diff gemini_annotate.xml @ 17:65f742e605ec draft

planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/gemini commit 344140b8df53b8b7024618bb04594607a045c03a

--- a/gemini_annotate.xml	Tue Apr 28 22:55:56 2015 -0400
+++ b/gemini_annotate.xml	Mon May 04 22:46:38 2015 -0400
@@ -1,11 +1,12 @@
 <tool id="gemini_@BINARY@" name="GEMINI @BINARY@" version="@VERSION@.0">
     <description>adding your own custom annotations</description>
-    <expand macro="requirements" />
-    <expand macro="version_command" />
     <macros>
         <import>gemini_macros.xml</import>
         <token name="@BINARY@">annotate</token>
     </macros>
+    <expand macro="requirements" />
+    <expand macro="stdio" />
+    <expand macro="version_command" />
     <command>
 <![CDATA[
 
@@ -27,7 +28,6 @@
 ]]>
 
     </command>
-    <expand macro="stdio" />
     <inputs>
         <expand macro="infile" />
         <param name="annotate_source" type="data" format="bed" label="File containing the annotations in BED format" help="(-f)"/>
@@ -36,7 +36,7 @@
             label="The name of the column to be added to the variant table" help="(-c)">
             <sanitizer invalid_char=" ">
                 <valid initial="string.letters,string.digits">
-                    <add value="_" /> 
+                    <add value="_" />
                 </valid>
             </sanitizer>
         </param>
@@ -48,7 +48,7 @@
             </param>
             <when value="extract">
 
-                <param name="column_extracts" label="Column to extract information from for list annotations" 
+                <param name="column_extracts" label="Column to extract information from for list annotations"
                     type="data_column" data_ref="annotate_source" force_select="true" help="(-e)"/>