Your message dated Thu, 02 Dec 2021 18:00:10 +0000 with message-id <e1msqno-000gln...@fasolo.debian.org> and subject line Bug#997884: fixed in libgclib 0.12.7+ds-3~0exp0 has caused the Debian Bug report #997884, regarding libgclib breaks cdbfasta autopkgtest: ABI breakage? 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.) -- 997884: https://bugs.debian.org/cgi-bin/bugreport.cgi?bug=997884 Debian Bug Tracking System Contact ow...@bugs.debian.org with problems
--- Begin Message ---Source: libgclib Control: found -1 libgclib/0.12.7+ds-2 Severity: serious Tags: sid bookworm X-Debbugs-CC: debian...@lists.debian.org User: debian...@lists.debian.org Usertags: breaks Control: affects -1 src:cdbfasta Dear maintainer(s), With a recent upload of libgclib the autopkgtest of cdbfasta fails in testing when that autopkgtest is run with the binary packages of libgclib from unstable. It passes when run with only packages from testing. In tabular form: pass fail libgclib from testing 0.12.7+ds-2 cdbfasta from testing 1.00+git20181005.014498c+dfsg-2 all others from testing from testing I copied some of the output at the bottom of this report. Looking at the message and the changelog, it seems that symbols were changed, but this one was apparently used by cdbfasta. I think this points at an ABI breakage and the SONAME of libgclib must be bumped and a transition must be followed through. (I could be wrong). Currently this regression is blocking the migration of libgclib to testing [1]. Can you please investigate the situation? 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=libgclib https://ci.debian.net/data/autopkgtest/testing/amd64/c/cdbfasta/16212088/log.gz + cdbfasta ebola.fasta cdbfasta: symbol lookup error: cdbfasta: undefined symbol: _Z8GReallocPPvm autopkgtest [22:12:39]: test run-unit-tests
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--- Begin Message ---Source: libgclib Source-Version: 0.12.7+ds-3~0exp0 Done: Étienne Mollier <emoll...@debian.org> We believe that the bug you reported is fixed in the latest version of libgclib, 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 997...@bugs.debian.org, and the maintainer will reopen the bug report if appropriate. Debian distribution maintenance software pp. Étienne Mollier <emoll...@debian.org> (supplier of updated libgclib 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: Wed, 27 Oct 2021 20:30:06 +0200 Binary: libgclib-dev libgclib3 libgclib3-dbgsym Source: libgclib Architecture: amd64 source Version: 0.12.7+ds-3~0exp0 Distribution: experimental Urgency: medium Maintainer: Debian Med Packaging Team <debian-med-packag...@lists.alioth.debian.org> Changed-By: Étienne Mollier <emoll...@debian.org> Closes: 997884 Description: libgclib-dev - header files for Genome Code Lib (GCLib) libgclib3 - C++ library to handle biological short sequence data Changes: libgclib (0.12.7+ds-3~0exp0) experimental; urgency=medium . * Team upload. * Bump libgclib soname (Closes: #997884) * d/copyright: add khashl.hh, wyhash.h and xxhash.h Checksums-Sha1: dff51f30add69b58a63ad1b0075988c514965634 130708 libgclib-dev_0.12.7+ds-3~0exp0_amd64.deb 915e15c41c320028a55f8165eac95c5e1b3cbcf4 604396 libgclib3-dbgsym_0.12.7+ds-3~0exp0_amd64.deb 10004500405f9d7ad6b39693b30b7319c7a43712 150368 libgclib3_0.12.7+ds-3~0exp0_amd64.deb c3faab3483ad9b5b6083e029d6e922a086976496 6678 libgclib_0.12.7+ds-3~0exp0_amd64.buildinfo a59951b2dd06e58a970cf3cdb98a29e9a46ba023 2197 libgclib_0.12.7+ds-3~0exp0.dsc a6e27b4efa7fc8fa6d8832a73bdabc3872422c78 14816 libgclib_0.12.7+ds-3~0exp0.debian.tar.xz Checksums-Sha256: 32a5dfdedc2af4079dc5c2abbc673791422731e502220a8a8c446e134770a18c 130708 libgclib-dev_0.12.7+ds-3~0exp0_amd64.deb 7191d70965d9c30bec0cfdd4f06178aee5bc8d4207dde2ba4cd1b0489057aac7 604396 libgclib3-dbgsym_0.12.7+ds-3~0exp0_amd64.deb 1692bbbad8232489384e2d58faac2ac4481c61ab89535945fd73caea699b09fc 150368 libgclib3_0.12.7+ds-3~0exp0_amd64.deb d780272765bc5683a8018972e513e01bc583d8e8dd0aa0abe85395a201c60f3a 6678 libgclib_0.12.7+ds-3~0exp0_amd64.buildinfo 0ef180cd07dcadfa2117819d058f98e5c872adfaef857f9008907eadac20d7f5 2197 libgclib_0.12.7+ds-3~0exp0.dsc 654aafe158d13b0e5bc91ae531ff9d224108664072cef7433cce6cf64513f44d 14816 libgclib_0.12.7+ds-3~0exp0.debian.tar.xz Files: df7ec62beec61dd42c028b81d30ab9cf 130708 libdevel optional libgclib-dev_0.12.7+ds-3~0exp0_amd64.deb 8791e8d09f15658e645df0afa2e909ef 604396 debug optional libgclib3-dbgsym_0.12.7+ds-3~0exp0_amd64.deb cfcc5cb0ddebe8f5fd29835bc9459f1a 150368 libs optional libgclib3_0.12.7+ds-3~0exp0_amd64.deb fec0c8aa1f4da96a8c17d775d6922f62 6678 science optional libgclib_0.12.7+ds-3~0exp0_amd64.buildinfo 1fb722885d9edb47146bb5e743b164fc 2197 science optional libgclib_0.12.7+ds-3~0exp0.dsc 31d5c01788864ddded9976f4461b5f70 14816 science optional libgclib_0.12.7+ds-3~0exp0.debian.tar.xz -----BEGIN PGP SIGNATURE----- iQJIBAEBCgAyFiEEj5GyJ8fW8rGUjII2eTz2fo8NEdoFAmF9rI0UHGVtb2xsaWVy QGRlYmlhbi5vcmcACgkQeTz2fo8NEdpkJBAArZQ4bu1EliVSxwAHVc0xj9Xpr7MT ZZ94Tpc+0iZ1LfGFyR/YbFDXR+EjB1PeIGeD9FZjsIX83UmOrAq6CO2nl4a0nLQJ u/8k43i4wW7Si7r4MI8Adt1/CrjeftE2GaNvmTPOFktE+LEEp5g8f30OaxuhGruy Ml44mPX9faj0Sex+HqO6TykDr/IgrNzPqJhMdX7bqvPfS2l6du0raPKHII//gxur u8C4MWTDMpA4Hn6N+fVrcxmmaHfHm9HTK+bL8698+IZwKgEv8xd07KKqzUL3tZKF XvjnE+/ICSMk5jeRk1WGIEhmfnxZpNS5z1ng7Sd++2LPJO8cqIjZKINbyPa29V9W awMnroPAnCN/U88+026ysr3jXBhWT4d+n5xUvNk02TOyV63s7VGAHMXBWAlh4XoP 9yjBwnG1FNnfbVEEwX9Y3y0uBw3H9hzpHRwmXRr8VL//gqWqHRxvNWHpapQET6Wu Uhz23MzJuvUER0RpaHenUp0jx12Qr3g6AFAeqhK2Emk/2MqpzWSmRRJJPB40Wvsv l51mHGqBkhnCp/cy5q8WHcLOgXkWqOb0QqmNNOCdooA4h+WYPlV54HyNhnQDevxM 2lIxIamA5JbjCEhHK8jmqIy707V+BaQveg1SnwrEBLCT4ynMS4BXeSiPLn+Eax5r CErt69JVzrJH4Ic= =CH// -----END PGP SIGNATURE-----
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