[FieldTrip] non-existent mat in BEM headmodel

[Ricardo Moura]

Hi Jörn,
thank you very much for your response!
I checked the segmentation and everything seems to be ok (as far as I can
say... No error messages were shown during the processing and I checked the
generated objects and plots).

But I had a strange error while preparing the head model. Somehow the
command cannot find the dipoli files, even thought they are really where
they should be. And the second message
("/tmp/tp2619f3f3_574d_478a_bfbb_01193b4f8e0c.ama'") I really have no clue
of what it means.

And I am running this command on a ubuntu 12.04 32-bit.

Do you have any idea of how I can solve it?

Thanks once again,Best,
Ricardo

using the executable
"/usr/local/MATLAB/R2012a/toolbox/fieldtrip-20130314/external/dipoli/dipoli"
/tmp/tpd4e382c9_74a1_402d_be1a_6d2c82e749cc.sh: 3:
/tmp/tpd4e382c9_74a1_402d_be1a_6d2c82e749cc.sh:
/usr/local/MATLAB/R2012a/toolbox/fieldtrip-20130314/external/dipoli/dipoli:
not found
Warning: an error ocurred while running dipoli
> In ft_headmodel_dipoli at 201
  In ft_prepare_headmodel at 226

Error using fread
Invalid file identifier.  Use fopen to generate a valid file identifier.
Warning: File '/tmp/tp2619f3f3_574d_478a_bfbb_01193b4f8e0c.ama' not found.
> In ft_headmodel_dipoli at 209
  In ft_prepare_headmodel at 226


On 27 March 2013 13:10, Ricardo Moura <ricardoojm at gmail.com> wrote:

> Dear all
> I am creating a BEM model for eeg, following the appropriate tutorial, but
> I have a problem when preparing the headmodel. The output I have from the
> ft_prepare_headmodel command does not contain the "mat", and so, when I try
> to generate the leadfield, it returns an error message due to non existent
> "mat". I saw that other users had similar problem, but I haven't found a
> solution though. So, what is wrong with my script?
>
> Thanks a lot in advance!
> Best,
> Ricardo
>
>
>
>
> load standard_mri.mat
> mri_orig=mri;
> disp(mri)
>
> % Segmenting the data
> cfg = [];
> cfg.output= {'scalp','skull','brain'};
> segmentedmri  = ft_volumesegment(cfg, mri_orig);
> disp(segmentedmri)
> save segmentedmri segmentedmri
>
> % MESH
> cfg=[];
> cfg.tissue={'brain','skull','scalp'};
> cfg.numvertices = [3000 2000 1000];
> bnd=ft_prepare_mesh(cfg,segmentedmri);
> disp(bnd(1))
>
> % Head Model = variavel vol
> cfg        = [];
> cfg.method ='bem_dipoli'; %dipoli singlesphere
> vol        = ft_prepare_headmodel(cfg, segmentedmri);
>
>
> >> disp(vol)
>              bnd: [1x3 struct]
>             cond: [0.3300 0.0041 0.3300]
>     skin_surface: 1
>           source: 3
>             type: 'dipoli'
>             unit: 'mm'
>              cfg: [1x1 struct]
>
>
>
>
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