[Mne_analysis] computing forward solutions separately for MEG and EEG

[Baptiste Gauthier]

Hi and thanks Alex for the quick answer,

I already tried "EEG 064" but got the same message.

I followed your advice and inspect the first fiff file of my list: this is
what I got

In [2]: import mne
>
> In [3]: info =
> mne.io.read_info('/neurospin/meg/meg_tmp/MTT_MEG_Baptiste/MEG/sd130343/raw_sss/run3_DG_trans_sss.fif')
>
> In [4]: info
> Out[4]:
> <Info | 22 non-empty fields
>     acq_pars : unicode | 20983 items
>     bads : list | 0 items
>     ch_names : list | MEG0113, MEG0112, MEG0111, MEG0122, MEG0123,
> MEG0121, ...
>     chs : list | 393 items
>     comps : list | 0 items
>     description : unicode | 32 items
>     dev_head_t : dict | 3 items
>     dig : list | 69 items
>     experimenter : unicode | 6 items
>     file_id : dict | 4 items
>     highpass : float | 0.0299999993294
>     line_freq : float | 50.0
>     lowpass : float | 330.0
>     meas_date : numpy.ndarray | 2013-10-25 10:50:49
>     meas_id : dict | 4 items
>     nchan : int | 393
>     orig_blocks : dict | 2 items
>     proj_id : numpy.ndarray | 1 items
>     proj_name : unicode | 7 items
>     projs : list | 0 items
>     sfreq : float | 1000.0
>     subject_info : dict | 6 items
>     acq_stim : NoneType
>     ctf_head_t : NoneType
>     dev_ctf_t : NoneType
>

In [11]: info["ch_names"]
>

[...]

 'EEG059',
>  'EEG060',
>  'EOG061',
>  'EOG062',
>  'ECG063',
>  'EEG064',
>

[...]

So it seems that EEG064 name is not the problem here.

and finally...
I got it by looking at the rest of info dict: "projs : list | 0 items"
I was using not fully preprocessed data...
Then, when using fully preprocessed data:

arr2=($listRunPerSubj)
>
> Dir=/neurospin/meg/meg_tmp/MTT_MEG_Baptiste/MEG/
>
> for i in {0..87}; do
>     echo ${arr1[i]}
>     echo ${arr2[i]}
>
> mne_process_raw --raw $Dir${arr1[i]}/raw_sss/${arr2[i]}_trans_sss.fif
> --lowpass 40 --save
> $Dir${arr1[i]}/mne_python/preproc_${arr2[i]}_trans_sss.fif --projon --proj
> $Dir${arr1[i]}/raw_sss/ecg_eogv/PCA_MEG_ECG_GRADS.fif --proj
> $Dir${arr1[i]}/raw_sss/ecg_eogv/PCA_MEG_ECG_MAGS.fif --proj
> $Dir${arr1[i]}/raw_sss/ecg_eogv/PCA_MEG_EOG61_GRADS.fif --proj
> /$Dir${arr1[i]}/raw_sss/ecg_eogv/PCA_MEG_EOG61_MAGS.fif --proj
> $Dir${arr1[i]}/raw_sss/ecg_eogv/PCA_EEG_EOG61.fif --proj
> $Dir${arr1[i]}/raw_sss/ecg_eogv/PCA_EEG_ECG.fif
>
> done
>

mne_check_eeg_locations --file
> $Dir${arr1[i]}/mne_python/preproc_run3_DG_trans_sss_raw.fif --dig
> /neurospin/meg/meg_tmp/MTT_MEG_Baptiste/MEG/wl130316/raw_sss/run3_DG.fif
> --fix
>

I got the correct fix:

mne_check_eeg_locations version 1.2 compiled at Jan  5 2015 04:22:49
>
> input file          :
> /neurospin/meg/meg_tmp/MTT_MEG_Baptiste/MEG/sd130343/mne_python/preproc_run3_DG_trans_sss_raw.fif
> digitizer data file :
> /neurospin/meg/meg_tmp/MTT_MEG_Baptiste/MEG/wl130316/raw_sss/run3_DG.fif
>
> Checking...
> EEG064 needs to be fixed (r =    0.0 mm).
> 1 channels need fixing.
>
> Fixing...
> Loaded 60 EEG locations + ref from
> /neurospin/meg/meg_tmp/MTT_MEG_Baptiste/MEG/wl130316/raw_sss/run3_DG.fif
> 60 EEG locations applied
>

Sorry then for not having noticed that before and thanks for the advice
I will use this quick info checking in the future

Best,

Baptiste

-- 
Baptiste Gauthier
Postdoctoral Research Fellow

INSERM-CEA Cognitive Neuroimaging unit
CEA/SAC/DSV/DRM/Neurospin center
Bât 145, Point Courier 156
F-91191 Gif-sur-Yvette Cedex FRANCE
-------------- next part --------------
An HTML attachment was scrubbed...
URL: http://mail.nmr.mgh.harvard.edu/pipermail/mne_analysis/attachments/20150108/db50cff0/attachment.html