Your message dated Tue, 06 Oct 2015 16:20:37 +0000 with message-id <[email protected]> and subject line Bug#801112: fixed in python-biopython 1.65+dfsg-3 has caused the Debian Bug report #801112, regarding python-biopython: FTBFS due to test failure with multiple python3 versions supported 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 [email protected] immediately.) -- 801112: http://bugs.debian.org/cgi-bin/bugreport.cgi?bug=801112 Debian Bug Tracking System Contact [email protected] with problems
--- Begin Message ---Source: python-biopython Version: 1.65+dfsg-2 Severity: serious Justification: fails to build from source (but built successfully in the past) The package FTBFS with the following error during the binNMU to add python3.5 support: ====================================================================== ERROR: test_DocSQL (unittest.loader._FailedTest) ---------------------------------------------------------------------- ImportError: Failed to import test module: test_DocSQL Traceback (most recent call last): File "/«BUILDDIR»/python-biopython-1.65+dfsg/.pybuild/pythonX.Y_3.5/build/Bio/DocSQL.py", line 33, in <module> import MySQLdb ImportError: No module named 'MySQLdb' During handling of the above exception, another exception occurred: Traceback (most recent call last): File "/usr/lib/python3.5/unittest/loader.py", line 153, in loadTestsFromName module = __import__(module_name) File "/«BUILDDIR»/python-biopython-1.65+dfsg/.pybuild/pythonX.Y_3.5/build/Tests/test_DocSQL.py", line 7, in <module> import Bio.DocSQL File "/«BUILDDIR»/python-biopython-1.65+dfsg/.pybuild/pythonX.Y_3.5/build/Bio/DocSQL.py", line 35, in <module> raise MissingPythonDependencyError("Install MySQLdb if you want to use " Bio.MissingPythonDependencyError: Install MySQLdb if you want to use Bio.DocSQL. I did verify that python-mysqldb is built with support for python3.5, so the issue appears to be in this package. Scott K
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--- Begin Message ---Source: python-biopython Source-Version: 1.65+dfsg-3 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 [email protected], and the maintainer will reopen the bug report if appropriate. Debian distribution maintenance software pp. Andreas Tille <[email protected]> (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 [email protected]) -----BEGIN PGP SIGNED MESSAGE----- Hash: SHA256 Format: 1.8 Date: Tue, 06 Oct 2015 16:53:06 +0200 Source: python-biopython Binary: python-biopython python3-biopython python-biopython-doc python-biopython-sql python3-biopython-sql Architecture: source all amd64 Version: 1.65+dfsg-3 Distribution: unstable Urgency: medium Maintainer: Debian Med Packaging Team <[email protected]> Changed-By: Andreas Tille <[email protected]> Description: python-biopython - Python library for bioinformatics (implemented in Python 2) python-biopython-doc - Documentation for the Biopython library python-biopython-sql - Biopython support for the BioSQL database schema (Python 2) python3-biopython - Python library for bioinformatics (implemented in Python 3) python3-biopython-sql - Biopython support for the BioSQL database schema (Python 3) Closes: 801112 Changes: python-biopython (1.65+dfsg-3) unstable; urgency=medium . * Also run Tutorial test * Prefer Github as contact point * Build-Depends: python3-mysqldb Closes: #801112 Checksums-Sha1: dbf87c52af83271b69d8cf79cd9a2de07612d6b4 2916 python-biopython_1.65+dfsg-3.dsc ece3257b9c6e3eb7c5e0d138882576206d29de6d 13904 python-biopython_1.65+dfsg-3.debian.tar.xz 75f109fac9086e9225bd1cd3a42004a6e9754f03 10718410 python-biopython-doc_1.65+dfsg-3_all.deb 02e214470335d5d267cf2b5e700783eec10b4590 28212 python-biopython-sql_1.65+dfsg-3_all.deb b371e6594668f2459835e915ed300fb21d5bbeaa 1182576 python-biopython_1.65+dfsg-3_amd64.deb d2d6088abcd15be055cb335cb1e616efaa07ef73 28270 python3-biopython-sql_1.65+dfsg-3_all.deb 40d02161ce8495f3c6c6e8c4db139521060d2edd 1149886 python3-biopython_1.65+dfsg-3_amd64.deb Checksums-Sha256: 27fe0117abd28f242dfae01c4d0b34e0c03a3e2dca855ce88b12bd030a5ac26c 2916 python-biopython_1.65+dfsg-3.dsc 631771b488af26001ed1b6c69f82488f1f68b795e099c02695e936f076f01fd9 13904 python-biopython_1.65+dfsg-3.debian.tar.xz 84e5935c5d88d75d8ef10e3779d2bd65f935a972d9f35a693a36cc9e26a98199 10718410 python-biopython-doc_1.65+dfsg-3_all.deb 645dcbc3f5faf81fcf079250c19d9236c5aa87264491fc8da3e8d0f25f484f7c 28212 python-biopython-sql_1.65+dfsg-3_all.deb 94ed9077d0bbc451b6cbcc89465fdf0dfce528ffdb483056b66343e4ff08e759 1182576 python-biopython_1.65+dfsg-3_amd64.deb 0b1e50b9345da46de383f7b4fd8210d2f498ca65ebc3a3877ef0755c25dbf5e1 28270 python3-biopython-sql_1.65+dfsg-3_all.deb 9ef4002fbf3d0bf1c89de14eed2190eb79497c204082ac3c00550a8cff85b25b 1149886 python3-biopython_1.65+dfsg-3_amd64.deb Files: 2ff1e3790d35da48ab0e87bddff2de4c 2916 python optional python-biopython_1.65+dfsg-3.dsc 01effcb247f3f4bf07e5e434b5644b21 13904 python optional python-biopython_1.65+dfsg-3.debian.tar.xz 42668c058bb20c81ce319daee0ad1b8b 10718410 doc optional python-biopython-doc_1.65+dfsg-3_all.deb 2a881023e34e0c4075cc9299f115c420 28212 python optional python-biopython-sql_1.65+dfsg-3_all.deb 215774c142a061c805f5078bba616b8e 1182576 python optional python-biopython_1.65+dfsg-3_amd64.deb afacf6387ce67b5297440f14d5b9b812 28270 python optional python3-biopython-sql_1.65+dfsg-3_all.deb 9146da094e8ed7e374cd81f9715da7aa 1149886 python optional python3-biopython_1.65+dfsg-3_amd64.deb -----BEGIN PGP SIGNATURE----- Version: GnuPG v1 iQIcBAEBCAAGBQJWE+NNAAoJEFeKBJTRxkbR4igQAJrm7GbpkyEkYpRAMrHs0/9i /KUDnBvGsB+qImHpwdyDviJ8FnfA8RGmr/c7QuqxQ9hcMMOak+DlS3N+NGUIw0fg U08GobwWGpj1YIIYRCrG7hX8YsuGVwSy5t424KVZs/NptvBolIcNqcYosC2PyUA0 e78xaDTg+ow6V/IddjpVieG5hTNa6iuzWpx0f4T/JypLulZtNJUgaoeA9kbYx8ON bUVxefxVF0Gqsc060yFTDBf26TgeUSZDARyN0JoMMmMESuFguxRrwQ/uzOMKTkVe ZoVXwaFah4dObLdK3DvVe5DG2tJfVlHvpw4651UXjWQeyYQLMX1UTqJGMPKGKTu2 CAJIkj86TxwDUzhEkXjwtZR8+5FAIUjPljdTMK1jV3ZOuc8+TBZDomQ+uYoQEqWo 6Gcvpayiej18vzwAjNc63V6JXRkAKwNBjtR0oBxwaVfabhTaNseKNNAOlcMmCeuF pLmg4jj2oBpTHmyW6grUEQfAPZTdqXz0Ugv2xJT0ZujpP5dzaB+Omhp1GLz6UL90 tCIeW6mmLxXn8EYkeqrQG8BZYay8JIqhdb3ftq2ZHIDIvRVmgh1yiWujXdZxdG6T vQpaEZk9mnpLLVeHYTmNDup5NG74hEiDxQ0oyGSxkLByFZo57OxoMObiV5xFDJJI BhbzI9GezkzOo/lfyUHN =leIX -----END PGP SIGNATURE-----
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