Source: simka Version: 1.5.3-2 Severity: serious Tags: sid bullseye X-Debbugs-CC: debian...@lists.debian.org User: debian...@lists.debian.org Usertags: flaky timeout
Dear maintainer(s), Your package has an autopkgtest, great. However, I looked into the history of your autopkgtest [1] and I noticed version 1.5.3-2 fails regularly on amd64, while sporadically a rerun passes. I copied some of the output at the bottom of this report. It hits the autopkgtest time out after 2hours and 47 minutes. Successful runs pass in less than a minute. Because the unstable-to-testing migration software now blocks on regressions in testing, flaky tests, i.e. tests that flip between passing and failing without changes to the list of installed packages, are causing people unrelated to your package to spend time on these tests. Paul [1] https://ci.debian.net/packages/s/simka/testing/amd64/ https://ci.debian.net/data/autopkgtest/testing/amd64/s/simka/11355132/log.gz Computing stats... Stats Reads Total: 847 0M 0G Min: 98 0M 0G Max: 402 0M 0G Average: 169 0M 0G Kmers Distinct Kmers (before merging): 14670 0M 0G Distinct Kmers (after merging): 8123 0M 0G Shared distinct Kmers: 4322 0M 0G Kmers: 50130 0M 0G Mean k-mer coverage: 2.66341 Output dir: ./simka_results/ *** Test: PASSED Command used: /usr/bin/simka -in ../example/simka_input.txt -out ./simka_results/ -out-tmp ./simka_temp_output Command for visualizing results: python ../scripts/visualization/run-visualization.py -in ./simka_results/ -out ./simka_results/ -pca -heatmap -tree Command for visualizing results with metadata annotations: python ../scripts/visualization/run-visualization.py -in ./simka_results/ -out ./simka_results/ -pca -heatmap -tree -metadata-in ../example/dataset_metadata.csv -metadata-variable VARIABLE_1 autopkgtest [07:42:20]: 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.zk5p_5wg/downtmp/build.NZn/src"; mkdir -p -m 1777 -- "/tmp/autopkgtest-lxc.zk5p_5wg/downtmp/run-unit-test-artifacts"; export AUTOPKGTEST_ARTIFACTS="/tmp/autopkgtest-lxc.zk5p_5wg/downtmp/run-unit-test-artifacts"; export ADT_ARTIFACTS="$AUTOPKGTEST_ARTIFACTS"; mkdir -p -m 755 "/tmp/autopkgtest-lxc.zk5p_5wg/downtmp/autopkgtest_tmp"; export AUTOPKGTEST_TMP="/tmp/autopkgtest-lxc.zk5p_5wg/downtmp/autopkgtest_tmp"; export ADTTMP="$AUTOPKGTEST_TMP"; export DEBIAN_FRONTEND=noninteractive; export LANG=C.UTF-8; export DEB_BUILD_OPTIONS=parallel=48; 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;rm -f /tmp/autopkgtest_script_pid; set -C; echo $$ > /tmp/autopkgtest_script_pid; set +C; trap "rm -f /tmp/autopkgtest_script_pid" EXIT INT QUIT PIPE; cd "$buildtree"; chmod +x /tmp/autopkgtest-lxc.zk5p_5wg/downtmp/build.NZn/src/debian/tests/run-unit-test; touch /tmp/autopkgtest-lxc.zk5p_5wg/downtmp/run-unit-test-stdout /tmp/autopkgtest-lxc.zk5p_5wg/downtmp/run-unit-test-stderr; /tmp/autopkgtest-lxc.zk5p_5wg/downtmp/build.NZn/src/debian/tests/run-unit-test 2> >(tee -a /tmp/autopkgtest-lxc.zk5p_5wg/downtmp/run-unit-test-stderr >&2) > >(tee -a /tmp/autopkgtest-lxc.zk5p_5wg/downtmp/run-unit-test-stdout);" (kind: test) autopkgtest [07:42:20]: test run-unit-test: -----------------------]
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