Your message dated Mon, 13 Mar 2023 08:49:37 +0000 with message-id <e1pbds9-00cllb...@fasolo.debian.org> and subject line Bug#1031580: fixed in salmon 1.10.1+ds1-1 has caused the Debian Bug report #1031580, regarding pigx-rnaseq: FTBFS in testing: E: Build killed with signal TERM after 150 minutes of inactivity to be marked as done.
This means that you claim that the problem has been dealt with. If this is not the case it is now your responsibility to reopen the Bug report if necessary, and/or fix the problem forthwith. (NB: If you are a system administrator and have no idea what this message is talking about, this may indicate a serious mail system misconfiguration somewhere. Please contact ow...@bugs.debian.org immediately.) -- 1031580: https://bugs.debian.org/cgi-bin/bugreport.cgi?bug=1031580 Debian Bug Tracking System Contact ow...@bugs.debian.org with problems
--- Begin Message ---Source: pigx-rnaseq Version: 0.1.0-1.1 Severity: serious Justification: FTBFS Tags: bookworm sid ftbfs User: lu...@debian.org Usertags: ftbfs-20230217 ftbfs-bookworm Hi, During a rebuild of all packages in testing (bookworm), your package failed to build on amd64. Relevant part (hopefully): > input: > /<<PKGBUILDDIR>>/tests/output/feature_counts/raw_counts/hisat2/counts.tsv, > /<<PKGBUILDDIR>>/tests/output/colData.tsv > output: > /<<PKGBUILDDIR>>/tests/output/report/hisat2/analysis1.deseq.report.html > log: /<<PKGBUILDDIR>>/tests/output/logs/hisat2/analysis1.report.log > jobid: 45 > reason: Missing output files: > /<<PKGBUILDDIR>>/tests/output/report/hisat2/analysis1.deseq.report.html; > Input files updated by another job: > /<<PKGBUILDDIR>>/tests/output/colData.tsv, > /<<PKGBUILDDIR>>/tests/output/feature_counts/raw_counts/hisat2/counts.tsv > wildcards: analysis=analysis1 > resources: tmpdir=/tmp, mem_mb=4000, mem_mib=3815 > > /usr/bin/Rscript --vanilla /<<PKGBUILDDIR>>/scripts/runDeseqReport.R > --logo=/<<PKGBUILDDIR>>/images/Logo_PiGx.png --prefix='analysis1' > --reportFile=/<<PKGBUILDDIR>>/scripts/deseqReport.Rmd > --countDataFile=/<<PKGBUILDDIR>>/tests/output/feature_counts/raw_counts/hisat2/counts.tsv > --colDataFile=/<<PKGBUILDDIR>>/tests/output/colData.tsv > --gtfFile=/<<PKGBUILDDIR>>/tests/sample_data/sample.gtf > --caseSampleGroups='HBR' --controlSampleGroups='UHR' --covariates='' > --workdir=/<<PKGBUILDDIR>>/tests/output/report/hisat2 --organism='' > --description='This analysis is part of the pigx-rnaseq build-time tests.' > --selfContained='True' >> > /<<PKGBUILDDIR>>/tests/output/logs/hisat2/analysis1.report.log 2>&1 > [Sat Feb 18 07:58:43 2023] > Finished job 38. > 35 of 48 steps (73%) done > [Sat Feb 18 07:58:57 2023] > Finished job 45. > 36 of 48 steps (75%) done > E: Build killed with signal TERM after 150 minutes of inactivity The full build log is available from: http://qa-logs.debian.net/2023/02/17/pigx-rnaseq_0.1.0-1.1_testing.log All bugs filed during this archive rebuild are listed at: https://bugs.debian.org/cgi-bin/pkgreport.cgi?tag=ftbfs-20230217;users=lu...@debian.org or: https://udd.debian.org/bugs/?release=na&merged=ign&fnewerval=7&flastmodval=7&fusertag=only&fusertagtag=ftbfs-20230217&fusertaguser=lu...@debian.org&allbugs=1&cseverity=1&ctags=1&caffected=1#results A list of current common problems and possible solutions is available at http://wiki.debian.org/qa.debian.org/FTBFS . You're welcome to contribute! If you reassign this bug to another package, please mark it as 'affects'-ing this package. See https://www.debian.org/Bugs/server-control#affects If you fail to reproduce this, please provide a build log and diff it with mine so that we can identify if something relevant changed in the meantime.
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--- Begin Message ---Source: salmon Source-Version: 1.10.1+ds1-1 Done: Andreas Tille <ti...@debian.org> We believe that the bug you reported is fixed in the latest version of salmon, which is due to be installed in the Debian FTP archive. A summary of the changes between this version and the previous one is attached. Thank you for reporting the bug, which will now be closed. If you have further comments please address them to 1031...@bugs.debian.org, and the maintainer will reopen the bug report if appropriate. Debian distribution maintenance software pp. Andreas Tille <ti...@debian.org> (supplier of updated salmon package) (This message was generated automatically at their request; if you believe that there is a problem with it please contact the archive administrators by mailing ftpmas...@ftp-master.debian.org) -----BEGIN PGP SIGNED MESSAGE----- Hash: SHA512 Format: 1.8 Date: Mon, 13 Mar 2023 09:15:13 +0100 Source: salmon Architecture: source Version: 1.10.1+ds1-1 Distribution: unstable Urgency: medium Maintainer: Debian Med Packaging Team <debian-med-packag...@lists.alioth.debian.org> Changed-By: Andreas Tille <ti...@debian.org> Closes: 1028713 1031580 Changes: salmon (1.10.1+ds1-1) unstable; urgency=medium . * Team upload. * New upstream version Closes: #1028713, #1031580 * Refresh external files from pufferfish * Add autopkgtest Checksums-Sha1: cc996df2010e2c0f20a7b483be1605618991740f 2583 salmon_1.10.1+ds1-1.dsc d1503db1ae64db3fa1395efae7501d40a8016432 5718440 salmon_1.10.1+ds1.orig.tar.xz 15ca0c6306fa0f262921a498fd2cf769bfd1f40d 1895392 salmon_1.10.1+ds1-1.debian.tar.xz e610aaefc2614232281b64b3bc1196713406d6ac 11413 salmon_1.10.1+ds1-1_amd64.buildinfo Checksums-Sha256: 3582ee15b5ed0ba090a4b6fc52489edb181d94a7404b56f6bace5bef790022e7 2583 salmon_1.10.1+ds1-1.dsc 22d3787cd906013deda28f11138295e058ea3655d10119f21db74f320cab9923 5718440 salmon_1.10.1+ds1.orig.tar.xz 278dc25779aaa3b80e749a5c84719a629eda10fc554d6143c15bbef40da5a3ca 1895392 salmon_1.10.1+ds1-1.debian.tar.xz db8dbb15f637da21196bdfedc2bcd2b5e8f8ff1609d24115fc227c43038d3ec0 11413 salmon_1.10.1+ds1-1_amd64.buildinfo Files: 5921472f72d129f9eddb9d9f29388a6f 2583 science optional salmon_1.10.1+ds1-1.dsc 03c2f83832babc833206c0ecf486432b 5718440 science optional salmon_1.10.1+ds1.orig.tar.xz 3c8c6684d48dff7f0704d35a82ea0098 1895392 science optional salmon_1.10.1+ds1-1.debian.tar.xz 2f2622bae1689788d6eb212dba6a32e1 11413 science optional salmon_1.10.1+ds1-1_amd64.buildinfo -----BEGIN PGP SIGNATURE----- iQJFBAEBCgAvFiEE8fAHMgoDVUHwpmPKV4oElNHGRtEFAmQO3s8RHHRpbGxlQGRl Ymlhbi5vcmcACgkQV4oElNHGRtGjpg/+LnYm3YEdMdJqOzDMh8f4QjdE/Ahc505x r6zRKzW55hldHlQPwBdJfbx7b/uIOgz9rBJ7hEduJVfw0C6tJFELgqWHbUm/LmSd JP9Qj4oJGVCrjGmVZLMkySHKYlrRqj61e2Qc1q1+ICUT0qRQNUjxeqWQv+Mjtxi3 6+1qmq95cQCioW/Z2DX26MVqpWvsxcbSm5JxkiNZsD+napnpJijqV+kjIM+olGkl C9JOJS2dVgmFl+ME9PLt5mBf5RP/h8MElLf/lns+rjDQ/2Sr8dXZOqcTiaEWpZMU C6EMRe0doGScGMusLFhQKgbZF28a6SI7091EDa1X4+JYCwv2g4kayGbvOQ3nCpJE HS9ki23U2rroAEzCve34b9eW58zW93FdYNfmbMd0GfCXN6IbQvMOtN8OrPwaZ9Kc 8A/KLIKNINbbpaLIs4mqWKTa8CWww9kDRxXzyoPSyK/6NrSeRQF5Ude66BgU+kN/ 4Cxr907EDQOvFd6uuekAn8Yjm3XFxU0WlSQY73whmKtLUVptMCh6Td2uuSOFDCys xtPbaB1uUcqzLZqHYHfbCKeSdvSZMC9JJtxG7ZPPzXl0fPOV0wRJO5arVyOUbvfp nvOuKe1zeabju0OQtY1wEIVpgwA/2I7331O7hLDLRDbY03msVQlJnDrbVFuY81XT l9xsgdsXqNo= =p7QB -----END PGP SIGNATURE-----
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