Your message dated Fri, 7 Jul 2023 09:35:43 +0300
with message-id <e38cc581-266a-dc4c-b185-46d178d72...@debian.org>
and subject line 1039917 is fixed
has caused the Debian Bug report #1039917,
regarding gemmi breaks finalcif autopkgtest: causes autopkgtest timeout
to be marked as done.
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Bug report if necessary, and/or fix the problem forthwith.
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1039917: https://bugs.debian.org/cgi-bin/bugreport.cgi?bug=1039917
Debian Bug Tracking System
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--- Begin Message ---
Source: gemmi, finalcif
Control: found -1 gemmi/0.6.2+ds-2
Control: found -1 finalcif/113+dfsg-2
Severity: serious
Tags: sid bookworm
User: debian...@lists.debian.org
Usertags: breaks needs-update
Dear maintainer(s),
With a recent upload of gemmi the autopkgtest of finalcif fails in
testing when that autopkgtest is run with the binary packages of gemmi
from unstable. It passes when run with only packages from testing. In
tabular form:
pass fail
gemmi from testing 0.6.2+ds-2
finalcif from testing 113+dfsg-2
all others from testing from testing
I copied some of the output at the bottom of this report. After the
fifth test, there's no output until autopkgtest aborts after 2:47 hours.
Normally the test takes 2 to 3 minutes.
Currently this regression is blocking the migration of gemmi to testing
[1]. Due to the nature of this issue, I filed this bug report against
both packages. Can you please investigate the situation and reassign the
bug to the right package?
More information about this bug and the reason for filing it can be found on
https://wiki.debian.org/ContinuousIntegration/RegressionEmailInformation
Paul
[1] https://qa.debian.org/excuses.php?package=gemmi
https://ci.debian.net/data/autopkgtest/testing/amd64/f/finalcif/34924025/log.gz
73s ============================= test session starts
==============================
73s platform linux -- Python 3.11.4, pytest-7.2.1, pluggy-1.0.0+repack
73s rootdir: /tmp/autopkgtest-lxc.pb_ivzjf/downtmp/build.E5g/src
73s collected 312 items
73s 73s tests/test_SADABS.py ............
[ 3%]
73s tests/test_atoms.py ......
[ 5%]
81s tests/test_author_templates.py .............
[ 9%]
81s tests/test_bruker_frame.py ..........
[ 13%]
81s tests/test_ccdc.py ...
[ 14%]
10071s tests/test_changes_cif.py .autopkgtest [10:02:06]: ERROR: timed
out on command "su -s /bin/bash debci -c set -e; export USER=`id -nu`; .
/etc/profile >/dev/null 2>&1 || true; . ~/.profile >/dev/null 2>&1 ||
true; buildtree="/tmp/autopkgtest-lxc.pb_ivzjf/downtmp/build.E5g/src";
mkdir -p -m 1777 --
"/tmp/autopkgtest-lxc.pb_ivzjf/downtmp/command1-artifacts"; export
AUTOPKGTEST_ARTIFACTS="/tmp/autopkgtest-lxc.pb_ivzjf/downtmp/command1-artifacts";
export ADT_ARTIFACTS="$AUTOPKGTEST_ARTIFACTS"; mkdir -p -m 755
"/tmp/autopkgtest-lxc.pb_ivzjf/downtmp/autopkgtest_tmp"; export
AUTOPKGTEST_TMP="/tmp/autopkgtest-lxc.pb_ivzjf/downtmp/autopkgtest_tmp";
export ADTTMP="$AUTOPKGTEST_TMP"; export DEBIAN_FRONTEND=noninteractive;
export LANG=C.UTF-8; export DEB_BUILD_OPTIONS=parallel=64; unset
LANGUAGE LC_CTYPE LC_NUMERIC LC_TIME LC_COLLATE LC_MONETARY
LC_MESSAGES LC_PAPER LC_NAME LC_ADDRESS LC_TELEPHONE LC_MEASUREMENT
LC_IDENTIFICATION LC_ALL;cd "$buildtree"; exec
/tmp/autopkgtest-lxc.pb_ivzjf/downtmp/wrapper.sh
--script-pid-file=/tmp/autopkgtest_script_pid
--stderr=/tmp/autopkgtest-lxc.pb_ivzjf/downtmp/command1-stderr
--stdout=/tmp/autopkgtest-lxc.pb_ivzjf/downtmp/command1-stdout -- bash
-ec 'xvfb-run pytest-3' ;" (kind: test)
10071s autopkgtest [10:02:06]: test command1
OpenPGP_signature
Description: OpenPGP digital signature
--- End Message ---
--- Begin Message ---
Version: 123+dfsg-1
finalcif needed update to work with gemmi 0.6.2+ds-2. After the upload
of finalcif 123+dfsg-1 its autopkgtests stopped failing.
Andrius
--- End Message ---
