[Debian-med-packaging] Bug#1042116: libstatgen: FTBFS: dpkg-gensymbols: error: some symbols or patterns disappeared in the symbols file: see diff output below

Lucas Nussbaum lucas at debian.org
Wed Jul 26 21:05:32 BST 2023 

Source: libstatgen
Version: 1.0.15-6
Severity: serious
Justification: FTBFS
Tags: trixie sid ftbfs
User: lucas at debian.org
Usertags: ftbfs-20230726 ftbfs-trixie

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_1.0.15-6_amd64)
> +++ dpkg-gensymbolsnCVnIJ	2023-07-26 19:18:57.912175612 +0000
> @@ -1638,35 +1638,47 @@
>   _ZNKSt8_Rb_treeINSt7__cxx1112basic_stringIcSt11char_traitsIcESaIcEEES5_St9_IdentityIS5_ESt4lessIS5_ESaIS5_EE4findERKS5_ at 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_ at Base 1.0.15
>   _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 at Base 1.0.15
> + _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_traitsILb1ELb1ELb1EEEED1Ev at Base 1.0.15-6
> + _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_traitsILb1ELb1ELb1EEEED2Ev at Base 1.0.15-6
>   _ZNSt12_Destroy_auxILb0EE9__destroyIP6StringEEvT_S4_ at Base 1.0.14
>   _ZNSt12_Destroy_auxILb0EE9__destroyIPN9IndexBase9ReferenceEEEvT_S5_ at Base 1.0.14
> - _ZNSt12_Vector_baseIN5Cigar13CigarOperatorESaIS1_EED1Ev at Base 1.0.14
> - _ZNSt12_Vector_baseIN5Cigar13CigarOperatorESaIS1_EED2Ev at Base 1.0.14
> - _ZNSt12_Vector_baseIP15SamHeaderRecordSaIS1_EED1Ev at Base 1.0.14
> - _ZNSt12_Vector_baseIP15SamHeaderRecordSaIS1_EED2Ev at Base 1.0.14
> - _ZNSt12_Vector_baseIcSaIcEED1Ev at Base 1.0.14
> - _ZNSt12_Vector_baseIcSaIcEED2Ev at Base 1.0.14
> - _ZNSt12_Vector_baseIfSaIfEED1Ev at Base 1.0.14
> - _ZNSt12_Vector_baseIfSaIfEED2Ev at Base 1.0.14
> - _ZNSt12_Vector_baseIiSaIiEED1Ev at Base 1.0.14
> - _ZNSt12_Vector_baseIiSaIiEED2Ev at Base 1.0.14
> +#MISSING: 1.0.15-6# _ZNSt12_Vector_baseIN5Cigar13CigarOperatorESaIS1_EED1Ev at Base 1.0.14
> +#MISSING: 1.0.15-6# _ZNSt12_Vector_baseIN5Cigar13CigarOperatorESaIS1_EED2Ev at Base 1.0.14
> +#MISSING: 1.0.15-6# _ZNSt12_Vector_baseIP15SamHeaderRecordSaIS1_EED1Ev at Base 1.0.14
> +#MISSING: 1.0.15-6# _ZNSt12_Vector_baseIP15SamHeaderRecordSaIS1_EED2Ev at Base 1.0.14
> +#MISSING: 1.0.15-6# _ZNSt12_Vector_baseIcSaIcEED1Ev at Base 1.0.14
> +#MISSING: 1.0.15-6# _ZNSt12_Vector_baseIcSaIcEED2Ev at Base 1.0.14
> +#MISSING: 1.0.15-6# _ZNSt12_Vector_baseIfSaIfEED1Ev at Base 1.0.14
> +#MISSING: 1.0.15-6# _ZNSt12_Vector_baseIfSaIfEED2Ev at Base 1.0.14
> +#MISSING: 1.0.15-6# _ZNSt12_Vector_baseIiSaIiEED1Ev at Base 1.0.14
> +#MISSING: 1.0.15-6# _ZNSt12_Vector_baseIiSaIiEED2Ev at Base 1.0.14
> + _ZNSt6vectorIN5Cigar13CigarOperatorESaIS1_EED1Ev at Base 1.0.15-6
> + _ZNSt6vectorIN5Cigar13CigarOperatorESaIS1_EED2Ev at Base 1.0.15-6
>   _ZNSt6vectorIP12SamHeaderTagSaIS1_EE17_M_realloc_insertIJS1_EEEvN9__gnu_cxx17__normal_iteratorIPS1_S3_EEDpOT_ at Base 1.0.14
> + _ZNSt6vectorIP15SamHeaderRecordSaIS1_EED1Ev at Base 1.0.15-6
> + _ZNSt6vectorIP15SamHeaderRecordSaIS1_EED2Ev at Base 1.0.15-6
>   _ZNSt6vectorIcSaIcEE17_M_realloc_insertIJcEEEvN9__gnu_cxx17__normal_iteratorIPcS1_EEDpOT_ at Base 1.0.14
> + _ZNSt6vectorIcSaIcEED1Ev at Base 1.0.15-6
> + _ZNSt6vectorIcSaIcEED2Ev at Base 1.0.15-6
>   _ZNSt6vectorIfSaIfEE17_M_realloc_insertIJRKfEEEvN9__gnu_cxx17__normal_iteratorIPfS1_EEDpOT_ at Base 1.0.14
>   _ZNSt6vectorIfSaIfEE17_M_realloc_insertIJfEEEvN9__gnu_cxx17__normal_iteratorIPfS1_EEDpOT_ at Base 1.0.14
> + _ZNSt6vectorIfSaIfEED1Ev at Base 1.0.15-6
> + _ZNSt6vectorIfSaIfEED2Ev at Base 1.0.15-6
>   _ZNSt6vectorIhSaIhEE17_M_realloc_insertIJRKhEEEvN9__gnu_cxx17__normal_iteratorIPhS1_EEDpOT_ at Base 1.0.14
>   _ZNSt6vectorIhSaIhEE17_M_realloc_insertIJhEEEvN9__gnu_cxx17__normal_iteratorIPhS1_EEDpOT_ at Base 1.0.14
>   _ZNSt6vectorIiSaIiEE17_M_realloc_insertIJiEEEvN9__gnu_cxx17__normal_iteratorIPiS1_EEDpOT_ at Base 1.0.14
> + _ZNSt6vectorIiSaIiEED1Ev at Base 1.0.15-6
> + _ZNSt6vectorIiSaIiEED2Ev at Base 1.0.15-6
>   _ZNSt7__cxx1112basic_stringIcSt11char_traitsIcESaIcEEC1IS3_EEPKcRKS3_ at Base 1.0.15
>   _ZNSt7__cxx1112basic_stringIcSt11char_traitsIcESaIcEEC2IS3_EEPKcRKS3_ at Base 1.0.15
>   _ZNSt7__cxx119to_stringEx at 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_ at Base 1.0.15
> - _ZNSt8_Rb_treeImSt4pairIKm5ChunkESt10_Select1stIS3_ESt4lessImESaIS3_EE24_M_get_insert_unique_posERS1_ at Base 1.0.15
> - _ZNSt8_Rb_treeImSt4pairIKm5ChunkESt10_Select1stIS3_ESt4lessImESaIS3_EE29_M_get_insert_hint_unique_posESt23_Rb_tree_const_iteratorIS3_ERS1_ at Base 1.0.15
> +#MISSING: 1.0.15-6# _ZNSt8_Rb_treeImSt4pairIKm5ChunkESt10_Select1stIS3_ESt4lessImESaIS3_EE24_M_get_insert_unique_posERS1_ at Base 1.0.15
> +#MISSING: 1.0.15-6# _ZNSt8_Rb_treeImSt4pairIKm5ChunkESt10_Select1stIS3_ESt4lessImESaIS3_EE29_M_get_insert_hint_unique_posESt23_Rb_tree_const_iteratorIS3_ERS1_ at Base 1.0.15
>   _ZSt16__do_uninit_copyIPK6StringPS0_ET0_T_S5_S4_ at Base 1.0.15
>   _ZSt18__do_uninit_fill_nIPSt6vectorIbSaIbEEmS2_ET_S4_T0_RKT1_ at Base 1.0.15
>   _ZStplIcSt11char_traitsIcESaIcEENSt7__cxx1112basic_stringIT_T0_T1_EEOS8_S9_ at Base 1.0.15
> - _ZZNSt8__detail18__to_chars_10_implIyEEvPcjT_E8__digits at Base 1.0.15
> +#MISSING: 1.0.15-6# _ZZNSt8__detail18__to_chars_10_implIyEEvPcjT_E8__digits at Base 1.0.15
>   bQualityConvertor at Base 1.0.14
>   (c++)"baseQualityConvertor::baseQualityConvertor()@Base" 1.0.14
>   (c++)"baseQualityConvertor::toDouble(unsigned char)@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/2023/07/26/libstatgen_1.0.15-6_unstable.log

All bugs filed during this archive rebuild are listed at:
https://bugs.debian.org/cgi-bin/pkgreport.cgi?tag=ftbfs-20230726;users=lucas@debian.org
or:
https://udd.debian.org/bugs/?release=na&merged=ign&fnewerval=7&flastmodval=7&fusertag=only&fusertagtag=ftbfs-20230726&fusertaguser=lucas@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 mark 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.

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