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/**
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* Copyright (C) 2007 EDIT
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* European Distributed Institute of Taxonomy
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* http://www.e-taxonomy.eu
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*
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* The contents of this file are subject to the Mozilla Public License Version 1.1
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* See LICENSE.TXT at the top of this package for the full license terms.
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*/
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package eu.etaxonomy.cdm.model.term;
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import java.net.URI;
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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.SortedSet;
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import java.util.TreeSet;
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import java.util.UUID;
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import javax.persistence.Entity;
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import javax.persistence.FetchType;
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import javax.persistence.OneToMany;
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import javax.xml.bind.annotation.XmlAccessType;
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import javax.xml.bind.annotation.XmlAccessorType;
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import javax.xml.bind.annotation.XmlElement;
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import javax.xml.bind.annotation.XmlElementWrapper;
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import javax.xml.bind.annotation.XmlIDREF;
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import javax.xml.bind.annotation.XmlRootElement;
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import javax.xml.bind.annotation.XmlSchemaType;
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import javax.xml.bind.annotation.XmlType;
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import org.apache.log4j.Logger;
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import org.hibernate.annotations.Cascade;
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import org.hibernate.annotations.CascadeType;
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import org.hibernate.annotations.Type;
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import org.hibernate.envers.Audited;
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import org.hibernate.search.annotations.Analyze;
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import org.hibernate.search.annotations.Field;
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import org.hibernate.search.annotations.IndexedEmbedded;
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import eu.etaxonomy.cdm.common.CdmUtils;
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import eu.etaxonomy.cdm.model.common.ExternallyManaged;
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import eu.etaxonomy.cdm.model.common.Language;
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/**
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* A single enumeration must only contain DefinedTerm instances of one kind
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* (this means a subclass of DefinedTerm).
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* @author m.doering
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* @since 08-Nov-2007 13:06:23
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*/
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@XmlAccessorType(XmlAccessType.FIELD)
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@XmlType(name = "TermVocabulary", propOrder = {
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"termSourceUri",
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"terms",
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"externallyManaged"
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})
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@XmlRootElement(name = "TermVocabulary")
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@Entity
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//@Indexed disabled to reduce clutter in indexes, since this type is not used by any search
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//@Indexed(index = "eu.etaxonomy.cdm.model.term.TermVocabulary")
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@Audited
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public class TermVocabulary<T extends DefinedTermBase>
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extends TermCollection<T,TermNode> {
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private static final long serialVersionUID = 1925052321596648672L;
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private static final Logger logger = Logger.getLogger(TermVocabulary.class);
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//The vocabulary source (e.g. ontology) defining the terms to be loaded when a database
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//is created for the first time.
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// Software can go and grap these terms incl. labels and description.
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// UUID needed? Further vocs can be setup through our own ontology.
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@XmlElement(name = "TermSourceURI")
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@Type(type="uriUserType")
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@Field(analyze = Analyze.NO)
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private URI termSourceUri;
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@XmlElementWrapper(name = "Terms")
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@XmlElement(name = "Term")
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@XmlIDREF
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@XmlSchemaType(name = "IDREF")
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@OneToMany(mappedBy="vocabulary", fetch=FetchType.LAZY, targetEntity = DefinedTermBase.class)
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@Type(type="DefinedTermBase")
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@Cascade({CascadeType.SAVE_UPDATE, CascadeType.MERGE})
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@IndexedEmbedded(depth = 2)
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protected Set<T> terms = newTermSet();
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private ExternallyManaged externallyManaged;
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// ********************************* FACTORY METHODS *****************************************/
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public static TermVocabulary NewInstance(TermType type){
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return new TermVocabulary(type);
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}
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public static <T extends DefinedTermBase<T>> TermVocabulary<T> NewInstance(TermType type, Class<T> clazz){
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return new TermVocabulary<T>(type);
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}
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public static TermVocabulary NewInstance(TermType type, String description, String label, String abbrev, URI termSourceUri){
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return new TermVocabulary(type, description, label, abbrev, termSourceUri);
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}
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// ************************* CONSTRUCTOR *************************************************
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//for hibernate use only
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@Deprecated
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protected TermVocabulary() {
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super(TermType.Unknown);
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}
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protected TermVocabulary(TermType type) {
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super(type);
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}
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protected TermVocabulary(TermType type, String term, String label, String labelAbbrev, URI termSourceUri) {
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super(type, term, label, labelAbbrev);
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setTermSourceUri(termSourceUri);
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}
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protected Set<T> newTermSet(){
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return new HashSet<>();
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}
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// ******************* METHODS *************************************************/
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public T findTermByUuid(UUID uuid){
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for(T t : terms) {
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if(t.getUuid().equals(uuid)) {
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return t;
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}
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}
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return null;
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}
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public Set<T> getTerms() {
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return terms;
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}
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public void addTerm(T term) {
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checkTermType(term);
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term.setVocabulary(this);
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this.terms.add(term);
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}
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public void removeTerm(T term) {
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this.terms.remove(term);
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term.setVocabulary(null);
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}
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public URI getTermSourceUri() {
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return termSourceUri;
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}
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public void setTermSourceUri(URI vocabularyUri) {
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this.termSourceUri = vocabularyUri;
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}
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/**
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* Returns the first term found having the defined idInVocabulary.
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* If number of terms with given idInVoc > 1 the result is not deterministic.
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* @param idInVoc
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* @return the term with the given idInVoc
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*/
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public T getTermByIdInvocabulary(String idInVoc) {
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for (T term : getTerms() ){
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if (CdmUtils.nullSafeEqual(idInVoc, term.getIdInVocabulary())){
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return term;
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}
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}
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return null;
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}
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public int size(){
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return terms.size();
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}
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/**
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* Returns all terms of this vocabulary sorted by their representation defined by the given language.
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* If such an representation does not exist, the representation of the default language is testing instead for ordering.
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* @param language
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* @return
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*/
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public SortedSet<T> getTermsOrderedByLabels(Language language){
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TermLanguageComparator<T> comp = new TermLanguageComparator<>();
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comp.setCompareLanguage(language);
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SortedSet<T> result = new TreeSet<>(comp);
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result.addAll(getTerms());
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return result;
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}
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public TermVocabulary<T> readCsvLine(List<String> csvLine) {
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return readCsvLine(csvLine, Language.CSV_LANGUAGE());
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}
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public TermVocabulary<T> readCsvLine(List<String> csvLine, Language lang) {
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this.setUuid(UUID.fromString(csvLine.get(0)));
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String uriStr = CdmUtils.Ne(csvLine.get(1));
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this.setUri(uriStr == null? null: URI.create(uriStr));
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String label = csvLine.get(2).trim();
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String description = csvLine.get(3);
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//see http://dev.e-taxonomy.eu/trac/ticket/3550
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this.addRepresentation(Representation.NewInstance(description, label, null, lang) );
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TermType termType = TermType.getByKey(csvLine.get(4));
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if (termType == null){
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throw new IllegalArgumentException("TermType can not be mapped: " + csvLine.get(4));
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}
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this.setTermType(termType);
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return this;
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}
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/**
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* Throws {@link IllegalArgumentException} if the given
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* term has not the same term type as this term or if term type is null.
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* @param term
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*/
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private void checkTermType(IHasTermType term) {
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IHasTermType.checkTermTypes(term, this);
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}
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//*********************** CLONE ********************************************************/
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/**
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* Clones <i>this</i> TermVocabulary. This is a shortcut that enables to create
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* a new instance that differs only slightly from <i>this</i> TermVocabulary.
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* The terms of the original vocabulary are cloned
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*
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* @see eu.etaxonomy.cdm.model.term.TermBase#clone()
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* @see java.lang.Object#clone()
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*/
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@Override
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public Object clone() {
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TermVocabulary<T> result;
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try {
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result = (TermVocabulary<T>) super.clone();
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}catch (CloneNotSupportedException e) {
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logger.warn("Object does not implement cloneable");
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e.printStackTrace();
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return null;
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}
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result.terms = new HashSet<T>();
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for (T term: this.terms){
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result.addTerm((T)term.clone());
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}
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return result;
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}
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}
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