No BEM surfaces found

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1

Hello,

I?m trying to run mne_do_forward_model on the SPM dataset. I get the
following error

aleggitt at cerebrum:~$ mne_do_forward_solution --meas
/data/users/alanData/SPM-face/MEG/SPM_CTF_MEG_example_faces1_3D.fif
--mri /data/users/alanData/SPM-face/subjects/SPM/mri/T1-neuromag/sets/COR.fif
--bem /data/users/alanData/SPM-face/subjects/SPM/bem/SPM-20480-20480-20480-bem.fif

mne_forward_solution version 2.9 compiled at Jan 6 2011 02:25:30

Source space :
/data/users/alanData/SPM-face/subjects/SPM/bem/SPM-7-src.fif
MRI -> head transform source :
/data/users/alanData/SPM-face/subjects/SPM/mri/T1-neuromag/sets/COR.fif
Measurement data :
/data/users/alanData/SPM-face/MEG/SPM_CTF_MEG_example_faces1_3D.fif
BEM model :
/data/users/alanData/SPM-face/subjects/SPM/bem/SPM-20480-20480-20480-bem.fif
Accurate field computations
Do computations in head coordinates.
Free source orientations
Destination for the solution :
/data/users/alanData/SPM-face/MEG/SPM_CTF_MEG_example_faces1_3D-7-fwd.fif

Reading /data/users/alanData/SPM-face/subjects/SPM/bem/SPM-7-src.fif...
Read 2 source spaces a total of 6382 active source locations

Coordinate transformation: MRI (surface RAS) -> head
     1.000000 0.000000 0.000000 -0.00 mm
     0.000000 1.000000 0.000000 -0.00 mm
     0.000000 0.000000 1.000000 -0.00 mm
     0.000000 0.000000 0.000000 1.00

Read 274 MEG channels from
/data/users/alanData/SPM-face/MEG/SPM_CTF_MEG_example_faces1_3D.fif
Read 29 MEG compensation channels from
/data/users/alanData/SPM-face/MEG/SPM_CTF_MEG_example_faces1_3D.fif
Coordinate transformation: MEG device -> head
     0.997940 -0.049681 -0.040594 -1.35 mm
     0.054745 0.989330 0.135013 -0.41 mm
     0.033453 -0.136957 0.990012 65.80 mm
     0.000000 0.000000 0.000000 1.0057 coil definitions read5
compensation data sets in
/data/users/alanData/SPM-face/MEG/SPM_CTF_MEG_example_faces1_3D.fif
Head coordinate coil definitions created.
Source spaces are now in head coordinates.

Setting up the BEM model using
/data/users/alanData/SPM-face/subjects/SPM/bem/SPM-20480-20480-20480-bem-sol.fif...

Loading surfaces...
No BEM surfaces found in
/data/users/alanData/SPM-face/subjects/SPM/bem/SPM-20480-20480-20480-bem-sol.fif
Forward computation failed (see above)

Prior to running this, I?ve successfully run the following commands

mne_setup_mri
mne_watershed_bem
mne_setup_foward_model --surf

mne_setup_source_space

Am I missing a step or do I need to modify my options for
mne_do_forward_model?

Thanks,
Alan
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2

Hi Alan,

There is an example about how to process the face data using mne_python.
Please see the link,
https://martinos.org/mne/stable/auto_examples/datasets/plot_spm_faces_dataset.html
for your reference.
I do not try it.

Junpeng Zhang
2014-05-17

junpeng.zhang

???Alan <leggitta3 at gmail.com>
???2014-05-17 06:55
???[Mne_analysis] No BEM surfaces found
???"mne_analysis at nmr.mgh.harvard.edu"<mne_analysis at nmr.mgh.harvard.edu>
???

Hello,
I?m trying to run mne_do_forward_model on the SPM dataset. I get the following error

aleggitt at cerebrum:~$ mne_do_forward_solution --meas /data/users/alanData/SPM-face/MEG/SPM_CTF_MEG_example_faces1_3D.fif --mri /data/users/alanData/SPM-face/subjects/SPM/mri/T1-neuromag/sets/COR.fif --bem /data/users/alanData/SPM-face/subjects/SPM/bem/SPM-20480-20480-20480-bem.fif

mne_forward_solution version 2.9 compiled at Jan 6 2011 02:25:30

Source space : /data/users/alanData/SPM-face/subjects/SPM/bem/SPM-7-src.fif
MRI -> head transform source : /data/users/alanData/SPM-face/subjects/SPM/mri/T1-neuromag/sets/COR.fif
Measurement data : /data/users/alanData/SPM-face/MEG/SPM_CTF_MEG_example_faces1_3D.fif
BEM model : /data/users/alanData/SPM-face/subjects/SPM/bem/SPM-20480-20480-20480-bem.fif
Accurate field computations
Do computations in head coordinates.
Free source orientations
Destination for the solution : /data/users/alanData/SPM-face/MEG/SPM_CTF_MEG_example_faces1_3D-7-fwd.fif

Reading /data/users/alanData/SPM-face/subjects/SPM/bem/SPM-7-src.fif...
Read 2 source spaces a total of 6382 active source locations

Coordinate transformation: MRI (surface RAS) -> head
     1.000000 0.000000 0.000000 -0.00 mm
     0.000000 1.000000 0.000000 -0.00 mm
     0.000000 0.000000 1.000000 -0.00 mm
     0.000000 0.000000 0.000000 1.00

Read 274 MEG channels from /data/users/alanData/SPM-face/MEG/SPM_CTF_MEG_example_faces1_3D.fif
Read 29 MEG compensation channels from /data/users/alanData/SPM-face/MEG/SPM_CTF_MEG_example_faces1_3D.fif
Coordinate transformation: MEG device -> head
     0.997940 -0.049681 -0.040594 -1.35 mm
     0.054745 0.989330 0.135013 -0.41 mm
     0.033453 -0.136957 0.990012 65.80 mm
     0.000000 0.000000 0.000000 1.00
57 coil definitions read
5 compensation data sets in /data/users/alanData/SPM-face/MEG/SPM_CTF_MEG_example_faces1_3D.fif
Head coordinate coil definitions created.
Source spaces are now in head coordinates.

Setting up the BEM model using /data/users/alanData/SPM-face/subjects/SPM/bem/SPM-20480-20480-20480-bem-sol.fif...

Loading surfaces...
No BEM surfaces found in /data/users/alanData/SPM-face/subjects/SPM/bem/SPM-20480-20480-20480-bem-sol.fif
Forward computation failed (see above)

Prior to running this, I?ve successfully run the following commands

mne_setup_mri
mne_watershed_bem
mne_setup_foward_model --surf

mne_setup_source_space

Am I missing a step or do I need to modify my options for mne_do_forward_model?
Thanks,
Alan
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3

hi,

and the shell script used for the anatomical pipeline is there:

https://github.com/mne-tools/mne-scripts/tree/master/spm_face

HTH,
Alex