Dear Freesurfer expert,
I am trying to normalized for ICV subcortical volume (Buckner et al.
2004) using the following:' mri_label_volume [options] <volume>
<label 1> <label 2> ...'
where options are either '-atlas_icv <fname> <scalefactor> ' or '-eTIV <fname> <scalefactor> '.
My version of freesurfer is 5.3.0.
But I get this problem:
$ mri_label_volume -atlas_icv
'/home/fniccoli/freesurfer/subjects/HD/Control_1/mri/transforms/talairach.xfm'
1948 '/home/fniccoli/freesurfer/subjects/HD/Control_1/mri/aseg.mgz' 11
50
ltMNIreadEx:/home/fniccoli/freesurfer/subjects/HD/Control_1/mri/transforms/talairach.xfm does not start as 'MNI Transform File'
mri_label_volume: could not open atlas transform file
/home/fniccoli/freesurfer/subjects/HD/Control_1/mri/transforms/talairach.xfm
$ mri_label_volume -eTIV
'/home/fniccoli/freesurfer/subjects/HD/Control_1/mri/transforms/talairach.xfm'
1948 '/home/fniccoli/freesurfer/subjects/HD/Control_1/mri/aseg.mgz' 11
50
ltMNIreadEx:/home/fniccoli/freesurfer/subjects/HD/Control_1/mri/transforms/talairach.xfm does not start as 'MNI Transform File'
mri_label_volume: could not open atlas transform file
/home/fniccoli/freesurfer/subjects/HD/Control_1/mri/transforms/talairach.xfm
Could you please help me?