--- /dev/null	Thu Jan 01 00:00:00 1970 +0000
+++ b/qiime2/qiime_gneiss_assign-ids.xml	Fri Sep 04 13:12:49 2020 +0000
@@ -0,0 +1,67 @@
+<?xml version="1.0" ?>
+<tool id="qiime_gneiss_assign-ids" name="qiime gneiss assign-ids"
+      version="2020.8">
+  <description>Assigns ids on internal nodes in the tree, and makes sure that they are consistent with the table columns.</description>
+  <requirements>
+    <requirement type="package" version="2020.8">qiime2</requirement>
+  </requirements>
+  <command><![CDATA[
+qiime gneiss assign-ids
+
+--i-input-table=$iinputtable
+
+--i-input-tree=$iinputtree
+
+--o-output-table=ooutputtable
+
+--o-output-tree=ooutputtree
+
+#if str($examples) != 'None':
+--examples=$examples
+#end if
+
+;
+cp ooutputtree.qza $ooutputtree
+
+  ]]></command>
+  <inputs>
+    <param format="qza,no_unzip.zip" label="--i-input-table: ARTIFACT FeatureTable[Frequency] The input table of counts.                   [required]" name="iinputtable" optional="False" type="data" />
+    <param format="qza,no_unzip.zip" label="--i-input-tree: ARTIFACT Phylogeny[Rooted]  The input tree with potential missing ids.   [required]" name="iinputtree" optional="False" type="data" />
+    <param label="--examples: Show usage examples and exit." name="examples" optional="False" type="data" />
+    
+  </inputs>
+
+  <outputs>
+    <data format="qza" label="${tool.name} on ${on_string}: outputtable.qza" name="ooutputtable" />
+    <data format="qza" label="${tool.name} on ${on_string}: outputtree.qza" name="ooutputtree" />
+    
+  </outputs>
+
+  <help><![CDATA[
+Assigns ids on internal nodes in the tree, and makes sure that they are consistent with the table columns.
+###############################################################
+
+
+Assigns UUIDs to uniquely identify internal nodes in the tree.  Also
+corrects for polytomies to create strictly bifurcating trees and aligns the
+table columns with the tree tip names
+
+Parameters
+----------
+input_table : FeatureTable[Frequency]
+    The input table of counts.
+input_tree : Phylogeny[Rooted]
+    The input tree with potential missing ids.
+
+Returns
+-------
+output_table : FeatureTable[Frequency]
+    A table with features matching the tree tips.
+output_tree : Hierarchy
+    A tree with uniquely identifying ids.
+  ]]></help>
+  <macros>
+    <import>qiime_citation.xml</import>
+  </macros>
+  <expand macro="qiime_citation"/>
+</tool>
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