Bug#1025183: silx: (autopkgtest) needs update for python3.11: Segmentation fault

Paul Gevers elbrus at debian.org
Wed Nov 30 20:03:13 GMT 2022 

Source: silx
Version: 1.1.0+dfsg-3
Severity: serious
Tags: sid bookworm
User: debian-ci at lists.debian.org
Usertags: needs-update
User: debian-python at lists.debian.org
Usertags: python3.11
Control: affects -1 src:python3-defaults

Dear maintainer(s),

We are in the transition of adding python3.11 as a supported Python 
version [0]. With a recent upload of python3-defaults the autopkgtest of 
silx fails in testing when that autopkgtest is run with the binary 
packages of python3-defaults from unstable. It passes when run with only 
packages from testing. In tabular form:

                        pass            fail
python3-defaults       from testing    3.10.6-3
silx                   from testing    1.1.0+dfsg-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 python3-defaults 
to testing [1]. https://docs.python.org/3/whatsnew/3.11.html lists 
what's new in Python3.11, it may help to identify what needs to be updated.

More information about this bug and the reason for filing it can be found on
https://wiki.debian.org/ContinuousIntegration/RegressionEmailInformation

Paul

[0] https://bugs.debian.org/1021984
[1] https://qa.debian.org/excuses.php?package=python3-defaults

https://ci.debian.net/data/autopkgtest/testing/amd64/s/silx/28796438/log.gz

Testing with python3.11:
============================= test session starts 
==============================
platform linux -- Python 3.11.0+, pytest-7.1.2, pluggy-1.0.0+repack
rootdir: /tmp/autopkgtest-lxc.btdfxoen/downtmp/autopkgtest_tmp
plugins: xvfb-2.0.0
collected 1796 items

app/test/test_convert.py .... 
[  0%]
app/view/test/test_launcher.py ..... 
[  0%]
app/view/test/test_view.py FFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFF 
[  2%]
gui/data/test/test_arraywidget.py sFFFFFFFFFFFFFFF 
[  3%]
gui/data/test/test_dataviewer.py FFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFF 
[  5%]
FFF 
[  5%]
gui/data/test/test_numpyaxesselector.py FFFFFFFFF 
[  6%]
gui/data/test/test_textformatter.py FFFFFFFFFFFFFFFFFFFF 
[  7%]
gui/dialog/test/test_colormapdialog.py 
FEFEFEFEFEFEFEFEFEFEFEFEFEFEFEFEFE [  8%]
FEFE 
[  8%]
gui/dialog/test/test_datafiledialog.py FFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFF 
[ 10%]
FF 
[ 10%]
gui/dialog/test/test_imagefiledialog.py FFFFFFFFFFFFFatal Python error: 
Segmentation fault

Current thread 0x00007fb29d541040 (most recent call first):
   File "/usr/lib/python3/dist-packages/silx/gui/utils/testutils.py", 
line 334 in qWait
   File "/usr/lib/python3/dist-packages/silx/gui/utils/testutils.py", 
line 393 in qWaitForDestroy
   File 
"/usr/lib/python3/dist-packages/silx/gui/dialog/test/test_imagefiledialog.py", 
line 124 in _deleteDialog
   File 
"/usr/lib/python3/dist-packages/silx/gui/dialog/test/test_imagefiledialog.py", 
line 151 in tearDown
   File "/usr/lib/python3.11/unittest/case.py", line 584 in _callTearDown
   File "/usr/lib/python3.11/unittest/case.py", line 626 in run
   File "/usr/lib/python3.11/unittest/case.py", line 678 in __call__
   File "/usr/lib/python3/dist-packages/_pytest/unittest.py", line 327 
in runtest
   File "/usr/lib/python3/dist-packages/_pytest/runner.py", line 166 in 
pytest_runtest_call
   File "/usr/lib/python3/dist-packages/pluggy/_callers.py", line 39 in 
_multicall
   File "/usr/lib/python3/dist-packages/pluggy/_manager.py", line 80 in 
_hookexec
   File "/usr/lib/python3/dist-packages/pluggy/_hooks.py", line 265 in 
__call__
   File "/usr/lib/python3/dist-packages/_pytest/runner.py", line 259 in 
<lambda>
   File "/usr/lib/python3/dist-packages/_pytest/runner.py", line 338 in 
from_call
   File "/usr/lib/python3/dist-packages/_pytest/runner.py", line 258 in 
call_runtest_hook
   File "/usr/lib/python3/dist-packages/_pytest/runner.py", line 219 in 
call_and_report
   File "/usr/lib/python3/dist-packages/_pytest/runner.py", line 130 in 
runtestprotocol
   File "/usr/lib/python3/dist-packages/_pytest/runner.py", line 111 in 
pytest_runtest_protocol
   File "/usr/lib/python3/dist-packages/pluggy/_callers.py", line 39 in 
_multicall
   File "/usr/lib/python3/dist-packages/pluggy/_manager.py", line 80 in 
_hookexec
   File "/usr/lib/python3/dist-packages/pluggy/_hooks.py", line 265 in 
__call__
   File "/usr/lib/python3/dist-packages/_pytest/main.py", line 347 in 
pytest_runtestloop
   File "/usr/lib/python3/dist-packages/pluggy/_callers.py", line 39 in 
_multicall
   File "/usr/lib/python3/dist-packages/pluggy/_manager.py", line 80 in 
_hookexec
   File "/usr/lib/python3/dist-packages/pluggy/_hooks.py", line 265 in 
__call__
   File "/usr/lib/python3/dist-packages/_pytest/main.py", line 322 in _main
   File "/usr/lib/python3/dist-packages/_pytest/main.py", line 268 in 
wrap_session
   File "/usr/lib/python3/dist-packages/_pytest/main.py", line 315 in 
pytest_cmdline_main
   File "/usr/lib/python3/dist-packages/pluggy/_callers.py", line 39 in 
_multicall
   File "/usr/lib/python3/dist-packages/pluggy/_manager.py", line 80 in 
_hookexec
   File "/usr/lib/python3/dist-packages/pluggy/_hooks.py", line 265 in 
__call__
   File "/usr/lib/python3/dist-packages/_pytest/config/__init__.py", 
line 164 in main
   File "/usr/lib/python3/dist-packages/silx/test/__init__.py", line 44 
in run_tests
   File "<string>", line 1 in <module>

Extension modules: numpy.core._multiarray_umath, 
numpy.core._multiarray_tests, numpy.linalg.lapack_lite, 
numpy.linalg._umath_linalg, numpy.fft._pocketfft_internal, 
numpy.random._common, numpy.random.bit_generator, 
numpy.random._bounded_integers, numpy.random._mt19937, 
numpy.random.mtrand, numpy.random._philox, numpy.random._pcg64, 
numpy.random._sfc64, numpy.random._generator, 
h5py._debian_h5py_serial._errors, h5py._debian_h5py_serial.defs, 
h5py._debian_h5py_serial._objects, h5py._debian_h5py_serial.h5, 
h5py._debian_h5py_serial.h5r, h5py._debian_h5py_serial.utils, 
h5py._debian_h5py_serial.h5s, h5py._debian_h5py_serial.h5ac, 
h5py._debian_h5py_serial.h5p, h5py._debian_h5py_serial.h5t, 
h5py._debian_h5py_serial._conv, h5py._debian_h5py_serial.h5z, 
h5py._debian_h5py_serial._proxy, h5py._debian_h5py_serial.h5a, 
h5py._debian_h5py_serial.h5d, h5py._debian_h5py_serial.h5ds, 
h5py._debian_h5py_serial.h5g, h5py._debian_h5py_serial.h5i, 
h5py._debian_h5py_serial.h5f, h5py._debian_h5py_serial.h5fd, 
h5py._debian_h5py_serial.h5pl, h5py._debian_h5py_serial.h5o, 
h5py._debian_h5py_serial.h5l, h5py._debian_h5py_serial._selector, 
h5py.atexit, h5py._errors, h5py.defs, h5py._objects, h5py.h5, h5py.h5r, 
h5py.utils, h5py.h5s, h5py.h5ac, h5py.h5p, h5py.h5t, h5py._conv, 
h5py.h5z, h5py._proxy, h5py.h5a, h5py.h5d, h5py.h5ds, h5py.h5g, 
h5py.h5i, h5py.h5f, h5py.h5fd, h5py.h5pl, h5py.h5o, h5py.h5l, 
h5py._selector, silx.io.specfile, PIL._imaging, fabio.ext._cif, 
lxml._elementpath, lxml.etree, fabio.ext._agi_bitfield, fabio.ext.dense, 
PyQt5.QtCore, PyQt5.QtGui, PyQt5.QtWidgets, PyQt5.QtPrintSupport, 
PyQt5.QtOpenGL, PyQt5.QtSvg, silx.math.chistogramnd, 
silx.math.chistogramnd_lut, silx.math.medianfilter.medianfilter, 
silx.math.combo, silx.math._colormap, matplotlib._c_internal_utils, 
matplotlib._path, kiwisolver, matplotlib._image, silx.image.shapes, 
silx.image.bilinear, zmq.backend.cython.context, 
zmq.backend.cython.message, zmq.backend.cython.socket, 
zmq.backend.cython._device, zmq.backend.cython._poll, 
zmq.backend.cython._proxy_steerable, zmq.backend.cython._version, 
zmq.backend.cython.error, zmq.backend.cython.utils, tornado.speedups, 
PyQt5.QtTest, silx.image.marchingsquares._mergeimpl, 
silx.math.fit.functions, silx.math.fit.filters, silx.math.fit.peaks, 
scipy._lib._ccallback_c, scipy.ndimage._nd_image, 
scipy.special._ufuncs_cxx, scipy.special._ufuncs, 
scipy.special._specfun, scipy.linalg._fblas, scipy.linalg._flapack, 
scipy.linalg._cythonized_array_utils, scipy.linalg._flinalg, 
scipy.linalg._solve_toeplitz, scipy.linalg._matfuncs_sqrtm_triu, 
scipy.linalg.cython_blas, scipy.linalg.cython_lapack, 
scipy.linalg._decomp_update, scipy.sparse._sparsetools, 
scipy.sparse._csparsetools, scipy.sparse.csgraph._tools, 
scipy.sparse.csgraph._shortest_path, scipy.sparse.csgraph._traversal, 
scipy.sparse.csgraph._min_spanning_tree, scipy.sparse.csgraph._flow, 
scipy.sparse.csgraph._matching, scipy.sparse.csgraph._reordering, 
scipy.special._comb, scipy.special._ellip_harm_2, _ni_label, 
scipy.ndimage._ni_label, scipy.interpolate._fitpack, 
scipy.interpolate.dfitpack, scipy.interpolate._bspl, 
scipy.interpolate._ppoly, scipy.spatial._ckdtree, 
scipy._lib.messagestream, scipy.spatial._qhull, scipy.spatial._voronoi, 
scipy.spatial._distance_wrap, scipy.spatial._hausdorff, 
scipy.spatial.transform._rotation, scipy.interpolate.interpnd, 
scipy.interpolate._rbfinterp_pythran, silx.math.interpolate, 
silx.math.marchingcubes, markupsafe._speedups (total: 145)
Segmentation fault
autopkgtest [01:18:56]: test command1

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