src/jalview/jbgui/GFinder.java

   1 /*
   2  * Jalview - A Sequence Alignment Editor and Viewer ($$Version-Rel$$)
   3  * Copyright (C) $$Year-Rel$$ The Jalview Authors
   4  *
   5  * This file is part of Jalview.
   6  *
   7  * Jalview is free software: you can redistribute it and/or
   8  * modify it under the terms of the GNU General Public License
   9  * as published by the Free Software Foundation, either version 3
  10  * of the License, or (at your option) any later version.
  11  *
  12  * Jalview is distributed in the hope that it will be useful, but
  13  * WITHOUT ANY WARRANTY; without even the implied warranty
  14  * of MERCHANTABILITY or FITNESS FOR A PARTICULAR
  15  * PURPOSE.  See the GNU General Public License for more details.
  16  *
  17  * You should have received a copy of the GNU General Public License
  18  * along with Jalview.  If not, see <http://www.gnu.org/licenses/>.
  19  * The Jalview Authors are detailed in the 'AUTHORS' file.
  20  */
  21 package jalview.jbgui;
  22
  23 import jalview.datamodel.Alignment;
  24 import jalview.io.FormatAdapter;
  25 import jalview.util.MessageManager;
  26
  27 import java.awt.BorderLayout;
  28 import java.awt.Dimension;
  29 import java.awt.Font;
  30 import java.awt.GridLayout;
  31 import java.awt.Insets;
  32 import java.awt.event.ActionEvent;
  33 import java.awt.event.KeyEvent;
  34
  35 import javax.swing.JButton;
  36 import javax.swing.JCheckBox;
  37 import javax.swing.JLabel;
  38 import javax.swing.JPanel;
  39 import javax.swing.JScrollPane;
  40 import javax.swing.JTextArea;
  41 import javax.swing.SwingConstants;
  42 import javax.swing.SwingUtilities;
  43 import javax.swing.event.CaretEvent;
  44 import javax.swing.event.CaretListener;
  45
  46 public class GFinder extends JPanel
  47 {
  48   JLabel jLabelFind = new JLabel();
  49
  50   protected JButton findAll = new JButton();
  51
  52   protected JButton findNext = new JButton();
  53
  54   JPanel actionsPanel = new JPanel();
  55
  56   GridLayout gridLayout1 = new GridLayout();
  57
  58   protected JButton createNewGroup = new JButton();
  59
  60   JScrollPane jScrollPane1 = new JScrollPane();
  61
  62   protected JTextArea textfield = new JTextArea();
  63
  64   BorderLayout mainBorderLayout = new BorderLayout();
  65
  66   JPanel jPanel2 = new JPanel();
  67
  68   JPanel jPanel3 = new JPanel();
  69
  70   JPanel jPanel4 = new JPanel();
  71
  72   BorderLayout borderLayout2 = new BorderLayout();
  73
  74   JPanel jPanel6 = new JPanel();
  75
  76   protected JCheckBox caseSensitive = new JCheckBox();
  77
  78   protected JCheckBox searchDescription = new JCheckBox();
  79
  80   GridLayout optionsGridLayout = new GridLayout();
  81
  82   public GFinder()
  83   {
  84     try
  85     {
  86       jbInit();
  87     } catch (Exception e)
  88     {
  89       e.printStackTrace();
  90     }
  91   }
  92
  93
  94   private void jbInit() throws Exception
  95   {
  96     jLabelFind.setFont(new java.awt.Font("Verdana", 0, 12));
  97     jLabelFind.setText(MessageManager.getString("label.find"));
  98     this.setLayout(mainBorderLayout);
  99     findAll.setFont(new java.awt.Font("Verdana", 0, 12));
 100     findAll.setText(MessageManager.getString("action.find_all"));
 101     findAll.addActionListener(new java.awt.event.ActionListener()
 102     {
 103       public void actionPerformed(ActionEvent e)
 104       {
 105         findAll_actionPerformed(e);
 106       }
 107     });
 108     findNext.setFont(new java.awt.Font("Verdana", 0, 12));
 109     findNext.setText(MessageManager.getString("action.find_next"));
 110     findNext.addActionListener(new java.awt.event.ActionListener()
 111     {
 112       public void actionPerformed(ActionEvent e)
 113       {
 114         findNext_actionPerformed(e);
 115       }
 116     });
 117     actionsPanel.setLayout(gridLayout1);
 118     gridLayout1.setHgap(0);
 119     gridLayout1.setRows(3);
 120     gridLayout1.setVgap(2);
 121     createNewGroup.setEnabled(false);
 122     createNewGroup.setFont(new java.awt.Font("Verdana", 0, 12));
 123     createNewGroup.setMargin(new Insets(0, 0, 0, 0));
 124     createNewGroup.setText(MessageManager.getString("label.new_feature"));
 125     createNewGroup.addActionListener(new java.awt.event.ActionListener()
 126     {
 127       public void actionPerformed(ActionEvent e)
 128       {
 129         createNewGroup_actionPerformed(e);
 130       }
 131     });
 132     textfield.setFont(new java.awt.Font("Verdana", Font.PLAIN, 12));
 133     textfield.setText("");
 134     textfield.setLineWrap(true);
 135     textfield.addCaretListener(new CaretListener()
 136     {
 137       public void caretUpdate(CaretEvent e)
 138       {
 139         textfield_caretUpdate(e);
 140       }
 141     });
 142     textfield.addKeyListener(new java.awt.event.KeyAdapter()
 143     {
 144       public void keyPressed(KeyEvent e)
 145       {
 146         textfield_keyPressed(e);
 147       }
 148     });
 149
 150     mainBorderLayout.setHgap(5);
 151     mainBorderLayout.setVgap(5);
 152     jPanel4.setLayout(borderLayout2);
 153     jPanel2.setPreferredSize(new Dimension(10, 1));
 154     jPanel3.setPreferredSize(new Dimension(10, 1));
 155     caseSensitive.setHorizontalAlignment(SwingConstants.LEFT);
 156     caseSensitive.setText(MessageManager.getString("label.match_case"));
 157
 158     searchDescription.setText(MessageManager
 159             .getString("label.include_description"));
 160
 161     actionsPanel.add(findNext, null);
 162     actionsPanel.add(findAll, null);
 163     actionsPanel.add(createNewGroup, null);
 164     this.add(jLabelFind, java.awt.BorderLayout.WEST);
 165     this.add(actionsPanel, java.awt.BorderLayout.EAST);
 166     this.add(jPanel2, java.awt.BorderLayout.SOUTH);
 167     this.add(jPanel3, java.awt.BorderLayout.NORTH);
 168     this.add(jPanel4, java.awt.BorderLayout.CENTER);
 169     jPanel4.add(jScrollPane1, java.awt.BorderLayout.NORTH);
 170     jScrollPane1.getViewport().add(textfield);
 171
 172     JPanel optionsPanel = new JPanel();
 173
 174     optionsGridLayout.setHgap(0);
 175     optionsGridLayout.setRows(2);
 176     optionsGridLayout.setVgap(2);
 177     optionsPanel.setLayout(optionsGridLayout);
 178     optionsPanel.add(caseSensitive, null);
 179     optionsPanel.add(searchDescription, null);
 180
 181     jPanel4.add(optionsPanel, java.awt.BorderLayout.WEST);
 182   }
 183
 184   protected void findNext_actionPerformed(ActionEvent e)
 185   {
 186   }
 187
 188   protected void findAll_actionPerformed(ActionEvent e)
 189   {
 190   }
 191
 192   protected void textfield_keyPressed(KeyEvent e)
 193   {
 194     if (e.getKeyCode() == KeyEvent.VK_ENTER)
 195     {
 196       e.consume();
 197       findNext_actionPerformed(null);
 198     }
 199   }
 200
 201   public void createNewGroup_actionPerformed(ActionEvent e)
 202   {
 203   }
 204
 205   public void textfield_caretUpdate(CaretEvent e)
 206   {
 207     if (textfield.getText().indexOf(">") > -1)
 208     {
 209       SwingUtilities.invokeLater(new Runnable()
 210       {
 211         public void run()
 212         {
 213           String str = textfield.getText();
 214           Alignment al = null;
 215           try
 216           {
 217             al = new FormatAdapter().readFile(str, "Paste", "FASTA");
 218           } catch (Exception ex)
 219           {
 220           }
 221           if (al != null && al.getHeight() > 0)
 222           {
 223             str = jalview.analysis.AlignSeq.extractGaps(
 224                     jalview.util.Comparison.GapChars, al.getSequenceAt(0)
 225                             .getSequenceAsString());
 226
 227             textfield.setText(str);
 228           }
 229         }
 230       });
 231     }
 232   }
 233 }