- name: spatyper-test
  command: bash -c 'nextflow run ./subworkflows/local/spatyper/test.nf -entry test_spatyper --wf spatyper -c nextflow.config ${BACTOPIA_ARGS}'
  tags:
    - spatyper
    - bactopia-tools
  files:
    - path: bactopia/bactopia-runs/spatyper/merged-results/logs/spatyper-concat/nf-merged-results.begin
      md5sum: d41d8cd98f00b204e9800998ecf8427e
    - path: bactopia/bactopia-runs/spatyper/merged-results/logs/spatyper-concat/nf-merged-results.err
    - path: bactopia/bactopia-runs/spatyper/merged-results/logs/spatyper-concat/nf-merged-results.log
    - path: bactopia/bactopia-runs/spatyper/merged-results/logs/spatyper-concat/nf-merged-results.out
    - path: bactopia/bactopia-runs/spatyper/merged-results/logs/spatyper-concat/nf-merged-results.run
      contains: ['NEXTFLOW TASK', '$NXF_ENTRY']
    - path: bactopia/bactopia-runs/spatyper/merged-results/logs/spatyper-concat/nf-merged-results.sh
      contains: ['csvtk', 'END_VERSIONS']
    - path: bactopia/bactopia-runs/spatyper/merged-results/logs/spatyper-concat/nf-merged-results.trace
      contains: ['nextflow.trace']
    - path: bactopia/bactopia-runs/spatyper/merged-results/logs/spatyper-concat/versions.yml
      contains: ['csvtk']
    - path: bactopia/bactopia-runs/spatyper/merged-results/spatyper.tsv
      md5sum: 6afe7a90c591e32107d86c0e81029f54
    - path: bactopia/bactopia-runs/spatyper/nf-reports/spatyper-dag.dot
      contains: ['spatyperdag', 'SPATYPER', 'versions']
    - path: bactopia/bactopia-runs/spatyper/nf-reports/spatyper-report.html
      contains: ['html', 'Nextflow', 'Report']
    - path: bactopia/bactopia-runs/spatyper/nf-reports/spatyper-timeline.html
      contains: ['html', 'Nextflow', 'timeline']
    - path: bactopia/bactopia-runs/spatyper/nf-reports/spatyper-trace.txt
      contains: ['task_id']
    - path: bactopia/GCF_000017085/tools/spatyper/GCF_000017085.tsv
      md5sum: 6afe7a90c591e32107d86c0e81029f54
    - path: bactopia/GCF_000017085/tools/spatyper/logs/nf-spatyper.begin
      md5sum: d41d8cd98f00b204e9800998ecf8427e
    - path: bactopia/GCF_000017085/tools/spatyper/logs/nf-spatyper.err
    - path: bactopia/GCF_000017085/tools/spatyper/logs/nf-spatyper.log
      contains: ['Spa', 'Repeats', 'spatyper']
    - path: bactopia/GCF_000017085/tools/spatyper/logs/nf-spatyper.out
      contains: ['Spa', 'Repeats', 'spatyper']
    - path: bactopia/GCF_000017085/tools/spatyper/logs/nf-spatyper.run
      contains: ['NEXTFLOW TASK', '$NXF_ENTRY']
    - path: bactopia/GCF_000017085/tools/spatyper/logs/nf-spatyper.sh
      contains: ['spaTyper', 'END_VERSIONS']
    - path: bactopia/GCF_000017085/tools/spatyper/logs/nf-spatyper.trace
      contains: ['nextflow.trace']
    - path: bactopia/GCF_000017085/tools/spatyper/logs/versions.yml
      md5sum: 4ffc0c49d13cbf2a87c6bc9a225103e7
