Your message dated Mon, 01 Nov 2021 13:33:57 +0000 with message-id <e1mhxrl-0009vo...@fasolo.debian.org> and subject line Bug#997447: fixed in libbpp-popgen 2.4.1-6 has caused the Debian Bug report #997447, regarding libbpp-popgen: FTBFS: dpkg-gensymbols: error: some symbols or patterns disappeared in the symbols file: see diff output below to be marked as done.
This means that you claim that the problem has been dealt with. If this is not the case it is now your responsibility to reopen the Bug report if necessary, and/or fix the problem forthwith. (NB: If you are a system administrator and have no idea what this message is talking about, this may indicate a serious mail system misconfiguration somewhere. Please contact ow...@bugs.debian.org immediately.) -- 997447: https://bugs.debian.org/cgi-bin/bugreport.cgi?bug=997447 Debian Bug Tracking System Contact ow...@bugs.debian.org with problems
--- Begin Message ---Source: libbpp-popgen Version: 2.4.1-5 Severity: serious Justification: FTBFS Tags: bookworm sid ftbfs User: lu...@debian.org Usertags: ftbfs-20211023 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>>' > dh_install > d-shlibmove --commit \ > --multiarch \ > --devunversioned \ > --exclude-la \ > --movedev debian/tmp/usr/include/* usr/include \ > --movedev debian/tmp/usr/lib/*/cmake > usr/lib/x86_64-linux-gnu \ > debian/tmp/usr/lib/*/*.so > Library package automatic movement utility > --> libbpp-core-dev package exists. > --> libbpp-seq-dev package exists. > set -e > install -d -m 755 debian/libbpp-popgen-dev/usr/lib/x86_64-linux-gnu > install -d -m 755 debian/libbpp-popgen8/usr/lib/x86_64-linux-gnu > mv debian/tmp/usr/lib/x86_64-linux-gnu/libbpp-popgen.a > debian/libbpp-popgen-dev/usr/lib/x86_64-linux-gnu > mv debian/tmp/usr/lib/x86_64-linux-gnu/libbpp-popgen.so > debian/libbpp-popgen-dev/usr/lib/x86_64-linux-gnu > mv /<<PKGBUILDDIR>>/debian/tmp/usr/lib/x86_64-linux-gnu/libbpp-popgen.so.8 > debian/libbpp-popgen8/usr/lib/x86_64-linux-gnu > mv > /<<PKGBUILDDIR>>/debian/tmp/usr/lib/x86_64-linux-gnu/libbpp-popgen.so.8.0.0 > debian/libbpp-popgen8/usr/lib/x86_64-linux-gnu > PKGDEV=libbpp-popgen-dev > PKGSHL=libbpp-popgen8 > install -d -m 755 debian/libbpp-popgen-dev/usr/include > mv debian/tmp/usr/include/Bpp debian/libbpp-popgen-dev/usr/include > install -d -m 755 debian/libbpp-popgen-dev/usr/lib/x86_64-linux-gnu > mv debian/tmp/usr/lib/x86_64-linux-gnu/cmake > debian/libbpp-popgen-dev/usr/lib/x86_64-linux-gnu > make[1]: Leaving directory '/<<PKGBUILDDIR>>' > dh_installdocs > dh_installchangelogs > dh_perl > dh_link > dh_strip_nondeterminism > dh_compress > dh_fixperms > dh_missing > dh_dwz -a > dh_strip -a > dh_makeshlibs -a > 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/libbpp-popgen8/DEBIAN/symbols doesn't match > completely debian/libbpp-popgen8.symbols.amd64 > --- debian/libbpp-popgen8.symbols.amd64 (libbpp-popgen8_2.4.1-5_amd64) > +++ dpkg-gensymbolseF3Nca 2021-10-23 07:34:38.348480986 +0000 > @@ -61,6 +61,7 @@ > _ZN3bpp11PopgenlibIOD1Ev@Base 2.4.1 > _ZN3bpp11PopgenlibIOD2Ev@Base 2.4.1 > _ZN3bpp11RandomTools9getSampleImEEvRKSt6vectorIT_SaIS3_EERS5_b@Base 2.4.1 > + > _ZN3bpp11VectorTools11countValuesINSt7__cxx1112basic_stringIcSt11char_traitsIcESaIcEEEEESt3mapIT_mSt4lessIS9_ESaISt4pairIKS9_mEEERKSt6vectorIS9_SaIS9_EE@Base > 2.4.1-5 > _ZN3bpp11VectorTools3covIddEET0_RKSt6vectorIT_SaIS4_EES8_b@Base 2.4.1 > > _ZN3bpp11VectorTools6uniqueINSt7__cxx1112basic_stringIcSt11char_traitsIcESaIcEEEEESt6vectorIT_SaIS9_EERKSB_@Base > 2.4.1 > _ZN3bpp11VectorTools6uniqueImEESt6vectorIT_SaIS3_EERKS5_@Base 2.4.1 > @@ -662,7 +663,7 @@ > > _ZN3bpp9TextTools8toStringIcEENSt7__cxx1112basic_stringIcSt11char_traitsIcESaIcEEET_@Base > 2.4.1 > > _ZN3bpp9TextTools8toStringIiEENSt7__cxx1112basic_stringIcSt11char_traitsIcESaIcEEET_@Base > 2.4.1 > > _ZN3bpp9TextTools8toStringImEENSt7__cxx1112basic_stringIcSt11char_traitsIcESaIcEEET_@Base > 2.4.1 > - _ZN3bppdvIdEESt6vectorIT_SaIS2_EERKS4_S6_@Base 2.4.1 > +#MISSING: 2.4.1-5# _ZN3bppdvIdEESt6vectorIT_SaIS2_EERKS4_S6_@Base 2.4.1 > _ZN3bppdvIdiEESt6vectorIT_SaIS2_EERKS4_RKT0_@Base 2.4.1 > _ZN3bppmiIdiEESt6vectorIT_SaIS2_EERKS4_RKT0_@Base 2.4.1 > _ZN3bppmlIdEESt6vectorIT_SaIS2_EERKS4_S6_@Base 2.4.1 > @@ -759,6 +760,7 @@ > _ZNK3bpp19VectorSiteContainer7valueAtEmm@Base 2.4.1 > > _ZNK3bpp19VectorSiteContainerclERKNSt7__cxx1112basic_stringIcSt11char_traitsIcESaIcEEEm@Base > 2.4.1 > _ZNK3bpp19VectorSiteContainerclEmm@Base 2.4.1 > + _ZNK3bpp20AbstractCoreSequence11getCommentsB5cxx11Ev@Base 2.4.1-5 > _ZNK3bpp20AbstractCoreSequence7getNameB5cxx11Ev@Base 2.4.1 > _ZNK3bpp20AbstractOutputStream12getPrecisionEv@Base 2.4.1 > _ZNK3bpp20AbstractOutputStream27isScientificNotationEnabledEv@Base 2.4.1 > @@ -935,11 +937,13 @@ > _ZNSt12_Vector_baseImSaImEED2Ev@Base 2.4.1 > _ZNSt13_Bvector_baseISaIbEE13_M_deallocateEv@Base 2.4.1 > > _ZNSt3mapINSt7__cxx1112basic_stringIcSt11char_traitsIcESaIcEEEdSt4lessIS5_ESaISt4pairIKS5_dEEEixEOS5_@Base > 2.4.1 > + > _ZNSt3mapINSt7__cxx1112basic_stringIcSt11char_traitsIcESaIcEEEmSt4lessIS5_ESaISt4pairIKS5_mEEEixERS9_@Base > 2.4.1-5 > > _ZNSt5dequeINSt7__cxx1112basic_stringIcSt11char_traitsIcESaIcEEESaIS5_EED1Ev@Base > 2.4.1 > > _ZNSt5dequeINSt7__cxx1112basic_stringIcSt11char_traitsIcESaIcEEESaIS5_EED2Ev@Base > 2.4.1 > > _ZNSt6vectorIN3bpp19GeneMapperCsvExport6AlleleESaIS2_EE17_M_realloc_insertIJRKS2_EEEvN9__gnu_cxx17__normal_iteratorIPS2_S4_EEDpOT_@Base > 2.4.1 > > _ZNSt6vectorIN3bpp9LocusInfoESaIS1_EE17_M_realloc_insertIJS1_EEEvN9__gnu_cxx17__normal_iteratorIPS1_S3_EEDpOT_@Base > 2.4.1 > - > _ZNSt6vectorINSt7__cxx1112basic_stringIcSt11char_traitsIcESaIcEEESaIS5_EE12emplace_backIJS5_EEEvDpOT_@Base > 2.4.1 > + > _ZNSt6vectorINSt7__cxx1112basic_stringIcSt11char_traitsIcESaIcEEESaIS5_EE12emplace_backIJS5_EEERS5_DpOT_@Base > 2.4.1-5 > +#MISSING: 2.4.1-5# > _ZNSt6vectorINSt7__cxx1112basic_stringIcSt11char_traitsIcESaIcEEESaIS5_EE12emplace_backIJS5_EEEvDpOT_@Base > 2.4.1 > > _ZNSt6vectorINSt7__cxx1112basic_stringIcSt11char_traitsIcESaIcEEESaIS5_EE17_M_default_appendEm@Base > 2.4.1 > > _ZNSt6vectorINSt7__cxx1112basic_stringIcSt11char_traitsIcESaIcEEESaIS5_EE17_M_realloc_insertIJRKS5_EEEvN9__gnu_cxx17__normal_iteratorIPS5_S7_EEDpOT_@Base > 2.4.1 > > _ZNSt6vectorINSt7__cxx1112basic_stringIcSt11char_traitsIcESaIcEEESaIS5_EE17_M_realloc_insertIJS5_EEEvN9__gnu_cxx17__normal_iteratorIPS5_S7_EEDpOT_@Base > 2.4.1 > @@ -982,6 +986,8 @@ > > _ZNSt6vectorImSaImEE17_M_realloc_insertIJRKmEEEvN9__gnu_cxx17__normal_iteratorIPmS1_EEDpOT_@Base > 2.4.1 > > _ZNSt6vectorImSaImEE17_M_realloc_insertIJmEEEvN9__gnu_cxx17__normal_iteratorIPmS1_EEDpOT_@Base > 2.4.1 > _ZNSt6vectorImSaImEE8_M_eraseEN9__gnu_cxx17__normal_iteratorIPmS1_EE@Base > 2.4.1 > + _ZNSt7__cxx1112basic_stringIcSt11char_traitsIcESaIcEEC1IS3_EEPKcRKS3_@Base > 2.4.1-5 > + _ZNSt7__cxx1112basic_stringIcSt11char_traitsIcESaIcEEC2IS3_EEPKcRKS3_@Base > 2.4.1-5 > _ZNSt7__cxx1115basic_stringbufIcSt11char_traitsIcESaIcEED0Ev@Base 2.4.1 > _ZNSt7__cxx1115basic_stringbufIcSt11char_traitsIcESaIcEED1Ev@Base 2.4.1 > _ZNSt7__cxx1115basic_stringbufIcSt11char_traitsIcESaIcEED2Ev@Base 2.4.1 > @@ -1343,6 +1349,7 @@ > _ZTv0_n56_N3bpp4Site11setPositionEi@Base 2.4.1 > _ZTv0_n56_NK3bpp15BasicSymbolList4sizeEv@Base 2.4.1 > > _ZTv0_n56_NK3bpp25AbstractSequenceContainer8toStringERKNSt7__cxx1112basic_stringIcSt11char_traitsIcESaIcEEE@Base > 2.4.1 > + _ZTv0_n64_NK3bpp20AbstractCoreSequence11getCommentsB5cxx11Ev@Base 2.4.1-5 > _ZTv0_n72_NK3bpp15DarwinVarSingle5writeERSoRKNS_7DataSetE@Base 2.4.1 > _ZTv0_n72_NK3bpp9DarwinDon5writeERSoRKNS_7DataSetE@Base 2.4.1 > > _ZTv0_n80_N3bpp29PolymorphismSequenceContainer11addSequenceERKNS_8SequenceEb@Base > 2.4.1 > dh_makeshlibs: error: failing due to earlier errors > make: *** [debian/rules:8: binary] Error 25 The full build log is available from: http://qa-logs.debian.net/2021/10/23/libbpp-popgen_2.4.1-5_unstable.log 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.
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--- Begin Message ---Source: libbpp-popgen Source-Version: 2.4.1-6 Done: Andreas Tille <ti...@debian.org> We believe that the bug you reported is fixed in the latest version of libbpp-popgen, which is due to be installed in the Debian FTP archive. A summary of the changes between this version and the previous one is attached. Thank you for reporting the bug, which will now be closed. If you have further comments please address them to 997...@bugs.debian.org, and the maintainer will reopen the bug report if appropriate. Debian distribution maintenance software pp. Andreas Tille <ti...@debian.org> (supplier of updated libbpp-popgen package) (This message was generated automatically at their request; if you believe that there is a problem with it please contact the archive administrators by mailing ftpmas...@ftp-master.debian.org) -----BEGIN PGP SIGNED MESSAGE----- Hash: SHA512 Format: 1.8 Date: Mon, 01 Nov 2021 14:12:39 +0100 Source: libbpp-popgen Architecture: source Version: 2.4.1-6 Distribution: unstable Urgency: medium Maintainer: Debian Med Packaging Team <debian-med-packag...@lists.alioth.debian.org> Changed-By: Andreas Tille <ti...@debian.org> Closes: 997447 Changes: libbpp-popgen (2.4.1-6) unstable; urgency=medium . * Fix symbols again Closes: #997447 Checksums-Sha1: 45342d29a854f5452b58c98584bc8d2d373e1652 2178 libbpp-popgen_2.4.1-6.dsc 772c0d17dedff4c3708399aea2024a503877d594 18728 libbpp-popgen_2.4.1-6.debian.tar.xz 1d14ec3d224294e8dcda900a280c748ec1d4cd05 7586 libbpp-popgen_2.4.1-6_amd64.buildinfo Checksums-Sha256: 6e8e87c8a719236d419f030c86ee8bbc25713779026880768e3312033b089e90 2178 libbpp-popgen_2.4.1-6.dsc dd094059c08affefe2d3f8906d7c187a87d8768eab3792038def3c35926dcb5f 18728 libbpp-popgen_2.4.1-6.debian.tar.xz c6b843f9aa3811e46b31b146848f6c17bd6d8a1cb26cf152e7d99c975d7e3525 7586 libbpp-popgen_2.4.1-6_amd64.buildinfo Files: f2fb62a5a727abc46b39b71db1b6c32f 2178 science optional libbpp-popgen_2.4.1-6.dsc 026395cf8db86326a087315961bc0885 18728 science optional libbpp-popgen_2.4.1-6.debian.tar.xz ea3e75bd54e912a81c67207d07f4b9ec 7586 science optional libbpp-popgen_2.4.1-6_amd64.buildinfo -----BEGIN PGP SIGNATURE----- iQJFBAEBCgAvFiEE8fAHMgoDVUHwpmPKV4oElNHGRtEFAmF/6OwRHHRpbGxlQGRl Ymlhbi5vcmcACgkQV4oElNHGRtEi4A//e0hEStFTa+vIQsYZtO/XAhe2X8THTQfV oYmCA5zgJjmoI7vcTHxrg42q8/A7Cmg0BK0s4kYjLa451oYMLm4S/mW+ScXO5LW/ 4KZcxUquwkMbYlNRK5VifV/QPMWUSYZtGs2qH8E6T/MqG8LcSM0R9w/IwPVxirK2 FmM5jkyXcZ/GmDpHR888w+RvWIWx9bim3wYz5XUwPWaAVknLzUpy4QK5sS7AVBcH 2AAY67Sw/TIDB7AneF9LdVa5z51FvjBdmvJOCFoYCn+2WBgMON3m7aQkh05pkIot UfSaCh2uqvKqdF45V6Ib+FVWW76snv05/AlKyYY5jlZqAZEkVn33SJ8e8tYc37u8 tMwksp33nxy3N6qWkzCD5ukBJVR1CmhDkyiBr3sr8ViJoJvq3/fsXcuNvOzI0Wxx WqS5Ei8pqXa2G0rHJ4MxghOfEnHApYIoQJJynfu3LAIbL5i+08c9lXyVGzVd5aOX lhZ6UK+bkT22J9NwPFtVWIZar+ARG+HO63k2KuObKXWl/nkZb5DGKKLRKUTqbAr1 GWf13vuC0iJGKITunPaTJXIWeoWLoF64LOxgt8gHfDW5ZJ9rxidcfQEgjJx6KPaU YKLkw1L80GaHCzUG8Ii6q8dpTs0yhnpB49tFTCQQeabg6B2/Zf/GI0+pEa8MDydA rNDPGdFab8Q= =eQ1E -----END PGP SIGNATURE-----
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