question about generating wmparc.stats - Freesurfer

3 Mar 2008


      Hi again,
I had a quick question about generating wmparc.stats.  I have tried to run recon3 with the -wmparc flag and have encountered an error where ?h.smoothwm is not being read even though my /surf folder has the files.  Below is the output of what occurs in my xterm.  We have v4.0.2 of FS on Leopard 10.5.2.
Thanks in advance,
-t
==============================================================================
recon-all -autorecon -wmparc -no-isrunning -subjid St14-Initial
INFO: SUBJECTS_DIR is /Volumes/ZetaData/Teddysfolder/CorrectedBrainsSiemens/TBISt14
Actual FREESURFER_HOME /Applications/freesurfer -rwxrwxrwx  1 teresa  teresa  2712975 Mar  3 17:41 /Volumes/ZetaData/Teddysfolder/CorrectedBrainsSiemens/TBI/St14/St14-Initial/scripts/recon-all.log
Darwin 0-1d-4f-48-96-f4.dyn.utdallas.edu 9.2.0 Darwin Kernel Version 9.2.0: Tue
Feb  5 16:13:22 PST 2008; root:xnu-1228.3.13~1/RELEASE_I386 i386
#--------------------------------------------
#@# Sphere lh Mon Mar  3 17:43:27 CST 2008
/Volumes/ZetaData/Teddysfolder/CorrectedBrainsSiemens/TBI/St14/St14-Initial/scripts
\n mris_sphere ../surf/lh.inflated ../surf/lh.sphere \n
$Id: mris_sphere.c,v 1.47 2007/03/08 18:36:08 greve Exp $
  $Id: mrisurf.c,v 1.557.2.5 2007/12/10 20:20:29 nicks Exp $
reading original vertex positions...
MRISreadVertexPositions(../surf/lh.smoothwm): surfaces differ. Main: 194252 ver
s 390408 faces, smoothwm: 188404 verts 378044 faces
No such file or directory
MRISreadOriginalProperties: could not read surface file smoothwm
No such file or directory
Darwin 0-1d-4f-48-96-f4.dyn.utdallas.edu 9.2.0 Darwin Kernel Version 9.2.0: Tue
Feb  5 16:13:22 PST 2008; root:xnu-1228.3.13~1/RELEASE_I386 i386
recon-all exited with ERRORS at Mon Mar  3 17:43:30 CST 2008
Doris Duke Clinical Research Fellow '07-'08 
North Texas TBI Research Center
UT Southwestern Medical Center at Dallas 
Warren Alpert School of Medicine at Brown University, MD '09
Teddy.Youn@utsouthwestern.edu 
(401)-714-2847