(JAL-958) - normalised sequence logo for applet

[jalview.git] / src / jalview / gui / OverviewPanel.java

diff --git a/src/jalview/gui/OverviewPanel.java b/src/jalview/gui/OverviewPanel.java
index 8067808..7e00f2e 100755 (executable)
--- a/src/jalview/gui/OverviewPanel.java
+++ b/src/jalview/gui/OverviewPanel.java
@@ -17,6 +17,8 @@
  */
 package jalview.gui;
 
+import jalview.renderer.AnnotationRenderer;
+
 import java.awt.*;
 import java.awt.event.*;
 import java.awt.image.*;
@@ -36,6 +38,7 @@ public class OverviewPanel extends JPanel implements Runnable
 
   AlignmentPanel ap;
 
+  final AnnotationRenderer renderer = new AnnotationRenderer();
   float scalew = 1f;
 
   float scaleh = 1f;
@@ -356,12 +359,13 @@ public class OverviewPanel extends JPanel implements Runnable
 
     if (av.conservation != null)
     {
+      renderer.updateFromAlignViewport(av); 
       for (col = 0; col < width; col++)
       {
         lastcol = (int) (col * sampleCol);
         {
           mg.translate(col, sequencesHeight);
-          ap.annotationPanel.drawGraph(mg, av.conservation,
+          renderer.drawGraph(mg, av.conservation,
                   (int) (sampleCol) + 1, graphHeight,
                   (int) (col * sampleCol), (int) (col * sampleCol) + 1);
           mg.translate(-col, -sequencesHeight);