[Mne_analysis] a junior question on mne_setup_source_space

[Martin Luessi]

On 03/26/14 16:00, peng wrote:
> Thank you for the answers. 
> 1. Surprisingly I did not find any files were generated/saved after
> running mne_setup_forward_model.

I assume there was an error, can you post the program output?

> 2. I don't have a -trans.fif file. I tried to do it in GUI of
> MNE_analyze, it was quite complicated. If I have a co-registered mri
> file (generated by CTF software with .mri extension), can it be
> converted to fif format? If not, I can read the 4x4 head2mri matrix via
> matlab, can this information be written to fif format with certain tools
> in MNE?

There is also a coreg GUI in MNE-Python, have a look here

http://www.slideshare.net/mne-python/mnepython-coregistration

You could write a .fif file with the transform in Matlab, but it seems
to me that this wouldn't be easier than using the coregistration tools
in mne_analyze or MNE-Python.

HTH,

Martin


> Thanks again!
> 
> 
> On Tue, Mar 25, 2014 at 11:39 PM, Alexandre Gramfort
> <alexandre.gramfort at telecom-paristech.fr
> <mailto:alexandre.gramfort at telecom-paristech.fr>> wrote:
> 
>     hi,
> 
>     >  Some additional questions.
>     > 1 After I ran mne_setup_forward_model, I have no feedback from the
>     command
>     > line, is it normal?
> 
>     it should print that it saved a file to disk
> 
>     > 2 I am using CTF data, thus I converted the .ds folder from CTF to fif
>     > format with mne_ctf2fiff command, with option --infoonly. Here I
>     only want
>     > to get the Leadfield thus I suppose data is not necessary. However
>     when I
>     > try mne_do_forward_solution, it asked for mri description file,
>     which I
>     > haven't. I have only a series of dicom files or the .mri file
>     generated by
>     > ctf software from them. Can I still move on?
> 
>     you need to do the coregistration and get a -trans.fif file.
> 
>     A
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