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/**
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* Copyright (C) 2008 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.io.jaxb;
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import java.util.ArrayList;
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import java.util.Collection;
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import java.util.List;
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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.XmlElements;
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import javax.xml.bind.annotation.XmlRootElement;
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import javax.xml.bind.annotation.XmlType;
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import org.springframework.security.core.GrantedAuthority;
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import eu.etaxonomy.cdm.io.common.IExportData;
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import eu.etaxonomy.cdm.model.agent.AgentBase;
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import eu.etaxonomy.cdm.model.agent.Institution;
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import eu.etaxonomy.cdm.model.agent.Person;
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import eu.etaxonomy.cdm.model.agent.Team;
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import eu.etaxonomy.cdm.model.common.AnnotationType;
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import eu.etaxonomy.cdm.model.common.EventBase;
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import eu.etaxonomy.cdm.model.common.ExtensionType;
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import eu.etaxonomy.cdm.model.common.GrantedAuthorityImpl;
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import eu.etaxonomy.cdm.model.common.Group;
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import eu.etaxonomy.cdm.model.common.Language;
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import eu.etaxonomy.cdm.model.common.LanguageString;
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import eu.etaxonomy.cdm.model.common.MarkerType;
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import eu.etaxonomy.cdm.model.common.User;
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import eu.etaxonomy.cdm.model.description.Feature;
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import eu.etaxonomy.cdm.model.description.MeasurementUnit;
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import eu.etaxonomy.cdm.model.description.MediaKey;
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import eu.etaxonomy.cdm.model.description.PolytomousKey;
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import eu.etaxonomy.cdm.model.description.PresenceAbsenceTerm;
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import eu.etaxonomy.cdm.model.description.State;
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import eu.etaxonomy.cdm.model.description.StatisticalMeasure;
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import eu.etaxonomy.cdm.model.description.TextFormat;
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import eu.etaxonomy.cdm.model.location.Country;
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import eu.etaxonomy.cdm.model.location.NamedArea;
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import eu.etaxonomy.cdm.model.location.NamedAreaLevel;
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import eu.etaxonomy.cdm.model.location.NamedAreaType;
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import eu.etaxonomy.cdm.model.location.ReferenceSystem;
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import eu.etaxonomy.cdm.model.media.Media;
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import eu.etaxonomy.cdm.model.media.RightsType;
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import eu.etaxonomy.cdm.model.molecular.DnaSample;
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import eu.etaxonomy.cdm.model.molecular.PhylogeneticTree;
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import eu.etaxonomy.cdm.model.name.HomotypicalGroup;
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import eu.etaxonomy.cdm.model.name.HybridRelationshipType;
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import eu.etaxonomy.cdm.model.name.NameRelationshipType;
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import eu.etaxonomy.cdm.model.name.NameTypeDesignation;
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import eu.etaxonomy.cdm.model.name.NameTypeDesignationStatus;
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import eu.etaxonomy.cdm.model.name.NomenclaturalCode;
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import eu.etaxonomy.cdm.model.name.NomenclaturalStatusType;
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import eu.etaxonomy.cdm.model.name.Rank;
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import eu.etaxonomy.cdm.model.name.SpecimenTypeDesignation;
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import eu.etaxonomy.cdm.model.name.SpecimenTypeDesignationStatus;
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import eu.etaxonomy.cdm.model.name.TaxonName;
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import eu.etaxonomy.cdm.model.name.TypeDesignationBase;
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import eu.etaxonomy.cdm.model.occurrence.DerivationEvent;
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import eu.etaxonomy.cdm.model.occurrence.DerivationEventType;
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import eu.etaxonomy.cdm.model.occurrence.DerivedUnit;
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import eu.etaxonomy.cdm.model.occurrence.FieldUnit;
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import eu.etaxonomy.cdm.model.occurrence.GatheringEvent;
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import eu.etaxonomy.cdm.model.occurrence.PreservationMethod;
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import eu.etaxonomy.cdm.model.occurrence.SpecimenOrObservationBase;
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import eu.etaxonomy.cdm.model.reference.Reference;
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import eu.etaxonomy.cdm.model.taxon.Classification;
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import eu.etaxonomy.cdm.model.taxon.Synonym;
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import eu.etaxonomy.cdm.model.taxon.SynonymType;
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import eu.etaxonomy.cdm.model.taxon.Taxon;
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import eu.etaxonomy.cdm.model.taxon.TaxonBase;
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import eu.etaxonomy.cdm.model.taxon.TaxonNode;
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import eu.etaxonomy.cdm.model.taxon.TaxonRelationshipType;
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import eu.etaxonomy.cdm.model.term.DefinedTerm;
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import eu.etaxonomy.cdm.model.term.DefinedTermBase;
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import eu.etaxonomy.cdm.model.term.FeatureTree;
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import eu.etaxonomy.cdm.model.term.OrderedTermVocabulary;
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import eu.etaxonomy.cdm.model.term.TermVocabulary;
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/**
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* @author a.babadshanjan
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*/
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@XmlAccessorType(XmlAccessType.FIELD)
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@XmlType(name = "DataSet", propOrder = {
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"terms",
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"termVocabularies",
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"agents",
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"collections",
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"occurrences",
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"eventBases",
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"references",
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"typeDesignations",
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"featureTrees",
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"polytomousKeys",
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"taxonNodes",
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"classifications",
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"taxonomicNames",
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"homotypicalGroups",
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"taxonBases",
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"media",
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"users",
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"groups",
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"grantedAuthorities",
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"languageStrings"
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})
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@XmlRootElement(name = "DataSet")
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public class DataSet implements IExportData {
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private static final long serialVersionUID = -657623965517589622L;
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@XmlElementWrapper(name = "Terms")
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@XmlElements({
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@XmlElement(name = "AnnotationType", namespace = "http://etaxonomy.eu/cdm/model/common/1.0", type = AnnotationType.class),
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@XmlElement(name = "Continent", namespace = "http://etaxonomy.eu/cdm/model/location/1.0", type = NamedArea.class),
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@XmlElement(name = "DerivationEventType", namespace = "http://etaxonomy.eu/cdm/model/occurrence/1.0", type = DerivationEventType.class),
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@XmlElement(name = "DeterminationModifier", namespace = "http://etaxonomy.eu/cdm/model/occurrence/1.0", type = DefinedTerm.class),
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@XmlElement(name = "ExtensionType", namespace = "http://etaxonomy.eu/cdm/model/common/1.0", type = ExtensionType.class),
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@XmlElement(name = "Feature", namespace = "http://etaxonomy.eu/cdm/model/description/1.0", type = Feature.class),
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@XmlElement(name = "HybridRelationshipType", namespace = "http://etaxonomy.eu/cdm/model/name/1.0", type = HybridRelationshipType.class),
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@XmlElement(name = "InstitutionType", namespace = "http://etaxonomy.eu/cdm/model/agent/1.0", type = DefinedTerm.class),
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@XmlElement(name = "Language", namespace = "http://etaxonomy.eu/cdm/model/common/1.0", type = Language.class),
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@XmlElement(name = "MarkerType", namespace = "http://etaxonomy.eu/cdm/model/common/1.0", type = MarkerType.class),
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@XmlElement(name = "MeasurementUnit", namespace = "http://etaxonomy.eu/cdm/model/description/1.0", type = MeasurementUnit.class),
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@XmlElement(name = "Modifier", namespace = "http://etaxonomy.eu/cdm/model/description/1.0", type = DefinedTerm.class),
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@XmlElement(name = "NamedArea", namespace = "http://etaxonomy.eu/cdm/model/location/1.0", type = NamedArea.class),
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@XmlElement(name = "NamedAreaLevel", namespace = "http://etaxonomy.eu/cdm/model/location/1.0", type = NamedAreaLevel.class),
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@XmlElement(name = "NamedAreaType", namespace = "http://etaxonomy.eu/cdm/model/location/1.0", type = NamedAreaType.class),
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@XmlElement(name = "NameRelationshipType", namespace = "http://etaxonomy.eu/cdm/model/name/1.0", type = NameRelationshipType.class),
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@XmlElement(name = "NameTypeDesignationStatus", namespace = "http://etaxonomy.eu/cdm/model/name/1.0", type = NameTypeDesignationStatus.class),
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@XmlElement(name = "NomenclaturalCode", namespace = "http://etaxonomy.eu/cdm/model/name/1.0", type = NomenclaturalCode.class),
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@XmlElement(name = "NomenclaturalStatusType", namespace = "http://etaxonomy.eu/cdm/model/name/1.0", type = NomenclaturalStatusType.class),
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@XmlElement(name = "PresenceAbsenceTerm", namespace = "http://etaxonomy.eu/cdm/model/description/1.0", type = PresenceAbsenceTerm.class),
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@XmlElement(name = "PreservationMethod", namespace = "http://etaxonomy.eu/cdm/model/occurrence/1.0", type = PreservationMethod.class),
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@XmlElement(name = "Rank", namespace = "http://etaxonomy.eu/cdm/model/name/1.0", type = Rank.class),
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@XmlElement(name = "ReferenceSystem", namespace = "http://etaxonomy.eu/cdm/model/location/1.0", type = ReferenceSystem.class),
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@XmlElement(name = "RightsType", namespace = "http://etaxonomy.eu/cdm/model/media/1.0", type = RightsType.class),
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@XmlElement(name = "Scope", namespace = "http://etaxonomy.eu/cdm/model/description/1.0", type = DefinedTerm.class),
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@XmlElement(name = "Sex", namespace = "http://etaxonomy.eu/cdm/model/description/1.0", type = DefinedTerm.class),
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@XmlElement(name = "SpecimenTypeDesignationStatus", namespace = "http://etaxonomy.eu/cdm/model/name/1.0", type = SpecimenTypeDesignationStatus.class),
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@XmlElement(name = "Stage", namespace = "http://etaxonomy.eu/cdm/model/description/1.0", type = DefinedTerm.class),
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@XmlElement(name = "State", namespace = "http://etaxonomy.eu/cdm/model/description/1.0", type = State.class),
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@XmlElement(name = "StatisticalMeasure", namespace = "http://etaxonomy.eu/cdm/model/description/1.0", type = StatisticalMeasure.class),
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@XmlElement(name = "SynonymType", namespace = "http://etaxonomy.eu/cdm/model/taxon/1.0", type = SynonymType.class),
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@XmlElement(name = "TaxonRelationshipType", namespace = "http://etaxonomy.eu/cdm/model/taxon/1.0", type = TaxonRelationshipType.class),
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// @XmlElement(name = "TdwgArea", namespace = "http://etaxonomy.eu/cdm/model/location/1.0", type = TdwgArea.class),
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@XmlElement(name = "TextFormat", namespace = "http://etaxonomy.eu/cdm/model/description/1.0", type = TextFormat.class),
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@XmlElement(name = "Country", namespace = "http://etaxonomy.eu/cdm/model/location/1.0", type = Country.class)
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})
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protected List<DefinedTermBase> terms = new ArrayList<>();
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@XmlElementWrapper(name = "TermVocabularies")
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@XmlElements({
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@XmlElement(name = "TermVocabulary", namespace = "http://etaxonomy.eu/cdm/model/common/1.0", type = TermVocabulary.class),
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@XmlElement(name = "OrderedTermVocabulary", namespace = "http://etaxonomy.eu/cdm/model/common/1.0", type = OrderedTermVocabulary.class)
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})
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protected List<TermVocabulary<DefinedTermBase>> termVocabularies = new ArrayList<>();
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@XmlElementWrapper(name = "Agents")
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@XmlElements({
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@XmlElement(name = "Team", namespace = "http://etaxonomy.eu/cdm/model/agent/1.0", type = Team.class),
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@XmlElement(name = "Institution", namespace = "http://etaxonomy.eu/cdm/model/agent/1.0", type = Institution.class),
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@XmlElement(name = "Person", namespace = "http://etaxonomy.eu/cdm/model/agent/1.0", type = Person.class)
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})
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protected List<AgentBase> agents = new ArrayList<>();
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@XmlElementWrapper(name = "Collections")
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@XmlElement(name = "Collection", namespace = "http://etaxonomy.eu/cdm/model/occurrence/1.0")
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protected List<eu.etaxonomy.cdm.model.occurrence.Collection> collections = new ArrayList<>();
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@XmlElementWrapper(name = "FeatureTrees")
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@XmlElements({
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@XmlElement(name = "FeatureTree", namespace = "http://etaxonomy.eu/cdm/model/description/1.0", type = FeatureTree.class)
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})
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protected List<FeatureTree> featureTrees = new ArrayList<>();
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@XmlElementWrapper(name = "PolytomousKeys")
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@XmlElements({
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@XmlElement(name = "PolytomousKey", namespace = "http://etaxonomy.eu/cdm/model/description/1.0", type = PolytomousKey.class)
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})
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protected List<PolytomousKey> polytomousKeys = new ArrayList<>();
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@XmlElementWrapper(name = "Classifications")
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@XmlElement(name = "Classification", namespace = "http://etaxonomy.eu/cdm/model/taxon/1.0")
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protected List<Classification> classifications = new ArrayList<>();
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@XmlElementWrapper(name = "TaxonNodes")
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@XmlElement(name = "TaxonNodes", namespace = "http://etaxonomy.eu/cdm/model/taxon/1.0")
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protected List<TaxonNode> taxonNodes = new ArrayList<>();
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protected List<LanguageString> languageStrings =new ArrayList<>();
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@XmlElementWrapper(name = "Occurrences")
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@XmlElements({
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@XmlElement(name = "DerivedUnit", namespace = "http://etaxonomy.eu/cdm/model/occurrence/1.0", type = DerivedUnit.class),
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@XmlElement(name = "DnaSample", namespace = "http://etaxonomy.eu/cdm/model/occurrence/1.0", type = DnaSample.class),
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@XmlElement(name = "FieldUnit", namespace = "http://etaxonomy.eu/cdm/model/occurrence/1.0", type = FieldUnit.class)
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})
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protected List<SpecimenOrObservationBase> occurrences = new ArrayList<>();
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@XmlElementWrapper(name = "EventBases")
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@XmlElements({
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@XmlElement(name = "DerivationEvent", namespace = "http://etaxonomy.eu/cdm/model/occurrence/1.0", type = DerivationEvent.class),
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@XmlElement(name = "GatheringEvent", namespace = "http://etaxonomy.eu/cdm/model/occurrence/1.0", type = GatheringEvent.class)
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})
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protected List<EventBase> eventBases = new ArrayList<>();
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@XmlElementWrapper(name = "References")
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@XmlElements({
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@XmlElement(name = "Reference", namespace = "http://etaxonomy.eu/cdm/model/reference/1.0", type = Reference.class)
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})
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protected List<Reference> references = new ArrayList<>();
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@XmlElementWrapper(name = "TypeDesignations")
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@XmlElements({
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@XmlElement(name = "NameTypeDesignation", namespace = "http://etaxonomy.eu/cdm/model/name/1.0", type = NameTypeDesignation.class),
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@XmlElement(name = "SpecimenTypeDesignation", namespace = "http://etaxonomy.eu/cdm/model/name/1.0", type = SpecimenTypeDesignation.class)
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})
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protected List<TypeDesignationBase<?>> typeDesignations = new ArrayList<>();
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@XmlElementWrapper(name = "TaxonomicNames")
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@XmlElements({
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@XmlElement(name = "TaxonName", namespace = "http://etaxonomy.eu/cdm/model/name/1.0", type = TaxonName.class),
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})
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protected List<TaxonName> taxonomicNames = new ArrayList<>();
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@XmlElementWrapper(name = "TaxonBases")
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@XmlElements({
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@XmlElement(name = "Taxon", namespace = "http://etaxonomy.eu/cdm/model/taxon/1.0", type = Taxon.class),
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@XmlElement(name = "Synonym", namespace = "http://etaxonomy.eu/cdm/model/taxon/1.0", type = Synonym.class)
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})
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protected List<TaxonBase<?>> taxonBases = new ArrayList<>();
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@XmlElementWrapper(name = "Media")
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@XmlElements({
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@XmlElement(name = "Media", namespace = "http://etaxonomy.eu/cdm/model/media/1.0", type = Media.class),
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@XmlElement(name = "MediaKey", namespace = "http://etaxonomy.eu/cdm/model/description/1.0", type = MediaKey.class),
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@XmlElement(name = "PhylogeneticTree", namespace = "http://etaxonomy.eu/cdm/model/molecular/1.0", type = PhylogeneticTree.class)
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})
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protected List<Media> media = new ArrayList<>();
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@XmlElementWrapper(name = "HomotypicalGroups")
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@XmlElement(name = "HomotypicalGroup", namespace = "http://etaxonomy.eu/cdm/model/name/1.0")
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protected List<HomotypicalGroup> homotypicalGroups = new ArrayList<>();
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@XmlElementWrapper(name = "Users")
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@XmlElement(name = "User", namespace = "http://etaxonomy.eu/cdm/model/common/1.0")
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protected List<User> users = new ArrayList<>();
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@XmlElementWrapper(name = "Groups")
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@XmlElement(name = "Group", namespace = "http://etaxonomy.eu/cdm/model/common/1.0")
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protected List<Group> groups = new ArrayList<>();
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268
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269
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@XmlElementWrapper(name = "GrantedAuthorities")
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270
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@XmlElement(name = "GrantedAuthority", namespace = "http://etaxonomy.eu/cdm/model/common/1.0", type = GrantedAuthorityImpl.class)
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271
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protected List<GrantedAuthority> grantedAuthorities = new ArrayList<GrantedAuthority>();
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272
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273
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public List<AgentBase> getAgents() {
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return agents;
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}
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276
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public void setAgents(List<AgentBase> value) {
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277
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this.agents = value;
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278
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}
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279
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280
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public List<eu.etaxonomy.cdm.model.occurrence.Collection> getCollections() {
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281
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return collections;
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282
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}
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283
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public void setCollections(List<eu.etaxonomy.cdm.model.occurrence.Collection> value) {
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284
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this.collections = value;
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285
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}
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286
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287
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public List<DefinedTermBase> getTerms() {
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288
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return terms;
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289
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}
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290
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public void setTerms(List<DefinedTermBase> value) {
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291
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this.terms = value;
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292
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}
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293
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294
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public List<TermVocabulary<DefinedTermBase>> getTermVocabularies() {
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295
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return termVocabularies;
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296
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}
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297
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public void setTermVocabularies(List<TermVocabulary<DefinedTermBase>> value) {
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298
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this.termVocabularies = value;
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299
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}
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300
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301
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public List<TaxonName> getTaxonomicNames() {
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302
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return taxonomicNames;
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303
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}
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304
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public void setTaxonomicNames(List<TaxonName> value) {
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305
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this.taxonomicNames = value;
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306
|
}
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307
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|
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308
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public List<EventBase> getEventBases() {
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309
|
return eventBases;
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|
310
|
}
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|
311
|
public void setEventBases(List<EventBase> value) {
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312
|
this.eventBases = value;
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313
|
}
|
|
314
|
|
|
315
|
public List<SpecimenOrObservationBase> getOccurrences() {
|
|
316
|
return occurrences;
|
|
317
|
}
|
|
318
|
public void setOccurrences(List<SpecimenOrObservationBase> value) {
|
|
319
|
this.occurrences = value;
|
|
320
|
}
|
|
321
|
|
|
322
|
public List<LanguageString> getLanguageStrings() {
|
|
323
|
return languageStrings;
|
|
324
|
}
|
|
325
|
|
|
326
|
public void setLanguageStrings(List<LanguageString> value) {
|
|
327
|
this.languageStrings = value;
|
|
328
|
}
|
|
329
|
|
|
330
|
public List<Reference> getReferences() {
|
|
331
|
return references;
|
|
332
|
}
|
|
333
|
public void setReferences(List<Reference> value) {
|
|
334
|
this.references = value;
|
|
335
|
}
|
|
336
|
|
|
337
|
public List<FeatureTree> getFeatureTrees() {
|
|
338
|
return featureTrees;
|
|
339
|
}
|
|
340
|
|
|
341
|
public List<PolytomousKey> getPolytomousKeys() {
|
|
342
|
return polytomousKeys;
|
|
343
|
}
|
|
344
|
|
|
345
|
public void setClassifications(List<Classification> value) {
|
|
346
|
this.classifications = value;
|
|
347
|
}
|
|
348
|
public List<Classification> getClassifications() {
|
|
349
|
return classifications;
|
|
350
|
}
|
|
351
|
|
|
352
|
public void setTaxonNodes(List<TaxonNode> value) {
|
|
353
|
this.taxonNodes = value;
|
|
354
|
}
|
|
355
|
public List<TaxonNode> getTaxonNodes() {
|
|
356
|
return taxonNodes;
|
|
357
|
}
|
|
358
|
|
|
359
|
public void setFeatureTrees(List<FeatureTree> value) {
|
|
360
|
this.featureTrees = value;
|
|
361
|
}
|
|
362
|
|
|
363
|
public void setPolytomousKeys(List<PolytomousKey> value) {
|
|
364
|
this.polytomousKeys = value;
|
|
365
|
}
|
|
366
|
|
|
367
|
public void addTaxonBases(Collection<TaxonBase<?>> value) {
|
|
368
|
this.taxonBases.addAll(value);
|
|
369
|
}
|
|
370
|
public List<TaxonBase<?>> getTaxonBases() {
|
|
371
|
return taxonBases;
|
|
372
|
}
|
|
373
|
public void setTaxonBases(List<TaxonBase<?>> value) {
|
|
374
|
this.taxonBases = value;
|
|
375
|
}
|
|
376
|
public void addTaxonBase(TaxonBase value) {
|
|
377
|
this.taxonBases.add(value);
|
|
378
|
}
|
|
379
|
|
|
380
|
public <T extends Media> void addMedia(Collection<T> value) {
|
|
381
|
for (T medium: value) {
|
|
382
|
this.media.add(medium);
|
|
383
|
}
|
|
384
|
}
|
|
385
|
|
|
386
|
public List<Media> getMedia() {
|
|
387
|
return media;
|
|
388
|
}
|
|
389
|
|
|
390
|
public void setMedia(List<Media> value) {
|
|
391
|
this.media = new ArrayList<>();
|
|
392
|
media.addAll(value);
|
|
393
|
}
|
|
394
|
|
|
395
|
public List<HomotypicalGroup> getHomotypicalGroups() {
|
|
396
|
return homotypicalGroups;
|
|
397
|
}
|
|
398
|
|
|
399
|
public void setHomotypicalGroups(List<HomotypicalGroup> value) {
|
|
400
|
this.homotypicalGroups = value;
|
|
401
|
}
|
|
402
|
|
|
403
|
public List<TypeDesignationBase<?>> getTypeDesignations() {
|
|
404
|
return typeDesignations;
|
|
405
|
}
|
|
406
|
|
|
407
|
public void addTypeDesignations(List<TypeDesignationBase<?>> typeDesignations) {
|
|
408
|
this.typeDesignations.addAll(typeDesignations);
|
|
409
|
}
|
|
410
|
|
|
411
|
public List<User> getUsers() {
|
|
412
|
return users;
|
|
413
|
}
|
|
414
|
public void setUsers(List<User> users) {
|
|
415
|
this.users = users;
|
|
416
|
}
|
|
417
|
public void addUser(User deproxy) {
|
|
418
|
this.users.add(deproxy);
|
|
419
|
}
|
|
420
|
|
|
421
|
public List<Group> getGroups() {
|
|
422
|
return groups;
|
|
423
|
}
|
|
424
|
public void setGroups(List<Group> groups) {
|
|
425
|
this.groups = groups;
|
|
426
|
}
|
|
427
|
|
|
428
|
public List<GrantedAuthority> getGrantedAuthorities() {
|
|
429
|
return grantedAuthorities;
|
|
430
|
}
|
|
431
|
public void setGrantedAuthorities(List<GrantedAuthority> grantedAuthorities) {
|
|
432
|
this.grantedAuthorities = grantedAuthorities;
|
|
433
|
}
|
|
434
|
|
|
435
|
}
|