- name: seroba-test
  command: bash -c 'nextflow run ./subworkflows/local/seroba/test.nf -entry test_seroba --wf seroba -c nextflow.config ${BACTOPIA_ARGS}'
  tags:
    - seroba
    - bactopia-tools
  files:
    - path: bactopia/bactopia-runs/seroba/merged-results/logs/seroba-concat/nf-merged-results.begin
      md5sum: d41d8cd98f00b204e9800998ecf8427e
    - path: bactopia/bactopia-runs/seroba/merged-results/logs/seroba-concat/nf-merged-results.err
    - path: bactopia/bactopia-runs/seroba/merged-results/logs/seroba-concat/nf-merged-results.log
    - path: bactopia/bactopia-runs/seroba/merged-results/logs/seroba-concat/nf-merged-results.out
    - path: bactopia/bactopia-runs/seroba/merged-results/logs/seroba-concat/nf-merged-results.run
      contains: ['NEXTFLOW TASK', '$NXF_ENTRY']
    - path: bactopia/bactopia-runs/seroba/merged-results/logs/seroba-concat/nf-merged-results.sh
      contains: ['csvtk', 'END_VERSIONS']
    - path: bactopia/bactopia-runs/seroba/merged-results/logs/seroba-concat/nf-merged-results.trace
      contains: ['nextflow.trace']
    - path: bactopia/bactopia-runs/seroba/merged-results/logs/seroba-concat/versions.yml
      contains: ['csvtk']
    - path: bactopia/bactopia-runs/seroba/merged-results/seroba.tsv
      md5sum: b3983df1ed608ca335bfcb66b22b8b94
    - path: bactopia/bactopia-runs/seroba/nf-reports/seroba-dag.dot
      md5sum: a59071f842746266f80ab67bb3a06aa7
    - path: bactopia/bactopia-runs/seroba/nf-reports/seroba-report.html
      contains: ['html', 'Nextflow', 'Report']
    - path: bactopia/bactopia-runs/seroba/nf-reports/seroba-timeline.html
      contains: ['html', 'Nextflow', 'timeline']
    - path: bactopia/bactopia-runs/seroba/nf-reports/seroba-trace.txt
      contains: ['task_id']
    - path: bactopia/test/tools/seroba/logs/nf-seroba.begin
      md5sum: d41d8cd98f00b204e9800998ecf8427e
    - path: bactopia/test/tools/seroba/logs/nf-seroba.err
      contains: ["Stage", "in"]
    - path: bactopia/test/tools/seroba/logs/nf-seroba.log
      contains: ["k-mers", "kmc", "results", "low"]
    - path: bactopia/test/tools/seroba/logs/nf-seroba.out
      contains: ["k-mers", "kmc", "results", "low"]
    - path: bactopia/test/tools/seroba/logs/nf-seroba.run
      contains: ['NEXTFLOW TASK', '$NXF_ENTRY']
    - path: bactopia/test/tools/seroba/logs/nf-seroba.sh
      contains: ['seroba', 'END_VERSIONS']
    - path: bactopia/test/tools/seroba/logs/nf-seroba.trace
      contains: ['nextflow.trace']
    - path: bactopia/test/tools/seroba/logs/versions.yml
      md5sum: e61acfefb43811106cca7842c73e475f
    - path: bactopia/test/tools/seroba/test.tsv
      md5sum: b3983df1ed608ca335bfcb66b22b8b94
