brain.screenshot(time_viewer=True) crash #9336
Description
I was running the mne-bids-pipeline (so with mne-23dev cloned from GitHub in backend), but a bug appeared just after the creation of the reports of the first subject. After investigation, it turns out that the bug comes from MNE, from the option time_viewer=True in the screenshot method. By setting it to false, the image plots nicely.
I tried to make a reproducible example with sample data, but this does not reproduce the issue (Else). So I've also included here the (IF True) my stc file and my subjects file which isolate the code on my computer.
from pathlib import Path
import matplotlib
import matplotlib.pyplot as plt
import mne
from mne.datasets import sample
matplotlib.use('Qt5Agg')
if True:
stc_fname = Path("mne_data/ds003392/derivatives",
'mne-bids-pipeline/sub-01/meg/',
'sub-01_task-localizer_coherent+dSPM+hemi-lh.stc')
subjects_dir = Path("mne_data/ds003392/derivatives/freesurfer",
'subjects')
subject = 'sub-01'
stc = mne.read_source_estimate(stc_fname, subject=subject)
else:
data_path = sample.data_path()
fname = data_path + '/MEG/sample/sample_audvis-meg'
stc = mne.read_source_estimate(fname)
subject = "sample"
subjects_dir = Path("C:/Users/charb/mne_data/MNE-sample-data/subjects")
brain = stc.plot(subject=subject, subjects_dir=subjects_dir,
initial_time=0.13, views=['lat'], hemi='split')
brain.toggle_interface()
brain._renderer.plotter.reset_camera()
brain._renderer.plotter.subplot(0, 0)
brain._renderer.plotter.reset_camera()
figs, ax = plt.subplots(figsize=(15, 10))
# BUG : Set time_viewer to False to remove the Bug
image = brain.screenshot(time_viewer=True)
ax.imshow(image)
ax.axis('off')
plt.show()Expected results
An interactive plot.
Actual results
When I run the code, the figure appears one second and then crashes
(mne_dev) C:\Users\charb\Desktop\parietal>C:/Users/charb/anaconda3/envs/mne_dev/python.exe c:/Users/charb/Desktop/parietal/test.py
Using pyvista 3d backend.
Using control points [13.01218636 16.52222281 48.36637508]
Traceback (most recent call last):
File "c:\Users\charb\Desktop\parietal\test.py", line 51, in <module>
image = brain.screenshot(time_viewer=True)
File "C:\Users\charb\anaconda3\envs\mne_dev\lib\site-packages\mne\viz\_brain\_brain.py", line 2631, in screenshot
trace_img = np.reshape(
File "<__array_function__ internals>", line 5, in reshape
File "C:\Users\charb\anaconda3\envs\mne_dev\lib\site-packages\numpy\core\fromnumeric.py", line 299, in reshape
return _wrapfunc(a, 'reshape', newshape, order=order)
File "C:\Users\charb\anaconda3\envs\mne_dev\lib\site-packages\numpy\core\fromnumeric.py", line 58, in _wrapfunc
return bound(*args, **kwds)
ValueError: cannot reshape array of size 1082952 into shape (1015,4)
(mne_dev) C:\Users\charb\Desktop\parietal>
Additional information
I'm working on Windows.
(mne_dev) C:\Users\charb\Desktop\parietal\mne-bids-pipeline>python
Python 3.9.2 | packaged by conda-forge | (default, Feb 21 2021, 04:59:43) [MSC v.1916 64 bit (AMD64)] on win32
Type "help", "copyright", "credits" or "license" for more information.
>>> import mne; mne.sys_info()
Platform: Windows-10-10.0.19041-SP0
Python: 3.9.2 | packaged by conda-forge | (default, Feb 21 2021, 04:59:43) [MSC v.1916 64 bit (AMD64)]
Executable: C:\Users\charb\anaconda3\envs\mne_dev\python.exe
CPU: Intel64 Family 6 Model 158 Stepping 10, GenuineIntel: 8 cores
Memory: 7.9 GB
mne: 0.23.dev0
numpy: 1.20.2 {blas=NO_ATLAS_INFO, lapack=lapack}
scipy: 1.6.2
matplotlib: 3.4.1 {backend=Qt5Agg}
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 4.5.0 - Build 26.20.100.6911 via Intel(R) UHD Graphics 630}
vtk: 9.0.1
PyQt5: 5.12.3
>>>