=BLAST -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/wrkdirs/usr/ports/biology/ncbi-cxx-toolkit/work/ncbi-cxx-toolkit-public-release-26.0.1/Clang1300-ReleaseMTDLL64/inc -I/wrkdirs/usr/ports/biology/ncbi-cxx-toolkit/work/ncbi-cxx-toolkit-public-release-26.0.1/include -DNCBI_BUILD_SESSION_ID=555dd15d-d265-11ec-bc67-ac1f6bc2542e .core_blast_dynarray.c -o .core_blast_dynarray.o
/usr/bin/cc -std=gnu18 -fgnu89-inline -c -Wall -Wno-format-y2k -pthread -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -Wno-deprecated-register -fPIC -DNCBI_MODULE=BLAST -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/wrkdirs/usr/ports/biology/ncbi-cxx-toolkit/work/ncbi-cxx-toolkit-public-release-26.0.1/Clang1300-ReleaseMTDLL64/inc -I/wrkdirs/usr/ports/biology/ncbi-cxx-toolkit/work/ncbi-cxx-toolkit-public-release-26.0.1/include -DNCBI_BUILD_SESSION_ID=555dd15d-d265-11ec-bc67-ac1f6bc2542e .core_split_query.c -o .core_split_query.o
/usr/bin/cc -std=gnu18 -fgnu89-inline -c -Wall -Wno-format-y2k -pthread -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -Wno-deprecated-register -fPIC -DNCBI_MODULE=BLAST -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/wrkdirs/usr/ports/biology/ncbi-cxx-toolkit/work/ncbi-cxx-toolkit-public-release-26.0.1/Clang1300-ReleaseMTDLL64/inc -I/wrkdirs/usr/ports/biology/ncbi-cxx-toolkit/work/ncbi-cxx-toolkit-public-release-26.0.1/include -DNCBI_BUILD_SESSION_ID=555dd15d-d265-11ec-bc67-ac1f6bc2542e .core_gencode_singleton.c -o .core_gencode_singleton.o
/usr/bin/cc -std=gnu18 -fgnu89-inline -c -Wall -Wno-format-y2k -pthread -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -Wno-deprecated-register -fPIC -DNCBI_MODULE=BLAST -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/wrkdirs/usr/ports/biology/ncbi-cxx-toolkit/work/ncbi-cxx-toolkit-public-release-26.0.1/Clang1300-ReleaseMTDLL64/inc -I/wrkdirs/usr/ports/biology/ncbi-cxx-toolkit/work/ncbi-cxx-toolkit-public-release-26.0.1/include -DNCBI_BUILD_SESSION_ID=555dd15d-d265-11ec-bc67-ac1f6bc2542e .core_index_ungapped.c -o .core_index_ungapped.o
/usr/bin/cc -std=gnu18 -fgnu89-inline -c -Wall -Wno-format-y2k -pthread -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -Wno-deprecated-register -fPIC -DNCBI_MODULE=BLAST -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/wrkdirs/usr/ports/biology/ncbi-cxx-toolkit/work/ncbi-cxx-toolkit-public-release-26.0.1/Clang1300-ReleaseMTDLL64/inc -I/wrkdirs/usr/ports/biology/ncbi-cxx-toolkit/work/ncbi-cxx-toolkit-public-release-26.0.1/include -DNCBI_BUILD_SESSION_ID=555dd15d-d265-11ec-bc67-ac1f6bc2542e .core_blast_traceback_mt_priv.c -o .core_blast_traceback_mt_priv.o
/usr/bin/cc -std=gnu18 -fgnu89-inline -c -Wall -Wno-format-y2k -pthread -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -Wno-deprecated-register -fPIC -DNCBI_MODULE=BLAST -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/wrkdirs/usr/ports/biology/ncbi-cxx-toolkit/work/ncbi-cxx-toolkit-public-release-26.0.1/Clang1300-ReleaseMTDLL64/inc -I/wrkdirs/usr/ports/biology/ncbi-cxx-toolkit/work/ncbi-cxx-toolkit-public-release-26.0.1/include -DNCBI_BUILD_SESSION_ID=555dd15d-d265-11ec-bc67-ac1f6bc2542e .core_blast_hspstream_mt_utils.c -o .core_blast_hspstream_mt_utils.o
/usr/bin/cc -std=gnu18 -fgnu89-inline -c -Wall -Wno-format-y2k -pthread -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -Wno-deprecated-register -fPIC -DNCBI_MODULE=BLAST -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/wrkdirs/usr/ports/biology/ncbi-cxx-toolkit/work/ncbi-cxx-toolkit-public-release-26.0.1/Clang1300-ReleaseMTDLL64/inc -I/wrkdirs/usr/ports/biology/ncbi-cxx-toolkit/work/ncbi-cxx-toolkit-public-release-26.0.1/include -DNCBI_BUILD_SESSION_ID=555dd15d-d265-11ec-bc67-ac1f6bc2542e .core_boost_erf.c -o .core_boost_erf.o
/usr/bin/cc -std=gnu18 -fgnu89-inline -c -Wall -Wno-format-y2k -pthread -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -Wno-deprecated-register -fPIC -DNCBI_MODULE=BLAST -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/wrkdirs/usr/ports/biology/ncbi-cxx-toolkit/work/ncbi-cxx-toolkit-public-release-26.0.1/Clang1300-ReleaseMTDLL64/inc -I/wrkdirs/usr/ports/biology/ncbi-cxx-toolkit/work/ncbi-cxx-toolkit-public-release-26.0.1/include -DNCBI_BUILD_SESSION_ID=555dd15d-d265-11ec-bc67-ac1f6bc2542e .core_jumper.c -o .core_jumper.o
/usr/bin/cc -std=gnu18 -fgnu89-inline -c -Wall -Wno-format-y2k -pthread -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -Wno-deprecated-register -fPIC -DNCBI_MODULE=BLAST -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/wrkdirs/usr/ports/biology/ncbi-cxx-toolkit/work/ncbi-cxx-toolkit-public-release-26.0.1/Clang1300-ReleaseMTDLL64/inc -I/wrkdirs/usr/ports/biology/ncbi-cxx-toolkit/work/ncbi-cxx-toolkit-public-release-26.0.1/include -DNCBI_BUILD_SESSION_ID=555dd15d-d265-11ec-bc67-ac1f6bc2542e .core_hspfilter_mapper.c -o .core_hspfilter_mapper.o
/usr/bin/cc -std=gnu18 -fgnu89-inline -c -Wall -Wno-format-y2k -pthread -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -Wno-deprecated-register -fPIC -DNCBI_MODULE=BLAST -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/wrkdirs/usr/ports/biology/ncbi-cxx-toolkit/work/ncbi-cxx-toolkit-public-release-26.0.1/Clang1300-ReleaseMTDLL64/inc -I/wrkdirs/usr/ports/biology/ncbi-cxx-toolkit/work/ncbi-cxx-toolkit-public-release-26.0.1/include -DNCBI_BUILD_SESSION_ID=555dd15d-d265-11ec-bc67-ac1f6bc2542e .core_spliced_hits.c -o .core_spliced_hits.o
/bin/rm -f libxblast.so .libxblast.so.stamp
/usr/bin/c++ -stdlib=libc++ -std=gnu++17 -shared -o libxblast.so -Wl,-rpath,/usr/local/lib -Wl,--enable-new-dtags -Wl,-export-dynamic -pthread -fstack-protector-strong -O -fPIC .core_aa_ungapped.o .core_blast_diagnostics.o .core_blast_engine.o .core_blast_extend.o .core_blast_filter.o .core_blast_gapalign.o .core_blast_hits.o .core_blast_hspstream.o .core_blast_itree.o .core_blast_kappa.o .core_blast_lookup.o .core_blast_aalookup.o .core_blast_aascan.o .core_blast_nalookup.o .core_blast_nascan.o .core_blast_message.o .core_blast_options.o .core_blast_psi.o .core_na_ungapped.o .core_blast_psi_priv.o .core_blast_seg.o .core_blast_seqsrc.o .core_blast_setup.o .core_blast_stat.o .core_blast_traceback.o .core_blast_util.o .core_gapinfo.o .core_greedy_align.o .core_hspfilter_collector.o .core_hspfilter_besthit.o .core_hspfilter_culling.o .core_link_hsps.o .core_lookup_util.o .core_lookup_wrap.o .core_matrix_freq_ratios.o .core_ncbi_std.o .core_ncbi_math.o .core_blast_encoding.o .core_pat
tern.o .core_phi_extend.o .core_phi_gapalign.o .core_phi_lookup.o .core_blast_parameters.o .core_blast_posit.o .core_blast_program.o .core_blast_query_info.o .core_blast_tune.o .core_blast_sw.o .core_blast_dynarray.o .core_split_query.o .core_gencode_singleton.o .core_index_ungapped.o .core_blast_traceback_mt_priv.o .core_blast_hspstream_mt_utils.o .core_boost_erf.o .core_jumper.o .core_hspfilter_mapper.o .core_spliced_hits.o blast_aux.o blast_options_cxx.o blast_options_local_priv.o blast_options_builder.o blast_setup_cxx.o blast_seqalign.o blast_options_handle.o blast_nucl_options.o disc_nucl_options.o blast_prot_options.o psiblast_options.o blast_rps_options.o blastx_options.o tblastx_options.o tblastn_options.o rpstblastn_options.o phiblast_nucl_options.o phiblast_prot_options.o pssm_engine.o local_blast.o remote_blast.o seqinfosrc_seqvec.o seqinfosrc_seqdb.o seqinfosrc_bioseq.o seqsrc_multiseq.o seqsrc_seqdb.o seqsrc_query_factory.o bl2seq.o blast_objmgr_tools.o repeats_filter_
cxx.o blast_mtlock.o psibl2seq.o local_db_ad!
apter.o psiblast.o psiblast_impl.o psiblast_iteration.o psi_pssm_input.o msa_pssm_input.o psiblast_aux_priv.o blast_aux_priv.o blast_advprot_options.o blastp_kmer_options.o version.o dust_filter.o rps_aux.o search_strategy.o setup_factory.o prelim_stage.o traceback_stage.o uniform_search.o local_search.o blast_results.o remote_search.o query_data.o objmgr_query_data.o objmgrfree_query_data.o bioseq_extract_data_priv.o effsearchspace_calc.o blast_seqinfosrc_aux.o blast_dbindex.o split_query_cxx.o split_query_aux_priv.o split_query_blk.o winmask_filter.o subj_ranges_set.o rpsblast_local.o seedtop.o cdd_pssm_input.o deltablast_options.o deltablast.o magicblast_options.o magicblast.o blast_node.o blast_usage_report.o -L/wrkdirs/usr/ports/biology/ncbi-cxx-toolkit/work/ncbi-cxx-toolkit-public-release-26.0.1/Clang1300-ReleaseMTDLL64/lib -lutrtprof -lxalgoblastdbindex -lcomposition_adjustment -lxalgodustmask -lxalgowinmask -lseqmasks_io -lseqdb -lblast_services -lxalnmgr -lxobjutil -lxobjre
ad -lvariation -lsubmit -lxlogging -lxnetblastcli -lxnetblast -lblastdb -lscoremat -ltables -llmdb -lxobjmgr -lgenome_collection -lseqedit -lseqsplit -lsubmit -lseqset -lseq -lseqcode -lsequtil -lpub -lmedline -lbiblio -lgeneral -lxser -lxutil -pthread -lm -pthread
/bin/sh /wrkdirs/usr/ports/biology/ncbi-cxx-toolkit/work/ncbi-cxx-toolkit-public-release-26.0.1/scripts/common/impl/if_diff.sh /bin/ln -f libxblast.so /wrkdirs/usr/ports/biology/ncbi-cxx-toolkit/work/ncbi-cxx-toolkit-public-release-26.0.1/Clang1300-ReleaseMTDLL64/lib
/bin/ln -f libxblast.so /wrkdirs/usr/ports/biology/ncbi-cxx-toolkit/work/ncbi-cxx-toolkit-public-release-26.0.1/Clang1300-ReleaseMTDLL64/lib/libxblast.so
/bin/ln -f .xblast.dep /wrkdirs/usr/ports/biology/ncbi-cxx-toolkit/work/ncbi-cxx-toolkit-public-release-26.0.1/Clang1300-ReleaseMTDLL64/status/.xblast.dep
rm .core_blast_dynarray.c .core_boost_erf.c .core_index_ungapped.c .core_ncbi_math.c .core_blast_seqsrc.c .core_blast_itree.c .core_blast_engine.c .core_blast_filter.c .core_lookup_wrap.c .core_spliced_hits.c .core_gencode_singleton.c .core_hspfilter_besthit.c .core_gapinfo.c .core_blast_psi.c .core_blast_hspstream_mt_utils.c .core_blast_lookup.c .core_blast_diagnostics.c .core_blast_nascan.c .core_blast_hspstream.c .core_na_ungapped.c .core_phi_extend.c .core_blast_nalookup.c .core_blast_encoding.c .core_jumper.c .core_blast_psi_priv.c .core_blast_aalookup.c .core_blast_util.c .core_hspfilter_mapper.c .core_blast_posit.c .core_hspfilter_culling.c .core_blast_program.c .core_ncbi_std.c .core_blast_traceback.c .core_blast_stat.c .core_blast_setup.c .core_link_hsps.c .core_pattern.c .core_greedy_align.c .core_lookup_util.c .core_blast_hits.c .core_blast_kappa.c .core_blast_message.c .core_blast_parameters.c .core_matrix_freq_ratios.c .core_hspfilter_collector.c .core_blast_traceback_mt
_priv.c .core_blast_aascan.c .core_aa_ungapped.c .core_phi_lookup.c .core_blast_query_info.c .core_blast_gapalign.c .core_blast_seg.c .core_split_query.c .core_blast_sw.c .core_blast_tune.c .core_blast_options.c .core_blast_extend.c .core_phi_gapalign.c
gmake[6]: Leaving directory '/wrkdirs/usr/ports/biology/ncbi-cxx-toolkit/work/ncbi-cxx-toolkit-public-release-26.0.1/Clang1300-ReleaseMTDLL64/build/algo/blast/api'
gmake[5]: Leaving directory '/wrkdirs/usr/ports/biology/ncbi-cxx-toolkit/work/ncbi-cxx-toolkit-public-release-26.0.1/Clang1300-ReleaseMTDLL64/build/algo/blast/api'
/usr/local/bin/gmake -C proteinkmer -w -j2 --jobserver-auth=13,14 all_r || exit 5
gmake[5]: Entering directory '/wrkdirs/usr/ports/biology/ncbi-cxx-toolkit/work/ncbi-cxx-toolkit-public-release-26.0.1/Clang1300-ReleaseMTDLL64/build/algo/blast'
gmake[5]: warning: -j2 forced in submake: resetting jobserver mode.
gmake[6]: Entering directory '/wrkdirs/usr/ports/biology/ncbi-cxx-toolkit/work/ncbi-cxx-toolkit-public-release-26.0.1/Clang1300-ReleaseMTDLL64/build/algo/blast/proteinkmer'
gmake[6]: warning: -j2 forced in submake: resetting jobserver mode.
gmake[6]: Leaving directory '/wrkdirs/usr/ports/biology/ncbi-cxx-toolkit/work/ncbi-cxx-toolkit-public-release-26.0.1/Clang1300-ReleaseMTDLL64/build/algo/blast/proteinkmer'
gmake[6]: Entering directory '/wrkdirs/usr/ports/biology/ncbi-cxx-toolkit/work/ncbi-cxx-toolkit-public-release-26.0.1/Clang1300-ReleaseMTDLL64/build/algo/blast/proteinkmer'
gmake[6]: warning: -j2 forced in submake: resetting jobserver mode.
gmake[6]: Leaving directory '/wrkdirs/usr/ports/biology/ncbi-cxx-toolkit/work/ncbi-cxx-toolkit-public-release-26.0.1/Clang1300-ReleaseMTDLL64/build/algo/blast/proteinkmer'
/usr/local/bin/gmake -f /wrkdirs/usr/ports/biology/ncbi-cxx-toolkit/work/ncbi-cxx-toolkit-public-release-26.0.1/Clang1300-ReleaseMTDLL64/build/Makefile.lib.tmpl srcdir=/wrkdirs/usr/ports/biology/ncbi-cxx-toolkit/work/ncbi-cxx-toolkit-public-release-26.0.1/src/algo/blast/proteinkmer TMPL=proteinkmer -w -j2 --jobserver-auth=15,16 export-headers
gmake[6]: warning: -j2 forced in submake: resetting jobserver mode.
gmake[6]: Entering directory '/wrkdirs/usr/ports/biology/ncbi-cxx-toolkit/work/ncbi-cxx-toolkit-public-release-26.0.1/Clang1300-ReleaseMTDLL64/build/algo/blast/proteinkmer'
gmake[6]: Nothing to be done for 'export-headers'.
gmake[6]: Leaving directory '/wrkdirs/usr/ports/biology/ncbi-cxx-toolkit/work/ncbi-cxx-toolkit-public-release-26.0.1/Clang1300-ReleaseMTDLL64/build/algo/blast/proteinkmer'
gmake[6]: Entering directory '/wrkdirs/usr/ports/biology/ncbi-cxx-toolkit/work/ncbi-cxx-toolkit-public-release-26.0.1/Clang1300-ReleaseMTDLL64/build/algo/blast/proteinkmer'
gmake[6]: warning: -j2 forced in submake: resetting jobserver mode.
gmake[6]: Leaving directory '/wrkdirs/usr/ports/biology/ncbi-cxx-toolkit/work/ncbi-cxx-toolkit-public-release-26.0.1/Clang1300-ReleaseMTDLL64/build/algo/blast/proteinkmer'
gmake[6]: Entering directory '/wrkdirs/usr/ports/biology/ncbi-cxx-toolkit/work/ncbi-cxx-toolkit-public-release-26.0.1/Clang1300-ReleaseMTDLL64/build/algo/blast/proteinkmer'
gmake[6]: warning: -j2 forced in submake: resetting jobserver mode.
gmake[6]: Leaving directory '/wrkdirs/usr/ports/biology/ncbi-cxx-toolkit/work/ncbi-cxx-toolkit-public-release-26.0.1/Clang1300-ReleaseMTDLL64/build/algo/blast/proteinkmer'
/usr/local/bin/gmake -f /wrkdirs/usr/ports/biology/ncbi-cxx-toolkit/work/ncbi-cxx-toolkit-public-release-26.0.1/Clang1300-ReleaseMTDLL64/build/Makefile.lib.tmpl srcdir=/wrkdirs/usr/ports/biology/ncbi-cxx-toolkit/work/ncbi-cxx-toolkit-public-release-26.0.1/src/algo/blast/proteinkmer TMPL=proteinkmer -w -j2 --jobserver-auth=15,16 all
gmake[6]: warning: -j2 forced in submake: resetting jobserver mode.
In file included from /wrkdirs/usr/ports/biology/ncbi-cxx-toolkit/work/ncbi-cxx-toolkit-public-release-26.0.1/src/algo/blast/proteinkmer/blastkmer.cpp:35:
In file included from /wrkdirs/usr/ports/biology/ncbi-cxx-toolkit/work/ncbi-cxx-toolkit-public-release-26.0.1/include/objmgr/seq_vector.hpp:36:
In file included from /wrkdirs/usr/ports/biology/ncbi-cxx-toolkit/work/ncbi-cxx-toolkit-public-release-26.0.1/include/objmgr/bioseq_handle.hpp:37:
In file included from /wrkdirs/usr/ports/biology/ncbi-cxx-toolkit/work/ncbi-cxx-toolkit-public-release-26.0.1/include/objects/seqloc/Na_strand.hpp:42:
In file included from /wrkdirs/usr/ports/biology/ncbi-cxx-toolkit/work/ncbi-cxx-toolkit-public-release-26.0.1/include/objects/seqloc/Na_strand_.hpp:43:
In file included from /wrkdirs/usr/ports/biology/ncbi-cxx-toolkit/work/ncbi-cxx-toolkit-public-release-26.0.1/include/serial/serialbase.hpp:46:
In file included from /wrkdirs/usr/ports/biology/ncbi-cxx-toolkit/work/ncbi-cxx-toolkit-public-release-26.0.1/include/util/bitset/ncbi_bitset.hpp:38:
/wrkdirs/usr/ports/biology/ncbi-cxx-toolkit/work/ncbi-cxx-toolkit-public-release-26.0.1/include/util/bitset/bm.h:6131:14: warning: variable 'block_idx' set but not used [-Wunused-but-set-variable]
unsigned block_idx = 0;
^
In file included from /wrkdirs/usr/ports/biology/ncbi-cxx-toolkit/work/ncbi-cxx-toolkit-public-release-26.0.1/src/algo/blast/proteinkmer/blastkmer.cpp:35:
In file included from /wrkdirs/usr/ports/biology/ncbi-cxx-toolkit/work/ncbi-cxx-toolkit-public-release-26.0.1/include/objmgr/seq_vector.hpp:36:
In file included from /wrkdirs/usr/ports/biology/ncbi-cxx-toolkit/work/ncbi-cxx-toolkit-public-release-26.0.1/include/objmgr/bioseq_handle.hpp:37:
In file included from /wrkdirs/usr/ports/biology/ncbi-cxx-toolkit/work/ncbi-cxx-toolkit-public-release-26.0.1/include/objects/seqloc/Na_strand.hpp:42:
In file included from /wrkdirs/usr/ports/biology/ncbi-cxx-toolkit/work/ncbi-cxx-toolkit-public-release-26.0.1/include/objects/seqloc/Na_strand_.hpp:43:
In file included from /wrkdirs/usr/ports/biology/ncbi-cxx-toolkit/work/ncbi-cxx-toolkit-public-release-26.0.1/include/serial/serialbase.hpp:47:
/wrkdirs/usr/ports/biology/ncbi-cxx-toolkit/work/ncbi-cxx-toolkit-public-release-26.0.1/include/util/bitset/bmserial.h:4541:28: warning: variable 'acc64' set but not used [-Wunused-but-set-variable]
bm::id64_t acc64 = x_ref_d64_ = dec.get_h64();
^
In file included from /wrkdirs/usr/ports/biology/ncbi-cxx-toolkit/work/ncbi-cxx-toolkit-public-release-26.0.1/src/algo/blast/proteinkmer/blastkmerindex.cpp:91:
In file included from /wrkdirs/usr/ports/biology/ncbi-cxx-toolkit/work/ncbi-cxx-toolkit-public-release-26.0.1/include/algo/blast/proteinkmer/blastkmerindex.hpp:40:
In file included from /wrkdirs/usr/ports/biology/ncbi-cxx-toolkit/work/ncbi-cxx-toolkit-public-release-26.0.1/include/algo/blast/api/query_data.hpp:38:
In file included from /wrkdirs/usr/ports/biology/ncbi-cxx-toolkit/work/ncbi-cxx-toolkit-public-release-26.0.1/include/algo/blast/api/blast_aux.hpp:41:
In file included from /wrkdirs/usr/ports/biology/ncbi-cxx-toolkit/work/ncbi-cxx-toolkit-public-release-26.0.1/include/objects/seqalign/Seq_align_set.hpp:42:
In file included from /wrkdirs/usr/ports/biology/ncbi-cxx-toolkit/work/ncbi-cxx-toolkit-public-release-26.0.1/include/objects/seqalign/Seq_align_set_.hpp:43:
In file included from /wrkdirs/usr/ports/biology/ncbi-cxx-toolkit/work/ncbi-cxx-toolkit-public-release-26.0.1/include/serial/serialbase.hpp:46:
In file included from /wrkdirs/usr/ports/biology/ncbi-cxx-toolkit/work/ncbi-cxx-toolkit-public-release-26.0.1/include/util/bitset/ncbi_bitset.hpp:38:
/wrkdirs/usr/ports/biology/ncbi-cxx-toolkit/work/ncbi-cxx-toolkit-public-release-26.0.1/include/util/bitset/bm.h:6131:14: warning: variable 'block_idx' set but not used [-Wunused-but-set-variable]
unsigned block_idx = 0;
^
In file included from /wrkdirs/usr/ports/biology/ncbi-cxx-toolkit/work/ncbi-cxx-toolkit-public-release-26.0.1/src/algo/blast/proteinkmer/blastkmerindex.cpp:91:
In file included from /wrkdirs/usr/ports/biology/ncbi-cxx-toolkit/work/ncbi-cxx-toolkit-public-release-26.0.1/include/algo/blast/proteinkmer/blastkmerindex.hpp:40:
In file included from /wrkdirs/usr/ports/biology/ncbi-cxx-toolkit/work/ncbi-cxx-toolkit-public-release-26.0.1/include/algo/blast/api/query_data.hpp:38:
In file included from /wrkdirs/usr/ports/biology/ncbi-cxx-toolkit/work/ncbi-cxx-toolkit-public-release-26.0.1/include/algo/blast/api/blast_aux.hpp:41:
In file included from /wrkdirs/usr/ports/biology/ncbi-cxx-toolkit/work/ncbi-cxx-toolkit-public-release-26.0.1/include/objects/seqalign/Seq_align_set.hpp:42:
In file included from /wrkdirs/usr/ports/biology/ncbi-cxx-toolkit/work/ncbi-cxx-toolkit-public-release-26.0.1/include/objects/seqalign/Seq_align_set_.hpp:43:
In file included from /wrkdirs/usr/ports/biology/ncbi-cxx-toolkit/work/ncbi-cxx-toolkit-public-release-26.0.1/include/serial/serialbase.hpp:47:
/wrkdirs/usr/ports/biology/ncbi-cxx-toolkit/work/ncbi-cxx-toolkit-public-release-26.0.1/include/util/bitset/bmserial.h:4541:28: warning: variable 'acc64' set but not used [-Wunused-but-set-variable]
bm::id64_t acc64 = x_ref_d64_ = dec.get_h64();
^
2 warnings generated.
2 warnings generated.
In file included from /wrkdirs/usr/ports/biology/ncbi-cxx-toolkit/work/ncbi-cxx-toolkit-public-release-26.0.1/src/algo/blast/proteinkmer/blastkmeroptions.cpp:34:
In file included from /wrkdirs/usr/ports/biology/ncbi-cxx-toolkit/work/ncbi-cxx-toolkit-public-release-26.0.1/include/algo/blast/proteinkmer/blastkmeroptions.hpp:37:
In file included from /wrkdirs/usr/ports/biology/ncbi-cxx-toolkit/work/ncbi-cxx-toolkit-public-release-26.0.1/include/objects/seqloc/Seq_id.hpp:42:
In file included from /wrkdirs/usr/ports/biology/ncbi-cxx-toolkit/work/ncbi-cxx-toolkit-public-release-26.0.1/include/objects/seqloc/Seq_id_.hpp:43:
In file included from /wrkdirs/usr/ports/biology/ncbi-cxx-toolkit/work/ncbi-cxx-toolkit-public-release-26.0.1/include/serial/serialbase.hpp:46:
In file included from /wrkdirs/usr/ports/biology/ncbi-cxx-toolkit/work/ncbi-cxx-toolkit-public-release-26.0.1/include/util/bitset/ncbi_bitset.hpp:38:
/wrkdirs/usr/ports/biology/ncbi-cxx-toolkit/work/ncbi-cxx-toolkit-public-release-26.0.1/include/util/bitset/bm.h:6131:14: warning: variable 'block_idx' set but not used [-Wunused-but-set-variable]
unsigned block_idx = 0;
^
In file included from /wrkdirs/usr/ports/biology/ncbi-cxx-toolkit/work/ncbi-cxx-toolkit-public-release-26.0.1/src/algo/blast/proteinkmer/blastkmeroptions.cpp:34:
In file included from /wrkdirs/usr/ports/biology/ncbi-cxx-toolkit/work/ncbi-cxx-toolkit-public-release-26.0.1/include/algo/blast/proteinkmer/blastkmeroptions.hpp:37:
In file included from /wrkdirs/usr/ports/biology/ncbi-cxx-toolkit/work/ncbi-cxx-toolkit-public-release-26.0.1/include/objects/seqloc/Seq_id.hpp:42:
In file included from /wrkdirs/usr/ports/biology/ncbi-cxx-toolkit/work/ncbi-cxx-toolkit-public-release-26.0.1/include/objects/seqloc/Seq_id_.hpp:43:
In file included from /wrkdirs/usr/ports/biology/ncbi-cxx-toolkit/work/ncbi-cxx-toolkit-public-release-26.0.1/include/serial/serialbase.hpp:47:
/wrkdirs/usr/ports/biology/ncbi-cxx-toolkit/work/ncbi-cxx-toolkit-public-release-26.0.1/include/util/bitset/bmserial.h:4541:28: warning: variable 'acc64' set but not used [-Wunused-but-set-variable]
bm::id64_t acc64 = x_ref_d64_ = dec.get_h64();
^
In file included from /wrkdirs/usr/ports/biology/ncbi-cxx-toolkit/work/ncbi-cxx-toolkit-public-release-26.0.1/src/algo/blast/proteinkmer/blastkmerresults.cpp:34:
In file included from /wrkdirs/usr/ports/biology/ncbi-cxx-toolkit/work/ncbi-cxx-toolkit-public-release-26.0.1/include/algo/blast/proteinkmer/blastkmerresults.hpp:38:
In file included from /wrkdirs/usr/ports/biology/ncbi-cxx-toolkit/work/ncbi-cxx-toolkit-public-release-26.0.1/include/objects/seqloc/Seq_id.hpp:42:
In file included from /wrkdirs/usr/ports/biology/ncbi-cxx-toolkit/work/ncbi-cxx-toolkit-public-release-26.0.1/include/objects/seqloc/Seq_id_.hpp:43:
In file included from /wrkdirs/usr/ports/biology/ncbi-cxx-toolkit/work/ncbi-cxx-toolkit-public-release-26.0.1/include/serial/serialbase.hpp:46:
In file included from /wrkdirs/usr/ports/biology/ncbi-cxx-toolkit/work/ncbi-cxx-toolkit-public-release-26.0.1/include/util/bitset/ncbi_bitset.hpp:38:
/wrkdirs/usr/ports/biology/ncbi-cxx-toolkit/work/ncbi-cxx-toolkit-public-release-26.0.1/include/util/bitset/bm.h:6131:14: warning: variable 'block_idx' set but not used [-Wunused-but-set-variable]
unsigned block_idx = 0;
^
In file included from /wrkdirs/usr/ports/biology/ncbi-cxx-toolkit/work/ncbi-cxx-toolkit-public-release-26.0.1/src/algo/blast/proteinkmer/blastkmerresults.cpp:34:
In file included from /wrkdirs/usr/ports/biology/ncbi-cxx-toolkit/work/ncbi-cxx-toolkit-public-release-26.0.1/include/algo/blast/proteinkmer/blastkmerresults.hpp:38:
In file included from /wrkdirs/usr/ports/biology/ncbi-cxx-toolkit/work/ncbi-cxx-toolkit-public-release-26.0.1/include/objects/seqloc/Seq_id.hpp:42:
In file included from /wrkdirs/usr/ports/biology/ncbi-cxx-toolkit/work/ncbi-cxx-toolkit-public-release-26.0.1/include/objects/seqloc/Seq_id_.hpp:43:
In file included from /wrkdirs/usr/ports/biology/ncbi-cxx-toolkit/work/ncbi-cxx-toolkit-public-release-26.0.1/include/serial/serialbase.hpp:47:
/wrkdirs/usr/ports/biology/ncbi-cxx-toolkit/work/ncbi-cxx-toolkit-public-release-26.0.1/include/util/bitset/bmserial.h:4541:28: warning: variable 'acc64' set but not used [-Wunused-but-set-variable]
bm::id64_t acc64 = x_ref_d64_ = dec.get_h64();
^
2 warnings generated.
gmake[6]: *** [/wrkdirs/usr/ports/biology/ncbi-cxx-toolkit/work/ncbi-cxx-toolkit-public-release-26.0.1/Clang1300-ReleaseMTDLL64/build/Makefile.rules:88: blastkmerresults.o] Killed
gmake[6]: *** Waiting for unfinished jobs....
gmake[6]: *** [/wrkdirs/usr/ports/biology/ncbi-cxx-toolkit/work/ncbi-cxx-toolkit-public-release-26.0.1/Clang1300-ReleaseMTDLL64/build/Makefile.rules:88: blastkmerutils.o] Killed
gmake[6]: Entering directory '/wrkdirs/usr/ports/biology/ncbi-cxx-toolkit/work/ncbi-cxx-toolkit-public-release-26.0.1/Clang1300-ReleaseMTDLL64/build/algo/blast/proteinkmer'
Updating dependency information for /wrkdirs/usr/ports/biology/ncbi-cxx-toolkit/work/ncbi-cxx-toolkit-public-release-26.0.1/src/algo/blast/proteinkmer/kblastapi.cpp.
Updating dependency information for /wrkdirs/usr/ports/biology/ncbi-cxx-toolkit/work/ncbi-cxx-toolkit-public-release-26.0.1/src/algo/blast/proteinkmer/pearson.cpp.
Updating dependency information for /wrkdirs/usr/ports/biology/ncbi-cxx-toolkit/work/ncbi-cxx-toolkit-public-release-26.0.1/src/algo/blast/proteinkmer/mhfile.cpp.
Updating dependency information for /wrkdirs/usr/ports/biology/ncbi-cxx-toolkit/work/ncbi-cxx-toolkit-public-release-26.0.1/src/algo/blast/proteinkmer/blastkmerutils.cpp.
Updating dependency information for /wrkdirs/usr/ports/biology/ncbi-cxx-toolkit/work/ncbi-cxx-toolkit-public-release-26.0.1/src/algo/blast/proteinkmer/blastkmerresults.cpp.
Updating dependency information for /wrkdirs/usr/ports/biology/ncbi-cxx-toolkit/work/ncbi-cxx-toolkit-public-release-26.0.1/src/algo/blast/proteinkmer/blastkmeroptions.cpp.
Updating dependency information for /wrkdirs/usr/ports/biology/ncbi-cxx-toolkit/work/ncbi-cxx-toolkit-public-release-26.0.1/src/algo/blast/proteinkmer/blastkmerindex.cpp.
Updating dependency information for /wrkdirs/usr/ports/biology/ncbi-cxx-toolkit/work/ncbi-cxx-toolkit-public-release-26.0.1/src/algo/blast/proteinkmer/blastkmer.cpp.
/usr/bin/c++ -stdlib=libc++ -std=gnu++17 -c -Wall -Wno-format-y2k -pthread -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -Wno-deprecated-register -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/wrkdirs/usr/ports/biology/ncbi-cxx-toolkit/work/ncbi-cxx-toolkit-public-release-26.0.1/Clang1300-ReleaseMTDLL64/inc -I/wrkdirs/usr/ports/biology/ncbi-cxx-toolkit/work/ncbi-cxx-toolkit-public-release-26.0.1/include -Wno-unused-local-typedefs -DNCBI_BUILD_SESSION_ID=555dd15d-d265-11ec-bc67-ac1f6bc2542e /wrkdirs/usr/ports/biology/ncbi-cxx-toolkit/work/ncbi-cxx-toolkit-public-release-26.0.1/src/algo/blast/proteinkmer/blastkmer.cpp -o blastkmer.o
/usr/bin/c++ -stdlib=libc++ -std=gnu++17 -c -Wall -Wno-format-y2k -pthread -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -Wno-deprecated-register -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/wrkdirs/usr/ports/biology/ncbi-cxx-toolkit/work/ncbi-cxx-toolkit-public-release-26.0.1/Clang1300-ReleaseMTDLL64/inc -I/wrkdirs/usr/ports/biology/ncbi-cxx-toolkit/work/ncbi-cxx-toolkit-public-release-26.0.1/include -Wno-unused-local-typedefs -DNCBI_BUILD_SESSION_ID=555dd15d-d265-11ec-bc67-ac1f6bc2542e /wrkdirs/usr/ports/biology/ncbi-cxx-toolkit/work/ncbi-cxx-toolkit-public-release-26.0.1/src/algo/blast/proteinkmer/blastkmerindex.cpp -o blastkmerindex.o
/usr/bin/c++ -stdlib=libc++ -std=gnu++17 -c -Wall -Wno-format-y2k -pthread -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -Wno-deprecated-register -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/wrkdirs/usr/ports/biology/ncbi-cxx-toolkit/work/ncbi-cxx-toolkit-public-release-26.0.1/Clang1300-ReleaseMTDLL64/inc -I/wrkdirs/usr/ports/biology/ncbi-cxx-toolkit/work/ncbi-cxx-toolkit-public-release-26.0.1/include -Wno-unused-local-typedefs -DNCBI_BUILD_SESSION_ID=555dd15d-d265-11ec-bc67-ac1f6bc2542e /wrkdirs/usr/ports/biology/ncbi-cxx-toolkit/work/ncbi-cxx-toolkit-public-release-26.0.1/src/algo/blast/proteinkmer/blastkmeroptions.cpp -o blastkmeroptions.o
/usr/bin/c++ -stdlib=libc++ -std=gnu++17 -c -Wall -Wno-format-y2k -pthread -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -Wno-deprecated-register -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/wrkdirs/usr/ports/biology/ncbi-cxx-toolkit/work/ncbi-cxx-toolkit-public-release-26.0.1/Clang1300-ReleaseMTDLL64/inc -I/wrkdirs/usr/ports/biology/ncbi-cxx-toolkit/work/ncbi-cxx-toolkit-public-release-26.0.1/include -Wno-unused-local-typedefs -DNCBI_BUILD_SESSION_ID=555dd15d-d265-11ec-bc67-ac1f6bc2542e /wrkdirs/usr/ports/biology/ncbi-cxx-toolkit/work/ncbi-cxx-toolkit-public-release-26.0.1/src/algo/blast/proteinkmer/blastkmerresults.cpp -o blastkmerresults.o
/usr/bin/c++ -stdlib=libc++ -std=gnu++17 -c -Wall -Wno-format-y2k -pthread -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -Wno-deprecated-register -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/wrkdirs/usr/ports/biology/ncbi-cxx-toolkit/work/ncbi-cxx-toolkit-public-release-26.0.1/Clang1300-ReleaseMTDLL64/inc -I/wrkdirs/usr/ports/biology/ncbi-cxx-toolkit/work/ncbi-cxx-toolkit-public-release-26.0.1/include -Wno-unused-local-typedefs -DNCBI_BUILD_SESSION_ID=555dd15d-d265-11ec-bc67-ac1f6bc2542e /wrkdirs/usr/ports/biology/ncbi-cxx-toolkit/work/ncbi-cxx-toolkit-public-release-26.0.1/src/algo/blast/proteinkmer/blastkmerutils.cpp -o blastkmerutils.o
gmake[6]: Leaving directory '/wrkdirs/usr/ports/biology/ncbi-cxx-toolkit/work/ncbi-cxx-toolkit-public-release-26.0.1/Clang1300-ReleaseMTDLL64/build/algo/blast/proteinkmer'
FAILED: src/algo/blast/proteinkmer/Makefile.proteinkmer.lib
gmake[6]: Entering directory '/wrkdirs/usr/ports/biology/ncbi-cxx-toolkit/work/ncbi-cxx-toolkit-public-release-26.0.1/Clang1300-ReleaseMTDLL64/build/algo/blast/proteinkmer'
gmake[6]: warning: -j2 forced in submake: resetting jobserver mode.
/bin/rm -f libproteinkmer.so libproteinkmer.so .proteinkmer.dep .libproteinkmer.so.stamp
/bin/rm -f /wrkdirs/usr/ports/biology/ncbi-cxx-toolkit/work/ncbi-cxx-toolkit-public-release-26.0.1/Clang1300-ReleaseMTDLL64/lib/libproteinkmer.so /wrkdirs/usr/ports/biology/ncbi-cxx-toolkit/work/ncbi-cxx-toolkit-public-release-26.0.1/Clang1300-ReleaseMTDLL64/status/.proteinkmer.dep
gmake[6]: Leaving directory '/wrkdirs/usr/ports/biology/ncbi-cxx-toolkit/work/ncbi-cxx-toolkit-public-release-26.0.1/Clang1300-ReleaseMTDLL64/build/algo/blast/proteinkmer'
gmake[5]: *** [/wrkdirs/usr/ports/biology/ncbi-cxx-toolkit/work/ncbi-cxx-toolkit-public-release-26.0.1/src/build-system/Makefile.meta_l:328: all.nonusr] Error 2
gmake[5]: Leaving directory '/wrkdirs/usr/ports/biology/ncbi-cxx-toolkit/work/ncbi-cxx-toolkit-public-release-26.0.1/Clang1300-ReleaseMTDLL64/build/algo/blast/proteinkmer'
gmake[4]: *** [/wrkdirs/usr/ports/biology/ncbi-cxx-toolkit/work/ncbi-cxx-toolkit-public-release-26.0.1/src/build-system/Makefile.meta_r:41: all_r.real] Error 5
gmake[4]: Leaving directory '/wrkdirs/usr/ports/biology/ncbi-cxx-toolkit/work/ncbi-cxx-toolkit-public-release-26.0.1/Clang1300-ReleaseMTDLL64/build/algo/blast'
gmake[3]: *** [/wrkdirs/usr/ports/biology/ncbi-cxx-toolkit/work/ncbi-cxx-toolkit-public-release-26.0.1/src/build-system/Makefile.meta_r:41: all_r.real] Error 5
gmake[3]: Leaving directory '/wrkdirs/usr/ports/biology/ncbi-cxx-toolkit/work/ncbi-cxx-toolkit-public-release-26.0.1/Clang1300-ReleaseMTDLL64/build/algo'
gmake[2]: *** [/wrkdirs/usr/ports/biology/ncbi-cxx-toolkit/work/ncbi-cxx-toolkit-public-release-26.0.1/src/build-system/Makefile.meta_r:41: all_r.real] Error 5
gmake[2]: Leaving directory '/wrkdirs/usr/ports/biology/ncbi-cxx-toolkit/work/ncbi-cxx-toolkit-public-release-26.0.1/Clang1300-ReleaseMTDLL64/build'
gmake[1]: *** [Makefile:24: all] Error 2
gmake[1]: Leaving directory '/wrkdirs/usr/ports/biology/ncbi-cxx-toolkit/work/ncbi-cxx-toolkit-public-release-26.0.1'
===> Compilation failed unexpectedly.
Try to set MAKE_JOBS_UNSAFE=yes and rebuild before reporting the failure to
the maintainer.
*** Error code 1
Stop.
make: stopped in /usr/ports/biology/ncbi-cxx-toolkit