Hi Jeff,
I think you'll have to run with -force. In the newer version 5.1, this is updated so that you don't have to anymore. And you might be right that deleting the folder is not a good idea since the edits were made in there. If you made edits in the cross and want to rerun the base, then you can either do -force or delete the folder or delete whichever file you made edits on (if made edits on wm.mgz in cross, delete wm.mgz in base).
Martin, is that correct?
-Khoa
On Wed, 20 Jul 2011, Jeff Sadino wrote:
Hello,
I have a subject with three timepoints I am putting through the longitudinal stream in fs 5.0.0. After the base template was created, I edited some of the pial surfaces on the base. Now when I run the command: "recon-all -base subject -autorecon2-pial -autorecon3", it says: "ERROR: /mnt/fs5/050079 exists, delete or re-run with -force" This is confusing to me because if I delete the folder, then wont my edits also be deleted? I ran it using the force flag, and it seems to be going ok. I just want to ask if this is the best way to do this.
Thank you, Jeff Sadino