anchor.diff:  
   ENV PATH /home/linuxbrew/Cancer_Epitopes_CSHL/src:/usr/local/bin/OptiType/:$PATH
   
  +# Clean Up
  +RUN apt-get clean && rm -rf /var/lib/apt/lists/* /tmp/* /var/tmp/*
   
   #USER linuxbrew
   RUN cd /home/linuxbrew && git clone https://github.com/NCBI-Hackathons/Cancer_Epitopes_CSHL.git
  
positive.code: USER root
  RUN pip install git+https://github.com/FRED-2/Fred2
  RUN pip install docopt numpy pyomo pysam matplotlib tables  pandas  future 
  
  # FRED 2  
  RUN apt-get update && apt-get install -y vim software-properties-common \
  
negative.code: 
  USER root
  RUN apt-get update && apt-get install -y \
  curl g++ gawk git m4 make patch ruby tcl bzip2 libarchive-zip-perl  libdbd-mysql-perl  libjson-perl cmake libncurses5-dev
  
  RUN apt-get install -y build-essential default-jdk gfortran texinfo unzip samtools \
  	libbz2-dev libcurl4-openssl-dev libexpat-dev libncurses-dev zlib1g-dev libmysqlclient-dev
  