JAL-4134 highlight selected column nodes on the linked alignment view using getMapped...

diff --git a/src/jalview/gui/TreeCanvas.java b/src/jalview/gui/TreeCanvas.java
index c1a6b0a..efa23bd 100755 (executable)
--- a/src/jalview/gui/TreeCanvas.java
+++ b/src/jalview/gui/TreeCanvas.java
@@ -1151,29 +1151,26 @@ public class TreeCanvas extends JPanel implements MouseListener, Runnable,
       if (cm instanceof MappableContactMatrixI)
       {
         MappableContactMatrixI mcm = (MappableContactMatrixI) cm;
-        int pos[]=mcm.getMappedPositionsFor(rseq, colm);
+        int pos[]=mcm.getMappedPositionsFor(rseq, colm+1);
         if (pos!=null)
         {
-          offp=rseq.findIndex(pos[0])-1;
-        } else {
-          offp=-2;
+          offp=rseq.findIndex(pos[0]);
         }
       }
     }
-    if (offp==-1)
+    if (offp<=0)
     {
-      // assume a direct mapping to reference or column number
-        offp = (rseq != null) ? rseq.findIndex(rseq.getStart() + colm)
-            : colm;
+      return false;
     }
 
+    offp-=2;
     if (!av.hasHiddenColumns())
     {
       return cs.contains(offp);
     }
-    if (hc.isVisible(offp - 1))
+    if (hc.isVisible(offp))
     {
-      return cs.contains(offp - 1);
+      return cs.contains(offp);
       // return cs.contains(hc.absoluteToVisibleColumn(offp));
     }
     return false;