Mercurial > repos > florianbegusch > qiime2_suite

<?xml version="1.0" ?>
<tool id="qiime_metadata_distance-matrix" name="qiime metadata distance-matrix" version="2019.4">
	<description> - Create a distance matrix from a numeric Metadata column</description>
	<requirements>
		<requirement type="package" version="2019.4">qiime2</requirement>
	</requirements>
	<command><![CDATA[
qiime metadata distance-matrix

--m-metadata-column="$mmetadatacolumn"


#if $input_files_mmetadatafile:
#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 + ' --m-metadata-file=' + d['additional_input'].__getattr__('file_name')
	#end for
	#return $file_list
#end def
 --m-metadata-file=$list_dict_to_string($input_files_mmetadatafile)
#end if


--o-distance-matrix=odistancematrix
;
cp odistancematrix.qza $odistancematrix
	]]></command>
	<inputs>
		<param label="--m-metadata-column: COLUMN  MetadataColumn[Numeric] Numeric metadata column to compute pairwise Euclidean distances from                               [required]" name="mmetadatacolumn" optional="False" type="text"/>

		<repeat name="input_files_mmetadatafile" optional="True" 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. [optional]" name="additional_input" type="data" format="tabular,qza,no_unzip.zip" />
		</repeat>

	</inputs>
	<outputs>
		<data format="qza" label="${tool.name} on ${on_string}: distancematrix.qza" name="odistancematrix"/>
	</outputs>
	<help><![CDATA[
Create a distance matrix from a numeric Metadata column
#######################################################

Create a distance matrix from a numeric metadata column. The Euclidean
distance is computed between each pair of samples or features in the
column.  Tip: the distance matrix produced by this method can be used as
input to the Mantel test available in `q2-diversity`.

Parameters
----------
metadata : MetadataColumn[Numeric]
    Numeric metadata column to compute pairwise Euclidean distances from

Returns
-------
distance_matrix : DistanceMatrix
	]]></help>
<macros>
    <import>qiime_citation.xml</import>
</macros>
<expand macro="qiime_citation"/>
</tool>
author	florianbegusch
date	Wed, 31 Jul 2019 03:06:00 -0400
parents	370e0b6e9826
children	f190567fe3f6