- 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: d088422be886dc8507ff97fcc7dd968a
    - path: output/gatk4/versions.yml

- 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: 4bfa18d651abd945e240b05e70107716
    - path: output/gatk4/versions.yml

- 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: 2e0bca197af4f043a4a85152e6edbe04
    - path: output/gatk4/versions.yml