Your message dated Sat, 05 Mar 2022 16:52:53 +0000 with message-id <e1nqxeh-0008f5...@fasolo.debian.org> and subject line Bug#1006667: fixed in python-biopython 1.79+dfsg-3 has caused the Debian Bug report #1006667, regarding python-biopython - build-dependencies unsatisfiable on most architectures. 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.) -- 1006667: https://bugs.debian.org/cgi-bin/bugreport.cgi?bug=1006667 Debian Bug Tracking System Contact ow...@bugs.debian.org with problems
--- Begin Message ---source: python-biopython version: 1.79+dfsg-1 severity: serious tags: patch muscle was recently removed from most architectures[1], leaving python-biopython's build-dependencies unsatisfiable on those architectures. The build-dependency is already marked as nocheck so presumably is only used for tests. I added an architecture restriction to the dependency and was able to perform a successfully test build in an environment without muscle installed. Note that I used python3-fonttools from testing for the test build as unstable's version is currently uninstallable. A debdiff is attached. The recent upload of python-biopython 1.79+dfsg-2 also moved w3-dtd-mathml from Suggests to Depends. Unfortunately w3-dtd-mathml is rc buggy[2] and not in testing. There is a patch available for the rc bug, but discussion in the bug report suggests that it may be better to migrate to w3c-sgml-lib which has a newer version of the mathml dtd. [1] https://bugs.debian.org/cgi-bin/bugreport.cgi?bug=1006161 [2] https://bugs.debian.org/cgi-bin/bugreport.cgi?bug=994795diff -Nru python-biopython-1.79+dfsg/debian/changelog python-biopython-1.79+dfsg/debian/changelog --- python-biopython-1.79+dfsg/debian/changelog 2022-02-17 19:15:09.000000000 +0000 +++ python-biopython-1.79+dfsg/debian/changelog 2022-03-01 20:39:50.000000000 +0000 @@ -1,3 +1,11 @@ +python-biopython (1.79+dfsg-2.1) UNRELEASED; urgency=medium + + * Non-maintainer upload. + * Restrict architecture list of muscle build-dependency to reflect + architectures where the current version of muscle is available. + + -- Peter Michael Green <plugw...@debian.org> Tue, 01 Mar 2022 20:39:50 +0000 + python-biopython (1.79+dfsg-2) unstable; urgency=medium * Move w3-dtd-mathml from Suggests to Depends to avoid dangling symlink diff -Nru python-biopython-1.79+dfsg/debian/control python-biopython-1.79+dfsg/debian/control --- python-biopython-1.79+dfsg/debian/control 2022-02-17 19:15:09.000000000 +0000 +++ python-biopython-1.79+dfsg/debian/control 2022-03-01 20:39:50.000000000 +0000 @@ -25,7 +25,7 @@ emboss <!nocheck>, fasttree <!nocheck>, mafft <!nocheck>, - muscle <!nocheck>, + muscle [i386 amd64 x32] <!nocheck>, ncbi-blast+ <!nocheck>, phylip <!nocheck>, phyml [any-amd64 any-i386] <!nocheck>,
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--- Begin Message ---Source: python-biopython Source-Version: 1.79+dfsg-3 Done: Étienne Mollier <emoll...@debian.org> We believe that the bug you reported is fixed in the latest version of python-biopython, 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 1006...@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 python-biopython 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: Sat, 05 Mar 2022 15:36:12 +0100 Source: python-biopython Architecture: source Version: 1.79+dfsg-3 Distribution: unstable Urgency: medium Maintainer: Debian Med Packaging Team <debian-med-packag...@lists.alioth.debian.org> Changed-By: Étienne Mollier <emoll...@debian.org> Closes: 1006667 Changes: python-biopython (1.79+dfsg-3) unstable; urgency=medium . [ Peter Michael Green ] * Restrict architecture list of muscle build-dependency to reflect architectures where the current version of muscle is available. (Closes: #1006667) . [ Étienne Mollier ] * d/control,d/python3-biopython.links: move from w3-dtd-mathml to slightly more recent w3c-sgml-lib. Thanks to Peter Green and Vincent Lefevre. * Remove d/python3-biopython.lintian-overrides; not in use anymore. Checksums-Sha1: 37ffabc3277e1af59147490064422fd9513acbca 3241 python-biopython_1.79+dfsg-3.dsc 169ab62c43f280ccd1ae28bbb0acd35e06ab1e71 18380 python-biopython_1.79+dfsg-3.debian.tar.xz fb53b85be4156c050bf66ac6cad45ed2121a7216 14469 python-biopython_1.79+dfsg-3_amd64.buildinfo Checksums-Sha256: 5f9995cdb9ffa79f6ffdc57f401aed24dd15bf1de32fb083087ab9fa6ff1b412 3241 python-biopython_1.79+dfsg-3.dsc 899776887754c989db0a3119412af93f549e5c6aa5e9698c2c8606503485c219 18380 python-biopython_1.79+dfsg-3.debian.tar.xz af376e1772db9ef166a406703b2e093c8a3da17cdcd2f166a314c48939af2669 14469 python-biopython_1.79+dfsg-3_amd64.buildinfo Files: 3f52c930bd99e63d0b76a982eb16984a 3241 python optional python-biopython_1.79+dfsg-3.dsc 2e5033e8bb9bcb15dd22fa2f6a55ba3e 18380 python optional python-biopython_1.79+dfsg-3.debian.tar.xz a79b82be81c5fc01d59301d40e7345d0 14469 python optional python-biopython_1.79+dfsg-3_amd64.buildinfo -----BEGIN PGP SIGNATURE----- iQJIBAEBCgAyFiEEj5GyJ8fW8rGUjII2eTz2fo8NEdoFAmIjkC8UHGVtb2xsaWVy QGRlYmlhbi5vcmcACgkQeTz2fo8NEdqmGA//QN3KuJBvqp+eRm4ogY0R+4HMRPVR yRFzwwcafClYMRg21uFBlD4SXJN5Jyj+n/iqCMy40R0YERWUlhkLLJlHI4NaidZ6 9bK/8UUmcHUCdQkBNx9/WFSQu6ZJWeW82fOnToN1z3J/ab1xa4ivfkLPeXE8TkQ6 7mSMTH0m4N8lZc8dFOjWZdqhzhEzpBwO5+AY39f8DuBeC/hdkQ2W5izuh35VryqR lvZ4l/DbJJcD1cgwt3ci8e2a8OdWGxkZZ2VQPw7I0eFDVUEdKoUQcVYa1zDZWSod vIPOwiwjuUE1aYpN6hxekU0CUHmfFLODbwSMqZPPxYp7y6iUeRDmK65G4yWz9FmS J056NCvUuYMkP8PnypLB2QfCIj/p/txdkgMQVZIoJs40QgajPjJnSJL1oEF0ldlu dLEvrTWJKB2I3zSENh0m6z/5ucyWPWEBgDyQHK6NhwT9dbTRJuQG4RljGPlBydLy 9YK7khlXPzBxko4VPIrDbf1KuPz/htzwiCmDJVkhr2ljlYHWO5GRWy65pMzeCbsK FFBejXdIhNDHoNVlRgoNJqLMUgLX7NFztgeirOX0Gdwy3Jy09BOAVCL7yQTQ2YQO SF8BnkQkyduABrfUTDPsWZGybbmAulF0amf3fyFMSJFIB4xMem4cFuEnlf8fqYiU GNHYJ8jC1mdB9vU= =ut7P -----END PGP SIGNATURE-----
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