- name: legsta-test
  command: bash -c 'nextflow run ./subworkflows/local/legsta/test.nf -entry test_legsta --wf legsta -c nextflow.config ${BACTOPIA_ARGS}'
  tags:
    - legsta
    - bactopia-tools
  files:
    - path: bactopia/bactopia-runs/legsta/merged-results/legsta.tsv
      md5sum: 42debc0661bcdc021ea871efcef6fb39
    - path: bactopia/bactopia-runs/legsta/merged-results/logs/legsta-concat/nf-merged-results.begin
      md5sum: d41d8cd98f00b204e9800998ecf8427e
    - path: bactopia/bactopia-runs/legsta/merged-results/logs/legsta-concat/nf-merged-results.err
    - path: bactopia/bactopia-runs/legsta/merged-results/logs/legsta-concat/nf-merged-results.log
    - path: bactopia/bactopia-runs/legsta/merged-results/logs/legsta-concat/nf-merged-results.out
    - path: bactopia/bactopia-runs/legsta/merged-results/logs/legsta-concat/nf-merged-results.run
      contains: ['NEXTFLOW TASK', '$NXF_ENTRY']
    - path: bactopia/bactopia-runs/legsta/merged-results/logs/legsta-concat/nf-merged-results.sh
      contains: ["csvtk", "END_VERSIONS"]
    - path: bactopia/bactopia-runs/legsta/merged-results/logs/legsta-concat/nf-merged-results.trace
      contains: ['nextflow.trace']
    - path: bactopia/bactopia-runs/legsta/merged-results/logs/legsta-concat/versions.yml
      contains: ['csvtk']
    - path: bactopia/bactopia-runs/legsta/nf-reports/legsta-dag.dot
      contains: ["legstadag", "LEGSTA", "version"]
    - path: bactopia/bactopia-runs/legsta/nf-reports/legsta-report.html
      contains: ['html', 'Nextflow', 'Report']
    - path: bactopia/bactopia-runs/legsta/nf-reports/legsta-timeline.html
      contains: ['html', 'Nextflow', 'timeline']
    - path: bactopia/bactopia-runs/legsta/nf-reports/legsta-trace.txt
      contains: ['task_id']
    - path: bactopia/GCF_000048645/tools/legsta/GCF_000048645.tsv
      md5sum: 42debc0661bcdc021ea871efcef6fb39
    - path: bactopia/GCF_000048645/tools/legsta/logs/nf-legsta.begin
      md5sum: d41d8cd98f00b204e9800998ecf8427e
    - path: bactopia/GCF_000048645/tools/legsta/logs/nf-legsta.err
      contains: ["any2fasta", "alleles", "Running"]
    - path: bactopia/GCF_000048645/tools/legsta/logs/nf-legsta.log
      contains: ["any2fasta", "alleles", "Running"]
    - path: bactopia/GCF_000048645/tools/legsta/logs/nf-legsta.out
      md5sum: d41d8cd98f00b204e9800998ecf8427e
    - path: bactopia/GCF_000048645/tools/legsta/logs/nf-legsta.run
      contains: ['NEXTFLOW TASK', '$NXF_ENTRY']
    - path: bactopia/GCF_000048645/tools/legsta/logs/nf-legsta.sh
      contains: ["legsta", "END_VERSIONS"]
    - path: bactopia/GCF_000048645/tools/legsta/logs/nf-legsta.trace
      contains: ['nextflow.trace']
    - path: bactopia/GCF_000048645/tools/legsta/logs/versions.yml
      md5sum: 49cd65fa404c64f43eb1c762aa4e26e6
