[FieldTrip] error when I convert .mri data into mgz or other format

[Robert Oostenveld]

Hi Zhang,

You should specify the anatomical data as a 3D array, not as a structure.

So rather than 
  ft_write_mri('ddd',x,'dataformat','mgz', 'transform',x.transform)
you should do 
  ft_write_mri('ddd’,x.anatomy,'dataformat','mgz', 'transform',x.transform)

Note also that you should not expect an output from ft_write_mri.

best regards,
Robert



On 12 Apr 2015, at 17:32, thismoment <thismoment at 163.com> wrote:

> Hi Experts,
>  
> I got a set of MEG. The anatomical MRI was stored in .mri format (CTF device) and MEG was stored in a folder named by xxx.ds.
> I do not know how to do segmentation of .mri into scalp,skull and cortex. So I try to convert .mri into .mgz or other format so
> that it can be used in freesurfer for reconstruction.
> I used the following command.
>  
> x=ft_read_mri('MEG619.mri','dataformat','ctf_mri4');
> y=ft_write_mri('ddd',x,'dataformat','mgz', 'transform',x.transform)
>  
> the error was 
>  
> >> y=ft_write_mri('ddd',x,'dataformat','mgz', 'transform',x.transform)
> Error using fwrite
> Cannot write value: unsupported class struct
>  
> Error in save_mgh (line 107)
> fwrite(fid,vol,'float32');
>  
> Error in ft_write_mri (line 79)
>     save_mgh(dat, filename, transform);
>  
> I failed to do it.
> 1. Anyone know what happens ?
> 2. Freesurfer can use .mri directly to reconstruct ?
> 3. Are there other methods to convert .mri into .mgz or .dicom format?
>  
> Best wishes,
> J. Zhang
>  
>  
> 2015-04-12
> thismoment
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> fieldtrip at donders.ru.nl
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