# HG changeset patch
# User davidvanzessen
# Date 1383906542 18000
# Node ID bdf048a0b414d189309da4ae347e746f91dc28d9
# Parent  1c25c75d863d3e8b53ae54c89cd8aab221208851
Uploaded

diff -r 1c25c75d863d -r bdf048a0b414 plotting_merged.xml
--- a/plotting_merged.xml	Mon Sep 30 05:14:21 2013 -0400
+++ b/plotting_merged.xml	Fri Nov 08 05:29:02 2013 -0500
@@ -1,18 +1,15 @@
 <tool id="plotting_merged" name="Plotting the merged data" version="1.0">
 	<description>Creating a graph of the merged reports.</description>
 	<command interpreter="bash">
-		r_wrapper.sh $in_file $out_file
+		r_wrapper.sh $in_file $out_file $out_file.files_path
 	</command>
 	<inputs>
 		<param name="in_file" format="tabular" type="data" label="Data to Process" />
 	</inputs>
 	<outputs>
-		<data format="png" name="out_file" />
+		<data format="html" name="out_file" />
 	</outputs>
-	<requirements>
-		<requirement type="package" version="2.15.1">R</requirement>
-	</requirements>
 	<help>
-		Creating a graph of the merged and parsed igblast reports.
+		Step 4 of the Immune Repertoire tools, plots the merged data, generating 3 bar charts for V, D and J frequencies and 3 heatmaps for every sample (V-D, V-J, D-J)
 	</help>
 </tool>