[Debian-med-packaging] Bug#1129798: ncbi-blast+: FTBFS: /<<PKGBUILDDIR>>/c++/include/corelib/test_boost.hpp:142:42: error: 'dummy_cond' is not a member of 'boost::test_tools::tt_detail'
Santiago Vila
sanvila at debian.org
Thu Mar 5 23:13:21 GMT 2026
Package: src:ncbi-blast+
Version: 2.17.0+ds-6
Severity: serious
Tags: ftbfs forky sid
Dear maintainer:
During a rebuild of all packages in unstable, this package failed to build.
Below you will find the last part of the build log (probably the most
relevant part, but not necessarily). If required, the full build log
is available here:
https://people.debian.org/~sanvila/build-logs/202603/
About the archive rebuild: The build was made on virtual machines from AWS,
using sbuild and a reduced chroot with only build-essential packages.
If you cannot reproduce the bug please contact me privately, as I
am willing to provide ssh access to a virtual machine where the bug is
fully reproducible.
If this is really a bug in one of the build-depends, please use
reassign and add an affects on src:ncbi-blast+, so that this is still
visible in the BTS web page for this package.
Thanks.
--------------------------------------------------------------------------------
[...]
debian/rules clean
dh clean --sourcedirectory=c++ --with-autoreconf
dh_auto_clean -O--sourcedirectory=c\+\+ -O--with-autoreconf
dh_autoreconf_clean -O--sourcedirectory=c\+\+ -O--with-autoreconf
debian/rules override_dh_clean
make[1]: Entering directory '/<<PKGBUILDDIR>>'
cp c++/src/util/lmdb/Makefile.orig c++/src/util/lmdb/Makefile.orig.save
cp c++/src/util/lmdbxx/Makefile.orig c++/src/util/lmdbxx/Makefile.orig.save
cp c++/src/util/lmdbxx/lmdb++.h.orig c++/src/util/lmdbxx/lmdb++.h.orig.save
cp c++/configure.orig configure.orig.save
dh_clean
#Tricky - for each module directory there may be several module files
#or there may be none but then there is still a module named after the
#directory. Clean everything!
for x in c++/src/objects/* ; do \
[... snipped ...]
make[5]: Leaving directory '/<<PKGBUILDDIR>>/c++/BUILD/build/objtools/blast/seqdb_reader/demo'
make[4]: Leaving directory '/<<PKGBUILDDIR>>/c++/BUILD/build/objtools/blast/seqdb_reader/demo'
cd objtools/blast/seqdb_reader/demo/ && NCBI_BUT_EXPENDABLE=' (but expendable)' /usr/bin/make --jobserver-auth=fifo:/tmp/GMfifo15634 APP_PROJ=tax4blast LIB_PROJ="" UNIX_PROJ="" sources= configurables=configurables.null
make[4]: Entering directory '/<<PKGBUILDDIR>>/c++/BUILD/build/objtools/blast/seqdb_reader/demo'
make[5]: Entering directory '/<<PKGBUILDDIR>>/c++/BUILD/build/objtools/blast/seqdb_reader/demo'
/usr/bin/g++ -std=gnu++20 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/<<PKGBUILDDIR>>=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIE -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/<<PKGBUILDDIR>>/c++/BUILD/inc -I/<<PKGBUILDDIR>>/c++/include -DNCBI_APP_BUILT_AS=tax4blast /<<PKGBUILDDIR>>/c++/src/objtools/blast/seqdb_reader/demo/tax4blast.cpp -o tax4blast.o
/usr/bin/g++ -std=gnu++20 -Wl,-rpath,/usr/lib/ncbi-blast+ -Wl,--enable-new-dtags -Wl,-export-dynamic -pthread -fopenmp -specs=/usr/share/dpkg/no-pie-link.specs -Wl,-z,relro -Wl,-z,now -gdwarf-3 -O2 -fPIE -pie tax4blast.o -Wl,-rpath-link,/<<PKGBUILDDIR>>/c++/BUILD/lib -L/<<PKGBUILDDIR>>/c++/BUILD/lib -lseqdb -lsqlitewrapp -lxobjutil -lblastdb -lxobjmgr -lgenome_collection -lseqedit -lseqsplit -lsubmit -lseqset -lseq -lseqcode -lsequtil -lpub -lmedline -lbiblio -lgeneral -lxser -lxutil -lxncbi -lsqlite3 -llmdb -lpthread -lsqlite3 -lz -lbz2 -lzstd -lmbedtls -lmbedx509 -lmbedcrypto -lz -lresolv -lm -lpthread -o tax4blast
/bin/bash /<<PKGBUILDDIR>>/c++/scripts/common/impl/if_diff.sh /bin/ln -f tax4blast /<<PKGBUILDDIR>>/c++/BUILD/bin
/bin/ln -f tax4blast /<<PKGBUILDDIR>>/c++/BUILD/bin/tax4blast
make[5]: Leaving directory '/<<PKGBUILDDIR>>/c++/BUILD/build/objtools/blast/seqdb_reader/demo'
make[4]: Leaving directory '/<<PKGBUILDDIR>>/c++/BUILD/build/objtools/blast/seqdb_reader/demo'
cd objtools/blast/seqdb_reader/test/ && NCBI_BUT_EXPENDABLE=' (but expendable)' /usr/bin/make --jobserver-auth=fifo:/tmp/GMfifo15634 APP_PROJ=seqdb_perf LIB_PROJ="" UNIX_PROJ="" sources= configurables=configurables.null
make[4]: Entering directory '/<<PKGBUILDDIR>>/c++/BUILD/build/objtools/blast/seqdb_reader/test'
/<<PKGBUILDDIR>>/c++/src/objtools/blast/seqdb_reader/test/seqdb_perf.cpp: In member function ‘void CSeqDBPerfApp::x_UpdateMemoryUsage(int)’:
/<<PKGBUILDDIR>>/c++/src/objtools/blast/seqdb_reader/test/seqdb_perf.cpp:114:23: warning: ‘bool ncbi::GetMemoryUsage(size_t*, size_t*, size_t*)’ is deprecated [-Wdeprecated-declarations]
114 | if (GetMemoryUsage(&mu.total, &mu.resident, &mu.shared)) {
| ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
In file included from /<<PKGBUILDDIR>>/c++/src/objtools/blast/seqdb_reader/test/seqdb_perf.cpp:36:
/<<PKGBUILDDIR>>/c++/include/corelib/ncbi_system.hpp:477:13: note: declared here
477 | extern bool GetMemoryUsage(size_t* total, size_t* resident, size_t* shared);
| ^~~~~~~~~~~~~~
/<<PKGBUILDDIR>>/c++/src/objtools/blast/seqdb_reader/test/seqdb_perf.cpp: In member function ‘int CSeqDBPerfApp::x_ScanDatabase()’:
/<<PKGBUILDDIR>>/c++/src/objtools/blast/seqdb_reader/test/seqdb_perf.cpp:154:31: warning: comparison of integer expressions of different signedness: ‘ssize_t’ {aka ‘long int’} and ‘std::vector<int>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
154 | for (ssize_t i = 0; i < oids2iterate.size(); i++) {
| ~~^~~~~~~~~~~~~~~~~~~~~
make[5]: Entering directory '/<<PKGBUILDDIR>>/c++/BUILD/build/objtools/blast/seqdb_reader/test'
/usr/bin/g++ -std=gnu++20 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/<<PKGBUILDDIR>>=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIE -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/<<PKGBUILDDIR>>/c++/BUILD/inc -I/<<PKGBUILDDIR>>/c++/include -DNCBI_APP_BUILT_AS=seqdb_perf /<<PKGBUILDDIR>>/c++/src/objtools/blast/seqdb_reader/test/seqdb_perf.cpp -o seqdb_perf.o
/usr/bin/g++ -std=gnu++20 -Wl,-rpath,/usr/lib/ncbi-blast+ -Wl,--enable-new-dtags -Wl,-export-dynamic -pthread -fopenmp -specs=/usr/share/dpkg/no-pie-link.specs -Wl,-z,relro -Wl,-z,now -gdwarf-3 -O2 -fPIE -pie seqdb_perf.o -Wl,-rpath-link,/<<PKGBUILDDIR>>/c++/BUILD/lib -L/<<PKGBUILDDIR>>/c++/BUILD/lib -lseqdb -lxobjutil -lblastdb -lxobjmgr -lgenome_collection -lseqedit -lseqsplit -lsubmit -lseqset -lseq -lseqcode -lsequtil -lpub -lmedline -lbiblio -lgeneral -lxser -lxutil -lxncbi -lsqlite3 -llmdb -lpthread -lz -lbz2 -lzstd -lmbedtls -lmbedx509 -lmbedcrypto -lz -lresolv -lm -lpthread -o seqdb_perf
/bin/bash /<<PKGBUILDDIR>>/c++/scripts/common/impl/if_diff.sh /bin/ln -f seqdb_perf /<<PKGBUILDDIR>>/c++/BUILD/bin
/bin/ln -f seqdb_perf /<<PKGBUILDDIR>>/c++/BUILD/bin/seqdb_perf
make[5]: Leaving directory '/<<PKGBUILDDIR>>/c++/BUILD/build/objtools/blast/seqdb_reader/test'
make[4]: Leaving directory '/<<PKGBUILDDIR>>/c++/BUILD/build/objtools/blast/seqdb_reader/test'
cd objtools/blast/seqdb_writer/unit_test/ && /usr/bin/make --jobserver-auth=fifo:/tmp/GMfifo15634 APP_PROJ=writedb_lmdb_unit_test LIB_PROJ="" UNIX_PROJ="" sources= configurables=configurables.null
make[4]: Entering directory '/<<PKGBUILDDIR>>/c++/BUILD/build/objtools/blast/seqdb_writer/unit_test'
-specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/<<PKGBUILDDIR>>/c++/BUILD/inc -I/<<PKGBUILDDIR>>/c++/include /<<PKGBUILDDIR>>/c++/src/objtools/edit/link_cds_mrna.cpp -o link_cds_mrna.o
/usr/bin/g++ -std=gnu++20 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/<<PKGBUILDDIR>>=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/<<PKGBUILDDIR>>/c++/BUILD/inc -I/<<PKGBUILDDIR>>/c++/include /<<PKGBUILDDIR>>/c++/src/objtools/edit/cds_fix.cpp -o cds_fix.o
/usr/bin/g++ -std=gnu++20 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/<<PKGBUILDDIR>>=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/<<PKGBUILDDIR>>/c++/BUILD/inc -I/<<PKGBUILDDIR>>/c++/include /<<PKGBUILDDIR>>/c++/src/objtools/edit/loc_edit.cpp -o loc_edit.o
/usr/bin/g++ -std=gnu++20 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/<<PKGBUILDDIR>>=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/<<PKGBUILDDIR>>/c++/BUILD/inc -I/<<PKGBUILDDIR>>/c++/include /<<PKGBUILDDIR>>/c++/src/objtools/edit/mail_report.cpp -o mail_report.o
/usr/bin/g++ -std=gnu++20 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/<<PKGBUILDDIR>>=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/<<PKGBUILDDIR>>/c++/BUILD/inc -I/<<PKGBUILDDIR>>/c++/include /<<PKGBUILDDIR>>/c++/src/objtools/edit/feattable_edit.cpp -o feattable_edit.o
/usr/bin/g++ -std=gnu++20 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/<<PKGBUILDDIR>>=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/<<PKGBUILDDIR>>/c++/BUILD/inc -I/<<PKGBUILDDIR>>/c++/include /<<PKGBUILDDIR>>/c++/src/objtools/edit/gaps_edit.cpp -o gaps_edit.o
/usr/bin/g++ -std=gnu++20 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/<<PKGBUILDDIR>>=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -Dmake[5]: Entering directory '/<<PKGBUILDDIR>>/c++/BUILD/build/objtools/blast/seqdb_writer/unit_test'
/usr/bin/g++ -std=gnu++20 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/<<PKGBUILDDIR>>=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIE -DNCBI_MODULE=BLASTDB -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/<<PKGBUILDDIR>>/c++/BUILD/inc -I/<<PKGBUILDDIR>>/c++/include -Wno-unused-local-typedefs -DNCBI_APP_BUILT_AS=writedb_lmdb_unit_test /<<PKGBUILDDIR>>/c++/src/objtools/blast/seqdb_writer/unit_test/writedb_lmdb_unit_test.cpp -o writedb_lmdb_unit_test.o
/usr/bin/g++ -std=gnu++20 -Wl,-rpath,/usr/lib/ncbi-blast+ -Wl,--enable-new-dtags -Wl,-export-dynamic -pthread -fopenmp -specs=/usr/share/dpkg/no-pie-link.specs -Wl,-z,relro -Wl,-z,now -gdwarf-3 -O2 -fPIE -pie writedb_lmdb_unit_test.o -Wl,-rpath-link,/<<PKGBUILDDIR>>/c++/BUILD/lib -L/<<PKGBUILDDIR>>/c++/BUILD/lib -ltest_boost -lwritedb -lseqdb -lxobjread -lvariation -lsubmit -lxlogging -lxobjutil -lblastdb -lxobjmgr -lgenome_collection -lseqedit -lseqsplit -lsubmit -lseqset -lseq -lseqcode -lsequtil -lpub -lmedline -lbiblio -lgeneral -lxser -lxutil -lxncbi -lsqlite3 -llmdb -lpthread -lz -lbz2 -lzstd -lmbedtls -lmbedx509 -lmbedcrypto -lz -lresolv -lm -lpthread -o writedb_lmdb_unit_test
/bin/bash /<<PKGBUILDDIR>>/c++/scripts/common/impl/if_diff.sh /bin/ln -f writedb_lmdb_unit_test /<<PKGBUILDDIR>>/c++/BUILD/bin
/bin/ln -f writedb_lmdb_unit_test /<<PKGBUILDDIR>>/c++/BUILD/bin/writedb_lmdb_unit_test
make[5]: Leaving directory '/<<PKGBUILDDIR>>/c++/BUILD/build/objtools/blast/seqdb_writer/unit_test'
make[4]: Leaving directory '/<<PKGBUILDDIR>>/c++/BUILD/build/objtools/blast/seqdb_writer/unit_test'
cd objtools/blast/seqdb_writer/unit_test/ && /usr/bin/make --jobserver-auth=fifo:/tmp/GMfifo15634 APP_PROJ=writedb_unit_test LIB_PROJ="" UNIX_PROJ="" sources= configurables=configurables.null
make[4]: Entering directory '/<<PKGBUILDDIR>>/c++/BUILD/build/objtools/blast/seqdb_writer/unit_test'
/<<PKGBUILDDIR>>/c++/src/objtools/edit/rna_edit.cpp: In member function ‘bool ncbi::objects::edit::CFindITSParser::IsLengthTooLarge(const std::string&, int, int, const std::vector<int>&, const std::vector<int>&, const std::vector<bool>&, int)’:
/<<PKGBUILDDIR>>/c++/src/objtools/edit/rna_edit.cpp:259:31: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<bool>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
259 | for (int j = i + 1; j < spans.size(); j++)
| ~~^~~~~~~~~~~~~~
In file included from /<<PKGBUILDDIR>>/c++/src/objtools/blast/seqdb_writer/unit_test/writedb_unit_test.cpp:46:
/<<PKGBUILDDIR>>/c++/src/objtools/blast/seqdb_writer/unit_test/writedb_unit_test.cpp: In member function ‘void writedb::EmptyBioseq::test_method()’:
/<<PKGBUILDDIR>>/c++/include/corelib/test_boost.hpp:142:42: error: ‘dummy_cond’ is not a member of ‘boost::test_tools::tt_detail’
142 | } while( ::boost::test_tools::tt_detail::dummy_cond() ) \
| ^~~~~~~~~~
/<<PKGBUILDDIR>>/c++/include/corelib/test_boost.hpp:247:5: note: in expansion of macro ‘BOOST_CHECK_THROW_IMPL_EX’
247 | BOOST_CHECK_THROW_IMPL_EX( S, E, P, affix, TL, )
| ^~~~~~~~~~~~~~~~~~~~~~~~~
/usr/include/boost/test/tools/old/interface.hpp:120:45: note: in expansion of macro ‘BOOST_CHECK_THROW_IMPL’
120 | #define BOOST_REQUIRE_THROW( S, E ) BOOST_CHECK_THROW_IMPL( S, E, true, "", REQUIRE )
| ^~~~~~~~~~~~~~~~~~~~~~
/<<PKGBUILDDIR>>/c++/src/objtools/blast/seqdb_writer/unit_test/writedb_unit_test.cpp: In member function ‘void writedb::DuplicateId::test_method()’:
/<<PKGBUILDDIR>>/c++/include/corelib/test_boost.hpp:142:42: error: ‘dummy_cond’ is not a member of ‘boost::test_tools::tt_detail’
142 | } while( ::boost::test_tools::tt_detail::dummy_cond() ) \
| ^~~~~~~~~~
/<<PKGBUILDDIR>>/c++/include/corelib/test_boost.hpp:247:5: note: in expansion of macro ‘BOOST_CHECK_THROW_IMPL_EX’
247 | BOOST_CHECK_THROW_IMPL_EX( S, E, P, affix, TL, )
| ^~~~~~~~~~~~~~~~~~~~~~~~~
/usr/include/boost/test/tools/old/interface.hpp:120:45: note: in expansion of macro ‘BOOST_CHECK_THROW_IMPL’
120 | #define BOOST_REQUIRE_THROW( S, E ) BOOST_CHECK_THROW_IMPL( S, E, true, "", REQUIRE )
| ^~~~~~~~~~~~~~~~~~~~~~
/<<PKGBUILDDIR>>/c++/src/objtools/blast/seqdb_writer/unit_test/writedb_unit_test.cpp: In member function ‘void writedb::MismatchedDb_Bioseq::test_method()’:
/<<PKGBUILDDIR>>/c++/include/corelib/test_boost.hpp:142:42: error: ‘dummy_cond’ is not a member of ‘boost::test_tools::tt_detail’
142 | } while( ::boost::test_tools::tt_detail::dummy_cond() ) \
| ^~~~~~~~~~
/<<PKGBUILDDIR>>/c++/include/corelib/test_boost.hpp:247:5: note: in expansion of macro ‘BOOST_CHECK_THROW_IMPL_EX’
247 | BOOST_CHECK_THROW_IMPL_EX( S, E, P, affix, TL, )
| ^~~~~~~~~~~~~~~~~~~~~~~~~
/usr/include/boost/test/tools/old/interface.hpp:120:45: note: in expansion of macro ‘BOOST_CHECK_THROW_IMPL’
120 | #define BOOST_REQUIRE_THROW( S, E ) BOOST_CHECK_THROW_IMPL( S, E, true, "", REQUIRE )
| ^~~~~~~~~~~~~~~~~~~~~~
/<<PKGBUILDDIR>>/c++/src/objtools/blast/seqdb_writer/unit_test/writedb_unit_test.cpp: In function ‘void writedb::RegisterTooManyVariantsOfSameMaskingAlgorithm(ncbi::objects::EBlast_filter_program, size_t)’:
/<<PKGBUILDDIR>>/c++/include/corelib/test_boost.hpp:142:42: error: ‘dummy_cond’ is not a member of ‘boost::test_tools::tt_detail’
142 | } while( ::boost::test_tools::tt_detail::dummy_cond() ) \
| ^~~~~~~~~~
/<<PKGBUILDDIR>>/c++/include/corelib/test_boost.hpp:247:5: note: in expansion of macro ‘BOOST_CHECK_THROW_IMPL_EX’
247 | BOOST_CHECK_THROW_IMPL_EX( S, E, P, affix, TL, )
| ^~~~~~~~~~~~~~~~~~~~~~~~~
/usr/include/boost/test/tools/old/interface.hpp:120:45: note: in expansion of macro ‘BOOST_CHECK_THROW_IMPL’
120 | #define BOOST_REQUIRE_THROW( S, E ) BOOST_CHECK_THROW_IMPL( S, E, true, "", REQUIRE )
| ^~~~~~~~~~~~~~~~~~~~~~
/<<PKGBUILDDIR>>/c++/src/objtools/blast/seqdb_writer/unit_test/writedb_unit_test.cpp: In member function ‘void writedb::DuplicateAlgoId::test_method()’:
/<<PKGBUILDDIR>>/c++/include/corelib/test_boost.hpp:142:42: error: ‘dummy_cond’ is not a member of ‘boost::test_tools::tt_detail’
142 | } while( ::boost::test_tools::tt_detail::dummy_cond() ) \
| ^~~~~~~~~~
/<<PKGBUILDDIR>>/c++/include/corelib/test_boost.hpp:247:5: note: in expansion of macro ‘BOOST_CHECK_THROW_IMPL_EX’
247 | BOOST_CHECK_THROW_IMPL_EX( S, E, P, affix, TL, )
| ^~~~~~~~~~~~~~~~~~~~~~~~~
/usr/include/boost/test/tools/old/interface.hpp:120:45: note: in expansion of macro ‘BOOST_CHECK_THROW_IMPL’
120 | #define BOOST_REQUIRE_THROW( S, E ) BOOST_CHECK_THROW_IMPL( S, E, true, "", REQUIRE )
| ^~~~~~~~~~~~~~~~~~~~~~
/<<PKGBUILDDIR>>/c++/src/objtools/blast/seqdb_writer/unit_test/writedb_unit_test.cpp: In member function ‘void writedb::TooManyAlgoId::test_method()’:
/<<PKGBUILDDIR>>/c++/include/corelib/test_boost.hpp:142:42: error: ‘dummy_cond’ is not a member of ‘boost::test_tools::tt_detail’
142 | } while( ::boost::test_tools::tt_detail::dummy_cond() ) \
| ^~~~~~~~~~
/<<PKGBUILDDIR>>/c++/include/corelib/test_boost.hpp:247:5: note: in expansion of macro ‘BOOST_CHECK_THROW_IMPL_EX’
247 | BOOST_CHECK_THROW_IMPL_EX( S, E, P, affix, TL, )
| ^~~~~~~~~~~~~~~~~~~~~~~~~
/usr/include/boost/test/tools/old/interface.hpp:120:45: note: in expansion of macro ‘BOOST_CHECK_THROW_IMPL’
120 | #define BOOST_REQUIRE_THROW( S, E ) BOOST_CHECK_THROW_IMPL( S, E, true, "", REQUIRE )
| ^~~~~~~~~~~~~~~~~~~~~~
/<<PKGBUILDDIR>>/c++/src/objtools/blast/seqdb_writer/unit_test/writedb_unit_test.cpp: In member function ‘void writedb::UndefinedAlgoID::test_method()’:
/<<PKGBUILDDIR>>/c++/include/corelib/test_boost.hpp:142:42: error: ‘dummy_cond’ is not a member of ‘boost::test_tools::tt_detail’
142 | } while( ::boost::test_tools::tt_detail::dummy_cond() ) \
| ^~~~~~~~~~
/<<PKGBUILDDIR>>/c++/include/corelib/test_boost.hpp:247:5: note: in expansion of macro ‘BOOST_CHECK_THROW_IMPL_EX’
247 | BOOST_CHECK_THROW_IMPL_EX( S, E, P, affix, TL, )
| ^~~~~~~~~~~~~~~~~~~~~~~~~
/usr/include/boost/test/tools/old/interface.hpp:120:45: note: in expansion of macro ‘BOOST_CHECK_THROW_IMPL’
120 | #define BOOST_REQUIRE_THROW( S, E ) BOOST_CHECK_THROW_IMPL( S, E, true, "", REQUIRE )
| ^~~~~~~~~~~~~~~~~~~~~~
/<<PKGBUILDDIR>>/c++/src/objtools/blast/seqdb_writer/unit_test/writedb_unit_test.cpp: In member function ‘void writedb::MaskDataBoundsError::test_method()’:
/<<PKGBUILDDIR>>/c++/include/corelib/test_boost.hpp:142:42: error: ‘dummy_cond’ is not a member of ‘boost::test_tools::tt_detail’
142 | } while( ::boost::test_tools::tt_detail::dummy_cond() ) \
| ^~~~~~~~~~
/<<PKGBUILDDIR>>/c++/include/corelib/test_boost.hpp:247:5: note: in expansion of macro ‘BOOST_CHECK_THROW_IMPL_EX’
247 | BOOST_CHECK_THROW_IMPL_EX( S, E, P, affix, TL, )
| ^~~~~~~~~~~~~~~~~~~~~~~~~
/usr/include/boost/test/tools/old/interface.hpp:120:45: note: in expansion of macro ‘BOOST_CHECK_THROW_IMPL’
120 | #define BOOST_REQUIRE_THROW( S, E ) BOOST_CHECK_THROW_IMPL( S, E, true, "", REQUIRE )
| ^~~~~~~~~~~~~~~~~~~~~~
/<<PKGBUILDDIR>>/c++/src/objtools/blast/seqdb_writer/unit_test/writedb_unit_test.cpp: In member function ‘void writedb::InvalidAliasFileGeneration_NonExistentDb::test_method()’:
/<<PKGBUILDDIR>>/c++/include/corelib/test_boost.hpp:142:42: error: ‘dummy_cond’ is not a member of ‘boost::test_tools::tt_detail’
142 | } while( ::boost::test_tools::tt_detail::dummy_cond() ) \
| ^~~~~~~~~~
/<<PKGBUILDDIR>>/c++/include/corelib/test_boost.hpp:247:5: note: in expansion of macro ‘BOOST_CHECK_THROW_IMPL_EX’
247 | BOOST_CHECK_THROW_IMPL_EX( S, E, P, affix, TL, )
| ^~~~~~~~~~~~~~~~~~~~~~~~~
/usr/include/boost/test/tools/old/interface.hpp:120:45: note: in expansion of macro ‘BOOST_CHECK_THROW_IMPL’
120 | #define BOOST_REQUIRE_THROW( S, E ) BOOST_CHECK_THROW_IMPL( S, E, true, "", REQUIRE )
| ^~~~~~~~~~~~~~~~~~~~~~
/<<PKGBUILDDIR>>/c++/src/objtools/blast/seqdb_writer/unit_test/writedb_unit_test.cpp: In member function ‘void writedb::InvalidAliasFileGeneration_NonExistentDbAggregation::test_method()’:
/<<PKGBUILDDIR>>/c++/include/corelib/test_boost.hpp:142:42: error: ‘dummy_cond’ is not a member of ‘boost::test_tools::tt_detail’
142 | } while( ::boost::test_tools::tt_detail::dummy_cond() ) \
| ^~~~~~~~~~
/<<PKGBUILDDIR>>/c++/include/corelib/test_boost.hpp:247:5: note: in expansion of macro ‘BOOST_CHECK_THROW_IMPL_EX’
247 | BOOST_CHECK_THROW_IMPL_EX( S, E, P, affix, TL, )
| ^~~~~~~~~~~~~~~~~~~~~~~~~
/usr/include/boost/test/tools/old/interface.hpp:120:45: note: in expansion of macro ‘BOOST_CHECK_THROW_IMPL’
120 | #define BOOST_REQUIRE_THROW( S, E ) BOOST_CHECK_THROW_IMPL( S, E, true, "", REQUIRE )
| ^~~~~~~~~~~~~~~~~~~~~~
/<<PKGBUILDDIR>>/c++/src/objtools/blast/seqdb_writer/unit_test/writedb_unit_test.cpp: In member function ‘void writedb::InvalidAliasFileGeneration_NonExistentMultiVolDbAggregation::test_method()’:
/<<PKGBUILDDIR>>/c++/include/corelib/test_boost.hpp:142:42: error: ‘dummy_cond’ is not a member of ‘boost::test_tools::tt_detail’
142 | } while( ::boost::test_tools::tt_detail::dummy_cond() ) \
| ^~~~~~~~~~
/<<PKGBUILDDIR>>/c++/include/corelib/test_boost.hpp:247:5: note: in expansion of macro ‘BOOST_CHECK_THROW_IMPL_EX’
247 | BOOST_CHECK_THROW_IMPL_EX( S, E, P, affix, TL, )
| ^~~~~~~~~~~~~~~~~~~~~~~~~
/usr/include/boost/test/tools/old/interface.hpp:120:45: note: in expansion of macro ‘BOOST_CHECK_THROW_IMPL’
120 | #define BOOST_REQUIRE_THROW( S, E ) BOOST_CHECK_THROW_IMPL( S, E, true, "", REQUIRE )
| ^~~~~~~~~~~~~~~~~~~~~~
/<<PKGBUILDDIR>>/c++/src/objtools/blast/seqdb_writer/unit_test/writedb_unit_test.cpp: In member function ‘void writedb::InvalidAliasFileGeneration_NoGisInBlastDB::test_method()’:
/<<PKGBUILDDIR>>/c++/include/corelib/test_boost.hpp:142:42: error: ‘dummy_cond’ is not a member of ‘boost::test_tools::tt_detail’
142 | } while( ::boost::test_tools::tt_detail::dummy_cond() ) \
| ^~~~~~~~~~
/<<PKGBUILDDIR>>/c++/include/corelib/test_boost.hpp:247:5: note: in expansion of macro ‘BOOST_CHECK_THROW_IMPL_EX’
247 | BOOST_CHECK_THROW_IMPL_EX( S, E, P, affix, TL, )
| ^~~~~~~~~~~~~~~~~~~~~~~~~
/usr/include/boost/test/tools/old/interface.hpp:120:45: note: in expansion of macro ‘BOOST_CHECK_THROW_IMPL’
120 | #define BOOST_REQUIRE_THROW( S, E ) BOOST_CHECK_THROW_IMPL( S, E, true, "", REQUIRE )
| ^~~~~~~~~~~~~~~~~~~~~~
/<<PKGBUILDDIR>>/c++/src/objtools/blast/seqdb_writer/unit_test/writedb_unit_test.cpp: In member function ‘void writedb::CBuildDatabase_WriteToInvalidPathWindows::test_method()’:
/<<PKGBUILDDIR>>/c++/include/corelib/test_boost.hpp:142:42: error: ‘dummy_cond’ is not a member of ‘boost::test_tools::tt_detail’
142 | } while( ::boost::test_tools::tt_detail::dummy_cond() ) \
| ^~~~~~~~~~
/<<PKGBUILDDIR>>/c++/include/corelib/test_boost.hpp:247:5: note: in expansion of macro ‘BOOST_CHECK_THROW_IMPL_EX’
247 | BOOST_CHECK_THROW_IMPL_EX( S, E, P, affix, TL, )
| ^~~~~~~~~~~~~~~~~~~~~~~~~
/usr/include/boost/test/tools/old/interface.hpp:120:45: note: in expansion of macro ‘BOOST_CHECK_THROW_IMPL’
120 | #define BOOST_REQUIRE_THROW( S, E ) BOOST_CHECK_THROW_IMPL( S, E, true, "", REQUIRE )
| ^~~~~~~~~~~~~~~~~~~~~~
/<<PKGBUILDDIR>>/c++/src/objtools/blast/seqdb_writer/unit_test/writedb_unit_test.cpp: In member function ‘void writedb::CBuildDatabase_WriteToInvalidPathUnix::test_method()’:
/<<PKGBUILDDIR>>/c++/include/corelib/test_boost.hpp:142:42: error: ‘dummy_cond’ is not a member of ‘boost::test_tools::tt_detail’
142 | } while( ::boost::test_tools::tt_detail::dummy_cond() ) \
| ^~~~~~~~~~
/<<PKGBUILDDIR>>/c++/include/corelib/test_boost.hpp:247:5: note: in expansion of macro ‘BOOST_CHECK_THROW_IMPL_EX’
247 | BOOST_CHECK_THROW_IMPL_EX( S, E, P, affix, TL, )
| ^~~~~~~~~~~~~~~~~~~~~~~~~
/usr/include/boost/test/tools/old/interface.hpp:120:45: note: in expansion of macro ‘BOOST_CHECK_THROW_IMPL’
120 | #define BOOST_REQUIRE_THROW( S, E ) BOOST_CHECK_THROW_IMPL( S, E, true, "", REQUIRE )
| ^~~~~~~~~~~~~~~~~~~~~~
In file included from /usr/include/c++/15/bits/stl_iterator.h:78,
from /usr/include/c++/15/bits/stl_algobase.h:67,
from /usr/include/c++/15/algorithm:62,
from /<<PKGBUILDDIR>>/c++/include/corelib/ncbistl.hpp:180,
from /<<PKGBUILDDIR>>/c++/include/corelib/ncbi_limits.hpp:61,
from /<<PKGBUILDDIR>>/c++/include/corelib/ncbistr.hpp:38,
from /<<PKGBUILDDIR>>/c++/include/corelib/ncbistd.hpp:37,
from /<<PKGBUILDDIR>>/c++/src/objtools/edit/rna_edit.cpp:32:
In function ‘constexpr _Tp* std::construct_at(_Tp*, _Args&& ...) [with _Tp = int; _Args = {const int&}]’,
inlined from ‘static constexpr void std::allocator_traits<std::allocator<_CharT> >::construct(allocator_type&, _Up*, _Args&& ...) [with _Up = int; _Args = {const int&}; _Tp = int]’ at /usr/include/c++/15/bits/alloc_traits.h:676:21,
inlined from ‘constexpr void std::vector<_Tp, _Alloc>::_M_realloc_append(_Args&& ...) [with _Args = {const int&}; _Tp = int; _Alloc = std::allocator<int>]’ at /usr/include/c++/15/bits/vector.tcc:586:26,
inlined from ‘constexpr void std::vector<_Tp, _Alloc>::push_back(const value_type&) [with _Tp = int; _Alloc = std::allocator<int>]’ at /usr/include/c++/15/bits/stl_vector.h:1427:21,
inlined from ‘void ncbi::objects::edit::CFindITSParser::GetSpan(const std::string&, std::vector<int>&, std::vector<int>&, std::vector<bool>&)’ at /<<PKGBUILDDIR>>/c++/src/objtools/edit/rna_edit.cpp:221:21:
/usr/include/c++/15/bits/stl_construct.h:110:16: warning: ‘start’ may be used uninitialized [-Wmaybe-uninitialized]
110 | return ::new(__loc) _Tp(std::forward<_Args>(__args)...);
| ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
/<<PKGBUILDDIR>>/c++/src/objtools/edit/rna_edit.cpp: In member function ‘void ncbi::objects::edit::CFindITSParser::GetSpan(const std::string&, std::vector<int>&, std::vector<int>&, std::vector<bool>&)’:
/<<PKGBUILDDIR>>/c++/src/objtools/edit/rna_edit.cpp:211:9: note: ‘start’ was declared here
211 | int start, stop;
| ^~~~~
In function ‘constexpr _Tp* std::construct_at(_Tp*, _Args&& ...) [with _Tp = int; _Args = {const int&}]’,
inlined from ‘static constexpr void std::allocator_traits<std::allocator<_CharT> >::construct(allocator_type&, _Up*, _Args&& ...) [with _Up = int; _Args = {const int&}; _Tp = int]’ at /usr/include/c++/15/bits/alloc_traits.h:676:21,
inlined from ‘constexpr void std::vector<_Tp, _Alloc>::_M_realloc_append(_Args&& ...) [with _Args = {const int&}; _Tp = int; _Alloc = std::allocator<int>]’ at /usr/include/c++/15/bits/vector.tcc:586:26,
inlined from ‘constexpr void std::vector<_Tp, _Alloc>::push_back(const value_type&) [with _Tp = int; _Alloc = std::allocator<int>]’ at /usr/include/c++/15/bits/stl_vector.h:1427:21,
inlined from ‘void ncbi::objects::edit::CFindITSParser::GetSpan(const std::string&, std::vector<int>&, std::vector<int>&, std::vector<bool>&)’ at /<<PKGBUILDDIR>>/c++/src/objtools/edit/rna_edit.cpp:222:20:
/usr/include/c++/15/bits/stl_construct.h:110:16: warning: ‘stop’ may be used uninitialized [-Wmaybe-uninitialized]
110 | return ::new(__loc) _Tp(std::forward<_Args>(__args)...);
| ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
/<<PKGBUILDDIR>>/c++/src/objtools/edit/rna_edit.cpp: In member function ‘void ncbi::objects::edit::CFindITSParser::GetSpan(const std::string&, std::vector<int>&, std::vector<int>&, std::vector<bool>&)’:
/<<PKGBUILDDIR>>/c++/src/objtools/edit/rna_edit.cpp:211:16: note: ‘stop’ was declared here
211 | int start, stop;
| ^~~~
make[5]: *** [/<<PKGBUILDDIR>>/c++/BUILD/build/Makefile.rules:103: writedb_unit_test.o] Error 1
make[5]: Entering directory '/<<PKGBUILDDIR>>/c++/BUILD/build/objtools/blast/seqdb_writer/unit_test'
/usr/bin/g++ -std=gnu++20 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/<<PKGBUILDDIR>>=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIE -DNCBI_MODULE=BLASTDB -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/<<PKGBUILDDIR>>/c++/BUILD/inc -I/<<PKGBUILDDIR>>/c++/include -Wno-unused-local-typedefs -DNCBI_APP_BUILT_AS=writedb_unit_test /<<PKGBUILDDIR>>/c++/src/objtools/blast/seqdb_writer/unit_test/writedb_unit_test.cpp -o writedb_unit_test.o
/<<PKGBUILDDIR>>/c++/BUILD/bin/run_with_lock: Unable to rename log file make_writedb_unit_test.loFAILED: src/objtools/blast/seqdb_writer/unit_test/Makefile.writedb_unit_test.app
g.new: No such file or directory.
make[5]: Entering directory '/<<PKGBUILDDIR>>/c++/BUILD/build/objtools/blast/seqdb_writer/unit_test'
/bin/rm -f writedb_unit_test .writedb_unit_test.stamp
make[5]: Leaving directory '/<<PKGBUILDDIR>>/c++/BUILD/build/objtools/blast/seqdb_writer/unit_test'
make[5]: Leaving directory '/<<PKGBUILDDIR>>/c++/BUILD/build/objtools/blast/seqdb_writer/unit_test'
make[4]: *** [/<<PKGBUILDDIR>>/c++/src/build-system/Makefile.meta_l:337: all.nonusr] Error 2
make[4]: Leaving directory '/<<PKGBUILDDIR>>/c++/BUILD/build/objtools/blast/seqdb_writer/unit_test'
make[3]: *** [Makefile.flat:3486: writedb_unit_test.exe.real] Error 2
make[3]: *** Waiting for unfinished jobs....
/<<PKGBUILDDIR>>/c++/src/objtools/edit/parse_text_options.cpp: In function ‘ncbi::SIZE_TYPE ncbi::objects::edit::FindWithOptions(const std::string&, const std::string&, ncbi::SIZE_TYPE, bool, bool)’:
/<<PKGBUILDDIR>>/c++/src/objtools/edit/parse_text_options.cpp:47:25: warning: ‘static ncbi::SIZE_TYPE ncbi::NStr::Find(ncbi::CTempString, ncbi::CTempString, ncbi::SIZE_TYPE, ncbi::SIZE_TYPE, EOccurrence, ECase)’ is deprecated [-Wdeprecated-declarations]
47 | pos = NStr::Find(str, pattern, pos, NPOS, NStr::eFirst, str_case);
| ~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
In file included from /<<PKGBUILDDIR>>/c++/include/corelib/ncbistd.hpp:37,
from /<<PKGBUILDDIR>>/c++/include/objtools/edit/parse_text_options.hpp:34,
from /<<PKGBUILDDIR>>/c++/src/objtools/edit/parse_text_options.cpp:33:
/<<PKGBUILDDIR>>/c++/include/corelib/ncbistr.hpp:5470:11: note: declared here
5470 | SIZE_TYPE NStr::Find(const CTempString str, const CTempString pattern,
| ^~~~
_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/<<PKGBUILDDIR>>/c++/BUILD/inc -I/<<PKGBUILDDIR>>/c++/include /<<PKGBUILDDIR>>/c++/src/objtools/edit/source_edit.cpp -o source_edit.o
/usr/bin/g++ -std=gnu++20 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/<<PKGBUILDDIR>>=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/<<PKGBUILDDIR>>/c++/BUILD/inc -I/<<PKGBUILDDIR>>/c++/include /<<PKGBUILDDIR>>/c++/src/objtools/edit/rna_edit.cpp -o rna_edit.o
/usr/bin/g++ -std=gnu++20 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/<<PKGBUILDDIR>>=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/<<PKGBUILDDIR>>/c++/BUILD/inc -I/<<PKGBUILDDIR>>/c++/include /<<PKGBUILDDIR>>/c++/src/objtools/edit/remote_updater.cpp -o remote_updater.o
/usr/bin/g++ -std=gnu++20 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/<<PKGBUILDDIR>>=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/<<PKGBUILDDIR>>/c++/BUILD/inc -I/<<PKGBUILDDIR>>/c++/include /<<PKGBUILDDIR>>/c++/src/objtools/edit/eutils_updater.cpp -o eutils_updater.o
/usr/bin/g++ -std=gnu++20 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/<<PKGBUILDDIR>>=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/<<PKGBUILDDIR>>/c++/BUILD/inc -I/<<PKGBUILDDIR>>/c++/include /<<PKGBUILDDIR>>/c++/src/objtools/edit/parse_text_options.cpp -o parse_text_options.o
/usr/bin/g++ -std=gnu++20 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/<<PKGBUILDDIR>>=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/<<PKGBUILDDIR>>/c++/BUILD/inc -I/<<PKGBUILDDIR>>/c++/include /<<PKGBUILDDIR>>/c++/src/objtools/edit/publication_edit.cpp -o publication_edit.o
/usr/bin/g++ -std=gnu++20 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/<<PKGBUILDDIR>>=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/bui/<<PKGBUILDDIR>>/c++/src/objtools/edit/text_object_description.cpp:336:15: warning: ‘std::string ncbi::objects::edit::GetTextObjectDescription(const ncbi::objects::CSeq_feat&, ncbi::objects::CScope&, const std::string&)’ defined but not used [-Wunused-function]
336 | static string GetTextObjectDescription(const CSeq_feat& seq_feat, CScope& scope, const string& product)
| ^~~~~~~~~~~~~~~~~~~~~~~~
ld/ncbi-blast+-shRcBS/ncbi-blast+-2.17.0+ds/c++/BUILD/inc -I/<<PKGBUILDDIR>>/c++/include /<<PKGBUILDDIR>>/c++/src/objtools/edit/gap_trim.cpp -o gap_trim.o
/usr/bin/g++ -std=gnu++20 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/<<PKGBUILDDIR>>=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/<<PKGBUILDDIR>>/c++/BUILD/inc -I/<<PKGBUILDDIR>>/c++/include /<<PKGBUILDDIR>>/c++/src/objtools/edit/external_annots.cpp -o external_annots.o
/usr/bin/g++ -std=gnu++20 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/<<PKGBUILDDIR>>=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/<<PKGBUILDDIR>>/c++/BUILD/inc -I/<<PKGBUILDDIR>>/c++/include /<<PKGBUILDDIR>>/c++/src/objtools/edit/feature_propagate.cpp -o feature_propagate.o
/usr/bin/g++ -std=gnu++20 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/<<PKGBUILDDIR>>=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/<<PKGBUILDDIR>>/c++/BUILD/inc -I/<<PKGBUILDDIR>>/c++/include /<<PKGBUILDDIR>>/c++/src/objtools/edit/text_object_description.cpp -o text_object_description.o
/usr/bin/g++ -std=gnu++20 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/<<PKGBUILDDIR>>=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/<<PKGBUILDDIR>>/c++/BUILD/inc -I/<<PKGBUILDDIR>>/c++/include /<<PKGBUILDDIR>>/c++/src/objtools/edit/seq_edit.cpp -o seq_edit.o
/usr/bin/g++ -std=gnu++20 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/<<PKGBUILDDIR>>=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/<<PKGBUILDDIR>>/c++/BUILD/inc -I/<<PKGBUILDDIR>>/c++/include /<<PKGBUILDDIR>>/c++/src/objtools/edit/pub_fix.cpp -o pub_fix.o
/bin/rm -f libxobjedit.so .libxobjedit.so.stamp
/usr/bin/g++ -std=gnu++20 -shared -o libxobjedit.so -Wl,-r [too-long-redacted] -lxutil -lxncbi -lm -lpthread
/bin/bash /<<PKGBUILDDIR>>/c++/scripts/common/impl/if_diff.sh /bin/ln -f libxobjedit.so /<<PKGBUILDDIR>>/c++/BUILD/lib
/bin/ln -f libxobjedit.so /<<PKGBUILDDIR>>/c++/BUILD/lib/libxobjedit.so
/bin/ln -f .xobjedit.dep /<<PKGBUILDDIR>>/c++/BUILD/status/.xobjedit.dep
make[5]: Leaving directory '/<<PKGBUILDDIR>>/c++/BUILD/build/objtools/edit'
make[4]: Leaving directory '/<<PKGBUILDDIR>>/c++/BUILD/build/objtools/edit'
make[3]: Leaving directory '/<<PKGBUILDDIR>>/c++/BUILD/build'
make[2]: *** [Makefile.flat:442: ptb_all] Error 2
make[2]: Leaving directory '/<<PKGBUILDDIR>>/c++/BUILD/build'
make[1]: *** [debian/rules:113: override_dh_auto_build-arch] Error 2
make[1]: Leaving directory '/<<PKGBUILDDIR>>'
make: *** [debian/rules:221: binary] Error 2
dpkg-buildpackage: error: debian/rules binary subprocess failed with exit status 2
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