anchor.diff:  ############################################################################################
   FROM base AS run
   
  -RUN echo run > /stage.txt
  -
  -RUN ls -lah /vg || echo "No vg directory exists yet"
  -
   COPY --from=build /vg/bin/vg /vg/bin/
   
  -RUN ls -lah /vg || echo "No vg directory exists yet"
  -
   COPY --from=build /vg/scripts/* /vg/scripts/
  -
  -RUN ls -lah /vg || echo "No vg directory exists yet"
   
   # Install packages which toil-vg needs to be available inside the image, for pipes
   # TODO: which of these can be removed?
  
positive.code: 
  ############################################################################################
  FROM build AS test
  
  RUN echo test > /stage.txt
  
  # The test need BWA
  COPY --from=quay.io/ucsc_cgl/bwa:0.7.15--a17c6544342330f6ea7a23a37d23273ab1c52d21 /usr/local/bin/bwa /usr/local/bin/bwa
  
negative.code: FROM ubuntu:18.04 AS base
  MAINTAINER vgteam
  
  WORKDIR /vg
  
  FROM base AS build
  
  # Copy vg build tree into place
  COPY . /vg
  
  # Install the base packages needed to let vg install packages.
  # Make sure this runs after vg sources are imported so vg will always have an
  