- name: picard markduplicates sorted bam
  command: nextflow run ./tests/modules/picard/markduplicates -entry test_picard_markduplicates_sorted_bam -c tests/config/nextflow.config
  tags:
    - picard
    - picard/markduplicates
  files:
    - path: ./output/picard/test.MarkDuplicates.metrics.txt
      contains:
        - "1.0	97	97"
    - path: ./output/picard/test.bam
- name: picard markduplicates unsorted bam
  command: nextflow run ./tests/modules/picard/markduplicates -entry test_picard_markduplicates_unsorted_bam -c tests/config/nextflow.config
  tags:
    - picard
    - picard/markduplicates
  files:
    - path: ./output/picard/test.MarkDuplicates.metrics.txt
      contains:
        - "1.0	97	97"
    - path: ./output/picard/test.bam