Merge branch 'JAL-1378_jb2.1cli' into RNAalifold

[jalview.git] / src / jalview / gui / SeqPanel.java

diff --git a/src/jalview/gui/SeqPanel.java b/src/jalview/gui/SeqPanel.java
index 3095c47..94d5ca8 100644 (file)
--- a/src/jalview/gui/SeqPanel.java
+++ b/src/jalview/gui/SeqPanel.java
@@ -129,8 +129,7 @@ public class SeqPanel extends JPanel implements MouseListener,
       addMouseMotionListener(this);
       addMouseListener(this);
       addMouseWheelListener(this);
-      ssm = StructureSelectionManager
-              .getStructureSelectionManager(Desktop.instance);
+      ssm = av.getStructureSelectionManager();
       ssm.addStructureViewerListener(this);
       ssm.addSelectionListener(this);
     }
@@ -307,7 +306,7 @@ public class SeqPanel extends JPanel implements MouseListener,
   {
     SequenceI sequence = av.getAlignment().getSequenceAt(seqCanvas.cursorY);
 
-    seqCanvas.cursorX = sequence.findIndex(getKeyboardNo1() - 1);
+    seqCanvas.cursorX = sequence.findIndex(getKeyboardNo1()) - 1;
     scrollToVisible();
   }
 
@@ -518,26 +517,31 @@ public class SeqPanel extends JPanel implements MouseListener,
 
   int getKeyboardNo1()
   {
-    if (keyboardNo1 == null)
-      return 1;
-    else
+    try {
+    if (keyboardNo1 != null) 
     {
       int value = Integer.parseInt(keyboardNo1.toString());
       keyboardNo1 = null;
       return value;
     }
+    } catch (Exception x)
+    {}
+    keyboardNo1 = null;
+    return 1;
   }
 
   int getKeyboardNo2()
   {
-    if (keyboardNo2 == null)
-      return 1;
-    else
-    {
+    try {
+    if (keyboardNo2!=null){
       int value = Integer.parseInt(keyboardNo2.toString());
       keyboardNo2 = null;
       return value;
     }
+    } catch (Exception x)
+    {}
+    keyboardNo2 = null;
+    return 1;
   }
 
   /**