- name: controlfreec test_controlfreec_freec
  command: nextflow run tests/modules/controlfreec/freec -entry test_controlfreec_freec -c tests/config/nextflow.config
  tags:
    - controlfreec
    - controlfreec/freec
  files:
    - path: output/controlfreec/config.txt
    - path: output/controlfreec/test.mpileup.gz_control.cpn
      md5sum: 1768b571677c418560e5a8fe203bdc79
    - path: output/controlfreec/test2.mpileup.gz_BAF.txt
      md5sum: 3bb7437001cf061a77eaf87b8558c48d
    - path: output/controlfreec/test2.mpileup.gz_CNVs
      md5sum: 1f4f5834dbd1490afdb22f6d3091c4c9
    - path: output/controlfreec/test2.mpileup.gz_info.txt
      md5sum: 1a3055d35028525ccc9e693cc9f335e0
    - path: output/controlfreec/test2.mpileup.gz_ratio.BedGraph
      md5sum: 8ba455b232be20cdcc5bf1e4035e8032
    - path: output/controlfreec/test2.mpileup.gz_ratio.txt
      md5sum: b76b2434de710325069e37fb1e132760
    - path: output/controlfreec/test2.mpileup.gz_sample.cpn
      md5sum: c80dad58a77b1d7ba6d273999f4b4b4b
    - path: output/controlfreec/versions.yml

- name: controlfreec test_controlfreec_freec_single
  command: nextflow run tests/modules/controlfreec/freec -entry test_controlfreec_freec_single -c tests/config/nextflow.config -stub-run
  tags:
    - controlfreec
    - controlfreec/freec
  files:
    - path: output/controlfreec/config.txt
    - path: output/controlfreec/test2_BAF.txt
    - path: output/controlfreec/test2_CNVs
    - path: output/controlfreec/test2_info.txt
    - path: output/controlfreec/test2_ratio.BedGraph
    - path: output/controlfreec/test2_ratio.txt
    - path: output/controlfreec/test2_sample.cpn
    - path: output/controlfreec/versions.yml