X-Git-Url: http://source.jalview.org/gitweb/?a=blobdiff_plain;f=src%2Fjalview%2Fappletgui%2FAnnotationPanel.java;h=38e033185f04ce180ded9682b20ac1bfefc751d7;hb=771a739cee6cd92de86c97ad93929c7fc4eecc09;hp=825773f848b30bfdcd532006e0f1659caa1d87e6;hpb=f6d3720d393c90ec09d27f7ec3641dea9211e1b3;p=jalview.git

diff --git a/src/jalview/appletgui/AnnotationPanel.java b/src/jalview/appletgui/AnnotationPanel.java
index 825773f..38e0331 100755
--- a/src/jalview/appletgui/AnnotationPanel.java
+++ b/src/jalview/appletgui/AnnotationPanel.java
@@ -751,7 +751,7 @@ public class AnnotationPanel extends Panel implements AdjustmentListener,
                 x1 += av.charWidth / 2;
               }
 
-              if (row.annotations[column] == null
+              if (!validRes || row.annotations[column] == null
                       || row.annotations[column].secondaryStructure != 'H')
               {
                 g.fillArc((x * av.charWidth) - av.charWidth, y + 4
@@ -883,7 +883,7 @@ public class AnnotationPanel extends Panel implements AdjustmentListener,
         }
       }
 
-      if (row.graph > 0)
+      if (row.graph > 0 && row.graphHeight> 0)
       {
         if (row.graph == AlignmentAnnotation.LINE_GRAPH)
         {