Your message dated Sun, 30 Dec 2018 17:34:41 +0000
with message-id <e1gdez3-000enm...@fasolo.debian.org>
and subject line Bug#917353: fixed in skimage 0.14.1-3
has caused the Debian Bug report #917353,
regarding [python3-skimage] Cannot import skimage with new numpy
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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--
917353: https://bugs.debian.org/cgi-bin/bugreport.cgi?bug=917353
Debian Bug Tracking System
Contact ow...@bugs.debian.org with problems
--- Begin Message ---
Package: python3-skimage
Version: 0.14.1-2
Severity: serious
Affects: python3-ccdproc, python3-hipspy, python3-sunpy
Tags: patch
Control: forwarded -1 https://github.com/scikit-image/scikit-image/issues/3551
$ python3
Python 3.7.2rc1 (default, Dec 12 2018, 06:25:49)
[GCC 8.2.0] on linux
Type "help", "copyright", "credits" or "license" for more information.
>>> import skimage
Traceback (most recent call last):
File "<stdin>", line 1, in <module>
File "/usr/lib/python3/dist-packages/skimage/__init__.py", line 167, in
<module>
from .util.dtype import (img_as_float32,
File "/usr/lib/python3/dist-packages/skimage/util/__init__.py", line 8, in
<module>
from .arraycrop import crop
File "/usr/lib/python3/dist-packages/skimage/util/arraycrop.py", line 8, in
<module>
from numpy.lib.arraypad import _validate_lengths
ImportError: cannot import name '_validate_lengths' from 'numpy.lib.arraypad'
(/usr/lib/python3/dist-packages/numpy/lib/arraypad.py)
This happens in the CI tests on a number of packages after the update of numpy
(see "Affects").
Since `_validate_lengths` is an internal identifies by Python convention, the
bug is clearly in skimage.
It is resolved in
https://github.com/scikit-image/scikit-image/pull/3556
For convenience, a patch is attached.
Cheers
Ole
From: Egor Panfilov <egor.v.panfi...@gmail.com>
Date: Thu, 22 Nov 2018 22:16:02 +0200
Subject: Handle deprecation of numpy `_validate_lengths`
https://github.com/scikit-image/scikit-image/pull/3561
https://github.com/scikit-image/scikit-image/pull/3556
https://github.com/scikit-image/scikit-image/issues/3551
---
skimage/util/arraycrop.py | 14 ++++++++++++--
1 file changed, 12 insertions(+), 2 deletions(-)
diff --git a/skimage/util/arraycrop.py b/skimage/util/arraycrop.py
index e83a6c6..3787770 100644
--- a/skimage/util/arraycrop.py
+++ b/skimage/util/arraycrop.py
@@ -5,8 +5,15 @@ n-dimensional array.
from __future__ import division, absolute_import, print_function
import numpy as np
-from numpy.lib.arraypad import _validate_lengths
+# After numpy 1.15, a new backward compatible function have been implemented.
+# See https://github.com/numpy/numpy/pull/11966
+from distutils.version import LooseVersion as Version
+old_numpy = Version(np.__version__) < Version('1.16')
+if old_numpy:
+ from numpy.lib.arraypad import _validate_lengths
+else:
+ from numpy.lib.arraypad import _as_pairs
__all__ = ['crop']
@@ -169,7 +176,10 @@ def crop(ar, crop_width, copy=False, order='K'):
view of the input array.
"""
ar = np.array(ar, copy=False)
- crops = _validate_lengths(ar, crop_width)
+ if old_numpy:
+ crops = _validate_lengths(ar, crop_width)
+ else:
+ crops = _as_pairs(crop_width, ar.ndim, as_index=True)
slices = tuple(slice(a, ar.shape[i] - b)
for i, (a, b) in enumerate(crops))
if copy:
--- End Message ---
--- Begin Message ---
Source: skimage
Source-Version: 0.14.1-3
We believe that the bug you reported is fixed in the latest version of
skimage, 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 917...@bugs.debian.org,
and the maintainer will reopen the bug report if appropriate.
Debian distribution maintenance software
pp.
Ole Streicher <oleb...@debian.org> (supplier of updated skimage 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: Sun, 30 Dec 2018 18:12:33 +0100
Source: skimage
Binary: python-skimage python3-skimage python-skimage-doc python-skimage-lib
python3-skimage-lib
Architecture: source
Version: 0.14.1-3
Distribution: unstable
Urgency: medium
Maintainer: Debian Science Maintainers
<debian-science-maintain...@lists.alioth.debian.org>
Changed-By: Ole Streicher <oleb...@debian.org>
Description:
python-skimage - Python modules for image processing
python-skimage-doc - Documentation and examples for scikit-image
python-skimage-lib - Optimized low-level algorithms for scikit-image
python3-skimage - Python 3 modules for image processing
python3-skimage-lib - Optimized low-level algorithms for Python 3 scikit-image
Closes: 917353
Changes:
skimage (0.14.1-3) unstable; urgency=medium
.
* Team upload
.
[ yangfl ]
* Code cleanup
* Use Agg MPL backend for autopkgtests
.
[ Ole Streicher ]
* Handle deprecation of numpy (Closes: #917353)
* Fix test_mpl_imshow
* Add cloudpickle to build dependencies
.
[ Andreas Tille ]
* Respect DEB_BUILD_OPTIONS in override_dh_auto_test target
* Standards-Version: 4.3.0
* cme fix dpkg-control
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Files:
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4c0489acf80ee90fa6e4c97f8c372c01 24420 python optional
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