refgenie_build_cfg.yaml

sample_table: assets.csv
subsample_table:
  - recipe_inputs.csv
  - genome_descriptions.csv
looper:
  output_dir: $GENOMES
  pipeline_interfaces: ../pipeline_interfaces/archive_pi.yaml

sample_modifiers:
  append:
    local_input: "LOCAL_INPUT"
    sample_name: "sn"
    pipeline_interfaces: ../pipeline_interfaces/build_piface.yaml
  derive:
    attributes: ['sample_name', 'local_input']
    sources:
      sn: "{genome}-{asset}"
      LOCAL_INPUT: "$REFGENIE_RAW/{genome}-{asset}-"

project_modifiers:
  amend:
    getfiles:
      sample_modifiers:
        remove:
          - pipeline_interfaces
        append:
          pipeline_interfaces: ../pipeline_interfaces/wget_piface.yaml
    archive:
      sample_modifiers:
        append:
          pipeline_interfaces: ../pipeline_interfaces/archive_piface.yaml