anchor.diff:  RUN git clone -b 'v1.0.4-beta' --single-branch --depth 1 https://github.com/vetscience/Tools
   RUN mv RepeatMasker-open-4-0-7.tar.gz /usr/local
   WORKDIR /usr/local
  +RUN wget http://www.repeatmasker.org/RepeatMasker-open-4-0-7.tar.gz
   RUN tar zxf RepeatMasker-open-4-0-7.tar.gz && rm -rf RepeatMasker-open-4-0-7.tar.gz
   WORKDIR RepeatMasker
  -RUN zcat /root/Dfam.hmm.gz > Libraries/Dfam.hmm && mv Libraries /root && ln -s /var/spool/cwl/Libraries .
  +RUN wget http://www.dfam.org/web_download/Release/Dfam_2.0/Dfam.hmm.gz
  +RUN zcat Dfam.hmm.gz > Libraries/Dfam.hmm && mv Libraries /root && ln -s /var/spool/cwl/Libraries .
  +RUN rm Dfam.hmm.gz
   RUN cp /root/Tools/Cwl/repeatmasker/RepeatMaskerConf/DateRepeats .
   RUN cp /root/Tools/Cwl/repeatmasker/RepeatMaskerConf/DupMasker .
   RUN cp /root/Tools/Cwl/repeatmasker/RepeatMaskerConf/ProcessRepeats .
  
positive.code: RUN mv recon.pl.new recon.pl && chmod uog+x recon.pl
  
  # Install nseg
  WORKDIR /root/nseg
  RUN make && mv nseg /usr/local/bin && mv nmerge /usr/local/bin
  
  # Install RepeatScout
  WORKDIR /root
  RUN tar zxf RepeatScout-1.0.5.tar.gz
  WORKDIR RepeatScout-1
  RUN make && mv build_lmer_table /usr/local/bin && mv RepeatScout /usr/local/bin
  
  # Install TRF
  RUN wget https://tandem.bu.edu/cgi-bin/trf/trf.download.pl?fileselect=30
  
negative.code: # Data configuration
  WORKDIR /root
  RUN wget http://www.repeatmasker.org/libraries/RepeatMaskerMetaData-20170127.tar.gz
  RUN tar zxf RepeatMaskerMetaData-20170127.tar.gz && rm -rf RepeatMaskerMetaData-20170127.tar.gz
  
  RUN cp Tools/Cwl/repeatmasker/initReps.sh . && cp Tools/Cwl/repeatmasker/repeatMasker.sh .
  RUN chmod uog+x initReps.sh && chmod uog+x repeatMasker.sh
  