1917401 – python-pyriemann: FTBFS in Fedora rawhide

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Bug 1917401 - python-pyriemann: FTBFS in Fedora rawhide

Summary: python-pyriemann: FTBFS in Fedora rawhide

Keywords:
Status:	CLOSED ERRATA
Alias:	None
Product:	Fedora
Classification:	Fedora
Component:	python-pyriemann
Sub Component:
Version:	rawhide
Hardware:	Unspecified
OS:	Unspecified
Priority:	unspecified
Severity:	unspecified
Target Milestone:	---
Assignee:	Ankur Sinha (FranciscoD)
QA Contact:	Fedora Extras Quality Assurance
Docs Contact:
URL:	https://koschei.fedoraproject.org/pac...
Whiteboard:
Depends On:
Blocks:	F34FTBFS PYTHON3.10
TreeView+	depends on / blocked

Reported:	2021-01-18 12:45 UTC by Tomáš Hrnčiar
Modified:	2021-05-29 01:05 UTC (History)
CC List:	3 users (show)
Fixed In Version:	python-pyriemann-0.2.6-7.20210520gitcdb6160.fc34
Doc Type:	If docs needed, set a value
Doc Text:
Clone Of:
Environment:
Last Closed:	2021-05-29 01:05:27 UTC
Type:	Bug
Embargoed:
Dependent Products:

Attachments	(Terms of Use)

Description Tomáš Hrnčiar 2021-01-18 12:45:30 UTC

Description of problem:
Package python-pyriemann fails to build from source in Fedora rawhide.

Version-Release number of selected component (if applicable):
0.2.6-5.fc34

Steps to Reproduce:
koji build --scratch f34 python-pyriemann-0.2.6-5.fc34.src.rpm

Additional info:
This package is tracked by Koschei. See:
https://koschei.fedoraproject.org/package/python-pyriemann

======================================================================
ERROR: Failure: ImportError (cannot import name '_init_centroids' from 'sklearn.cluster._kmeans' (/usr/lib64/python3.9/site-packages/sklearn/cluster/_kmeans.py))
----------------------------------------------------------------------
Traceback (most recent call last):
  File "/usr/lib/python3.9/site-packages/nose/failure.py", line 39, in runTest
    raise self.exc_val.with_traceback(self.tb)
  File "/usr/lib/python3.9/site-packages/nose/loader.py", line 416, in loadTestsFromName
    module = self.importer.importFromPath(
  File "/usr/lib/python3.9/site-packages/nose/importer.py", line 47, in importFromPath
    return self.importFromDir(dir_path, fqname)
  File "/usr/lib/python3.9/site-packages/nose/importer.py", line 94, in importFromDir
    mod = load_module(part_fqname, fh, filename, desc)
  File "/usr/lib64/python3.9/imp.py", line 234, in load_module
    return load_source(name, filename, file)
  File "/usr/lib64/python3.9/imp.py", line 171, in load_source
    module = _load(spec)
  File "<frozen importlib._bootstrap>", line 711, in _load
  File "<frozen importlib._bootstrap>", line 680, in _load_unlocked
  File "<frozen importlib._bootstrap_external>", line 790, in exec_module
  File "<frozen importlib._bootstrap>", line 228, in _call_with_frames_removed
  File "/builddir/build/BUILD/pyRiemann-0.2.6/tests/test_ajd.py", line 4, in <module>
    from pyriemann.utils.ajd import rjd, ajd_pham, uwedge
  File "/builddir/build/BUILDROOT/python-pyriemann-0.2.6-5.fc34.noarch/usr/lib/python3.9/site-packages/pyriemann/__init__.py", line 6, in <module>
    from . import clustering
  File "/builddir/build/BUILDROOT/python-pyriemann-0.2.6-5.fc34.noarch/usr/lib/python3.9/site-packages/pyriemann/clustering.py", line 5, in <module>
    from sklearn.cluster._kmeans import _init_centroids
ImportError: cannot import name '_init_centroids' from 'sklearn.cluster._kmeans' (/usr/lib64/python3.9/site-packages/sklearn/cluster/_kmeans.py)
======================================================================
ERROR: Test prediction of MDM
----------------------------------------------------------------------
joblib.externals.loky.process_executor._RemoteTraceback: 
"""
Traceback (most recent call last):
  File "/usr/lib/python3.9/site-packages/joblib/externals/loky/backend/queues.py", line 153, in _feed
    obj_ = dumps(obj, reducers=reducers)
  File "/usr/lib/python3.9/site-packages/joblib/externals/loky/backend/reduction.py", line 271, in dumps
    dump(obj, buf, reducers=reducers, protocol=protocol)
  File "/usr/lib/python3.9/site-packages/joblib/externals/loky/backend/reduction.py", line 264, in dump
    _LokyPickler(file, reducers=reducers, protocol=protocol).dump(obj)
  File "/usr/lib/python3.9/site-packages/joblib/externals/cloudpickle/cloudpickle_fast.py", line 563, in dump
    return Pickler.dump(self, obj)
_pickle.PicklingError: Can't pickle <function mean_covariance at 0x3ff9f3dcaf0>: import of module 'pyriemann.utils.mean' failed
"""
The above exception was the direct cause of the following exception:
Traceback (most recent call last):
  File "/usr/lib/python3.9/site-packages/nose/case.py", line 197, in runTest
    self.test(*self.arg)
  File "/builddir/build/BUILD/pyRiemann-0.2.6/tests/test_classification.py", line 62, in test_MDM_predict
    mdm.fit(covset, labels)
  File "/builddir/build/BUILDROOT/python-pyriemann-0.2.6-5.fc34.noarch/usr/lib/python3.9/site-packages/pyriemann/classification.py", line 124, in fit
    self.covmeans_ = Parallel(n_jobs=self.n_jobs)(
  File "/usr/lib/python3.9/site-packages/joblib/parallel.py", line 1054, in __call__
    self.retrieve()
  File "/usr/lib/python3.9/site-packages/joblib/parallel.py", line 933, in retrieve
    self._output.extend(job.get(timeout=self.timeout))
  File "/usr/lib/python3.9/site-packages/joblib/_parallel_backends.py", line 542, in wrap_future_result
    return future.result(timeout=timeout)
  File "/usr/lib64/python3.9/concurrent/futures/_base.py", line 440, in result
    return self.__get_result()
  File "/usr/lib64/python3.9/concurrent/futures/_base.py", line 389, in __get_result
    raise self._exception
_pickle.PicklingError: Could not pickle the task to send it to the workers.
======================================================================
ERROR: Failure: ImportError (cannot import name '_init_centroids' from 'sklearn.cluster._kmeans' (/usr/lib64/python3.9/site-packages/sklearn/cluster/_kmeans.py))
----------------------------------------------------------------------
Traceback (most recent call last):
  File "/usr/lib/python3.9/site-packages/nose/failure.py", line 39, in runTest
    raise self.exc_val.with_traceback(self.tb)
  File "/usr/lib/python3.9/site-packages/nose/loader.py", line 416, in loadTestsFromName
    module = self.importer.importFromPath(
  File "/usr/lib/python3.9/site-packages/nose/importer.py", line 47, in importFromPath
    return self.importFromDir(dir_path, fqname)
  File "/usr/lib/python3.9/site-packages/nose/importer.py", line 94, in importFromDir
    mod = load_module(part_fqname, fh, filename, desc)
  File "/usr/lib64/python3.9/imp.py", line 234, in load_module
    return load_source(name, filename, file)
  File "/usr/lib64/python3.9/imp.py", line 171, in load_source
    module = _load(spec)
  File "<frozen importlib._bootstrap>", line 711, in _load
  File "<frozen importlib._bootstrap>", line 680, in _load_unlocked
  File "<frozen importlib._bootstrap_external>", line 790, in exec_module
  File "<frozen importlib._bootstrap>", line 228, in _call_with_frames_removed
  File "/builddir/build/BUILD/pyRiemann-0.2.6/tests/test_clustering.py", line 4, in <module>
    from pyriemann.clustering import Kmeans, KmeansPerClassTransform, Potato
  File "/builddir/build/BUILDROOT/python-pyriemann-0.2.6-5.fc34.noarch/usr/lib/python3.9/site-packages/pyriemann/__init__.py", line 6, in <module>
    from . import clustering
  File "/builddir/build/BUILDROOT/python-pyriemann-0.2.6-5.fc34.noarch/usr/lib/python3.9/site-packages/pyriemann/clustering.py", line 5, in <module>
    from sklearn.cluster._kmeans import _init_centroids
ImportError: cannot import name '_init_centroids' from 'sklearn.cluster._kmeans' (/usr/lib64/python3.9/site-packages/sklearn/cluster/_kmeans.py)
======================================================================
ERROR: Failure: ImportError (cannot import name '_init_centroids' from 'sklearn.cluster._kmeans' (/usr/lib64/python3.9/site-packages/sklearn/cluster/_kmeans.py))
----------------------------------------------------------------------
Traceback (most recent call last):
  File "/usr/lib/python3.9/site-packages/nose/failure.py", line 39, in runTest
    raise self.exc_val.with_traceback(self.tb)
  File "/usr/lib/python3.9/site-packages/nose/loader.py", line 416, in loadTestsFromName
    module = self.importer.importFromPath(
  File "/usr/lib/python3.9/site-packages/nose/importer.py", line 47, in importFromPath
    return self.importFromDir(dir_path, fqname)
  File "/usr/lib/python3.9/site-packages/nose/importer.py", line 94, in importFromDir
    mod = load_module(part_fqname, fh, filename, desc)
  File "/usr/lib64/python3.9/imp.py", line 234, in load_module
    return load_source(name, filename, file)
  File "/usr/lib64/python3.9/imp.py", line 171, in load_source
    module = _load(spec)
  File "<frozen importlib._bootstrap>", line 711, in _load
  File "<frozen importlib._bootstrap>", line 680, in _load_unlocked
  File "<frozen importlib._bootstrap_external>", line 790, in exec_module
  File "<frozen importlib._bootstrap>", line 228, in _call_with_frames_removed
  File "/builddir/build/BUILD/pyRiemann-0.2.6/tests/test_embedding.py", line 3, in <module>
    from pyriemann.embedding import Embedding
  File "/builddir/build/BUILDROOT/python-pyriemann-0.2.6-5.fc34.noarch/usr/lib/python3.9/site-packages/pyriemann/__init__.py", line 6, in <module>
    from . import clustering
  File "/builddir/build/BUILDROOT/python-pyriemann-0.2.6-5.fc34.noarch/usr/lib/python3.9/site-packages/pyriemann/clustering.py", line 5, in <module>
    from sklearn.cluster._kmeans import _init_centroids
ImportError: cannot import name '_init_centroids' from 'sklearn.cluster._kmeans' (/usr/lib64/python3.9/site-packages/sklearn/cluster/_kmeans.py)
======================================================================
ERROR: Failure: ImportError (cannot import name '_init_centroids' from 'sklearn.cluster._kmeans' (/usr/lib64/python3.9/site-packages/sklearn/cluster/_kmeans.py))
----------------------------------------------------------------------
Traceback (most recent call last):
  File "/usr/lib/python3.9/site-packages/nose/failure.py", line 39, in runTest
    raise self.exc_val.with_traceback(self.tb)
  File "/usr/lib/python3.9/site-packages/nose/loader.py", line 416, in loadTestsFromName
    module = self.importer.importFromPath(
  File "/usr/lib/python3.9/site-packages/nose/importer.py", line 47, in importFromPath
    return self.importFromDir(dir_path, fqname)
  File "/usr/lib/python3.9/site-packages/nose/importer.py", line 94, in importFromDir
    mod = load_module(part_fqname, fh, filename, desc)
  File "/usr/lib64/python3.9/imp.py", line 234, in load_module
    return load_source(name, filename, file)
  File "/usr/lib64/python3.9/imp.py", line 171, in load_source
    module = _load(spec)
  File "<frozen importlib._bootstrap>", line 711, in _load
  File "<frozen importlib._bootstrap>", line 680, in _load_unlocked
  File "<frozen importlib._bootstrap_external>", line 790, in exec_module
  File "<frozen importlib._bootstrap>", line 228, in _call_with_frames_removed
  File "/builddir/build/BUILD/pyRiemann-0.2.6/tests/test_stats.py", line 2, in <module>
    from pyriemann.stats import PermutationDistance, PermutationModel
  File "/builddir/build/BUILDROOT/python-pyriemann-0.2.6-5.fc34.noarch/usr/lib/python3.9/site-packages/pyriemann/__init__.py", line 6, in <module>
    from . import clustering
  File "/builddir/build/BUILDROOT/python-pyriemann-0.2.6-5.fc34.noarch/usr/lib/python3.9/site-packages/pyriemann/clustering.py", line 5, in <module>
    from sklearn.cluster._kmeans import _init_centroids
ImportError: cannot import name '_init_centroids' from 'sklearn.cluster._kmeans' (/usr/lib64/python3.9/site-packages/sklearn/cluster/_kmeans.py)
======================================================================
ERROR: Failure: ImportError (cannot import name '_init_centroids' from 'sklearn.cluster._kmeans' (/usr/lib64/python3.9/site-packages/sklearn/cluster/_kmeans.py))
----------------------------------------------------------------------
Traceback (most recent call last):
  File "/usr/lib/python3.9/site-packages/nose/failure.py", line 39, in runTest
    raise self.exc_val.with_traceback(self.tb)
  File "/usr/lib/python3.9/site-packages/nose/loader.py", line 416, in loadTestsFromName
    module = self.importer.importFromPath(
  File "/usr/lib/python3.9/site-packages/nose/importer.py", line 47, in importFromPath
    return self.importFromDir(dir_path, fqname)
  File "/usr/lib/python3.9/site-packages/nose/importer.py", line 94, in importFromDir
    mod = load_module(part_fqname, fh, filename, desc)
  File "/usr/lib64/python3.9/imp.py", line 234, in load_module
    return load_source(name, filename, file)
  File "/usr/lib64/python3.9/imp.py", line 171, in load_source
    module = _load(spec)
  File "<frozen importlib._bootstrap>", line 711, in _load
  File "<frozen importlib._bootstrap>", line 680, in _load_unlocked
  File "<frozen importlib._bootstrap_external>", line 790, in exec_module
  File "<frozen importlib._bootstrap>", line 228, in _call_with_frames_removed
  File "/builddir/build/BUILD/pyRiemann-0.2.6/tests/test_viz.py", line 2, in <module>
    from pyriemann.utils.viz import plot_confusion_matrix, plot_embedding
  File "/builddir/build/BUILDROOT/python-pyriemann-0.2.6-5.fc34.noarch/usr/lib/python3.9/site-packages/pyriemann/utils/viz.py", line 7, in <module>
    from pyriemann.embedding import Embedding
  File "/builddir/build/BUILDROOT/python-pyriemann-0.2.6-5.fc34.noarch/usr/lib/python3.9/site-packages/pyriemann/__init__.py", line 6, in <module>
    from . import clustering
  File "/builddir/build/BUILDROOT/python-pyriemann-0.2.6-5.fc34.noarch/usr/lib/python3.9/site-packages/pyriemann/clustering.py", line 5, in <module>
    from sklearn.cluster._kmeans import _init_centroids
ImportError: cannot import name '_init_centroids' from 'sklearn.cluster._kmeans' (/usr/lib64/python3.9/site-packages/sklearn/cluster/_kmeans.py)

Comment 1 Fedora Release Engineering 2021-01-24 04:23:03 UTC

Dear Maintainer,

your package has an open Fails To Build From Source bug for Fedora 34.
Action is required from you.

If you can fix your package to build, perform a build in koji, and either create
an update in bodhi, or close this bug without creating an update, if updating is
not appropriate [1]. If you are working on a fix, set the status to ASSIGNED to
acknowledge this. If you have already fixed this issue, please close this Bugzilla report.

Following the policy for such packages [2], your package will be orphaned if
this bug remains in NEW state more than 8 weeks (not sooner than 2021-03-15).

A week before the mass branching of Fedora 35 according to the schedule [3],
any packages not successfully rebuilt at least on Fedora 33 will be
retired regardless of the status of this bug.

[1] https://docs.fedoraproject.org/en-US/fesco/Updates_Policy/
[2] https://docs.fedoraproject.org/en-US/fesco/Fails_to_build_from_source_Fails_to_install/
[3] https://fedorapeople.org/groups/schedule/f-35/f-35-key-tasks.html

Comment 2 Ben Cotton 2021-02-09 15:41:16 UTC

This bug appears to have been reported against 'rawhide' during the Fedora 34 development cycle.
Changing version to 34.

Comment 3 Fedora Release Engineering 2021-02-14 04:22:35 UTC

Dear Maintainer,

your package has an open Fails To Build From Source bug for Fedora 34.
Action is required from you.

If you can fix your package to build, perform a build in koji, and either create
an update in bodhi, or close this bug without creating an update, if updating is
not appropriate [1]. If you are working on a fix, set the status to ASSIGNED to
acknowledge this. If you have already fixed this issue, please close this Bugzilla report.

Following the policy for such packages [2], your package will be orphaned if
this bug remains in NEW state more than 8 weeks (not sooner than 2021-03-15).

A week before the mass branching of Fedora 35 according to the schedule [3],
any packages not successfully rebuilt at least on Fedora 33 will be
retired regardless of the status of this bug.

[1] https://docs.fedoraproject.org/en-US/fesco/Updates_Policy/
[2] https://docs.fedoraproject.org/en-US/fesco/Fails_to_build_from_source_Fails_to_install/
[3] https://fedorapeople.org/groups/schedule/f-35/f-35-key-tasks.html

Comment 4 Fedora Release Engineering 2021-02-14 04:22:35 UTC

Dear Maintainer,

your package has an open Fails To Build From Source bug for Fedora 34.
Action is required from you.

If you can fix your package to build, perform a build in koji, and either create
an update in bodhi, or close this bug without creating an update, if updating is
not appropriate [1]. If you are working on a fix, set the status to ASSIGNED to
acknowledge this. If you have already fixed this issue, please close this Bugzilla report.

Following the policy for such packages [2], your package will be orphaned if
this bug remains in NEW state more than 8 weeks (not sooner than 2021-03-15).

A week before the mass branching of Fedora 35 according to the schedule [3],
any packages not successfully rebuilt at least on Fedora 33 will be
retired regardless of the status of this bug.

[1] https://docs.fedoraproject.org/en-US/fesco/Updates_Policy/
[2] https://docs.fedoraproject.org/en-US/fesco/Fails_to_build_from_source_Fails_to_install/
[3] https://fedorapeople.org/groups/schedule/f-35/f-35-key-tasks.html

Comment 5 Fedora Release Engineering 2021-03-07 04:22:22 UTC

Dear Maintainer,

your package has an open Fails To Build From Source bug for Fedora 34.
Action is required from you.

If you can fix your package to build, perform a build in koji, and either create
an update in bodhi, or close this bug without creating an update, if updating is
not appropriate [1]. If you are working on a fix, set the status to ASSIGNED to
acknowledge this. If you have already fixed this issue, please close this Bugzilla report.

Following the policy for such packages [2], your package will be orphaned if
this bug remains in NEW state more than 8 weeks (not sooner than 2021-03-15).

A week before the mass branching of Fedora 35 according to the schedule [3],
any packages not successfully rebuilt at least on Fedora 33 will be
retired regardless of the status of this bug.

[1] https://docs.fedoraproject.org/en-US/fesco/Updates_Policy/
[2] https://docs.fedoraproject.org/en-US/fesco/Fails_to_build_from_source_Fails_to_install/
[3] https://fedorapeople.org/groups/schedule/f-35/f-35-key-tasks.html

Comment 6 Fedora Release Engineering 2021-03-28 04:22:11 UTC

Dear Maintainer,

your package has an open Fails To Build From Source bug for Fedora 34.
Action is required from you.

If you can fix your package to build, perform a build in koji, and either create
an update in bodhi, or close this bug without creating an update, if updating is
not appropriate [1]. If you are working on a fix, set the status to ASSIGNED to
acknowledge this. If you have already fixed this issue, please close this Bugzilla report.

Following the policy for such packages [2], your package will be orphaned if
this bug remains in NEW state more than 8 weeks (not sooner than 2021-03-15).

A week before the mass branching of Fedora 35 according to the schedule [3],
any packages not successfully rebuilt at least on Fedora 33 will be
retired regardless of the status of this bug.

[1] https://docs.fedoraproject.org/en-US/fesco/Updates_Policy/
[2] https://docs.fedoraproject.org/en-US/fesco/Fails_to_build_from_source_Fails_to_install/
[3] https://fedorapeople.org/groups/schedule/f-35/f-35-key-tasks.html

Comment 7 Fedora Release Engineering 2021-04-18 04:22:07 UTC

Dear Maintainer,

your package has an open Fails To Build From Source bug for Fedora 34.
Action is required from you.

If you can fix your package to build, perform a build in koji, and either create
an update in bodhi, or close this bug without creating an update, if updating is
not appropriate [1]. If you are working on a fix, set the status to ASSIGNED to
acknowledge this. If you have already fixed this issue, please close this Bugzilla report.

Following the policy for such packages [2], your package will be orphaned if
this bug remains in NEW state more than 8 weeks (not sooner than 2021-03-15).

A week before the mass branching of Fedora 35 according to the schedule [3],
any packages not successfully rebuilt at least on Fedora 33 will be
retired regardless of the status of this bug.

[1] https://docs.fedoraproject.org/en-US/fesco/Updates_Policy/
[2] https://docs.fedoraproject.org/en-US/fesco/Fails_to_build_from_source_Fails_to_install/
[3] https://fedorapeople.org/groups/schedule/f-35/f-35-key-tasks.html

Comment 8 Fedora Release Engineering 2021-05-09 04:22:07 UTC

Dear Maintainer,

your package has an open Fails To Build From Source bug for Fedora 34.
Action is required from you.

If you can fix your package to build, perform a build in koji, and either create
an update in bodhi, or close this bug without creating an update, if updating is
not appropriate [1]. If you are working on a fix, set the status to ASSIGNED to
acknowledge this. If you have already fixed this issue, please close this Bugzilla report.

Following the policy for such packages [2], your package will be orphaned if
this bug remains in NEW state more than 8 weeks (not sooner than 2021-03-15).

A week before the mass branching of Fedora 35 according to the schedule [3],
any packages not successfully rebuilt at least on Fedora 33 will be
retired regardless of the status of this bug.

[1] https://docs.fedoraproject.org/en-US/fesco/Updates_Policy/
[2] https://docs.fedoraproject.org/en-US/fesco/Fails_to_build_from_source_Fails_to_install/
[3] https://fedorapeople.org/groups/schedule/f-35/f-35-key-tasks.html

Comment 9 Fedora Admin user for bugzilla script actions 2021-05-19 12:12:42 UTC

This package has changed maintainer in Fedora. Reassigning to the new maintainer of this component.

Comment 10 Fedora Update System 2021-05-20 20:43:51 UTC

FEDORA-2021-42991b664a has been submitted as an update to Fedora 34. https://bodhi.fedoraproject.org/updates/FEDORA-2021-42991b664a

Comment 11 Fedora Update System 2021-05-21 03:41:55 UTC

FEDORA-2021-42991b664a has been pushed to the Fedora 34 testing repository.
Soon you'll be able to install the update with the following command:
`sudo dnf upgrade --enablerepo=updates-testing --advisory=FEDORA-2021-42991b664a`
You can provide feedback for this update here: https://bodhi.fedoraproject.org/updates/FEDORA-2021-42991b664a

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

Comment 12 Fedora Update System 2021-05-29 01:05:27 UTC

FEDORA-2021-42991b664a has been pushed to the Fedora 34 stable repository.
If problem still persists, please make note of it in this bug report.

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