[Mne_analysis] mne_setup_forward_model problem
Eliezer Kanal
ejk4 at pitt.edu
Wed Aug 13 15:15:13 EDT 2008
Hello folks -
I'm a fairly new user to MNE, and I'm having a problem creating the
BEM. So far, I've succesfully:
* averaged and examined the MEG data using mne_browse_raw
* processed the MRI data using freesurfer
* run mne_watershed_bem
The mne_watershed_bem placed a bunch of files in $SUBJECT_DIR/bem/
watershed/, including a file called
"<subject>_inner_skull_surface" (<subject> is my subject). Guided by
the MNE manual (sections 3.6-7 and appendix A.1), I made placed an
alias of that file in the $SUBJECT_DIR/bem/ directory and renamed it
"inner_skull.surf".
My problem is that when I run mne_setup_forward_model, I get the
following output (I replaced all instances of the subject name with
<subject>):
~~~~~~~
$ mne_setup_forward_model --homog --subject <subject> --surf --ico 4
Setting up the BEM with the following parameters:
SUBJECTS_DIR = /Users/eliezerk/Public/freesurfer_data
Subject = <subject>
Bad magic in /Users/eliezerk/Public/freesurfer_data/<subject>/bem/
inner_skull.surf
Inner skull = /Users/eliezerk/Public/freesurfer_data/<subject>/
bem/inner_skull.surf ( triangles)
brain conductivity = 0.3 S/m
Resulting BEM = /Users/eliezerk/Public/freesurfer_data/<subject>/
bem/<subject>--bem.fif
>> 1. Creating the BEM geometry file...
mne_surf2bem version 1.4 compiled at Apr 5 2007 16:07:16
input file # 1 : /Users/eliezerk/Public/freesurfer_data/<subject>/
bem/inner_skull.surf / id = 1 / sigma = 0.3 S/m
output file : /Users/eliezerk/Public/freesurfer_data/<subject>/
bem/<subject>--bem.fif
Bad magic in /Users/eliezerk/Public/freesurfer_data/<subject>/bem/
inner_skull.surf
Could't create the geometry file
~~~~~~~~
Am I using the wrong file? If so, how do I generate the
inner_skull.surf file? If not, what should I do? Thanks -
Eliezer Kanal
Graduate Student, Bioengineering
Center for Clinical Neurophysiology
University of Pittsburgh
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