diff qiime2/qiime_feature-table_merge.xml @ 14:a0a8d77a991c draft

Uploaded

--- a/qiime2/qiime_feature-table_merge.xml	Thu Sep 03 09:46:00 2020 +0000
+++ b/qiime2/qiime_feature-table_merge.xml	Thu Sep 03 09:51:29 2020 +0000
@@ -1,51 +1,59 @@
 <?xml version="1.0" ?>
-<tool id="qiime_feature-table_merge" name="qiime feature-table merge" version="2019.7">
-	<description> - Combine multiple tables</description>
-	<requirements>
-		<requirement type="package" version="2019.7">qiime2</requirement>
-	</requirements>
-	<command><![CDATA[
+<tool id="qiime_feature-table_merge" name="qiime feature-table merge"
+      version="2020.8">
+  <description>Combine multiple tables</description>
+  <requirements>
+    <requirement type="package" version="2020.8">qiime2</requirement>
+  </requirements>
+  <command><![CDATA[
 qiime feature-table merge
-
-#if $input_files_itables:
-#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)
-#end if
-
+# if $input_files_itables:
+  # 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)
+# end if
 
 #if str($poverlapmethod) != 'None':
- --p-overlap-method=$poverlapmethod
+--p-overlap-method=$poverlapmethod
 #end if
 
+--o-merged-table=omergedtable
 
---o-merged-table=omergedtable
+#if str($examples) != 'None':
+--examples=$examples
+#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: " name="poverlapmethod" optional="True" type="select">
-			<option selected="True" value="None">Selection is Optional</option>
-			<option value="error_on_overlapping_sample">error_on_overlapping_sample</option>
-			<option value="error_on_overlapping_feature">error_on_overlapping_feature</option>
-			<option value="sum">sum</option>
-		</param>
-	</inputs>
-	<outputs>
-		<data format="qza" label="${tool.name} on ${on_string}: mergedtable.qza" name="omergedtable"/>
-	</outputs>
-	<help><![CDATA[
+  ]]></command>
+  <inputs>
+    <repeat name="input_files_itables" optional="False" title="--i-tables">
+      <param format="qza,no_unzip.zip" label="--i-tables: ARTIFACTS... List[FeatureTable[Frequency]] The collection of feature tables to be merged. [required]" name="additional_input" optional="False" type="data" />
+    </repeat>
+    <param label="--p-overlap-method: " name="poverlapmethod" optional="True" type="select">
+      <option selected="True" value="None">Selection is Optional</option>
+      <option value="error_on_overlapping_sample">error_on_overlapping_sample</option>
+      <option value="error_on_overlapping_feature">error_on_overlapping_feature</option>
+      <option value="sum">sum</option>
+    </param>
+    <param label="--examples: Show usage examples and exit." name="examples" optional="False" type="data" />
+    
+  </inputs>
+
+  <outputs>
+    <data format="qza" label="${tool.name} on ${on_string}: mergedtable.qza" name="omergedtable" />
+    
+  </outputs>
+
+  <help><![CDATA[
 Combine multiple tables
-#######################
+###############################################################
 
 Combines feature tables using the `overlap_method` provided.
 
@@ -60,9 +68,9 @@
 -------
 merged_table : FeatureTable[Frequency]
     The resulting merged feature table.
-	]]></help>
-<macros>
+  ]]></help>
+  <macros>
     <import>qiime_citation.xml</import>
-</macros>
-<expand macro="qiime_citation"/>
-</tool>
+  </macros>
+  <expand macro="qiime_citation"/>
+</tool>
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