3D figure closed immediately after plotting

Support & Discussions
1

Hi, I got a problem when running the mne tutorial codes and the figure closed immediately after plotting. I tried both pyvista and mayavi and got the same result.
It looks like a similar problem like this and this.
And I try ticking “Run with Python Console” box accroding to here, but it doesn’t work.
My environment is conda mne.
Please tell me how to solve this, thanks.

2

I believe @cbrnr is using PyCharm and might be able to help.

In the meantime, could you please share the output of

import mne
mne.sys_info()

Thanks

3

Thanks for your reply. There are my system info:

Platform:      Windows-10-10.0.19042-SP0
Python:        3.9.6 | packaged by conda-forge | (default, Jul 11 2021, 03:37:25) [MSC v.1916 64 bit (AMD64)]
Executable:    D:\Applications\Miniconda3\envs\mne\python.exe
CPU:           Intel64 Family 6 Model 140 Stepping 1, GenuineIntel: 8 cores
Memory:        15.8 GB
mne:           0.23.0
numpy:         1.21.1 {blas=NO_ATLAS_INFO, lapack=lapack}
scipy:         1.7.0
matplotlib:    3.4.2 {backend=module://backend_interagg}
sklearn:       0.24.2
numba:         0.53.1
nibabel:       3.2.1
nilearn:       0.8.0
dipy:          1.4.1
cupy:          Not found
pandas:        1.3.0
mayavi:        4.7.2
pyvista:       0.31.3 {pyvistaqt=0.5.0, OpenGL 4.5.0 - Build 27.20.100.9415 via Intel(R) Iris(R) Xe Graphics}
vtk:           9.0.1
PyQt5:         5.12.3
4

I just tried running a simpler tutorial (right-click the file tab and click ‘Run 20_event_arrays’), and without changing any setting the plot opens. Can you try if this tutorial works for you?

5

For some reason I cannot run 35_eeg_no_mri.py because:

RuntimeError: Could not load any valid 3D backend: pyvista, mayavi, notebook

I do have pyvista and PyQt5 installed though. @richard any idea?

6

You sure you’re using the correct environment to run this?

7

I’m using my own venv with those packages installed.

8

I didn’t download the tutorials data so I run the method mne.viz.plot_events on my own data and it works well. The events plot on the screen and doesn’t close immediately.

I had the same problem once, after I used the conda mne envs, this error disappeared.

9

OK, I was missing pyvistaqt – maybe this could be mentioned in the RuntimeError (since I did have pyvista installed)?

Regarding the initial question, all figures open but are closed when the script finishes. However, when I set “Run with Python console” in the run configuration, all figures remain open.

1 Like
10

No problem here whatsoever on macOS with the conda-forge-based environment and mne-python:main.

11

When I run viz.plot_events, I could get an expected result——the figure ploted on the window and won’t closed automatically untill the close button was clicked. But when running viz.plot_alignment, the figure just flash across. I wonder how to let the figure stay?
Setting “Run with Python console” seems don’t work for me…

12

What happens if you simply copy-and-paste your code into an interactive Python window?

13

Are you sure that you have set it in the correct Run Configuration? Here’s what it looks like for me:

Screen Shot 2021-07-23 at 11.04.04
Screen Shot 2021-07-23 at 11.04.041228×905 133 KB

2 Likes
14

oh, I checked and it works! :rofl: Thank you ~

1 Like
15

Would be good, care to open an issue?

1 Like
16

@richard Better error message for 3D plots when pyvistaqt is missing · Issue #9606 · mne-tools/mne-python · GitHub

1 Like