a problem of figure

✉️ Mailing List Archive (read-only)
1

Dear list,

I tried to run the example "source localization with MNE/dSPM/sLORETA"
After running the following command.

"""
vertno_max, time_max = stc.get_peak(hemi='rh')

subjects_dir = data_path + '/subjects'
brain = stc.plot(surface='inflated', hemi='rh', subjects_dir=subjects_dir,
                 clim=dict(kind='value', lims=[8, 12, 15]),
                 initial_time=time_max, time_unit='s')
brain.add_foci(vertno_max, coords_as_verts=True, hemi='rh', color='blue',
               scale_factor=0.6)

brain.show_view('lateral')
"""

It showed following ouputs in the console:
"Updating smoothing matrix, be patient..
Smoothing matrix creation, step 1
Smoothing matrix creation, step 2
Smoothing matrix creation, step 3
Smoothing matrix creation, step 4
Smoothing matrix creation, step 5
Smoothing matrix creation, step 6
Smoothing matrix creation, step 7
Smoothing matrix creation, step 8
Smoothing matrix creation, step 9
Smoothing matrix creation, step 10
colormap: fmin=8.00e+00 fmid=1.20e+01 fmax=1.50e+01 transparent=1"

It supposed to show a graph of brain bilaterally, however, It doesn't show
any graph. I wonder what is the problem. could you guys help with that?

ps. my python version is 2.7

Yanzhu Li

2

hi Yanzhu,

do you see any error message?

can you check that mayavi works but typing for example:

from mayavi import mlab
mlab.test_contour3d()

it's possible the figure is opened in the back, behind the current window.

HTH
Alex

3

Sorry for late reply!
I?ve tried the example, and saw the figure, so my mayavi works
I?m still in this trouble ?
Are there any other possible errors that can not see the figure?

???: Alexandre Gramfort
???: 2017?8?31? 4:17
???: Discussion and support forum for the users of MNE Software
??: Re: [Mne_analysis] a problem of figure

hi?Yanzhu,

do you see any error message?

can you check that mayavi works but typing for example:

from mayavi import mlab
mlab.test_contour3d()

it's possible the figure is opened in the back, behind the current window.

HTH
Alex

?

4

what version of pysurfer are you using?

Alex
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5

my version is pysurfer0.7
???: Alexandre Gramfort
???: 2017?9?13? 16:14
???: Discussion and support forum for the users of MNE Software
??: Re: [Mne_analysis] a problem of figure

what version of pysurfer are you using?

Alex

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6

can you run any of these examples?

https://pysurfer.github.io/examples/index.html

Alex

7

Hi Alex,

I tried the first example in the website that you gave me. It works fine, and I see the figure. However, when I run the MNE example, it doesn?t work as it always.
Is there anything else I can do to fix it ?
I appreciated for your patience and help.

Yanzhu

???: Alexandre Gramfort
???: 2017?9?13? 16:28
???: Discussion and support forum for the users of MNE Software
??: Re: [Mne_analysis] ??: a problem of figure

can you run any of these examples?

https://pysurfer.github.io/examples/index.html

Alex