Thanks Antonin. Also, I got this error.log file in my label folder. Do you think it is due to the slash problem? Best, Paul
On Thu, Mar 2, 2017 at 4:38 PM, Antonin Skoch <a...@ikem.cz> wrote: > Dear Paul, > > I suppose the clue is following messages from your recon-all.log file: > > FREESURFER_HOME /opt/freesurfer-6.0.0/freesurfer/ > > and > > cd /net/synapse/nt/mozzoude/processing/freesurfer/176_003_120326; ln -s > /opt/freesurfer-6.0.0/freesurfer//subjects/fsaverage; cd - > > ln: failed to create symbolic link './fsaverage': File exists > > The problem is that your FREESURFER_HOME contains slash in the end. Remove it > and rerun relevant part of recon-all. It should work then. > > Antonin > > > > > Hello Freesurfer, > I was running recon-all in steps (recon-all -autorecon1, recon-all > -autorecon2, and recon-all - -T2 /T2 volume -T2pial autorecon3). However, > it exited with error during the BA_exvivo labels part of autorecon3 (please > see attached recon-all.log file). Please, how can I fix it? Thanks > Best, > Paul > > > _______________________________________________ > 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. > >
error.log
Description: Binary data
_______________________________________________ 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.
