Source: ncbi-entrez-direct Version: 24.0.20250523+dfsg-2 Severity: important Justification: fails autopkgtest on Debian CI infrastructure Tags: forky sid User: [email protected] Usertags: lxc
Hi, Debian CI is switching away from lxc containers in favor of incus Containers. This is motivated by security concerns from us; incus is based on lxc, but orchestrates containers substantially different: containers are not privileged (so root in the container is not uid 0 outside of it, and incus imposes a stricter isolation from the host system. ncbi-entrez-direct passes its tests under lxc, but fails under incus. The relevant part of the failure is (hopefully): > [93m[1mTest 12: word-at-a-time[0m > a > about > again > all > almost > also > although > always > among > an > [92m[1mPassed[0m > > [93m[1mTest 13: xml2tbl[0m > >Feature AF068625.2 > 1 200 source > organism Mus musculus > mol_type mRNA > db_xref taxon:10090 > chromosome 12 > map 4.0 cM > 1 200 gene > gene Dnmt3a > [92m[1mPassed[0m > > [93m[1mTest 14: xtract[0m > > [0m[31m[1m[7m ERROR: [0m[31m[1m Input data from both stdin and file > 'sample_query.xml', mode is 'prw-------'[0m > autopkgtest [21:01:16]: test run-unit-test: -----------------------] > autopkgtest [21:01:16]: test run-unit-test: - - - - - - - - - - results - - > - - - - - - - - > run-unit-test FAIL non-zero exit status 1 The full autokpgtest logs are available at: https://ci.debian.net/experiments/8/regressions/ (please beware of pagination) Common types of failure and suggested fixes are being documented at: https://wiki.debian.org/ContinuousIntegration/LxcToIncus Note that for the time being, ncbi-entrez-direct is still being tested under lxc to avoid disturbing its testing migration test results. If you decide to add the `isolation-machine` restriction to get this package tested under qemu, please mention that explicitly when closing this bug (it's fine to do that only in the package changelog entry that closes the bug) so that we can configure your package for qemu on ci.debian.net.
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