X-Git-Url: http://source.jalview.org/gitweb/?a=blobdiff_plain;f=src%2Fjalview%2Fgui%2FOverviewPanel.java;h=62f8ca9fb31f8f6e50b58be7f51d81215b32d96b;hb=efc31b4a8d5cee63555586804a2b79c06bdb5a14;hp=244d884b50d4e2a08b87ba34757711d9a4d4fc93;hpb=9257b8510c7354cbd7e43a3fc2817978cc8e4ae9;p=jalview.git

diff --git a/src/jalview/gui/OverviewPanel.java b/src/jalview/gui/OverviewPanel.java
index 244d884..62f8ca9 100755
--- a/src/jalview/gui/OverviewPanel.java
+++ b/src/jalview/gui/OverviewPanel.java
@@ -21,305 +21,346 @@ package jalview.gui;
 import java.awt.*;
 import java.awt.event.*;
 import java.awt.image.*;
+
 import javax.swing.*;
 
-public class OverviewPanel
-    extends JPanel implements Runnable
+
+/**
+ * DOCUMENT ME!
+ *
+ * @author $author$
+ * @version $Revision$
+ */
+public class OverviewPanel extends JPanel implements Runnable
 {
-  BufferedImage miniMe;
-  AlignViewport av;
-  AlignmentPanel ap;
-  float scalew = 1f;
-  float scaleh = 1f;
-  int width;
-  int sequencesHeight;
-  int graphHeight = 30;
-  int boxX = -1;
-  int boxY = -1;
-  int boxWidth = -1;
-  int boxHeight = -1;
-  boolean resizing = false;
-
-  public OverviewPanel(AlignmentPanel ap)
-  {
-    this.av = ap.av;
-    this.ap = ap;
-    setLayout(null);
-
-    // scale the initial size of overviewpanel to shape of alignment
-    float initialScale = (float) av.alignment.getWidth() /
-        (float) av.alignment.getHeight();
-
-    if (av.alignment.getWidth() > av.alignment.getHeight())
+    BufferedImage miniMe;
+    AlignViewport av;
+    AlignmentPanel ap;
+    float scalew = 1f;
+    float scaleh = 1f;
+    int width;
+    int sequencesHeight;
+    int graphHeight = 30;
+    int boxX = -1;
+    int boxY = -1;
+    int boxWidth = -1;
+    int boxHeight = -1;
+    boolean resizing = false;
+
+    /**
+     * Creates a new OverviewPanel object.
+     *
+     * @param ap DOCUMENT ME!
+     */
+    public OverviewPanel(AlignmentPanel ap)
     {
-      // wider
-      width = 400;
-      sequencesHeight = (int) (400f / initialScale);
-    }
-    else
-    {
-      // taller
-      width = (int) (400f * initialScale);
-      sequencesHeight = 300;
-
-      if (width < 120)
-      {
-        width = 120;
-      }
-    }
+        this.av = ap.av;
+        this.ap = ap;
+        setLayout(null);
 
-    addComponentListener(new ComponentAdapter()
-    {
-      public void componentResized(ComponentEvent evt)
-      {
-        if ( (getWidth() != width) ||
-            (getHeight() != (sequencesHeight + graphHeight)))
+        // scale the initial size of overviewpanel to shape of alignment
+        float initialScale = (float) av.alignment.getWidth() / (float) av.alignment.getHeight();
+
+        if (av.alignment.getWidth() > av.alignment.getHeight())
         {
-          updateOverviewImage();
+            // wider
+            width = 400;
+            sequencesHeight = (int) (400f / initialScale);
+        }
+        else
+        {
+            // taller
+            width = (int) (400f * initialScale);
+            sequencesHeight = 300;
+
+            if (width < 120)
+            {
+                width = 120;
+            }
         }
-      }
-    });
-
-    addMouseMotionListener(new MouseMotionAdapter()
-    {
-      public void mouseDragged(MouseEvent evt)
-      {
-        doMouseDragged(evt);
-      }
-    });
 
-    addMouseListener(new MouseAdapter()
-    {
-      public void mousePressed(MouseEvent evt)
-      {
-        doMousePressed(evt);
-      }
-
-      public void mouseReleased(MouseEvent evt)
-      {
-        doMouseReleased(evt);
-      }
-    });
-
-    updateOverviewImage();
-  }
-
-  public void doMousePressed(MouseEvent evt)
-  {
-    boxX = evt.getX();
-    boxY = evt.getY();
-
-    checkValid();
-    repaint();
-  }
-
-  public void doMouseReleased(MouseEvent evt)
-  {
-    boxX = evt.getX();
-    boxY = evt.getY();
-    checkValid();
-
-    if (!resizing)
-    {
-      ap.setScrollValues( (int) (boxX / scalew / av.getCharWidth()),
-                         (int) (boxY / scaleh / av.getCharHeight()));
+        addComponentListener(new ComponentAdapter()
+            {
+                public void componentResized(ComponentEvent evt)
+                {
+                    if ((getWidth() != width) ||
+                            (getHeight() != (sequencesHeight + graphHeight)))
+                    {
+                        updateOverviewImage();
+                    }
+                }
+            });
+
+        addMouseMotionListener(new MouseMotionAdapter()
+            {
+                public void mouseDragged(MouseEvent evt)
+                {
+                    doMouseDragged(evt);
+                }
+            });
+
+        addMouseListener(new MouseAdapter()
+            {
+                public void mousePressed(MouseEvent evt)
+                {
+                    doMousePressed(evt);
+                }
+
+                public void mouseReleased(MouseEvent evt)
+                {
+                    doMouseReleased(evt);
+                }
+            });
+
+        updateOverviewImage();
     }
-  }
 
-  public void doMouseDragged(MouseEvent evt)
-  {
-    boxX = evt.getX();
-    boxY = evt.getY();
-    checkValid();
-
-    if (!resizing)
+    /**
+     * DOCUMENT ME!
+     *
+     * @param evt DOCUMENT ME!
+     */
+    public void doMousePressed(MouseEvent evt)
     {
-      ap.setScrollValues( (int) (boxX / scalew / av.getCharWidth()),
-                         (int) (boxY / scaleh / av.getCharHeight()));
-    }
-  }
+        boxX = evt.getX();
+        boxY = evt.getY();
 
-  void checkValid()
-  {
-    if (boxY < 0)
-    {
-      boxY = 0;
+        checkValid();
+        repaint();
     }
 
-    if (boxY > (sequencesHeight - boxHeight))
+    /**
+     * DOCUMENT ME!
+     *
+     * @param evt DOCUMENT ME!
+     */
+    public void doMouseReleased(MouseEvent evt)
     {
-      boxY = sequencesHeight - boxHeight + 1;
-    }
+        boxX = evt.getX();
+        boxY = evt.getY();
+        checkValid();
 
-    if (boxX < 0)
-    {
-      boxX = 0;
+        if (!resizing)
+        {
+            ap.setScrollValues((int) (boxX / scalew / av.getCharWidth()),
+                (int) (boxY / scaleh / av.getCharHeight()));
+        }
     }
 
-    if (boxX > (width - boxWidth))
+    /**
+     * DOCUMENT ME!
+     *
+     * @param evt DOCUMENT ME!
+     */
+    public void doMouseDragged(MouseEvent evt)
     {
-      boxX = width - boxWidth;
-    }
-  }
+        boxX = evt.getX();
+        boxY = evt.getY();
+        checkValid();
 
-  public void updateOverviewImage()
-  {
-    if (resizing)
-    {
-      return;
+        if (!resizing)
+        {
+            ap.setScrollValues((int) (boxX / scalew / av.getCharWidth()),
+                (int) (boxY / scaleh / av.getCharHeight()));
+        }
     }
 
-    resizing = true;
-
-    Thread thread = new Thread(this);
-    thread.start();
-    repaint();
-  }
+    /**
+     * DOCUMENT ME!
+     */
+    void checkValid()
+    {
+        if (boxY < 0)
+        {
+            boxY = 0;
+        }
 
-  public void run()
-  {
-    miniMe = null;
+        if (boxY > (sequencesHeight - boxHeight))
+        {
+            boxY = sequencesHeight - boxHeight + 1;
+        }
 
-    int alwidth = av.alignment.getWidth();
-    int alheight = av.alignment.getHeight();
+        if (boxX < 0)
+        {
+            boxX = 0;
+        }
 
-    if ( (getWidth() > 0) && (getHeight() > 0))
-    {
-      width = getWidth();
-      sequencesHeight = getHeight() - graphHeight;
+        if (boxX > (width - boxWidth))
+        {
+            boxX = width - boxWidth;
+        }
     }
 
-    setPreferredSize(new Dimension(width, sequencesHeight + graphHeight));
-
-    int fullsizeWidth = alwidth * av.getCharWidth();
-    int fullsizeHeight = alheight * av.getCharHeight();
+    /**
+     * DOCUMENT ME!
+     */
+    public void updateOverviewImage()
+    {
+        if (resizing)
+        {
+            return;
+        }
 
-    scalew = (float) width / (float) fullsizeWidth;
-    scaleh = (float) sequencesHeight / (float) fullsizeHeight;
+        resizing = true;
 
-    miniMe = new BufferedImage(width, sequencesHeight + graphHeight,
-                               BufferedImage.TYPE_INT_RGB);
+        Thread thread = new Thread(this);
+        thread.start();
+        repaint();
+    }
 
-    Graphics mg = miniMe.getGraphics();
-    BufferedImage consensus = new BufferedImage(fullsizeWidth, 60,
-                                                BufferedImage.TYPE_3BYTE_BGR);
-    Graphics g = consensus.getGraphics();
-    ap.annotationPanel.drawGraph(g, av.conservation, fullsizeWidth, 60);
-    mg.drawImage(consensus, 0, sequencesHeight, width,
-                 sequencesHeight + graphHeight, 0, 0, fullsizeWidth, 60, this);
+    /**
+     * DOCUMENT ME!
+     */
+    public void run()
+    {
+        miniMe = null;
 
-    boolean oldRenderGaps = av.renderGaps;
+        int alwidth = av.alignment.getWidth();
+        int alheight = av.alignment.getHeight();
 
-    try
-    {
-      // We'll have to draw the full size alignment in chunks, as an image of the
-      // whole alignment requires too much memory
-      // Max size depends on the font size, the following is a
-      // guess at a size which works
-      int maxSize = 2000 / av.getFont().getSize();
-      BufferedImage block;
-      int blockx = 0;
-      int blocky = 0;
-      int blockw = 0;
-      int blockh = 0;
-      int eRes = 0;
-      int eSeq = 0;
-
-      av.setRenderGaps(false);
-
-      for (int sRes = 0, chunkx = 0; sRes < alwidth;
-           sRes += maxSize, chunkx++)
-      {
-        eSeq = 0;
-        eRes += maxSize;
-
-        if (eRes > alwidth)
+        if ((getWidth() > 0) && (getHeight() > 0))
         {
-          eRes = alwidth;
+            width = getWidth();
+            sequencesHeight = getHeight() - graphHeight;
         }
 
-        for (int sSeq = 0, chunky = 0; sSeq < alheight;
-             sSeq += maxSize, chunky++)
-        {
-          eSeq += maxSize;
+        setPreferredSize(new Dimension(width, sequencesHeight + graphHeight));
 
-          if (eSeq > alheight)
-          {
-            eSeq = alheight;
-          }
+        int fullsizeWidth = alwidth * av.getCharWidth();
+        int fullsizeHeight = alheight * av.getCharHeight();
 
-          blocky = 0;
-          blockx = (int) ( (float) sRes / (float) alwidth * width);
+        scalew = (float) width / (float) fullsizeWidth;
+        scaleh = (float) sequencesHeight / (float) fullsizeHeight;
 
-          block = new BufferedImage( (eRes - sRes) * av.charWidth,
-                                    (eSeq - sSeq) * av.charHeight,
-                                    BufferedImage.TYPE_3BYTE_BGR);
-          g = block.getGraphics();
+        miniMe = new BufferedImage(width, sequencesHeight + graphHeight,
+                BufferedImage.TYPE_INT_RGB);
 
-          ap.seqPanel.seqCanvas.drawPanel(g, sRes, eRes, sSeq, eSeq,
-                                          sRes, sSeq, 0);
+        Graphics mg = miniMe.getGraphics();
+        BufferedImage consensus = new BufferedImage(fullsizeWidth, 60,
+                BufferedImage.TYPE_3BYTE_BGR);
+        Graphics g = consensus.getGraphics();
+        ap.annotationPanel.drawGraph(g, av.conservation, fullsizeWidth, 60);
+        mg.drawImage(consensus, 0, sequencesHeight, width,
+            sequencesHeight + graphHeight, 0, 0, fullsizeWidth, 60, this);
 
-          blockh = (int) ( (float) (eSeq - sSeq) / (float) alheight *
-                          sequencesHeight) +
-              1;
-          blockw = (int) ( (float) (eRes - sRes) / (float) alwidth * width) +
-              1;
+        boolean oldRenderGaps = av.renderGaps;
 
-          blocky += (int) ( (float) sSeq / (float) alheight * sequencesHeight);
+        try
+        {
+            // We'll have to draw the full size alignment in chunks, as an image of the
+            // whole alignment requires too much memory
+            // Max size depends on the font size, the following is a
+            // guess at a size which works
+            int maxSize = 2000 / av.getFont().getSize();
+            BufferedImage block;
+            int blockx = 0;
+            int blocky = 0;
+            int blockw = 0;
+            int blockh = 0;
+            int eRes = 0;
+            int eSeq = 0;
+
+            av.setRenderGaps(false);
+
+            for (int sRes = 0, chunkx = 0; sRes < alwidth;
+                    sRes += maxSize, chunkx++)
+            {
+                eSeq = 0;
+                eRes += maxSize;
+
+                if (eRes > alwidth)
+                {
+                    eRes = alwidth;
+                }
+
+                for (int sSeq = 0, chunky = 0; sSeq < alheight;
+                        sSeq += maxSize, chunky++)
+                {
+                    eSeq += maxSize;
+
+                    if (eSeq > alheight)
+                    {
+                        eSeq = alheight;
+                    }
+
+                    blocky = 0;
+                    blockx = (int) ((float) sRes / (float) alwidth * width);
+
+                    block = new BufferedImage((eRes - sRes) * av.charWidth,
+                            (eSeq - sSeq) * av.charHeight,
+                            BufferedImage.TYPE_3BYTE_BGR);
+                    g = block.getGraphics();
+
+                    ap.seqPanel.seqCanvas.drawPanel(g, sRes, eRes, sSeq, eSeq,
+                        sRes, sSeq, 0);
+
+                    blockh = (int) ((float) (eSeq - sSeq) / (float) alheight * sequencesHeight) +
+                        1;
+                    blockw = (int) ((float) (eRes - sRes) / (float) alwidth * width) +
+                        1;
+
+                    blocky += (int) ((float) sSeq / (float) alheight * sequencesHeight);
+
+                    mg.drawImage(block, blockx, blocky, blockx + blockw,
+                        blocky + blockh, 0, 0, block.getWidth(),
+                        block.getHeight(), this);
+
+                    block = null;
+                }
+            }
+        }
+        catch (OutOfMemoryError error)
+        {
+            System.err.println(
+                "Out of memory when trying to calculate the overview window image!");
+        }
 
-          mg.drawImage(block, blockx, blocky, blockx + blockw,
-                       blocky + blockh, 0, 0, block.getWidth(),
-                       block.getHeight(), this);
+        av.setRenderGaps(oldRenderGaps);
+        resizing = false;
 
-          block = null;
-        }
-      }
-    }
-    catch (OutOfMemoryError error)
-    {
-      System.err.println(
-          "Out of memory when trying to calculate the overview window image!");
+        setBoxPosition();
     }
 
-    av.setRenderGaps(oldRenderGaps);
-    resizing = false;
-
-    setBoxPosition();
-  }
-
-  public void setBoxPosition()
-  {
-    boxX = (int) (av.getStartRes() * av.getCharWidth() * scalew);
-    boxY = (int) (av.getStartSeq() * av.getCharHeight() * scaleh);
-    boxWidth = (int) ( (av.getEndRes() - av.getStartRes() + 1) *
-                      av.getCharWidth() * scalew);
-    boxHeight = (int) (av.getEndSeq() * av.getCharHeight() * scaleh) -
-        boxY;
-    repaint();
-  }
-
-  public void paintComponent(Graphics g)
-  {
-    g.setColor(Color.white);
-    g.fillRect(0, 0, getWidth(), getHeight());
-    g.setColor(Color.black);
-
-    if (resizing)
+    /**
+     * DOCUMENT ME!
+     */
+    public void setBoxPosition()
     {
-      g.setFont(new Font("Verdana", Font.BOLD, 15));
-      g.drawString("Recalculating", 5, sequencesHeight / 2);
-      g.drawString("Overview.....", 5, (sequencesHeight / 2) + 20);
+        boxX = (int) (av.getStartRes() * av.getCharWidth() * scalew);
+        boxY = (int) (av.getStartSeq() * av.getCharHeight() * scaleh);
+        boxWidth = (int) ((av.getEndRes() - av.getStartRes() + 1) * av.getCharWidth() * scalew);
+        boxHeight = (int) (av.getEndSeq() * av.getCharHeight() * scaleh) -
+            boxY;
+        repaint();
     }
-    else
+
+    /**
+     * DOCUMENT ME!
+     *
+     * @param g DOCUMENT ME!
+     */
+    public void paintComponent(Graphics g)
     {
-      if (miniMe != null)
-      {
-        g.drawImage(miniMe, 0, 0, this);
-      }
-
-      g.setColor(Color.red);
-      g.drawRect(boxX, boxY, boxWidth, boxHeight);
-      g.drawRect(boxX + 1, boxY + 1, boxWidth - 2, boxHeight - 2);
+        g.setColor(Color.white);
+        g.fillRect(0, 0, getWidth(), getHeight());
+        g.setColor(Color.black);
+
+        if (resizing)
+        {
+            g.setFont(new Font("Verdana", Font.BOLD, 15));
+            g.drawString("Recalculating", 5, sequencesHeight / 2);
+            g.drawString("Overview.....", 5, (sequencesHeight / 2) + 20);
+        }
+        else
+        {
+            if (miniMe != null)
+            {
+                g.drawImage(miniMe, 0, 0, this);
+            }
+
+            g.setColor(Color.red);
+            g.drawRect(boxX, boxY, boxWidth, boxHeight);
+            g.drawRect(boxX + 1, boxY + 1, boxWidth - 2, boxHeight - 2);
+        }
     }
-  }
 }