Bug 2280596 - python-dipy fails to build with Python 3.13: TypeError: cannot remove variables from FrameLocalsProxy
Summary: python-dipy fails to build with Python 3.13: TypeError: cannot remove variabl...
Keywords:
Status: CLOSED ERRATA
Alias: None
Product: Fedora
Classification: Fedora
Component: python-dipy
Version: rawhide
Hardware: Unspecified
OS: Unspecified
unspecified
unspecified
Target Milestone: ---
Assignee: Ankur Sinha (FranciscoD)
QA Contact: Fedora Extras Quality Assurance
URL:
Whiteboard: AcceptedFreezeException
: 2291672 (view as bug list)
Depends On:
Blocks: F41FTBFS F41FailsToInstall F42FailsToInstall PYTHON3.13 F41BetaFreezeException 2291672 2291781
TreeView+ depends on / blocked
 
Reported: 2024-05-15 10:54 UTC by Karolina Surma
Modified: 2024-09-09 21:12 UTC (History)
6 users (show)

Fixed In Version: python-dipy-1.9.0-9.fc42 python-dipy-1.9.0-10.fc41
Clone Of:
Environment:
Last Closed: 2024-09-09 21:12:28 UTC
Type: Bug
Embargoed:


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System ID Private Priority Status Summary Last Updated
Github dipy dipy issues 3292 0 None open Python 3.13: `TypeError: cannot remove variables from FrameLocalsProxy` in tests 2024-07-15 14:28:04 UTC

Description Karolina Surma 2024-05-15 10:54:45 UTC
python-dipy fails to build with Python 3.13.0b1.

______________________________ test_missing_file _______________________________

    def test_missing_file():
        # The function is invoking a dummy workflow with a non-existent file.
        # So, an OSError will be raised.
    
        class TestMissingFile(Workflow):
    
            def run(self, filename, out_dir=''):
                """Dummy Workflow used to test if input file is absent.
    
                Parameters
                ----------
    
                filename : string
                    path of the first input file.
                out_dir: string, optional
                    folder path to save the results.
                """
                io = self.get_io_iterator()
    
        dummyflow = TestMissingFile()
        with TemporaryDirectory() as tempdir:
>           npt.assert_raises(OSError, dummyflow.run,
                              pjoin(tempdir, 'dummy_file.txt'))

../../../BUILDROOT/python-dipy-1.9.0-6.fc41.x86_64/usr/lib64/python3.13/site-packages/dipy/workflows/tests/test_workflow.py:71: 
_ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ 
/usr/lib64/python3.13/unittest/case.py:795: in assertRaises
    return context.handle('assertRaises', args, kwargs)
/usr/lib64/python3.13/unittest/case.py:238: in handle
    callable_obj(*args, **kwargs)
../../../BUILDROOT/python-dipy-1.9.0-6.fc41.x86_64/usr/lib64/python3.13/site-packages/dipy/workflows/tests/test_workflow.py:67: in run
    io = self.get_io_iterator()
../../../BUILDROOT/python-dipy-1.9.0-6.fc41.x86_64/usr/lib64/python3.13/site-packages/dipy/workflows/workflow.py:36: in get_io_iterator
    io_it = io_iterator_(frame, self.run,
_ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ 

    def io_iterator_(frame, fnc, output_strategy='absolute', mix_names=False):
        """Create an IOIterator using introspection.
    
        Parameters
        ----------
        frame : frameobject
            Contains the info about the current local variables values.
        fnc : function
            The function to inspect
        output_strategy : string
            Controls the behavior of the IOIterator for output paths.
        mix_names : bool
            Whether or not to append a mix of input names at the beginning.
    
        Returns
        -------
            Properly instantiated IOIterator object.
    
        """
        args, _, _, values = inspect.getargvalues(frame)
        args.remove('self')
>       del values['self']
E       TypeError: cannot remove variables from FrameLocalsProxy

../../../BUILDROOT/python-dipy-1.9.0-6.fc41.x86_64/usr/lib64/python3.13/site-packages/dipy/workflows/multi_io.py:177: TypeError

https://docs.python.org/3.13/whatsnew/3.13.html

For the build logs, see:
https://copr-be.cloud.fedoraproject.org/results/@python/python3.13/fedora-rawhide-x86_64/07443562-python-dipy/

For all our attempts to build python-dipy with Python 3.13, see:
https://copr.fedorainfracloud.org/coprs/g/python/python3.13/package/python-dipy/

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 3.13:
https://copr.fedorainfracloud.org/coprs/g/python/python3.13/

Let us know here if you have any questions.

Python 3.13 is planned to be included in Fedora 41.
To make that update smoother, we're building Fedora packages with all pre-releases of Python 3.13.
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 Karolina Surma 2024-06-12 15:00:58 UTC
*** Bug 2291672 has been marked as a duplicate of this bug. ***

Comment 2 Fedora Fails To Install 2024-06-19 19:59:43 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 https://lists.fedoraproject.org/archives/list/devel@lists.fedoraproject.org/ if you are unsure how to fix this bug.

Comment 3 Ankur Sinha (FranciscoD) 2024-07-15 14:28:05 UTC
Filed upstream to begin with: https://github.com/dipy/dipy/issues/3292

Comment 4 Karolina Surma 2024-09-04 14:46:55 UTC
This package has failed to build with Python 3.13 so far. Fedora 41 is already in the Beta Freeze phase. What's your plan going forward? Will the package be fixed in time for the Final Freeze of Fedora 41 (planned on Oct 15th 2024)?
If you don't plan or can't fix the package before Fedora 41 goes into the Final Freeze phase, please retire the package. You can unretire it anytime during the Fedora 41 lifecycle - doing this now will simply ensure that we don't release Fedora with a broken package. Thank you!

Comment 5 Fedora Update System 2024-09-04 19:04:50 UTC
FEDORA-2024-f80a2dc35b (python-dipy-1.9.0-9.fc42) has been submitted as an update to Fedora 42.
https://bodhi.fedoraproject.org/updates/FEDORA-2024-f80a2dc35b

Comment 6 Fedora Update System 2024-09-04 19:07:30 UTC
FEDORA-2024-f80a2dc35b (python-dipy-1.9.0-9.fc42) has been pushed to the Fedora 42 stable repository.
If problem still persists, please make note of it in this bug report.

Comment 7 Fedora Update System 2024-09-04 19:09:18 UTC
FEDORA-2024-8cb173e4e9 (python-dipy-1.9.0-9.fc41) has been submitted as an update to Fedora 41.
https://bodhi.fedoraproject.org/updates/FEDORA-2024-8cb173e4e9

Comment 8 Fedora Update System 2024-09-05 03:02:31 UTC
FEDORA-2024-8cb173e4e9 has been pushed to the Fedora 41 testing repository.
Soon you'll be able to install the update with the following command:
`sudo dnf upgrade --enablerepo=updates-testing --refresh --advisory=FEDORA-2024-8cb173e4e9`
You can provide feedback for this update here: https://bodhi.fedoraproject.org/updates/FEDORA-2024-8cb173e4e9

See also https://fedoraproject.org/wiki/QA:Updates_Testing for more information on how to test updates.

Comment 9 Fedora Update System 2024-09-06 03:59:35 UTC
FEDORA-2024-8cb173e4e9 has been pushed to the Fedora 41 testing repository.
Soon you'll be able to install the update with the following command:
`sudo dnf upgrade --enablerepo=updates-testing --refresh --advisory=FEDORA-2024-8cb173e4e9`
You can provide feedback for this update here: https://bodhi.fedoraproject.org/updates/FEDORA-2024-8cb173e4e9

See also https://fedoraproject.org/wiki/QA:Updates_Testing for more information on how to test updates.

Comment 10 František Zatloukal 2024-09-09 17:21:09 UTC
Discussed during the 2024-09-09 blocker review meeting: [1]

The decision to classify this bug as a AcceptedFreezeException (Beta) was made:

"This is accepted as a fails-to-install bug; we generally grant these FEs in order to avoid problems for folks who have them installed when upgrading before the post-freeze stable push."

[1] https://meetbot.fedoraproject.org/blocker-review_matrix_fedoraproject-org/2024-09-09/f41-blocker-review.2024-09-09-16.01.log.html

Comment 11 Fedora Update System 2024-09-09 21:12:28 UTC
FEDORA-2024-8cb173e4e9 (python-dipy-1.9.0-10.fc41, python-mne-1.6.1-8.fc41, and 2 more) has been pushed to the Fedora 41 stable repository.
If problem still persists, please make note of it in this bug report.


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