[Mne_analysis] "Intensity too high" when using mne_watershed_bem

[Stephen Politzer-Ahles]

Hi Dan,

Thanks a lot for your reply. I will send a message to the FreeSurfer list
to see what they say.

Regarding your second question, I have two subjects without MRIs (one was
unable to be scanned, and the other one moved during the scan) and was
hoping to just analyze their data on an average brain rather than throw
them out entirely.

Best,
Steve

On Thu, May 3, 2012 at 11:08 PM, Dan G Wakeman <dgwakeman at gmail.com> wrote:

> See reply in text
> On 2012 May 3, at 23:08 , Stephen Politzer-Ahles wrote:
>
> > Hello,
> >
> > mne_watershed_bem is exiting with the following error:
> >
> > w=White Matter =Intensity too high (>240)...valid input ?
>
> This error is due to the MRI data having unusually large values. It
> actually comes from FreeSurfer's mri_watershed program (called by
> mne_watershed_bem).  You would need to ask the FreeSurfer people about how
> the volumes are generated by the make average subject and any
> recommendations about using mri_watershed with them.
>
> The analysis you describe does beg another question: Why do you want to
> generate a BEM for the average subject?
>
> D
> >
> > I'm running mne_watershed_bem on an average brain I created from 23 other
> > participants using Freesurfer's make_average_subject. I've been able to
> do
> > mne_watershed_bem without error on all the other subjects, but I get this
> > error when using the average breain. Does anyone have any guesses what
> > could be causing the error?
> >
> > Thank you,
> > Steve Politzer-Ahles
> >
> > --
> > Stephen Politzer-Ahles
> > University of Kansas
> > Linguistics Department
> > http://www.linguistics.ku.edu/
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-- 
Stephen Politzer-Ahles
University of Kansas
Linguistics Department
http://www.linguistics.ku.edu/
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