[Mne_analysis] conda upgrade error

Megan Schendel mschendel at mrn.org
Thu Sep 3 17:21:47 EDT 2020
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        External Email - Use Caution        

Hi all,
Ok, I've asked the dipy people about that error, but I could still use help
with the update.
Should install instructions work for update, too? Should I just use pip to
update mne instead of trying to use the new environment file?

I took the dipy line out of the environment file.  Here is the error I'm
getting from PyQt5....
Any ideas/suggestions?
Thank you,
Megan

Collecting PyQt5>=5.10
  Using cached PyQt5-5.15.0.tar.gz (3.3 MB)
  Installing build dependencies: started
  Installing build dependencies: finished with status 'done'
  Getting requirements to build wheel: started
  Getting requirements to build wheel: finished with status 'done'
    Preparing wheel metadata: started
    Preparing wheel metadata: finished with status 'error'
    ERROR: Command errored out with exit status 1:
     command:
/export/research/analysis/human/jstephen/shared/programs/python/anaconda3/envs/mne20conda4/bin/python
/export/research/analysis/human/jstephen/shared/programs/python/anaconda3/envs/mne20conda4/lib/python3.8/site-packages/pip/_vendor/pep517/_in_process.py
prepare_metadata_for_build_wheel /tmp/tmperieq8r7
         cwd: /tmp/pip-install-ci617d3e/pyqt5
    Complete output (35 lines):
    Querying qmake about your Qt installation...

/export/research/analysis/human/jstephen/shared/programs/python/anaconda3/bin/qmake
-query
    Traceback (most recent call last):
      File
"/export/research/analysis/human/jstephen/shared/programs/python/anaconda3/envs/mne20conda4/lib/python3.8/site-packages/pip/_vendor/pep517/_in_process.py",
line 126, in prepare_metadata_for_build_wheel
        hook = backend.prepare_metadata_for_build_wheel
    AttributeError: module 'sipbuild.api' has no attribute
'prepare_metadata_for_build_wheel'

    During handling of the above exception, another exception occurred:

    Traceback (most recent call last):
      File
"/export/research/analysis/human/jstephen/shared/programs/python/anaconda3/envs/mne20conda4/lib/python3.8/site-packages/pip/_vendor/pep517/_in_process.py",
line 280, in <module>
        main()
      File
"/export/research/analysis/human/jstephen/shared/programs/python/anaconda3/envs/mne20conda4/lib/python3.8/site-packages/pip/_vendor/pep517/_in_process.py",
line 263, in main
        json_out['return_val'] = hook(**hook_input['kwargs'])
      File
"/export/research/analysis/human/jstephen/shared/programs/python/anaconda3/envs/mne20conda4/lib/python3.8/site-packages/pip/_vendor/pep517/_in_process.py",
line 130, in prepare_metadata_for_build_wheel
        return _get_wheel_metadata_from_wheel(backend, metadata_directory,
      File
"/export/research/analysis/human/jstephen/shared/programs/python/anaconda3/envs/mne20conda4/lib/python3.8/site-packages/pip/_vendor/pep517/_in_process.py",
line 159, in _get_wheel_metadata_from_wheel
        whl_basename = backend.build_wheel(metadata_directory,
config_settings)
      File
"/tmp/pip-build-env-uvtea85d/overlay/lib/python3.8/site-packages/sipbuild/api.py",
line 51, in build_wheel
        project = AbstractProject.bootstrap('pep517')
      File
"/tmp/pip-build-env-uvtea85d/overlay/lib/python3.8/site-packages/sipbuild/abstract_project.py",
line 82, in bootstrap
        project.setup(pyproject, tool, tool_description)
      File
"/tmp/pip-build-env-uvtea85d/overlay/lib/python3.8/site-packages/sipbuild/project.py",
line 479, in setup
        self.apply_user_defaults(tool)
      File "project.py", line 62, in apply_user_defaults
        super().apply_user_defaults(tool)
      File
"/tmp/pip-build-env-uvtea85d/overlay/lib/python3.8/site-packages/pyqtbuild/project.py",
line 89, in apply_user_defaults
        super().apply_user_defaults(tool)
      File
"/tmp/pip-build-env-uvtea85d/overlay/lib/python3.8/site-packages/sipbuild/project.py",
line 225, in apply_user_defaults
        self.builder.apply_user_defaults(tool)
      File
"/tmp/pip-build-env-uvtea85d/overlay/lib/python3.8/site-packages/pyqtbuild/builder.py",
line 77, in apply_user_defaults
        self._get_qt_configuration()
      File
"/tmp/pip-build-env-uvtea85d/overlay/lib/python3.8/site-packages/pyqtbuild/builder.py",
line 450, in _get_qt_configuration
        raise UserException(
    sipbuild.exceptions.UserException
    ----------------------------------------
ERROR: Command errored out with exit status 1:
/export/research/analysis/human/jstephen/shared/programs/python/anaconda3/envs/mne20conda4/bin/python
/export/research/analysis/human/jstephen/shared/programs/python/anaconda3/envs/mne20conda4/lib/python3.8/site-packages/pip/_vendor/pep517/_in_process.py
prepare_metadata_for_build_wheel /tmp/tmperieq8r7 Check the logs for full
command output.
Using Anaconda Cloud api site https://api.anaconda.org

CondaValueError: pip returned an error.
MEG Technician
The Mind Research Network
1101 Yale Blvd. NE
Albuquerque, New Mexico 87106



On Thu, Sep 3, 2020 at 1:18 AM Alexandre Gramfort <
alexandre.gramfort at inria.fr> wrote:

>         External Email - Use Caution
>
> hi Megan,
>
> you should ask this question to the dipy developpers. We are just users
> here.
>
> Alex
>
> On Thu, Sep 3, 2020 at 1:54 AM Megan Schendel <mschendel at mrn.org> wrote:
> >
> >         External Email - Use Caution
> >
> > HI all,
> > I'm wondering if this is an error because I already have things
> installed.  The dipy page says to uninstall dipy before installing using
> pip.
> > Are there separate instructions for upgrades?  I realized I'm trying to
> follow install instructions.
> >
> > >>> import dipy
> > >>> dipy.__file__
> >
> '/export/research/analysis/human/jstephen/shared/programs/python/anaconda3/lib/python3.5/site-packages/dipy/__init__.py'
> >
> > I also tried to do the upgrade after removing the dipy line from the
> .yml  file, but I got errors relating to PyQt
> > Collecting PyQt5>=5.10
> >   Using cached PyQt5-5.15.0.tar.gz (3.3 MB)
> >   Installing build dependencies: started
> >   Installing build dependencies: finished with status 'done'
> >   Getting requirements to build wheel: started
> >   Getting requirements to build wheel: finished with status 'done'
> >     Preparing wheel metadata: started
> >     Preparing wheel metadata: finished with status 'error'
> >
> > I may have more details on the error tomorrow. I lost my connection to
> the remote server I'm working on.
> >
> > Thanks,
> > Megan
> > MEG Technician
> > The Mind Research Network
> > 1101 Yale Blvd. NE
> > Albuquerque, New Mexico 87106
> >
> >
> >
> > On Wed, Sep 2, 2020 at 4:58 PM Megan Schendel <mschendel at mrn.org> wrote:
> >>
> >> Hi all,
> >> I am attempting to follow upgrade instructions.  I was able to upgrade
> conda, and I succeeded in using curl to get the yml file.
> >> However, when I try the conda env update, I eventually get an error
> when the update gets to dipy. See below. Any suggestions?
> >>
> >> Thanks for your help,
> >> Megan
> >>
> >> conda env update --file environment.yml
> >> Using Anaconda Cloud api site https://api.anaconda.org
> >> Fetching package metadata ...........
> >> Solving package specifications: .
> >> ...
> >> ERROR: Invalid requirement: 'dipy --only-binary dipy'
> >>
> >> conda --version && python --version
> >> conda 4.3.30
> >> Python 3.8.5
> >>
> >> Here is the contents of my environment.yml file:
> >>
> >> name: mne
> >> channels:
> >> - defaults
> >> dependencies:
> >> - python>=3.8
> >> - pip
> >> - numpy
> >> - scipy
> >> - matplotlib
> >> - numba
> >> - pandas
> >> - xlrd
> >> - scikit-learn
> >> - h5py
> >> - pillow
> >> - statsmodels
> >> - jupyter
> >> - joblib
> >> - psutil
> >> - numexpr
> >> - traits
> >> - pyface
> >> - traitsui
> >> - imageio
> >> - tqdm
> >> - spyder-kernels
> >> - pip:
> >>   - mne
> >>   - imageio-ffmpeg>=0.4.1
> >>   - vtk>=9.0.1
> >>   - pyvista>=0.24
> >>   - pyvistaqt
> >>   - mayavi
> >>   - PySurfer[save_movie]
> >>   - dipy --only-binary dipy
> >>   - nibabel
> >>   - nilearn
> >>   - neo
> >>   - python-picard
> >>   - PyQt5>=5.10,<5.14; platform_system == "Darwin"
> >>   - PyQt5>=5.10; platform_system != "Darwin"
> >>
> >> MEG Technician
> >> The Mind Research Network
> >> 1101 Yale Blvd. NE
> >> Albuquerque, New Mexico 87106
> >>
> > _______________________________________________
> > Mne_analysis mailing list
> > Mne_analysis at nmr.mgh.harvard.edu
> > https://mail.nmr.mgh.harvard.edu/mailman/listinfo/mne_analysis
>
> _______________________________________________
> Mne_analysis mailing list
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