[Mne_analysis] mne_analyze inverse display problem

[Eric Larson]

Are you using OSX? I've had an issue with the display not working
appropriately sometimes (alternates between blank/maybe white and some
fixed image even when it should be updating). I chalked it up to an
improper implementation of OpenGL/XWindows on OSX since I have never
run into the same issue on linux x86_64 or i686.

Eric


On Wed, Jun 27, 2012 at 10:47 AM, Jeff Eriksen <eriksenj at ohsu.edu> wrote:
> Alex,
>
> I did mark the VREF channel as bad.
>
> I used the --diagnoise switch so as not to have to worry about the
> actually noise-cov matrix at this point.
>
> The problem is not a scaling issue - it is a severe display issue/bug -
> the entire pane goes completely white, no surface displayed, nothing, and
> at that point I can not even get back to any of the three types of
> inverses. The only way to continue is to exit mne_analyse and restart it.
>
> Thanks,
> -Jeff
>
> On 6/26/12 11:50 PM, "Alexandre Gramfort" <gramfort at nmr.mgh.harvard.edu>
> wrote:
>
>>hi,
>>
>>> I tried ico-4 and ico-5, and still get the same results ­ poor
>>>correlation
>>> between scalp and cortical sources. I have not tried the ‹loose option
>>>yet,
>>> will do that this afternoon. I did try ‹diagnoise, and that seemed to
>>> improve matters (though I do not know why ­ the manual says most users
>>>never
>>> need to use this), but I am experiencing issues with mne_analyse in
>>>trying
>>> to display the three different estimates.
>>
>>did you correct for the bad channel like matti suggested? did you take a
>>look
>>at the noise covariance you estimated from the data? Ideally it should be
>>as diagonal as possible with similar values along the diagonal. See e.g.
>>
>>http://martinos.org/mne/auto_examples/plot_estimate_covariance_matrix_raw.
>>html
>>
>>for an example of noise covariance plot.
>>
>>> As I change from dSPM, which comes
>>> up as defult, to MNE, the inflated brain pane goes white, and I cannot
>>>get
>>> it back until I exit and go back in. Ever seen this before?
>>
>>you certainly need to adjust the scaling of the colorbar.
>>
>>do you see something like this:
>>
>>http://martinos.org/mne/_images/MNE_preferences.png
>>
>>taken from :
>>http://martinos.org/mne/manual/analyze.html#ch-interactive-analysis
>>
>>Alex
>>
>>
>>The information in this e-mail is intended only for the person to whom it
>>is
>>addressed. If you believe this e-mail was sent to you in error and the
>>e-mail
>>contains patient information, please contact the Partners Compliance
>>HelpLine at
>>http://www.partners.org/complianceline . If the e-mail was sent to you in
>>error
>>but does not contain patient information, please contact the sender and
>>properly
>>dispose of the e-mail.
>>
>
>
> _______________________________________________
> Mne_analysis mailing list
> Mne_analysis at nmr.mgh.harvard.edu
> https://mail.nmr.mgh.harvard.edu/mailman/listinfo/mne_analysis