anchor.diff:      PASAHOME="/venv/opt/pasa-2.4.1" \
       TRINITYHOME="/venv/opt/trinity-2.8.5" \
       QUARRY_PATH="/venv/opt/codingquarry-2.0/QuarryFiles" \
  +    ZOE="/usr/share/snap" \
       USER="me" \
       FUNANNOTATE_DB="/opt/databases"
   
  
positive.code: 
  # Install funannotate deps from bioconda
  RUN conda create -c conda-forge -c bioconda -c defaults \
      -n funannotate "python>=3.6,<3.9" funannotate
  
  # Since we want the most recent, install from repo
  SHELL ["conda", "run", "-n", "funannotate", "/bin/bash", "-c"]
  RUN conda remove --force -n funannotate funannotate && \
      python -m pip install git+https://github.com/nextgenusfs/funannotate.git
  
  # package with conda-pack
  
negative.code: # Copy /venv from the previous stage:
  COPY --from=build /venv /venv
  
  # Install debian snap via apt-get
  RUN apt-get update && apt-get install -y snap \
      && rm -rf /var/lib/apt/lists/* && \
      ln -s /usr/bin/snap-hmm /usr/bin/snap
  
  # add it to the PATH and add env variables
  ENV PATH="/venv/bin:$PATH" \
      AUGUSTUS_CONFIG_PATH="/venv/config" \
  