Hi Yuko, can you try running: getrunlist /Users/yuko/Documents/FreeSurfer/sessions/VM/VM20/bold
If that fails, try this: cd /Users/yuko/Documents/FreeSurfer/sessions/VM/VM20/bold doug yuko YY wrote: > Hello, > > I recently switch to version 5, and am having a problem with > preproc-sess in version 5.0. > version: freesurfer-Darwin-leopard-i686-stable-pub-v5.0.0 > OS : Mac 10.6.5 > > When I ran: > preproc-sess -per-session -fwhm 5 -force -surface VM20 lhrh -df > sessdirfile -s VM20 -fsd bold > > I got the following error: > %-------------------------------------------------------------------------------------------------------------------------------------------- > [Yukos-iMac:sessions/VM/VMan] yuko% preproc-sess -per-session -fwhm 5 > -force -surface VM20 lhrh -df sessdirfile -s VM20 -fsd bold > -------------------------------------------------------------- > preproc-sess logfile is log/preproc-sess.log > -------------------------------------------------------------- > $Id: preproc-sess,v 1.31.2.4 2010/07/26 15:55:24 greve Exp $ > yuko > setenv FREESURFER_HOME /Applications/freesurfer/freesurfer > setenv SUBJECTS_DIR /Users/yuko/Documents/freesurfer/subjects > Darwin Yukos-iMac.local 10.5.0 Darwin Kernel Version 10.5.0: Fri Nov > 5 23:20:39 PDT 2010; root:xnu-1504.9.17~1/RELEASE_I386 i386 > /Users/yuko/Documents/FreeSurfer/sessions/VM/VMan > /Applications/freesurfer/freesurfer/fsfast/bin/preproc-sess > -per-session -fwhm 5 -force -surface VM20 lhrh -df sessdirfile -s VM20 > -fsd bold > Tue Nov 23 19:46:29 JST 2010 > instem f > mc 1 f fmcpr > stc 0 fmcpr > sm 0 > mask 1 brain > VM20 Template ----------------------------- > mktemplate-sess -s VM20 -d > /Users/yuko/Documents/FreeSurfer/sessions/VM -fsd bold > > Session: /Users/yuko/Documents/FreeSurfer/sessions/VM/VM20 > ---------------- > Tue Nov 23 19:46:29 JST 2010 > find: illegal option -- m > find: illegal option -- a > find: illegal option -- e > find: illegal option -- p > find: illegal option -- t > find: illegal option -- h > find: 1: No such file or directory > ERROR: no run directories found > %-------------------------------------------------------------------------------------------------------------------------------------------- > > I found the same error reported in msg14982, but couldn't find a solution. > http://www.mail-archive.com/[email protected]/msg14982.html > > Can anyone tell me what I need to do to make this work? > Yuko Yotsumoto > > > % additional info > -------------------------------------------------------------------------------------------------------------------------------------------- > My data are at: > sessions/VM/VM20/bold/001/f.nii > sessions/VM/VM20/bold/002/f.nii > .. > sessions/VM/VM20/bold/009/f.nii > > and my study directory is at: > sessions/VM/VMan/ > > subject is at: > subjects/VM20 > %-------------------------------------------------------------------------------------------------------------------------------------------- > > ------------------------------------------------------------------------ > > _______________________________________________ > Freesurfer mailing list > [email protected] > https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer -- Douglas N. Greve, Ph.D. MGH-NMR Center [email protected] Phone Number: 617-724-2358 Fax: 617-726-7422 Bugs: surfer.nmr.mgh.harvard.edu/fswiki/BugReporting FileDrop: www.nmr.mgh.harvard.edu/facility/filedrop/index.html _______________________________________________ Freesurfer mailing list [email protected] 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.
