test_sex_prediction.yml

- name: Teste da tarefa CountVariants. Conta het. e hom. no cromossomo X da amostra.
  command: miniwdl run --task CountVariants -i tests/count-variants.inputs.json predicao-de-sexo.wdl
  files:
    - path: "_LAST/out/counts/counts.tsv"
      contains:
        - "CXT070-001\t41\t554"
        - "KAB133-001\t35\t446"
        - "NQB080-001\t43\t546"
        - "OZX502-001\t220\t315"
        - "UQE098-001\t367\t382"

- name: Teste da tarefa CalculateCoverages. Verifica a cobertura na região SRY do cromossomo Y.
  command: miniwdl run --task CalculateCoverages -i tests/calculate-coverage.inputs.json predicao-de-sexo.wdl
  files:
    - path: "_LAST/out/coverages/coverages.txt"
      contains:
        - "CXT070-001.sry\tchrY\t2786854\t2787741\tSRY\t821\t739\t716\t688"
        - "KAB133-001.sry\tchrY\t2786854\t2787741\tSRY\t803\t724\t697\t677"
        - "NQB080-001.sry\tchrY\t2786854\t2787741\tSRY\t747\t709\t678\t649"
        - "OZX502-001.sry\tchrY\t2786854\t2787741\tSRY\t0\t0\t0\t0"
        - "UQE098-001.sry\tchrY\t2786854\t2787741\tSRY\t0\t0\t0\t0"

- name: Teste do workflow para predição de sexo.
  command: miniwdl run -i tests/inputs.json predicao-de-sexo.wdl
  files:
    - path: "_LAST/out/predictions/stdout.txt"
      contains:
        - "CXT070-001.sry\tmale"
        - "KAB133-001.sry\tmale"
        - "NQB080-001.sry\tmale"
        - "OZX502-001.sry\tfemale"
        - "UQE098-001.sry\tfemale"
        - "CXT070-001\tmale"
        - "KAB133-001\tmale"
        - "NQB080-001\tmale"
        - "OZX502-001\tfemale"
        - "UQE098-001\tfemale"