Your message dated Tue, 06 Oct 2015 16:20:37 +0000
with message-id <e1zjuyj-0003tq...@franck.debian.org>
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.
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--
801112: http://bugs.debian.org/cgi-bin/bugreport.cgi?bug=801112
Debian Bug Tracking System
Contact ow...@bugs.debian.org 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
--- End Message ---
--- 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 801...@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 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: 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
<debian-med-packag...@lists.alioth.debian.org>
Changed-By: Andreas Tille <ti...@debian.org>
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
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python-biopython_1.65+dfsg-3.dsc
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--- End Message ---
