Dear list,
I did a test on the aforementioned procedure. It turns out the fsaverage symbolic link will be automatically generated by FreeSurfer in the new SUBJECTS_DIRS location. So far, under my limited experience on FreeSurfer, I think that changing the location of subjects_dir after `source $FREESURFER_HOME/FreeSurferEnv.sh` should not introduce any unexpected events for the analysis?
Best, Foucault
On Wed, Jan 3, 2018 at 11:09 AM zuxfoucault Wong zuxfoucault@gmail.com wrote:
Dear list,
If I changed the location of subjects_dir (via `export SUBJECTS_DIRS=/new_location/) after `source $FREESURFER_HOME/FreeSurferEnv.sh`, could I still completely run the `recon-all -all`? I mean some folders in the default location of subjects_dir, such as fsaverage, would not be included in the new subjects_dir. Would this cause trouble to the subsequent freesurfer routine?
Thanks for your time!
Best, Foucault