<?xml version="1.0" ?>
<tool id="qiime_feature-table_merge" name="qiime feature-table merge" version="2018.4">
	<description> - Combine multiple tables</description>
	<requirements>
		<requirement type="package" version="2018.4">qiime2</requirement>
	</requirements>
	<command>
	<![CDATA[
	qiime feature-table merge

	#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 + ' --i-tables=' + d['additional_input'].__getattr__('file_name')
		#end for
		#return $file_list
	#end def


	 --i-tables=$list_dict_to_string($input_files_itables)

	#if str($cmdconfig) != 'None':
	 --cmd-config=$cmdconfig
	#end if
	 --o-merged-table=omergedtable
	#if str($poverlapmethod) != 'None':
	 --p-overlap-method=$poverlapmethod
	#end if
	;
	cp omergedtable.qza $omergedtable;
	]]>
	</command>
	<inputs>
		<repeat name="input_files_itables" optional="False" title="--i-tables">
			<param format="qza,no_unzip.zip" label="--i-tables: PATH List[FeatureTable[Frequency]] The collection of feature tables to be merged.  [required]" name="additional_input" type="data"/>
		</repeat>
		<param label="--p-overlap-method: Method for handling overlapping ids.
                                  [default: error_on_overlapping_sample]" name="poverlapmethod" optional="True" type="select">
			<option selected="True" value="None">Selection is Optional</option>
			<option value="error_on_overlapping_feature">error_on_overlapping_feature</option>
			<option value="error_on_overlapping_sample">error_on_overlapping_sample</option>
			<option value="sum">sum</option>
		</param>
		<param label="--cmd-config: Use config file for command options" name="cmdconfig" optional="True" type="data"/>
	</inputs>
	<outputs>
		<data format="qza" label="${tool.name} on ${on_string}: merged-table.qza" name="omergedtable"/>
	</outputs>
	<help>
		<![CDATA[
Combine multiple tables
------------------------

Combines feature tables using the `overlap_method` provided.

Parameters
----------
tables : List[FeatureTable[Frequency]]
    The collection of feature tables to be merged.
overlap_method : Str % Choices({'error_on_overlapping_feature', 'error_on_overlapping_sample', 'sum'}), optional
    Method for handling overlapping ids.

Returns
-------
merged_table : FeatureTable[Frequency]
    The resulting merged feature table.
		]]>
	</help>
</tool>