<div dir="ltr"><div style class="markdown-here-wrapper" id="markdown-here-wrapper-193028"><p style="margin:1.2em 0px!important">Hello, </p>
<p style="margin:1.2em 0px!important">I’m trying to run mne_do_forward_model on the SPM dataset. I get the following error</p>
<pre style="font-size:0.85em;font-family:Consolas,Inconsolata,Courier,monospace;font-size:1em;line-height:1.2em;margin:1.2em 0px"><code style="font-size:0.85em;font-family:Consolas,Inconsolata,Courier,monospace;margin:0px 0.15em;padding:0px 0.3em;white-space:pre-wrap;border:1px solid rgb(234,234,234);background-color:rgb(248,248,248);border-radius:3px;display:inline;white-space:pre;overflow:auto;border-radius:3px;border:1px solid rgb(204,204,204);padding:0.5em 0.7em;display:block!important;display:block;padding:0.5em;color:rgb(51,51,51);background:none repeat scroll 0% 0% rgb(248,248,255)" class="language-bash">
aleggitt@cerebrum:~$ mne_<span style="color:rgb(51,51,51);font-weight:bold" class="keyword">do</span>_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-<span style="color:rgb(0,153,153)" class="number">20480</span>-<span style="color:rgb(0,153,153)" class="number">20480</span>-<span style="color:rgb(0,153,153)" class="number">20480</span>-bem.fif
mne_forward_solution version <span style="color:rgb(0,153,153)" class="number">2.9</span> compiled at Jan <span style="color:rgb(0,153,153)" class="number">6</span> <span style="color:rgb(0,153,153)" class="number">2011</span> <span style="color:rgb(0,153,153)" class="number">02</span>:<span style="color:rgb(0,153,153)" class="number">25</span>:<span style="color:rgb(0,153,153)" class="number">30</span>
Source space : /data/users/alanData/SPM-face/subjects/SPM/bem/SPM-<span style="color:rgb(0,153,153)" class="number">7</span>-src.fif
MRI -> head transform <span style="color:rgb(0,134,179)" class="built_in">source</span> : /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-<span style="color:rgb(0,153,153)" class="number">20480</span>-<span style="color:rgb(0,153,153)" class="number">20480</span>-<span style="color:rgb(0,153,153)" class="number">20480</span>-bem.fif
Accurate field computations
Do computations <span style="color:rgb(51,51,51);font-weight:bold" class="keyword">in</span> head coordinates.
Free <span style="color:rgb(0,134,179)" class="built_in">source</span> orientations
Destination <span style="color:rgb(51,51,51);font-weight:bold" class="keyword">for</span> the solution : /data/users/alanData/SPM-face/MEG/SPM_CTF_MEG_example_faces1_3D-<span style="color:rgb(0,153,153)" class="number">7</span>-fwd.fif
Reading /data/users/alanData/SPM-face/subjects/SPM/bem/SPM-<span style="color:rgb(0,153,153)" class="number">7</span>-src.fif...
Read <span style="color:rgb(0,153,153)" class="number">2</span> <span style="color:rgb(0,134,179)" class="built_in">source</span> spaces a total of <span style="color:rgb(0,153,153)" class="number">6382</span> active <span style="color:rgb(0,134,179)" class="built_in">source</span> locations
Coordinate transformation: MRI (surface RAS) -> head
<span style="color:rgb(0,153,153)" class="number">1.000000</span> <span style="color:rgb(0,153,153)" class="number">0.000000</span> <span style="color:rgb(0,153,153)" class="number">0.000000</span> -<span style="color:rgb(0,153,153)" class="number">0.00</span> mm
<span style="color:rgb(0,153,153)" class="number">0.000000</span> <span style="color:rgb(0,153,153)" class="number">1.000000</span> <span style="color:rgb(0,153,153)" class="number">0.000000</span> -<span style="color:rgb(0,153,153)" class="number">0.00</span> mm
<span style="color:rgb(0,153,153)" class="number">0.000000</span> <span style="color:rgb(0,153,153)" class="number">0.000000</span> <span style="color:rgb(0,153,153)" class="number">1.000000</span> -<span style="color:rgb(0,153,153)" class="number">0.00</span> mm
<span style="color:rgb(0,153,153)" class="number">0.000000</span> <span style="color:rgb(0,153,153)" class="number">0.000000</span> <span style="color:rgb(0,153,153)" class="number">0.000000</span> <span style="color:rgb(0,153,153)" class="number">1.00</span>
Read <span style="color:rgb(0,153,153)" class="number">274</span> MEG channels from /data/users/alanData/SPM-face/MEG/SPM_CTF_MEG_example_faces1_3D.fif
Read <span style="color:rgb(0,153,153)" class="number">29</span> MEG compensation channels from /data/users/alanData/SPM-face/MEG/SPM_CTF_MEG_example_faces1_3D.fif
Coordinate transformation: MEG device -> head
<span style="color:rgb(0,153,153)" class="number">0.997940</span> -<span style="color:rgb(0,153,153)" class="number">0.049681</span> -<span style="color:rgb(0,153,153)" class="number">0.040594</span> -<span style="color:rgb(0,153,153)" class="number">1.35</span> mm
<span style="color:rgb(0,153,153)" class="number">0.054745</span> <span style="color:rgb(0,153,153)" class="number">0.989330</span> <span style="color:rgb(0,153,153)" class="number">0.135013</span> -<span style="color:rgb(0,153,153)" class="number">0.41</span> mm
<span style="color:rgb(0,153,153)" class="number">0.033453</span> -<span style="color:rgb(0,153,153)" class="number">0.136957</span> <span style="color:rgb(0,153,153)" class="number">0.990012</span> <span style="color:rgb(0,153,153)" class="number">65.80</span> mm
<span style="color:rgb(0,153,153)" class="number">0.000000</span> <span style="color:rgb(0,153,153)" class="number">0.000000</span> <span style="color:rgb(0,153,153)" class="number">0.000000</span> <span style="color:rgb(0,153,153)" class="number">1.00</span>
<span style="color:rgb(0,153,153)" class="number">57</span> coil definitions <span style="color:rgb(0,134,179)" class="built_in">read</span>
<span style="color:rgb(0,153,153)" class="number">5</span> compensation data sets <span style="color:rgb(51,51,51);font-weight:bold" class="keyword">in</span> /data/users/alanData/SPM-face/MEG/SPM_CTF_MEG_example_faces1_3D.fif
Head coordinate coil definitions created.
Source spaces are now <span style="color:rgb(51,51,51);font-weight:bold" class="keyword">in</span> head coordinates.
Setting up the BEM model using /data/users/alanData/SPM-face/subjects/SPM/bem/SPM-<span style="color:rgb(0,153,153)" class="number">20480</span>-<span style="color:rgb(0,153,153)" class="number">20480</span>-<span style="color:rgb(0,153,153)" class="number">20480</span>-bem-sol.fif...
Loading surfaces...
No BEM surfaces found <span style="color:rgb(51,51,51);font-weight:bold" class="keyword">in</span> /data/users/alanData/SPM-face/subjects/SPM/bem/SPM-<span style="color:rgb(0,153,153)" class="number">20480</span>-<span style="color:rgb(0,153,153)" class="number">20480</span>-<span style="color:rgb(0,153,153)" class="number">20480</span>-bem-sol.fif
Forward computation failed (see above)
</code></pre>
<p style="margin:1.2em 0px!important">Prior to running this, I’ve successfully run the following commands </p>
<pre style="font-size:0.85em;font-family:Consolas,Inconsolata,Courier,monospace;font-size:1em;line-height:1.2em;margin:1.2em 0px"><code style="font-size:0.85em;font-family:Consolas,Inconsolata,Courier,monospace;margin:0px 0.15em;padding:0px 0.3em;white-space:pre-wrap;border:1px solid rgb(234,234,234);background-color:rgb(248,248,248);border-radius:3px;display:inline;white-space:pre;overflow:auto;border-radius:3px;border:1px solid rgb(204,204,204);padding:0.5em 0.7em;display:block!important;display:block;padding:0.5em;color:rgb(51,51,51);background:none repeat scroll 0% 0% rgb(248,248,255)" class="language-bash">
mne_setup_mri
mne_watershed_bem
mne_setup_foward_model --surf
mne_setup_<span style="color:rgb(0,134,179)" class="built_in">source</span>_space
</code></pre>
<p style="margin:1.2em 0px!important">Am I missing a step or do I need to modify my options for mne_do_forward_model?</p>
<p style="margin:1.2em 0px!important">Thanks,<br>Alan</p>
</div></div>