your solution of copying fsaverage and the EC_average dirs to your SUBJECTS_DIR is the proper one in this case. symlinks are used only to save space.
this data (fsaverage and EC_average) is used only during recon-all, and doesnt need to 'travel' with the subject data (unless you intend to recon-all later, or perform group analysis). you should be able to move your subject data around without a problem (there are no other symlink except those two). n. On Wed, 2011-11-02 at 18:22 +0000, Vy Dinh wrote: > Dear experts, > > > We have recently encountered processing errors (during recon-all and > -autorecon2&3) due to the creation of symbolic links within our > SUBJECTS_DIR. Since our data were located on a data mount, the system > somehow could not source the linked file. We have addressed this issue > by directly copying fsaverage and th *EC_average files directly to our > current SUBJECTS_DIR so that the symbolic links did not need to be > created. > > > However, this brings to light some another concern. The subjects for > our study were processed on a local computer and then copied to the > server so that they could be processed on multiple computers. Since we > wanted to keep a copy of the "raw" reconned data, we copied these > subjects to another directory and proceeded to do manual edits. Are > there other symbolic links created within the subjects directories or > SUBJECTS_DIR that would become defunct with these copies? I read a > post in the Freesurfer forum that the link to fsaverage (and other > folders) were only created during recon-all for display purposes. > However, when running group analyses, these folders/files will need to > be accessed, so does that mean that we would have to change the path > info in these links? Would you caution against moving the subject > directories after recon-all has been run? Rather than all the steps in > run recon-all again, are there specific functions that will recreate > these links? > > > Thanks, > > > Vy T.U. Dinh > Research Assistant, Neurological Sciences > Rush University Medical Center > Phone: (312) 563-3853 > Fax: (312) 563-4660 > Email: vy_d...@rush.edu > > _______________________________________________ > Freesurfer mailing list > Freesurfer@nmr.mgh.harvard.edu > https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer _______________________________________________ Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer The information in this e-mail is intended only for the person to whom it is addressed. If you believe this e-mail was sent to you in error and the e-mail contains patient information, please contact the Partners Compliance HelpLine at http://www.partners.org/complianceline . If the e-mail was sent to you in error but does not contain patient information, please contact the sender and properly dispose of the e-mail.
