Dear MNE group
I am new to MNE and did not succeed to get things to work yet
at the moment two things hold me:
1. mne_analyze open in a strange way. it is a narrow window with all the
areas piled one over the other. there is little room to display anything
this way (the surface of the head cannot be enlarged to cover more than
1cm). buttons also seem not to be displayed as meant to. I can however load
and display headshape + MRI and realign. I am running ubutnu Pangolin
64bit. did anyone encountered such a problem?
2. I work on 4D data after conversion to fif (thanks, Denis). after running
freesurfer I align the MRI to the digitized headshape with mne_analyze and
save MRI set and the transformation matrix. I then follow this pipeline:
mne_watershed_bem --atlas
mne_setup_source_space --ico -6 --overwrite
mne_setup_forward_model --homog --surf --ico 4
mne_do_forward_solution --spacing oct-6 mindist --overwrite
--meas 'subject1.fif' --megonly
I get the following message:
mne_forward_solution version 2.9 compiled at Jan 6 2011 02:25:30
Source space : /usr/local/freesurfer/
subjects/maor1/bem/maor1-oct-6-src.fif
MRI -> head transform source : ./maor-trans.fif
Measurement data : maor.fif
BEM model :
/usr/local/freesurfer/subjects/maor1/bem/maor1-5120-bem.fif
Accurate field computations
Do computations in head coordinates.
Free source orientations
Destination for the solution : ./maor-oct-6-fwd.fif
Reading /usr/local/freesurfer/subjects/maor1/bem/maor1-oct-6-src.fif...
Read 2 source spaces a total of 8196 active source locations
Coordinate transformation: MRI (surface RAS) -> head
0.000000 0.951057 0.309017 18.33 mm
-1.000000 -0.000000 0.000000 -3.00 mm
0.000000 -0.309017 0.951057 43.46 mm
0.000000 0.000000 0.000000 1.00
MEG -> head coordinate transformation not found.
Forward computation failed (see above)
I found a similar report here:
https://mail.nmr.mgh.harvard.edu/pipermail//mne_analysis/2012-April/001003.html
but I did not see a solution there.
Thanks
Yuval