Your message dated Sun, 07 Feb 2021 11:52:29 +0000 with message-id <e1l8ic9-000agy...@fasolo.debian.org> and subject line Bug#980082: fixed in r-bioc-shortread 1.48.0-2 has caused the Debian Bug report #980082, regarding r-bioc-shortread: autopkgtest failure in testing and unstable 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.) -- 980082: https://bugs.debian.org/cgi-bin/bugreport.cgi?bug=980082 Debian Bug Tracking System Contact ow...@bugs.debian.org with problems
--- Begin Message ---Source: r-bioc-shortread Version: 1.48.0-1 X-Debbugs-CC: debian...@lists.debian.org Severity: serious Tags: bullseye sid User: debian...@lists.debian.org Usertags: needs-update Hi Maintainer The autopkgtests of r-bioc-shortread are failing in testing and unstable [1]. I've copied what I hope is the relevant part of the log below. Regards Graham [1] https://ci.debian.net/packages/r/r-bioc-shortread/ Timing stopped at: 0.053 0 0.053 Error in checkIdentical(exp, as(readPrb(sp, ".*prb.txt", as = "FastqEncoding"), : FALSE In addition: Warning messages: 1: In .Internal(vapply(X, FUN, FUN.VALUE, USE.NAMES)) : closing unused connection 6 (/usr/lib/R/site-library/ShortRead/extdata/Data/C1-36Firecrest/Bustard/GERALD/s_1_sequence.txt) 2: In .Internal(vapply(X, FUN, FUN.VALUE, USE.NAMES)) : closing unused connection 5 (/usr/lib/R/site-library/ShortRead/extdata/Data/C1-36Firecrest/Bustard/GERALD/s_1_sequence.txt) Timing stopped at: 0.032 0 0.032 Error in checkIdentical(36L, unique(width(obj))) : FALSE RUNIT TEST PROTOCOL -- Thu Jan 14 00:29:24 2021 *********************************************** Number of test functions: 104 Number of errors: 0 Number of failures: 2 1 Test Suite : ShortRead RUnit Tests - 104 test functions, 0 errors, 2 failures FAILURE in test_readPrb_consistent: Error in checkIdentical(exp, as(readPrb(sp, ".*prb.txt", as = "FastqEncoding"), : FALSE FAILURE in test_readPrb_input: Error in checkIdentical(36L, unique(width(obj))) : FALSE Test files with failing tests test_readPrb.R test_readPrb_consistent test_readPrb_input Error in BiocGenerics:::testPackage("ShortRead") : unit tests failed for package ShortRead Execution halted autopkgtest [08:29:24]: test run-unit-test: -----------------------] autopkgtest [08:29:25]: test run-unit-test: - - - - - - - - - - results - - - - - - - - - - run-unit-test FAIL non-zero exit status 1
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--- Begin Message ---Source: r-bioc-shortread Source-Version: 1.48.0-2 Done: Andreas Tille <ti...@debian.org> We believe that the bug you reported is fixed in the latest version of r-bioc-shortread, 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 980...@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 r-bioc-shortread 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: Sun, 07 Feb 2021 12:28:32 +0100 Source: r-bioc-shortread Architecture: source Version: 1.48.0-2 Distribution: unstable Urgency: medium Maintainer: Debian R Packages Maintainers <r-pkg-t...@alioth-lists.debian.net> Changed-By: Andreas Tille <ti...@debian.org> Closes: 980082 Changes: r-bioc-shortread (1.48.0-2) unstable; urgency=medium . * Exclude failing test on non-Intel architectures Closes: #980082 Checksums-Sha1: 63f947b2f77a370f200f44476480677f2bc952ed 2531 r-bioc-shortread_1.48.0-2.dsc 42d4d8ba9a9cbdc943b1120e69751096cd967ed8 5548 r-bioc-shortread_1.48.0-2.debian.tar.xz 245937de49a9b4e7b5b7e43bce8190e9a3b00b67 11698 r-bioc-shortread_1.48.0-2_amd64.buildinfo Checksums-Sha256: 284f1309ca50847c58f49da6616f5d9b67f6074dca67c60a54f8d12e30b3504d 2531 r-bioc-shortread_1.48.0-2.dsc 89c0c3a0ec617f41947b1920ca75190e764626ae6f11b1cfa688edf10018ca43 5548 r-bioc-shortread_1.48.0-2.debian.tar.xz 6e9a3df40186fb4366138322c4eae0cf5b599bf89e6e516127efb748deb9c35f 11698 r-bioc-shortread_1.48.0-2_amd64.buildinfo Files: 73f318ee30e588add2f62bdc59f83e55 2531 gnu-r optional r-bioc-shortread_1.48.0-2.dsc 980e1f395b69c5f8cee3743c0921cdb4 5548 gnu-r optional r-bioc-shortread_1.48.0-2.debian.tar.xz 3d6243a8e8f70f986e1cc2323e7eafc2 11698 gnu-r optional r-bioc-shortread_1.48.0-2_amd64.buildinfo -----BEGIN PGP SIGNATURE----- iQJFBAEBCAAvFiEE8fAHMgoDVUHwpmPKV4oElNHGRtEFAmAf0PoRHHRpbGxlQGRl Ymlhbi5vcmcACgkQV4oElNHGRtEiTQ//Zmu38YuTIk2P3s8NBXJhTKwjtchVhkeP KCjoMtrmC9MgqqsKX/Z/AitKSH/YYfHGmYW7eDCDEpDAFJnh3ATktXc+FwhfQkb3 znj8sz4Ig9WT/+77P/u/h2DBeqn7E4YPcxS+whxJMGy0xLHqxJm5dgvfHe68rzeF yGkor5qifhTJVWkflBAGcEMLYkqQS2LD6EdcnCa3DpRgW96Ru86lWKTYqyJ2wwMl QwyblznkCTWHWqg7i7HWZ+8silV/76ySttP9UcSus7TRVxlJeoAOtVSTuS2k5bbo kCzkgec2T87eT5OyWuUZgnBM83wuSHnMZ9P4E57m/qGrr28BRbOOZEcXmuP2IffR SGOc7DSKOd3V0/nnDf6ix8XvmTmtElEsaLjqheeoljN+80X5qjrDAiaEZhPrDkhS YLkioKzmGXvAWlg05/wdqHjdWkwuSYs3v3Cf/MBAoMwkkN43EHW4qQCItQKzJWqd LTAhTd00XD60DC1vvW50Dk6bZjJJM6xWIqh+zbPjzrV0Njq8m0XhsDDXiR0/vrYG 6JtoAzk6OVv6IclA40qr5uLnhZLczPhRHI73EFBBr9cJ8fKZZ2NL0tz74qA90XCN OdTnNCUfJuXUT+VjbtNUn4g4paWOP5HF3UU0OkPEv3N7t9yHN7fYjq7zin6HqM7N x4mMr/PSy+Q= =n0dE -----END PGP SIGNATURE-----
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