Source: libstatgen Version: 1.0.15-5 Severity: serious Justification: FTBFS Tags: bookworm sid ftbfs User: lu...@debian.org Usertags: ftbfs-20220728 ftbfs-bookworm
Hi, During a rebuild of all packages in sid, your package failed to build on amd64. Relevant part (hopefully): > make[1]: Entering directory '/<<PKGBUILDDIR>>' > mkdir -p debian/libstatgen-dev/usr/include/libStatGen/ > cp -L include/* debian/libstatgen-dev/usr/include/libStatGen/ > ln -s libStatGen.so.1 libStatGen.so > d-shlibmove --commit \ > --multiarch \ > --devunversioned \ > --exclude-a \ > libStatGen.so > Library package automatic movement utility > set -e > install -d -m 755 debian/libstatgen-dev/usr/lib/x86_64-linux-gnu > install -d -m 755 debian/libstatgen1/usr/lib/x86_64-linux-gnu > mv ./libStatGen.la debian/libstatgen-dev/usr/lib/x86_64-linux-gnu || true > mv ./libStatGen.so debian/libstatgen-dev/usr/lib/x86_64-linux-gnu > mv /<<PKGBUILDDIR>>/libStatGen.so.1 > debian/libstatgen1/usr/lib/x86_64-linux-gnu > PKGDEV=libstatgen-dev > PKGSHL=libstatgen1 > mv: cannot stat './libStatGen.la': No such file or directory > make[1]: Leaving directory '/<<PKGBUILDDIR>>' > dh_installdocs -O--no-parallel > dh_installchangelogs -O--no-parallel > dh_installsystemduser -O--no-parallel > dh_perl -O--no-parallel > dh_link -O--no-parallel > dh_strip_nondeterminism -O--no-parallel > dh_compress -O--no-parallel > dh_fixperms -O--no-parallel > dh_missing -O--no-parallel > dh_dwz -a -O--no-parallel > dh_strip -a -O--no-parallel > dh_makeshlibs -a -O--no-parallel > dpkg-gensymbols: warning: some new symbols appeared in the symbols file: see > diff output below > dpkg-gensymbols: error: some symbols or patterns disappeared in the symbols > file: see diff output below > dpkg-gensymbols: warning: debian/libstatgen1/DEBIAN/symbols doesn't match > completely debian/libstatgen1.symbols > --- debian/libstatgen1.symbols (libstatgen1_1.0.15-5_amd64) > +++ dpkg-gensymbolsh3JD9Q 2022-07-29 09:31:11.378115176 +0000 > @@ -1636,6 +1636,7 @@ > _ZN9FastQFile11interleavedEv@Base 1.0.15 > _ZNK13VcfRecordInfo11getInfoPairB5cxx11Ei@Base 1.0.15 > > _ZNKSt8_Rb_treeINSt7__cxx1112basic_stringIcSt11char_traitsIcESaIcEEES5_St9_IdentityIS5_ESt4lessIS5_ESaIS5_EE4findERKS5_@Base > 1.0.14 > + > _ZNSt10_HashtableINSt7__cxx1112basic_stringIcSt11char_traitsIcESaIcEEES5_SaIS5_ENSt8__detail9_IdentityESt8equal_toIS5_ESt4hashIS5_ENS7_18_Mod_range_hashingENS7_20_Default_ranged_hashENS7_20_Prime_rehash_policyENS7_17_Hashtable_traitsILb1ELb1ELb1EEEE4findERKS5_@Base > 1.0.15-5 > > _ZNSt10_HashtableINSt7__cxx1112basic_stringIcSt11char_traitsIcESaIcEEES5_SaIS5_ENSt8__detail9_IdentityESt8equal_toIS5_ESt4hashIS5_ENS7_18_Mod_range_hashingENS7_20_Default_ranged_hashENS7_20_Prime_rehash_policyENS7_17_Hashtable_traitsILb1ELb1ELb1EEEE9_M_rehashEmRKm@Base > 1.0.15 > _ZNSt12_Destroy_auxILb0EE9__destroyIP6StringEEvT_S4_@Base 1.0.14 > _ZNSt12_Destroy_auxILb0EE9__destroyIPN9IndexBase9ReferenceEEEvT_S5_@Base > 1.0.14 > @@ -1649,7 +1650,7 @@ > _ZNSt12_Vector_baseIfSaIfEED2Ev@Base 1.0.14 > _ZNSt12_Vector_baseIiSaIiEED1Ev@Base 1.0.14 > _ZNSt12_Vector_baseIiSaIiEED2Ev@Base 1.0.14 > - > _ZNSt22__uninitialized_fill_nILb0EE15__uninit_fill_nIPSt6vectorIbSaIbEEmS4_EET_S6_T0_RKT1_@Base > 1.0.14 > +#MISSING: 1.0.15-5# > _ZNSt22__uninitialized_fill_nILb0EE15__uninit_fill_nIPSt6vectorIbSaIbEEmS4_EET_S6_T0_RKT1_@Base > 1.0.14 > > _ZNSt6vectorIP12SamHeaderTagSaIS1_EE17_M_realloc_insertIJS1_EEEvN9__gnu_cxx17__normal_iteratorIPS1_S3_EEDpOT_@Base > 1.0.14 > > _ZNSt6vectorIcSaIcEE17_M_realloc_insertIJcEEEvN9__gnu_cxx17__normal_iteratorIPcS1_EEDpOT_@Base > 1.0.14 > > _ZNSt6vectorIfSaIfEE17_M_realloc_insertIJRKfEEEvN9__gnu_cxx17__normal_iteratorIPfS1_EEDpOT_@Base > 1.0.14 > @@ -1660,6 +1661,12 @@ > _ZNSt7__cxx1112basic_stringIcSt11char_traitsIcESaIcEEC1IS3_EEPKcRKS3_@Base > 1.0.15 > _ZNSt7__cxx1112basic_stringIcSt11char_traitsIcESaIcEEC2IS3_EEPKcRKS3_@Base > 1.0.15 > _ZNSt7__cxx119to_stringEx@Base 1.0.15 > + > _ZNSt8_Rb_treeImSt4pairIKm5ChunkESt10_Select1stIS3_ESt4lessImESaIS3_EE22_M_emplace_hint_uniqueIJS0_ImS2_EEEESt17_Rb_tree_iteratorIS3_ESt23_Rb_tree_const_iteratorIS3_EDpOT_@Base > 1.0.15-5 > + > _ZNSt8_Rb_treeImSt4pairIKm5ChunkESt10_Select1stIS3_ESt4lessImESaIS3_EE24_M_get_insert_unique_posERS1_@Base > 1.0.15-5 > + > _ZNSt8_Rb_treeImSt4pairIKm5ChunkESt10_Select1stIS3_ESt4lessImESaIS3_EE29_M_get_insert_hint_unique_posESt23_Rb_tree_const_iteratorIS3_ERS1_@Base > 1.0.15-5 > + _ZSt16__do_uninit_copyIPK6StringPS0_ET0_T_S5_S4_@Base 1.0.15-5 > + _ZSt18__do_uninit_fill_nIPSt6vectorIbSaIbEEmS2_ET_S4_T0_RKT1_@Base 1.0.15-5 > + > _ZStplIcSt11char_traitsIcESaIcEENSt7__cxx1112basic_stringIT_T0_T1_EEOS8_S9_@Base > 1.0.15-5 > _ZZNSt8__detail18__to_chars_10_implIyEEvPcjT_E8__digits@Base 1.0.15 > bQualityConvertor@Base 1.0.14 > (c++)"baseQualityConvertor::baseQualityConvertor()@Base" 1.0.14 > @@ -1709,7 +1716,7 @@ > globalRandom@Base 1.0.14 > (c++)"hash(unsigned char const*, unsigned int, unsigned int)@Base" 1.0.14 > (c++)"hash_no_case(unsigned char const*, unsigned int, unsigned int)@Base" > 1.0.14 > - (c++)"ifclose(InputFile*&)@Base" 1.0.14 > +#MISSING: 1.0.15-5# (c++)"ifclose(InputFile*&)@Base" 1.0.14 > (c++)"ifprintf(InputFile*, char const*, ...)@Base" 1.0.14 > kftp_connect@Base 1.0.14 > kftp_connect_file@Base 1.0.14 > @@ -1740,23 +1747,23 @@ > (c++)"operator<<(std::basic_ostream<char, std::char_traits<char> >&, > genomeSequenceMmapHeader&)@Base" 1.0.14 > (c++)"std::_Bvector_base<std::allocator<bool> >::_M_deallocate()@Base" > 1.0.14 > (c++)"std::_Deque_base<SamRecord*, std::allocator<SamRecord*> > >::_M_initialize_map(unsigned long)@Base" 1.0.14 > - (c++)"std::_Hashtable<std::__cxx11::basic_string<char, > std::char_traits<char>, std::allocator<char> >, > std::__cxx11::basic_string<char, std::char_traits<char>, std::allocator<char> > >, std::allocator<std::__cxx11::basic_string<char, std::char_traits<char>, > std::allocator<char> > >, std::__detail::_Identity, > std::equal_to<std::__cxx11::basic_string<char, std::char_traits<char>, > std::allocator<char> > >, std::hash<std::__cxx11::basic_string<char, > std::char_traits<char>, std::allocator<char> > >, > std::__detail::_Mod_range_hashing, std::__detail::_Default_ranged_hash, > std::__detail::_Prime_rehash_policy, std::__detail::_Hashtable_traits<true, > true, true> >::_M_find_before_node(unsigned long, > std::__cxx11::basic_string<char, std::char_traits<char>, std::allocator<char> > > const&, unsigned long) const@Base" 1.0.14 > +#MISSING: 1.0.15-5# (c++)"std::_Hashtable<std::__cxx11::basic_string<char, > std::char_traits<char>, std::allocator<char> >, > std::__cxx11::basic_string<char, std::char_traits<char>, std::allocator<char> > >, std::allocator<std::__cxx11::basic_string<char, std::char_traits<char>, > std::allocator<char> > >, std::__detail::_Identity, > std::equal_to<std::__cxx11::basic_string<char, std::char_traits<char>, > std::allocator<char> > >, std::hash<std::__cxx11::basic_string<char, > std::char_traits<char>, std::allocator<char> > >, > std::__detail::_Mod_range_hashing, std::__detail::_Default_ranged_hash, > std::__detail::_Prime_rehash_policy, std::__detail::_Hashtable_traits<true, > true, true> >::_M_find_before_node(unsigned long, > std::__cxx11::basic_string<char, std::char_traits<char>, std::allocator<char> > > const&, unsigned long) const@Base" 1.0.14 > (c++)"std::_Hashtable<std::__cxx11::basic_string<char, > std::char_traits<char>, std::allocator<char> >, > std::__cxx11::basic_string<char, std::char_traits<char>, std::allocator<char> > >, std::allocator<std::__cxx11::basic_string<char, std::char_traits<char>, > std::allocator<char> > >, std::__detail::_Identity, > std::equal_to<std::__cxx11::basic_string<char, std::char_traits<char>, > std::allocator<char> > >, std::hash<std::__cxx11::basic_string<char, > std::char_traits<char>, std::allocator<char> > >, > std::__detail::_Mod_range_hashing, std::__detail::_Default_ranged_hash, > std::__detail::_Prime_rehash_policy, std::__detail::_Hashtable_traits<true, > true, true> >::clear()@Base" 1.0.14 > (c++)"std::_Rb_tree<std::__cxx11::basic_string<char, > std::char_traits<char>, std::allocator<char> >, > std::__cxx11::basic_string<char, std::char_traits<char>, std::allocator<char> > >, std::_Identity<std::__cxx11::basic_string<char, std::char_traits<char>, > std::allocator<char> > >, std::less<std::__cxx11::basic_string<char, > std::char_traits<char>, std::allocator<char> > >, > std::allocator<std::__cxx11::basic_string<char, std::char_traits<char>, > std::allocator<char> > > > >::_M_get_insert_unique_pos(std::__cxx11::basic_string<char, > std::char_traits<char>, std::allocator<char> > const&)@Base" 1.0.14 > (c++)"std::_Rb_tree<std::__cxx11::basic_string<char, > std::char_traits<char>, std::allocator<char> >, > std::pair<std::__cxx11::basic_string<char, std::char_traits<char>, > std::allocator<char> > const, NonOverlapRegionPos>, > std::_Select1st<std::pair<std::__cxx11::basic_string<char, > std::char_traits<char>, std::allocator<char> > const, NonOverlapRegionPos> >, > std::less<std::__cxx11::basic_string<char, std::char_traits<char>, > std::allocator<char> > >, > std::allocator<std::pair<std::__cxx11::basic_string<char, > std::char_traits<char>, std::allocator<char> > const, NonOverlapRegionPos> > > >::_M_get_insert_hint_unique_pos(std::_Rb_tree_const_iterator<std::pair<std::__cxx11::basic_string<char, > std::char_traits<char>, std::allocator<char> > const, NonOverlapRegionPos> > >, std::__cxx11::basic_string<char, std::char_traits<char>, > std::allocator<char> > const&)@Base" 1.0.14 > (c++)"std::_Rb_tree<std::__cxx11::basic_string<char, > std::char_traits<char>, std::allocator<char> >, > std::pair<std::__cxx11::basic_string<char, std::char_traits<char>, > std::allocator<char> > const, NonOverlapRegionPos>, > std::_Select1st<std::pair<std::__cxx11::basic_string<char, > std::char_traits<char>, std::allocator<char> > const, NonOverlapRegionPos> >, > std::less<std::__cxx11::basic_string<char, std::char_traits<char>, > std::allocator<char> > >, > std::allocator<std::pair<std::__cxx11::basic_string<char, > std::char_traits<char>, std::allocator<char> > const, NonOverlapRegionPos> > > >::_M_get_insert_unique_pos(std::__cxx11::basic_string<char, > std::char_traits<char>, std::allocator<char> > const&)@Base" 1.0.14 > - (c++)"std::__cxx11::basic_string<char, std::char_traits<char>, > std::allocator<char> > std::operator+<char, std::char_traits<char>, > std::allocator<char> >(std::__cxx11::basic_string<char, > std::char_traits<char>, std::allocator<char> >&&, char const*)@Base" 1.0.14 > +#MISSING: 1.0.15-5# (c++)"std::__cxx11::basic_string<char, > std::char_traits<char>, std::allocator<char> > std::operator+<char, > std::char_traits<char>, std::allocator<char> > >(std::__cxx11::basic_string<char, std::char_traits<char>, > std::allocator<char> >&&, char const*)@Base" 1.0.14 > (c++)"std::__cxx11::basic_stringbuf<char, std::char_traits<char>, > std::allocator<char> >::~basic_stringbuf()@Base" 1.0.14 > (c++)"std::ctype<char>::do_widen(char) const@Base" 1.0.14 > (c++)"std::pair<std::_Rb_tree_iterator<std::__cxx11::basic_string<char, > std::char_traits<char>, std::allocator<char> > >, bool> > std::_Rb_tree<std::__cxx11::basic_string<char, std::char_traits<char>, > std::allocator<char> >, std::__cxx11::basic_string<char, > std::char_traits<char>, std::allocator<char> >, > std::_Identity<std::__cxx11::basic_string<char, std::char_traits<char>, > std::allocator<char> > >, std::less<std::__cxx11::basic_string<char, > std::char_traits<char>, std::allocator<char> > >, > std::allocator<std::__cxx11::basic_string<char, std::char_traits<char>, > std::allocator<char> > > >::_M_insert_unique<std::__cxx11::basic_string<char, > std::char_traits<char>, std::allocator<char> > > >(std::__cxx11::basic_string<char, std::char_traits<char>, > std::allocator<char> >&&)@Base" 1.0.14 > > (c++)"std::pair<std::_Rb_tree_iterator<std::pair<std::__cxx11::basic_string<char, > std::char_traits<char>, std::allocator<char> > const, unsigned int> >, bool> > std::_Rb_tree<std::__cxx11::basic_string<char, std::char_traits<char>, > std::allocator<char> >, std::pair<std::__cxx11::basic_string<char, > std::char_traits<char>, std::allocator<char> > const, unsigned int>, > std::_Select1st<std::pair<std::__cxx11::basic_string<char, > std::char_traits<char>, std::allocator<char> > const, unsigned int> >, > std::less<std::__cxx11::basic_string<char, std::char_traits<char>, > std::allocator<char> > >, > std::allocator<std::pair<std::__cxx11::basic_string<char, > std::char_traits<char>, std::allocator<char> > const, unsigned int> > > >::_M_emplace_unique<std::pair<char const*, unsigned int> >(std::pair<char > const*, unsigned int>&&)@Base" 1.0.14 > - (c++)"std::pair<std::_Rb_tree_iterator<std::pair<unsigned long const, > Chunk> >, bool> std::_Rb_tree<unsigned long, std::pair<unsigned long const, > Chunk>, std::_Select1st<std::pair<unsigned long const, Chunk> >, > std::less<unsigned long>, std::allocator<std::pair<unsigned long const, > Chunk> > >::_M_emplace_unique<std::pair<unsigned long, Chunk> > >(std::pair<unsigned long, Chunk>&&)@Base" 1.0.14 > +#MISSING: 1.0.15-5# > (c++)"std::pair<std::_Rb_tree_iterator<std::pair<unsigned long const, Chunk> > >, bool> std::_Rb_tree<unsigned long, std::pair<unsigned long const, Chunk>, > std::_Select1st<std::pair<unsigned long const, Chunk> >, std::less<unsigned > long>, std::allocator<std::pair<unsigned long const, Chunk> > > >::_M_emplace_unique<std::pair<unsigned long, Chunk> >(std::pair<unsigned > long, Chunk>&&)@Base" 1.0.14 > (c++)"std::set<std::__cxx11::basic_string<char, std::char_traits<char>, > std::allocator<char> >, std::less<std::__cxx11::basic_string<char, > std::char_traits<char>, std::allocator<char> > >, > std::allocator<std::__cxx11::basic_string<char, std::char_traits<char>, > std::allocator<char> > > >::~set()@Base" 1.0.14 > (c++)"std::vector<IndexBase::Bin, std::allocator<IndexBase::Bin> > >::_M_default_append(unsigned long)@Base" 1.0.14 > (c++)"std::vector<IndexBase::Reference, > std::allocator<IndexBase::Reference> >::_M_default_append(unsigned > long)@Base" 1.0.14 > (c++)"std::vector<IndexBase::Reference, > std::allocator<IndexBase::Reference> >::~vector()@Base" 1.0.14 > (c++)"std::vector<String, std::allocator<String> > >::_M_default_append(unsigned long)@Base" 1.0.14 > - (c++)"std::vector<String, std::allocator<String> > >::operator=(std::vector<String, std::allocator<String> > const&)@Base" 1.0.14 > +#MISSING: 1.0.15-5# (c++)"std::vector<String, std::allocator<String> > >::operator=(std::vector<String, std::allocator<String> > const&)@Base" 1.0.14 > (c++)"std::vector<VcfGenotypeSample*, std::allocator<VcfGenotypeSample*> > >::_M_default_append(unsigned long)@Base" 1.0.14 > (c++)"std::vector<VcfRecordInfo::InfoElement*, > std::allocator<VcfRecordInfo::InfoElement*> >::_M_default_append(unsigned > long)@Base" 1.0.14 > (c++)"std::vector<bool, std::allocator<bool> > >::_M_fill_insert(std::_Bit_iterator, unsigned long, bool)@Base" 1.0.14 > dh_makeshlibs: error: failing due to earlier errors > make: *** [debian/rules:12: binary] Error 25 The full build log is available from: http://qa-logs.debian.net/2022/07/28/libstatgen_1.0.15-5_unstable.log All bugs filed during this archive rebuild are listed at: https://bugs.debian.org/cgi-bin/pkgreport.cgi?tag=ftbfs-20220728;users=lu...@debian.org or: https://udd.debian.org/bugs/?release=na&merged=ign&fnewerval=7&flastmodval=7&fusertag=only&fusertagtag=ftbfs-20220728&fusertaguser=lu...@debian.org&allbugs=1&cseverity=1&ctags=1&caffected=1#results A list of current common problems and possible solutions is available at http://wiki.debian.org/qa.debian.org/FTBFS . You're welcome to contribute! If you reassign this bug to another package, please marking it as 'affects'-ing this package. See https://www.debian.org/Bugs/server-control#affects If you fail to reproduce this, please provide a build log and diff it with mine so that we can identify if something relevant changed in the meantime.