Dear FreeSurfer experts,
I am using mris_preproc command with following options:
mris_preproc --s s_001 --s s_002 --s s_003 --target my_subject_average --hemi lh --meas my_input_surf.mgh --out /my_output_path/output_file
I observe mris_preproc uses mri_surf2surf. My question is related to Freesurfer version. Using FreeSurfer 5.3, mri_surf2surf takes sphere.reg as srcsurfreg, while with Freesurfer 6 script mri_surf2surf has changed. It takes my_subject_average.sphere.reg (target of mris_preproc) as srcsurfreg. I get an error because my_subject_average.sphere.reg file doesn't exist inside s_001 folder.
Why Freesurfer 6 changes srcsurfreg to $target.sphere.reg? What can I do in order to be coherent with my script which was designed using Freesurfer 5.3?
Thanks in advance,
M del Mar