3dSkullStrip

skullstrip all *.nii *.nii.gz files under $input_folder
bash skullstrip.sh $input_folder

Working on docker container

docker pull afni/afni_make_build:AFNI_22.2.05
docker build -t afni/afni_skullstrip:v1 .
bash RUN.sh $input_folder $output_directory

Warning All files/folders under $input_folder shouldn't contain space