<tool id="snrqk2" name="SNRQK2" version="3">
  <description>Compute SSQuAWK QC metrics within SSQuAWK version 4+ workflow, v2</description>
    <requirements>
      <requirement type="package" version="3.7.12">python</requirement>
      <requirement type="package" version="1.1.5">pandas</requirement>		  
    </requirements>
    <command detect_errors="exit_code"><![CDATA[
	   bash '$__tool_directory__/snrqk2.sh' $input
]]>
  </command>
  <inputs>
    <param name="input" type="data" format="tabular" label="Source file"/>
  </inputs>
  <outputs>
    <data format="tabular" label="snrqk_result" name = "results" from_work_dir="snrqk_result.tsv" />
  </outputs>
      <tests>
        <test>
                <param name="input" value = "joinSamBow_nc.txt" ftype = "tabular"/>
                <output name="results" file="snrqk_result.tsv" />
       </test>
    </tests>
  <help> "This tool computes QC metrics within the SSQuAWK version 4+ workflow."
  </help>
    <citations>
       <citation type="bibtex">
        @misc{SSQuAWK,
        title={SSQuAWK}, url={https://www.protocols.io/view/wastewater-qc-workflow-in-galaxytrakr-ssquawk3-kxygxzk5dv8j/v5}},
       </citation>
    </citations>
</tool>