Package: release.debian.org Severity: normal X-Debbugs-Cc: mdanaly...@packages.debian.org Control: affects -1 + src:mdanalysis User: release.debian....@packages.debian.org Usertags: unblock
Please unblock package mdanalysis [ Reason ] mdanalysis/2.9.0-8 provides an important patch that removes a source of test flakiness. [ Impact ] If this patch is not allowed into trixe, the flaky test will cause debci testing for trixie to regularly and randmonly report failed tests. [ Tests ] Upstream provides extensive testing, which is in fact is the problem addressed here. One of their tests (test_distance) is consistently flaky and is skipped in this package release. With that, 2.9.0-8 is more consistently passing debci tests. debci switched off testing on riscv64, which is why this unblock request is needed. [ Risks ] Negligible risk. 2.9.0-7 is already in testing. This patch simply removes a regularly failing test, so should make testing in trixie more reliable. [ Checklist ] [x ] all changes are documented in the d/changelog [x ] I reviewed all changes and I approve them [x ] attach debdiff against the package in testing [ Other info ] mdanalysis has a generally flaky collection of tests. Other tests might continue to randomly fail from time, but debci tests are more reliable with this patch skipping test_distance unblock mdanalysis/2.9.0-8
diff -Nru mdanalysis-2.9.0/debian/changelog mdanalysis-2.9.0/debian/changelog --- mdanalysis-2.9.0/debian/changelog 2025-04-23 10:50:06.000000000 +0200 +++ mdanalysis-2.9.0/debian/changelog 2025-05-11 23:44:46.000000000 +0200 @@ -1,3 +1,11 @@ +mdanalysis (2.9.0-8) unstable; urgency=medium + + * skip test_distances, since NSGrid is flaky and causes distance + tests to often (randomly) fail, see upstream Issue #4906. + Closes: #1104387 + + -- Drew Parsons <dpars...@debian.org> Sun, 11 May 2025 23:44:46 +0200 + mdanalysis (2.9.0-7) unstable; urgency=medium * skip all parallel tests, including multiprocess tests. diff -Nru mdanalysis-2.9.0/debian/rules mdanalysis-2.9.0/debian/rules --- mdanalysis-2.9.0/debian/rules 2025-04-23 10:50:06.000000000 +0200 +++ mdanalysis-2.9.0/debian/rules 2025-05-11 23:44:46.000000000 +0200 @@ -9,13 +9,17 @@ # parallel and openmp tests are unstable, often timing out SKIP_TEST_LIST += parallel multiprocess openmp +# gsd tends to induce test time-outs, https://github.com/MDAnalysis/mdanalysis/issues/4209 +SKIP_TEST_LIST += gsd GSD + +# NSGrid is flaky and causes distance tests to often (randomly) fail +# https://github.com/MDAnalysis/mdanalysis/issues/4906 +SKIP_TEST_LIST += test_distances + # mdahole2, pathsimanalysis are not yet packaged for debian # (duecredit test journal.pcbi.1004568 accesses pathsimanalysis) SKIP_TEST_LIST += test_all_import[.analysis.hole2] journal.pcbi.1004568 -# gsd tends to induce test time-outs, https://github.com/MDAnalysis/mdanalysis/issues/4209 -SKIP_TEST_LIST += gsd GSD - ifneq (,$(findstring $(DEB_HOST_ARCH), i386)) export DEB_CFLAGS_MAINT_APPEND += -ffloat-store -fexcess-precision=fast diff -Nru mdanalysis-2.9.0/debian/tests/test-mdanalysis mdanalysis-2.9.0/debian/tests/test-mdanalysis --- mdanalysis-2.9.0/debian/tests/test-mdanalysis 2025-04-23 10:50:06.000000000 +0200 +++ mdanalysis-2.9.0/debian/tests/test-mdanalysis 2025-05-11 23:44:46.000000000 +0200 @@ -15,6 +15,10 @@ # gsd tends to induce test time-outs, https://github.com/MDAnalysis/mdanalysis/issues/4209 SKIP_TEST_LIST=("${SKIP_TEST_LIST[@]}" gsd GSD) +# NSGrid is flaky and causes distance tests to often (randomly) fail +# https://github.com/MDAnalysis/mdanalysis/issues/4906 +SKIP_TEST_LIST=("${SKIP_TEST_LIST[@]}" test_distances) + # mdahole2, pathsimanalysis are not yet packaged for debian # (duecredit test journal.pcbi.1004568 accesses pathsimanalysis) SKIP_TEST_LIST=("${SKIP_TEST_LIST[@]}" test_all_import[.analysis.hole2] journal.pcbi.1004568)
