Merge branch 'develop' into developtomchmmer

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

diff --git a/src/jalview/appletgui/OverviewPanel.java b/src/jalview/appletgui/OverviewPanel.java
index 456a38c..41c4de3 100755 (executable)
--- a/src/jalview/appletgui/OverviewPanel.java
+++ b/src/jalview/appletgui/OverviewPanel.java
@@ -31,6 +31,7 @@ import java.awt.BorderLayout;
 import java.awt.CheckboxMenuItem;
 import java.awt.Cursor;
 import java.awt.Dimension;
+import java.awt.Frame;
 import java.awt.Panel;
 import java.awt.PopupMenu;
 import java.awt.event.ComponentAdapter;
@@ -67,7 +68,8 @@ public class OverviewPanel extends Panel implements Runnable,
     setLayout(null);
 
     od = new OverviewDimensionsShowHidden(av.getRanges(),
-            (av.isShowAnnotation() && av.getSequenceConsensusHash() != null));
+            (av.isShowAnnotation()
+                    && av.getConsensusProfiles() != null));
 
     oviewCanvas = new OverviewCanvas(od, av);
     setLayout(new BorderLayout());
@@ -112,7 +114,8 @@ public class OverviewPanel extends Panel implements Runnable,
   @Override
   public void mouseClicked(MouseEvent evt)
   {
-    if ((evt.getModifiers() & InputEvent.BUTTON3_MASK) == InputEvent.BUTTON3_MASK)
+    if ((evt.getModifiersEx()
+            & InputEvent.BUTTON3_DOWN_MASK) == InputEvent.BUTTON3_DOWN_MASK)
     {
       showPopupMenu(evt);
     }
@@ -123,21 +126,22 @@ public class OverviewPanel extends Panel implements Runnable,
   {
     if (od.isPositionInBox(evt.getX(), evt.getY()))
     {
-      // display drag cursor at mouse position
-      setCursor(Cursor.getPredefinedCursor(Cursor.MOVE_CURSOR));
+      this.getParent()
+              .setCursor(Cursor.getPredefinedCursor(Cursor.HAND_CURSOR));
     }
     else
     {
-      // reset cursor
-      setCursor(Cursor.getPredefinedCursor(Cursor.DEFAULT_CURSOR));
+      this.getParent()
+              .setCursor(
+                      Cursor.getPredefinedCursor(Cursor.CROSSHAIR_CURSOR));
     }
   }
 
   @Override
   public void mousePressed(MouseEvent evt)
   {
-    if ((evt.getModifiers()
-            & InputEvent.BUTTON3_MASK) == InputEvent.BUTTON3_MASK)
+    if ((evt.getModifiersEx()
+            & InputEvent.BUTTON3_DOWN_MASK) == InputEvent.BUTTON3_DOWN_MASK)
     {
       if (!Platform.isAMac())
       {
@@ -146,14 +150,21 @@ public class OverviewPanel extends Panel implements Runnable,
     }
     else
     {
+      // don't do anything if the mouse press is in the overview's box
+      // (wait to see if it's a drag instead)
+      // otherwise update the viewport
       if (!od.isPositionInBox(evt.getX(), evt.getY()))
-      {
-        // don't do anything if the mouse press is in the overview's box
-        // (wait to see if it's a drag instead)
-        // otherwise update the viewport
+      { 
+       draggingBox = false;
+
+        // display drag cursor at mouse position
+        setCursor(Cursor.getPredefinedCursor(Cursor.MOVE_CURSOR));
+
         od.updateViewportFromMouse(evt.getX(), evt.getY(),
                 av.getAlignment().getHiddenSequences(),
                 av.getAlignment().getHiddenColumns());
+        getParent()
+                .setCursor(Cursor.getPredefinedCursor(Cursor.HAND_CURSOR));
       }
       else
       {
@@ -168,16 +179,14 @@ public class OverviewPanel extends Panel implements Runnable,
   @Override
   public void mouseReleased(MouseEvent evt)
   {
-    if (draggingBox)
-    {
-      draggingBox = false;
-    }
+    draggingBox = false;
   }
 
   @Override
   public void mouseDragged(MouseEvent evt)
   {
-    if ((evt.getModifiers() & InputEvent.BUTTON3_MASK) == InputEvent.BUTTON3_MASK)
+    if ((evt.getModifiersEx()
+            & InputEvent.BUTTON3_DOWN_MASK) == InputEvent.BUTTON3_DOWN_MASK)
     {
       if (!Platform.isAMac())
       {
@@ -200,7 +209,7 @@ public class OverviewPanel extends Panel implements Runnable,
                 av.getAlignment().getHiddenSequences(),
                 av.getAlignment().getHiddenColumns());
       }
-      ap.paintAlignment(false);
+      ap.paintAlignment(false, false);
     }
   }
 
@@ -244,8 +253,8 @@ public class OverviewPanel extends Panel implements Runnable,
   public void run()
   {
     oviewCanvas.draw(av.isShowSequenceFeatures(),
-            (av.isShowAnnotation() && av
-                    .getAlignmentConservationAnnotation() != null),
+            (av.isShowAnnotation()
+                    && av.getAlignmentConservationAnnotation() != null),
             ap.seqPanel.seqCanvas.getFeatureRenderer());
     setBoxPosition();
   }
@@ -257,9 +266,8 @@ public class OverviewPanel extends Panel implements Runnable,
    */
   private void setBoxPosition()
   {
-    od.setBoxPosition(av.getAlignment()
-.getHiddenSequences(), av
-            .getAlignment().getHiddenColumns());
+    od.setBoxPosition(av.getAlignment().getHiddenSequences(),
+            av.getAlignment().getHiddenColumns());
     repaint();
   }
 
@@ -301,15 +309,15 @@ public class OverviewPanel extends Panel implements Runnable,
     {
       showHidden = false;
       od = new OverviewDimensionsHideHidden(av.getRanges(),
-              (av.isShowAnnotation() && av
-                      .getAlignmentConservationAnnotation() != null));
+              (av.isShowAnnotation()
+                      && av.getAlignmentConservationAnnotation() != null));
     }
     else
     {
       showHidden = true;
       od = new OverviewDimensionsShowHidden(av.getRanges(),
-              (av.isShowAnnotation() && av
-                      .getAlignmentConservationAnnotation() != null));
+              (av.isShowAnnotation()
+                      && av.getAlignmentConservationAnnotation() != null));
     }
     oviewCanvas.resetOviewDims(od);
     updateOverviewImage();
@@ -323,9 +331,16 @@ public class OverviewPanel extends Panel implements Runnable,
     try
     {
       av.getRanges().removePropertyChangeListener(this);
+      Frame parent = (Frame) getParent();
+      parent.dispose();
+      parent.setVisible(false);
     } finally
     {
       av = null;
+      if (oviewCanvas != null)
+      {
+        oviewCanvas.dispose();
+      }
       oviewCanvas = null;
       ap = null;
       od = null;