Can you run it with -debug as the first option and send me the terminal output? On 08/27/2013 12:36 PM, pfot...@nmr.mgh.harvard.edu wrote: > Hi Doug, > > The same error message comes up. > > Panos > >> try this instead >> >> recon-all -all -subjid CAA_022_struc >> >> On 08/27/2013 11:23 AM, pfot...@nmr.mgh.harvard.edu wrote: >>> Hi FS Commuity, >>> >>> I am using the stable version 5.3 of FS to recon-all a subject of mine, >>> but the job is aborted and gives the following message: >>> >>> The command that I ran is: recon-all -all -subjid >>> /cluster/ichresearch/Petechial/MEG/CAA_022_struc >>> >>> >>> Subject Stamp: >>> freesurfer-Linux-centos6_x86_64-stable-v5.3.0-20130514 >>> Current Stamp: >>> freesurfer-Linux-centos6_x86_64-stable-v5.3.0-20130514 >>> INFO: SUBJECTS_DIR is /autofs/cluster/ichresearch/Petechial/MEG >>> Actual FREESURFER_HOME >>> /autofs/cluster/freesurfer/centos6_x86_64/stable5_3_0 >>> Linux eesmith 2.6.32-279.22.1.el6.x86_64 #1 SMP Wed Feb 6 03:10:46 >>> UTC >>> 2013 x86_64 x86_64 x86_64 GNU/Linux >>> #-------------------------------------------- >>> #@# MotionCor Tue Aug 27 11:09:19 EDT 2013 >>> Found 2 runs >>> >>> /autofs/cluster/ichresearch/Petechial/MEG/CAA_022_struc/mri/orig/001.mgz >>> >>> /autofs/cluster/ichresearch/Petechial/MEG/CAA_022_struc/mri/orig/002.mgz >>> Checking for (invalid) multi-frame inputs... >>> if: Expression Syntax. >>> Exit 1 >>> >>> Also, I tried doing the same recon-all with the stable 5.0 version and >>> it >>> runs fine. Therefore, I was wondering whether you could tell me why is >>> this happening. By the way I have also attached the recon-all.log. >>> >>> Thank you for your time. >>> >>> Best, >>> Panos >>> >>> >>> _______________________________________________ >>> Freesurfer mailing list >>> Freesurfer@nmr.mgh.harvard.edu >>> https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer >> -- >> Douglas N. Greve, Ph.D. >> MGH-NMR Center >> gr...@nmr.mgh.harvard.edu >> Phone Number: 617-724-2358 >> Fax: 617-726-7422 >> >> Bugs: surfer.nmr.mgh.harvard.edu/fswiki/BugReporting >> FileDrop: https://gate.nmr.mgh.harvard.edu/filedrop2 >> www.nmr.mgh.harvard.edu/facility/filedrop/index.html >> Outgoing: ftp://surfer.nmr.mgh.harvard.edu/transfer/outgoing/flat/greve/ >> >> _______________________________________________ >> 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 > >
-- Douglas N. Greve, Ph.D. MGH-NMR Center gr...@nmr.mgh.harvard.edu Phone Number: 617-724-2358 Fax: 617-726-7422 Bugs: surfer.nmr.mgh.harvard.edu/fswiki/BugReporting FileDrop: https://gate.nmr.mgh.harvard.edu/filedrop2 www.nmr.mgh.harvard.edu/facility/filedrop/index.html Outgoing: ftp://surfer.nmr.mgh.harvard.edu/transfer/outgoing/flat/greve/ _______________________________________________ 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.
