- name: gatk4 mutect2 test_gatk4_mutect2_tumor_normal_pair
  command: nextflow run tests/modules/gatk4/mutect2 -entry test_gatk4_mutect2_tumor_normal_pair -c tests/config/nextflow.config
  tags:
    - gatk4
    - gatk4/mutect2
  files:
    - path: output/gatk4/test.f1r2.tar.gz
    - path: output/gatk4/test.vcf.gz
    - path: output/gatk4/test.vcf.gz.tbi

- name: gatk4 mutect2 test_gatk4_mutect2_tumor_single
  command: nextflow run tests/modules/gatk4/mutect2 -entry test_gatk4_mutect2_tumor_single -c tests/config/nextflow.config
  tags:
    - gatk4
    - gatk4/mutect2
  files:
    - path: output/gatk4/test.vcf.gz
    - path: output/gatk4/test.vcf.gz.tbi

- name: gatk4 mutect2 test_gatk4_mutect2_generate_pon
  command: nextflow run tests/modules/gatk4/mutect2 -entry test_gatk4_mutect2_generate_pon -c tests/config/nextflow.config
  tags:
    - gatk4
    - gatk4/mutect2
  files:
    - path: output/gatk4/test.vcf.gz
    - path: output/gatk4/test.vcf.gz.tbi