Your message dated Sun, 14 Jan 2024 14:42:31 +0000
with message-id <[email protected]>
and subject line Bug#1045400: fixed in mrbayes 3.2.7a-7
has caused the Debian Bug report #1045400,
regarding mrbayes: Fails to build source after successful build
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.
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1045400: https://bugs.debian.org/cgi-bin/bugreport.cgi?bug=1045400
Debian Bug Tracking System
Contact [email protected] with problems
--- Begin Message ---
Source: mrbayes
Version: 3.2.7a-6
Severity: minor
Tags: trixie sid ftbfs
User: [email protected]
Usertags: ftbfs-sab-20230813 ftbfs-source-after-build
User: [email protected]
Usertags: qa-doublebuild
Hi,
This package fails to build a source package after a successful build
(dpkg-buildpackage ; dpkg-buildpackage -S).
This is probably a clear violation of Debian Policy section 4.9 (clean target),
but this is filed as severity:minor for now, because a discussion on
debian-devel showed that we might want to revisit the requirement of a working
'clean' target.
More information about this class of issues, included common problems and
solutions, is available at
https://wiki.debian.org/qa.debian.org/FTBFS/SourceAfterBuild
Relevant part of the build log:
> cd /<<PKGBUILDDIR>> && runuser -u user42 -- dpkg-buildpackage --sanitize-env
> -us -uc -rfakeroot -S
> ----------------------------------------------------------------------------------------------------------------------
>
> dpkg-buildpackage: info: source package mrbayes
> dpkg-buildpackage: info: source version 3.2.7a-6
> dpkg-buildpackage: info: source distribution unstable
> dpkg-buildpackage: info: source changed by Andreas Tille <[email protected]>
> dpkg-source --before-build .
> debian/rules clean
> dh clean
> dh_auto_clean
> make -j8 distclean
> make[1]: Entering directory '/<<PKGBUILDDIR>>'
> Making distclean in src
> make[2]: Entering directory '/<<PKGBUILDDIR>>/src'
> test -z "mb" || rm -f mb
> rm -f *.o
> rm -f *.tab.c
> test -z "" || rm -f
> rm -f config.h stamp-h1
> rm -f TAGS ID GTAGS GRTAGS GSYMS GPATH tags
> test . = "." || test -z "" || rm -f
> rm -f ./.deps/mb-bayes.Po
> rm -f ./.deps/mb-best.Po
> rm -f ./.deps/mb-command.Po
> rm -f ./.deps/mb-likelihood.Po
> rm -f ./.deps/mb-mbbeagle.Po
> rm -f ./.deps/mb-mcmc.Po
> rm -f ./.deps/mb-model.Po
> rm -f ./.deps/mb-proposal.Po
> rm -f ./.deps/mb-sumpt.Po
> rm -f ./.deps/mb-utils.Po
> rm -f Makefile
> make[2]: Leaving directory '/<<PKGBUILDDIR>>/src'
> Making distclean in doc
> make[2]: Entering directory '/<<PKGBUILDDIR>>/doc'
> Making distclean in manual
> make[3]: Entering directory '/<<PKGBUILDDIR>>/doc/manual'
> test -z "Manual_MrBayes_v3.2.aux Manual_MrBayes_v3.2.bbl
> Manual_MrBayes_v3.2.blg Manual_MrBayes_v3.2.log Manual_MrBayes_v3.2.toc" ||
> rm -f Manual_MrBayes_v3.2.aux Manual_MrBayes_v3.2.bbl Manual_MrBayes_v3.2.blg
> Manual_MrBayes_v3.2.log Manual_MrBayes_v3.2.toc
> test -z "" || rm -f
> test . = "." || test -z "" || rm -f
> test -z "Manual_MrBayes_v3.2.pdf" || rm -f Manual_MrBayes_v3.2.pdf
> rm -f Makefile
> make[3]: Leaving directory '/<<PKGBUILDDIR>>/doc/manual'
> Making distclean in tutorial
> make[3]: Entering directory '/<<PKGBUILDDIR>>/doc/tutorial'
> test -z "MBDating.aux MBDating.bbl MBDating.blg MBDating.log MBDating.out" ||
> rm -f MBDating.aux MBDating.bbl MBDating.blg MBDating.log MBDating.out
> test -z "" || rm -f
> test . = "." || test -z "" || rm -f
> test -z "MBDating.pdf" || rm -f MBDating.pdf
> rm -f Makefile
> make[3]: Leaving directory '/<<PKGBUILDDIR>>/doc/tutorial'
> make[3]: Entering directory '/<<PKGBUILDDIR>>/doc'
> test -z "" || rm -f
> rm -f TAGS ID GTAGS GRTAGS GSYMS GPATH tags
> test . = "." || test -z "" || rm -f
> make[3]: Leaving directory '/<<PKGBUILDDIR>>/doc'
> rm -f Makefile
> make[2]: Leaving directory '/<<PKGBUILDDIR>>/doc'
> Making distclean in examples
> make[2]: Entering directory '/<<PKGBUILDDIR>>/examples'
> test -z "" || rm -f
> test . = "." || test -z "" || rm -f
> rm -f Makefile
> make[2]: Leaving directory '/<<PKGBUILDDIR>>/examples'
> make[2]: Entering directory '/<<PKGBUILDDIR>>'
> test -z "" || rm -f
> rm -f TAGS ID GTAGS GRTAGS GSYMS GPATH tags
> test . = "." || test -z "" || rm -f
> rm -f cscope.out cscope.in.out cscope.po.out cscope.files
> make[2]: Leaving directory '/<<PKGBUILDDIR>>'
> rm -f config.status config.cache config.log configure.lineno
> config.status.lineno
> rm -f Makefile
> make[1]: Leaving directory '/<<PKGBUILDDIR>>'
> dh_autoreconf_clean
> dh_clean
> dpkg-source -b .
> dpkg-source: info: using source format '3.0 (quilt)'
> dpkg-source: info: building mrbayes using existing
> ./mrbayes_3.2.7a.orig.tar.gz
> dpkg-source: info: using patch list from debian/patches/series
> dpkg-source: warning: ignoring deletion of file aclocal.m4, use
> --include-removal to override
> dpkg-source: warning: ignoring deletion of file Makefile.in, use
> --include-removal to override
> dpkg-source: warning: ignoring deletion of file configure, use
> --include-removal to override
> dpkg-source: warning: ignoring deletion of file am-aux/install-sh, use
> --include-removal to override
> dpkg-source: warning: ignoring deletion of file am-aux/compile, use
> --include-removal to override
> dpkg-source: warning: ignoring deletion of file am-aux/depcomp, use
> --include-removal to override
> dpkg-source: warning: ignoring deletion of file am-aux/missing, use
> --include-removal to override
> dpkg-source: warning: ignoring deletion of file examples/Makefile.in, use
> --include-removal to override
> dpkg-source: warning: ignoring deletion of file src/Makefile.in, use
> --include-removal to override
> dpkg-source: warning: ignoring deletion of file src/config.h.in, use
> --include-removal to override
> dpkg-source: warning: ignoring deletion of file doc/Makefile.in, use
> --include-removal to override
> dpkg-source: warning: ignoring deletion of file doc/tutorial/Makefile.in, use
> --include-removal to override
> dpkg-source: warning: ignoring deletion of file doc/tutorial/MBDating.pdf,
> use --include-removal to override
> dpkg-source: warning: ignoring deletion of file
> doc/manual/Manual_MrBayes_v3.2.pdf, use --include-removal to override
> dpkg-source: warning: ignoring deletion of file doc/manual/Makefile.in, use
> --include-removal to override
> dpkg-source: error: cannot represent change to mb: binary file contents
> changed
> dpkg-source: error: add mb in debian/source/include-binaries if you want to
> store the modified binary in the debian tarball
> dpkg-source: warning: executable mode 0755 of 'mb' will not be represented in
> diff
> dpkg-source: error: cannot represent change to mb-mpi: binary file contents
> changed
> dpkg-source: error: add mb-mpi in debian/source/include-binaries if you want
> to store the modified binary in the debian tarball
> dpkg-source: warning: executable mode 0755 of 'mb-mpi' will not be
> represented in diff
> dpkg-source: error: unrepresentable changes to source
> dpkg-buildpackage: error: dpkg-source -b . subprocess returned exit status 1
>
> E: Command 'cd /<<PKGBUILDDIR>> && runuser -u user42 -- dpkg-buildpackage
> --sanitize-env -us -uc -rfakeroot -S' failed to run.
The full build log is available from:
http://qa-logs.debian.net/2023/08/13/mrbayes_3.2.7a-6_unstable.log
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.
--- End Message ---
--- Begin Message ---
Source: mrbayes
Source-Version: 3.2.7a-7
Done: Andreas Tille <[email protected]>
We believe that the bug you reported is fixed in the latest version of
mrbayes, 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 mrbayes 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: Sun, 14 Jan 2024 14:35:17 +0100
Source: mrbayes
Architecture: source
Version: 3.2.7a-7
Distribution: unstable
Urgency: medium
Maintainer: Debian Med Packaging Team
<[email protected]>
Changed-By: Andreas Tille <[email protected]>
Closes: 1045400 1049739
Changes:
mrbayes (3.2.7a-7) unstable; urgency=medium
.
* Fix clean target
Closes: #1045400, #1049739
* Standards-Version: 4.6.2 (routine-update)
* Remove trailing whitespace in debian/changelog (routine-update)
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