Your message dated Mon, 24 Feb 2020 11:08:29 +0000
with message-id <[email protected]>
and subject line Bug#952248: fixed in libbpp-popgen 2.4.1-3
has caused the Debian Bug report #952248,
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
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--
952248: https://bugs.debian.org/cgi-bin/bugreport.cgi?bug=952248
Debian Bug Tracking System
Contact [email protected] with problems
--- Begin Message ---
Source: libbpp-popgen
Version: 2.4.1-2
Severity: serious
Justification: FTBFS on amd64
Tags: bullseye sid ftbfs
Usertags: ftbfs-20200222 ftbfs-bullseye
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
> dh_strip
> dh_makeshlibs
> 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_2.4.1-2_amd64)
> +++ dpkg-gensymbolstUa40O 2020-02-23 02:45:26.493958486 +0000
> @@ -910,8 +910,8 @@
>
> _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
> - _ZNSt6vectorIN3bpp9LocusInfoESaIS1_EED1Ev@Base 2.4.1
> - _ZNSt6vectorIN3bpp9LocusInfoESaIS1_EED2Ev@Base 2.4.1
> +#MISSING: 2.4.1-2# _ZNSt6vectorIN3bpp9LocusInfoESaIS1_EED1Ev@Base 2.4.1
> +#MISSING: 2.4.1-2# _ZNSt6vectorIN3bpp9LocusInfoESaIS1_EED2Ev@Base 2.4.1
>
> _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
> 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/2020/02/22/libbpp-popgen_2.4.1-2_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!
About the archive rebuild: The rebuild was done on EC2 VM instances from
Amazon Web Services, using a clean, minimal and up-to-date chroot. Every
failed build was retried once to eliminate random failures.
--- End Message ---
--- Begin Message ---
Source: libbpp-popgen
Source-Version: 2.4.1-3
Done: Andreas Tille <[email protected]>
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 [email protected],
and the maintainer will reopen the bug report if appropriate.
Debian distribution maintenance software
pp.
Andreas Tille <[email protected]> (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 [email protected])
-----BEGIN PGP SIGNED MESSAGE-----
Hash: SHA256
Format: 1.8
Date: Mon, 24 Feb 2020 11:13:06 +0100
Source: libbpp-popgen
Architecture: source
Version: 2.4.1-3
Distribution: unstable
Urgency: medium
Maintainer: Debian Med Packaging Team
<[email protected]>
Changed-By: Andreas Tille <[email protected]>
Closes: 952248
Changes:
libbpp-popgen (2.4.1-3) unstable; urgency=medium
.
* Standards-Version: 4.5.0 (routine-update)
* Add salsa-ci file (routine-update)
* Wrap long lines in changelog entries: 1.5.0.
* Set upstream metadata fields: Bug-Database, Bug-Submit, Repository,
Repository-Browse.
* Refer to specific version of license GPL-2+.
* Remove obsolete fields Contact, Name from debian/upstream/metadata
(already present in machine-readable debian/copyright).
* Fix symbols file
Closes: #952248
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libbpp-popgen_2.4.1-3.debian.tar.xz
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libbpp-popgen_2.4.1-3_amd64.buildinfo
Checksums-Sha256:
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libbpp-popgen_2.4.1-3_amd64.buildinfo
Files:
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libbpp-popgen_2.4.1-3.dsc
97f5d9a6771497d1834503ea673eef4c 18748 science optional
libbpp-popgen_2.4.1-3.debian.tar.xz
79c194cb2cb41bd62ab0acd15b893045 7468 science optional
libbpp-popgen_2.4.1-3_amd64.buildinfo
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