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/freesurfer@nmr.mgh.harvard.edu/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 %--------------------------------------------------------------------------------------------------------------------------------------------