Merge branch 'develop' into features/JAL-2360colourSchemeApplicability

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

diff --git a/src/jalview/appletgui/SliderPanel.java b/src/jalview/appletgui/SliderPanel.java
index 220a7fb..5179eb0 100644 (file)
--- a/src/jalview/appletgui/SliderPanel.java
+++ b/src/jalview/appletgui/SliderPanel.java
@@ -1,6 +1,6 @@
 /*
- * Jalview - A Sequence Alignment Editor and Viewer (Version 2.8.2)
- * Copyright (C) 2014 The Jalview Authors
+ * Jalview - A Sequence Alignment Editor and Viewer ($$Version-Rel$$)
+ * Copyright (C) $$Year-Rel$$ The Jalview Authors
  * 
  * This file is part of Jalview.
  * 
@@ -20,15 +20,32 @@
  */
 package jalview.appletgui;
 
-import java.util.*;
-
-import java.awt.*;
-import java.awt.event.*;
-
-import jalview.datamodel.*;
-import jalview.schemes.*;
+import jalview.datamodel.SequenceGroup;
+import jalview.schemes.ColourSchemeI;
 import jalview.util.MessageManager;
 
+import java.awt.BorderLayout;
+import java.awt.Button;
+import java.awt.Checkbox;
+import java.awt.Color;
+import java.awt.FlowLayout;
+import java.awt.Frame;
+import java.awt.Label;
+import java.awt.Panel;
+import java.awt.Scrollbar;
+import java.awt.TextField;
+import java.awt.event.ActionEvent;
+import java.awt.event.ActionListener;
+import java.awt.event.AdjustmentEvent;
+import java.awt.event.AdjustmentListener;
+import java.awt.event.FocusAdapter;
+import java.awt.event.FocusEvent;
+import java.awt.event.MouseEvent;
+import java.awt.event.MouseListener;
+import java.awt.event.WindowAdapter;
+import java.awt.event.WindowEvent;
+import java.util.Iterator;
+
 public class SliderPanel extends Panel implements ActionListener,
         AdjustmentListener, MouseListener
 {
@@ -59,7 +76,10 @@ public class SliderPanel extends Panel implements ActionListener,
       sp.cs = cs;
     }
 
-    conservationSlider.setTitle(MessageManager.formatMessage("label.conservation_colour_increment", new String[]{source}));
+    conservationSlider
+            .setTitle(MessageManager.formatMessage(
+                    "label.conservation_colour_increment",
+                    new String[] { source }));
     if (ap.av.getAlignment().getGroups() != null)
     {
       sp.setAllGroupsCheckEnabled(true);
@@ -88,6 +108,7 @@ public class SliderPanel extends Panel implements ActionListener,
               conservationSlider.getTitle(), 420, 100);
       conservationSlider.addWindowListener(new WindowAdapter()
       {
+        @Override
         public void windowClosing(WindowEvent e)
         {
           conservationSlider = null;
@@ -104,7 +125,7 @@ public class SliderPanel extends Panel implements ActionListener,
     SliderPanel pid = null;
     if (PIDSlider == null)
     {
-      pid = new SliderPanel(ap, 50, false, cs);
+      pid = new SliderPanel(ap, cs.getThreshold(), false, cs);
       PIDSlider = new Frame();
       PIDSlider.add(pid);
     }
@@ -113,7 +134,10 @@ public class SliderPanel extends Panel implements ActionListener,
       pid = (SliderPanel) PIDSlider.getComponent(0);
       pid.cs = cs;
     }
-    PIDSlider.setTitle(MessageManager.formatMessage("label.percentage_identity_thereshold", new String[]{source}));
+    PIDSlider
+            .setTitle(MessageManager.formatMessage(
+                    "label.percentage_identity_threshold",
+                    new String[] { source }));
 
     if (ap.av.getAlignment().getGroups() != null)
     {
@@ -144,6 +168,7 @@ public class SliderPanel extends Panel implements ActionListener,
               420, 100);
       PIDSlider.addWindowListener(new WindowAdapter()
       {
+        @Override
         public void windowClosing(WindowEvent e)
         {
           PIDSlider = null;
@@ -153,6 +178,29 @@ public class SliderPanel extends Panel implements ActionListener,
 
   }
 
+  /**
+   * Hides the PID slider panel if it is shown
+   */
+  public static void hidePIDSlider()
+  {
+    if (PIDSlider != null)
+    {
+      PIDSlider.setVisible(false);
+    }
+    PIDSlider = null;
+  }
+
+  /**
+   * Hides the Conservation slider panel if it is shown
+   */
+  public static void hideConservationSlider()
+  {
+    if (conservationSlider != null)
+    {
+      conservationSlider.setVisible(false);
+    }
+    conservationSlider = null;
+  }
   public SliderPanel(AlignmentPanel ap, int value, boolean forConserve,
           ColourSchemeI cs)
   {
@@ -179,7 +227,7 @@ public class SliderPanel extends Panel implements ActionListener,
     else
     {
       label.setText(MessageManager
-              .getString("label.colour_residues_above_occurence"));
+              .getString("label.colour_residues_above_occurrence"));
       slider.setMinimum(0);
       slider.setMaximum(100 + slider.getVisibleAmount());
       slider.setBlockIncrement(1);
@@ -215,13 +263,15 @@ public class SliderPanel extends Panel implements ActionListener,
       }
       else
       {
-        toChange.setThreshold(i, ap.av.getIgnoreGapsConsensus());
+        toChange.setThreshold(i, ap.av.isIgnoreGapsConsensus());
       }
       if (allGroups != null && allGroups.hasNext())
       {
         while ((toChange = allGroups.next().cs) == null
                 && allGroups.hasNext())
+        {
           ;
+        }
       }
       else
       {
@@ -238,6 +288,7 @@ public class SliderPanel extends Panel implements ActionListener,
     allGroupsCheck.setEnabled(b);
   }
 
+  @Override
   public void actionPerformed(ActionEvent evt)
   {
     if (evt.getSource() == applyButton)
@@ -254,6 +305,7 @@ public class SliderPanel extends Panel implements ActionListener,
     }
   }
 
+  @Override
   public void adjustmentValueChanged(AdjustmentEvent evt)
   {
     valueField.setText(slider.getValue() + "");
@@ -264,11 +316,11 @@ public class SliderPanel extends Panel implements ActionListener,
   {
     try
     {
-      int i = Integer.parseInt(valueField.getText());
+      int i = Integer.valueOf(valueField.getText());
       slider.setValue(i);
-    } catch (Exception ex)
+    } catch (NumberFormatException ex)
     {
-      valueField.setText(slider.getValue() + "");
+      valueField.setText(String.valueOf(slider.getValue()));
     }
   }
 
@@ -321,6 +373,16 @@ public class SliderPanel extends Panel implements ActionListener,
     valueField.setText("   ");
     valueField.addActionListener(this);
     valueField.setColumns(3);
+    valueField.addFocusListener(new FocusAdapter()
+    {
+      @Override
+      public void focusLost(FocusEvent e)
+      {
+        valueField_actionPerformed();
+        valueChanged(slider.getValue());
+      }
+    });
+    
     label.setFont(new java.awt.Font("Verdana", 0, 11));
     label.setText(MessageManager.getString("label.set_this_label_text"));
     jPanel1.setLayout(borderLayout1);
@@ -358,23 +420,28 @@ public class SliderPanel extends Panel implements ActionListener,
   {
   }
 
+  @Override
   public void mousePressed(MouseEvent evt)
   {
   }
 
+  @Override
   public void mouseReleased(MouseEvent evt)
   {
     ap.paintAlignment(true);
   }
 
+  @Override
   public void mouseClicked(MouseEvent evt)
   {
   }
 
+  @Override
   public void mouseEntered(MouseEvent evt)
   {
   }
 
+  @Override
   public void mouseExited(MouseEvent evt)
   {
   }