FreeSurfer

FreeSurfer is a software package for the analysis and visualization of structural and functional neuroimaging data from cross-sectional or longitudinal studies.

To set up your environment run the command for the version you want to use:

 . /opt/netapps/freesurfer/setup-freesurfer-v7.4.1.sh
 . /opt/netapps/freesurfer/setup-freesurfer-v8.2.0.sh
 . /opt/netapps/freesurfer/setup-freesurfer-dev.sh

To automatically set up your environment when you open a terminal, run the command for the version you want to use:

 echo "source /opt/netapps/freesurfer/setup-freesurfer-v7.4.1" >> ~/.bashrc
 echo "source /opt/netapps/freesurfer/setup-freesurfer-v8.2.0" >> ~/.bashrc
 echo "source /opt/netapps/freesurfer/setup-freesurfer-dev" >> ~/.bashrc
 

To check if FreeSurfer is working, you can run the following command:

 /opt/netapps/freesurfer/setup-freesurfer-v7.4.1.sh -t
 /opt/netapps/freesurfer/setup-freesurfer-v8.2.0.sh -t
 /opt/netapps/freesurfer/setup-freesurfer-dev.sh -t