[Mne_analysis] problem with do_forward_solution: cannot read the coord transform

[Hari Bharadwaj]

I think there are some issues with which directories
mne_do_forward_solution looks for the specified trans file and it varies
with how you call the --trans option and which MNE build you are using.
I'm not sure what specifically is the issue here but I'd try the
following:

Rename your trans file to end in -trans.fif (i.e no 2 at the end) and
place it in the same directory as the --meas file and use --trans default.

All disclaimers apply :P

Regards,
Hari


On Mon, April 16, 2012 8:42 pm, Jeff Eriksen wrote:
> I tried to use mne_do_forward_solution, below, but got a complaint about
> my transform. A dump of the transform contents looks OK to me.
> Suggestions?
> Thanks,
> -Jeff
>
> ________________________________
>
> kje-macbook:MNE jefferiksen$ mne_do_forward_solution --bem
> AIRC0001-5120-5120-5120-bem.fif --src AIRC0001-ico-3-src.fif --trans
> gsn257-trans2.fif --meas A1_smpl.fif --mindist 1.0 --eegonly --fwd
> A1_smpl_ico3-src.fif
>
> mne_forward_solution version 2.9 compiled at Dec 21 2009 19:50:45
>
> Source space                 :
> /Users/jefferiksen/Documents/Fair_lab/hdEEG_subjects/AIRC0001/bem/AIRC0001-ico-3-src.fif
> MRI -> head transform source : gsn257-trans2.fif
> Measurement data             : A1_smpl.fif
> BEM model                    :
> /Users/jefferiksen/Documents/Fair_lab/hdEEG_subjects/AIRC0001/bem/AIRC0001-5120-5120-5120-bem.fif
> Accurate field computations
> Do computations in head coordinates.
> Free source orientations
> Destination for the solution : A1_smpl_ico3-src.fif
>
> Reading
> /Users/jefferiksen/Documents/Fair_lab/hdEEG_subjects/AIRC0001/bem/AIRC0001-ico-3-src.fif...
> Read 2 source spaces a total of 1284 active source locations
>
> Cannot read the coordinate transformation
> Forward computation failed (see above)
>
> kje-macbook:MNE jefferiksen$ mne_show_fiff --in gsn257-trans2.fif –verbose
>  100 = file ID            1.3 0x304122003198 Mon Apr 16 17:10:33 2012
>  101 = dir pointer     -1
>  106 = free list         -1
>  222 = transform      head -> MRI (surface RAS)
>                                      0.99907 -0.01932 -0.03856     2.39
>                                      0.00948  0.97056 -0.24066     0.03
>                                      0.04207  0.24007  0.96984   -15.02
>                                      0.00000  0.00000  0.00000     1.00
>  108 = NOP
>
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-- 
Hari Bharadwaj
PhD Candidate, Biomedical Engineering,
Boston University
677 Beacon St.,
Boston, MA 02215

Martinos Center for Biomedical Imaging,
Massachusetts General Hospital
149 Thirteenth Street,
Charlestown, MA 02129

hari at nmr.mgh.harvard.edu
Ph: 734-883-5954