JAL-1482 feature renderer and manipulation code refactored to renderer and abstract...

[jalview.git] / src / jalview / gui / Jalview2XML_V1.java

diff --git a/src/jalview/gui/Jalview2XML_V1.java b/src/jalview/gui/Jalview2XML_V1.java
index 718677c..f246fd3 100755 (executable)
--- a/src/jalview/gui/Jalview2XML_V1.java
+++ b/src/jalview/gui/Jalview2XML_V1.java
@@ -27,10 +27,12 @@ import java.util.jar.*;
 import javax.swing.*;
 
 import org.exolab.castor.xml.*;
+
 import jalview.binding.*;
 import jalview.schemes.*;
 import jalview.util.MessageManager;
 import jalview.util.jarInputStreamProvider;
+import jalview.viewmodel.seqfeatures.FeatureRendererSettings;
 
 /**
  * DOCUMENT ME!
@@ -394,25 +396,27 @@ public class Jalview2XML_V1
 
     if (jms.getFeatureSettings() != null)
     {
-      af.viewport.featuresDisplayed = new Hashtable();
+      Hashtable featuresDisplayed = new Hashtable();
+      Hashtable featureColours = new Hashtable();
       String[] renderOrder = new String[jms.getFeatureSettings()
               .getSettingCount()];
       for (int fs = 0; fs < jms.getFeatureSettings().getSettingCount(); fs++)
       {
         Setting setting = jms.getFeatureSettings().getSetting(fs);
 
-        af.alignPanel.seqPanel.seqCanvas.getFeatureRenderer().setColour(
+        featureColours.put(
                 setting.getType(), new java.awt.Color(setting.getColour()));
 
         renderOrder[fs] = setting.getType();
 
         if (setting.getDisplay())
         {
-          af.viewport.featuresDisplayed.put(setting.getType(), new Integer(
+          featuresDisplayed.put(setting.getType(), new Integer(
                   setting.getColour()));
         }
       }
-      af.alignPanel.seqPanel.seqCanvas.getFeatureRenderer().renderOrder = renderOrder;
+      FeatureRendererSettings frs = new FeatureRendererSettings(renderOrder, new Hashtable(), featureColours, 1.0f, null);
+      af.alignPanel.seqPanel.seqCanvas.getFeatureRenderer().transferSettings(frs);
     }
 
     af.setMenusFromViewport(af.viewport);