<tool id="mentalist_tree" name="MentaLiST Tree" version="0.1-SNAPSHOT">
  <requirements>
    <requirement type="package" version="3.4.1">r-base</requirement>
    <requirement type="package" version="2.2.0">r-phangorn</requirement>
  </requirements>
  <command detect_errors="exit_code"><![CDATA[
    $__tool_directory__/mentalist_tree
    '${input}'
    > '${output}'
  ]]></command>
  <inputs>
    <param name="input" type="data" format="tabular" label="MentaLiST Distance Matrix" help=""/>
  </inputs>
  <outputs>
    <data name="output" format="newick"/>
  </outputs>
  <tests>
    <test>
      <param name="input" value="mentalist_tree/small_input_00.tsv" />
      <output name="output" file="mentalist_tree/small_output_00.nwk" />
    </test>
    <test>
      <param name="input" value="mentalist_tree/med_input_00.tsv" />
      <output name="output" file="mentalits_tree/med_output_00.nwk" />
    </test>
    <test>
      <param name="input" value="mentalist_tree/large_input_00.tsv" />
      <output name="output" file="mentalist_tree/large_output_00.nwk" />
    </test>
  </tests>
  <help><![CDATA[
    mentalist_distance <input.tsv>
  ]]></help>
  <citations>
  </citations>
</tool>