X-Git-Url: http://source.jalview.org/gitweb/?a=blobdiff_plain;ds=sidebyside;f=src%2Fjalview%2Fappletgui%2FAnnotationPanel.java;h=540a0e09eb6deaa77ad431c9eedf1d7d452665c9;hb=2bd43f464e725844b02a106c2d2f187c2c3655a6;hp=45a5f1e18b2ed2226d8172ef7437c76d90e151ca;hpb=e8ede151da126e8fe205392c64f1604d80adda6d;p=jalview.git

diff --git a/src/jalview/appletgui/AnnotationPanel.java b/src/jalview/appletgui/AnnotationPanel.java
index 45a5f1e..540a0e0 100755
--- a/src/jalview/appletgui/AnnotationPanel.java
+++ b/src/jalview/appletgui/AnnotationPanel.java
@@ -1,18 +1,18 @@
 /*
- * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
- * Copyright (C) 2011 J Procter, AM Waterhouse, J Engelhardt, LM Lui, G Barton, M Clamp, S Searle
- *
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.8)
+ * Copyright (C) 2012 J Procter, AM Waterhouse, LM Lui, J Engelhardt, G Barton, M Clamp, S Searle
+ * 
  * This file is part of Jalview.
- *
+ * 
  * Jalview is free software: you can redistribute it and/or
- * modify it under the terms of the GNU General Public License
+ * modify it under the terms of the GNU General Public License 
  * as published by the Free Software Foundation, either version 3 of the License, or (at your option) any later version.
- *
- * Jalview is distributed in the hope that it will be useful, but
- * WITHOUT ANY WARRANTY; without even the implied warranty
- * of MERCHANTABILITY or FITNESS FOR A PARTICULAR
+ *  
+ * Jalview is distributed in the hope that it will be useful, but 
+ * WITHOUT ANY WARRANTY; without even the implied warranty 
+ * of MERCHANTABILITY or FITNESS FOR A PARTICULAR 
  * PURPOSE.  See the GNU General Public License for more details.
- *
+ * 
  * You should have received a copy of the GNU General Public License along with Jalview.  If not, see <http://www.gnu.org/licenses/>.
  */
 package jalview.appletgui;
@@ -21,14 +21,14 @@ import java.util.*;
 
 import java.awt.*;
 import java.awt.event.*;
-import java.awt.image.BufferedImage;
 
 import jalview.datamodel.*;
 import jalview.renderer.AnnotationRenderer;
 import jalview.renderer.AwtRenderPanelI;
 
-public class AnnotationPanel extends Panel implements AwtRenderPanelI, AdjustmentListener,
-        ActionListener, MouseListener, MouseMotionListener
+public class AnnotationPanel extends Panel implements AwtRenderPanelI,
+        AdjustmentListener, ActionListener, MouseListener,
+        MouseMotionListener
 {
   AlignViewport av;
 
@@ -110,7 +110,7 @@ public class AnnotationPanel extends Panel implements AwtRenderPanelI, Adjustmen
 
   /**
    * DOCUMENT ME!
-   *
+   * 
    * @param evt
    *          DOCUMENT ME!
    */
@@ -133,7 +133,8 @@ public class AnnotationPanel extends Panel implements AwtRenderPanelI, Adjustmen
     }
 
     String label = "";
-    if (av.getColumnSelection() != null && av.getColumnSelection().size() > 0
+    if (av.getColumnSelection() != null
+            && av.getColumnSelection().size() > 0
             && anot[av.getColumnSelection().getMin()] != null)
       label = anot[av.getColumnSelection().getMin()].displayCharacter;
 
@@ -326,7 +327,9 @@ public class AnnotationPanel extends Panel implements AwtRenderPanelI, Adjustmen
         item = new MenuItem(STEM);
         item.addActionListener(this);
         pop.add(item);
-      } else {
+      }
+      else
+      {
         item = new MenuItem(HELIX);
         item.addActionListener(this);
         pop.add(item);
@@ -472,9 +475,11 @@ public class AnnotationPanel extends Panel implements AwtRenderPanelI, Adjustmen
     }
     return height;
   }
+
   /**
-   * calculate the height for visible annotation, revalidating bounds where necessary
-   * ABSTRACT GUI METHOD
+   * calculate the height for visible annotation, revalidating bounds where
+   * necessary ABSTRACT GUI METHOD
+   * 
    * @return total height of annotation
    */
 
@@ -520,11 +525,12 @@ public class AnnotationPanel extends Panel implements AwtRenderPanelI, Adjustmen
     Dimension d = getSize();
     imgWidth = d.width;
     // (av.endRes - av.startRes + 1) * av.charWidth;
-    if (imgWidth<1 || d.height<1)
+    if (imgWidth < 1 || d.height < 1)
     {
       return;
     }
-    if (image == null || imgWidth != image.getWidth(this) || d.height != image.getHeight(this))
+    if (image == null || imgWidth != image.getWidth(this)
+            || d.height != image.getHeight(this))
     {
       image = createImage(imgWidth, d.height);
       gg = image.getGraphics();
@@ -549,7 +555,8 @@ public class AnnotationPanel extends Panel implements AwtRenderPanelI, Adjustmen
 
   public void fastPaint(int horizontal)
   {
-    if (horizontal == 0 || av.getAlignment().getAlignmentAnnotation() == null
+    if (horizontal == 0
+            || av.getAlignment().getAlignmentAnnotation() == null
             || av.getAlignment().getAlignmentAnnotation().length < 1)
     {
       repaint();
@@ -582,7 +589,7 @@ public class AnnotationPanel extends Panel implements AwtRenderPanelI, Adjustmen
 
   /**
    * DOCUMENT ME!
-   *
+   * 
    * @param g
    *          DOCUMENT ME!
    * @param startRes