<?xml version="1.0" ?>
<tool id="qiime_diversity-lib_jaccard" name="qiime diversity-lib jaccard"
      version="2020.8">
  <description>Jaccard Distance</description>
  <requirements>
    <requirement type="package" version="2020.8">qiime2</requirement>
  </requirements>
  <command><![CDATA[
qiime diversity-lib jaccard

--i-table=$itable

#if str($pnjobs) != 'None':
--p-n-jobs=$pnjobs
#end if

--o-distance-matrix=odistancematrix

#if str($examples) != 'None':
--examples=$examples
#end if

;
cp odistancematrix.qza $odistancematrix

  ]]></command>
  <inputs>
    <param format="qza,no_unzip.zip" label="--i-table: ARTIFACT FeatureTable[Frequency | RelativeFrequency | PresenceAbsence]   The feature table containing the samples for which Jaccard distance should be computed.         [required]" name="itable" optional="False" type="data" />
    <param label="--p-n-jobs: " name="pnjobs" optional="True" type="select">
      <option selected="True" value="None">Selection is Optional</option>
      <option value="Int % Range(1">Int % Range(1</option>
      <option value="None">None</option>
    </param>
    <param label="--examples: Show usage examples and exit." name="examples" optional="False" type="data" />
    
  </inputs>

  <outputs>
    <data format="qza" label="${tool.name} on ${on_string}: distancematrix.qza" name="odistancematrix" />
    
  </outputs>

  <help><![CDATA[
Jaccard Distance
###############################################################

Compute Jaccard distance for each sample in a feature table. Jaccard is
calculated usingpresence/absence data. Data of type FeatureTable[Frequency
| Relative Frequency] is reducedto presence/absence prior to calculation.

Parameters
----------
table : FeatureTable[Frequency | RelativeFrequency | PresenceAbsence]
    The feature table containing the samples for which Jaccard distance
    should be computed.
n_jobs : Int % Range(1, None) | Str % Choices('auto'), optional
    The number of concurrent jobs to use in performing this calculation.
    May not exceed the number of available physical cores. If n_jobs =
    'auto', one job will be launched for each identified CPU core on the
    host.

Returns
-------
distance_matrix : DistanceMatrix
    Distance matrix for Jaccard index
  ]]></help>
  <macros>
    <import>qiime_citation.xml</import>
  </macros>
  <expand macro="qiime_citation"/>
</tool>