[Mne_analysis] mne_epochs2mat quits

[Matti Hamalainen]

Hi Akiko,

On Apr 15, 2010, at 5:17 PM, Akiko Ikkai wrote:

> Hi,
>
> Thank you for your help earlier. I'm now trying to export inverse  
> solution extracted from an ROI into matlab, but having trouble;  
> mne_epochs2mat doesn't find .epochs file and quits.
>
>
> I'm running:
>
> mne_compute_raw_inverse --in 14MEGsearch/raw/ 
> 14MEGsearch_run01_target_raw.fif --snr 2 --inv 14MEGsearch/raw/ 
> run01_target_sacc_7-meg-inv.fif --spm --label 14MEGsearch/labels/ 
> lh.dlFEF.label --picknormalcomp (this runs, and creates 14MEGsearch/ 
> labels/lh.dlFEF-spm_raw.fif)
>
> mne_epochs2mat --raw 14MEGsearch/labels/lh.dlFEF-spm_raw.fif --mat  
> 14MEGsearch/raw/labels/lh.dlFEF_run01.mat --events 14MEGsearch/raw/ 
> run01_target_sacc.eve --event 1 --tmin -500 --tmax 500
>
> At the end, it prints:
> ...
> Event source : 14MEGsearch/raw/run01_target_sacc.eve
> Event file is in the new format
> 136 events found in 14MEGsearch/raw/run01_target_sacc.eve
> 19 events remain after filtering
> 14MEGsearch/raw/labels/lh.dlFEF_run01.epochs : No such file or  
> directory
>
> Could someone tell me why this .epochs is not created (even though  
> events are found), and how I could fix it?

First of all, this conversion is not really necessary. You can read  
the epochs directly from the raw data fif file produced with  
mne_compute_raw_inverse with MNE Matlab functions. There is an example  
of this included (mne_ex_read_epochs). It should work as is for your  
purposes.

If your commands are as you typed, your problem obviously stems from a  
typo. As you say, the raw file created in step one is 14MEGsearch/ 
labels/lh.dlFEF-spm_raw.fif. However, in step two you ask to create  
output to 14MEGsearch/raw/labels/lh.dlFEF_run01.mat. The directory  
14MEGsearch/raw/labels does not obviously exist. The output should be  
to 14MEGsearch/labels/lh.dlFEF_run01.mat or to a mat file in some  
other existing directory.

- Matti




---------

Matti Hamalainen, Ph.D.
Athinoula A. Martinos Center for Biomedical Imaging
Massachusetts General Hospital

msh at nmr.mgh.harvard.edu






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