X-Git-Url: http://source.jalview.org/gitweb/?a=blobdiff_plain;f=src%2Fjalview%2Fgui%2FSliderPanel.java;h=02a8ed7e6cd031b6e975ce97b456daafd15b5469;hb=17e77c3f2949a0729322b4a8d907f3f34b6a9914;hp=253246b64606b8a6a108474106f527b884a28c23;hpb=34e7d17e5283f39efcbfdaa46de54f9d0aec1e91;p=jalview.git

diff --git a/src/jalview/gui/SliderPanel.java b/src/jalview/gui/SliderPanel.java
index 253246b..02a8ed7 100755
--- a/src/jalview/gui/SliderPanel.java
+++ b/src/jalview/gui/SliderPanel.java
@@ -1,120 +1,375 @@
-package jalview.gui;
-
-import jalview.jbgui.*;
-import jalview.schemes.*;
-import jalview.datamodel.*;
-import java.awt.event.*;
-import javax.swing.event.*;
-import java.util.*;
-
-public class SliderPanel extends GSliderPanel
-{
-  AlignmentPanel ap;
-  boolean forConservation = true;
-  ColourSchemeI cs;
-
-  public SliderPanel(AlignmentPanel ap, int value, boolean forConserve, ColourSchemeI cs)
-  {
-    this.ap = ap;
-    this.cs = cs;
-    forConservation = forConserve;
-    undoButton.setVisible(false);
-    applyButton.setVisible(false);
-    if(forConservation)
-    {
-      label.setText("Enter the value by which to decrease conservation colour intensity");
-      slider.setMinimum(0);
-      slider.setMaximum(50);
-    }
-    else
-    {
-      label.setText("Enter the percent identity above which to colour residues");
-      slider.setMinimum(0);
-      slider.setMaximum(100);
-    }
-
-
-
-    slider.addChangeListener( new ChangeListener()
-    {
-      public void stateChanged(ChangeEvent evt)
-      {
-        valueField.setText( slider.getValue()+"" );
-        valueChanged( slider.getValue() );
-      }
-    });
-
-    slider.setValue(value);
-    valueField.setText(value+"");
-  }
-
-  public void valueChanged(int i)
-  {
-    if(cs == null)
-      return;
-
-    ColourSchemeI toChange = null;
-    Vector allGroups = null;
-    int groupIndex = 0;
-
-    if(allGroupsCheck.isSelected())
-    {
-      allGroups = ap.av.alignment.getGroups();
-      groupIndex = allGroups.size()-1;
-    }
-    else
-      toChange = cs;
-
-
-    while( groupIndex > -1 )
-    {
-      if(allGroups!=null)
-        toChange = ((SequenceGroup)allGroups.get(groupIndex)).cs;
-
-      if (forConservation)
-      {
-        if (toChange instanceof ConservationColourScheme)
-          ( (ConservationColourScheme) toChange).inc = i;
-      }
-      else
-      {
-        if (toChange.canThreshold())
-          ( (ResidueColourScheme) toChange).setThreshold(i);
-      }
-
-      groupIndex--;
-    }
-
-    ap.seqPanel.repaint();
-
-  }
-
-  public void setAllGroupsCheckEnabled(boolean b)
-  {
-    allGroupsCheck.setEnabled(b);
-  }
-
-
-  public void valueField_actionPerformed(ActionEvent e)
-  {
-    try{
-      int i = Integer.parseInt(valueField.getText());
-      slider.setValue(i);
-    }
-    catch(Exception ex)
-    {
-      valueField.setText( slider.getValue()+"" );
-    }
-  }
-
-  public void setValue(int value)
-  {
-    slider.setValue(value);
-  }
-  public int getValue()
-  {
-    return Integer.parseInt(valueField.getText());
-  }
-
-
-}
+/*
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.9)
+ * Copyright (C) 2015 The Jalview Authors
+ * 
+ * This file is part of Jalview.
+ * 
+ * Jalview is free software: you can redistribute it and/or
+ * modify it under the terms of the GNU General Public License 
+ * as published by the Free Software Foundation, either version 3
+ * of the License, or (at your option) any later version.
+ *  
+ * Jalview is distributed in the hope that it will be useful, but 
+ * WITHOUT ANY WARRANTY; without even the implied warranty 
+ * of MERCHANTABILITY or FITNESS FOR A PARTICULAR 
+ * PURPOSE.  See the GNU General Public License for more details.
+ * 
+ * You should have received a copy of the GNU General Public License
+ * along with Jalview.  If not, see <http://www.gnu.org/licenses/>.
+ * The Jalview Authors are detailed in the 'AUTHORS' file.
+ */
+package jalview.gui;
+
+import jalview.datamodel.SequenceGroup;
+import jalview.jbgui.GSliderPanel;
+import jalview.schemes.ColourSchemeI;
+import jalview.util.MessageManager;
+
+import java.awt.event.ActionEvent;
+import java.awt.event.MouseAdapter;
+import java.awt.event.MouseEvent;
+import java.util.Iterator;
+
+import javax.swing.JInternalFrame;
+import javax.swing.JLayeredPane;
+import javax.swing.event.ChangeEvent;
+import javax.swing.event.ChangeListener;
+
+/**
+ * DOCUMENT ME!
+ * 
+ * @author $author$
+ * @version $Revision$
+ */
+public class SliderPanel extends GSliderPanel
+{
+  static JInternalFrame conservationSlider;
+
+  static JInternalFrame PIDSlider;
+
+  AlignmentPanel ap;
+
+  boolean forConservation = true;
+
+  ColourSchemeI cs;
+
+  /**
+   * Creates a new SliderPanel object.
+   * 
+   * @param ap
+   *          DOCUMENT ME!
+   * @param value
+   *          DOCUMENT ME!
+   * @param forConserve
+   *          DOCUMENT ME!
+   * @param cs
+   *          DOCUMENT ME!
+   */
+  public SliderPanel(final AlignmentPanel ap, int value,
+          boolean forConserve, ColourSchemeI cs)
+  {
+    this.ap = ap;
+    this.cs = cs;
+    forConservation = forConserve;
+    undoButton.setVisible(false);
+    applyButton.setVisible(false);
+
+    if (forConservation)
+    {
+      label.setText(MessageManager
+              .getString("label.enter_value_increase_conservation_visibility"));
+      slider.setMinimum(0);
+      slider.setMaximum(100);
+    }
+    else
+    {
+      label.setText(MessageManager
+              .getString("label.enter_percentage_identity_above_which_colour_residues"));
+      slider.setMinimum(0);
+      slider.setMaximum(100);
+    }
+
+    slider.addChangeListener(new ChangeListener()
+    {
+      public void stateChanged(ChangeEvent evt)
+      {
+        valueField.setText(slider.getValue() + "");
+        valueChanged(slider.getValue());
+      }
+    });
+
+    slider.addMouseListener(new MouseAdapter()
+    {
+      public void mouseReleased(MouseEvent evt)
+      {
+        ap.paintAlignment(true);
+      }
+    });
+
+    slider.setValue(value);
+    valueField.setText(value + "");
+  }
+
+  /**
+   * DOCUMENT ME!
+   * 
+   * @param ap
+   *          DOCUMENT ME!
+   * @param cs
+   *          DOCUMENT ME!
+   * @param source
+   *          DOCUMENT ME!
+   * 
+   * @return DOCUMENT ME!
+   */
+  public static int setConservationSlider(AlignmentPanel ap,
+          ColourSchemeI cs, String source)
+  {
+    SliderPanel sp = null;
+
+    if (conservationSlider == null)
+    {
+      sp = new SliderPanel(ap, cs.getConservationInc(), true, cs);
+      conservationSlider = new JInternalFrame();
+      conservationSlider.setContentPane(sp);
+      conservationSlider.setLayer(JLayeredPane.PALETTE_LAYER);
+    }
+    else
+    {
+      sp = (SliderPanel) conservationSlider.getContentPane();
+      sp.cs = cs;
+    }
+
+    conservationSlider
+            .setTitle(MessageManager.formatMessage(
+                    "label.conservation_colour_increment",
+                    new String[] { source }));
+
+    if (ap.av.getAlignment().getGroups() != null)
+    {
+      sp.setAllGroupsCheckEnabled(true);
+    }
+    else
+    {
+      sp.setAllGroupsCheckEnabled(false);
+    }
+
+    return sp.getValue();
+  }
+
+  /**
+   * DOCUMENT ME!
+   */
+  public static void showConservationSlider()
+  {
+    try
+    {
+      PIDSlider.setClosed(true);
+      PIDSlider = null;
+    } catch (Exception ex)
+    {
+    }
+
+    if (!conservationSlider.isVisible())
+    {
+      Desktop.addInternalFrame(conservationSlider,
+              conservationSlider.getTitle(), 420, 90, false);
+      conservationSlider
+              .addInternalFrameListener(new javax.swing.event.InternalFrameAdapter()
+              {
+                public void internalFrameClosed(
+                        javax.swing.event.InternalFrameEvent e)
+                {
+                  conservationSlider = null;
+                }
+              });
+      conservationSlider.setLayer(JLayeredPane.PALETTE_LAYER);
+    }
+  }
+
+  /**
+   * DOCUMENT ME!
+   * 
+   * @param ap
+   *          DOCUMENT ME!
+   * @param cs
+   *          DOCUMENT ME!
+   * @param source
+   *          DOCUMENT ME!
+   * 
+   * @return DOCUMENT ME!
+   */
+  public static int setPIDSliderSource(AlignmentPanel ap, ColourSchemeI cs,
+          String source)
+  {
+    SliderPanel pid = null;
+
+    int threshold = cs.getThreshold();
+
+    if (PIDSlider == null)
+    {
+      pid = new SliderPanel(ap, threshold, false, cs);
+      PIDSlider = new JInternalFrame();
+      PIDSlider.setContentPane(pid);
+      PIDSlider.setLayer(JLayeredPane.PALETTE_LAYER);
+    }
+    else
+    {
+      pid = (SliderPanel) PIDSlider.getContentPane();
+      pid.cs = cs;
+    }
+
+    PIDSlider.setTitle(MessageManager
+            .formatMessage("label.percentage_identity_thereshold",
+                    new String[] { source }));
+
+    if (ap.av.getAlignment().getGroups() != null)
+    {
+      pid.setAllGroupsCheckEnabled(true);
+    }
+    else
+    {
+      pid.setAllGroupsCheckEnabled(false);
+    }
+
+    return pid.getValue();
+  }
+
+  /**
+   * DOCUMENT ME!
+   */
+  public static void showPIDSlider()
+  {
+    try
+    {
+      conservationSlider.setClosed(true);
+      conservationSlider = null;
+    } catch (Exception ex)
+    {
+    }
+
+    if (!PIDSlider.isVisible())
+    {
+      Desktop.addInternalFrame(PIDSlider, PIDSlider.getTitle(), 420, 90,
+              false);
+      PIDSlider.setLayer(JLayeredPane.PALETTE_LAYER);
+      PIDSlider
+              .addInternalFrameListener(new javax.swing.event.InternalFrameAdapter()
+              {
+                public void internalFrameClosed(
+                        javax.swing.event.InternalFrameEvent e)
+                {
+                  PIDSlider = null;
+                }
+              });
+      PIDSlider.setLayer(JLayeredPane.PALETTE_LAYER);
+    }
+  }
+
+  /**
+   * DOCUMENT ME!
+   * 
+   * @param i
+   *          DOCUMENT ME!
+   */
+  public void valueChanged(int i)
+  {
+    if (cs == null)
+    {
+      return;
+    }
+
+    ColourSchemeI toChange = cs;
+    Iterator<SequenceGroup> allGroups = null;
+
+    if (allGroupsCheck.isSelected())
+    {
+      allGroups = ap.av.getAlignment().getGroups().listIterator();
+    }
+
+    while (toChange != null)
+    {
+      if (forConservation)
+      {
+        toChange.setConservationInc(i);
+      }
+      else
+      {
+        toChange.setThreshold(i, ap.av.isIgnoreGapsConsensus());
+      }
+      if (allGroups != null && allGroups.hasNext())
+      {
+        while ((toChange = allGroups.next().cs) == null
+                && allGroups.hasNext())
+        {
+          ;
+        }
+      }
+      else
+      {
+        toChange = null;
+      }
+    }
+
+    ap.getSeqPanel().seqCanvas.repaint();
+  }
+
+  /**
+   * DOCUMENT ME!
+   * 
+   * @param b
+   *          DOCUMENT ME!
+   */
+  public void setAllGroupsCheckEnabled(boolean b)
+  {
+    allGroupsCheck.setEnabled(b);
+  }
+
+  /**
+   * DOCUMENT ME!
+   * 
+   * @param e
+   *          DOCUMENT ME!
+   */
+  public void valueField_actionPerformed(ActionEvent e)
+  {
+    try
+    {
+      int i = Integer.parseInt(valueField.getText());
+      slider.setValue(i);
+    } catch (NumberFormatException ex)
+    {
+      valueField.setText(slider.getValue() + "");
+    }
+  }
+
+  /**
+   * DOCUMENT ME!
+   * 
+   * @param value
+   *          DOCUMENT ME!
+   */
+  public void setValue(int value)
+  {
+    slider.setValue(value);
+  }
+
+  /**
+   * DOCUMENT ME!
+   * 
+   * @return DOCUMENT ME!
+   */
+  public int getValue()
+  {
+    return Integer.parseInt(valueField.getText());
+  }
+
+  public void slider_mouseReleased(MouseEvent e)
+  {
+    if (ap.overviewPanel != null)
+    {
+      ap.overviewPanel.updateOverviewImage();
+    }
+  }
+
+}