Hi, I have changed the path for subject directory. It causes the
error.Following is my SetUpFreeSurfer.csh What mistake did I made in?
#!/bin/tcsh -ef
#
# SetUpFreeSurfer.csh
#
# This is a sample SetUpFreeSurfer.csh file.
# Edit as needed for your specific setup.
# The defaults should work with most installations.
# Set this to the location of the freesurfer installation.
if (! $?FREESURFER_HOME) then
setenv FREESURFER_HOME /usr/local/freesurfer/stable5
endif
# Set this to your subjects/ dir, usually freesurfer/subjects/
#setenv SUBJECTS_DIR $FREESURFER_HOME/subjects (original path)
if (! $?SUBJECTS_DIR) then
setenv SUBJECTS_DIR /media/sf_F_DRIVE/ADHD200/Classification/Processed
endif
# Set this to your functional sessions dir, usually freesurfer/sessions/
if (! $?FUNCTIONALS_DIR) then
setenv FUNCTIONALS_DIR $FREESURFER_HOME/sessions
endif
# Specify the location of the MINC tools.
# Necessary only if the script $FREESURFER_HOME/FreeSurferEnv.csh
# does not find the tools (and issues warnings pertaining to
# the following two environment variables, which have example
# locations that might need user-specific modification):
#setenv MINC_BIN_DIR /usr/pubsw/packages/mni/current/bin
#setenv MINC_LIB_DIR /usr/pubsw/packages/mni/current/lib
# ... or just disable the MINC toolkit (although some Freesurfer
# utilities will fail!)
#setenv NO_MINC
# Enable or disable fsfast (enabled by default)
#setenv NO_FSFAST
# Call configuration script:
source $FREESURFER_HOME/FreeSurferEnv.csh
Following is the recon-all.error
------------------------------
SUBJECT TDC-49
DATE Wed Feb 4 16:41:31 KST 2015
USER naveed-centos
HOST localhost.localdomain
PROCESSOR x86_64
OS Linux
Linux localhost.localdomain 2.6.32-431.5.1.el6.x86_64 #1 SMP Wed Feb 12
00:41:43 UTC 2014 x86_64 x86_64 x86_64 GNU/Linux
$Id: recon-all,v 1.379.2.73 2013/05/12 23:15:37 nicks Exp $
/home/naveed-centos/freesurfer/bin/recon-all
PWD /media/sf_F_DRIVE/ADHD200/Classification/Processed/TDC-49/mri
CMD mri_nu_correct.mni --n 1 --proto-iters 1000 --distance 50 --no-rescale --i
orig.mgz --o orig_nu.mgz
Best Regards,
Muhammad Naveed Iqbal QureshiP please don't print this e-mail unless you really
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