eu.etaxonomy.taxeditor.editor/src/main/java/eu/etaxonomy/taxeditor/editor/handler/LoadPherogramHandler.java

   1 /**
   2 * Copyright (C) 2007 EDIT
   3 * European Distributed Institute of Taxonomy
   4 * http://www.e-taxonomy.eu
   5 *
   6 * The contents of this file are subject to the Mozilla Public License Version 1.1
   7 * See LICENSE.TXT at the top of this package for the full license terms.
   8 */
   9 package eu.etaxonomy.taxeditor.editor.handler;
  10
  11
  12 import java.io.File;
  13 import java.io.IOException;
  14
  15 import org.biojava.bio.chromatogram.UnsupportedChromatogramFormatException;
  16 import org.eclipse.core.commands.AbstractHandler;
  17 import org.eclipse.core.commands.ExecutionEvent;
  18 import org.eclipse.core.commands.ExecutionException;
  19 import org.eclipse.swt.widgets.FileDialog;
  20 import org.eclipse.ui.IEditorPart;
  21
  22 import eu.etaxonomy.taxeditor.editor.molecular.AlignmentEditor;
  23 import eu.etaxonomy.taxeditor.model.AbstractUtility;
  24 import eu.etaxonomy.taxeditor.model.MessagingUtils;
  25
  26
  27
  28 /**
  29  * Handler that loads an additional read into the contig alignment displayed by an instance of {@link AlignmentEditor}.
  30  *
  31  * @author Ben Stöver
  32  * @author pplitzner
  33  */
  34 public class LoadPherogramHandler extends AbstractHandler {
  35         //TODO Change so that also URIs which do not point to files can be specified.
  36
  37         /* (non-Javadoc)
  38      * @see org.eclipse.core.commands.IHandler#execute(org.eclipse.core.commands.ExecutionEvent)
  39      */
  40     @Override
  41     public Object execute(ExecutionEvent event) throws ExecutionException {
  42         IEditorPart activeEditor = AbstractUtility.getActiveEditor();
  43         if (activeEditor instanceof AlignmentEditor) {
  44             AlignmentEditor alignmentEditor = (AlignmentEditor)activeEditor;
  45
  46             FileDialog fileDialog = new FileDialog(alignmentEditor.getSite().getShell());
  47             fileDialog.setText("Import pherogram into contig alignment");
  48             fileDialog.setFilterNames(new String[]{"All supported formats", "AB1 pherogram files", "SCF pherogram files", "All files"});
  49             fileDialog.setFilterExtensions(new String[]{"*.ab1;*.scf", "*.ab1", "*.scf", "*.*"});
  50
  51             String path = fileDialog.open();
  52             if (path != null) {
  53                 try {
  54                         alignmentEditor.addRead(new File(path).toURI(), false);
  55                 }
  56                 catch (UnsupportedChromatogramFormatException e) {
  57                     MessagingUtils.errorDialog("Unsupported format", this, "The format of the pherogram file \"" + path +
  58                                 "\" is not supported. (Only AB1 and SCF are supported.)", "eu.etaxonomy.taxeditor.editor", e, false);  //TODO set pluginID
  59                 }
  60                 catch (IOException e) {
  61                     MessagingUtils.errorDialog("Unsupported format", this,
  62                                 "An IO error occurred while trying to read the file \"" + path + "\".",
  63                                 "/eu.etaxonomy.taxeditor.editor", e, false);  //TODO set pluginID
  64                 }
  65             }
  66         }
  67         return null;
  68     }
  69 }