anchor.diff:  ENV PATH=/opt/freesurfer/bin:/usr/lib/fsl/5.0:/usr/lib/ants:/mrtrix3/release/bin:/mrtrix3/scripts:$PATH
   ENV PYTHONPATH=/mrtrix3/scripts
   
  -# Copied from another dockerfile; not sure...
  -RUN mkdir /oasis
  -RUN mkdir /projects
  -RUN mkdir /scratch
  -RUN mkdir /local-scratch
  -
  -# Target mount points
  -RUN mkdir /bids_dataset
  -RUN mkdir /outputs
  -
   ENTRYPOINT ["/run.py"]
  
positive.code: RUN apt-get install -y ants
  RUN apt-get install -y fsl-5.0-core
  RUN apt-get install -y fsl-5.0-eddy-nonfree
  RUN apt-get install -y fsl-first-data 
  RUN wget -qO- ftp://surfer.nmr.mgh.harvard.edu/pub/dist/freesurfer/5.3.0-HCP/freesurfer-Linux-centos4_x86_64-stable-pub-v5.3.0-HCP.tar.gz | tar zxv -C /opt
  # TODO Acquire own FreeSurfer license file
  RUN echo $'fsa@brain.org.au\n13477\n*CCll67nWRT9.\n' > /opt/freesurfer/license
  
negative.code: # Acquire script to be executed
  RUN cd ../ && wget https://raw.githubusercontent.com/BIDS-Apps/MRtrix3_connectome/master/run.py && chmod 775 run.py
  
  # Setup environment variables
  ENV FREESURFER_HOME=/opt/freesurfer
  ENV FSLDIR=/usr/share/fsl/5.0
  ENV FSLOUTPUTTYPE=NIFTI_GZ
  