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

   1 /**
   2 * Copyright (C) 2013 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.ui.section.occurrence.dna;
  10
  11 import java.net.URI;
  12 import java.net.URISyntaxException;
  13
  14 import org.eclipse.swt.widgets.Text;
  15
  16 import eu.etaxonomy.cdm.model.common.DefinedTerm;
  17 import eu.etaxonomy.cdm.model.common.TermType;
  18 import eu.etaxonomy.cdm.model.molecular.Sequence;
  19 import eu.etaxonomy.cdm.model.molecular.SequenceString;
  20 import eu.etaxonomy.taxeditor.preference.Resources;
  21 import eu.etaxonomy.taxeditor.ui.combo.TermComboElement;
  22 import eu.etaxonomy.taxeditor.ui.element.CdmFormFactory;
  23 import eu.etaxonomy.taxeditor.ui.element.ICdmFormElement;
  24 import eu.etaxonomy.taxeditor.ui.element.TextWithLabelElement;
  25 import eu.etaxonomy.taxeditor.ui.element.UriWithLabelElement;
  26 import eu.etaxonomy.taxeditor.ui.section.AbstractCdmDetailElement;
  27
  28 /**
  29  * @author pplitzner
  30  * @date 19.12.2013
  31  *
  32  */
  33 public class SequenceGeneralDetailElement extends AbstractCdmDetailElement<Sequence> {
  34
  35     private TermComboElement<DefinedTerm> comboMarker;
  36     private TextWithLabelElement textConsensusSequence;
  37     private TextWithLabelElement textGeneticAccessNo;
  38     private UriWithLabelElement textNCBIUri;
  39     private UriWithLabelElement textENAUri;
  40     private UriWithLabelElement textDDBJUri;
  41     private TextWithLabelElement textBoldProcessID;
  42     private UriWithLabelElement textBoldUri;
  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.createDefinedTermComboElement(TermType.DnaMarker, formElement, "DNA Marker", entity.getDnaMarker(), style);
  62         textConsensusSequence = formFactory.createTextWithLabelElement(formElement, "Consensus Sequence 5'->3'", entity.getConsensusSequence().getString(), style);
  63
  64         URI genBankUri = null;
  65         URI emblUri = null;
  66         URI ddbjUri = null;
  67         URI boldUri = null;
  68         try{
  69             genBankUri = entity.getGenBankUri();
  70             emblUri = entity.getEmblUri();
  71             ddbjUri = entity.getDdbjUri();
  72             boldUri = entity.getBoldUri();
  73         }
  74         catch(URISyntaxException e){
  75
  76         }
  77         textGeneticAccessNo = formFactory.createTextWithLabelElement(formElement, "Genetic Acc. No.", entity.getGeneticAccessionNumber(), style);
  78         textNCBIUri = formFactory.createUriWithLabelElement(formElement, "NCBI URI", genBankUri, style);
  79         ((Text) textNCBIUri.getMainControl()).setEditable(false);
  80         textENAUri = formFactory.createUriWithLabelElement(formElement, "ENA URI", emblUri, style);
  81         ((Text) textENAUri.getMainControl()).setEditable(false);
  82         textDDBJUri = formFactory.createUriWithLabelElement(formElement, "DDBJ URI", ddbjUri, style);
  83         ((Text) textDDBJUri.getMainControl()).setEditable(false);
  84         textBoldProcessID = formFactory.createTextWithLabelElement(formElement, "BOLD Process ID", entity.getBoldProcessId(), style);
  85         textBoldUri = formFactory.createUriWithLabelElement(formElement, "BOLD URI", boldUri, style);
  86         ((Text) textBoldUri.getMainControl()).setEditable(false);
  87         ((Text) textBoldUri.getMainControl()).setToolTipText("Query BOLD");
  88     }
  89
  90     /*
  91      * (non-Javadoc)
  92      *
  93      * @see
  94      * eu.etaxonomy.taxeditor.section.AbstractCdmDetailElement#handleEvent(java
  95      * .lang.Object)
  96      */
  97     @Override
  98     public void handleEvent(Object eventSource) {
  99         if(eventSource==comboMarker){
 100             getEntity().setDnaMarker(comboMarker.getSelection());
 101         }
 102         else if(eventSource==textConsensusSequence){
 103             SequenceString consensusSequence = getEntity().getConsensusSequence();
 104             if(consensusSequence==null){
 105                 consensusSequence = SequenceString.NewInstance();
 106             }
 107             consensusSequence.setString(textConsensusSequence.getText());
 108             getEntity().setConsensusSequence(consensusSequence);
 109         }
 110         else if(eventSource==textGeneticAccessNo){
 111             textGeneticAccessNo.setBackground(getPersistentBackground());
 112             getEntity().setGeneticAccessionNumber(textGeneticAccessNo.getText());
 113             if(textGeneticAccessNo.getText()!=null && !textGeneticAccessNo.getText().isEmpty()){
 114                 try {
 115                     textNCBIUri.setParsedText(getEntity().getGenBankUri());
 116                     textENAUri.setParsedText(getEntity().getEmblUri());
 117                     textDDBJUri.setParsedText(getEntity().getDdbjUri());
 118                 } catch (URISyntaxException e) {
 119                     textGeneticAccessNo.setBackground(getColor(Resources.COLOR_PARSE_ERROR));
 120                 }
 121             }
 122             else{
 123                 textNCBIUri.setText("");
 124                 textENAUri.setText("");
 125                 textDDBJUri.setText("");
 126             }
 127         }
 128         else if(eventSource==textBoldProcessID){
 129             textBoldProcessID.setBackground(getPersistentBackground());
 130             getEntity().setBoldProcessId(textBoldProcessID.getText());
 131             if(textBoldProcessID.getText()!=null && !textBoldProcessID.getText().isEmpty()){
 132                 try {
 133                     textBoldUri.setParsedText(getEntity().getBoldUri());
 134                 } catch (URISyntaxException e) {
 135                     textBoldProcessID.setBackground(getColor(Resources.COLOR_PARSE_ERROR));
 136                 }
 137             }
 138             else{
 139                 textBoldUri.setText("");
 140             }
 141         }
 142     }
 143
 144 }