Hi Freesurfer team,
*Short question: *Will (accidentally) using the fsaverage v5.3 subject in our v5.1 directory influence our reconstructions?
*Long question:* Our server has 2 different freesurfer environments. A recon was accidentally run on a single v5.1 subject in the v5.1 directory with freesurfer version 5.3. During the “balabels” stage of autorecon3, because FS 5.3 couldn’t find the perirhinal label – it deleted our 5.1 symlink and replaced it with the correct 5.3 symlink. We realized it had happened and correct the subject, but didn’t catch that the symlink had been changed.
We have run multiple (hundreds) of brains through v5.1 since then – with the v5.3 fsaverage in the v5.1 directory.
A cursory glance over the release notes from 5.1 to 5.3 makes me think nothing has fundamentally changed – only new files have been added to fsaverage 5.3 (e.g. cortical parcellation networks). No new GCA atlas or anything that would change how FS 5.1 reconstructs the brain?
Thanks for any thoughts! Adam