X-Git-Url: http://source.jalview.org/gitweb/?a=blobdiff_plain;f=src%2Fjalview%2Fgui%2FOverviewCanvas.java;h=7994bf23692e8f3cc6e6cf98aeda31a4b050b3ab;hb=7d6fd8e1601086ff43abb35151339d12e2b99141;hp=14ffad61fb03b7711036738116b681443f97aa2e;hpb=470b5191a045f078014ec3d5d8727e041141def2;p=jalview.git

diff --git a/src/jalview/gui/OverviewCanvas.java b/src/jalview/gui/OverviewCanvas.java
index 14ffad6..7994bf2 100644
--- a/src/jalview/gui/OverviewCanvas.java
+++ b/src/jalview/gui/OverviewCanvas.java
@@ -21,7 +21,9 @@
 package jalview.gui;
 
 import jalview.api.AlignViewportI;
+import jalview.bin.Cache;
 import jalview.renderer.OverviewRenderer;
+import jalview.renderer.OverviewResColourFinder;
 import jalview.viewmodel.OverviewDimensions;
 
 import java.awt.Color;
@@ -41,6 +43,8 @@ public class OverviewCanvas extends JComponent
 
   private volatile boolean updaterunning = false;
 
+  private boolean dispose = false;
+
   private BufferedImage miniMe;
 
   private BufferedImage lastMiniMe = null;
@@ -57,16 +61,29 @@ public class OverviewCanvas extends JComponent
 
   private AlignViewportI av;
 
+  private OverviewResColourFinder cf;
+
+  private ProgressPanel progressPanel;
+
   public OverviewCanvas(OverviewDimensions overviewDims,
-          AlignViewportI alignvp)
+          AlignViewportI alignvp, ProgressPanel pp)
   {
     od = overviewDims;
     av = alignvp;
+    progressPanel = pp;
 
     sr = new SequenceRenderer(av);
     sr.renderGaps = false;
-    sr.forOverview = true;
     fr = new jalview.renderer.seqfeatures.FeatureRenderer(av);
+
+    boolean useLegacy = Cache.getDefault(Preferences.USE_LEGACY_GAP, false);
+    Color gapCol = Cache.getDefaultColour(Preferences.GAP_COLOUR,
+            jalview.renderer.OverviewResColourFinder.OVERVIEW_DEFAULT_GAP);
+    Color hiddenCol = Cache.getDefaultColour(Preferences.HIDDEN_COLOUR,
+            jalview.renderer.OverviewResColourFinder.OVERVIEW_DEFAULT_HIDDEN);
+    cf = new OverviewResColourFinder(useLegacy, gapCol, hiddenCol);
+
+    setSize(od.getWidth(), od.getHeight());
   }
 
   /**
@@ -126,7 +143,11 @@ public class OverviewCanvas extends JComponent
 
     setPreferredSize(new Dimension(od.getWidth(), od.getHeight()));
 
-    or = new OverviewRenderer(sr, fr, od);
+    or = new OverviewRenderer(fr, od, av.getAlignment(),
+            av.getResidueShading(), cf);
+
+    or.addPropertyChangeListener(progressPanel);
+
     miniMe = or.draw(od.getRows(av.getAlignment()),
             od.getColumns(av.getAlignment()));
 
@@ -140,12 +161,16 @@ public class OverviewCanvas extends JComponent
               od.getColumns(av.getAlignment()));
       mg.translate(0, -od.getSequencesHeight());
     }
-    System.gc();
 
+    or.removePropertyChangeListener(progressPanel);
+    or = null;
     if (restart)
     {
       restart = false;
-      draw(showSequenceFeatures, showAnnotation, transferRenderer);
+      if (!dispose)
+      {
+        draw(showSequenceFeatures, showAnnotation, transferRenderer);
+      }
     }
     else
     {
@@ -155,15 +180,10 @@ public class OverviewCanvas extends JComponent
   }
 
   @Override
-  public void setSize(int width, int height)
-  {
-    // TODO Auto-generated method stub
-    super.setSize(width, height);
-  }
-
-  @Override
   public void paintComponent(Graphics g)
   {
+    super.paintComponent(g);
+
     if (restart)
     {
       if (lastMiniMe == null)
@@ -180,12 +200,13 @@ public class OverviewCanvas extends JComponent
     }
     else if (lastMiniMe != null)
     {
+      // is this a resize?
       if ((getWidth() > 0) && (getHeight() > 0)
               && ((getWidth() != od.getWidth())
                       || (getHeight() != od.getHeight())))
       {
-        // scale the alignment and annotation separately *** if there is
-        // annotation ***
+        // if there is annotation, scale the alignment and annotation
+        // separately
         if (od.getGraphHeight() > 0)
         {
           BufferedImage topImage = lastMiniMe.getSubimage(0, 0,
@@ -194,12 +215,13 @@ public class OverviewCanvas extends JComponent
                   od.getSequencesHeight(), od.getWidth(),
                   od.getGraphHeight());
 
+          // must be done at this point as we rely on using old width/height
+          // above, and new width/height below
           od.setWidth(getWidth());
           od.setHeight(getHeight());
 
           // stick the images back together so lastMiniMe is consistent in the
-          // event
-          // of a repaint
+          // event of a repaint - BUT probably not thread safe
           lastMiniMe = new BufferedImage(od.getWidth(), od.getHeight(),
                   BufferedImage.TYPE_INT_RGB);
           Graphics lg = lastMiniMe.getGraphics();
@@ -209,27 +231,40 @@ public class OverviewCanvas extends JComponent
                   od.getWidth(), od.getGraphHeight(), this);
           lg.dispose();
         }
-
-        g.drawImage(lastMiniMe, 0, 0, od.getWidth(), od.getHeight(), null);
-      }
-      else
-      {
-        g.drawImage(lastMiniMe, 0, 0, getWidth(), getHeight(), this);
-        if (lastMiniMe != miniMe)
+        else
         {
-          g.setColor(TRANS_GREY);
-          g.fillRect(0, 0, getWidth(), getHeight());
+          od.setWidth(getWidth());
+          od.setHeight(getHeight());
         }
-      }
 
+        // make sure the box is in the right place
+        od.setBoxPosition(av.getAlignment().getHiddenSequences(),
+                av.getAlignment().getHiddenColumns());
+      }
+      // fall back to normal behaviour
+      g.drawImage(lastMiniMe, 0, 0, getWidth(), getHeight(), this);
     }
-
+    else
+    {
+      g.drawImage(lastMiniMe, 0, 0, getWidth(), getHeight(), this);
+    }
+    
+    // draw the box
     g.setColor(Color.red);
+    od.drawBox(g);
+  }
 
 
-    od.setBoxPosition(av.getAlignment().getHiddenSequences(),
-            av.getAlignment().getHiddenColumns());
-
-    od.drawBox(g);
+  public void dispose()
+  {
+    dispose = true;
+    synchronized (this)
+    {
+      restart = true;
+      if (or != null)
+      {
+        or.setRedraw(true);
+      }
+    }
   }
 }