How to install FreeSurfer

laMEG requires FreeSurfer to process cortical surfaces.

Download Freesurfer 6.0.0

wget https://surfer.nmr.mgh.harvard.edu/pub/dist/freesurfer/6.0.0/freesurfer-Linux-centos6_x86_64-stable-pub-v6.0.0.tar.gz

sudo tar -C /usr/local -xzvf freesurfer-Linux-centos6_x86_64-stable-pub-v6.0.0.tar.gz

Add FREESURFER_HOME and SUBJECT_DIR to /home/<your username>/.bashrc:

export FREESURFER_HOME=/usr/local/freesurfer

source $FREESURFER_HOME/SetUpFreeSurfer.sh

export SUBJECTS_DIR=<path to subject data>

Add a license.txt File

Go to https://surfer.nmr.mgh.harvard.edu/registration.html and copy it into /usr/local/freesurfer.