synthstrip_N3 on Trillium

WIP

module loading

module load cobralab

Using qbatch for job submission

Generate the joblist (inputs can be mincs or niftis):

for file in inputs/*.mnc; do
    output_file=$(basename ${file%.mnc})
    echo synthstrip_N3.sh $file preprocessed_mincs/$output_file >> joblist.txt
done 

Run the joblist:

module load cobralab

qbatch -w 30:00 -c 8 joblist.txt