+// $Id$
+/**
+ * Copyright (C) 2014 EDIT
+ * European Distributed Institute of Taxonomy
+ * http://www.e-taxonomy.eu
+ *
+ * The contents of this file are subject to the Mozilla Public License Version 1.1
+ * See LICENSE.TXT at the top of this package for the full license terms.
+ */
+package eu.etaxonomy.taxeditor.ui.section.occurrence;
+
+import eu.etaxonomy.cdm.model.molecular.Amplification;
+import eu.etaxonomy.cdm.model.molecular.Primer;
+import eu.etaxonomy.cdm.model.molecular.Sequence;
+import eu.etaxonomy.cdm.model.reference.Reference;
+import eu.etaxonomy.taxeditor.ui.campanula.compatibility.ICdmFormElement;
+import eu.etaxonomy.taxeditor.ui.element.CdmFormFactory;
+import eu.etaxonomy.taxeditor.ui.element.TextWithLabelElement;
+import eu.etaxonomy.taxeditor.ui.section.AbstractCdmDetailElement;
+import eu.etaxonomy.taxeditor.ui.selection.EntitySelectionElement;
+
+/**
+ * @author pplitzner
+ * @date 15.01.2014
+ *
+ */
+public class AmplificationPrimerDetailElement extends AbstractCdmDetailElement<Amplification> {
+
+ //forward primer
+ private TextWithLabelElement textPrimerForwardName;
+ private TextWithLabelElement textPrimerForwardSequence;
+ private EntitySelectionElement<Reference> selectionPrimerForwardReference;
+ //reverse primer
+ private TextWithLabelElement textPrimerReverseName;
+ private TextWithLabelElement textPrimerReverseSequence;
+ private EntitySelectionElement<Reference> selectionPrimerReverseReference;
+
+
+ /**
+ * @param formFactory
+ * @param formElement
+ */
+ public AmplificationPrimerDetailElement(CdmFormFactory formFactory, ICdmFormElement formElement) {
+ super(formFactory, formElement);
+ }
+
+ /*
+ * (non-Javadoc)
+ *
+ * @see
+ * eu.etaxonomy.taxeditor.section.AbstractCdmDetailElement#createControls
+ * (eu.etaxonomy.taxeditor.forms.ICdmFormElement, java.lang.Object, int)
+ */
+ @Override
+ protected void createControls(ICdmFormElement formElement, Amplification entity, int style) {
+ //first primer
+ Primer forwardPrimer = entity.getForwardPrimer();
+ String initialName;
+ String initalSequenceString;
+ Reference initialReference;
+ if(forwardPrimer==null){
+ initialName = "";
+ initalSequenceString = null;
+ initialReference = null;
+ }
+ else{
+ initialName = forwardPrimer.getLabel();
+ initialReference = forwardPrimer.getPublishedIn();
+ if(forwardPrimer.getSequence()==null){
+ initalSequenceString = "";
+ }
+ else{
+ initalSequenceString = forwardPrimer.getSequence().getSequenceString();
+ }
+ }
+ textPrimerForwardName = formFactory.createTextWithLabelElement(formElement, "Forward Primer", initialName, style);
+ textPrimerForwardSequence = formFactory.createTextWithLabelElement(formElement, "Fw. Primer Sequence", initalSequenceString, style);
+ selectionPrimerForwardReference = formFactory.createSelectionElement(Reference.class, getConversationHolder(), formElement, "Fw. Primer Reference", initialReference, EntitySelectionElement.ALL, style);
+
+ //second primer
+ Primer reversePrimer = entity.getForwardPrimer();
+ String initialNameReverse;
+ String initalSequenceStringReverse;
+ Reference initialReferenceReverse;
+ if(reversePrimer==null){
+ initialNameReverse = "";
+ initalSequenceStringReverse = null;
+ initialReferenceReverse = null;
+ }
+ else{
+ initialNameReverse = reversePrimer.getLabel();
+ initialReferenceReverse = reversePrimer.getPublishedIn();
+ if(reversePrimer.getSequence()==null){
+ initalSequenceStringReverse = "";
+ }
+ else{
+ initalSequenceStringReverse = reversePrimer.getSequence().getSequenceString();
+ }
+ }
+ textPrimerReverseName = formFactory.createTextWithLabelElement(formElement, "Reverse Primer", initialNameReverse, style);
+ textPrimerReverseSequence = formFactory.createTextWithLabelElement(formElement, "Rv. Primer Sequence", initalSequenceStringReverse, style);
+ selectionPrimerReverseReference = formFactory.createSelectionElement(Reference.class, getConversationHolder(), formElement, "Rv. Primer Reference", initialReferenceReverse, EntitySelectionElement.ALL, style);
+ }
+
+ /*
+ * (non-Javadoc)
+ *
+ * @see
+ * eu.etaxonomy.taxeditor.section.AbstractCdmDetailElement#handleEvent(java
+ * .lang.Object)
+ */
+ @Override
+ public void handleEvent(Object eventSource) {
+ if(eventSource==textPrimerForwardName || eventSource==textPrimerForwardSequence || eventSource==selectionPrimerForwardReference){
+ Primer forwardPrimer = getEntity().getForwardPrimer();
+ if(forwardPrimer==null){
+ forwardPrimer = Primer.NewInstance("");
+ getEntity().setForwardPrimer(forwardPrimer);
+ }
+ if(eventSource==textPrimerForwardName){
+ forwardPrimer.setLabel(textPrimerForwardName.getText());
+ }
+ else if(eventSource==textPrimerForwardSequence){
+ Sequence sequence = forwardPrimer.getSequence();
+ if(sequence==null){
+ sequence = Sequence.NewInstance(textPrimerForwardSequence.getText());
+ forwardPrimer.setSequence(sequence);
+ }
+ else{
+ sequence.setSequenceString(textPrimerForwardSequence.getText());
+ }
+ }
+ else if(eventSource==selectionPrimerForwardReference){
+ forwardPrimer.setPublishedIn(selectionPrimerForwardReference.getSelection());
+ }
+ }
+ else if(eventSource==textPrimerReverseName || eventSource==textPrimerReverseSequence || eventSource==selectionPrimerReverseReference){
+ Primer reversePrimer = getEntity().getReversePrimer();
+ if(reversePrimer==null){
+ reversePrimer = Primer.NewInstance("");
+ getEntity().setReversePrimer(reversePrimer);
+ }
+ if(eventSource==textPrimerReverseName){
+ reversePrimer.setLabel(textPrimerReverseName.getText());
+ }
+ else if(eventSource==textPrimerReverseSequence){
+ Sequence sequence = reversePrimer.getSequence();
+ if(sequence==null){
+ sequence = Sequence.NewInstance(textPrimerReverseSequence.getText());
+ reversePrimer.setSequence(sequence);
+ }
+ else{
+ sequence.setSequenceString(textPrimerReverseSequence.getText());
+ }
+ }
+ else if(eventSource==selectionPrimerReverseReference){
+ reversePrimer.setPublishedIn(selectionPrimerReverseReference.getSelection());
+ }
+ }
+ }
+}