- name: gatk4 applybqsr test_gatk4_applybqsr
  command: nextflow run tests/modules/gatk4/applybqsr -entry test_gatk4_applybqsr -c tests/config/nextflow.config -c ./tests/modules/gatk4/applybqsr/nextflow.config
  tags:
    - gatk4
    - gatk4/applybqsr
  files:
    - path: output/gatk4/test.bam
      md5sum: 908825edf1f229a072f91d8b753d95dd
    - path: output/gatk4/versions.yml
      md5sum: b65c46529ae9658db0c596cbc26505c2

- name: gatk4 applybqsr test_gatk4_applybqsr_intervals
  command: nextflow run tests/modules/gatk4/applybqsr -entry test_gatk4_applybqsr_intervals -c tests/config/nextflow.config -c ./tests/modules/gatk4/applybqsr/nextflow.config
  tags:
    - gatk4
    - gatk4/applybqsr
  files:
    - path: output/gatk4/test.bam
      md5sum: 50f8a79c7d528e02470416f81eb582bc
    - path: output/gatk4/versions.yml
      md5sum: 17c8a40b3537e3400edebd1826d28385

- name: gatk4 applybqsr test_gatk4_applybqsr_cram
  command: nextflow run tests/modules/gatk4/applybqsr -entry test_gatk4_applybqsr_cram -c tests/config/nextflow.config -c ./tests/modules/gatk4/applybqsr/nextflow.config
  tags:
    - gatk4
    - gatk4/applybqsr
  files:
    - path: output/gatk4/test.cram
      md5sum: cd8d4ba6181f714e74641adeb2f9aa1d
    - path: output/gatk4/versions.yml
      md5sum: 35218922e1929c699ea64de9f4c29fb5