Bug#1023230: t-coffee breaks libbio-tools-run-alignment-tcoffee-perl autopkgtest: test times out after 2:47 hours

[Paul Gevers]

Source: t-coffee, libbio-tools-run-alignment-tcoffee-perl
Control: found -1 t-coffee/13.45.0.4846264+dfsg-1
Control: found -1 libbio-tools-run-alignment-tcoffee-perl/1.7.4-3
Severity: serious
Tags: sid bookworm
User: debian...@lists.debian.org
Usertags: breaks needs-update

Dear maintainer(s),



                                  pass            fail
t-coffee                          from testing    13.45.0.4846264+dfsg-1
libbio-tools-run-alignment-tcoffee-perl from testing    1.7.4-3
all others                        from testing    from testing





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=t-coffee

https://ci.debian.net/data/autopkgtest/testing/arm64/libb/libbio-tools-run-alignment-tcoffee-perl/27686780/log.gz


autopkgtest [11:59:24]: test autodep8-perl-build-deps

With a recent upload of t-coffee the autopkgtest of libbio-tools-run-alignment-tcoffee-perl fails in testing on all architectures but amd64 and i386 when that autopkgtest is run with the binary packages of t-coffee from unstable. It passes when run with only packages from testing. In tabular form: I copied some of the output at the bottom of this report. There's nothing there, it just waits for the timeout after 2:47h. Currently this regression is blocking the migration of t-coffee 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? autopkgtest [11:59:24]: 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.l1eqkc21/downtmp/build.05l/src"; mkdir -p -m 1777 -- "/tmp/autopkgtest-lxc.l1eqkc21/downtmp/autodep8-perl-build-deps-artifacts"; export AUTOPKGTEST_ARTIFACTS="/tmp/autopkgtest-lxc.l1eqkc21/downtmp/autodep8-perl-build-deps-artifacts"; export ADT_ARTIFACTS="$AUTOPKGTEST_ARTIFACTS"; mkdir -p -m 755 "/tmp/autopkgtest-lxc.l1eqkc21/downtmp/autopkgtest_tmp"; export AUTOPKGTEST_TMP="/tmp/autopkgtest-lxc.l1eqkc21/downtmp/autopkgtest_tmp"; export ADTTMP="$AUTOPKGTEST_TMP"; export DEBIAN_FRONTEND=noninteractive; export LANG=C.UTF-8; export DEB_BUILD_OPTIONS=parallel=4; 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.l1eqkc21/downtmp/wrapper.sh --script-pid-file=/tmp/autopkgtest_script_pid --stderr=/tmp/autopkgtest-lxc.l1eqkc21/downtmp/autodep8-perl-build-deps-stderr --stdout=/tmp/autopkgtest-lxc.l1eqkc21/downtmp/autodep8-perl-build-deps-stdout -- bash -ec '/usr/share/pkg-perl-autopkgtest/runner build-deps' ;" (kind: test)

OpenPGP_signature
Description: OpenPGP digital signature