unused/appletgui/Finder.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.appletgui;
  22
  23 import jalview.bin.JalviewLite;
  24 import jalview.datamodel.SearchResults;
  25 import jalview.datamodel.SequenceFeature;
  26 import jalview.datamodel.SequenceI;
  27 import jalview.util.MessageManager;
  28 import jalview.viewmodel.AlignmentViewport;
  29
  30 import javax.swing.JButton;
  31 import javax.swing.JCheckBox;
  32 import java.awt.Font;
  33 import javax.swing.JFrame;
  34 import java.awt.GridLayout;
  35 import javax.swing.JLabel;
  36 import javax.swing.JPanel;
  37 import java.awt.Rectangle;
  38 import javax.swing.JTextField;
  39 import java.awt.event.ActionEvent;
  40 import java.awt.event.ActionListener;
  41 import java.awt.event.KeyEvent;
  42 import java.awt.event.WindowAdapter;
  43 import java.awt.event.WindowEvent;
  44 import java.util.Vector;
  45
  46 public class Finder extends JPanel implements ActionListener
  47 {
  48   AlignmentViewport av;
  49
  50   AlignmentPanel ap;
  51
  52   JFrame frame;
  53
  54   SearchResults searchResults;
  55
  56   int seqIndex = 0;
  57
  58   int resIndex = -1;
  59
  60   public Finder(final AlignmentPanel ap)
  61   {
  62     try
  63     {
  64       jbInit();
  65
  66     } catch (Exception e)
  67     {
  68       e.printStackTrace();
  69     }
  70
  71     this.av = ap.av;
  72     this.ap = ap;
  73     frame = new JFrame();
  74     frame.add(this);
  75     JalviewLite.addFrame(frame,
  76             MessageManager.getString("action.find"), 340, 120);
  77     frame.repaint();
  78     frame.addWindowListener(new WindowAdapter()
  79     {
  80       public void windowClosing(WindowEvent evt)
  81       {
  82         ap.highlightSearchResults(null);
  83       }
  84     });
  85     textfield.requestFocus();
  86   }
  87
  88   public void actionPerformed(ActionEvent evt)
  89   {
  90     if (evt.getSource() == textfield)
  91     {
  92       doSearch(false);
  93     }
  94
  95     else if (evt.getSource() == findNext)
  96     {
  97       doSearch(false);
  98     }
  99
 100     else if (evt.getSource() == findAll)
 101     {
 102       resIndex = -1;
 103       seqIndex = 0;
 104       doSearch(true);
 105     }
 106     else if (evt.getSource() == createNewGroup)
 107     {
 108       createNewGroup_actionPerformed();
 109     }
 110   }
 111
 112   public void createNewGroup_actionPerformed()
 113   {
 114     SequenceI[] seqs = new SequenceI[searchResults.getSize()];
 115     SequenceFeature[] features = new SequenceFeature[searchResults
 116             .getSize()];
 117
 118     for (int i = 0; i < searchResults.getSize(); i++)
 119     {
 120       seqs[i] = searchResults.getResultSequence(i);
 121
 122       features[i] = new SequenceFeature(textfield.getText().trim(),
 123               "Search Results", null, searchResults.getResultStart(i),
 124               searchResults.getResultEnd(i), "Search Results");
 125     }
 126
 127     if (ap.seqPanel.seqCanvas.getFeatureRenderer().amendFeatures(seqs,
 128             features, true, ap))
 129     {
 130       ap.alignFrame.sequenceFeatures.setState(true);
 131       av.setShowSequenceFeatures(true);
 132       ap.highlightSearchResults(null);
 133     }
 134   }
 135
 136   void doSearch(boolean findAll)
 137   {
 138     if (ap.av.applet.currentAlignFrame != null)
 139     {
 140       ap = ap.av.applet.currentAlignFrame.alignPanel;
 141       av = ap.av;
 142     }
 143     createNewGroup.setEnabled(false);
 144     jalview.analysis.Finder finder = new jalview.analysis.Finder(
 145             av.getAlignment(), av.getSelectionGroup(), seqIndex, resIndex);
 146     finder.setCaseSensitive(caseSensitive.isSelected());
 147     finder.setIncludeDescription(searchDescription.isSelected());
 148     finder.setFindAll(findAll);
 149
 150     String searchString = textfield.getText();
 151
 152     finder.find(searchString);
 153     seqIndex = finder.getSeqIndex();
 154     resIndex = finder.getResIndex();
 155     searchResults = finder.getSearchResults();
 156     Vector idMatch = finder.getIdMatch();
 157     boolean haveResults = false;
 158     // set or reset the GUI
 159     if ((idMatch.size() > 0))
 160     {
 161       haveResults = true;
 162       ap.idPanel.highlightSearchResults(idMatch);
 163     }
 164     else
 165     {
 166       ap.idPanel.highlightSearchResults(null);
 167     }
 168
 169     if (searchResults.getSize() > 0)
 170     {
 171       haveResults = true;
 172       createNewGroup.setEnabled(true);
 173
 174     }
 175     else
 176     {
 177       searchResults = null;
 178     }
 179
 180     // if allResults is null, this effectively switches displaySearch flag in
 181     // seqCanvas
 182     ap.highlightSearchResults(searchResults);
 183     // TODO: add enablers for 'SelectSequences' or 'SelectColumns' or
 184     // 'SelectRegion' selection
 185     if (!haveResults)
 186     {
 187       ap.alignFrame.statusBar.setText(MessageManager
 188               .getString("label.finished_searching"));
 189       resIndex = -1;
 190       seqIndex = 0;
 191     }
 192     else
 193     {
 194       if (findAll)
 195       {
 196         String message = (idMatch.size() > 0) ? "" + idMatch.size()
 197                 + " IDs" : "";
 198         if (idMatch.size() > 0 && searchResults != null
 199                 && searchResults.getSize() > 0)
 200         {
 201           message += " and ";
 202         }
 203         if (searchResults != null)
 204         {
 205           message += searchResults.getSize() + " subsequence matches.";
 206         }
 207         ap.alignFrame.statusBar.setText(MessageManager.formatMessage(
 208                 "label.search_results", new String[]
 209                 { searchString, message }));
 210
 211       }
 212       else
 213       {
 214         // TODO: indicate sequence and matching position in status bar
 215         ap.alignFrame.statusBar.setText(MessageManager.formatMessage(
 216                 "label.found_match_for", new String[]
 217                 { searchString }));
 218       }
 219     }
 220   }
 221
 222   JLabel jLabel1 = new JLabel();
 223
 224   protected JTextField textfield = new JTextField();
 225
 226   protected JButton findAll = new JButton();
 227
 228   protected JButton findNext = new JButton();
 229
 230   JPanel actionsPanel = new JPanel();
 231
 232   GridLayout gridLayout1 = new GridLayout();
 233
 234   protected JButton createNewGroup = new JButton();
 235
 236   JCheckBox caseSensitive = new JCheckBox();
 237
 238   JCheckBox searchDescription = new JCheckBox();
 239
 240   private void jbInit() throws Exception
 241   {
 242     jLabel1.setFont(new Font("Verdana", 0, 12));
 243     jLabel1.setText(MessageManager.getString("action.find"));
 244     jLabel1.setBounds(new Rectangle(3, 30, 34, 15));
 245     this.setLayout(null);
 246     textfield.setFont(new java.awt.Font("Verdana", Font.PLAIN, 10));
 247     textfield.setText("");
 248     textfield.setBounds(new Rectangle(40, 17, 133, 21));
 249     textfield.addKeyListener(new java.awt.event.KeyAdapter()
 250     {
 251       public void keyTyped(KeyEvent e)
 252       {
 253         textfield_keyTyped(e);
 254       }
 255     });
 256     textfield.addActionListener(this);
 257     findAll.setFont(new java.awt.Font("Verdana", Font.PLAIN, 10));
 258     findAll.setLabel(MessageManager.getString("action.find_all"));
 259     findAll.addActionListener(this);
 260     findNext.setEnabled(false);
 261     findNext.setFont(new java.awt.Font("Verdana", Font.PLAIN, 10));
 262     findNext.setLabel(MessageManager.getString("action.find_next"));
 263     findNext.addActionListener(this);
 264     actionsPanel.setBounds(new Rectangle(195, 5, 141, 64));
 265     actionsPanel.setLayout(gridLayout1);
 266     gridLayout1.setHgap(0);
 267     gridLayout1.setRows(3);
 268     gridLayout1.setVgap(2);
 269     createNewGroup.setEnabled(false);
 270     createNewGroup.setFont(new java.awt.Font("Verdana", Font.PLAIN, 10));
 271     createNewGroup.setLabel(MessageManager.getString("label.new_feature"));
 272     createNewGroup.addActionListener(this);
 273     caseSensitive.setLabel(MessageManager.getString("label.match_case"));
 274     caseSensitive.setBounds(new Rectangle(30, 39, 126, 23));
 275
 276     searchDescription.setLabel(MessageManager
 277             .getString("label.include_description"));
 278     searchDescription.setBounds(new Rectangle(30, 59, 170, 23));
 279     actionsPanel.add(findNext, null);
 280     actionsPanel.add(findAll, null);
 281     actionsPanel.add(createNewGroup, null);
 282     this.add(caseSensitive);
 283     this.add(textfield, null);
 284     this.add(jLabel1, null);
 285     this.add(actionsPanel, null);
 286     this.add(searchDescription);
 287   }
 288
 289   void textfield_keyTyped(KeyEvent e)
 290   {
 291     findNext.setEnabled(true);
 292   }
 293
 294 }