Your message dated Tue, 26 May 2020 03:19:08 +0000 with message-id <e1jdq7q-0003ec...@fasolo.debian.org> and subject line Bug#961347: fixed in sra-sdk 2.10.6+dfsg-5 has caused the Debian Bug report #961347, regarding sra-sdk: autopktest failure 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.) -- 961347: https://bugs.debian.org/cgi-bin/bugreport.cgi?bug=961347 Debian Bug Tracking System Contact ow...@bugs.debian.org with problems
--- Begin Message ---Source: sra-sdk Version: 2.10.6+dfsg-4 Severity: serious The autopkgtests of sra-sdk currently fail in unstable: | >>>>>Running fastq-load... | 2020-05-22T21:52:08 fastq-load.2.10.6 warn: file="SRR6650398_1.fastq" offset="0" | 2020-05-22T21:52:08 fastq-load.2.10.6 warn: quality_scoring_system attribute not set for this file, using Phred as default | 2020-05-22T21:52:08 fastq-load.2.10.6 err: libs/vdb/wtable.c:204:VTableOpenUpdate: schema not found while creating manager within virtual database module - failed to create table with schema NCBI:SRA:Illumina:tbl:phred:v2 | 2020-05-22T21:52:08 fastq-load.2.10.6 err: libs/kproc/queue.c:365:KQueuePop: schema not found while creating manager within virtual database module - accession="SRR6650398" status="failure" | 2020-05-22T21:52:08 fastq-load.2.10.6 err: libs/kproc/queue.c:365:KQueuePop: schema not found while creating manager within virtual database module - load failed: libs/kproc/queue.c:365:KQueuePop: schema not found | autopkgtest [21:52:08]: test run-unit-test: -----------------------] | autopkgtest [21:52:08]: test run-unit-test: - - - - - - - - - - results - - - - - - - - - - | run-unit-test FAIL non-zero exit status 3 | autopkgtest [21:52:08]: @@@@@@@@@@@@@@@@@@@@ summary | run-unit-test FAIL non-zero exit status 3 See also https://ci.debian.net/data/autopkgtest/unstable/amd64/s/sra-sdk/5608930/log.gz Cheers -- Sebastian Ramacher
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--- Begin Message ---Source: sra-sdk Source-Version: 2.10.6+dfsg-5 Done: u...@debian.org (Aaron M. Ucko) We believe that the bug you reported is fixed in the latest version of sra-sdk, 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 961...@bugs.debian.org, and the maintainer will reopen the bug report if appropriate. Debian distribution maintenance software pp. Aaron M. Ucko <u...@debian.org> (supplier of updated sra-sdk 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: SHA256 Format: 1.8 Date: Mon, 25 May 2020 22:45:07 -0400 Source: sra-sdk Architecture: source Version: 2.10.6+dfsg-5 Distribution: unstable Urgency: medium Maintainer: Debian Med Packaging Team <debian-med-packag...@lists.alioth.debian.org> Changed-By: Aaron M. Ucko <u...@debian.org> Closes: 961347 Changes: sra-sdk (2.10.6+dfsg-5) unstable; urgency=medium . * debian/patches/reenable_legacy_schema_in_sra_load.patch: New patch to make use of ncbi-vdb's new SRAUseLegacyDefaultSchema toggle, unbreaking tools/sra-load (fastq-load et al.) (Closes: #961347.) * debian/control: Ensure that this toggle is available at build time and at runtime. Checksums-Sha1: 429a57f30ed6c86c92aea7f06cc01efe04aede1f 2203 sra-sdk_2.10.6+dfsg-5.dsc e1595e6993118f866dda6da3f574574f465d3321 3844392 sra-sdk_2.10.6+dfsg-5.debian.tar.xz 766a9679691acada081673900bde3176d7bff9e7 10183 sra-sdk_2.10.6+dfsg-5_source.buildinfo Checksums-Sha256: a9e7d35799f19e9e4ec0bc580cd0d72429c785e354866d3f64609a081a1ec879 2203 sra-sdk_2.10.6+dfsg-5.dsc 0bb03553bb758fac96183b5b36ec5cd33a199ca590b774b04680bf360ea78405 3844392 sra-sdk_2.10.6+dfsg-5.debian.tar.xz 18ee6b1a55c57ff7e299325214569f61603fff4d7885d46241d16df2813ad579 10183 sra-sdk_2.10.6+dfsg-5_source.buildinfo Files: 7ac1c17f1078f2fc9b3016bb40445db8 2203 science optional sra-sdk_2.10.6+dfsg-5.dsc c5ba7d06a7ef69876f884b9dc8895e92 3844392 science optional sra-sdk_2.10.6+dfsg-5.debian.tar.xz 9e53f427750a7df965865f7313d6ebac 10183 science optional sra-sdk_2.10.6+dfsg-5_source.buildinfo -----BEGIN PGP SIGNATURE----- iQIzBAEBCAAdFiEEfDq5z9IwvTDdAJxZHnCRsfFKZKIFAl7Mg2IACgkQHnCRsfFK ZKJ5OQ//R7lAFwxh1nQeYcdCoH9EPRk+RIKkRrqUP0/LMrQ0t/FYhKjUwmB2kXkg WEhVI1LCdG9F0dj80PFM5nvZBKaGKmujhCHkPtJS/1jcNyj6LzOQiMHhpKxbAoXf CFHcE5IPGxcmKrp1pwGnVdbKUSirRg3+oUqA+DjUeQq72341ijd68mGXvPpYo3R9 01GRaGEawZsU/4A4E8UuA4nmInvTb3BrdMb4r62Idtb/+/zFSnq2JV7HQNLs1EA1 4mlDeNkECfw0xMLmi+cV9LLIBF07fVTsh6OfSGbFsqSxvdLfT4VxvyJts9uVXdO7 MypN2kIxfte1O6zSGbo6Hex45XuSVtITTPrY1p9yutnmQs58klWnwVGzOw2M4dr5 tRtwmNLbsacYLonQDDaRDjLzbkHLpDQVV4A/XdohgSckVQPMpaAm6Cy09Vud6SMs WKdnk8vply0rKwrXnuNY8KNnqkBI5S+oArxKUBJCdzu65g9pnr1okQlFmmjblqXd y1pGD5WXu+BxgHWHjsoKbvs4X1cYxL7zNMSiZamos/0WwKvqJqt+sQM15MMzUi1u g6bYOER3UBTLyVqPrmZfeNj7cfnfaVXXMRzX70wxN6ExAVkYxVHXoRL/cVYEAIRP gvceApt9c/tkuNOswcSMZmpHflezjsZ815ECtSADuz7SU3EvsHA= =3OT7 -----END PGP SIGNATURE-----
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