[Mne_analysis] SourceEstimate.plot() fail

[Alexandre Gramfort]

hi Talitha,

can you just confirm that mayavi without mne works. You can test with

from mayavi import mlab
mlab.test_mesh()

ALex


On Sun, Jun 11, 2017 at 6:35 AM, Talitha Ford <tcford at swin.edu.au> wrote:

> Hi Alex,
> Sorry for the delay. No, when I read in the source estimate that results
> from applying the inverse and attempt to plot it, the TVTK window opens but
> no image appears unless I ctrl+D to exit ipython. Here are the lines of
> code I use:
>
> import mne
> from mne.source_estimate import SourceEstimate
> stc = mne.read_source_estimate('OB860_stand2_mne_dSPM_inv-lh.stc')
> stc.plot("fsaverage")
>
> Thanks for your help,
>
> Talitha
>
> On 6 Jun 2017, at 19:19, Alexandre Gramfort <alexandre.gramfort at telecom-
> paristech.fr> wrote:
>
> hi Talitha,
>
> does your mayavi setup works otherwise? can you do stc.plot with the
> output of dSPM/MNE apply_inverse?
> In other words is it a mayavi/vtk problem or an mne/pysurfer problem?
>
> Alex
>
> On Tue, Jun 6, 2017 at 2:54 AM, Talitha Ford <tcford at swin.edu.au> wrote:
>
>> Dear list,
>>
>>
>>
>> I am attempting to run the ‘2 samples permutation test on source data
>> with spatio-temporal clustering’ tutorial (https://martinos.org/mne/stab
>> le/auto_tutorials/plot_stats_cluster_spatio_temporal_2samp.html), but
>> when I get to visualising the SourceEstimate object, a TVTK window opens
>> and freezes; no image appears and I am unable to close the window without
>> terminating the iPython session. Also, stc.resample(50) throws an error ‘ImportError:
>> cannot import name sigtools’
>>
>>
>>
>> I am running iPython version 2.7 from the Anaconda distribution, and have
>> up-to-date mne, scipy, PySurfer, matplotlib, scikit-learn and mayavi
>> packages. I am running the analysis on an iMac OS Sierra 10.12.5.
>>
>>
>>
>> Can someone please point me in the right direction to overcome this?
>>
>>
>>
>> Thank you,
>>
>> Talitha
>>
>>
>>
>>
>>
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