Your message dated Tue, 07 Apr 2020 14:37:10 +0000
with message-id <e1jlpli-000gcm...@fasolo.debian.org>
and subject line Bug#951222: fixed in python-skbio 0.5.6-1
has caused the Debian Bug report #951222,
regarding scikit-learn breaks python-skbio autopkgtest:
skbio.stats.distance._permdisp.permdisp
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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--
951222: https://bugs.debian.org/cgi-bin/bugreport.cgi?bug=951222
Debian Bug Tracking System
Contact ow...@bugs.debian.org with problems
--- Begin Message ---
Source: scikit-learn, python-skbio
Control: found -1 scikit-learn/0.22.1+dfsg-1
Control: found -1 python-skbio/0.5.5-3
Severity: serious
Tags: sid bullseye
X-Debbugs-CC: debian...@lists.debian.org
User: debian...@lists.debian.org
Usertags: breaks needs-update
Dear maintainers,
With a recent upload of scikit-learn the autopkgtest of python-skbio
fails in testing when that autopkgtest is run with the binary packages
of scikit-learn from unstable. It passes when run with only packages
from testing. In tabular form:
pass fail
scikit-learn from testing 0.22.1+dfsg-1
python-skbio from testing 0.5.5-3
all others from testing from testing
I copied some of the output at the bottom of this report.
Currently this regression is blocking the migration of scikit-learn to
testing [1]. Due to the nature of this issue, I filed this bug report
against both packages. Can you please investigate the situation and
reassign the bug to the right package?
More information about this bug and the reason for filing it can be found on
https://wiki.debian.org/ContinuousIntegration/RegressionEmailInformation
Paul
PS: scikit-learn also FTBFS on several architectures.
[1] https://qa.debian.org/excuses.php?package=scikit-learn
https://ci.debian.net/data/autopkgtest/testing/amd64/p/python-skbio/4266056/log.gz
=================================== FAILURES
===================================
______________ [doctest] skbio.stats.distance._permdisp.permdisp
_______________
129 ... ['s1', 's2', 's3', 's4', 's5', 's6'])
130 >>> grouping = ['G1', 'G1', 'G1', 'G2', 'G2', 'G2']
131
132 Run PERMDISP using 99 permutations to caluculate the p-value:
133
134 >>> from skbio.stats.distance import permdisp
135 >>> import numpy as np
136 >>> #make output deterministic, should not be included during
normal use
137 >>> np.random.seed(0)
138 >>> permdisp(dm, grouping, permutations=99)
Differences (unified diff with -expected +actual):
@@ -4,5 +4,5 @@
number of groups 2
test statistic 1.03296
-p-value 0.35
+p-value 0.29
number of permutations 99
Name: PERMDISP results, dtype: object
signature.asc
Description: OpenPGP digital signature
--- End Message ---
--- Begin Message ---
Source: python-skbio
Source-Version: 0.5.6-1
Done: michael.cru...@gmail.com (Michael R. Crusoe)
We believe that the bug you reported is fixed in the latest version of
python-skbio, 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 951...@bugs.debian.org,
and the maintainer will reopen the bug report if appropriate.
Debian distribution maintenance software
pp.
Michael R. Crusoe <michael.cru...@gmail.com> (supplier of updated python-skbio
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: Tue, 07 Apr 2020 16:07:58 +0200
Source: python-skbio
Architecture: source
Version: 0.5.6-1
Distribution: unstable
Urgency: medium
Maintainer: Debian Med Packaging Team
<debian-med-packag...@lists.alioth.debian.org>
Changed-By: Michael R. Crusoe <michael.cru...@gmail.com>
Closes: 951222
Changes:
python-skbio (0.5.6-1) unstable; urgency=medium
.
* Team upload.
* New upstream version
* Remove patches incorporated upstream
* Respect DEB_BUILD_OPTIONS in override_dh_auto_test target (routine-
update)
* Add salsa-ci file (routine-update)
* Rules-Requires-Root: no (routine-update)
* Run the tests in the autopkgtest the same way we do during build-time:
using pytest. Closes: #951222
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