[Mne_analysis] extracting sources from labels using mne_compute_raw_inverse

[Matt Panichello]

Hi all,

I am trying to extract the sources from labels using
mne_compute_raw_inverse. The command finishes without error, but extracts
extremely few sources for each label: 2 for a V1 label, and 3 for a rather
large fusiform label. Both labels are based on the freesurfer parcellation
of the surface and look fine in tksurfer. The exact command I am dropping
looks like this:

mne_compute_raw_invers  --in (raw fif file)   --inv (inverse solution)
--labeldir (label directory)   --picknormalcomp   --align_z    --snr 3
--out (outname)

and my output is below. Any help would be appreciated!

Thank you,

Matt


mne_compute_raw_inverse version 1.15 compiled at Aug 19 2011 04:09:29

input  file            : S011/PM01_clean_raw.fif
inverse operator file  : S011/ROI_freq/PM01_raw-5-meg-inv.fif
SNR                    : 3.000000
Additional channels    : 'STI 014'
All label files in S011/ROI_freq/ will be processed.
Source locations will be listed in head coordinates.

Reading the inverse operator...
        Read 2 source spaces from S011/ROI_freq/PM01_raw-5-meg-inv.fif with
a total of 11402 source locations
        Read the sensor covariance matrix (full)
        Read the source covariance matrix (diagonal)
        Measurement file id not found (omit matching).
        Solution is based on MEG.
        Inverse operator information was stored in head coordinates.
        Source orientation prior information read.
        Depth-weighting prior information read.
        Source orientations read.
        Singular values read.
        Eigenvectors read.
        Number of channels = 305
        Number of sources  = 11402
        Free source orientations
        Location information in head coordinates
        Projection in effect:
                # 1 : axial-PCA-01 : 1 vecs : 102 chs MEG active
                # 2 : axial-PCA-02 : 1 vecs : 102 chs MEG active
                # 3 : axial-PCA-03 : 1 vecs : 102 chs MEG active
                # 4 : axial-PCA-04 : 1 vecs : 102 chs MEG active

Adding derived data to the inverse operator (nave = 1)...
        Projection applied to the covariance matrix.
        Decomposing the sensor noise covariance matrix...
        Eigenvalue decomposition had been precomputed.
        Eigenleads multiplied with Cholesky decomposition of the source
covariance matrix.
        nave change: 1 -> 1

Raw data file S011/PM01_clean_raw.fif:

Processing label directory S011/ROI_freq/...
2 left-hemisphere labels in S011/ROI_freq/
1 right-hemisphere labels in S011/ROI_freq/
Processing left-hemisphere labels...[done]
Processing right-hemisphere labels...[done]

Saving raw estimates...
        Data will be split into <= 1907.3 MByte pieces
        Processing raw data [2000 samples in each buffer] .........[1000
samples in each buffer] [done]
        393000 samples (including skips) saved to
S011/ROI_freq/rh.V1.PM01.normal-mne_raw.fif ... closing...[done]
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