anchor.diff:    ln -s /opt/shapeit/bin/shapeit $ALEA_INSTALL_DIR/bin/ && \
     find $VCFTOOLS_INSTALL_DIR/bin/ -maxdepth 1 -perm -+x -type f | xargs -i ln -s {} $ALEA_INSTALL_DIR/bin/ && \
     find /opt/bedtools2/bin/ -maxdepth 1 -perm -+x -type f | xargs -i ln -s {} $ALEA_INSTALL_DIR/bin/ && \
  -  find /opt/bedtools2.2/bedtools2/bin/ -maxdepth 1 -perm -+x -type f | xargs -i ln -s {} $ALEA_INSTALL_DIR/bin/bedtools2.2 && \
     find /opt/bedops/bin/ -maxdepth 1 -perm -+x -type f | xargs -i ln -s {} $ALEA_INSTALL_DIR/bin/ && \
     find /opt/bismark_v0.16.3/ -maxdepth 1 -perm -+x -type f | xargs -i ln -s {} $ALEA_INSTALL_DIR/bin/ && \
     find /opt/tophat-2.1.1.Linux_x86_64/ -maxdepth 1 -perm -+x -type f | xargs -i ln -s {} $ALEA_INSTALL_DIR/bin/ && \
  -  ln -s /opt/STAR-2.5.3a/source/STAR $ALEA_INSTALL_DIR/bin/
  +  ln -s /opt/STAR-2.5.1b/source/STAR $ALEA_INSTALL_DIR/bin/
  +
  +#  find /opt/bedtools22/bedtools2/bin/ -maxdepth 1 -perm -+x -type f | xargs -i ln -s {} $ALEA_INSTALL_DIR/bin/bedtools22 && \
   
   RUN  find /opt/bowtie2-2.2.9/ -maxdepth 1 -perm -+x -type f | xargs -i ln -s {} /usr/local/bin/ 
   
  
positive.code: 
  WORKDIR /tmp
  RUN wget -q https://github.com/arq5x/bedtools2/releases/download/v2.22.0/bedtools-2.22.0.tar.gz && \
    mkdir /opt/bedtools2.2/ && \
    tar -xf bedtools-2.22.0.tar.gz -C /opt/bedtools2.2/
  WORKDIR /opt/bedtools2.2/bedtools2
  RUN make && \
    rm -f /tmp/bedtools-2.22.0.tar.gz
  
  
negative.code: ##########################################################################################
  # Dockerfile
  #
  # Software:         ALEA2
  # Software Version: alea.2.0
  # Description:      A toolbox for Allele-specific Epigenomics Analysis
  # Base Image:       java:7
  # Build Cmd:        docker build -t taskkoike/alea:2.0 /path/to/dockerfile-directory/
  # Note bene:        export ALEA2='docker run -v <path/to/host/alea/data>:/alea-data -i taskkoike/alea:2.0'
  # Run Cmd:          $ALEA2 setting
  ##########################################################################################
  
  FROM java:7
  