2 * Copyright (C) 2013 EDIT
3 * European Distributed Institute of Taxonomy
4 * http://www.e-taxonomy.eu
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.
9 package eu
.etaxonomy
.taxeditor
.ui
.section
.occurrence
.dna
;
12 import java
.net
.URISyntaxException
;
14 import org
.eclipse
.swt
.widgets
.Text
;
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
;
33 public class SequenceGeneralDetailElement
extends AbstractCdmDetailElement
<Sequence
> {
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
;
48 public SequenceGeneralDetailElement(CdmFormFactory formFactory
, ICdmFormElement formElement
) {
49 super(formFactory
, formElement
);
56 * eu.etaxonomy.taxeditor.section.AbstractCdmDetailElement#createControls
57 * (eu.etaxonomy.taxeditor.forms.ICdmFormElement, java.lang.Object, int)
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
);
64 URI genBankUri
= null;
69 genBankUri
= entity
.getGenBankUri();
70 emblUri
= entity
.getEmblUri();
71 ddbjUri
= entity
.getDdbjUri();
72 boldUri
= entity
.getBoldUri();
74 catch(URISyntaxException e
){
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");
94 * eu.etaxonomy.taxeditor.section.AbstractCdmDetailElement#handleEvent(java
98 public void handleEvent(Object eventSource
) {
99 if(eventSource
==comboMarker
){
100 getEntity().setDnaMarker(comboMarker
.getSelection());
102 else if(eventSource
==textConsensusSequence
){
103 SequenceString consensusSequence
= getEntity().getConsensusSequence();
104 if(consensusSequence
==null){
105 consensusSequence
= SequenceString
.NewInstance();
107 consensusSequence
.setString(textConsensusSequence
.getText());
108 getEntity().setConsensusSequence(consensusSequence
);
110 else if(eventSource
==textGeneticAccessNo
){
111 textGeneticAccessNo
.setBackground(getPersistentBackground());
112 getEntity().setGeneticAccessionNumber(textGeneticAccessNo
.getText());
113 if(textGeneticAccessNo
.getText()!=null && !textGeneticAccessNo
.getText().isEmpty()){
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
));
123 textNCBIUri
.setText("");
124 textENAUri
.setText("");
125 textDDBJUri
.setText("");
128 else if(eventSource
==textBoldProcessID
){
129 textBoldProcessID
.setBackground(getPersistentBackground());
130 getEntity().setBoldProcessId(textBoldProcessID
.getText());
131 if(textBoldProcessID
.getText()!=null && !textBoldProcessID
.getText().isEmpty()){
133 textBoldUri
.setParsedText(getEntity().getBoldUri());
134 } catch (URISyntaxException e
) {
135 textBoldProcessID
.setBackground(getColor(Resources
.COLOR_PARSE_ERROR
));
139 textBoldUri
.setText("");