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.campanula.compatibility.ICdmFormElement;
  18 import eu.etaxonomy.taxeditor.ui.combo.TermComboElement;
  19 import eu.etaxonomy.taxeditor.ui.element.CdmFormFactory;
  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.section.AbstractCdmDetailElement;
  24
  25 /**
  26  * @author pplitzner
  27  * @date 19.12.2013
  28  *
  29  */
  30 public class SequenceGeneralDetailElement extends AbstractCdmDetailElement<Sequence> {
  31
  32     private TermComboElement<DefinedTerm> comboMarker;
  33     private TextWithLabelElement textContigFile;
  34     private TextWithLabelElement textConsensusSequence;
  35     private NumberWithLabelElement textConsensusSequenceLength;
  36     private TextWithLabelElement textBarcodeSequence;
  37     private TextWithLabelElement textGeneticAccessNo;
  38     private TextWithLabelElement textBoldProcessID;
  39     private TextWithLabelElement textBoldLink;
  40
  41     private SequenceReferenceCollectionDetailSection sectionReferenceCollection;
  42
  43     /**
  44      * @param formFactory
  45      * @param formElement
  46      */
  47     public SequenceGeneralDetailElement(CdmFormFactory formFactory, ICdmFormElement formElement) {
  48         super(formFactory, formElement);
  49     }
  50
  51     /*
  52      * (non-Javadoc)
  53      *
  54      * @see
  55      * eu.etaxonomy.taxeditor.section.AbstractCdmDetailElement#createControls
  56      * (eu.etaxonomy.taxeditor.forms.ICdmFormElement, java.lang.Object, int)
  57      */
  58     @Override
  59     protected void createControls(ICdmFormElement formElement, Sequence entity, int style) {
  60         comboMarker = formFactory.createTermComboElement(DefinedTerm.class, formElement, "DNA Marker",
  61                 entity.getDnaMarker(),
  62                         style);
  63         textContigFile = formFactory.createTextWithLabelElement(formElement, "Contig File", "XXX", style);
  64         textConsensusSequence = formFactory.createTextWithLabelElement(formElement, "Consensus Sequence 5'->3'", entity.getConsensusSequence().getString(), style);
  65         textConsensusSequenceLength = formFactory.createNumberTextWithLabelElement(formElement, "Consensus Seq. Length", entity.getConsensusSequence().getLength(), style);
  66         textBarcodeSequence = formFactory.createTextWithLabelElement(formElement, "Barcode Sequence 5'->3'", entity.getBarcodeSequencePart()==null?"":entity.getBarcodeSequencePart().getString(), style);
  67
  68         textGeneticAccessNo = formFactory.createTextWithLabelElement(formElement, "Genetic Acc. No.", entity.getGeneticAccessionNumber(), style);
  69         textBoldProcessID = formFactory.createTextWithLabelElement(formElement, "BOLD Process ID", entity.getBoldProcessId(), style);
  70         textBoldLink = formFactory.createTextWithLabelElement(formElement, "BOLD URI", entity.getBoldUri(), style);
  71         textBoldLink.setEnabled(false);
  72
  73         sectionReferenceCollection = formFactory.createSequenceReferenceCollectionDetailSection(getConversationHolder(), formElement, ExpandableComposite.TWISTIE);
  74         sectionReferenceCollection.setLayoutData(LayoutConstants.FILL_HORIZONTALLY(2, 1));
  75         sectionReferenceCollection.setEntity(entity);
  76     }
  77
  78     /*
  79      * (non-Javadoc)
  80      *
  81      * @see
  82      * eu.etaxonomy.taxeditor.section.AbstractCdmDetailElement#handleEvent(java
  83      * .lang.Object)
  84      */
  85     @Override
  86     public void handleEvent(Object eventSource) {
  87         if(eventSource==comboMarker){
  88             getEntity().setDnaMarker(comboMarker.getSelection());
  89         }
  90         else if(eventSource==textContigFile){
  91
  92         }
  93         else if(eventSource==textConsensusSequence){
  94             SequenceString consensusSequence = getEntity().getConsensusSequence();
  95             if(consensusSequence==null){
  96                 consensusSequence = SequenceString.NewInstance();
  97             }
  98             consensusSequence.setString(textConsensusSequence.getText());
  99             getEntity().setConsensusSequence(consensusSequence);
 100         }
 101         else if(eventSource==textConsensusSequenceLength){
 102             SequenceString consensusSequence = getEntity().getConsensusSequence();
 103             if(consensusSequence==null){
 104                 consensusSequence = SequenceString.NewInstance();
 105             }
 106             consensusSequence.setLength(textConsensusSequenceLength.getInteger());
 107             getEntity().setConsensusSequence(consensusSequence);
 108         }
 109         else if(eventSource==textBarcodeSequence){
 110             SequenceString barcodeSequencePart = getEntity().getBarcodeSequencePart();
 111             if(barcodeSequencePart==null){
 112                 barcodeSequencePart = SequenceString.NewInstance();
 113             }
 114             barcodeSequencePart.setString(textBarcodeSequence.getText());
 115             getEntity().setBarcodeSequencePart(barcodeSequencePart);
 116         }
 117         else if(eventSource==textGeneticAccessNo){
 118             getEntity().setGeneticAccessionNumber(textGeneticAccessNo.getText());
 119         }
 120         else if(eventSource==textBoldProcessID){
 121             getEntity().setBoldProcessId(textBoldProcessID.getText());
 122             if(textBoldProcessID.getText()!=null && !textBoldProcessID.getText().isEmpty()){
 123                 textBoldLink.setText(getEntity().getBoldUri().toString());
 124             }
 125             else{
 126                 textBoldLink.setText("");
 127             }
 128         }
 129         else if(eventSource==textBoldLink){
 130             //cannot be set because it is generated from the genetic access number and a base URI
 131         }
 132     }
 133
 134 }