- name: iqtree-test
  command: bash -c 'nextflow run ./subworkflows/local/iqtree/test.nf -entry test_iqtree --wf iqtree -c nextflow.config ${BACTOPIA_ARGS}'
  tags:
    - iqtree
    - bactopia-tools
  files:
    - path: bactopia/bactopia-runs/iqtree/iqtree/genome.aln.gz
      md5sum: 7e0c99a9803be09adbc644f533db593a
    - path: bactopia/bactopia-runs/iqtree/iqtree/logs/nf-iqtree.begin
      md5sum: d41d8cd98f00b204e9800998ecf8427e
    - path: bactopia/bactopia-runs/iqtree/iqtree/logs/nf-iqtree.err
    - path: bactopia/bactopia-runs/iqtree/iqtree/logs/nf-iqtree.log
      contains: ['IQ-TREE', 'Ultrafast', 'Date']
    - path: bactopia/bactopia-runs/iqtree/iqtree/logs/nf-iqtree.out
      contains: ['IQ-TREE', 'Ultrafast', 'Date']
    - path: bactopia/bactopia-runs/iqtree/iqtree/logs/nf-iqtree.run
      contains: ['NEXTFLOW TASK', '$NXF_ENTRY']
    - path: bactopia/bactopia-runs/iqtree/iqtree/logs/nf-iqtree.sh
      contains: ['iqtree', 'END_VERSIONS']
    - path: bactopia/bactopia-runs/iqtree/iqtree/logs/nf-iqtree.trace
      contains: ['nextflow.trace']
    - path: bactopia/bactopia-runs/iqtree/iqtree/logs/test.log
      contains: ['IQ-TREE', 'Ultrafast', 'Date']
    - path: bactopia/bactopia-runs/iqtree/iqtree/logs/versions.yml
      md5sum: 1ec296e7de2f7cae81775f63cd010b54
    - path: bactopia/bactopia-runs/iqtree/iqtree/test.alninfo
      md5sum: 4e3bfd442dad9d4b8469e03039cadb4c
    - path: bactopia/bactopia-runs/iqtree/iqtree/test.bionj
      contains: ['GCF_000292685']
    - path: bactopia/bactopia-runs/iqtree/iqtree/test.ckp.gz
    - path: bactopia/bactopia-runs/iqtree/iqtree/test.contree
      contains: ['GCF_902713755']
    - path: bactopia/bactopia-runs/iqtree/iqtree/test.iqtree
      contains: ['REFERENCES', 'GCF_000292685', 'Total']
    - path: bactopia/bactopia-runs/iqtree/iqtree/test.mldist
      contains: ['GCF_000292685', 'GCF_002849995', 'GCF_000300075']
    - path: bactopia/bactopia-runs/iqtree/iqtree/test.splits.nex
      md5sum: a257e91b7d51e5ce30e9c052428ce147
    - path: bactopia/bactopia-runs/iqtree/iqtree/test.treefile
      contains: ['GCF_902713755']
    - path: bactopia/bactopia-runs/iqtree/iqtree/test.ufboot
      contains: ['GCF_000292685', 'GCF_002849995', 'GCF_000300075']
    - path: bactopia/bactopia-runs/iqtree/nf-reports/iqtree-dag.dot
      contains: ['iqtreedag', 'IQTREE', 'versions']
    - path: bactopia/bactopia-runs/iqtree/nf-reports/iqtree-report.html
      contains: ['html', 'Nextflow', 'Report']
    - path: bactopia/bactopia-runs/iqtree/nf-reports/iqtree-timeline.html
      contains: ['html', 'Nextflow', 'timeline']
    - path: bactopia/bactopia-runs/iqtree/nf-reports/iqtree-trace.txt
      contains: ['task_id']
