- 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: 3da8f1c0de968886330a3f7a3a1c6616

- 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: 14ab12a71b0c2b87d8cd53639a991b3a

- 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: d2e61315de31f512e448f0cb4b77db54