I'm having problems with the macos and mayavi visulaization in mne 0.23 (but probably earlier versions as well).
MAC hardware
macOS Catalina
Version 10.15.7
Model Name: MacBook Pro
Model Identifier: MacBookPro15,2
Processor Name: Quad-Core Intel Core i7
Processor Speed: 2.8 GHz
Intel Iris Plus Graphics 655:
Chipset Model: Intel Iris Plus Graphics 655
Type: GPU
I created a fresh environment for mne 0.23
Make env
conda env remove -n mne-stable
curl --remote-name https://raw.githubusercontent.com/mne-tools/mne-python/master/environment.yml
conda env create -n mne-stable --file environment.yml
conda activate mne-stable
mne sys_info
(mne-stable) bloyl@507b9dedf1fe ~ % mne sys_info
Platform: macOS-10.15.7-x86_64-i386-64bit
Python: 3.9.2 | packaged by conda-forge | (default, Feb 21 2021, 05:02:20) [Clang 11.0.1 ]
Executable: /Users/bloyl/anaconda3/envs/mne-stable/bin/python3.9
CPU: i386: 8 cores
Memory: 16.0 GB
mne: 0.23.0
numpy: 1.20.2 {blas=NO_ATLAS_INFO, lapack=lapack}
scipy: 1.6.3
matplotlib: 3.4.1 {backend=MacOSX}
sklearn: 0.24.1
numba: 0.53.1
nibabel: 3.2.1
nilearn: 0.7.1
dipy: 1.4.0
cupy: Not found
pandas: 1.2.4
mayavi: 4.7.2
pyvista: 0.29.1 {pyvistaqt=0.3.0, OpenGL 4.1 INTEL-14.7.8 via Intel(R) Iris(TM) Plus Graphics 655}
vtk: 9.0.1
PyQt5: 5.12.3
The pyvista backend seems to work, however the mayavi backend just shows grey background plots.
To reproduce:
(mne-stable) bloyl@507b9dedf1fe ~ % export MNE_3D_BACKEND=mayavi; ipython
Python 3.9.2 | packaged by conda-forge | (default, Feb 21 2021, 05:02:20)
Type 'copyright', 'credits' or 'license' for more information
IPython 7.22.0 -- An enhanced Interactive Python. Type '?' for help.
In [1]: import mne
...: from mne.viz import plot_alignment, set_3d_view
...:
...: print(__doc__)
...:
...: data_path = mne.datasets.sample.data_path()
...: subjects_dir = data_path + '/subjects'
...: trans = mne.read_trans(data_path + '/MEG/sample/sample_audvis_raw-trans.fif')
...: raw = mne.io.read_raw_fif(data_path + '/MEG/sample/sample_audvis_raw.fif')
...: # Plot electrode locations on scalp
...: fig = plot_alignment(raw.info, trans, subject='sample', dig=False,
...: eeg=['original', 'projected'], meg=[],
...: coord_frame='head', subjects_dir=subjects_dir)
...: # Set viewing angle
...: set_3d_view(figure=fig, azimuth=135, elevation=80)
Automatically created module for IPython interactive environment
Opening raw data file /Users/bloyl/mne_data/MNE-sample-data/MEG/sample/sample_audvis_raw.fif...
Read a total of 3 projection items:
PCA-v1 (1 x 102) idle
PCA-v2 (1 x 102) idle
PCA-v3 (1 x 102) idle
Range : 25800 ... 192599 = 42.956 ... 320.670 secs
Ready.
Using outer_skin.surf for head surface.
Using mayavi 3d backend.
qt.qpa.drawing: Layer-backing can not be explicitly controlled on 10.14 when built against the 10.14 SDK
In [2]:
it will generate a grey window ('TVTK Scene') with no mayavi control bar. I don't think the QT warning is the issue as it also displays with the pyvista backend.
Interestingly if I press cntl-d to quit ipython. the figure shows up while ipython asks Do you really want to exit ([y]/n)?
If I press no, the plot remains but the window is non-responsive.
I should note that mayavi plotting functions (https://docs.enthought.com/mayavi/mayavi/auto/mlab_helper_functions.html#mayavi.mlab.contour3d) seem to work fine.
The reason this is an issue is that mne coreg is still mayavi based and displays the same problem.
I'm having problems with the macos and mayavi visulaization in mne 0.23 (but probably earlier versions as well).
MAC hardware
I created a fresh environment for mne 0.23
Make env
mne sys_info
The pyvista backend seems to work, however the mayavi backend just shows grey background plots.
To reproduce:
it will generate a grey window ('TVTK Scene') with no mayavi control bar. I don't think the QT warning is the issue as it also displays with the pyvista backend.
Interestingly if I press
cntl-dto quit ipython. the figure shows up while ipython asksDo you really want to exit ([y]/n)?If I press no, the plot remains but the window is non-responsive.
I should note that mayavi plotting functions (https://docs.enthought.com/mayavi/mayavi/auto/mlab_helper_functions.html#mayavi.mlab.contour3d) seem to work fine.
The reason this is an issue is that
mne coregis still mayavi based and displays the same problem.