# HG changeset patch
# User george-weingart
# Date 1409856223 14400
# Node ID b084b394910e757f8bac84233627c5cfc197b015
# Parent  66c50eadf7095c35f39333c4e4b57ef07ede1ddf
Uploaded

diff -r 66c50eadf709 -r b084b394910e export2graphlan.xml
--- a/export2graphlan.xml	Thu Sep 04 14:20:17 2014 -0400
+++ b/export2graphlan.xml	Thu Sep 04 14:43:43 2014 -0400
@@ -9,15 +9,21 @@
 	--title $export_title
 	--annotations $export_annotations 
 	--external_annotations $export_external_annotations
+	--background_levels  $background_levels 
+	--background_clades  $background_clades
 	--skip_rows 1,2 
    </command>
    
 	<inputs>
-	    <param name="export_title" type="text" format="text" label="Title" value="Title"/>
-	    <param name="export_annotations" type="text" format="text" label="Annotations" value="2,3"/>
-	    <param name="export_external_annotations" type="text" format="text" label="External Annotations" value="4,5,6"/>   
 		<param format="tabular" name="inp_data" type="data" label="Input used to run Lefse -  See samples below - Please use Galaxy Get-Data/Upload-File. Use File-Type = Tabular" 	help="This is the file that was used as input for Lefse"/>
 		<param format="lefse_res" name="out_data" type="data" label="Output of  Lefse"  help="This is the  Lefse output file"/>	
+	    	<param name="export_title" type="text" format="text" label="Title" value="Title"/>
+	   	 <param name="export_annotations" type="text" format="text" label="Annotations" value="2,3"/>
+	   	 <param name="export_external_annotations" type="text" format="text" label="External Annotations" value="4,5,6"/>   
+		<param name="background_levels" type="text" format="text" label="Background Levels" value="1,2,3"/>   
+		<param name="background_clades" type="text" format="text" label="Background Clades"  />  
+
+
     </inputs>
 	<outputs>
             <data  name="output_annot_file"  format="circl"  />
@@ -40,7 +46,7 @@
 
  * **Output of LEfSe**: This file is the result of LEfSe execute on the *Result of MetaPhlAn or HUMAnN analysis* file. This file allow GraPhlAn to highlight for you the found biomarkers.
 
-Input parameters8888
+Input parameters9999
 --------------------
  
     --annotations ANNOTATIONS