- name: cnvkit
  command: nextflow run ./tests/software/cnvkit/ -entry test_cnvkit -c tests/config/nextflow.config
  tags:
    - cnvkit
  files:
    - path: output/cnvkit/baits.target.bed
      md5sum: 26d25ff2d6c45b6d92169b3559c6acdb
    - path: output/cnvkit/baits.antitarget.bed
      md5sum: d41d8cd98f00b204e9800998ecf8427e
    - path: output/cnvkit/reference.cnn
      md5sum: ac99c1ad8b917b96ae15119146c91ab9
    - path: output/cnvkit/test.paired_end.sorted.targetcoverage.cnn
      md5sum: 3fe80b6013ffc3e9968345e810158215
    - path: output/cnvkit/test.paired_end.sorted.antitargetcoverage.cnn
      md5sum: 203caf8cef6935bb50b4138097955cb8
    - path: output/cnvkit/test.single_end.sorted.targetcoverage.cnn
      md5sum: aa8a018b1d4d1e688c9f9f6ae01bf4d7
    - path: output/cnvkit/test.single_end.sorted.antitargetcoverage.cnn
      md5sum: 203caf8cef6935bb50b4138097955cb8
    - path: output/cnvkit/test.paired_end.sorted.cnr
      md5sum: 7e37d73ab604dbc3fe4ebb56aca9bdc3
    - path: output/cnvkit/test.paired_end.sorted.cns
      md5sum: 060af1aa637ed51812af19bcce24fcfe
    - path: output/cnvkit/test.paired_end.sorted.bintest.cns
      md5sum: 6544d979475def8a9f69ba42a985668d
    - path: output/cnvkit/test.paired_end.sorted.call.cns
      md5sum: f2ca59b4d50b0c317adc526c1b99b622