view qiime2-2020.8/qiime_phylogeny_filter-table.xml @ 20:d93d8888f0b0 draft

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<?xml version="1.0" ?>
<tool id="qiime_phylogeny_filter-table" name="qiime phylogeny filter-table"
      version="2020.8">
  <description>Remove features from table if they\'re not present in tree.</description>
  <requirements>
    <requirement type="package" version="2020.8">qiime2</requirement>
  </requirements>
  <command><![CDATA[
qiime phylogeny filter-table

--i-table=$itable

--i-tree=$itree

--o-filtered-table=ofilteredtable

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

;
cp ofilteredtable.qza $ofilteredtable

  ]]></command>
  <inputs>
    <param format="qza,no_unzip.zip" label="--i-table: ARTIFACT FeatureTable[Frequency] Feature table that features should be filtered from. [required]" name="itable" optional="False" type="data" />
    <param format="qza,no_unzip.zip" label="--i-tree: ARTIFACT Phylogeny[Rooted | Unrooted] Tree where tip identifiers are the feature identifiers that should be retained in the table.        [required]" name="itree" optional="False" type="data" />
    <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}: filteredtable.qza" name="ofilteredtable" />
    
  </outputs>

  <help><![CDATA[
Remove features from table if they\'re not present in tree.
###############################################################

Remove features from a feature table if their identifiers are not tip
identifiers in tree.

Parameters
----------
table : FeatureTable[Frequency]
    Feature table that features should be filtered from.
tree : Phylogeny[Rooted | Unrooted]
    Tree where tip identifiers are the feature identifiers that should be
    retained in the table.

Returns
-------
filtered_table : FeatureTable[Frequency]
    The resulting feature table.
  ]]></help>
  <macros>
    <import>qiime_citation.xml</import>
  </macros>
  <expand macro="qiime_citation"/>
</tool>