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Before running anything on FreeSurfer on Artemis, you must:

1. load the module. e.g.

module load freesurfer/7.0.1

2. export subjects directory (Identify the directory where in which your subject folders are located)(in FreeSurfer format) are located

e.g. If your subjects are located in a structure that looks like this:

-scratch

-Project

-FreeSurferSubjectFolder

-subject_1

-subject_2

-subject_3

export SUBJECTS_DIR=/scratch/project/FreeSurferSubjectFolder

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