Hi Laura,

So the 'freesurfer' command works but all other other freesurfer commands (e.g. tkmedit, freeview) return "Command not found."?

Can you please provide me with the out of the 'echo $PATH' command? Thanks.

-Zeke

On 10/21/2013 12:34 PM, Laura Taylor wrote:

Hi,

I have just downloaded and I thought installed freesurfer on a Debian system (Debian 3.2.51-1 x86_64 GNU/Linux). However when I go to test the install by typing in freeview (or any other command) in the terminal window I get the following:

% freeview freeview: Command not found.

Before doing this, I added my license key to a .license file in the freesurfer directory. I had also previously set up the environment as follows:

% setenv FREESURFER_HOME /Data/freesurfer % source $FREESURFER_HOME/SetUpFreeSurfer.csh -------- freesurfer-Linux-centos6_x86_64-stable-pub-v5.3.0 -------- Setting up environment for FreeSurfer/FS-FAST (and FSL) FREESURFER_HOME /Data/freesurfer FSFAST_HOME /Data/freesurfer/fsfast FSF_OUTPUT_FORMAT nii.gz SUBJECTS_DIR /Data/freesurfer/subjects MNI_DIR /Data/freesurfer/mni

When I type freesurfer in the terminal window I am told that:

You are running this version of FreeSurfer:

freesurfer-Linux-centos6_x86_64-stable-pub-v5.3.0

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Can you help me figure out why I can't get freesurfer to run?? I have previously been able to install and use freesurfer on a different computer running Unbuntu.

Many Thanks,

Laura

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