--- /dev/null	Thu Jan 01 00:00:00 1970 +0000
+++ b/qiime_emperor_plot.xml	Thu May 24 02:11:44 2018 -0400
@@ -0,0 +1,67 @@
+<?xml version="1.0" ?>
+<tool id="qiime_emperor_plot" name="qiime emperor plot" version="2018.4">
+	<description> - Visualize and Interact with Principal Coordinates Analysis Plots</description>
+	<requirements>
+		<requirement type="package" version="2018.4">qiime2</requirement>
+	</requirements>
+	<command><![CDATA[
+  qiime emperor plot
+  
+  #def list_dict_to_string(list_dict):
+  	#set $file_list = list_dict[0]['additional_input'].__getattr__('file_name')
+  	#for d in list_dict[1:]:
+  		#set $file_list = $file_list + ',' + d['additional_input'].__getattr__('file_name')
+  	#end for
+  	#return $file_list
+  #end def
+  
+   --m-metadata-file=$list_dict_to_string($input_files_mmetadatafile) --i-pcoa=$ipcoa
+   
+  #if str($cmdconfig) != 'None':
+   --cmd-config=$cmdconfig
+  #end if
+  
+  #if str($pcustomaxes):
+   --p-custom-axes="$pcustomaxes"
+  #end if
+  
+   --o-visualization=ovisualization;
+   
+  qiime tools export ovisualization.qzv --output-dir out   && mkdir -p '$ovisualization.files_path'
+  && cp -r out/* '$ovisualization.files_path'
+  && mv '$ovisualization.files_path/index.html' '$ovisualization';
+  ]]></command>
+	<inputs>
+		<param format="qza,no_unzip.zip" label="--i-pcoa: PCoAResults The principal coordinates matrix to be plotted.  [required]" name="ipcoa" optional="False" type="data"/>
+		<repeat name="input_files_mmetadatafile" optional="False" title="--m-metadata-file">
+			<param label="--m-metadata-file: Metadata file or artifact viewable as metadata. This option may be supplied multiple times to merge metadata. The sample metadata.  [required]" name="additional_input" type="data" format="tabular,qza,no_unzip.zip" />
+		</repeat>
+		<param label="--p-custom-axes: Numeric sample metadata columns that should be included as axes in the Emperor plot. [optional]" name="pcustomaxes" optional="True" type="text"/>
+		<param label="--cmd-config: Use config file for command options" name="cmdconfig" optional="True" type="data"/>
+	</inputs>
+	<outputs>
+		<data format="html" label="${tool.name} on ${on_string}: visualization.qzv" name="ovisualization"/>
+	</outputs>
+	<help><![CDATA[
+Visualize and Interact with Principal Coordinates Analysis Plots
+----------------------------------------------------------------
+
+Generate visualization of your ordination.
+
+Parameters
+----------
+pcoa : PCoAResults
+    The principal coordinates matrix to be plotted.
+metadata : Metadata
+    The sample metadata.
+custom_axes : List[Str], optional
+    Numeric sample metadata columns that should be included as axes in the
+    Emperor plot.
+
+Returns
+-------
+visualization : Visualization
+		\
+     ]]>
+	</help>
+</tool>