Source: mcl, roary Control: found -1 mcl/1:14-137+ds-7 Control: found -1 roary/3.13.0+dfsg-1 Severity: serious Tags: sid bullseye X-Debbugs-CC: debian-ci@lists.debian.org User: debian-ci@lists.debian.org Usertags: breaks needs-update Dear maintainer(s), With a recent upload of mcl the autopkgtest of roary fails in testing when that autopkgtest is run with the binary packages of mcl from unstable. It passes when run with only packages from testing. In tabular form: pass fail mcl from testing 1:14-137+ds-7 roary from testing 3.13.0+dfsg-1 all others from testing from testing I copied some of the output at the bottom of this report. Currently this regression is blocking the migration of mcl 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=mcl https://ci.debian.net/data/autopkgtest/testing/amd64/r/roary/6058047/log.gz autopkgtest [18:20:38]: test test-installed: [----------------------- Use of uninitialized value in require at /usr/share/perl5/HTTP/Headers.pm line 302. Use of uninitialized value in require at /usr/lib/x86_64-linux-gnu/perl/5.30/Encode.pm line 70. Please cite Roary if you use any of the results it produces: Andrew J. Page, Carla A. Cummins, Martin Hunt, Vanessa K. Wong, Sandra Reuter, Matthew T. G. Holden, Maria Fookes, Daniel Falush, Jacqueline A. Keane, Julian Parkhill, "Roary: Rapid large-scale prokaryote pan genome analysis", Bioinformatics, 2015 Nov 15;31(22):3691-3693 doi: http://doi.org/10.1093/bioinformatics/btv421 Pubmed: 26198102 2020/06/25 18:20:41 Cannot find the mcxdeblast executable, please ensure its in your PATH 2,6c2,6 < out/_blast_results < out/_clustered < out/_clustered.clstr < out/_combined_files < out/_combined_files.groups --- > out/accessory.header.embl > out/accessory.tab > out/accessory_binary_genes.fa > out/accessory_binary_genes.fa.newick > out/accessory_graph.dot 7a8,18 > out/clustered_proteins > out/core_accessory.header.embl > out/core_accessory.tab > out/core_accessory_graph.dot > out/gene_presence_absence.Rtab > out/gene_presence_absence.csv > out/number_of_conserved_genes.Rtab > out/number_of_genes_in_pan_genome.Rtab > out/number_of_new_genes.Rtab > out/number_of_unique_genes.Rtab > out/summary_statistics.txt autopkgtest [18:20:41]: test test-installed: -----------------------]
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