Your message dated Sat, 27 Jan 2024 23:04:18 +0000
with message-id <[email protected]>
and subject line Bug#1049735: fixed in bolt-lmm 2.4.1+dfsg-2
has caused the Debian Bug report #1049735,
regarding bolt-lmm: Fails to build binary packages again 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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--
1049735: https://bugs.debian.org/cgi-bin/bugreport.cgi?bug=1049735
Debian Bug Tracking System
Contact [email protected] with problems
--- Begin Message ---
Source: bolt-lmm
Version: 2.4.1+dfsg-1
Severity: minor
Tags: trixie sid ftbfs
User: [email protected]
Usertags: ftbfs-binary-20230816 ftbfs-binary-after-build
User: [email protected]
Usertags: qa-doublebuild
Hi,
This package fails to do build a binary-only build (not source) after a
successful build (dpkg-buildpackage ; dpkg-buildpackage -b).
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/DoubleBuild
Relevant part of the build log:
> cd /<<PKGBUILDDIR>> && runuser -u user42 -- dpkg-buildpackage --sanitize-env
> -us -uc -rfakeroot -b
> ----------------------------------------------------------------------------------------------------------------------------
>
> dpkg-buildpackage: info: source package bolt-lmm
> dpkg-buildpackage: info: source version 2.4.1+dfsg-1
> dpkg-buildpackage: info: source distribution unstable
> dpkg-buildpackage: info: source changed by Andreas Tille <[email protected]>
> dpkg-source --before-build .
> dpkg-buildpackage: info: host architecture amd64
> debian/rules clean
> dh clean --sourcedirectory=src
> dh_auto_clean -O--sourcedirectory=src
> cd src && make -j8 clean
> make[1]: Entering directory '/<<PKGBUILDDIR>>/src'
> rm -f *.o
> rm -f bolt
> make[1]: Leaving directory '/<<PKGBUILDDIR>>/src'
> dh_autoreconf_clean -O--sourcedirectory=src
> dh_clean -O--sourcedirectory=src
> debian/rules binary
> dh binary --sourcedirectory=src
> dh_update_autotools_config -O--sourcedirectory=src
> dh_autoreconf -O--sourcedirectory=src
> dh_auto_configure -O--sourcedirectory=src
> debian/rules override_dh_auto_build-indep
> make[1]: Entering directory '/<<PKGBUILDDIR>>'
> cd /<<PKGBUILDDIR>>/example/ && \
> tar Jcvf examples.tar.xz * --sort=name --mode=go=rX,u+rw,a-s
> --owner=root --group=root --numeric-owner
> EUR_subset.bed
> EUR_subset.bim
> EUR_subset.dosage.chr17first100
> EUR_subset.dosage.chr22last100.gz
> EUR_subset.dosage.indivs
> EUR_subset.dosage2.chr17first100.gz
> EUR_subset.dosage2.chr17first100.map
> EUR_subset.dosage2.chr17second100
> EUR_subset.dosage2.chr17second100.map
> EUR_subset.dosage2.chr22last100.gz
> EUR_subset.dosage2.chr22last100.map
> EUR_subset.dosage2FileList.txt
> EUR_subset.exclude
> EUR_subset.exclude2
> EUR_subset.fam
> EUR_subset.impute2.chr17first100.gz
> EUR_subset.impute2.chr17second100
> EUR_subset.impute2.chr22last100.gz
> EUR_subset.impute2.indivs
> EUR_subset.impute2FileList.txt
> EUR_subset.modelSnps
> EUR_subset.modelSnps2
> EUR_subset.pheno.covars
> EUR_subset.pheno2.covars
> EUR_subset.remove
> example.dosage2Snps.stats
> example.dosageSnps.stats
> example.impute2Snps.stats
> example.log
> example.stats
> example_reml2.log
> examples.tar.xz
> tar: examples.tar.xz: file changed as we read it
> run_example.sh
> run_example_reml2.sh
> make[1]: *** [debian/rules:13: override_dh_auto_build-indep] Error 1
> make[1]: Leaving directory '/<<PKGBUILDDIR>>'
> make: *** [debian/rules:10: binary] Error 2
> dpkg-buildpackage: error: debian/rules binary subprocess returned exit status
> 2
>
> E: Command 'cd /<<PKGBUILDDIR>> && runuser -u user42 -- dpkg-buildpackage
> --sanitize-env -us -uc -rfakeroot -b' failed to run.
The full build log is available from:
http://qa-logs.debian.net/2023/08/16/bolt-lmm_2.4.1+dfsg-1_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: bolt-lmm
Source-Version: 2.4.1+dfsg-2
Done: Andreas Tille <[email protected]>
We believe that the bug you reported is fixed in the latest version of
bolt-lmm, 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 bolt-lmm 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: Sat, 27 Jan 2024 21:05:33 +0100
Source: bolt-lmm
Architecture: source
Version: 2.4.1+dfsg-2
Distribution: unstable
Urgency: medium
Maintainer: Debian Med Packaging Team
<[email protected]>
Changed-By: Andreas Tille <[email protected]>
Closes: 1043783 1049735
Changes:
bolt-lmm (2.4.1+dfsg-2) unstable; urgency=medium
.
* Team upload.
* Fix clean target
Closes: #1043783, #1049735
Remove patch simde.patch that is missing from debian/patches/series.
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--- End Message ---
