- name: staphopiasccmec-test
  command: bash -c 'nextflow run ./subworkflows/local/staphopiasccmec/test.nf -entry test_staphopiasccmec --wf staphopiasccmec -c nextflow.config ${BACTOPIA_ARGS}'
  tags:
    - staphopiasccmec
    - bactopia-tools
  files:
    - path: bactopia/bactopia-runs/staphopiasccmec/merged-results/logs/staphopiasccmec-concat/nf-merged-results.begin
      md5sum: d41d8cd98f00b204e9800998ecf8427e
    - path: bactopia/bactopia-runs/staphopiasccmec/merged-results/logs/staphopiasccmec-concat/nf-merged-results.err
    - path: bactopia/bactopia-runs/staphopiasccmec/merged-results/logs/staphopiasccmec-concat/nf-merged-results.log
    - path: bactopia/bactopia-runs/staphopiasccmec/merged-results/logs/staphopiasccmec-concat/nf-merged-results.out
    - path: bactopia/bactopia-runs/staphopiasccmec/merged-results/logs/staphopiasccmec-concat/nf-merged-results.run
      contains: ['NEXTFLOW TASK', '$NXF_ENTRY']
    - path: bactopia/bactopia-runs/staphopiasccmec/merged-results/logs/staphopiasccmec-concat/nf-merged-results.sh
      contains: ['csvtk', 'END_VERSIONS']
    - path: bactopia/bactopia-runs/staphopiasccmec/merged-results/logs/staphopiasccmec-concat/nf-merged-results.trace
      contains: ['nextflow.trace']
    - path: bactopia/bactopia-runs/staphopiasccmec/merged-results/logs/staphopiasccmec-concat/versions.yml
      contains: ['csvtk']
    - path: bactopia/bactopia-runs/staphopiasccmec/merged-results/staphopiasccmec.tsv
      md5sum: d02a33b227b96a95a99e18ca117a019d
    - path: bactopia/bactopia-runs/staphopiasccmec/nf-reports/staphopiasccmec-dag.dot
      contains: ['staphopiasccmecdag', 'STAPHOPIASCCMEC', 'versions']
    - path: bactopia/bactopia-runs/staphopiasccmec/nf-reports/staphopiasccmec-report.html
      contains: ['html', 'Nextflow', 'Report']
    - path: bactopia/bactopia-runs/staphopiasccmec/nf-reports/staphopiasccmec-timeline.html
      contains: ['html', 'Nextflow', 'timeline']
    - path: bactopia/bactopia-runs/staphopiasccmec/nf-reports/staphopiasccmec-trace.txt
      contains: ['task_id']
    - path: bactopia/GCF_000017085/tools/staphopiasccmec/GCF_000017085.tsv
      md5sum: f631e5f4c80dc8ce004d72d9a3c56f58
    - path: bactopia/GCF_000017085/tools/staphopiasccmec/logs/nf-staphopiasccmec.begin
      md5sum: d41d8cd98f00b204e9800998ecf8427e
    - path: bactopia/GCF_000017085/tools/staphopiasccmec/logs/nf-staphopiasccmec.err
    - path: bactopia/GCF_000017085/tools/staphopiasccmec/logs/nf-staphopiasccmec.log
    - path: bactopia/GCF_000017085/tools/staphopiasccmec/logs/nf-staphopiasccmec.out
    - path: bactopia/GCF_000017085/tools/staphopiasccmec/logs/nf-staphopiasccmec.run
      contains: ['NEXTFLOW TASK', '$NXF_ENTRY']
    - path: bactopia/GCF_000017085/tools/staphopiasccmec/logs/nf-staphopiasccmec.sh
      contains: ['staphopia-sccmec', 'END_VERSIONS']
    - path: bactopia/GCF_000017085/tools/staphopiasccmec/logs/nf-staphopiasccmec.trace
      contains: ['nextflow.trace']
    - path: bactopia/GCF_000017085/tools/staphopiasccmec/logs/versions.yml
      md5sum: ee70d8bb0ee24122a0802fdbac05bfb8
