CI: Sporadic Failures of macOS Tests

[sanssecours]

Description

It looks like currently running the Prysk tests for icoanalyzer sometimes fail with an error message about an illegal instruction on macOS in the CI system:

…
Measurement Date: 2021-12-20T11:00:21.489537
Runtime: 29.996 seconds
/bin/sh: line 4:  1447 Illegal instruction: 4  icoanalyzer examples/log-x.hdf5
[132]

First I thought this might have something to do with the minimum supported macOS version of the FOM library, but icoanalyzer does not use this library at all. Some things I noticed:

• Rerunning the CI job often ”fixes” the problem
• The error always happens right at the end (or maybe even after) icolyzer was executed
• The error happens on the x64 versions of macOS

[sanssecours]

This problem now also occurs sporadically in the ICOc repository:

mytoolit/measurement/storage.py::mytoolit.measurement.storage.Storage.__init__ PASSED [ 87%]
Fatal Python error: Illegal instruction

Current thread 0x0000000103b38600 (most recent call first):
  File "/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-packages/tables/node.py", line 246 in __init__
  File "/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-packages/tables/leaf.py", line 264 in __init__
  File "/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-packages/tables/table.py", line 808 in __init__
  File "/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-packages/tables/file.py", line 1016 in create_table
mytoolit/measurement/storage.py::mytoolit.measurement.storage.Storage.add_acceleration 
  File "/Users/runner/work/ICOc/ICOc/mytoolit/measurement/storage.py", line 190 in init_acceleration
  File "/Users/runner/work/ICOc/ICOc/mytoolit/measurement/storage.py", line 235 in add_acceleration
  File "<doctest mytoolit.measurement.storage.Storage.add_acceleration[1]>", line 2 in <module>
  File "/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/doctest.py", line 1351 in __run
  File "/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/doctest.py", line 1498 in run
  File "/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/doctest.py", line 1859 in run
  File "/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-packages/_pytest/doctest.py", line 298 in runtest
  File "/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-packages/_pytest/runner.py", line 169 in pytest_runtest_call
  File "/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-packages/pluggy/_callers.py", line 77 in _multicall
  File "/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-packages/pluggy/_manager.py", line 115 in _hookexec
  File "/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-packages/pluggy/_hooks.py", line 493 in __call__
  File "/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-packages/_pytest/runner.py", line 262 in <lambda>
  File "/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-packages/_pytest/runner.py", line 341 in from_call
  File "/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-packages/_pytest/runner.py", line 261 in call_runtest_hook
  File "/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-packages/_pytest/runner.py", line 222 in call_and_report
  File "/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-packages/_pytest/runner.py", line 133 in runtestprotocol
  File "/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-packages/_pytest/runner.py", line 114 in pytest_runtest_protocol
  File "/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-packages/pluggy/_callers.py", line 77 in _multicall
  File "/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-packages/pluggy/_manager.py", line 115 in _hookexec
  File "/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-packages/pluggy/_hooks.py", line 493 in __call__
  File "/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-packages/_pytest/main.py", line 350 in pytest_runtestloop
  File "/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-packages/pluggy/_callers.py", line 77 in _multicall
  File "/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-packages/pluggy/_manager.py", line 115 in _hookexec
  File "/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-packages/pluggy/_hooks.py", line 493 in __call__
  File "/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-packages/_pytest/main.py", line 325 in _main
  File "/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-packages/_pytest/main.py", line 271 in wrap_session
  File "/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-packages/_pytest/main.py", line 318 in pytest_cmdline_main
  File "/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-packages/pluggy/_callers.py", line 77 in _multicall
  File "/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-packages/pluggy/_manager.py", line 115 in _hookexec
  File "/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-packages/pluggy/_hooks.py", line 493 in __call__
  File "/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-packages/_pytest/config/__init__.py", line 169 in main
  File "/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-packages/_pytest/config/__init__.py", line 192 in console_main
  File "/Users/runner/hostedtoolcache/Python/3.11.6/x64/bin/pytest", line 8 in <module>

Extension modules: uptime._posix, numpy.core._multiarray_umath, numpy.core._multiarray_tests, 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, tables._comp_lzo, tables._comp_bzip2, tables.utilsextension, numexpr.interpreter, tables.hdf5extension, tables.linkextension, tables.lrucacheextension, tables.tableextension, tables.indexesextension, matplotlib._c_internal_utils, PIL._imaging, matplotlib._path, kiwisolver._cext, matplotlib._image (total: 28)
make: *** [pytest-test-no-hardware] Illegal instruction: 4

I assume that the problem might have something to do with the latest version of PyTables (3.9.2).

[sanssecours]

Looks like this problem is indeed a “bug” in the macOS version of PyTables 3.9.2.