X-Git-Url: http://source.jalview.org/gitweb/?a=blobdiff_plain;ds=sidebyside;f=src%2Fjalview%2Fappletgui%2FAppletJmol.java;h=4dcb5d764faecb18057d79cc13c70fa50db52df4;hb=20f9fe1f87d1be90a55fedd79b57f927d826bee6;hp=0db3e308167eabf32807f918126b79da5ce0b475;hpb=c66902a9536b10a5477b58aaf7c2d75772890a5d;p=jalview.git

diff --git a/src/jalview/appletgui/AppletJmol.java b/src/jalview/appletgui/AppletJmol.java
index 0db3e30..4dcb5d7 100644
--- a/src/jalview/appletgui/AppletJmol.java
+++ b/src/jalview/appletgui/AppletJmol.java
@@ -552,7 +552,7 @@ public class AppletJmol extends EmbmenuFrame implements
     else if (evt.getSource() == seqColour)
     {
       setEnabled(seqColour);
-      jmb.colourBySequence(ap.av.getShowSequenceFeatures(), ap);
+      jmb.colourBySequence(ap.av.isShowSequenceFeatures(), ap);
     }
     else if (!allChainsSelected)
     {
@@ -582,7 +582,7 @@ public class AppletJmol extends EmbmenuFrame implements
   public void updateColours(Object source)
   {
     AlignmentPanel ap = (AlignmentPanel) source;
-    jmb.colourBySequence(ap.av.getShowSequenceFeatures(), ap);
+    jmb.colourBySequence(ap.av.isShowSequenceFeatures(), ap);
   }
 
   public void updateTitleAndMenus()
@@ -593,7 +593,7 @@ public class AppletJmol extends EmbmenuFrame implements
       return;
     }
     setChainMenuItems(jmb.chainNames);
-    jmb.colourBySequence(ap.av.getShowSequenceFeatures(), ap);
+    jmb.colourBySequence(ap.av.isShowSequenceFeatures(), ap);
 
     setTitle(jmb.getViewerTitle());
   }