- name: gatk4 filtermutectcalls test_gatk4_filtermutectcalls_base
  command: nextflow run ./tests/modules/gatk4/filtermutectcalls -entry test_gatk4_filtermutectcalls_base -c ./tests/config/nextflow.config -c ./tests/modules/gatk4/filtermutectcalls/nextflow.config
  tags:
    - gatk4
    - gatk4/filtermutectcalls
  files:
    - path: output/gatk4/test.filtered.vcf.gz
    - path: output/gatk4/test.filtered.vcf.gz.filteringStats.tsv
      md5sum: 55f228e5520c8b9fbac017d3a3a6c5fd
    - path: output/gatk4/test.filtered.vcf.gz.tbi

- name: gatk4 filtermutectcalls test_gatk4_filtermutectcalls_with_files
  command: nextflow run ./tests/modules/gatk4/filtermutectcalls -entry test_gatk4_filtermutectcalls_with_files -c ./tests/config/nextflow.config -c ./tests/modules/gatk4/filtermutectcalls/nextflow.config
  tags:
    - gatk4
    - gatk4/filtermutectcalls
  files:
    - path: output/gatk4/test.filtered.vcf.gz
    - path: output/gatk4/test.filtered.vcf.gz.filteringStats.tsv
      md5sum: 9ae27fbd04af1a2ea574e2ff1c3a683b
    - path: output/gatk4/test.filtered.vcf.gz.tbi

- name: gatk4 filtermutectcalls test_gatk4_filtermutectcalls_use_val
  command: nextflow run ./tests/modules/gatk4/filtermutectcalls -entry test_gatk4_filtermutectcalls_use_val -c ./tests/config/nextflow.config -c ./tests/modules/gatk4/filtermutectcalls/nextflow.config
  tags:
    - gatk4
    - gatk4/filtermutectcalls
  files:
    - path: output/gatk4/test.filtered.vcf.gz
    - path: output/gatk4/test.filtered.vcf.gz.filteringStats.tsv
      md5sum: 95cc3e37705bd3b97a292c5d46ab82f3
    - path: output/gatk4/test.filtered.vcf.gz.tbi
