[Mne_analysis] error creating geometry file
Matti Hamalainen
msh at nmr.mgh.harvard.edu
Mon Aug 16 08:59:24 EDT 2010
Hello Ricky,
On Aug 15, 2010, at 1:12 PM, rsachdev at nmr.mgh.harvard.edu wrote:
> Hello,
>
> I am getting this error for one of my subjects when I run the
> mne_setup_forward_model(mne_setup_forward_model --subject --surf --
> ico 4).
>
>
> Going from 5th to 4th subdivision of an icosahedron (ntri: 20480 ->
> 5120)
>
> outer skin CM is 1.26 -5.30 7.83 mm
> outer skull CM is 1.28 -5.09 7.35 mm
> inner skull CM is 0.84 -9.45 16.70 mm
> Checking that outer skull surface is inside outer skin surface...[ok]
> Checking that inner skull surface is inside outer skull surface...
> [failed]
> Surface outer skull is not completely inside surface inner skull(sum
> of
> solid angles = -4.31123e-16 * 4*PI).
> Could't create the geometry file
>
>
> Any idea why the outer skull might not be completely inside the inner
> skull? Should I run the outershift or innershift with the command?
First of all your error message reveals a bug in the MNE code: the
surface names are swapped. The message should say: "Surface inner
skull is not completel inside surface outer skull...". I have fixed
this.
The reason for this is that the automatic segmentation procedure
produced surfaces which intersect. You can try whether shifting the
outer skull surface slightly helps.
- Matti
-------------
Matti Hamalainen, Ph.D.
Athinoula A. Martinos Center for Biomedical Imaging
Massachusetts General Hospital
Building 149, 13th Street, Mailcode 149-2301
Charlestown, MA 02129-2060
USA
e-mail msh at nmr.mgh.harvard.edu
Tel +1 617 726 0323
FAX +1 617 726 7422
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