mkdir -p out-random-6class
Atropos -v -d 3 -a garbage_data-label.nii.gz -x redacted-brainmask-map.nii.gz -i random[6] -c [5,0.0001] -m [1,1x1x1] -k HistogramParzenWindows -o [out-random-6class/classified.nii.gz,out-random-6class/posterior%02d.nii.gz]
mkdir -p out-random-3class
Atropos -v -d 3 -a garbage_data-label.nii.gz -x redacted-brainmask-map.nii.gz -i random[3] -c [5,0.0001] -m [1,1x1x1] -k HistogramParzenWindows -o [out-random-3class/classified.nii.gz,out-random-3class/posterior%02d.nii.gz]
mkdir -p out-kmeans-3class
Atropos -v -d 3 -a garbage_data-vesselness.nii.gz -x redacted-brainmask-map.nii.gz -i kmeans[3] -c [5,0.0001] -m [1,1x1x1] -k HistogramParzenWindows -o [out-kmeans-3class/classified.nii.gz,out-kmeans-3class/posterior%02d.nii.gz]

mkdir -p out-nobug-kmeans-3class
Atropos -v -d 3 -a CTBrain.nii.gz -x brainmask.nii.gz -i kmeans[3] -c [5,0.0001] -m [1,1x1x1] -k HistogramParzenWindows -o [out-nobug-kmeans-3class/classified.nii.gz,out-nobug-kmeans-3class/posterior%02d.nii.gz]
mkdir -p out-nobug-random-3class
Atropos -v -d 3 -a CTBrain.nii.gz -x brainmask.nii.gz -i random[3] -c [5,0.0001] -m [1,1x1x1] -k HistogramParzenWindows -o [out-nobug-random-3class/classified.nii.gz,out-nobug-random-3class/posterior%02d.nii.gz]

python compute_mean_maximum_posterior.py redacted-brainmask-map.nii.gz out-random-6class
python compute_mean_maximum_posterior.py redacted-brainmask-map.nii.gz out-random-3class
python compute_mean_maximum_posterior.py redacted-brainmask-map.nii.gz out-kmeans-3class

python compute_mean_maximum_posterior.py brainmask.nii.gz out-nobug-kmeans-3class
python compute_mean_maximum_posterior.py brainmask.nii.gz out-nobug-random-3class