eu.etaxonomy.taxeditor.store/src/main/java/eu/etaxonomy/taxeditor/ui/section/occurrence/dna/SequenceGeneralDetailElement.java

   1 // $Id$
   2 /**
   3 * Copyright (C) 2013 EDIT
   4 * European Distributed Institute of Taxonomy
   5 * http://www.e-taxonomy.eu
   6 *
   7 * The contents of this file are subject to the Mozilla Public License Version 1.1
   8 * See LICENSE.TXT at the top of this package for the full license terms.
   9 */
  10 package eu.etaxonomy.taxeditor.ui.section.occurrence.dna;
  11
  12 import org.eclipse.ui.forms.widgets.ExpandableComposite;
  13
  14 import eu.etaxonomy.cdm.model.common.DefinedTerm;
  15 import eu.etaxonomy.cdm.model.molecular.Sequence;
  16 import eu.etaxonomy.cdm.model.molecular.SequenceString;
  17 import eu.etaxonomy.taxeditor.ui.combo.TermComboElement;
  18 import eu.etaxonomy.taxeditor.ui.element.CdmFormFactory;
  19 import eu.etaxonomy.taxeditor.ui.element.ICdmFormElement;
  20 import eu.etaxonomy.taxeditor.ui.element.LayoutConstants;
  21 import eu.etaxonomy.taxeditor.ui.element.NumberWithLabelElement;
  22 import eu.etaxonomy.taxeditor.ui.element.TextWithLabelElement;
  23 import eu.etaxonomy.taxeditor.ui.element.UriWithLabelElement;
  24 import eu.etaxonomy.taxeditor.ui.section.AbstractCdmDetailElement;
  25
  26 /**
  27  * @author pplitzner
  28  * @date 19.12.2013
  29  *
  30  */
  31 public class SequenceGeneralDetailElement extends AbstractCdmDetailElement<Sequence> {
  32
  33     private TermComboElement<DefinedTerm> comboMarker;
  34     private TextWithLabelElement textContigFile;
  35     private TextWithLabelElement textConsensusSequence;
  36     private NumberWithLabelElement textConsensusSequenceLength;
  37     private TextWithLabelElement textBarcodeSequence;
  38     private TextWithLabelElement textGeneticAccessNo;
  39     private TextWithLabelElement textBoldProcessID;
  40     private UriWithLabelElement textBoldUri;
  41
  42     private SequenceReferenceCollectionDetailSection sectionReferenceCollection;
  43
  44     /**
  45      * @param formFactory
  46      * @param formElement
  47      */
  48     public SequenceGeneralDetailElement(CdmFormFactory formFactory, ICdmFormElement formElement) {
  49         super(formFactory, formElement);
  50     }
  51
  52     /*
  53      * (non-Javadoc)
  54      *
  55      * @see
  56      * eu.etaxonomy.taxeditor.section.AbstractCdmDetailElement#createControls
  57      * (eu.etaxonomy.taxeditor.forms.ICdmFormElement, java.lang.Object, int)
  58      */
  59     @Override
  60     protected void createControls(ICdmFormElement formElement, Sequence entity, int style) {
  61         comboMarker = formFactory.createTermComboElement(DefinedTerm.class, formElement, "DNA Marker",
  62                 entity.getDnaMarker(),
  63                         style);
  64         textContigFile = formFactory.createTextWithLabelElement(formElement, "Contig File", "XXX", style);
  65         textConsensusSequence = formFactory.createTextWithLabelElement(formElement, "Consensus Sequence 5'->3'", entity.getConsensusSequence().getString(), style);
  66         textConsensusSequenceLength = formFactory.createNumberTextWithLabelElement(formElement, "Consensus Seq. Length", entity.getConsensusSequence().getLength(), style);
  67         textBarcodeSequence = formFactory.createTextWithLabelElement(formElement, "Barcode Sequence 5'->3'", entity.getBarcodeSequencePart()==null?"":entity.getBarcodeSequencePart().getString(), style);
  68
  69         textGeneticAccessNo = formFactory.createTextWithLabelElement(formElement, "Genetic Acc. No.", entity.getGeneticAccessionNumber(), style);
  70         textBoldProcessID = formFactory.createTextWithLabelElement(formElement, "BOLD Process ID", entity.getBoldProcessId(), style);
  71         textBoldUri = formFactory.createUriWithLabelElement(formElement, "BOLD URI", entity.getBoldUri(), style);
  72         textBoldUri.setEnabled(false);
  73
  74         sectionReferenceCollection = formFactory.createSequenceReferenceCollectionDetailSection(getConversationHolder(), formElement, ExpandableComposite.TWISTIE);
  75         sectionReferenceCollection.setLayoutData(LayoutConstants.FILL_HORIZONTALLY(2, 1));
  76         sectionReferenceCollection.setEntity(entity);
  77     }
  78
  79     /*
  80      * (non-Javadoc)
  81      *
  82      * @see
  83      * eu.etaxonomy.taxeditor.section.AbstractCdmDetailElement#handleEvent(java
  84      * .lang.Object)
  85      */
  86     @Override
  87     public void handleEvent(Object eventSource) {
  88         if(eventSource==comboMarker){
  89             getEntity().setDnaMarker(comboMarker.getSelection());
  90         }
  91         else if(eventSource==textContigFile){
  92
  93         }
  94         else if(eventSource==textConsensusSequence){
  95             SequenceString consensusSequence = getEntity().getConsensusSequence();
  96             if(consensusSequence==null){
  97                 consensusSequence = SequenceString.NewInstance();
  98             }
  99             consensusSequence.setString(textConsensusSequence.getText());
 100             getEntity().setConsensusSequence(consensusSequence);
 101         }
 102         else if(eventSource==textConsensusSequenceLength){
 103             SequenceString consensusSequence = getEntity().getConsensusSequence();
 104             if(consensusSequence==null){
 105                 consensusSequence = SequenceString.NewInstance();
 106             }
 107             consensusSequence.setLength(textConsensusSequenceLength.getInteger());
 108             getEntity().setConsensusSequence(consensusSequence);
 109         }
 110         else if(eventSource==textBarcodeSequence){
 111             SequenceString barcodeSequencePart = getEntity().getBarcodeSequencePart();
 112             if(barcodeSequencePart==null){
 113                 barcodeSequencePart = SequenceString.NewInstance();
 114             }
 115             barcodeSequencePart.setString(textBarcodeSequence.getText());
 116             getEntity().setBarcodeSequencePart(barcodeSequencePart);
 117         }
 118         else if(eventSource==textGeneticAccessNo){
 119             getEntity().setGeneticAccessionNumber(textGeneticAccessNo.getText());
 120         }
 121         else if(eventSource==textBoldProcessID){
 122             getEntity().setBoldProcessId(textBoldProcessID.getText());
 123             if(textBoldProcessID.getText()!=null && !textBoldProcessID.getText().isEmpty()){
 124                 textBoldUri.setUri(getEntity().getBoldUri());
 125             }
 126             else{
 127                 textBoldUri.setText("");
 128             }
 129         }
 130         else if(eventSource==textBoldUri){
 131             //cannot be set because it is generated from the genetic access number and a base URI
 132         }
 133     }
 134
 135 }