X-Git-Url: http://source.jalview.org/gitweb/?a=blobdiff_plain;f=src%2FMCview%2FAppletPDBCanvas.java;h=107d98d39bc5e0164b8aae03c1f043ead8c0053d;hb=05cc1e453976137138e0d24ba0264b8e5f35b628;hp=dc4cf0b6fda07d02f1b6393c721c31ad79d0e07a;hpb=e141c1213b46aa8d98e525f0332a25515161892b;p=jalview.git

diff --git a/src/MCview/AppletPDBCanvas.java b/src/MCview/AppletPDBCanvas.java
index dc4cf0b..107d98d 100755
--- a/src/MCview/AppletPDBCanvas.java
+++ b/src/MCview/AppletPDBCanvas.java
@@ -77,6 +77,7 @@ public class AppletPDBCanvas extends Panel implements MouseListener, MouseMotion
     Bond highlightBond1, highlightBond2;
     boolean errorLoading = false;
     boolean seqColoursReady = false;
+    jalview.appletgui.FeatureRenderer fr;
 
     public AppletPDBCanvas(jalview.appletgui.SeqCanvas seqcanvas, Sequence seq)
     {
@@ -479,6 +480,18 @@ public class AppletPDBCanvas extends Panel implements MouseListener, MouseMotion
     // Applet and Application specific sequence renderers to be used
     void colourBySequence(PDBChain chain)
     {
+      boolean showFeatures = false;
+
+      if(seqcanvas.getViewport().getShowSequenceFeatures())
+        {
+          if(fr==null)
+          {
+            fr = new jalview.appletgui.FeatureRenderer(seqcanvas.getViewport());
+          }
+          fr.transferSettings( seqcanvas.getFeatureRenderer());
+          showFeatures = true;
+        }
+
       for (int i = 0; i < chain.bonds.size(); i++)
       {
         Bond tmp = (Bond) chain.bonds.elementAt(i);
@@ -498,8 +511,8 @@ public class AppletPDBCanvas extends Panel implements MouseListener, MouseMotion
               tmp.startCol = seqcanvas.getSequenceRenderer().
                   getResidueBoxColour( sequence, index);
 
-              tmp.startCol = seqcanvas.getFeatureRenderer().
-                  findFeatureColour(tmp.startCol, sequence, index);
+              if(showFeatures)
+              tmp.startCol = fr.findFeatureColour(tmp.startCol, sequence, index);
             }
         }
 
@@ -509,18 +522,23 @@ public class AppletPDBCanvas extends Panel implements MouseListener, MouseMotion
         {
           tmp.endCol = seqcanvas.getSequenceRenderer().
               getResidueBoxColour( sequence, index);
-          tmp.endCol = seqcanvas.getFeatureRenderer().
-              findFeatureColour(tmp.endCol, sequence, index);
+
+          if(showFeatures)
+          tmp.endCol = fr.findFeatureColour(tmp.endCol, sequence, index);
         }
       }
     }
 
 
+    Zsort zsort;
     public void drawScene(Graphics g)
     {
+        if (zbuffer)
+        {
+          if(zsort ==null)
+            zsort = new Zsort();
 
-        if (zbuffer) {
-            Zsort.Zsort(visiblebonds);
+          zsort.Zsort(visiblebonds);
         }