| 1 |
4c82bcaa
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Alexander Oppermann
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package eu.etaxonomy.cdm.vaadin.presenter.dbstatus;
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| 3 |
8ef14383
|
Alexander Oppermann
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import java.sql.SQLException;
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import java.util.ArrayList;
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| 5 |
7cef91f1
|
Alexander Oppermann
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import java.util.Arrays;
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| 6 |
1b8dfb1b
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Alexander Oppermann
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import java.util.Collections;
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| 7 |
1a3e979c
|
Alexander Oppermann
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import java.util.Comparator;
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| 8 |
7cef91f1
|
Alexander Oppermann
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import java.util.HashMap;
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import java.util.HashSet;
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import java.util.List;
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import java.util.Set;
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import java.util.UUID;
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import com.vaadin.server.VaadinSession;
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| 16 |
1b9d7954
|
Alexander Oppermann
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import eu.etaxonomy.cdm.api.service.IClassificationService;
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| 17 |
7cef91f1
|
Alexander Oppermann
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import eu.etaxonomy.cdm.api.service.IDescriptionService;
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| 18 |
1b9d7954
|
Alexander Oppermann
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import eu.etaxonomy.cdm.api.service.ITaxonNodeService;
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| 19 |
1746c51d
|
Alexander Oppermann
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import eu.etaxonomy.cdm.api.service.ITaxonService;
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| 20 |
7cef91f1
|
Alexander Oppermann
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import eu.etaxonomy.cdm.api.service.ITermService;
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import eu.etaxonomy.cdm.api.service.IVocabularyService;
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import eu.etaxonomy.cdm.model.common.CdmBase;
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import eu.etaxonomy.cdm.model.common.DefinedTermBase;
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| 24 |
1a3e979c
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Alexander Oppermann
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import eu.etaxonomy.cdm.model.common.Language;
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import eu.etaxonomy.cdm.model.common.Representation;
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| 26 |
7cef91f1
|
Alexander Oppermann
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import eu.etaxonomy.cdm.model.common.TermVocabulary;
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import eu.etaxonomy.cdm.model.description.DescriptionElementBase;
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import eu.etaxonomy.cdm.model.description.Distribution;
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import eu.etaxonomy.cdm.model.description.Feature;
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import eu.etaxonomy.cdm.model.description.PresenceAbsenceTerm;
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| 31 |
1a3e979c
|
Alexander Oppermann
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import eu.etaxonomy.cdm.model.description.TaxonDescription;
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import eu.etaxonomy.cdm.model.location.NamedArea;
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| 33 |
7cef91f1
|
Alexander Oppermann
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import eu.etaxonomy.cdm.model.taxon.Taxon;
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| 34 |
1b9d7954
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Alexander Oppermann
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import eu.etaxonomy.cdm.model.taxon.TaxonNode;
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| 35 |
8ef14383
|
Alexander Oppermann
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import eu.etaxonomy.cdm.vaadin.container.CdmSQLContainer;
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import eu.etaxonomy.cdm.vaadin.util.CdmQueryFactory;
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| 37 |
7cef91f1
|
Alexander Oppermann
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import eu.etaxonomy.cdm.vaadin.util.CdmSpringContextHelper;
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| 38 |
6689ac7b
|
Alexander Oppermann
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import eu.etaxonomy.cdm.vaadin.view.dbstatus.DistributionTableView;
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| 39 |
4c82bcaa
|
Alexander Oppermann
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| 41 |
49a35b7d
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Patrick Plitzner
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public class DistributionTablePresenter {
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| 42 |
1746c51d
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Alexander Oppermann
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| 43 |
785fc5d7
|
Patrick Plitzner
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private final IClassificationService classificationService;
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| 44 |
6689ac7b
|
Alexander Oppermann
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private final IVocabularyService vocabularyService;
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private final IDescriptionService descriptionService;
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| 46 |
1b9d7954
|
Alexander Oppermann
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private final ITaxonNodeService taxonNodeService;
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| 47 |
6689ac7b
|
Alexander Oppermann
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private final ITermService termService;
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private final DistributionTableView view;
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| 49 |
5cf75203
|
Cherian Mathew
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private final ITaxonService taxonService;
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| 50 |
6689ac7b
|
Alexander Oppermann
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| 51 |
49a35b7d
|
Patrick Plitzner
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public DistributionTablePresenter(DistributionTableView dtv){
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| 52 |
6689ac7b
|
Alexander Oppermann
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this.view = dtv;
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view.addListener(this);
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| 54 |
5cf75203
|
Cherian Mathew
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taxonService = CdmSpringContextHelper.getTaxonService();
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classificationService = CdmSpringContextHelper.getClassificationService();
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taxonNodeService = CdmSpringContextHelper.getTaxonNodeService();
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vocabularyService = CdmSpringContextHelper.getVocabularyService();
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descriptionService = CdmSpringContextHelper.getDescriptionService();
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termService = CdmSpringContextHelper.getTermService();
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| 60 |
7cef91f1
|
Alexander Oppermann
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}
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| 61 |
6689ac7b
|
Alexander Oppermann
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| 62 |
b2063ede
|
Patrick Plitzner
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public int updateDistributionField(String distributionAreaString, Object comboValue, Taxon taxon) {
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1a3e979c
|
Alexander Oppermann
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Set<DefinedTermBase> chosenTerms = getChosenTerms();
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| 64 |
b2063ede
|
Patrick Plitzner
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NamedArea namedArea = null;
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for(DefinedTermBase term:chosenTerms){
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if(term.getTitleCache().equalsIgnoreCase(distributionAreaString)){
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namedArea = (NamedArea) term;
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1a3e979c
|
Alexander Oppermann
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break;
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}
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}
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b2063ede
|
Patrick Plitzner
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List<Distribution> distributions = getDistributions(taxon);
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Distribution distribution = null;
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for(Distribution dist : distributions){
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if(dist.getArea().equals(namedArea)){
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distribution = dist;
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| 76 |
1a3e979c
|
Alexander Oppermann
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break;
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}
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}
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b2063ede
|
Patrick Plitzner
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if(distribution==null){
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//create new distribution
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distribution = Distribution.NewInstance(namedArea, (PresenceAbsenceTerm) comboValue);
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Set<TaxonDescription> descriptions = taxon.getDescriptions();
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1323a4df
|
Patrick Plitzner
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if (descriptions != null && !descriptions.isEmpty()) {
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b2063ede
|
Patrick Plitzner
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for (TaxonDescription desc : descriptions) {
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// add to first taxon description
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desc.addElement(distribution);
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getTaxonService().saveOrUpdate(taxon);
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return 0;
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}
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} else {// there are no TaxonDescription yet.
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TaxonDescription taxonDescription = TaxonDescription.NewInstance(taxon);
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taxonDescription.addElement(distribution);
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taxon.addDescription(taxonDescription);
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getTaxonService().saveOrUpdate(taxon);
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return 0;
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}
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}
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else if(comboValue == null){//delete descriptionElementBase
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distribution.getInDescription().removeElement(distribution);
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1a3e979c
|
Alexander Oppermann
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getTaxonService().saveOrUpdate(taxon);
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return 1;
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| 102 |
b2063ede
|
Patrick Plitzner
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}
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else{
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distribution.setStatus((PresenceAbsenceTerm)comboValue);
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getTaxonService().saveOrUpdate(taxon);
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| 106 |
1a3e979c
|
Alexander Oppermann
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return 0;
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}
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| 108 |
b2063ede
|
Patrick Plitzner
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return -1;
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| 109 |
7cef91f1
|
Alexander Oppermann
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}
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| 110 |
6689ac7b
|
Alexander Oppermann
|
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| 111 |
7cef91f1
|
Alexander Oppermann
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public Set<DefinedTermBase> getChosenTerms() {
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VaadinSession session = VaadinSession.getCurrent();
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UUID termUUID = (UUID) session.getAttribute("selectedTerm");
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TermVocabulary<DefinedTermBase> term = vocabularyService.load(termUUID);
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term = CdmBase.deproxy(term, TermVocabulary.class);
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return term.getTerms();
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}
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| 118 |
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| 119 |
1a3e979c
|
Alexander Oppermann
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public List<String> getAbbreviatedTermList() {
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| 120 |
785fc5d7
|
Patrick Plitzner
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Set<NamedArea> terms = getTermSet();
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| 121 |
8ef14383
|
Alexander Oppermann
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List<String> list = new ArrayList<String>();
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for(DefinedTermBase dtb: terms){
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| 123 |
1a3e979c
|
Alexander Oppermann
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for(Representation r : dtb.getRepresentations()){
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list.add(r.getAbbreviatedLabel());
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}
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| 126 |
8ef14383
|
Alexander Oppermann
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}
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return list;
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| 128 |
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}
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| 129 |
5cf75203
|
Cherian Mathew
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| 130 |
785fc5d7
|
Patrick Plitzner
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public Set<NamedArea> getNamedAreas(){
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Set<NamedArea> namedAreas = (Set<NamedArea>) VaadinSession.getCurrent().getAttribute("selectedAreas");
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if(namedAreas.isEmpty()){
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return getTermSet();
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}
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return namedAreas;
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}
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public List<String> getNamedAreasLabels(boolean abbreviated){
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Set<NamedArea> selectedAreas = getNamedAreas();
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List<String> namedAreaTitles = new ArrayList<>();
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for (NamedArea namedArea : selectedAreas) {
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if(abbreviated){
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namedAreaTitles.add(namedArea.getRepresentation(Language.DEFAULT()).getAbbreviatedLabel());
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}
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else{
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namedAreaTitles.add(namedArea.getRepresentation(Language.DEFAULT()).getLabel());
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}
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}
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return namedAreaTitles;
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| 150 |
dd433955
|
Patrick Plitzner
|
}
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| 151 |
1a3e979c
|
Alexander Oppermann
|
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| 152 |
785fc5d7
|
Patrick Plitzner
|
private Set<NamedArea> getTermSet(){
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| 153 |
1a3e979c
|
Alexander Oppermann
|
VaadinSession session = VaadinSession.getCurrent();
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| 154 |
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UUID termUUID = (UUID) session.getAttribute("selectedTerm");
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| 155 |
785fc5d7
|
Patrick Plitzner
|
TermVocabulary<NamedArea> vocabulary = vocabularyService.load(termUUID);
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vocabulary = CdmBase.deproxy(vocabulary, TermVocabulary.class);
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| 157 |
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return vocabulary.getTermsOrderedByLabels(Language.DEFAULT());
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| 158 |
1a3e979c
|
Alexander Oppermann
|
}
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| 159 |
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| 160 |
7cef91f1
|
Alexander Oppermann
|
public HashMap<DescriptionElementBase, Distribution> getDistribution(DefinedTermBase dt, Taxon taxon) {
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| 161 |
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Set<Feature> setFeature = new HashSet<Feature>(Arrays.asList(Feature.DISTRIBUTION()));
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List<DescriptionElementBase> listTaxonDescription = descriptionService.listDescriptionElementsForTaxon(taxon, setFeature, null, null, null, DESCRIPTION_INIT_STRATEGY);
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| 163 |
1b9d7954
|
Alexander Oppermann
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HashMap<DescriptionElementBase, Distribution> map = null;
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| 164 |
7cef91f1
|
Alexander Oppermann
|
for(DescriptionElementBase deb : listTaxonDescription){
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| 165 |
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if(deb instanceof Distribution){
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| 166 |
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Distribution db = (Distribution)deb;
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| 167 |
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String titleCache = dt.getTitleCache();
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| 168 |
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if(db.getArea().getTitleCache().equalsIgnoreCase(titleCache)){
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| 169 |
1b9d7954
|
Alexander Oppermann
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map = new HashMap<DescriptionElementBase, Distribution>();
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| 170 |
7cef91f1
|
Alexander Oppermann
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map.put(deb, db);
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| 171 |
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}
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| 172 |
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}
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| 173 |
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}
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| 174 |
1b9d7954
|
Alexander Oppermann
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return map;
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| 175 |
7cef91f1
|
Alexander Oppermann
|
}
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| 176 |
49a35b7d
|
Patrick Plitzner
|
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| 177 |
1746c51d
|
Alexander Oppermann
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public List<DescriptionElementBase> listDescriptionElementsForTaxon(Taxon taxon, Set<Feature> setFeature){
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| 178 |
1a3e979c
|
Alexander Oppermann
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List<DescriptionElementBase> listDescriptionElementsForTaxon = descriptionService.listDescriptionElementsForTaxon(taxon, setFeature, null, null, null, DESCRIPTION_INIT_STRATEGY);
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| 179 |
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sort(listDescriptionElementsForTaxon);
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| 180 |
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return listDescriptionElementsForTaxon;
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| 181 |
1746c51d
|
Alexander Oppermann
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}
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| 182 |
5cf75203
|
Cherian Mathew
|
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| 183 |
b2063ede
|
Patrick Plitzner
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public List<Distribution> getDistributions(Taxon taxon) {
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| 184 |
1b9d7954
|
Alexander Oppermann
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Set<Feature> setFeature = new HashSet<Feature>(Arrays.asList(Feature.DISTRIBUTION()));
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| 185 |
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List<Distribution> listTaxonDescription = descriptionService.listDescriptionElementsForTaxon(taxon, setFeature, null, null, null, DESCRIPTION_INIT_STRATEGY);
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| 186 |
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return listTaxonDescription;
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| 187 |
5cf75203
|
Cherian Mathew
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| 188 |
1b9d7954
|
Alexander Oppermann
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}
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| 189 |
5cf75203
|
Cherian Mathew
|
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| 190 |
9fde8b52
|
Patrick Plitzner
|
public List<TaxonNode> getAllNodes(){
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| 191 |
1e201891
|
Patrick Plitzner
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TaxonNode taxonNode = getChosenTaxonNode();
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| 192 |
e0787689
|
Patrick Plitzner
|
List<TaxonNode> nodes = new ArrayList<TaxonNode>();
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| 193 |
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if(taxonNode.getTaxon()!=null){
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| 194 |
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nodes.add(taxonNode);
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| 195 |
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}
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| 196 |
427bdbbc
|
Patrick Plitzner
|
nodes.addAll(taxonNodeService.loadChildNodesOfTaxonNode(taxonNode, null, true, null));
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| 197 |
e0787689
|
Patrick Plitzner
|
return nodes;
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| 198 |
1b9d7954
|
Alexander Oppermann
|
}
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| 199 |
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| 200 |
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| 201 |
1e201891
|
Patrick Plitzner
|
public TaxonNode getChosenTaxonNode() {
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| 202 |
1b9d7954
|
Alexander Oppermann
|
VaadinSession session = VaadinSession.getCurrent();
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| 203 |
1e201891
|
Patrick Plitzner
|
UUID taxonNodeUUID = (UUID) session.getAttribute("taxonNodeUUID");
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| 204 |
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TaxonNode classificationNode = taxonNodeService.load(taxonNodeUUID);
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| 205 |
e3f9b0ed
|
Patrick Plitzner
|
return classificationNode;
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| 206 |
1b9d7954
|
Alexander Oppermann
|
}
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| 207 |
5cf75203
|
Cherian Mathew
|
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| 208 |
1e201891
|
Patrick Plitzner
|
public int getSizeOfTaxonNode(){
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| 209 |
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TaxonNode taxonNode = getChosenTaxonNode();
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| 210 |
e3f9b0ed
|
Patrick Plitzner
|
return taxonNodeService.loadChildNodesOfTaxonNode(taxonNode, null, true, null).size();
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| 211 |
1b9d7954
|
Alexander Oppermann
|
}
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| 212 |
5cf75203
|
Cherian Mathew
|
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| 213 |
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| 214 |
8ef14383
|
Alexander Oppermann
|
public CdmSQLContainer getSQLContainer() throws SQLException{
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| 215 |
e0787689
|
Patrick Plitzner
|
List<Integer> nodeIds = new ArrayList<Integer>();
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| 216 |
9fde8b52
|
Patrick Plitzner
|
for (TaxonNode taxonNode : getAllNodes()) {
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| 217 |
e0787689
|
Patrick Plitzner
|
nodeIds.add(taxonNode.getId());
|
| 218 |
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}
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| 219 |
785fc5d7
|
Patrick Plitzner
|
Set<NamedArea> namesAreas = getNamedAreas();
|
| 220 |
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CdmSQLContainer container = new CdmSQLContainer(CdmQueryFactory.generateTaxonDistributionQuery(nodeIds, namesAreas, true));
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| 221 |
8ef14383
|
Alexander Oppermann
|
return container;
|
| 222 |
|
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}
|
| 223 |
5cf75203
|
Cherian Mathew
|
|
| 224 |
7cef91f1
|
Alexander Oppermann
|
protected static final List<String> DESCRIPTION_INIT_STRATEGY = Arrays.asList(new String []{
|
| 225 |
|
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"$",
|
| 226 |
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"elements.*",
|
| 227 |
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"elements.sources.citation.authorship.$",
|
| 228 |
|
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"elements.sources.nameUsedInSource.originalNameString",
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| 229 |
|
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"elements.area.level",
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| 230 |
|
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"elements.modifyingText",
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| 231 |
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"elements.states.*",
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| 232 |
|
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"elements.media",
|
| 233 |
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"elements.multilanguageText",
|
| 234 |
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"multilanguageText",
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| 235 |
1a3e979c
|
Alexander Oppermann
|
"stateData.$",
|
| 236 |
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"annotations",
|
| 237 |
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"markers",
|
| 238 |
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"sources.citation.authorship",
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| 239 |
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"sources.nameUsedInSource",
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| 240 |
|
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"multilanguageText",
|
| 241 |
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"media",
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| 242 |
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"name.$",
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| 243 |
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"name.rank.representations",
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| 244 |
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"name.status.type.representations",
|
| 245 |
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"taxon2.name"
|
| 246 |
7cef91f1
|
Alexander Oppermann
|
});
|
| 247 |
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| 248 |
1746c51d
|
Alexander Oppermann
|
public IClassificationService getClassificationService() {
|
| 249 |
|
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return classificationService;
|
| 250 |
|
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}
|
| 251 |
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| 252 |
|
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public IVocabularyService getVocabularyService() {
|
| 253 |
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return vocabularyService;
|
| 254 |
|
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}
|
| 255 |
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| 256 |
|
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public IDescriptionService getDescriptionService() {
|
| 257 |
|
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return descriptionService;
|
| 258 |
|
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}
|
| 259 |
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| 260 |
|
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public ITaxonNodeService getTaxonNodeService() {
|
| 261 |
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return taxonNodeService;
|
| 262 |
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}
|
| 263 |
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| 264 |
|
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public ITermService getTermService() {
|
| 265 |
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return termService;
|
| 266 |
|
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}
|
| 267 |
|
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public ITaxonService getTaxonService() {
|
| 268 |
|
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return taxonService;
|
| 269 |
|
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}
|
| 270 |
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|
| 271 |
1a3e979c
|
Alexander Oppermann
|
/**Helper Methods*/
|
| 272 |
|
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|
| 273 |
|
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private void sort(List<DescriptionElementBase> list){
|
| 274 |
|
|
Collections.sort(list, new Comparator<DescriptionElementBase>() {
|
| 275 |
|
|
|
| 276 |
|
|
@Override
|
| 277 |
|
|
public int compare(DescriptionElementBase o1, DescriptionElementBase o2) {
|
| 278 |
|
|
String feature1 = o1.getFeature().getTitleCache();
|
| 279 |
|
|
String feature2 = o2.getFeature().getTitleCache();
|
| 280 |
|
|
if(feature1 !=null && feature2 !=null){
|
| 281 |
|
|
return feature1.compareTo(feature2);
|
| 282 |
|
|
}else{
|
| 283 |
|
|
return 0;
|
| 284 |
|
|
|
| 285 |
|
|
}
|
| 286 |
|
|
}
|
| 287 |
|
|
});
|
| 288 |
|
|
}
|
| 289 |
4c82bcaa
|
Alexander Oppermann
|
}
|