a skullstrip problem

[Zhang zhijun]

Dear all:           I use freesurfer to process a brain data and I met a problem.  In running "Process volume" . It can't finish and the message pop up said: _____ |Alert| Images(brain) /tmp/lab/exp/subject/bee04/mri/brain/cor-001... not found .. stripskull first.   but in the process display, it shows the stripskull have been finished. _______________ |Process Volume |                 done  ---- normalize intensities                done  ---- stripskull                in progress --- segment white matter.   There seems no solution for this problem in the manual. I think it should be related with my image intensity and the image is dark. The white matter intensity of the image is about 70. I don't know how to tune the parameters in preference menu. Is there any general suggestion for this problem?  I attach my log file in this mail.   ######################################################  csurf0.9: log ending: Fri Dec 19 00:53:24 HKT 2003 ###################################################### #############  Command Log ############# /home/freesurfer-20030724/freesurfer/bin/Linux/mri_average -conform /tmp/lab/exp/subject/bee04/mri/orig/001/COR-.info /tmp/lab/exp/subject/bee04/mri/orig interpolating volume to be isotropic 1mm^3 reading /tmp/lab/exp/subject/bee04/mri/orig/001/COR-.info... embedding and interpolating volume writing to /tmp/lab/exp/subject/bee04/mri/orig... alignment and averaging took 0 minutes and 11 seconds.   Command Finished /home/freesurfer-20030724/freesurfer/bin/Linux/mri_normalize  /tmp/lab/exp/subject/bee04/mri/orig /tmp/lab/exp/subject/bee04/mri/T1 reading from /tmp/lab/exp/subject/bee04/mri/orig... normalizing image... 3d normalization pass 1 of 2 building Voronoi diagram... performing soap bubble smoothing... 3d normalization pass 2 of 2 building Voronoi diagram... performing soap bubble smoothing... writing output to /tmp/lab/exp/subject/bee04/mri/T1 3D bias adjustment took 7 minutes and 13 seconds.   Command Finished /home/freesurfer-20030724/freesurfer/bin/Linux/mri_watershed  /tmp/lab/exp/subject/bee04/mri/T1 /tmp/lab/exp/subject/bee04/mri/brain   ************************************************************ The input file is /tmp/lab/exp/subject/bee04/mri/T1 The output file is /tmp/lab/exp/subject/bee04/mri/brain If this is incorrect, please exit quickly the program (Ctl-C) *************************WATERSHED************************** preflooding height equal to 25 percent Sorting...       T1-weighted MRI image       modification of the preflooding height to 15 percent       Find the largest 110-component... Command Finished ###########  Medit Log ########### ############  Surfer Log ############   regards, zhang zhijun