- name: meningotype-test
  command: bash -c 'nextflow run ./subworkflows/local/meningotype/test.nf -entry test_meningotype --wf meningotype -c nextflow.config ${BACTOPIA_ARGS}'
  tags:
    - meningotype
    - bactopia-tools
  files:
    - path: bactopia/bactopia-runs/meningotype/merged-results/logs/meningotype-concat/nf-merged-results.begin
      md5sum: d41d8cd98f00b204e9800998ecf8427e
    - path: bactopia/bactopia-runs/meningotype/merged-results/logs/meningotype-concat/nf-merged-results.err
    - path: bactopia/bactopia-runs/meningotype/merged-results/logs/meningotype-concat/nf-merged-results.log
    - path: bactopia/bactopia-runs/meningotype/merged-results/logs/meningotype-concat/nf-merged-results.out
    - path: bactopia/bactopia-runs/meningotype/merged-results/logs/meningotype-concat/nf-merged-results.run
      contains: ['NEXTFLOW TASK', '$NXF_ENTRY']
    - path: bactopia/bactopia-runs/meningotype/merged-results/logs/meningotype-concat/nf-merged-results.sh
      contains: ['csvtk', 'END_VERSIONS']
    - path: bactopia/bactopia-runs/meningotype/merged-results/logs/meningotype-concat/nf-merged-results.trace
      contains: ['nextflow.trace']
    - path: bactopia/bactopia-runs/meningotype/merged-results/logs/meningotype-concat/versions.yml
      contains: ['csvtk']
    - path: bactopia/bactopia-runs/meningotype/merged-results/meningotype.tsv
      md5sum: cdf1cbd9f28a9ce2138f072c6d0ab391
    - path: bactopia/bactopia-runs/meningotype/nf-reports/meningotype-dag.dot
      contains: ['meningotypedag', 'MENINGOTYPE', 'versions']
    - path: bactopia/bactopia-runs/meningotype/nf-reports/meningotype-report.html
      contains: ['html', 'Nextflow', 'Report']
    - path: bactopia/bactopia-runs/meningotype/nf-reports/meningotype-timeline.html
      contains: ['html', 'Nextflow', 'timeline']
    - path: bactopia/bactopia-runs/meningotype/nf-reports/meningotype-trace.txt
      contains: ['task_id']
    - path: bactopia/GCF_003355215/tools/meningotype/GCF_003355215.tsv
      md5sum: cdf1cbd9f28a9ce2138f072c6d0ab391
    - path: bactopia/GCF_003355215/tools/meningotype/logs/nf-meningotype.begin
      md5sum: d41d8cd98f00b204e9800998ecf8427e
    - path: bactopia/GCF_003355215/tools/meningotype/logs/nf-meningotype.err
    - path: bactopia/GCF_003355215/tools/meningotype/logs/nf-meningotype.log
    - path: bactopia/GCF_003355215/tools/meningotype/logs/nf-meningotype.out
    - path: bactopia/GCF_003355215/tools/meningotype/logs/nf-meningotype.run
      contains: ['NEXTFLOW TASK', '$NXF_ENTRY']
    - path: bactopia/GCF_003355215/tools/meningotype/logs/nf-meningotype.sh
      contains: ['meningotype', 'END_VERSIONS']
    - path: bactopia/GCF_003355215/tools/meningotype/logs/nf-meningotype.trace
      contains: ['nextflow.trace']
    - path: bactopia/GCF_003355215/tools/meningotype/logs/versions.yml
      md5sum: b67f6ccf0061e28da34d7c9fc9b40367
