anchor.diff:  #---------------------- Sequence Aligners --------------------------------
   # Aligner options: 1)*novoalign*  2)bowtie, 3)stampy, 4)bwa
   
  -# + novoalign
  +# + novoalign (registration required,  get compressed file and put in context dir for the build)
   ADD novocraftV3.02.06.Linux3.0.tar.gz /usr/local/pipeline/novocraftV3.02.06.Linux3.0
   RUN sed  -i '$aPATH=${PATH}:/usr/local/pipeline/novocraftV3.02.06.Linux3.0/novocraft' /home/pipeman/.bashrc
   
  
positive.code: 
  
  
  
  
  
  # Cleanup the temp dir
  RUN rm -rf /tmp/*
  
  
negative.code: 
  #------------------ Variant Annotation & Reports -------------------------
  # + ANNOVAR (see licence, and registration)
  # Available on reg:  http://www.openbioinformatics.org/annovar/download/Ht8qRwQSTi/annovar.latest.tar.gz
  # hmmm... no version on tar.
  ADD annovar.latest.tar.gz /usr/local/pipeline/
  RUN chown -R pipeman:ngsgroup /usr/local/pipeline/annovar \
      && sed -i '$aPATH=${PATH}:/usr/local/pipeline/pipeline/annovar' /home/pipeman/.bashrc
  
  
  #------------------------- NGS PIPELINE ----------------------------------
  RUN cd /usr/local/pipeline \
      && git clone https://github.com/KHP-Informatics/ngs.git \
      && sed -i '$aPATH=${PATH}:/usr/local/pipeline/ngs/molpath_ngs' /home/pipeman/.bashrc
  