<?xml version="1.0" ?>
<tool id="qiime_diversity_procrustes-analysis" name="qiime diversity procrustes-analysis" version="2018.4">
	<description> - Procrustes Analysis</description>
	<requirements>
		<requirement type="package" version="2018.4">qiime2</requirement>
	</requirements>
	<command><![CDATA[
  qiime diversity procrustes-analysis --i-reference=$ireference --i-other=$iother
  
  #if $pdimensions:
   --p-dimensions=$pdimensions
  #end if
  
   --o-transformed-other=otransformedother --o-transformed-reference=otransformedreference
   
  #if str($cmdconfig) != 'None':
   --cmd-config=$cmdconfig
  #end if
  ;
  cp otransformedother.qza $otransformedother;
  cp otransformedreference.qza $otransformedreference;
  ]]></command>
	<inputs>
		<param format="qza,no_unzip.zip" label="--i-reference: PCoAResults The ordination matrix to which data is fitted to.  [required]" name="ireference" optional="False" type="data"/>
		<param format="qza,no_unzip.zip" label="--i-other: PCoAResults The ordination matrix that's fitted to the reference ordination.  [required]" name="iother" optional="False" type="data"/>

		<param label="--p-dimensions: [default: 5]" name="pdimensions" optional="True" type="integer" value="5"/>

		<param label="--cmd-config: Use config file for command options" name="cmdconfig" optional="True" type="data"/>
	</inputs>
	<outputs>
		<data format="qza" label="${tool.name} on ${on_string}: transformed-other.qza" name="otransformedother"/>
		<data format="qza" label="${tool.name} on ${on_string}: transformed-reference.qza" name="otransformedreference"/>
	</outputs>
	<help><![CDATA[
Procrustes Analysis
--------------------

Fit two ordination matrices with Procrustes analysis

Parameters
----------
reference : PCoAResults
    The ordination matrix to which data is fitted to.
other : PCoAResults
    The ordination matrix that's fitted to the reference ordination.
dimensions : Int % Range(1, None), optional
		\

Returns
-------
transformed_reference : PCoAResults
    A normalized version of the "reference" ordination matrix.
transformed_other : PCoAResults
    A normalized and fitted version of the "other" ordination matrix.
     ]]>
	</help>
</tool>