- name: picard collectmultiplemetrics test_picard_collectmultiplemetrics
  command: nextflow run ./tests/modules/picard/collectmultiplemetrics -entry test_picard_collectmultiplemetrics -c ./tests/config/nextflow.config  -c ./tests/modules/picard/collectmultiplemetrics/nextflow.config
  tags:
    - picard
    - picard/collectmultiplemetrics
  files:
    - path: output/picard/test.CollectMultipleMetrics.alignment_summary_metrics
    - path: output/picard/test.CollectMultipleMetrics.base_distribution_by_cycle.pdf
    - path: output/picard/test.CollectMultipleMetrics.base_distribution_by_cycle_metrics
    - path: output/picard/test.CollectMultipleMetrics.insert_size_histogram.pdf
    - path: output/picard/test.CollectMultipleMetrics.insert_size_metrics
    - path: output/picard/test.CollectMultipleMetrics.quality_by_cycle.pdf
    - path: output/picard/test.CollectMultipleMetrics.quality_by_cycle_metrics
    - path: output/picard/test.CollectMultipleMetrics.quality_distribution.pdf
    - path: output/picard/test.CollectMultipleMetrics.quality_distribution_metrics
    - path: output/picard/test.CollectMultipleMetrics.read_length_histogram.pdf

- name: picard collectmultiplemetrics test_picard_collectmultiplemetrics_nofasta
  command: nextflow run ./tests/modules/picard/collectmultiplemetrics -entry test_picard_collectmultiplemetrics_nofasta -c ./tests/config/nextflow.config  -c ./tests/modules/picard/collectmultiplemetrics/nextflow.config
  tags:
    - picard
    - picard/collectmultiplemetrics
  files:
    - path: output/picard/test.CollectMultipleMetrics.alignment_summary_metrics
    - path: output/picard/test.CollectMultipleMetrics.base_distribution_by_cycle.pdf
    - path: output/picard/test.CollectMultipleMetrics.base_distribution_by_cycle_metrics
    - path: output/picard/test.CollectMultipleMetrics.insert_size_histogram.pdf
    - path: output/picard/test.CollectMultipleMetrics.insert_size_metrics
    - path: output/picard/test.CollectMultipleMetrics.quality_by_cycle.pdf
    - path: output/picard/test.CollectMultipleMetrics.quality_by_cycle_metrics
    - path: output/picard/test.CollectMultipleMetrics.quality_distribution.pdf
    - path: output/picard/test.CollectMultipleMetrics.quality_distribution_metrics
    - path: output/picard/test.CollectMultipleMetrics.read_length_histogram.pdf