Your message dated Tue, 12 Dec 2017 11:20:10 +0000
with message-id <[email protected]>
and subject line Bug#878498: fixed in snakemake 4.3.1-1
has caused the Debian Bug report #878498,
regarding snakemake FTBFS with Python 3.6 as default
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.)
--
878498: https://bugs.debian.org/cgi-bin/bugreport.cgi?bug=878498
Debian Bug Tracking System
Contact [email protected] with problems
--- Begin Message ---
Source: snakemake
Version: 3.10.0-1
Severity: serious
Tags: buster sid
https://tests.reproducible-builds.org/debian/rb-pkg/unstable/amd64/snakemake.html
...
======================================================================
ERROR: Failure: Exception (snakemake not in PATH. For testing, install
snakemake with 'pip install -e .'. You should do this in a separate environment
(via conda or virtualenv).)
----------------------------------------------------------------------
Traceback (most recent call last):
File "/usr/lib/python3/dist-packages/nose/failure.py", line 39, in runTest
raise self.exc_val.with_traceback(self.tb)
File "/usr/lib/python3/dist-packages/nose/loader.py", line 418, in
loadTestsFromName
addr.filename, addr.module)
File "/usr/lib/python3/dist-packages/nose/importer.py", line 47, in
importFromPath
return self.importFromDir(dir_path, fqname)
File "/usr/lib/python3/dist-packages/nose/importer.py", line 94, in
importFromDir
mod = load_module(part_fqname, fh, filename, desc)
File "/usr/lib/python3.6/imp.py", line 235, in load_module
return load_source(name, filename, file)
File "/usr/lib/python3.6/imp.py", line 172, in load_source
module = _load(spec)
File "<frozen importlib._bootstrap>", line 684, in _load
File "<frozen importlib._bootstrap>", line 665, in _load_unlocked
File "<frozen importlib._bootstrap_external>", line 678, in exec_module
File "<frozen importlib._bootstrap>", line 219, in _call_with_frames_removed
File
"/build/1st/snakemake-3.10.0/.pybuild/pythonX.Y_3.6/build/tests/tests.py", line
21, in <module>
raise Exception("snakemake not in PATH. For testing, install snakemake with
"
Exception: snakemake not in PATH. For testing, install snakemake with 'pip
install -e .'. You should do this in a separate environment (via conda or
virtualenv).
----------------------------------------------------------------------
Ran 4 tests in 0.535s
FAILED (errors=1)
E: pybuild pybuild:283: test: plugin distutils failed with: exit code=1: cd
/build/1st/snakemake-3.10.0/.pybuild/pythonX.Y_3.6/build; python3.6 -m nose
tests
dh_auto_test: pybuild --test --test-nose -i python{version} -p 3.6 returned
exit code 13
debian/rules:18: recipe for target 'build' failed
make: *** [build] Error 25
The problem is the the following line in debian/rules:
export PATH:=$(CURDIR)/.pybuild/pythonX.Y_3.5/build/bin:$(PATH)
--- End Message ---
--- Begin Message ---
Source: snakemake
Source-Version: 4.3.1-1
We believe that the bug you reported is fixed in the latest version of
snakemake, 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.
Christian M. Amsüss <[email protected]> (supplier of updated snakemake 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: Mon, 11 Dec 2017 20:51:06 +0100
Source: snakemake
Binary: snakemake
Architecture: source
Version: 4.3.1-1
Distribution: unstable
Urgency: medium
Maintainer: Debian Med Packaging Team
<[email protected]>
Changed-By: Christian M. Amsüss <[email protected]>
Description:
snakemake - pythonic workflow management system
Closes: 878498
Changes:
snakemake (4.3.1-1) unstable; urgency=medium
.
* Team upload
.
[ Dylan Aïssi ]
* Add upstream/metadata
.
[ Andreas Tille ]
* Remove sphinxext which spoils doc generation
* Fix build with Python 3.6
Closes: #878498
.
[ Christian M. Amsüss ]
* New upstream version 4.3.1
- updated lintian overrides
* Add build dependency on python3-ratelimiter
* Patch out test cases with unsatisfied dependencies
* Bump standards version to 4.1.2
.
[ Andreas Tille ]
* Avoid privacy breach. The tradeoff is that the local static copy might
become but people interested in latest information will read online
anyway.
* Mention remaining potential privacy breach issues in debian/README.source
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snakemake_4.3.1.orig.tar.gz
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--- End Message ---
