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Bug 2220333 - F39FailsToInstall: python3-mne
Summary: F39FailsToInstall: python3-mne
Keywords:
Status: CLOSED ERRATA
Alias: None
Product: Fedora
Classification: Fedora
Component: python-mne
Version: 39
Hardware: Unspecified
OS: Unspecified
unspecified
unspecified
Target Milestone: ---
Assignee: Ankur Sinha (FranciscoD)
QA Contact: Fedora Extras Quality Assurance
URL:
Whiteboard: AcceptedFreezeException
Depends On: 2220011 2220191 2220266 2220356 2220358 2220360 2220433
Blocks: F39FailsToInstall F40FailsToInstall PYTHON3.12 F39BetaFreezeException 2220334 2220423 2226245
TreeView+ depends on / blocked
 
Reported: 2023-07-05 19:15 UTC by Fedora Fails To Install
Modified: 2023-09-05 23:17 UTC (History)
7 users (show)

Fixed In Version: python-mne-1.5.0^2023094gitf44636f-1.fc40 python-mne-1.5.0^2023094gitf44636f-1.fc39
Doc Type: If docs needed, set a value
Doc Text:
Clone Of:
Environment:
Last Closed: 2023-09-05 23:17:23 UTC
Type: ---
Embargoed:

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System ID Private Priority Status Summary Last Updated
Github mne-tools mne-python issues 11827 0 None closed Test failures for MNE 1.4.2 in Fedora 2023-09-04 15:27:52 UTC
Github mne-tools mne-python issues 11931 0 None closed Test failure for 1.5.0 on Fedora: 2023-09-04 15:27:52 UTC

Description Fedora Fails To Install 2023-07-05 19:15:33 UTC 
Hello,

Please note that this comment was generated automatically by https://pagure.io/releng/blob/main/f/scripts/ftbfs-fti/follow-policy.py
If you feel that this output has mistakes, please open an issue at https://pagure.io/releng/

Your package (python-mne) Fails To Install in Fedora 39:

can't install python3-mne:
  - nothing provides python3.11dist(matplotlib) needed by python3-mne-1.3.1-1.fc39.x86_64
  - nothing provides python3.11dist(packaging) needed by python3-mne-1.3.1-1.fc39.x86_64
  - nothing provides python3.11dist(jinja2) needed by python3-mne-1.3.1-1.fc39.x86_64
  - nothing provides python3.11dist(tqdm) needed by python3-mne-1.3.1-1.fc39.x86_64
  - nothing provides python3.11dist(decorator) needed by python3-mne-1.3.1-1.fc39.x86_64
  - nothing provides python(abi) = 3.11 needed by python3-mne-1.3.1-1.fc39.x86_64
  - nothing provides python3.11dist(scipy) >= 1.1 needed by python3-mne-1.3.1-1.fc39.x86_64
  - nothing provides python3.11dist(numpy) >= 1.15.4 needed by python3-mne-1.3.1-1.fc39.x86_64
  - nothing provides python3.11dist(pooch) >= 1.5 needed by python3-mne-1.3.1-1.fc39.x86_64
  
If you know about this problem and are planning on fixing it, please acknowledge so by setting the bug status to ASSIGNED. If you don't have time to maintain this package, consider orphaning it, so maintainers of dependent packages realize the problem.


If you don't react accordingly to the policy for FTBFS/FTI bugs (https://docs.fedoraproject.org/en-US/fesco/Fails_to_build_from_source_Fails_to_install/), your package may be orphaned in 8+ weeks.


P.S. The data was generated solely from koji buildroot, so it might be newer than the latest compose or the content on mirrors. To reproduce, use the koji/local repo only, e.g. in mock:

    $ mock -r fedora-39-x86_64 --config-opts mirrored=False install python3-mne


P.P.S. If this bug has been reported in the middle of upgrading multiple dependent packages, please consider using side tags: https://docs.fedoraproject.org/en-US/fesco/Updates_Policy/#updating-inter-dependent-packages

Thanks!
Comment 1 Fedora Fails To Install 2023-07-13 11:54:56 UTC 
Hello,

Please note that this comment was generated automatically by https://pagure.io/releng/blob/main/f/scripts/ftbfs-fti/follow-policy.py
If you feel that this output has mistakes, please open an issue at https://pagure.io/releng/

This package fails to install and maintainers are advised to take one of the following actions:

 - Fix this bug and close this bugzilla once the update makes it to the repository.
   (The same script that posted this comment will eventually close this bugzilla
   when the fixed package reaches the repository, so you don't have to worry about it.)

or

 - Move this bug to ASSIGNED if you plan on fixing this, but simply haven't done so yet.

or

 - Orphan the package if you no longer plan to maintain it.


If you do not take one of these actions, the process at https://docs.fedoraproject.org/en-US/fesco/Fails_to_build_from_source_Fails_to_install/#_package_removal_for_long_standing_ftbfs_and_fti_bugs will continue.
This package may be orphaned in 7+ weeks.
This is the first reminder (step 3) from the policy.

Don't hesitate to ask for help on devel.org if you are unsure how to fix this bug.
Comment 2 Sandro 2023-07-22 16:10:58 UTC 
One of the tests is hanging as can be observed in Koji:

https://koji.fedoraproject.org/koji/buildinfo?buildID=2234752

That job has been running for several days without progress. The same happened in the F39 mass rebuild.

I ran into the same issue trying a build for version 1.4.1 (bug 2203048) and reported it upstream. The test that hangs is `mne/stats/tests/test_cluster_level.py::test_thresholds[NumPy]`. For the current version of MNE in rawhide I added `test_cluster_level.py` to the disabled test. Build continues that way. But it throws errors and warnings for other tests:

XFAIL mne/viz/backends/tests/test_renderer.py::test_backend_environment_setup[foo]
ERROR mne/time_frequency/tests/test_spectrum.py::test_spectrum_errors - pytest.PytestUnraisableExceptionWarning: Exception ignored in: <function tq...
ERROR mne/viz/backends/tests/test_renderer.py::test_3d_functions[pyvistaqt] - pytest.PytestUnraisableExceptionWarning: Exception ignored in: <function tq...
FAILED mne/decoding/tests/test_base.py::test_get_coef_inverse_transform[Scaler-kwargs0-True] - DeprecationWarning: datetime.utcfromtimestamp() is deprecated and scheduled...
FAILED mne/decoding/tests/test_base.py::test_get_coef_inverse_transform[Scaler-kwargs0-False] - DeprecationWarning: datetime.utcfromtimestamp() is deprecated and scheduled...
FAILED mne/decoding/tests/test_base.py::test_get_coef_inverse_transform[_Noop-kwargs1-True] - DeprecationWarning: datetime.utcfromtimestamp() is deprecated and scheduled...
FAILED mne/decoding/tests/test_base.py::test_get_coef_inverse_transform[_Noop-kwargs1-False] - DeprecationWarning: datetime.utcfromtimestamp() is deprecated and scheduled...
FAILED mne/decoding/tests/test_base.py::test_get_coef_multiclass_full[4-10-2] - DeprecationWarning: datetime.utcfromtimestamp() is deprecated and scheduled...
FAILED mne/decoding/tests/test_base.py::test_get_coef_multiclass_full[4-3-2] - DeprecationWarning: datetime.utcfromtimestamp() is deprecated and scheduled...
FAILED mne/decoding/tests/test_base.py::test_get_coef_multiclass_full[3-2-1] - DeprecationWarning: datetime.utcfromtimestamp() is deprecated and scheduled...
FAILED mne/decoding/tests/test_base.py::test_get_coef_multiclass_full[3-1-2] - DeprecationWarning: datetime.utcfromtimestamp() is deprecated and scheduled...
FAILED mne/decoding/tests/test_base.py::test_cross_val_multiscore - DeprecationWarning: datetime.utcfromtimestamp() is deprecated and scheduled...
FAILED mne/decoding/tests/test_receptive_field.py::test_rank_deficiency - DeprecationWarning: datetime.utcfromtimestamp() is deprecated and scheduled...
FAILED mne/decoding/tests/test_receptive_field.py::test_time_delaying_fast_calc[1] - DeprecationWarning: datetime.utcfromtimestamp() is deprecated and scheduled...
FAILED mne/decoding/tests/test_receptive_field.py::test_time_delaying_fast_calc[cuda] - DeprecationWarning: datetime.utcfromtimestamp() is deprecated and scheduled...
FAILED mne/decoding/tests/test_receptive_field.py::test_receptive_field_1d[1] - DeprecationWarning: datetime.utcfromtimestamp() is deprecated and scheduled...
FAILED mne/decoding/tests/test_receptive_field.py::test_receptive_field_1d[cuda] - DeprecationWarning: datetime.utcfromtimestamp() is deprecated and scheduled...
FAILED mne/decoding/tests/test_receptive_field.py::test_receptive_field_nd[1] - DeprecationWarning: datetime.utcfromtimestamp() is deprecated and scheduled...
FAILED mne/decoding/tests/test_receptive_field.py::test_receptive_field_nd[cuda] - DeprecationWarning: datetime.utcfromtimestamp() is deprecated and scheduled...
FAILED mne/decoding/tests/test_receptive_field.py::test_inverse_coef - DeprecationWarning: datetime.utcfromtimestamp() is deprecated and scheduled...
FAILED mne/decoding/tests/test_search_light.py::test_search_light - pytest.PytestUnraisableExceptionWarning: Exception ignored in: <function tq...
FAILED mne/decoding/tests/test_search_light.py::test_generalization_light - DeprecationWarning: datetime.utcfromtimestamp() is deprecated and scheduled...
FAILED mne/decoding/tests/test_search_light.py::test_cross_val_predict - DeprecationWarning: datetime.utcfromtimestamp() is deprecated and scheduled...
FAILED mne/decoding/tests/test_transformer.py::test_scaler[True-None] - pytest.PytestUnraisableExceptionWarning: Exception ignored in: <function tq...
FAILED mne/io/brainvision/tests/test_brainvision.py::test_brainvision_data - pytest.PytestUnraisableExceptionWarning: Exception ignored in: <function tq...
FAILED mne/stats/tests/test_permutations.py::test_permutation_t_test - DeprecationWarning: datetime.utcfromtimestamp() is deprecated and scheduled...
FAILED mne/tests/test_chpi.py::test_simulate_calculate_head_pos_chpi - DeprecationWarning: datetime.utcfromtimestamp() is deprecated and scheduled...
FAILED mne/tests/test_epochs.py::test_epochs_proj - pytest.PytestUnraisableExceptionWarning: Exception ignored in: <function tq...
FAILED mne/time_frequency/tests/test_csd.py::test_csd_fourier - DeprecationWarning: datetime.utcfromtimestamp() is deprecated and scheduled...
FAILED mne/time_frequency/tests/test_csd.py::test_csd_multitaper - DeprecationWarning: datetime.utcfromtimestamp() is deprecated and scheduled...
FAILED mne/time_frequency/tests/test_csd.py::test_csd_morlet - DeprecationWarning: datetime.utcfromtimestamp() is deprecated and scheduled...
FAILED mne/time_frequency/tests/test_csd.py::test_csd_tfr - DeprecationWarning: datetime.utcfromtimestamp() is deprecated and scheduled...
FAILED mne/time_frequency/tests/test_tfr.py::test_plot_joint - pytest.PytestUnraisableExceptionWarning: Exception ignored in: <function tq...
FAILED mne/utils/tests/test_progressbar.py::test_progressbar - DeprecationWarning: datetime.utcfromtimestamp() is deprecated and scheduled...
FAILED mne/utils/tests/test_progressbar.py::test_progressbar_parallel_basic - DeprecationWarning: datetime.utcfromtimestamp() is deprecated and scheduled...
FAILED mne/utils/tests/test_progressbar.py::test_progressbar_parallel_advanced - DeprecationWarning: datetime.utcfromtimestamp() is deprecated and scheduled...
FAILED mne/utils/tests/test_progressbar.py::test_progressbar_parallel_more - DeprecationWarning: datetime.utcfromtimestamp() is deprecated and scheduled...
FAILED mne/viz/tests/test_raw.py::test_plot_raw_traces[matplotlib] - matplotlib._api.deprecation.MatplotlibDeprecationWarning: Setting data with...
= 35 failed, 2225 passed, 931 skipped, 579 deselected, 1 xfailed, 5 warnings, 2 errors in 404.45s (0:06:44) =

Hopefully, upstream has some hints allowing us to fix this or work around it in the current release. Tests also appear to hang at the end of testing after the summary is printed. Not sure what's going on.
Comment 3 Fedora Release Engineering 2023-08-16 07:17:09 UTC 
This bug appears to have been reported against 'rawhide' during the Fedora Linux 39 development cycle.
Changing version to 39.
Comment 4 Fedora Update System 2023-09-04 20:21:02 UTC 
FEDORA-2023-b6be624904 has been submitted as an update to Fedora 40. https://bodhi.fedoraproject.org/updates/FEDORA-2023-b6be624904
Comment 5 Fedora Update System 2023-09-04 20:22:39 UTC 
FEDORA-2023-b6be624904 has been pushed to the Fedora 40 stable repository.
If problem still persists, please make note of it in this bug report.
Comment 6 Fedora Update System 2023-09-04 20:48:56 UTC 
FEDORA-2023-19724b8437 has been submitted as an update to Fedora 39. https://bodhi.fedoraproject.org/updates/FEDORA-2023-19724b8437
Comment 7 Fedora Update System 2023-09-05 02:01:34 UTC 
FEDORA-2023-19724b8437 has been pushed to the Fedora 39 testing repository.
Soon you'll be able to install the update with the following command:
`sudo dnf upgrade --enablerepo=updates-testing --refresh --advisory=FEDORA-2023-19724b8437`
You can provide feedback for this update here: https://bodhi.fedoraproject.org/updates/FEDORA-2023-19724b8437

See also https://fedoraproject.org/wiki/QA:Updates_Testing for more information on how to test updates.
Comment 8 Lukas Ruzicka 2023-09-05 11:11:48 UTC 
Installs just fine. Verified.
Comment 9 Adam Williamson 2023-09-05 18:55:35 UTC 
+3 in https://pagure.io/fedora-qa/blocker-review/issue/1270 , marking accepted FE.
Comment 10 Fedora Update System 2023-09-05 23:17:23 UTC 
FEDORA-2023-19724b8437 has been pushed to the Fedora 39 stable repository.
If problem still persists, please make note of it in this bug report.
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