Your message dated Sat, 23 Apr 2022 01:49:21 +0000
with message-id <[email protected]>
and subject line Bug#1009383: fixed in gromacs 2022.1-1
has caused the Debian Bug report #1009383,
regarding gromacs: FTBFS: AttributeError: module 'collections' has no attribute
'Iterable'
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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--
1009383: https://bugs.debian.org/cgi-bin/bugreport.cgi?bug=1009383
Debian Bug Tracking System
Contact [email protected] with problems
--- Begin Message ---
Source: gromacs
Version: 2021.4-2
Severity: serious
Justification: FTBFS
Tags: bookworm sid ftbfs
User: [email protected]
Usertags: ftbfs-20220412 ftbfs-bookworm
Hi,
During a rebuild of all packages in sid, your package failed to build
on amd64.
Relevant part (hopefully):
> make[4]: Entering directory '/<<PKGBUILDDIR>>/build/documentation'
> cd /<<PKGBUILDDIR>>/build/documentation/docs/doxygen && /usr/bin/python3.10
> /<<PKGBUILDDIR>>/docs/doxygen/graphbuilder.py -S /<<PKGBUILDDIR>> -B
> /<<PKGBUILDDIR>>/build/documentation --ignore-cycles
> /<<PKGBUILDDIR>>/docs/doxygen/cycle-suppressions.txt -o
> /<<PKGBUILDDIR>>/build/documentation/docs/doxygen/depgraphs
> cd /<<PKGBUILDDIR>>/build/documentation/docs/doxygen && /usr/bin/cmake
> -DDOCTYPE=user -P RunDoxygen.cmake
> NOTE: You are using Doxygen version 1.9.1. The documentation is designed for
> 1.8.5. Other versions may or may not work, but very likely produce extra
> warnings.
> Running Doxygen...
> warning: Tag 'MSCGEN_PATH' at line 36 of file 'Doxyfile-common' has become
> obsolete.
> To avoid this warning please remove this line from your
> configuration file or upgrade it using "doxygen -u"
> Scanning source tree...
> Reading source files...
> Reading Doxygen XML files...
> Traceback (most recent call last):
> File "/<<PKGBUILDDIR>>/docs/doxygen/graphbuilder.py", line 562, in <module>
> main()
> File "/<<PKGBUILDDIR>>/docs/doxygen/graphbuilder.py", line 538, in main
> tree.load_xml(only_files=True)
> File "/<<PKGBUILDDIR>>/docs/doxygen/gmxtree.py", line 819, in load_xml
> if isinstance(only_files, collections.Iterable):
> AttributeError: module 'collections' has no attribute 'Iterable'
> make[4]: *** [docs/doxygen/CMakeFiles/dep-graphs-dot.dir/build.make:76:
> docs/doxygen/dep-graphs-dot-timestamp.txt] Error 1
The full build log is available from:
http://qa-logs.debian.net/2022/04/12/gromacs_2021.4-2_unstable.log
All bugs filed during this archive rebuild are listed at:
https://bugs.debian.org/cgi-bin/pkgreport.cgi?tag=ftbfs-20220412;[email protected]
or:
https://udd.debian.org/bugs/?release=na&merged=ign&fnewerval=7&flastmodval=7&fusertag=only&fusertagtag=ftbfs-20220412&[email protected]&allbugs=1&cseverity=1&ctags=1&caffected=1#results
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!
If you reassign this bug to another package, please marking 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: gromacs
Source-Version: 2022.1-1
Done: Nicholas Breen <[email protected]>
We believe that the bug you reported is fixed in the latest version of
gromacs, 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.
Nicholas Breen <[email protected]> (supplier of updated gromacs 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: Fri, 22 Apr 2022 18:22:17 -0700
Source: gromacs
Architecture: source
Version: 2022.1-1
Distribution: experimental
Urgency: medium
Maintainer: Debichem Team <[email protected]>
Changed-By: Nicholas Breen <[email protected]>
Closes: 1009383
Changes:
gromacs (2022.1-1) experimental; urgency=medium
.
* New upstream release.
* Restore mdrun-test-timeout.patch, to handle slow double-precision
tests on sparc64.
* muparser 2.3.3 now in unstable. Build-Depend on >= 2.3 and remove
muparser-version.patch.
* python3-collections-iterable.patch: Replace calls to removed
collections.Iterable with collections.abc. (Closes: #1009383)
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--- End Message ---
