- name: gatk4 calculatecontamination test_gatk4_calculatecontamination_tumor_only
  command: nextflow run tests/modules/gatk4/calculatecontamination -entry test_gatk4_calculatecontamination_tumor_only -c tests/config/nextflow.config -c ./tests/modules/gatk4/calculatecontamination/nextflow.config
  tags:
    - gatk4
    - gatk4/calculatecontamination
  files:
    - path:  output/gatk4/test.contamination.table
      md5sum: 46c708c943b453da89a3da08acfdb2a7
    - path:  output/gatk4/versions.yml
      md5sum: 6f2396e71389cdfd184f91222c24fe8d

- name: gatk4 calculatecontamination test_gatk4_calculatecontamination_matched_pair
  command: nextflow run tests/modules/gatk4/calculatecontamination -entry test_gatk4_calculatecontamination_matched_pair -c tests/config/nextflow.config -c ./tests/modules/gatk4/calculatecontamination/nextflow.config
  tags:
    - gatk4
    - gatk4/calculatecontamination
  files:
    - path:  output/gatk4/test.contamination.table
      md5sum: 46c708c943b453da89a3da08acfdb2a7
    - path:  output/gatk4/versions.yml
      md5sum: 26863fa1e7e7d50d1a10761eced26062

- name: gatk4 calculatecontamination test_gatk4_calculatecontamination_segmentation
  command: nextflow run tests/modules/gatk4/calculatecontamination -entry test_gatk4_calculatecontamination_segmentation -c tests/config/nextflow.config -c ./tests/modules/gatk4/calculatecontamination/nextflow.config
  tags:
    - gatk4
    - gatk4/calculatecontamination
  files:
    - path:  output/gatk4/test.contamination.table
      md5sum: 46c708c943b453da89a3da08acfdb2a7
    - path:  output/gatk4/test.segmentation.table
      md5sum: f4643d9319bde4efbfbe516d6fb13052
    - path:  output/gatk4/versions.yml
      md5sum: 8b1191953ff20660e06e2a5d79e96b02