External Email - Use Caution Hello Eugenio,
Thanks for the response. All my processing was done with FreeSurfer v6.0 although, we have version 5.3 installed on the server too. I always set my environment to version 6 ( export FREESURFER_HOME=/opt/freesurfer-6.0.0/freesurfer; source $FREESURFER_HOME/SetUpFreeSurfer.sh) before running any processing. Also, our server has matlab2008b installed but, it expired hence, i don't think that will interfere with the processing because we installed the correct/recent matlab runtime. Best, Miracle On Wed, May 30, 2018 at 11:35 AM, Iglesias Gonzalez, Eugenio < e.igles...@ucl.ac.uk> wrote: > External Email - Use Caution > > Hi Miracle, > > I believe Doug (CCed) ran into a similar problem recently, and I think the > problem had to do with mixing versions. > > What exact version are you using? > > Cheers, > > /Eugenio > > > > -- > > Juan Eugenio Iglesias > > ERC Senior Research Fellow > > Centre for Medical Image Computing (CMIC) > > University College London > > http://www.jeiglesias.com > > http://cmictig.cs.ucl.ac.uk/ > > > > > > *From: *<freesurfer-boun...@nmr.mgh.harvard.edu> on behalf of miracle > ozzoude <miracoo...@gmail.com> > *Reply-To: *Freesurfer support list <freesurfer@nmr.mgh.harvard.edu> > *Date: *Wednesday, 30 May 2018 at 16:11 > *To: *Douglas N Greve <freesurfer@nmr.mgh.harvard.edu> > *Subject: *[Freesurfer] hippocampal subfield segmentation error (fsv6.0) > > > > * External Email - Use Caution * > > Hello, > > > > I am using v6.0 installed on a linux server (via PUTTY) to segment > hippocampal subfields. I downloaded the runtime from this link ( > https://surfer.nmr.mgh.harvard.edu/fswiki/MatlabRuntime) and followed the > instructions on how to install it ( it was installed on the same server as > v6.0). The installation process worked fine. > > > > However, when I wanted to run recon-all on already processed FS data ( > e.g. recon-all -s ${SUBJECTS_DIR}/$session -hippocampal-subfields-T1 > -parallel -openmp 6 -bigventricles -3T -time), I encountered an error. I > have attached the log for your viewing. Thank you. > > > > Best, > > Miracle > > _______________________________________________ > 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. > >
_______________________________________________ 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.
