X-Git-Url: http://source.jalview.org/gitweb/?a=blobdiff_plain;f=src%2Fjalview%2Fappletgui%2FAnnotationLabels.java;h=d0cad36e574aad08d92a2a4e2194cd6e02782389;hb=c1e70ea0a01d2c916675aa8020970c6696d0dba5;hp=1a83b0900a0645d0827378c262df7ccb0bd1e891;hpb=9fff97021c2c637e426f6971d54dcf3fd4191985;p=jalview.git

diff --git a/src/jalview/appletgui/AnnotationLabels.java b/src/jalview/appletgui/AnnotationLabels.java
index 1a83b09..d0cad36 100755
--- a/src/jalview/appletgui/AnnotationLabels.java
+++ b/src/jalview/appletgui/AnnotationLabels.java
@@ -1,6 +1,6 @@
 /*
  * Jalview - A Sequence Alignment Editor and Viewer
- * Copyright (C) 2005 AM Waterhouse, J Procter, G Barton, M Clamp, S Searle
+ * Copyright (C) 2006 AM Waterhouse, J Procter, G Barton, M Clamp, S Searle
  *
  * This program is free software; you can redistribute it and/or
  * modify it under the terms of the GNU General Public License
@@ -21,14 +21,16 @@ package jalview.appletgui;
 
 import java.awt.*;
 import java.awt.event.*;
+import java.util.Vector;
 
 import jalview.datamodel.*;
 
 public class AnnotationLabels
-    extends Panel implements ActionListener
+    extends Panel implements ActionListener, MouseListener, MouseMotionListener
 {
   boolean active = false;
   AlignmentPanel ap;
+  AlignViewport av;
   boolean resizing = false;
   int oldY, mouseX;
   static String ADDNEW = "Add new row";
@@ -36,32 +38,63 @@ public class AnnotationLabels
   static String DELETE = "Delete this row";
   static String SHOWALL = "Show all hidden rows";
   static String OUTPUT_TEXT = "Show Values In Textbox";
+  static String COPYCONS_SEQ = "Copy Consensus Sequence";
+
   int selectedRow = 0;
   int scrollOffset = 0;
 
+  Tooltip tooltip;
+
   public AnnotationLabels(AlignmentPanel ap)
   {
     this.ap = ap;
+    this.av = ap.av;
     setLayout(null);
-    addMouseListener(new MouseAdapter()
-    {
-      public void mousePressed(MouseEvent evt)
-      {
-        doMousePressed(evt);
-      }
-    });
+    addMouseListener(this);
+    addMouseMotionListener(this);
   }
 
+  public AnnotationLabels(AlignViewport av)
+{
+  this.av = av;
+}
+
+
   public void setScrollOffset(int y)
   {
     scrollOffset = y;
     repaint();
   }
 
-  public void actionPerformed(ActionEvent evt)
+  void getSelectedRow(int y)
   {
+    selectedRow = -1;
     AlignmentAnnotation[] aa = ap.av.alignment.getAlignmentAnnotation();
 
+    if(aa==null)
+      return;
+
+    int height = 0;
+    for (int i = 0; i < aa.length; i++)
+    {
+      if (!aa[i].visible)
+      {
+        continue;
+      }
+
+      height += aa[i].height;
+      if (y < height)
+      {
+        selectedRow = i;
+        break;
+      }
+    }
+  }
+
+  public void actionPerformed(ActionEvent evt)
+  {
+    AlignmentAnnotation[] aa = av.alignment.getAlignmentAnnotation();
+
     if (evt.getActionCommand().equals(HIDE))
     {
       aa[selectedRow].visible = false;
@@ -75,7 +108,7 @@ public class AnnotationLabels
     }
     else if (evt.getActionCommand().equals(OUTPUT_TEXT))
     {
-      CutAndPasteTransfer cap = new CutAndPasteTransfer(false);
+      CutAndPasteTransfer cap = new CutAndPasteTransfer(false, ap.alignFrame);
       Frame frame = new Frame();
       frame.add(cap);
       jalview.bin.JalviewLite.addFrame(frame,
@@ -83,32 +116,58 @@ public class AnnotationLabels
                                        aa[selectedRow].label, 500, 100);
       cap.setText(aa[selectedRow].toString());
     }
+    else if (evt.getActionCommand().equals(COPYCONS_SEQ))
+    {
+      SequenceI cons=av.getConsensusSeq();
+      if (cons!=null)
+        copy_annotseqtoclipboard(cons);
 
+    }
     ap.annotationPanel.adjustPanelHeight();
     setSize(getSize().width, ap.annotationPanel.getSize().height);
     ap.validate();
     ap.repaint();
   }
 
-  public void doMousePressed(MouseEvent evt)
+  public void mouseMoved(MouseEvent evt)
   {
-    int y = evt.getY() - scrollOffset;
-    AlignmentAnnotation[] aa = ap.av.alignment.getAlignmentAnnotation();
-    int height = 0;
-    for (int i = 0; i < aa.length; i++)
+    getSelectedRow(evt.getY() - scrollOffset);
+
+    if (selectedRow > -1)
     {
-      if (!aa[i].visible)
-      {
-        continue;
-      }
+      if (tooltip == null)
+        tooltip = new Tooltip(ap.av.alignment.
+                                          getAlignmentAnnotation()[selectedRow].
+                                          description,
+                                          this);
+      else
+        tooltip.setTip(ap.av.alignment.
+                     getAlignmentAnnotation()[selectedRow].description);
+
+      tooltip.repaint();
 
-      height += aa[i].height;
-      if (y < height)
-      {
-        selectedRow = i;
-        break;
-      }
     }
+    else if (tooltip != null)
+    {
+      tooltip.setTip("");
+    }
+
+  }
+
+  public void mouseDragged(MouseEvent evt)
+  {}
+  public void mouseClicked(MouseEvent evt)
+  {}
+  public void mouseReleased(MouseEvent evt)
+  {}
+  public void mouseEntered(MouseEvent evt)
+  {}
+  public void mouseExited(MouseEvent evt)
+  {}
+  public void mousePressed(MouseEvent evt)
+  {
+    int y = evt.getY() - scrollOffset;
+    AlignmentAnnotation[] aa = ap.av.alignment.getAlignmentAnnotation();
 
     PopupMenu pop = new PopupMenu("Annotations");
     MenuItem item = new MenuItem(HIDE);
@@ -126,7 +185,7 @@ public class AnnotationLabels
     {
       pop.addSeparator();
       final CheckboxMenuItem cbmi = new CheckboxMenuItem(
-          "Ignore gaps in calculation",
+          "Ignore Gaps In Consensus",
           ap.av.getIgnoreGapsConsensus());
 
       cbmi.addItemListener(new ItemListener()
@@ -138,27 +197,58 @@ public class AnnotationLabels
         }
       });
       pop.add(cbmi);
+      final MenuItem cpcons=new MenuItem(COPYCONS_SEQ);
+      cpcons.addActionListener(this);
+      pop.add(cpcons);
     }
 
      pop.show(this, evt.getX(), evt.getY());
 
   }
+/**
+     * DOCUMENT ME!
+     *
+     * @param e DOCUMENT ME!
+     */
+    protected void copy_annotseqtoclipboard(SequenceI sq)
+    {
+      if (sq==null || sq.getLength()<1)
+        return;
+      jalview.appletgui.AlignFrame.copiedSequences = new StringBuffer();
+      jalview.appletgui.AlignFrame.copiedSequences.append(sq.getName() + "\t" +
+          sq.getStart() + "\t" +
+          sq.getEnd() + "\t" +
+          sq.getSequenceAsString() + "\n");
+      if (av.hasHiddenColumns)
+      {
+        jalview.appletgui.AlignFrame.copiedHiddenColumns=new Vector();
+        for(int i=0; i<av.getColumnSelection().getHiddenColumns().size(); i++)
+        {
+          int[] region = (int[])
+              av.getColumnSelection().getHiddenColumns().elementAt(i);
+
+          jalview.appletgui.AlignFrame.copiedHiddenColumns.addElement(new int[]{region[0],
+                            region[1]});
+        }
+      }
+    }
 
   public void paint(Graphics g)
   {
-    drawComponent(g);
+    drawComponent(g, getSize().width);
   }
 
-  public void drawComponent(Graphics g)
+  public void drawComponent(Graphics g, int width)
   {
-    FontMetrics fm = g.getFontMetrics(g.getFont());
+    g.setFont(av.getFont());
+    FontMetrics fm = g.getFontMetrics(av.getFont());
     g.setColor(Color.white);
     g.fillRect(0, 0, getSize().width, getSize().height);
 
     g.translate(0, scrollOffset);
     g.setColor(Color.black);
 
-    AlignmentAnnotation[] aa = ap.av.alignment.getAlignmentAnnotation();
+    AlignmentAnnotation[] aa = av.alignment.getAlignmentAnnotation();
     int y = g.getFont().getSize();
     int x = 0;
 
@@ -171,16 +261,16 @@ public class AnnotationLabels
           continue;
         }
 
-        x = getSize().width - fm.stringWidth(aa[i].label) - 3;
+        x = width - fm.stringWidth(aa[i].label) - 3;
 
-        if (aa[i].isGraph)
+        if (aa[i].graph>0)
         {
           y += (aa[i].height / 3);
         }
 
         g.drawString(aa[i].label, x, y);
 
-        if (aa[i].isGraph)
+        if (aa[i].graph>0)
         {
           y += (2 * aa[i].height / 3);
         }