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Bug 1939951 - python-theano fails to build with Python 3.10: Fatal Python error: Segmentation fault
Summary: python-theano fails to build with Python 3.10: Fatal Python error: Segmentat...
Keywords:
Status: CLOSED NOTABUG
Alias: None
Product: Fedora
Classification: Fedora
Component: python-theano
Version: rawhide
Hardware: Unspecified
OS: Unspecified
unspecified
unspecified
Target Milestone: ---
Assignee: Jerry James
QA Contact: Fedora Extras Quality Assurance
URL:
Whiteboard:
Depends On: 1939885
Blocks: PYTHON3.10
TreeView+ depends on / blocked
 
Reported: 2021-03-17 10:49 UTC by Tomáš Hrnčiar
Modified: 2021-03-18 14:11 UTC (History)
5 users (show)

Fixed In Version:
Doc Type: If docs needed, set a value
Doc Text:
Clone Of:
Environment:
Last Closed: 2021-03-18 14:11:00 UTC
Type: Bug
Embargoed:


Attachments (Terms of Use)

Description Tomáš Hrnčiar 2021-03-17 10:49:30 UTC
python-theano fails to build with Python 3.10.0a6.

 DO NOT tests/sparse/test_basic.py .........s.............s..................ss. [ 17%]
............Fatal Python error: Segmentation fault

Current thread 0x00007efcbc27e740 (most recent call first):
  File "/builddir/build/BUILD/Theano-PyMC-rel-1.0.13/tests/sparse/test_basic.py", line 127 in random_lil
  File "/builddir/build/BUILD/Theano-PyMC-rel-1.0.13/tests/sparse/test_basic.py", line 1354 in test_dot_sparse_sparse
  File "/usr/lib/python3.10/site-packages/_pytest/python.py", line 183 in pytest_pyfunc_call
  File "/usr/lib/python3.10/site-packages/pluggy/callers.py", line 187 in _multicall
  File "/usr/lib/python3.10/site-packages/pluggy/manager.py", line 84 in <lambda>
  File "/usr/lib/python3.10/site-packages/pluggy/manager.py", line 93 in _hookexec
  File "/usr/lib/python3.10/site-packages/pluggy/hooks.py", line 286 in __call__
  File "/usr/lib/python3.10/site-packages/_pytest/python.py", line 1641 in runtest
  File "/usr/lib/python3.10/site-packages/_pytest/runner.py", line 162 in pytest_runtest_call
  File "/usr/lib/python3.10/site-packages/pluggy/callers.py", line 187 in _multicall
  File "/usr/lib/python3.10/site-packages/pluggy/manager.py", line 84 in <lambda>
  File "/usr/lib/python3.10/site-packages/pluggy/manager.py", line 93 in _hookexec
  File "/usr/lib/python3.10/site-packages/pluggy/hooks.py", line 286 in __call__
  File "/usr/lib/python3.10/site-packages/_pytest/runner.py", line 255 in <lambda>
  File "/usr/lib/python3.10/site-packages/_pytest/runner.py", line 311 in from_call
  File "/usr/lib/python3.10/site-packages/_pytest/runner.py", line 254 in call_runtest_hook
  File "/usr/lib/python3.10/site-packages/_pytest/runner.py", line 215 in call_and_report
  File "/usr/lib/python3.10/site-packages/_pytest/runner.py", line 126 in runtestprotocol
  File "/usr/lib/python3.10/site-packages/_pytest/runner.py", line 109 in pytest_runtest_protocol
  File "/usr/lib/python3.10/site-packages/pluggy/callers.py", line 187 in _multicall
  File "/usr/lib/python3.10/site-packages/pluggy/manager.py", line 84 in <lambda>
  File "/usr/lib/python3.10/site-packages/pluggy/manager.py", line 93 in _hookexec
  File "/usr/lib/python3.10/site-packages/pluggy/hooks.py", line 286 in __call__
  File "/usr/lib/python3.10/site-packages/_pytest/main.py", line 348 in pytest_runtestloop
  File "/usr/lib/python3.10/site-packages/pluggy/callers.py", line 187 in _multicall
  File "/usr/lib/python3.10/site-packages/pluggy/manager.py", line 84 in <lambda>
  File "/usr/lib/python3.10/site-packages/pluggy/manager.py", line 93 in _hookexec
  File "/usr/lib/python3.10/site-packages/pluggy/hooks.py", line 286 in __call__
  File "/usr/lib/python3.10/site-packages/_pytest/main.py", line 323 in _main
  File "/usr/lib/python3.10/site-packages/_pytest/main.py", line 269 in wrap_session
  File "/usr/lib/python3.10/site-packages/_pytest/main.py", line 316 in pytest_cmdline_main
  File "/usr/lib/python3.10/site-packages/pluggy/callers.py", line 187 in _multicall
  File "/usr/lib/python3.10/site-packages/pluggy/manager.py", line 84 in <lambda>
  File "/usr/lib/python3.10/site-packages/pluggy/manager.py", line 93 in _hookexec
  File "/usr/lib/python3.10/site-packages/pluggy/hooks.py", line 286 in __call__
  File "/usr/lib/python3.10/site-packages/_pytest/config/__init__.py", line 162 in main
  File "/usr/lib/python3.10/site-packages/_pytest/config/__init__.py", line 185 in console_main
  File "/usr/bin/pytest", line 33 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, lazylinker_ext.lazylinker_ext, scipy._lib._ccallback_c, scipy.special._ufuncs_cxx, scipy.special._ufuncs, scipy.special.specfun, scipy.linalg._fblas, scipy.linalg._flapack, 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, scipy.spatial.ckdtree, scipy._lib.messagestream, scipy.spatial.qhull, scipy.spatial._voronoi, scipy.spatial._distance_wrap, scipy.spatial._hausdorff, scipy.spatial.transform.rotation, scipy.ndimage._nd_image, _ni_label, scipy.ndimage._ni_label, scipy.optimize.minpack2, scipy.sparse.linalg.isolve._iterative, scipy.sparse.linalg.dsolve._superlu, scipy.sparse.linalg.eigen.arpack._arpack, scipy.optimize._group_columns, scipy.optimize._trlib._trlib, scipy.optimize._lbfgsb, scipy.optimize.moduleTNC, scipy.optimize._cobyla, scipy.optimize._slsqp, scipy.optimize._minpack, scipy.optimize._lsq.givens_elimination, scipy.optimize._zeros, scipy.optimize.__nnls, scipy.optimize._highs.cython.src._highs_wrapper, scipy.optimize._highs._highs_wrapper, scipy.optimize._highs.cython.src._highs_constants, scipy.optimize._highs._highs_constants, scipy.linalg._interpolative, scipy.optimize._bglu_dense, scipy.optimize._lsap_module, scipy.integrate._odepack, scipy.integrate._quadpack, scipy.integrate.vode, scipy.integrate._dop, scipy.integrate.lsoda, scipy.interpolate._fitpack, scipy.interpolate.dfitpack, scipy.interpolate._bspl, scipy.interpolate._ppoly, scipy.interpolate.interpnd, scipy.special.cython_special, scipy.stats._stats, scipy.stats.statlib, scipy.stats.mvn, scipy.signal.sigtools, scipy._lib._uarray._uarray, scipy.signal._max_len_seq_inner, scipy.signal._upfirdn_apply, scipy.signal.spline, scipy.signal._sosfilt, scipy.signal._spectral, scipy.signal._peak_finding_utils, pygpu.gpuarray, pygpu._elemwise, markupsafe._speedups, pygpu.blas, tmp0azsfwyv.m30586f65c469f1ab992342f7731fb75796c381649c411ab09a01493f6ab04d51, cutils_ext.cutils_ext, tmp7929tnsi.macf077186293f8476c41b47c31add37c91891631dc83bd64091704641881999d, tmp0_vcyw0o.mc617ef147f5bab39b7d0414573bade77789fa4e34cb6c59803b6d4631856c54a, 
...
tmp77fi4sv0.m733c8b997423cbfdbba92c3784669b4e205234d555b1bddd806ca51919a4abc3, tmp4fhl3xvd.m7d5cfa61063921631a7985701faba09d72562952726f1e9aeb63110a42bb0852 (total: 1061)
/var/tmp/rpm-tmp.Yr5cNn: line 37:  1933 Segmentation fault      (core dumped) pytest

For the build logs, see:
https://copr-be.cloud.fedoraproject.org/results/@python/python3.10/fedora-rawhide-x86_64/02072575-python-theano/

For all our attempts to build python-theano with Python 3.10, see:
https://copr.fedorainfracloud.org/coprs/g/python/python3.10/package/python-theano/

Testing and mass rebuild of packages is happening in copr. You can follow these instructions to test locally in mock if your package builds with Python 3.10:
https://copr.fedorainfracloud.org/coprs/g/python/python3.10/

Let us know here if you have any questions.

Python 3.10 will be included in Fedora 35. To make that update smoother, we're building Fedora packages with early pre-releases of Python 3.10.
A build failure prevents us from testing all dependent packages (transitive [Build]Requires), so if this package is required a lot, it's important for us to get it fixed soon.
We'd appreciate help from the people who know this package best, but if you don't want to work on this now, let us know so we can try to work around it on our side.

Comment 1 Miro Hrončok 2021-03-18 14:11:00 UTC
This was a bug in Python. Tracked in bz1939885 and patched in Copr. Sorry for the noise.


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