[Mne_analysis] Source space cration failed

Alexandre Gramfort gramfort at nmr.mgh.harvard.edu
Tue Nov 22 13:25:11 EST 2011
Search archives:

hello maria,

this looks like a corner case with the use of the freesurfer recon.
what version of freesurfer did you use? can you try using the
option "--ico -6" like used here:

http://martinos.org/mne/command_line_tutorial.html#command-line-tutorial

Alex

On Tue, Nov 22, 2011 at 9:16 AM, Maria Felber <felber at cbs.mpg.de> wrote:
> Dear all,
>
> I tried to create a BEM with the following command:
>
> mne_setup_source_space --subject im14 --ico 5 --cps --overwrite
>
> I got the following lines shown in my shell:
>
> Setting up the source space with the following parameters:
>
> SUBJECTS_DIR = /SCR3/charlie/imesapp/freesurfer/
> Subject      = im14
> Surface      = white
> Icosahedron subdivision grade 5
> Create a source space with patch information
>
>>>> 1. Creating the source space file /SCR3/charlie/imesapp/freesurfer//im14/bem/im14-ico-5-src.fif...
>
> mne_make_source_space version 2.5 compiled at Sep 30 2010 16:56:44
>
> Loading /SCR3/charlie/imesapp/freesurfer//im14/surf/lh.white...
> Triangle file : created by felber on Tue Nov  1 23:10:36 2011 nvert = 131982 ntri = 263960
>        Triangle and vertex normals and neighboring triangles...[done]
>        Vertex neighbors...[done]
>        Distances between neighboring vertices...[791880 distances done]
> Doing the icosahedral vertex picking...
> Loading geometry from /SCR3/charlie/imesapp/freesurfer//im14/surf/lh.sphere...
> Triangle file : created by felber on Wed Nov  2 00:31:19 2011 nvert = 131982 ntri = 263960
>        Triangle and vertex normals and neighboring triangles...[done]
>        Vertex neighbors...[done]
>        Distances between neighboring vertices...[61440 distances done]
> Mapping lh im14 -> ico (5) ...[done]
> Source space vertex moved from 55033 to 55034 because of double occupation.
> Source space vertex moved from 55033 to 55023 because of double occupation.
> Source space vertex moved from 131819 to 53897 because of double occupation.
> Source space vertex moved from 53897 to 53907 because of double occupation.
> Source space vertex moved from 56212 to 57359 because of double occupation.
> Source space vertex moved from 55024 to 57341 because of double occupation.
> vertex 55023 is in the map multiple times.
> Cannot continue
> Source space creation failed
> Temporary files removed.
>
> As this has never happend before and I do not have a lot of experience with neither freesurfer nor MNE, I do not know where to look for the source of error. Could please someone help me finding a solution? Thank you very much.
> Sincerely,
> Maria Felber
>
>
> --
> Maria J. Felber, PhD Student
> Max Planck Institute for Human Cognitive and Brain Sciences
> Stephanstraße 1A
> 04103 Leipzig, Germany
> Phone:  +49 341 9940-2465/2522
>
> _______________________________________________
> Mne_analysis mailing list
> Mne_analysis at nmr.mgh.harvard.edu
> https://mail.nmr.mgh.harvard.edu/mailman/listinfo/mne_analysis
>
>
> 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.
>




More information about the Mne_analysis mailing list