diff metaphlan2krona.xml @ 28:1d993cca38e3 draft

planemo upload for repository https://github.com/ASaiM/galaxytools/tree/master/tools/metaphlan2/ commit b467108d731001d89920aee31433a5b0a623c251-dirty

--- a/metaphlan2krona.xml	Tue Apr 12 03:07:32 2016 -0400
+++ b/metaphlan2krona.xml	Thu Apr 28 07:04:50 2016 -0400
@@ -1,23 +1,13 @@
-<tool id="metaphlan2krona" name="Format MetaPhlAn2" version="0.1.0">
+<tool id="metaphlan2krona" name="Format MetaPhlAn2" version="2.5.0">
 
     <description>output for Krona</description>
 
-    <requirements>
-        <requirement type="package" version="2.2.5">bowtie2</requirement>
-        <requirement type="package" version="2.2.0">metaphlan2</requirement>
-    </requirements>
+    <macros>
+        <import>metaphlan2_macros.xml</import>
+    </macros>
 
-    <stdio>
-        <exit_code range="1:" level="fatal"   description="" />
-        <regex match="ERROR"
-               source="stderr"
-               level="fatal"
-               description="" />
-        <regex match="WARNING"
-               source="stderr"
-               level="warning"
-               description="" />
-    </stdio>
+    <expand macro="requirements"/>
+    <expand macro="stdio"/>    
 
     <version_command>
 <![CDATA[
@@ -34,13 +24,11 @@
     </command>
 
     <inputs>
-        <param name="input_file" type="data" format="tabular,txt" label="Input 
-            file (MetaPhlAN2 output)" help="(--profile)"/>
+        <param name="input_file" type="data" format="tabular,txt" label="Input file (MetaPhlAN2 output)" help="(--profile)"/>
     </inputs>
 
     <outputs>
-        <data format="tabular" name="krona" 
-            label="${tool.name} on ${on_string}: Krona file" />
+        <data format="tabular" name="krona" label="${tool.name} on ${on_string}: Krona file" />
     </outputs>
 
     <tests>