- name: checkm lineagewf
  command: nextflow run ./tests/modules/checkm/lineagewf -entry test_checkm_lineagewf -c tests/config/nextflow.config
  tags:
    - checkm
    - checkm/lineagewf
  files:
    - path: output/checkm/test.tsv
      md5sum: d5559764f563c4b55223e4e4a3dc1ec9
    - path: output/checkm/test/checkm.log
      contains:
        - "INFO: Parsing HMM hits to marker genes:"
    - path: output/checkm/test/lineage.ms
      contains:
        - "# [Lineage Marker File]"
        - "contigs"
        - "UID1"

- name: checkm lineagewf_multi
  command: nextflow run ./tests/modules/checkm/lineagewf -entry test_checkm_lineagewf_multi -c tests/config/nextflow.config
  tags:
    - checkm
    - checkm/lineagewf
  files:
    - path: output/checkm/test.tsv
      md5sum: 7e0fa177dcf151b84b7751813fbde3d1
    - path: output/checkm/test/checkm.log
      contains:
        - "INFO: Parsing HMM hits to marker genes:"
    - path: output/checkm/test/lineage.ms
      contains:
        - "# [Lineage Marker File]"
        - "contigs"
        - "UID1"
        - "genome"