Your message dated Thu, 04 Nov 2021 20:49:19 +0000 with message-id <e1mijfj-000b0b...@fasolo.debian.org> and subject line Bug#984090: fixed in libbpp-raa 2.4.1-6 has caused the Debian Bug report #984090, regarding libbpp-raa: ftbfs with GCC-11 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.) -- 984090: https://bugs.debian.org/cgi-bin/bugreport.cgi?bug=984090 Debian Bug Tracking System Contact ow...@bugs.debian.org with problems
--- Begin Message ---Package: src:libbpp-raa Version: 2.4.1-4 Severity: normal Tags: sid bookworm User: debian-...@lists.debian.org Usertags: ftbfs-gcc-11 [This bug is not targeted to the upcoming bullseye release] Please keep this issue open in the bug tracker for the package it was filed for. If a fix in another package is required, please file a bug for the other package (or clone), and add a block in this package. Please keep the issue open until the package can be built in a follow-up test rebuild. The package fails to build in a test rebuild on at least amd64 with gcc-11/g++-11, but succeeds to build with gcc-10/g++-10. The severity of this report will be raised before the bookworm release, so nothing has to be done for the bullseye release. The full build log can be found at: http://people.debian.org/~doko/logs/20210228/filtered/gcc11/libbpp-raa_2.4.1-4_unstable_gcc11.log The last lines of the build log are at the end of this report. To build with GCC 11, either set CC=gcc-11 CXX=g++-11 explicitly, or install the gcc, g++, gfortran, ... packages from experimental. apt-get -t=experimental install g++ Common build failures are new warnings resulting in build failures with -Werror turned on, or new/dropped symbols in Debian symbols files. For other C/C++ related build failures see the porting guide at http://gcc.gnu.org/gcc-11/porting_to.html GCC 11 defaults to the GNU++17 standard. If your package installs header files in /usr/include, please don't work around C++17 issues by choosing a lower C++ standard for the package build, but fix these issues to build with the C++17 standard. [...] --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. --> zlib1g-dev package exists. set -e install -d -m 755 debian/libbpp-raa-dev/usr/lib/x86_64-linux-gnu install -d -m 755 debian/libbpp-raa4/usr/lib/x86_64-linux-gnu mv debian/tmp/usr/lib/x86_64-linux-gnu/libbpp-raa.a debian/libbpp-raa-dev/usr/lib/x86_64-linux-gnu mv debian/tmp/usr/lib/x86_64-linux-gnu/libbpp-raa.so debian/libbpp-raa-dev/usr/lib/x86_64-linux-gnu mv /<<PKGBUILDDIR>>/debian/tmp/usr/lib/x86_64-linux-gnu/libbpp-raa.so.4 debian/libbpp-raa4/usr/lib/x86_64-linux-gnu mv /<<PKGBUILDDIR>>/debian/tmp/usr/lib/x86_64-linux-gnu/libbpp-raa.so.4.0.0 debian/libbpp-raa4/usr/lib/x86_64-linux-gnu PKGDEV=libbpp-raa-dev PKGSHL=libbpp-raa4 install -d -m 755 debian/libbpp-raa-dev/usr/include mv debian/tmp/usr/include/Bpp debian/libbpp-raa-dev/usr/include install -d -m 755 debian/libbpp-raa-dev/usr/lib/x86_64-linux-gnu mv debian/tmp/usr/lib/x86_64-linux-gnu/cmake debian/libbpp-raa-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-raa4/DEBIAN/symbols doesn't match completely debian/libbpp-raa4.symbols.amd64 --- debian/libbpp-raa4.symbols.amd64 (libbpp-raa4_2.4.1-4_amd64) +++ dpkg-gensymbolsYzL713 2021-03-01 21:10:54.111892382 +0000 @@ -17,7 +17,7 @@ _ZN3bpp17AlphabetExceptionD0Ev@Base 2.4.1 _ZN3bpp17AlphabetExceptionD1Ev@Base 2.4.1 _ZN3bpp17AlphabetExceptionD2Ev@Base 2.4.1 - _ZN3bpp20AbstractCoreSequence11setCommentsERKSt6vectorINSt7__cxx1112basic_stringIcSt11char_traitsIcESaIcEEESaIS7_EE@Base 2.4.1 +#MISSING: 2.4.1-4# _ZN3bpp20AbstractCoreSequence11setCommentsERKSt6vectorINSt7__cxx1112basic_stringIcSt11char_traitsIcESaIcEEESaIS7_EE@Base 2.4.1 _ZN3bpp3RAA10deleteListEPNS_7RaaListE@Base 2.4.1 _ZN3bpp3RAA10getSeqFragERKNSt7__cxx1112basic_stringIcSt11char_traitsIcESaIcEEEiiRS6_@Base 2.4.1 _ZN3bpp3RAA10getSeqFragEiiiRNSt7__cxx1112basic_stringIcSt11char_traitsIcESaIcEEE@Base 2.4.1 @@ -74,15 +74,17 @@ _ZNK3bpp17AlphabetException11getAlphabetEv@Base 2.4.1 _ZNSt12_Vector_baseINSt7__cxx1112basic_stringIcSt11char_traitsIcESaIcEEESaIS5_EED1Ev@Base 2.4.1 _ZNSt12_Vector_baseINSt7__cxx1112basic_stringIcSt11char_traitsIcESaIcEEESaIS5_EED2Ev@Base 2.4.1 - _ZNSt6vectorINSt7__cxx1112basic_stringIcSt11char_traitsIcESaIcEEESaIS5_EE12emplace_backIJS5_EEEvDpOT_@Base 2.4.1 +#MISSING: 2.4.1-4# _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_insertIJS5_EEEvN9__gnu_cxx17__normal_iteratorIPS5_S7_EEDpOT_@Base 2.4.1 _ZNSt6vectorINSt7__cxx1112basic_stringIcSt11char_traitsIcESaIcEEESaIS5_EED1Ev@Base 2.4.1 _ZNSt6vectorINSt7__cxx1112basic_stringIcSt11char_traitsIcESaIcEEESaIS5_EED2Ev@Base 2.4.1 - _ZNSt6vectorINSt7__cxx1112basic_stringIcSt11char_traitsIcESaIcEEESaIS5_EEaSERKS7_@Base 2.4.1 +#MISSING: 2.4.1-4# _ZNSt6vectorINSt7__cxx1112basic_stringIcSt11char_traitsIcESaIcEEESaIS5_EEaSERKS7_@Base 2.4.1 + _ZNSt7__cxx1112basic_stringIcSt11char_traitsIcESaIcEEC1IS3_EEPKcRKS3_@Base 2.4.1-4 + _ZNSt7__cxx1112basic_stringIcSt11char_traitsIcESaIcEEC2IS3_EEPKcRKS3_@Base 2.4.1-4 _ZTINSt7__cxx1112basic_stringIcSt11char_traitsIcESaIcEEE@Base 2.4.1 _ZTSNSt7__cxx1112basic_stringIcSt11char_traitsIcESaIcEEE@Base 2.4.1 - _ZTv0_n72_N3bpp20AbstractCoreSequence11setCommentsERKSt6vectorINSt7__cxx1112basic_stringIcSt11char_traitsIcESaIcEEESaIS7_EE@Base 2.4.1 +#MISSING: 2.4.1-4# _ZTv0_n72_N3bpp20AbstractCoreSequence11setCommentsERKSt6vectorINSt7__cxx1112basic_stringIcSt11char_traitsIcESaIcEEESaIS7_EE@Base 2.4.1 ajout_reponse@Base 2.4.1 aminoacids@Base 2.4.1 atoi_u@Base 2.4.1 dh_makeshlibs: error: failing due to earlier errors make: *** [debian/rules:8: binary] Error 25 dpkg-buildpackage: error: debian/rules binary subprocess returned exit status 2
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--- Begin Message ---Source: libbpp-raa Source-Version: 2.4.1-6 Done: Étienne Mollier <emoll...@debian.org> We believe that the bug you reported is fixed in the latest version of libbpp-raa, 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 984...@bugs.debian.org, and the maintainer will reopen the bug report if appropriate. Debian distribution maintenance software pp. Étienne Mollier <emoll...@debian.org> (supplier of updated libbpp-raa 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: Thu, 04 Nov 2021 21:01:38 +0100 Source: libbpp-raa 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: Étienne Mollier <emoll...@debian.org> Closes: 984090 Changes: libbpp-raa (2.4.1-6) unstable; urgency=medium . * Team upload. * d/libbpp-raa4.symbols.amd64: adjust for gcc11 (Closes: #984090) * Apply multi-arch hints. + libbpp-raa-dev, libbpp-raa4: Add Multi-Arch: same. Checksums-Sha1: 54fbc20c16a909f362640e055ec0b0ec41f32e96 2135 libbpp-raa_2.4.1-6.dsc 3c9fd273beb8bb370815400dc4d91f8f2bf1626b 11700 libbpp-raa_2.4.1-6.debian.tar.xz ad1ab94b4f3f2d82d1b648e2049af9bc4c318124 7384 libbpp-raa_2.4.1-6_amd64.buildinfo Checksums-Sha256: 47618aa4ba9342b275f980048db9c5d024be90418d043e1c8137147e1788084e 2135 libbpp-raa_2.4.1-6.dsc 9c0415bd158f61dd094aa84d1eef28e07510e0482254609caab3368f3086852a 11700 libbpp-raa_2.4.1-6.debian.tar.xz b161cdc1dbb206f66f9d6f4b8d6b90d3050b8b370d0d66541e9040287e1c8635 7384 libbpp-raa_2.4.1-6_amd64.buildinfo Files: b7cc8dc98c66b59d3944b81443e65412 2135 science optional libbpp-raa_2.4.1-6.dsc 9a454fba7b9f50f0dcbdb1c274e1da2f 11700 science optional libbpp-raa_2.4.1-6.debian.tar.xz da90672b96ea7befb2044ed2ddc76cb7 7384 science optional libbpp-raa_2.4.1-6_amd64.buildinfo -----BEGIN PGP SIGNATURE----- iQJIBAEBCgAyFiEEj5GyJ8fW8rGUjII2eTz2fo8NEdoFAmGEQLMUHGVtb2xsaWVy QGRlYmlhbi5vcmcACgkQeTz2fo8NEdon8RAAkjnsvsZvZWxqwQnHAu0XjE+Oh+fz KSP9CDAXvpUm7ILYhaz+58tutsPNjMoZR9ebmS6toAh9dmFuE8L4Z6OBgak48nnP IwDOQg3kMzTyAUWj1f1PMp18gCDdPP1CVfF3ASAwZFZRJ+fhq3L5Qh+Pjg9G3miV Iutd80o5W8tjUYYDLix68g/xEPNW8hBnq7uFtGhi3isnMp2wuqoaC+VWqD1CQrPR Y9+ucV1R4Jop8xQNZb7cOf/yMXcoFGKzKhMUOmViRe8g7afWJWTscmX9JclA4rQr fAaJc7snK2JHKrmmmPBrA9J7ABU9oaQfVaUaiLiODT0kOMJXF0R3+oA5ZgzyRuQJ v9qguhu0AULBqiMefIcbkJFIC2hhRpS5XJbHRSUongX87IVJbEqeq03nTS00wBxm g0R+ND4qNEYyIFiQMMJ/EN9u16hwlAfiRhG/n5OyJ8uy4nILmEVhSjd4AFQVyq9I 1psIALdJXMrZccDnsJJ1NYwivOQj1+C7l8FbXRNDXtqpAqztaq5wM+zuRRIH8fkG 8kVW7OfeFOB/40Dl10o3Fnl7QLj5+tnutHd4IZQCOqvisWifQjn9fN2Y8NV4Gi+m uti6W/upQuj7o1BEZtR2mHIGGaWOBMxmESCWQE3J+ORORD5wDXHpUKA7TuvcC0i8 n5VOgUoa5XZ6+vQ= =8CEu -----END PGP SIGNATURE-----
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