- name: mykrobe predict test_mykrobe_predict
  command: nextflow run ./tests/modules/mykrobe/predict -entry test_mykrobe_predict -c ./tests/config/nextflow.config  -c ./tests/modules/mykrobe/predict/nextflow.config
  tags:
    - mykrobe/predict
    - mykrobe
  files:
    - path: output/mykrobe/test.csv
      contains: ["susceptibility", "genotype_model", "variants", "test.paired_end.bam"]
    - path: output/mykrobe/test.json
      contains: ["susceptibility", "kmer_count", "files", "test.paired_end.bam"]