Your message dated Tue, 20 Dec 2022 19:10:18 +0000
with message-id <[email protected]>
and subject line Bug#1026342: fixed in scipy 1.8.1-15
has caused the Debian Bug report #1026342,
regarding scipy: autopkgtest needs update for new version of numpy:
DeprecationWarning
to be marked as done.
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--
1026342: https://bugs.debian.org/cgi-bin/bugreport.cgi?bug=1026342
Debian Bug Tracking System
Contact [email protected] with problems
--- Begin Message ---
Source: scipy
Version: 1.8.1-14
Severity: serious
X-Debbugs-CC: [email protected]
Tags: sid bookworm
User: [email protected]
Usertags: needs-update
Control: affects -1 src:numpy
Dear maintainer(s),
With a recent upload of numpy the autopkgtest of scipy fails in testing
when that autopkgtest is run with the binary packages of numpy from
unstable. It passes when run with only packages from testing. In tabular
form:
pass fail
numpy from testing 1:1.23.5-2
scipy from testing 1.8.1-14
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 numpy to testing
[1]. Of course, numpy shouldn't just break your autopkgtest (or even
worse, your package), but it seems to me that the change in numpy was
intended and your package needs to update to the new situation.
If this is a real problem in your package (and not only in your
autopkgtest), the right binary package(s) from numpy should really add a
versioned Breaks on the unfixed version of (one of your) package(s).
Note: the Breaks is nice even if the issue is only in the autopkgtest as
it helps the migration software to figure out the right versions to
combine in the tests.
More information about this bug and the reason for filing it can be found on
https://wiki.debian.org/ContinuousIntegration/RegressionEmailInformation
Paul
[1] https://qa.debian.org/excuses.php?package=numpy
https://ci.debian.net/data/autopkgtest/testing/armel/s/scipy/29447608/log.gz
skipping tests with SKIP_TEST_LIST=
=== Testing: python3.10 ===
============================= test session starts
==============================
platform linux -- Python 3.10.9, pytest-7.1.2, pluggy-1.0.0+repack --
/usr/bin/python3.10
cachedir: .pytest_cache
rootdir: /tmp/autopkgtest-lxc.81kfm6nh/downtmp/build.dRh/src,
configfile: pytest.ini
collecting ... collected 49779 items / 1 error / 12514 deselected / 1
skipped / 37265 selected
==================================== ERRORS
====================================
__________ ERROR collecting _build_utils/tests/test_scipy_version.py
___________
/usr/lib/python3.10/importlib/__init__.py:126: in import_module
return _bootstrap._gcd_import(name[level:], package, level)
level = 0
name = 'scipy._build_utils.tests.test_scipy_version'
package = None
<frozen importlib._bootstrap>:1050: in _gcd_import
???
level = 0
name = 'scipy._build_utils.tests.test_scipy_version'
package = None
<frozen importlib._bootstrap>:1027: in _find_and_load
???
import_ = <function _gcd_import at 0xf7538df0>
module = <object object at 0xf7597038>
name = 'scipy._build_utils.tests.test_scipy_version'
<frozen importlib._bootstrap>:992: in _find_and_load_unlocked
???
import_ = <function _gcd_import at 0xf7538df0>
name = 'scipy._build_utils.tests.test_scipy_version'
parent = 'scipy._build_utils.tests'
path = None
<frozen importlib._bootstrap>:241: in _call_with_frames_removed
???
args = ('scipy._build_utils.tests',)
f = <function _gcd_import at 0xf7538df0>
kwds = {}
<frozen importlib._bootstrap>:1050: in _gcd_import
???
level = 0
name = 'scipy._build_utils.tests'
package = None
<frozen importlib._bootstrap>:1027: in _find_and_load
???
import_ = <function _gcd_import at 0xf7538df0>
module = <object object at 0xf7597038>
name = 'scipy._build_utils.tests'
<frozen importlib._bootstrap>:992: in _find_and_load_unlocked
???
import_ = <function _gcd_import at 0xf7538df0>
name = 'scipy._build_utils.tests'
parent = 'scipy._build_utils'
path = None
<frozen importlib._bootstrap>:241: in _call_with_frames_removed
???
args = ('scipy._build_utils',)
f = <function _gcd_import at 0xf7538df0>
kwds = {}
<frozen importlib._bootstrap>:1050: in _gcd_import
???
level = 0
name = 'scipy._build_utils'
package = None
<frozen importlib._bootstrap>:1027: in _find_and_load
???
import_ = <function _gcd_import at 0xf7538df0>
module = <object object at 0xf7597038>
name = 'scipy._build_utils'
<frozen importlib._bootstrap>:1006: in _find_and_load_unlocked
???
import_ = <function _gcd_import at 0xf7538df0>
name = 'scipy._build_utils'
parent = 'scipy'
parent_module = <module 'scipy' from
'/usr/lib/python3/dist-packages/scipy/__init__.py'>
path = ['/usr/lib/python3/dist-packages/scipy']
spec = ModuleSpec(name='scipy._build_utils',
loader=<_frozen_importlib_external.SourceFileLoader object at
0xf5035dd8>, origi...ages/scipy/_build_utils/__init__.py',
submodule_search_locations=['/usr/lib/python3/dist-packages/scipy/_build_utils'])
<frozen importlib._bootstrap>:688: in _load_unlocked
???
module = <module 'scipy._build_utils' from
'/usr/lib/python3/dist-packages/scipy/_build_utils/__init__.py'>
spec = ModuleSpec(name='scipy._build_utils',
loader=<_frozen_importlib_external.SourceFileLoader object at
0xf5035dd8>, origi...ages/scipy/_build_utils/__init__.py',
submodule_search_locations=['/usr/lib/python3/dist-packages/scipy/_build_utils'])
<frozen importlib._bootstrap_external>:883: in exec_module
???
code = <code object <module> at 0xf503cab0, file
"/usr/lib/python3/dist-packages/scipy/_build_utils/__init__.py", line 1>
module = <module 'scipy._build_utils' from
'/usr/lib/python3/dist-packages/scipy/_build_utils/__init__.py'>
self = <_frozen_importlib_external.SourceFileLoader
object at 0xf5035dd8>
<frozen importlib._bootstrap>:241: in _call_with_frames_removed
???
args = (<code object <module> at 0xf503cab0, file
"/usr/lib/python3/dist-packages/scipy/_build_utils/__init__.py", line
1>, {..._.cpython-310.pyc', '__doc__': None, '__file__':
'/usr/lib/python3/dist-packages/scipy/_build_utils/__init__.py', ...})
f = <built-in function exec>
kwds = {}
/usr/lib/python3/dist-packages/scipy/_build_utils/__init__.py:4: in <module>
from ._fortran import *
__builtins__ = <builtins>
__cached__ =
'/usr/lib/python3/dist-packages/scipy/_build_utils/__pycache__/__init__.cpython-310.pyc'
__doc__ = None
__file__ =
'/usr/lib/python3/dist-packages/scipy/_build_utils/__init__.py'
__loader__ = <_frozen_importlib_external.SourceFileLoader
object at 0xf5035dd8>
__name__ = 'scipy._build_utils'
__package__ = 'scipy._build_utils'
__path__ = ['/usr/lib/python3/dist-packages/scipy/_build_utils']
__spec__ = ModuleSpec(name='scipy._build_utils',
loader=<_frozen_importlib_external.SourceFileLoader object at
0xf5035dd8>, origi...ages/scipy/_build_utils/__init__.py',
submodule_search_locations=['/usr/lib/python3/dist-packages/scipy/_build_utils'])
np = <module 'numpy' from
'/usr/lib/python3/dist-packages/numpy/__init__.py'>
os = <module 'os' from '/usr/lib/python3.10/os.py'>
/usr/lib/python3/dist-packages/scipy/_build_utils/_fortran.py:8: in <module>
from .system_info import combine_dict
__builtins__ = <builtins>
__cached__ =
'/usr/lib/python3/dist-packages/scipy/_build_utils/__pycache__/_fortran.cpython-310.pyc'
__doc__ = None
__file__ =
'/usr/lib/python3/dist-packages/scipy/_build_utils/_fortran.py'
__loader__ = <_frozen_importlib_external.SourceFileLoader
object at 0xf5035d18>
__name__ = 'scipy._build_utils._fortran'
__package__ = 'scipy._build_utils'
__spec__ = ModuleSpec(name='scipy._build_utils._fortran',
loader=<_frozen_importlib_external.SourceFileLoader object at
0xf5035d18>,
origin='/usr/lib/python3/dist-packages/scipy/_build_utils/_fortran.py')
__warningregistry__ = {'version': 38}
get_platform = <function get_platform at 0xf5050730>
np = <module 'numpy' from
'/usr/lib/python3/dist-packages/numpy/__init__.py'>
os = <module 'os' from '/usr/lib/python3.10/os.py'>
re = <module 're' from '/usr/lib/python3.10/re.py'>
sys = <module 'sys' (built-in)>
/usr/lib/python3/dist-packages/scipy/_build_utils/system_info.py:4: in
<module>
import numpy.distutils.system_info
__builtins__ = <builtins>
__cached__ =
'/usr/lib/python3/dist-packages/scipy/_build_utils/__pycache__/system_info.cpython-310.pyc'
__doc__ = None
__file__ =
'/usr/lib/python3/dist-packages/scipy/_build_utils/system_info.py'
__loader__ = <_frozen_importlib_external.SourceFileLoader
object at 0xf5056d78>
__name__ = 'scipy._build_utils.system_info'
__package__ = 'scipy._build_utils'
__spec__ = ModuleSpec(name='scipy._build_utils.system_info',
loader=<_frozen_importlib_external.SourceFileLoader object at
0xf5056d78>,
origin='/usr/lib/python3/dist-packages/scipy/_build_utils/system_info.py')
__warningregistry__ = {'version': 38}
np = <module 'numpy' from
'/usr/lib/python3/dist-packages/numpy/__init__.py'>
warnings = <module 'warnings' from
'/usr/lib/python3.10/warnings.py'>
/usr/lib/python3/dist-packages/numpy/distutils/__init__.py:31: in <module>
warnings.warn("\n\n"
E DeprecationWarning: E E `numpy.distutils` is deprecated since
NumPy 1.23.0, as a result
E of the deprecation of `distutils` itself. It will be removed for
E Python >= 3.12. For older Python versions it will remain present.
E It is recommended to use `setuptools < 60.0` for those Python
versions.
E For more details, see:
E https://numpy.org/devdocs/reference/distutils_status_migration.html
FormatError = <class 'numpy.distutils.npy_pkg_config.FormatError'>
LibraryInfo = <class 'numpy.distutils.npy_pkg_config.LibraryInfo'>
PkgNotFound = <class 'numpy.distutils.npy_pkg_config.PkgNotFound'>
VariableSet = <class 'numpy.distutils.npy_pkg_config.VariableSet'>
__builtins__ = <builtins>
__cached__ =
'/usr/lib/python3/dist-packages/numpy/distutils/__pycache__/__init__.cpython-310.pyc'
__doc__ = '\nAn enhanced distutils, providing support for
Fortran compilers, for BLAS,\nLAPACK and other common libraries for
nu...de paths and similar build options, please
see\n``site.cfg.example`` in the root of the NumPy repository or sdist.\n\n'
__file__ =
'/usr/lib/python3/dist-packages/numpy/distutils/__init__.py'
__loader__ = <_frozen_importlib_external.SourceFileLoader
object at 0xf5056ec8>
__name__ = 'numpy.distutils'
__package__ = 'numpy.distutils'
__path__ = ['/usr/lib/python3/dist-packages/numpy/distutils']
__spec__ = ModuleSpec(name='numpy.distutils',
loader=<_frozen_importlib_external.SourceFileLoader object at
0xf5056ec8>, origin='...t-packages/numpy/distutils/__init__.py',
submodule_search_locations=['/usr/lib/python3/dist-packages/numpy/distutils'])
ccompiler = <module 'numpy.distutils.ccompiler' from
'/usr/lib/python3/dist-packages/numpy/distutils/ccompiler.py'>
exec_command = <module 'numpy.distutils.exec_command' from
'/usr/lib/python3/dist-packages/numpy/distutils/exec_command.py'>
log = <module 'numpy.distutils.log' from
'/usr/lib/python3/dist-packages/numpy/distutils/log.py'>
misc_util = <module 'numpy.distutils.misc_util' from
'/usr/lib/python3/dist-packages/numpy/distutils/misc_util.py'>
npy_pkg_config = <module 'numpy.distutils.npy_pkg_config' from
'/usr/lib/python3/dist-packages/numpy/distutils/npy_pkg_config.py'>
parse_flags = <function parse_flags at 0xf4f21bb0>
read_config = <function read_config at 0xf4f468e0>
unixccompiler = <module 'numpy.distutils.unixccompiler' from
'/usr/lib/python3/dist-packages/numpy/distutils/unixccompiler.py'>
warnings = <module 'warnings' from
'/usr/lib/python3.10/warnings.py'>
=========================== short test summary info
============================
ERROR ../../_build_utils/tests/test_scipy_version.py -
DeprecationWarning: !!!!!!!!!!!!!!!!!!!! Interrupted: 1 error during
collection !!!!!!!!!!!!!!!!!!!!
================ 1 skipped, 12514 deselected, 1 error in 18.91s
================
autopkgtest [08:17:44]: test python3
OpenPGP_signature
Description: OpenPGP digital signature
--- End Message ---
--- Begin Message ---
Source: scipy
Source-Version: 1.8.1-15
Done: Jochen Sprickerhof <[email protected]>
We believe that the bug you reported is fixed in the latest version of
scipy, 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.
Jochen Sprickerhof <[email protected]> (supplier of updated scipy 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: SHA512
Format: 1.8
Date: Tue, 20 Dec 2022 19:47:35 +0100
Source: scipy
Architecture: source
Version: 1.8.1-15
Distribution: unstable
Urgency: medium
Maintainer: Debian Python Team <[email protected]>
Changed-By: Jochen Sprickerhof <[email protected]>
Closes: 1025699 1026210 1026342 1026516
Changes:
scipy (1.8.1-15) unstable; urgency=medium
.
* Team upload.
* Fix FTBFS with new numpy (deprecated numpy.distutils)
(Closes: #1026210, #1026342, #1026516)
* Add workaround for FTBFS with new sphinx
* Ignore test failure on armel (Closes: #1025699)
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