- name: ssuissero-test
  command: bash -c 'nextflow run ./subworkflows/local/ssuissero/test.nf -entry test_ssuissero --wf ssuissero -c nextflow.config ${BACTOPIA_ARGS}'
  tags:
    - ssuissero
    - bactopia-tools
  files:
    - path: bactopia/bactopia-runs/ssuissero/merged-results/logs/ssuissero-concat/nf-merged-results.begin
      md5sum: d41d8cd98f00b204e9800998ecf8427e
    - path: bactopia/bactopia-runs/ssuissero/merged-results/logs/ssuissero-concat/nf-merged-results.err
    - path: bactopia/bactopia-runs/ssuissero/merged-results/logs/ssuissero-concat/nf-merged-results.log
    - path: bactopia/bactopia-runs/ssuissero/merged-results/logs/ssuissero-concat/nf-merged-results.out
    - path: bactopia/bactopia-runs/ssuissero/merged-results/logs/ssuissero-concat/nf-merged-results.run
      contains: ['NEXTFLOW TASK', '$NXF_ENTRY']
    - path: bactopia/bactopia-runs/ssuissero/merged-results/logs/ssuissero-concat/nf-merged-results.sh
      md5sum: bc1c8468ada0522f65145c01eed10c14
    - path: bactopia/bactopia-runs/ssuissero/merged-results/logs/ssuissero-concat/nf-merged-results.trace
      contains: ['nextflow.trace']
    - path: bactopia/bactopia-runs/ssuissero/merged-results/logs/ssuissero-concat/versions.yml
      contains: ['csvtk']
    - path: bactopia/bactopia-runs/ssuissero/merged-results/ssuissero.tsv
      md5sum: b1312d3041a6543154be554d5ec3b0b9
    - path: bactopia/bactopia-runs/ssuissero/nf-reports/ssuissero-dag.dot
      contains: ["ssuisserodag", "SSUISSERO", "version"]
    - path: bactopia/bactopia-runs/ssuissero/nf-reports/ssuissero-report.html
      contains: ['html', 'Nextflow', 'Report']
    - path: bactopia/bactopia-runs/ssuissero/nf-reports/ssuissero-timeline.html
      contains: ['html', 'Nextflow', 'timeline']
    - path: bactopia/bactopia-runs/ssuissero/nf-reports/ssuissero-trace.txt
      contains: ['task_id']
    - path: bactopia/GCF_002285535/tools/ssuissero/GCF_002285535_serotyping_res.tsv
      md5sum: b1312d3041a6543154be554d5ec3b0b9
    - path: bactopia/GCF_002285535/tools/ssuissero/logs/nf-ssuissero.begin
      md5sum: d41d8cd98f00b204e9800998ecf8427e
    - path: bactopia/GCF_002285535/tools/ssuissero/logs/nf-ssuissero.err
    - path: bactopia/GCF_002285535/tools/ssuissero/logs/nf-ssuissero.log
      contains: ["Finished"]
    - path: bactopia/GCF_002285535/tools/ssuissero/logs/nf-ssuissero.out
      contains: ["Finished"]
    - path: bactopia/GCF_002285535/tools/ssuissero/logs/nf-ssuissero.run
      contains: ['NEXTFLOW TASK', '$NXF_ENTRY']
    - path: bactopia/GCF_002285535/tools/ssuissero/logs/nf-ssuissero.sh
      contains: ["SsuisSero", "END_VERSIONS"]
    - path: bactopia/GCF_002285535/tools/ssuissero/logs/nf-ssuissero.trace
      contains: ['nextflow.trace']
    - path: bactopia/GCF_002285535/tools/ssuissero/logs/versions.yml
      md5sum: 493a862c5de7ac395974696387a247e3
