X-Git-Url: http://source.jalview.org/gitweb/?a=blobdiff_plain;ds=inline;f=src%2Fjalview%2Fgui%2FFeatureRenderer.java;h=021c27e2c91b2fdd65ffc27ad243da8f09c14485;hb=34e81d4c2a02e30ccbea5295e550137b57810f25;hp=4e72719b78d9a732b40b7e8145fb7e4ab629d798;hpb=a7168a947828a74899fff98c5f4f59515f60432a;p=jalview.git

diff --git a/src/jalview/gui/FeatureRenderer.java b/src/jalview/gui/FeatureRenderer.java
index 4e72719..021c27e 100755
--- a/src/jalview/gui/FeatureRenderer.java
+++ b/src/jalview/gui/FeatureRenderer.java
@@ -165,11 +165,37 @@ public class FeatureRenderer implements jalview.api.FeatureRenderer
 
   public void transferSettings(FeatureRenderer fr)
   {
-    this.renderOrder = fr.renderOrder;
-    this.featureGroups = fr.featureGroups;
-    this.featureColours = fr.featureColours;
-    this.transparency = fr.transparency;
-    this.featureOrder = fr.featureOrder;
+    FeatureRendererSettings frs = new FeatureRendererSettings(fr);
+    this.renderOrder = frs.renderOrder;
+    this.featureGroups = frs.featureGroups;
+    this.featureColours = frs.featureColours;
+    this.transparency = frs.transparency;
+    this.featureOrder = frs.featureOrder;
+    if (av != null && av!=fr.av)
+    {
+      // copy over the displayed feature settings
+      if (fr.av != null)
+      {
+        if (fr.av.featuresDisplayed != null)
+        {
+          // update display settings
+          if (av.featuresDisplayed == null)
+          {
+            av.featuresDisplayed = new Hashtable(fr.av.featuresDisplayed);
+          }
+          else
+          {
+            av.featuresDisplayed.clear();
+            Enumeration en = fr.av.featuresDisplayed.keys();
+            while (en.hasMoreElements())
+            {
+              av.featuresDisplayed.put(en.nextElement(), Boolean.TRUE);
+            }
+
+          }
+        }
+      }
+    }
   }
 
   BufferedImage offscreenImage;
@@ -229,7 +255,8 @@ public class FeatureRenderer implements jalview.api.FeatureRenderer
     }
 
     currentColour = null;
-    // TODO: non-threadsafe - each rendering thread needs its own instance of the feature renderer - or this should be synchronized.
+    // TODO: non-threadsafe - each rendering thread needs its own instance of
+    // the feature renderer - or this should be synchronized.
     offscreenRender = true;
 
     if (offscreenImage != null)