diff qiime2/qiime_composition_add-pseudocount.xml @ 14:a0a8d77a991c draft

Uploaded

--- a/qiime2/qiime_composition_add-pseudocount.xml	Thu Sep 03 09:46:00 2020 +0000
+++ b/qiime2/qiime_composition_add-pseudocount.xml	Thu Sep 03 09:51:29 2020 +0000
@@ -1,31 +1,42 @@
 <?xml version="1.0" ?>
-<tool id="qiime_composition_add-pseudocount" name="qiime composition add-pseudocount" version="2019.7">
-	<description> - Add pseudocount to table</description>
-	<requirements>
-		<requirement type="package" version="2019.7">qiime2</requirement>
-	</requirements>
-	<command><![CDATA[
+<tool id="qiime_composition_add-pseudocount" name="qiime composition add-pseudocount"
+      version="2020.8">
+  <description>Add pseudocount to table</description>
+  <requirements>
+    <requirement type="package" version="2020.8">qiime2</requirement>
+  </requirements>
+  <command><![CDATA[
 qiime composition add-pseudocount
 
 --i-table=$itable
+
+--p-pseudocount=$ppseudocount
+
 --o-composition-table=ocompositiontable
 
-#if str($ppseudocount):
- --p-pseudocount=$ppseudocount
+#if str($examples) != 'None':
+--examples=$examples
 #end if
+
 ;
 cp ocompositiontable.qza $ocompositiontable
-	]]></command>
-	<inputs>
-		<param format="qza,no_unzip.zip" label="--i-table: ARTIFACT FeatureTable[Frequency] The feature table to which pseudocounts should be added.                                       [required]" name="itable" optional="False" type="data"/>
-		<param label="--p-pseudocount: INTEGER The value to add to all counts in the feature table. [default: 1]" name="ppseudocount" optional="True" type="integer" value="1"/>
-	</inputs>
-	<outputs>
-		<data format="qza" label="${tool.name} on ${on_string}: compositiontable.qza" name="ocompositiontable"/>
-	</outputs>
-	<help><![CDATA[
+
+  ]]></command>
+  <inputs>
+    <param format="qza,no_unzip.zip" label="--i-table: ARTIFACT FeatureTable[Frequency] The feature table to which pseudocounts should be added.                                       [required]" name="itable" optional="False" type="data" />
+    <param label="--p-pseudocount: INTEGER The value to add to all counts in the feature table. [default: 1]" name="ppseudocount" optional="True" type="integer" value="1" />
+    <param label="--examples: Show usage examples and exit." name="examples" optional="False" type="data" />
+    
+  </inputs>
+
+  <outputs>
+    <data format="qza" label="${tool.name} on ${on_string}: compositiontable.qza" name="ocompositiontable" />
+    
+  </outputs>
+
+  <help><![CDATA[
 Add pseudocount to table
-########################
+###############################################################
 
 Increment all counts in table by pseudocount.
 
@@ -40,9 +51,9 @@
 -------
 composition_table : FeatureTable[Composition]
     The resulting 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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