[Freesurfer] mask error in glm_fit

[Haley Park]

        External Email - Use Caution        

Hello,

I am trying to run a correlational analysis with glm_fit on a masked area
with the code:

foreach hemi (lh)

  foreach smoothness (10)

    foreach meas (volume thickness)

        mri_glmfit \

        --y {$hemi}.{$meas}.{$study}.{$smoothness}.mgh \

        --fsgd FSGD/{$study}.fsgd \

        --C Contrasts/Scores_Slope.mtx  \

        --surf fsaverage {$hemi}  \

        --mask lhYeo2011_7NetworksConfidence_N1000.mgz  \

        --glmdir {$hemi}.{$meas}.{$study}.{$smoothness}.glmdir

    end

  end

end

I get the error message:

ERROR: dimension mismatch 1 between y and mask



I've also tried to run it with the .nii file found at
https://secure-web.cisco.com/1sTopz8rXlJoh4VSQL7P0DYm1ff7H5Crs0Qg3iAG1M6HD6Vuyjn8ViA2fDeX0A7VIH_9-GSxTfaL35eIjCKAnbUd90wxlxBlgtdz3DVFpnalWP2oV1jHapx5B4tlAXHpUA9N18syK8T_8U3eUIX2YC8P7r4l3verT5XzzxpTkHDB7Nmuh-RYY63YVpXWmTl_xCbs105PDuuWwbrTX5RfdknvxXBksPePKuZnNwqmGz-GLy8z8xYTDCYxHegxv5wG_XMQjD1PxSwhpaqG0N-mGvQ/https%3A%2F%2Fsurfer.nmr.mgh.harvard.edu%2Ffswiki%2FCorticalParcellation_Yeo2011


Any help would be appreciated!


Haley

_______________________________________________
Freesurfer mailing list
Freesurfer@nmr.mgh.harvard.edu
https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer