Your message dated Sun, 22 Feb 2026 16:18:43 +0000
with message-id <[email protected]>
and subject line Bug#1047324: fixed in kallisto 0.51.1+dfsg-1
has caused the Debian Bug report #1047324,
regarding kallisto: 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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--
1047324: https://bugs.debian.org/cgi-bin/bugreport.cgi?bug=1047324
Debian Bug Tracking System
Contact [email protected] with problems
--- Begin Message ---
Source: kallisto
Version: 0.48.0+dfsg-4
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 kallisto
> dpkg-buildpackage: info: source version 0.48.0+dfsg-4
> 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
> dh_clean
> dpkg-source -b .
> dpkg-source: info: using source format '3.0 (quilt)'
> dpkg-source: info: building kallisto using existing
> ./kallisto_0.48.0+dfsg.orig.tar.xz
> dpkg-source: info: using patch list from debian/patches/series
> dpkg-source: error: cannot represent change to
> test/quant_out/pseudoalignments.bam: binary file contents changed
> dpkg-source: error: add test/quant_out/pseudoalignments.bam in
> debian/source/include-binaries if you want to store the modified binary in
> the debian tarball
> dpkg-source: error: cannot represent change to
> test/quant_out/pseudoalignments.bam.bai: binary file contents changed
> dpkg-source: error: add test/quant_out/pseudoalignments.bam.bai in
> debian/source/include-binaries if you want to store the modified binary in
> the debian tarball
> dpkg-source: error: cannot represent change to test/transcripts.kidx: binary
> file contents changed
> dpkg-source: error: add test/transcripts.kidx in
> debian/source/include-binaries if you want to store the modified binary in
> the debian tarball
> 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/kallisto_0.48.0+dfsg-4_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: kallisto
Source-Version: 0.51.1+dfsg-1
Done: Andreas Tille <[email protected]>
We believe that the bug you reported is fixed in the latest version of
kallisto, 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 kallisto 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: SHA512
Format: 1.8
Date: Sun, 22 Feb 2026 17:01:24 +0100
Source: kallisto
Architecture: source
Version: 0.51.1+dfsg-1
Distribution: unstable
Urgency: medium
Maintainer: Debian Med Packaging Team
<[email protected]>
Changed-By: Andreas Tille <[email protected]>
Closes: 1047324 1057131 1113067
Changes:
kallisto (0.51.1+dfsg-1) unstable; urgency=medium
.
[ Andreas Tille ]
* New upstream version
* Standards-Version: 4.7.3
* Add support for loongarch64 in d/control
Closes: #1057131
* Remove patch Check_busOptions.seq_length_before_accessing.patch that is
missing from debian/patches/series.
* Fix build with CMake 4
Closes: #1113067
* d/watch: version=5
* Cleanup properly after build time test + fix clean target
Closes: #1047324
* debputy lint --auto-fix (routine-update)
* Try hard to get bifrost build with recent gcc
* bifrost: Add default values for MAX_KMER_SIZE and MAX_GMER_SIZE
* Fix typo in bifrost
* Do not build in parallel
.
[ Michael R. Crusoe ]
* d/control: simplify architecture specifications by using provisions
from the architecture-properties package.
* d/rules: change dh_auto_test rule from an override to an
execute_after to remove the need to check DEB_BUILD_OPTIONS.
* Upstream has forked bifrost, use their copy instead.
* d/rules: need cmake option needed: USE_BAM.
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