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.analysis.AlignSeq;
  24 import jalview.datamodel.AlignmentI;
  25 import jalview.io.FormatAdapter;
  26 import jalview.util.Comparison;
  27 import jalview.util.MessageManager;
  28
  29 import java.awt.BorderLayout;
  30 import java.awt.Dimension;
  31 import java.awt.Font;
  32 import java.awt.GridLayout;
  33 import java.awt.Insets;
  34 import java.awt.event.ActionEvent;
  35 import java.awt.event.KeyEvent;
  36
  37 import javax.swing.JButton;
  38 import javax.swing.JCheckBox;
  39 import javax.swing.JLabel;
  40 import javax.swing.JPanel;
  41 import javax.swing.JScrollPane;
  42 import javax.swing.JTextArea;
  43 import javax.swing.SwingConstants;
  44 import javax.swing.SwingUtilities;
  45 import javax.swing.event.CaretEvent;
  46 import javax.swing.event.CaretListener;
  47
  48 public class GFinder extends JPanel
  49 {
  50   JLabel jLabelFind = new JLabel();
  51
  52   protected JButton findAll = new JButton();
  53
  54   protected JButton findNext = new JButton();
  55
  56   JPanel actionsPanel = new JPanel();
  57
  58   GridLayout gridLayout1 = new GridLayout();
  59
  60   protected JButton createNewGroup = new JButton();
  61
  62   JScrollPane jScrollPane1 = new JScrollPane();
  63
  64   protected JTextArea textfield = new JTextArea();
  65
  66   BorderLayout mainBorderLayout = new BorderLayout();
  67
  68   JPanel jPanel2 = new JPanel();
  69
  70   JPanel jPanel3 = new JPanel();
  71
  72   JPanel jPanel4 = new JPanel();
  73
  74   BorderLayout borderLayout2 = new BorderLayout();
  75
  76   JPanel jPanel6 = new JPanel();
  77
  78   protected JCheckBox caseSensitive = new JCheckBox();
  79
  80   protected JCheckBox searchDescription = new JCheckBox();
  81
  82   GridLayout optionsGridLayout = new GridLayout();
  83
  84   public GFinder()
  85   {
  86     try
  87     {
  88       jbInit();
  89     } catch (Exception e)
  90     {
  91       e.printStackTrace();
  92     }
  93   }
  94
  95
  96   private void jbInit() throws Exception
  97   {
  98     jLabelFind.setFont(new java.awt.Font("Verdana", 0, 12));
  99     jLabelFind.setText(MessageManager.getString("label.find"));
 100     this.setLayout(mainBorderLayout);
 101     findAll.setFont(new java.awt.Font("Verdana", 0, 12));
 102     findAll.setText(MessageManager.getString("action.find_all"));
 103     findAll.addActionListener(new java.awt.event.ActionListener()
 104     {
 105       public void actionPerformed(ActionEvent e)
 106       {
 107         findAll_actionPerformed(e);
 108       }
 109     });
 110     findNext.setFont(new java.awt.Font("Verdana", 0, 12));
 111     findNext.setText(MessageManager.getString("action.find_next"));
 112     findNext.addActionListener(new java.awt.event.ActionListener()
 113     {
 114       public void actionPerformed(ActionEvent e)
 115       {
 116         findNext_actionPerformed(e);
 117       }
 118     });
 119     actionsPanel.setLayout(gridLayout1);
 120     gridLayout1.setHgap(0);
 121     gridLayout1.setRows(3);
 122     gridLayout1.setVgap(2);
 123     createNewGroup.setEnabled(false);
 124     createNewGroup.setFont(new java.awt.Font("Verdana", 0, 12));
 125     createNewGroup.setMargin(new Insets(0, 0, 0, 0));
 126     createNewGroup.setText(MessageManager.getString("label.new_feature"));
 127     createNewGroup.addActionListener(new java.awt.event.ActionListener()
 128     {
 129       public void actionPerformed(ActionEvent e)
 130       {
 131         createNewGroup_actionPerformed(e);
 132       }
 133     });
 134     textfield.setFont(new java.awt.Font("Verdana", Font.PLAIN, 12));
 135     textfield.setText("");
 136     textfield.setLineWrap(true);
 137     textfield.addCaretListener(new CaretListener()
 138     {
 139       public void caretUpdate(CaretEvent e)
 140       {
 141         textfield_caretUpdate(e);
 142       }
 143     });
 144     textfield.addKeyListener(new java.awt.event.KeyAdapter()
 145     {
 146       public void keyPressed(KeyEvent e)
 147       {
 148         textfield_keyPressed(e);
 149       }
 150     });
 151
 152     mainBorderLayout.setHgap(5);
 153     mainBorderLayout.setVgap(5);
 154     jPanel4.setLayout(borderLayout2);
 155     jPanel2.setPreferredSize(new Dimension(10, 1));
 156     jPanel3.setPreferredSize(new Dimension(10, 1));
 157     caseSensitive.setHorizontalAlignment(SwingConstants.LEFT);
 158     caseSensitive.setText(MessageManager.getString("label.match_case"));
 159
 160     searchDescription.setText(MessageManager
 161             .getString("label.include_description"));
 162
 163     actionsPanel.add(findNext, null);
 164     actionsPanel.add(findAll, null);
 165     actionsPanel.add(createNewGroup, null);
 166     this.add(jLabelFind, java.awt.BorderLayout.WEST);
 167     this.add(actionsPanel, java.awt.BorderLayout.EAST);
 168     this.add(jPanel2, java.awt.BorderLayout.SOUTH);
 169     this.add(jPanel3, java.awt.BorderLayout.NORTH);
 170     this.add(jPanel4, java.awt.BorderLayout.CENTER);
 171     jPanel4.add(jScrollPane1, java.awt.BorderLayout.NORTH);
 172     jScrollPane1.getViewport().add(textfield);
 173
 174     JPanel optionsPanel = new JPanel();
 175
 176     optionsGridLayout.setHgap(0);
 177     optionsGridLayout.setRows(2);
 178     optionsGridLayout.setVgap(2);
 179     optionsPanel.setLayout(optionsGridLayout);
 180     optionsPanel.add(caseSensitive, null);
 181     optionsPanel.add(searchDescription, null);
 182
 183     jPanel4.add(optionsPanel, java.awt.BorderLayout.WEST);
 184   }
 185
 186   protected void findNext_actionPerformed(ActionEvent e)
 187   {
 188   }
 189
 190   protected void findAll_actionPerformed(ActionEvent e)
 191   {
 192   }
 193
 194   protected void textfield_keyPressed(KeyEvent e)
 195   {
 196     if (e.getKeyCode() == KeyEvent.VK_ENTER)
 197     {
 198       e.consume();
 199       findNext_actionPerformed(null);
 200     }
 201   }
 202
 203   public void createNewGroup_actionPerformed(ActionEvent e)
 204   {
 205   }
 206
 207   public void textfield_caretUpdate(CaretEvent e)
 208   {
 209     if (textfield.getText().indexOf(">") > -1)
 210     {
 211       SwingUtilities.invokeLater(new Runnable()
 212       {
 213         public void run()
 214         {
 215           String str = textfield.getText();
 216           AlignmentI al = null;
 217           try
 218           {
 219             al = new FormatAdapter().readFile(str, "Paste", "FASTA");
 220           } catch (Exception ex)
 221           {
 222           }
 223           if (al != null && al.getHeight() > 0)
 224           {
 225             str = AlignSeq.extractGaps(
 226                     Comparison.GapChars, al.getSequenceAt(0)
 227                             .getSequenceAsString());
 228
 229             textfield.setText(str);
 230           }
 231         }
 232       });
 233     }
 234   }
 235 }