JAL-1645 Version-Rel Version 2.9 Year-Rel 2015 Licensing glob

[jalview.git] / src / jalview / appletgui / RotatableCanvas.java

diff --git a/src/jalview/appletgui/RotatableCanvas.java b/src/jalview/appletgui/RotatableCanvas.java
index 4f54670..f38d291 100755 (executable)
--- a/src/jalview/appletgui/RotatableCanvas.java
+++ b/src/jalview/appletgui/RotatableCanvas.java
@@ -1,34 +1,49 @@
 /*
- * Jalview - A Sequence Alignment Editor and Viewer (Version 2.4)
- * Copyright (C) 2008 AM Waterhouse, J Procter, G Barton, M Clamp, S Searle
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.9)
+ * Copyright (C) 2015 The Jalview Authors
  * 
- * This program is free software; you can redistribute it and/or
- * modify it under the terms of the GNU General Public License
- * as published by the Free Software Foundation; either version 2
- * of the License, or (at your option) any later version.
+ * This file is part of Jalview.
  * 
- * This program 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.
+ * Jalview is free software: you can redistribute it and/or
+ * 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 
+ * PURPOSE.  See the GNU General Public License for more details.
  * 
  * You should have received a copy of the GNU General Public License
- * along with this program; if not, write to the Free Software
- * Foundation, Inc., 51 Franklin Street, Fifth Floor, Boston, MA  02110-1301, USA
+ * along with Jalview.  If not, see <http://www.gnu.org/licenses/>.
+ * The Jalview Authors are detailed in the 'AUTHORS' file.
  */
 package jalview.appletgui;
 
-import java.util.*;
-
-import java.awt.*;
-import java.awt.event.*;
-
-import jalview.datamodel.*;
-import jalview.math.*;
-import jalview.util.*;
+import jalview.api.RotatableCanvasI;
+import jalview.datamodel.SequenceGroup;
+import jalview.datamodel.SequenceI;
+import jalview.datamodel.SequencePoint;
+import jalview.math.RotatableMatrix;
+import jalview.util.Format;
+import jalview.util.MessageManager;
+import jalview.viewmodel.AlignmentViewport;
+
+import java.awt.Color;
+import java.awt.Dimension;
+import java.awt.Font;
+import java.awt.Graphics;
+import java.awt.Image;
+import java.awt.Panel;
+import java.awt.event.KeyEvent;
+import java.awt.event.KeyListener;
+import java.awt.event.MouseEvent;
+import java.awt.event.MouseListener;
+import java.awt.event.MouseMotionListener;
+import java.util.Vector;
 
 public class RotatableCanvas extends Panel implements MouseListener,
-        MouseMotionListener, KeyListener
+        MouseMotionListener, KeyListener, RotatableCanvasI
 {
   RotatableMatrix idmat = new RotatableMatrix(3, 3);
 
@@ -96,11 +111,11 @@ public class RotatableCanvas extends Panel implements MouseListener,
 
   float scalefactor = 1;
 
-  AlignViewport av;
+  AlignmentViewport av;
 
   boolean showLabels = false;
 
-  public RotatableCanvas(AlignViewport av)
+  public RotatableCanvas(AlignmentViewport av)
   {
     this.av = av;
   }
@@ -316,7 +331,8 @@ public class RotatableCanvas extends Panel implements MouseListener,
     if (points == null)
     {
       g.setFont(new Font("Verdana", Font.PLAIN, 18));
-      g.drawString("Calculating PCA....", 20, getSize().height / 2);
+      g.drawString(MessageManager.getString("label.calculating_pca")
+              + "....", 20, getSize().height / 2);
     }
     else
     {
@@ -397,8 +413,8 @@ public class RotatableCanvas extends Panel implements MouseListener,
 
       if (av.getSelectionGroup() != null)
       {
-        if (av.getSelectionGroup().getSequences(null).contains(
-                ((SequencePoint) points.elementAt(i)).sequence))
+        if (av.getSelectionGroup().getSequences(null)
+                .contains(((SequencePoint) points.elementAt(i)).sequence))
         {
           g.setColor(Color.gray);
         }
@@ -412,8 +428,9 @@ public class RotatableCanvas extends Panel implements MouseListener,
       if (showLabels)
       {
         g.setColor(Color.red);
-        g.drawString(((SequencePoint) points.elementAt(i)).sequence
-                .getName(), x - 3, y - 4);
+        g.drawString(
+                ((SequencePoint) points.elementAt(i)).sequence.getName(),
+                x - 3, y - 4);
       }
     }
   }
@@ -514,19 +531,22 @@ public class RotatableCanvas extends Panel implements MouseListener,
 
     if (found != null)
     {
+      // TODO: applet PCA is not associatable with multi-panels - only parent
+      // view
       if (av.getSelectionGroup() != null)
       {
         av.getSelectionGroup().addOrRemove(found, true);
-        av.getSelectionGroup().setEndRes(av.alignment.getWidth() - 1);
-        PaintRefresher.Refresh(this, av.getSequenceSetId());
+        av.getSelectionGroup().setEndRes(av.getAlignment().getWidth() - 1);
       }
       else
       {
         av.setSelectionGroup(new SequenceGroup());
         av.getSelectionGroup().addOrRemove(found, true);
-        av.getSelectionGroup().setEndRes(av.alignment.getWidth() - 1);
+        av.getSelectionGroup().setEndRes(av.getAlignment().getWidth() - 1);
 
       }
+      PaintRefresher.Refresh(this, av.getSequenceSetId());
+      av.sendSelection();
     }
     repaint();
   }
@@ -596,8 +616,8 @@ public class RotatableCanvas extends Panel implements MouseListener,
       {
         if (av != null)
         {
-          if (!av.getSelectionGroup().getSequences(null).contains(
-                  sp.sequence))
+          if (!av.getSelectionGroup().getSequences(null)
+                  .contains(sp.sequence))
           {
             av.getSelectionGroup().addSequence(sp.sequence, true);
           }