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

   1 // $Id$
   2 /**
   3  * Copyright (C) 2014 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 eu.etaxonomy.cdm.model.molecular.Amplification;
  13 import eu.etaxonomy.cdm.model.molecular.Primer;
  14 import eu.etaxonomy.cdm.model.molecular.Sequence;
  15 import eu.etaxonomy.cdm.model.reference.Reference;
  16 import eu.etaxonomy.taxeditor.ui.element.CdmFormFactory;
  17 import eu.etaxonomy.taxeditor.ui.element.ICdmFormElement;
  18 import eu.etaxonomy.taxeditor.ui.element.TextWithLabelElement;
  19 import eu.etaxonomy.taxeditor.ui.section.AbstractCdmDetailElement;
  20 import eu.etaxonomy.taxeditor.ui.selection.EntitySelectionElement;
  21
  22 /**
  23  * @author pplitzner
  24  * @date 15.01.2014
  25  *
  26  */
  27 public class AmplificationPrimerDetailElement extends AbstractCdmDetailElement<Amplification> {
  28
  29     //forward primer
  30     private TextWithLabelElement textPrimerForwardName;
  31     private TextWithLabelElement textPrimerForwardSequence;
  32     private EntitySelectionElement<Reference> selectionPrimerForwardReference;
  33     //reverse primer
  34     private TextWithLabelElement textPrimerReverseName;
  35     private TextWithLabelElement textPrimerReverseSequence;
  36     private EntitySelectionElement<Reference> selectionPrimerReverseReference;
  37
  38
  39     /**
  40      * @param formFactory
  41      * @param formElement
  42      */
  43     public AmplificationPrimerDetailElement(CdmFormFactory formFactory, ICdmFormElement formElement) {
  44         super(formFactory, formElement);
  45     }
  46
  47     /*
  48      * (non-Javadoc)
  49      *
  50      * @see
  51      * eu.etaxonomy.taxeditor.section.AbstractCdmDetailElement#createControls
  52      * (eu.etaxonomy.taxeditor.forms.ICdmFormElement, java.lang.Object, int)
  53      */
  54     @Override
  55     protected void createControls(ICdmFormElement formElement, Amplification entity, int style) {
  56         //first primer
  57         Primer forwardPrimer = entity.getForwardPrimer();
  58         String initialName;
  59         String initalSequenceString;
  60         Reference initialReference;
  61         if(forwardPrimer==null){
  62             initialName = "";
  63             initalSequenceString = null;
  64             initialReference = null;
  65         }
  66         else{
  67             initialName = forwardPrimer.getLabel();
  68             initialReference = forwardPrimer.getPublishedIn();
  69             if(forwardPrimer.getSequence()==null){
  70                 initalSequenceString = "";
  71             }
  72             else{
  73                 initalSequenceString = forwardPrimer.getSequence().getSequenceString();
  74             }
  75         }
  76         textPrimerForwardName = formFactory.createTextWithLabelElement(formElement, "Forward Primer", initialName, style);
  77         textPrimerForwardSequence = formFactory.createTextWithLabelElement(formElement, "Fw. Primer Sequence", initalSequenceString, style);
  78         selectionPrimerForwardReference = formFactory.createSelectionElement(Reference.class, getConversationHolder(), formElement, "Fw. Primer Reference", initialReference, EntitySelectionElement.ALL, style);
  79
  80         //second primer
  81         Primer reversePrimer = entity.getForwardPrimer();
  82         String initialNameReverse;
  83         String initalSequenceStringReverse;
  84         Reference initialReferenceReverse;
  85         if(reversePrimer==null){
  86             initialNameReverse = "";
  87             initalSequenceStringReverse = null;
  88             initialReferenceReverse = null;
  89         }
  90         else{
  91             initialNameReverse = reversePrimer.getLabel();
  92             initialReferenceReverse = reversePrimer.getPublishedIn();
  93             if(reversePrimer.getSequence()==null){
  94                 initalSequenceStringReverse = "";
  95             }
  96             else{
  97                 initalSequenceStringReverse = reversePrimer.getSequence().getSequenceString();
  98             }
  99         }
 100         textPrimerReverseName = formFactory.createTextWithLabelElement(formElement, "Reverse Primer", initialNameReverse, style);
 101         textPrimerReverseSequence = formFactory.createTextWithLabelElement(formElement, "Rv. Primer Sequence", initalSequenceStringReverse, style);
 102         selectionPrimerReverseReference = formFactory.createSelectionElement(Reference.class, getConversationHolder(), formElement, "Rv. Primer Reference", initialReferenceReverse, EntitySelectionElement.ALL, style);
 103     }
 104
 105     /*
 106      * (non-Javadoc)
 107      *
 108      * @see
 109      * eu.etaxonomy.taxeditor.section.AbstractCdmDetailElement#handleEvent(java
 110      * .lang.Object)
 111      */
 112     @Override
 113     public void handleEvent(Object eventSource) {
 114         if(eventSource==textPrimerForwardName || eventSource==textPrimerForwardSequence || eventSource==selectionPrimerForwardReference){
 115             Primer forwardPrimer = getEntity().getForwardPrimer();
 116             if(forwardPrimer==null){
 117                 forwardPrimer = Primer.NewInstance("");
 118                 getEntity().setForwardPrimer(forwardPrimer);
 119             }
 120             if(eventSource==textPrimerForwardName){
 121                 forwardPrimer.setLabel(textPrimerForwardName.getText());
 122             }
 123             else if(eventSource==textPrimerForwardSequence){
 124                 Sequence sequence = forwardPrimer.getSequence();
 125                 if(sequence==null){
 126                     sequence = Sequence.NewInstance(textPrimerForwardSequence.getText());
 127                     forwardPrimer.setSequence(sequence);
 128                 }
 129                 else{
 130                     sequence.setSequenceString(textPrimerForwardSequence.getText());
 131                 }
 132             }
 133             else if(eventSource==selectionPrimerForwardReference){
 134                 forwardPrimer.setPublishedIn(selectionPrimerForwardReference.getSelection());
 135             }
 136         }
 137         else if(eventSource==textPrimerReverseName || eventSource==textPrimerReverseSequence || eventSource==selectionPrimerReverseReference){
 138             Primer reversePrimer = getEntity().getReversePrimer();
 139             if(reversePrimer==null){
 140                 reversePrimer = Primer.NewInstance("");
 141                 getEntity().setReversePrimer(reversePrimer);
 142             }
 143             if(eventSource==textPrimerReverseName){
 144                 reversePrimer.setLabel(textPrimerReverseName.getText());
 145             }
 146             else if(eventSource==textPrimerReverseSequence){
 147                 Sequence sequence = reversePrimer.getSequence();
 148                 if(sequence==null){
 149                     sequence = Sequence.NewInstance(textPrimerReverseSequence.getText());
 150                     reversePrimer.setSequence(sequence);
 151                 }
 152                 else{
 153                     sequence.setSequenceString(textPrimerReverseSequence.getText());
 154                 }
 155             }
 156             else if(eventSource==selectionPrimerReverseReference){
 157                 reversePrimer.setPublishedIn(selectionPrimerReverseReference.getSelection());
 158             }
 159         }
 160     }
 161 }