/**
* Copyright (C) 2007 EDIT
-* European Distributed Institute of Taxonomy
+* European Distributed Institute of Taxonomy
* http://www.e-taxonomy.eu
-*
+*
* The contents of this file are subject to the Mozilla Public License Version 1.1
* See LICENSE.TXT at the top of this package for the full license terms.
*/
package eu.etaxonomy.cdm.model.name;
+import java.beans.PropertyChangeEvent;
+import java.beans.PropertyChangeListener;
+import java.util.ArrayList;
+import java.util.Collections;
import java.util.HashSet;
+import java.util.List;
+import java.util.Map;
import java.util.Set;
import javax.persistence.Entity;
import javax.persistence.ManyToOne;
import javax.persistence.OneToMany;
import javax.persistence.Transient;
+import javax.validation.constraints.NotNull;
+import javax.validation.constraints.Pattern;
+import javax.validation.constraints.Size;
import javax.xml.bind.annotation.XmlAccessType;
import javax.xml.bind.annotation.XmlAccessorType;
import javax.xml.bind.annotation.XmlElement;
import org.hibernate.annotations.CascadeType;
import org.hibernate.annotations.Target;
import org.hibernate.envers.Audited;
+import org.hibernate.search.annotations.Analyze;
import org.hibernate.search.annotations.Field;
import org.hibernate.search.annotations.Fields;
-import org.hibernate.search.annotations.Index;
import org.hibernate.search.annotations.Indexed;
+import org.hibernate.search.annotations.IndexedEmbedded;
+import org.hibernate.validator.constraints.NotEmpty;
import org.springframework.beans.factory.annotation.Configurable;
+import eu.etaxonomy.cdm.common.CdmUtils;
import eu.etaxonomy.cdm.model.agent.INomenclaturalAuthor;
import eu.etaxonomy.cdm.model.agent.TeamOrPersonBase;
+import eu.etaxonomy.cdm.model.common.CdmBase;
import eu.etaxonomy.cdm.model.common.RelationshipBase;
import eu.etaxonomy.cdm.model.reference.INomenclaturalReference;
-import eu.etaxonomy.cdm.model.reference.ReferenceBase;
+import eu.etaxonomy.cdm.model.reference.Reference;
+import eu.etaxonomy.cdm.strategy.cache.name.CacheUpdate;
import eu.etaxonomy.cdm.strategy.cache.name.INonViralNameCacheStrategy;
import eu.etaxonomy.cdm.strategy.cache.name.NonViralNameDefaultCacheStrategy;
import eu.etaxonomy.cdm.strategy.match.Match;
-import eu.etaxonomy.cdm.strategy.match.MatchMode;
import eu.etaxonomy.cdm.strategy.match.Match.ReplaceMode;
+import eu.etaxonomy.cdm.strategy.match.MatchMode;
import eu.etaxonomy.cdm.strategy.merge.Merge;
import eu.etaxonomy.cdm.strategy.merge.MergeMode;
+import eu.etaxonomy.cdm.validation.Level2;
+import eu.etaxonomy.cdm.validation.Level3;
+import eu.etaxonomy.cdm.validation.annotation.CorrectEpithetsForRank;
+import eu.etaxonomy.cdm.validation.annotation.MustHaveAuthority;
+import eu.etaxonomy.cdm.validation.annotation.NoDuplicateNames;
+import eu.etaxonomy.cdm.validation.annotation.NullOrNotEmpty;
/**
* The taxon name class for all non viral taxa. Parenthetical authorship is derived
* from basionym relationship. The scientific name including author strings and
* maybe year can be stored as a string in the inherited {@link eu.etaxonomy.cdm.model.common.IdentifiableEntity#getTitleCache() titleCache} attribute.
- * The year itself is an information obtained from the {@link eu.etaxonomy.cdm.model.reference.ReferenceBase#getYear() nomenclatural reference}.
+ * The year itself is an information obtained from the {@link eu.etaxonomy.cdm.model.reference.Reference#getYear() nomenclatural reference}.
* The scientific name string without author strings and year can be stored in the {@link #getNameCache() nameCache} attribute.
* <P>
* This class corresponds partially to: <ul>
* <li> ScientificName and CanonicalName according to the TCS
* <li> ScientificName according to the ABCD schema
* </ul>
- *
+ *
* @author m.doering
* @version 1.0
* @created 08-Nov-2007 13:06:39
"hybridFormula",
"monomHybrid",
"binomHybrid",
- "trinomHybrid",
+ "trinomHybrid"
})
@XmlRootElement(name = "NonViralName")
@Entity
@Indexed(index = "eu.etaxonomy.cdm.model.name.TaxonNameBase")
@Audited
@Configurable
-public class NonViralName<T extends NonViralName> extends TaxonNameBase<T, INonViralNameCacheStrategy> {
- private static final long serialVersionUID = 4441110073881088033L;
- private static final Logger logger = Logger.getLogger(NonViralName.class);
-
- @XmlElement(name = "NameCache")
- @Fields({@Field(index = org.hibernate.search.annotations.Index.TOKENIZED),
- @Field(name = "nameCache_forSort", index = org.hibernate.search.annotations.Index.UN_TOKENIZED)
+@CorrectEpithetsForRank(groups = Level2.class)
+@MustHaveAuthority(groups = Level2.class)
+@NoDuplicateNames(groups = Level3.class)
+public class NonViralName<T extends NonViralName> extends TaxonNameBase<T, INonViralNameCacheStrategy> implements Cloneable{
+ private static final long serialVersionUID = 4441110073881088033L;
+ private static final Logger logger = Logger.getLogger(NonViralName.class);
+
+ @XmlElement(name = "NameCache")
+ @Fields({
+ @Field(name = "nameCache_tokenized"),
+ @Field(analyze = Analyze.NO)
})
- @Match(value=MatchMode.CACHE, cacheReplaceMode=ReplaceMode.DEFINED,
- cacheReplacedProperties={"genusOrUninomial", "infraGenericEpithet", "specificEpithet", "infraSpecificEpithet"} )
- private String nameCache;
-
- @XmlElement(name = "ProtectedNameCache")
- protected boolean protectedNameCache;
-
- @XmlElement(name = "GenusOrUninomial")
- @Field(index=Index.TOKENIZED)
- @Match(MatchMode.EQUAL_REQUIRED)
- private String genusOrUninomial;
-
- @XmlElement(name = "InfraGenericEpithet")
- @Field(index=Index.TOKENIZED)
- private String infraGenericEpithet;
-
- @XmlElement(name = "SpecificEpithet")
- @Field(index=Index.TOKENIZED)
- private String specificEpithet;
-
- @XmlElement(name = "InfraSpecificEpithet")
- @Field(index=Index.TOKENIZED)
- private String infraSpecificEpithet;
-
- @XmlElement(name = "CombinationAuthorTeam", type = TeamOrPersonBase.class)
+ @Match(value=MatchMode.CACHE, cacheReplaceMode=ReplaceMode.DEFINED,
+ cacheReplacedProperties={"genusOrUninomial", "infraGenericEpithet", "specificEpithet", "infraSpecificEpithet"} )
+ @NotEmpty(groups = Level2.class) // implicitly NotNull
+ @Size(max = 255)
+ private String nameCache;
+
+ @XmlElement(name = "ProtectedNameCache")
+ @CacheUpdate(value="nameCache")
+ protected boolean protectedNameCache;
+
+ @XmlElement(name = "GenusOrUninomial")
+ @Field
+ @Match(MatchMode.EQUAL_REQUIRED)
+ @CacheUpdate("nameCache")
+ @Size(max = 255)
+ @Pattern(regexp = "[A-Z][a-z\\u00E4\\u00EB\\u00EF\\u00F6\\u00FC\\-]+", groups=Level2.class, message="{eu.etaxonomy.cdm.model.name.NonViralName.allowedCharactersForUninomial.message}")
+ @NullOrNotEmpty
+ @NotEmpty(groups = Level3.class) //TODO shouldn't this be only @NotNull as @NullOrNotEmpty already checks for not being empty.
+ private String genusOrUninomial;
+
+ @XmlElement(name = "InfraGenericEpithet")
+ @Field
+ @CacheUpdate("nameCache")
+ //TODO Val #3379
+// @NullOrNotEmpty
+ @Size(max = 255)
+ @Pattern(regexp = "[a-z\\u00E4\\u00EB\\u00EF\\u00F6\\u00FC\\-]+", groups=Level2.class,message="{eu.etaxonomy.cdm.model.name.NonViralName.allowedCharactersForEpithet.message}")
+ private String infraGenericEpithet;
+
+ @XmlElement(name = "SpecificEpithet")
+ @Field
+ @CacheUpdate("nameCache")
+ //TODO Val #3379
+// @NullOrNotEmpty
+ @Size(max = 255)
+ @Pattern(regexp = "[a-z\\u00E4\\u00EB\\u00EF\\u00F6\\u00FC\\-]+", groups=Level2.class, message = "{eu.etaxonomy.cdm.model.name.NonViralName.allowedCharactersForEpithet.message}")
+ private String specificEpithet;
+
+ @XmlElement(name = "InfraSpecificEpithet")
+ @Field
+ @CacheUpdate("nameCache")
+ //TODO Val #3379
+// @NullOrNotEmpty
+ @Size(max = 255)
+ @Pattern(regexp = "[a-z\\u00E4\\u00EB\\u00EF\\u00F6\\u00FC\\-]+", groups=Level2.class, message = "{eu.etaxonomy.cdm.model.name.NonViralName.allowedCharactersForEpithet.message}")
+ private String infraSpecificEpithet;
+
+ @XmlElement(name = "CombinationAuthorTeam", type = TeamOrPersonBase.class)
@XmlIDREF
@XmlSchemaType(name = "IDREF")
@ManyToOne(fetch = FetchType.LAZY)
- @Target(TeamOrPersonBase.class)
- @Cascade(CascadeType.SAVE_UPDATE)
- private INomenclaturalAuthor combinationAuthorTeam;
-
- @XmlElement(name = "ExCombinationAuthorTeam", type = TeamOrPersonBase.class)
+ @Target(TeamOrPersonBase.class)
+ @Cascade(CascadeType.SAVE_UPDATE)
+ @CacheUpdate("authorshipCache")
+ @IndexedEmbedded
+ private INomenclaturalAuthor combinationAuthorTeam;
+
+ @XmlElement(name = "ExCombinationAuthorTeam", type = TeamOrPersonBase.class)
@XmlIDREF
@XmlSchemaType(name = "IDREF")
@ManyToOne(fetch = FetchType.LAZY)
- @Target(TeamOrPersonBase.class)
- @Cascade(CascadeType.SAVE_UPDATE)
- private INomenclaturalAuthor exCombinationAuthorTeam;
-
- @XmlElement(name = "BasionymAuthorTeam", type = TeamOrPersonBase.class)
+ @Target(TeamOrPersonBase.class)
+ @Cascade(CascadeType.SAVE_UPDATE)
+ @CacheUpdate("authorshipCache")
+ @IndexedEmbedded
+ private INomenclaturalAuthor exCombinationAuthorTeam;
+
+ @XmlElement(name = "BasionymAuthorTeam", type = TeamOrPersonBase.class)
@XmlIDREF
@XmlSchemaType(name = "IDREF")
@ManyToOne(fetch = FetchType.LAZY)
- @Target(TeamOrPersonBase.class)
- @Cascade(CascadeType.SAVE_UPDATE)
- private INomenclaturalAuthor basionymAuthorTeam;
-
- @XmlElement(name = "ExBasionymAuthorTeam", type = TeamOrPersonBase.class)
+ @Target(TeamOrPersonBase.class)
+ @Cascade(CascadeType.SAVE_UPDATE)
+ @CacheUpdate("authorshipCache")
+ @IndexedEmbedded
+ private INomenclaturalAuthor basionymAuthorTeam;
+
+ @XmlElement(name = "ExBasionymAuthorTeam", type = TeamOrPersonBase.class)
@XmlIDREF
@XmlSchemaType(name = "IDREF")
@ManyToOne(fetch = FetchType.LAZY)
- @Target(TeamOrPersonBase.class)
- @Cascade(CascadeType.SAVE_UPDATE)
- private INomenclaturalAuthor exBasionymAuthorTeam;
-
- @XmlElement(name = "AuthorshipCache")
- @Field(index=Index.TOKENIZED)
- @Match(value=MatchMode.CACHE, cacheReplaceMode=ReplaceMode.DEFINED,
- cacheReplacedProperties={"combinationAuthorTeam", "basionymAuthorTeam", "exCombinationAuthorTeam", "exBasionymAuthorTeam"} )
- private String authorshipCache;
-
- @XmlElement(name = "ProtectedAuthorshipCache")
- protected boolean protectedAuthorshipCache;
+ @Target(TeamOrPersonBase.class)
+ @Cascade(CascadeType.SAVE_UPDATE)
+ @CacheUpdate("authorshipCache")
+ @IndexedEmbedded
+ private INomenclaturalAuthor exBasionymAuthorTeam;
+
+ @XmlElement(name = "AuthorshipCache")
+ @Fields({
+ @Field(name = "authorshipCache_tokenized"),
+ @Field(analyze = Analyze.NO)
+ })
+ @Match(value=MatchMode.CACHE, cacheReplaceMode=ReplaceMode.DEFINED,
+ cacheReplacedProperties={"combinationAuthorTeam", "basionymAuthorTeam", "exCombinationAuthorTeam", "exBasionymAuthorTeam"} )
+ //TODO Val #3379
+// @NotNull
+ @Size(max = 255)
+ @Pattern(regexp = "[A-Za-z0-9 \\u00E4\\u00EB\\u00EF\\u00F6\\u00FC\\-\\&\\,\\(\\)\\.]+", groups=Level2.class, message = "{eu.etaxonomy.cdm.model.name.NonViralName.allowedCharactersForAuthority.message}")
+ private String authorshipCache;
+
+ @XmlElement(name = "ProtectedAuthorshipCache")
+ @CacheUpdate("authorshipCache")
+ protected boolean protectedAuthorshipCache;
@XmlElementWrapper(name = "HybridRelationsFromThisName")
@XmlElement(name = "HybridRelationsFromThisName")
- @OneToMany(mappedBy="relatedFrom", fetch = FetchType.LAZY)
- @Cascade({CascadeType.SAVE_UPDATE, CascadeType.MERGE, CascadeType.DELETE_ORPHAN })
- @Merge(MergeMode.RELATION)
- private Set<HybridRelationship> hybridParentRelations = new HashSet<HybridRelationship>();
+ @OneToMany(mappedBy="relatedFrom", fetch = FetchType.LAZY, orphanRemoval=true)
+ @Cascade({CascadeType.SAVE_UPDATE, CascadeType.MERGE})
+ @Merge(MergeMode.RELATION)
+ @NotNull
+ private Set<HybridRelationship> hybridParentRelations = new HashSet<HybridRelationship>();
@XmlElementWrapper(name = "HybridRelationsToThisName")
@XmlElement(name = "HybridRelationsToThisName")
- @OneToMany(mappedBy="relatedTo", fetch = FetchType.LAZY)
- @Cascade({CascadeType.SAVE_UPDATE, CascadeType.MERGE, CascadeType.DELETE_ORPHAN })
- @Merge(MergeMode.RELATION)
- private Set<HybridRelationship> hybridChildRelations = new HashSet<HybridRelationship>();
+ @OneToMany(mappedBy="relatedTo", fetch = FetchType.LAZY, orphanRemoval=true) //a hybrid relation can be deleted automatically if the child is deleted.
+ @Cascade({CascadeType.SAVE_UPDATE, CascadeType.MERGE, CascadeType.DELETE})
+ @Merge(MergeMode.RELATION)
+ @NotNull
+ private Set<HybridRelationship> hybridChildRelations = new HashSet<HybridRelationship>();
- //if set: this name is a hybrid formula (a hybrid that does not have an own name) and no other hybrid flags may be set. A
- //hybrid name may not have either an authorteam nor other name components.
+ //if set: this name is a hybrid formula (a hybrid that does not have an own name) and no other hybrid flags may be set. A
+ //hybrid name may not have either an authorteam nor other name components.
@XmlElement(name ="IsHybridFormula")
- private boolean hybridFormula = false;
-
+ @CacheUpdate("nameCache")
+ private boolean hybridFormula = false;
+
@XmlElement(name ="IsMonomHybrid")
- private boolean monomHybrid = false;
-
+ @CacheUpdate("nameCache")
+ private boolean monomHybrid = false;
+
@XmlElement(name ="IsBinomHybrid")
- private boolean binomHybrid = false;
-
+ @CacheUpdate("nameCache")
+ private boolean binomHybrid = false;
+
@XmlElement(name ="IsTrinomHybrid")
- private boolean trinomHybrid = false;
-
-// @XmlTransient
-// @Transient
-// protected INonViralNameCacheStrategy cacheStrategy;
-
- // ************* CONSTRUCTORS *************/
-
- //needed by hibernate
- /**
- * Class constructor: creates a new non viral taxon name instance
- * only containing the {@link eu.etaxonomy.cdm.strategy.cache.name.NonViralNameDefaultCacheStrategy default cache strategy}.
- *
- * @see #NonViralName(Rank, HomotypicalGroup)
- * @see #NonViralName(Rank, String, String, String, String, TeamOrPersonBase, ReferenceBase, String, HomotypicalGroup)
- * @see eu.etaxonomy.cdm.strategy.cache.name.INonViralNameCacheStrategy
- * @see eu.etaxonomy.cdm.strategy.cache.name.INameCacheStrategy
- * @see eu.etaxonomy.cdm.strategy.cache.common.IIdentifiableEntityCacheStrategy
- */
- protected NonViralName(){
- super();
- setNameCacheStrategy();
- }
-
- /**
- * Class constructor: creates a new non viral taxon name instance
- * only containing its {@link Rank rank},
- * its {@link HomotypicalGroup homotypical group} and
- * the {@link eu.etaxonomy.cdm.strategy.cache.name.NonViralNameDefaultCacheStrategy default cache strategy}.
- * The new non viral taxon name instance will be also added to the set of
- * non viral taxon names belonging to this homotypical group.
- *
- * @param rank the rank to be assigned to <i>this</i> non viral taxon name
- * @param homotypicalGroup the homotypical group to which <i>this</i> non viral taxon name belongs
- * @see #NonViralName()
- * @see #NonViralName(Rank, String, String, String, String, TeamOrPersonBase, ReferenceBase, String, HomotypicalGroup)
- * @see #NewInstance(Rank, HomotypicalGroup)
- * @see eu.etaxonomy.cdm.strategy.cache.name.INonViralNameCacheStrategy
- * @see eu.etaxonomy.cdm.strategy.cache.name.INameCacheStrategy
- * @see eu.etaxonomy.cdm.strategy.cache.common.IIdentifiableEntityCacheStrategy
- */
- protected NonViralName(Rank rank, HomotypicalGroup homotypicalGroup) {
- super(rank, homotypicalGroup);
- setNameCacheStrategy();
- }
- /**
- * Class constructor: creates a new non viral taxon name instance
- * containing its {@link Rank rank},
- * its {@link HomotypicalGroup homotypical group},
- * its scientific name components, its {@link eu.etaxonomy.cdm.model.agent.TeamOrPersonBase author(team)},
- * its {@link eu.etaxonomy.cdm.model.reference.ReferenceBase nomenclatural reference} and
- * the {@link eu.etaxonomy.cdm.strategy.cache.name.NonViralNameDefaultCacheStrategy default cache strategy}.
- * The new non viral taxon name instance will be also added to the set of
- * non viral taxon names belonging to this homotypical group.
- *
- * @param rank the rank to be assigned to <i>this</i> non viral taxon name
- * @param genusOrUninomial the string for <i>this</i> non viral taxon name
- * if its rank is genus or higher or for the genus part
- * if its rank is lower than genus
- * @param infraGenericEpithet the string for the first epithet of
- * <i>this</i> non viral taxon name if its rank is lower than genus
- * and higher than species aggregate
- * @param specificEpithet the string for the first epithet of
- * <i>this</i> non viral taxon name if its rank is species aggregate or lower
- * @param infraSpecificEpithet the string for the second epithet of
- * <i>this</i> non viral taxon name if its rank is lower than species
- * @param combinationAuthorTeam the author or the team who published <i>this</i> non viral taxon name
- * @param nomenclaturalReference the nomenclatural reference where <i>this</i> non viral taxon name was published
- * @param nomenclMicroRef the string with the details for precise location within the nomenclatural reference
- * @param homotypicalGroup the homotypical group to which <i>this</i> non viral taxon name belongs
- * @see #NonViralName()
- * @see #NonViralName(Rank, HomotypicalGroup)
- * @see #NewInstance(Rank, HomotypicalGroup)
- * @see eu.etaxonomy.cdm.strategy.cache.name.INonViralNameCacheStrategy
- * @see eu.etaxonomy.cdm.strategy.cache.name.INameCacheStrategy
- * @see eu.etaxonomy.cdm.strategy.cache.common.IIdentifiableEntityCacheStrategy
- */
- protected NonViralName(Rank rank, String genusOrUninomial, String infraGenericEpithet, String specificEpithet, String infraSpecificEpithet, TeamOrPersonBase combinationAuthorTeam, INomenclaturalReference nomenclaturalReference, String nomenclMicroRef, HomotypicalGroup homotypicalGroup) {
- super(rank, homotypicalGroup);
- setNameCacheStrategy();
- setGenusOrUninomial(genusOrUninomial);
- setInfraGenericEpithet (infraGenericEpithet);
- setSpecificEpithet(specificEpithet);
- setInfraSpecificEpithet(infraSpecificEpithet);
- setCombinationAuthorTeam(combinationAuthorTeam);
- setNomenclaturalReference((ReferenceBase)nomenclaturalReference);
- this.setNomenclaturalMicroReference(nomenclMicroRef);
- }
-
- //********* METHODS **************************************/
- /**
- * Creates a new non viral taxon name instance
- * only containing its {@link common.Rank rank} and
- * the {@link eu.etaxonomy.cdm.strategy.cache.name.NonViralNameDefaultCacheStrategy default cache strategy}.
- *
- * @param rank the rank to be assigned to <i>this</i> non viral taxon name
- * @see #NewInstance(Rank, HomotypicalGroup)
- * @see #NonViralName(Rank, HomotypicalGroup)
- * @see #NonViralName()
- * @see #NonViralName(Rank, String, String, String, String, TeamOrPersonBase, ReferenceBase, String, HomotypicalGroup)
- * @see eu.etaxonomy.cdm.strategy.cache.name.INonViralNameCacheStrategy
- * @see eu.etaxonomy.cdm.strategy.cache.name.INameCacheStrategy
- * @see eu.etaxonomy.cdm.strategy.cache.common.IIdentifiableEntityCacheStrategy
- */
- public static NonViralName NewInstance(Rank rank){
- return new NonViralName(rank, null);
- }
-
- /**
- * Creates a new non viral taxon name instance
- * only containing its {@link common.Rank rank},
- * its {@link HomotypicalGroup homotypical group} and
- * the {@link eu.etaxonomy.cdm.strategy.cache.name.NonViralNameDefaultCacheStrategy default cache strategy}.
- * The new non viral taxon name instance will be also added to the set of
- * non viral taxon names belonging to this homotypical group.
- *
- * @param rank the rank to be assigned to <i>this</i> non viral taxon name
- * @param homotypicalGroup the homotypical group to which <i>this</i> non viral taxon name belongs
- * @see #NewInstance(Rank)
- * @see #NonViralName(Rank, HomotypicalGroup)
- * @see #NonViralName()
- * @see #NonViralName(Rank, String, String, String, String, TeamOrPersonBase, ReferenceBase, String, HomotypicalGroup)
- * @see eu.etaxonomy.cdm.strategy.cache.name.INonViralNameCacheStrategy
- * @see eu.etaxonomy.cdm.strategy.cache.name.INameCacheStrategy
- * @see eu.etaxonomy.cdm.strategy.cache.common.IIdentifiableEntityCacheStrategy
- */
- public static NonViralName NewInstance(Rank rank, HomotypicalGroup homotypicalGroup){
- return new NonViralName(rank, homotypicalGroup);
- }
-
- private void setNameCacheStrategy(){
- if (getClass() == NonViralName.class){
- this.cacheStrategy = NonViralNameDefaultCacheStrategy.NewInstance();
- }
-
- }
-
- //TODO for PROTOTYPE
- /**
- * Returns the {@link eu.etaxonomy.cdm.strategy.cache.name.INonViralNameCacheStrategy cache strategy} used to generate
- * several strings corresponding to <i>this</i> non viral taxon name
- * (in particular taxon name caches and author strings).
- *
- * @return the cache strategy used for <i>this</i> non viral taxon name
- * @see eu.etaxonomy.cdm.strategy.cache.name.INonViralNameCacheStrategy
- * @see eu.etaxonomy.cdm.strategy.cache.name.INameCacheStrategy
- * @see eu.etaxonomy.cdm.strategy.cache.common.IIdentifiableEntityCacheStrategy
- */
-// @Override
-// @Transient
-// public INonViralNameCacheStrategy getCacheStrategy() {
-// return cacheStrategy;
-// }
-
- /**
- * @see #getCacheStrategy()
- */
-// @Override
-// public void setCacheStrategy(INonViralNameCacheStrategy cacheStrategy) {
-// this.cacheStrategy = cacheStrategy;
-// }
+ @CacheUpdate("nameCache")
+ private boolean trinomHybrid = false;
+
+ /**
+ * Creates a new non viral taxon name instance
+ * only containing its {@link common.Rank rank} and
+ * the {@link eu.etaxonomy.cdm.strategy.cache.name.NonViralNameDefaultCacheStrategy default cache strategy}.
+ *
+ * @param rank the rank to be assigned to <i>this</i> non viral taxon name
+ * @see #NewInstance(Rank, HomotypicalGroup)
+ * @see #NonViralName(Rank, HomotypicalGroup)
+ * @see #NonViralName()
+ * @see #NonViralName(Rank, String, String, String, String, TeamOrPersonBase, Reference, String, HomotypicalGroup)
+ * @see eu.etaxonomy.cdm.strategy.cache.name.INonViralNameCacheStrategy
+ * @see eu.etaxonomy.cdm.strategy.cache.name.INameCacheStrategy
+ * @see eu.etaxonomy.cdm.strategy.cache.common.IIdentifiableEntityCacheStrategy
+ */
+ public static NonViralName NewInstance(Rank rank){
+ return new NonViralName(rank, null);
+ }
+
+ /**
+ * Creates a new non viral taxon name instance
+ * only containing its {@link common.Rank rank},
+ * its {@link HomotypicalGroup homotypical group} and
+ * the {@link eu.etaxonomy.cdm.strategy.cache.name.NonViralNameDefaultCacheStrategy default cache strategy}.
+ * The new non viral taxon name instance will be also added to the set of
+ * non viral taxon names belonging to this homotypical group.
+ *
+ * @param rank the rank to be assigned to <i>this</i> non viral taxon name
+ * @param homotypicalGroup the homotypical group to which <i>this</i> non viral taxon name belongs
+ * @see #NewInstance(Rank)
+ * @see #NonViralName(Rank, HomotypicalGroup)
+ * @see #NonViralName()
+ * @see #NonViralName(Rank, String, String, String, String, TeamOrPersonBase, Reference, String, HomotypicalGroup)
+ * @see eu.etaxonomy.cdm.strategy.cache.name.INonViralNameCacheStrategy
+ * @see eu.etaxonomy.cdm.strategy.cache.name.INameCacheStrategy
+ * @see eu.etaxonomy.cdm.strategy.cache.common.IIdentifiableEntityCacheStrategy
+ */
+ public static NonViralName NewInstance(Rank rank, HomotypicalGroup homotypicalGroup){
+ return new NonViralName(rank, homotypicalGroup);
+ }
+
+// ************************** CONSTRUCTORS *************/
+
+ //needed by hibernate
+ /**
+ * Class constructor: creates a new non viral taxon name instance
+ * only containing the {@link eu.etaxonomy.cdm.strategy.cache.name.NonViralNameDefaultCacheStrategy default cache strategy}.
+ *
+ * @see #NonViralName(Rank, HomotypicalGroup)
+ * @see #NonViralName(Rank, String, String, String, String, TeamOrPersonBase, Reference, String, HomotypicalGroup)
+ * @see eu.etaxonomy.cdm.strategy.cache.name.INonViralNameCacheStrategy
+ * @see eu.etaxonomy.cdm.strategy.cache.name.INameCacheStrategy
+ * @see eu.etaxonomy.cdm.strategy.cache.common.IIdentifiableEntityCacheStrategy
+ */
+ protected NonViralName(){
+ super();
+ setNameCacheStrategy();
+ }
+
+ /**
+ * Class constructor: creates a new non viral taxon name instance
+ * only containing its {@link Rank rank},
+ * its {@link HomotypicalGroup homotypical group} and
+ * the {@link eu.etaxonomy.cdm.strategy.cache.name.NonViralNameDefaultCacheStrategy default cache strategy}.
+ * The new non viral taxon name instance will be also added to the set of
+ * non viral taxon names belonging to this homotypical group.
+ *
+ * @param rank the rank to be assigned to <i>this</i> non viral taxon name
+ * @param homotypicalGroup the homotypical group to which <i>this</i> non viral taxon name belongs
+ * @see #NonViralName()
+ * @see #NonViralName(Rank, String, String, String, String, TeamOrPersonBase, Reference, String, HomotypicalGroup)
+ * @see #NewInstance(Rank, HomotypicalGroup)
+ * @see eu.etaxonomy.cdm.strategy.cache.name.INonViralNameCacheStrategy
+ * @see eu.etaxonomy.cdm.strategy.cache.name.INameCacheStrategy
+ * @see eu.etaxonomy.cdm.strategy.cache.common.IIdentifiableEntityCacheStrategy
+ */
+ protected NonViralName(Rank rank, HomotypicalGroup homotypicalGroup) {
+ super(rank, homotypicalGroup);
+ setNameCacheStrategy();
+ }
+ /**
+ * Class constructor: creates a new non viral taxon name instance
+ * containing its {@link Rank rank},
+ * its {@link HomotypicalGroup homotypical group},
+ * its scientific name components, its {@link eu.etaxonomy.cdm.model.agent.TeamOrPersonBase author(team)},
+ * its {@link eu.etaxonomy.cdm.model.reference.Reference nomenclatural reference} and
+ * the {@link eu.etaxonomy.cdm.strategy.cache.name.NonViralNameDefaultCacheStrategy default cache strategy}.
+ * The new non viral taxon name instance will be also added to the set of
+ * non viral taxon names belonging to this homotypical group.
+ *
+ * @param rank the rank to be assigned to <i>this</i> non viral taxon name
+ * @param genusOrUninomial the string for <i>this</i> non viral taxon name
+ * if its rank is genus or higher or for the genus part
+ * if its rank is lower than genus
+ * @param infraGenericEpithet the string for the first epithet of
+ * <i>this</i> non viral taxon name if its rank is lower than genus
+ * and higher than species aggregate
+ * @param specificEpithet the string for the first epithet of
+ * <i>this</i> non viral taxon name if its rank is species aggregate or lower
+ * @param infraSpecificEpithet the string for the second epithet of
+ * <i>this</i> non viral taxon name if its rank is lower than species
+ * @param combinationAuthorTeam the author or the team who published <i>this</i> non viral taxon name
+ * @param nomenclaturalReference the nomenclatural reference where <i>this</i> non viral taxon name was published
+ * @param nomenclMicroRef the string with the details for precise location within the nomenclatural reference
+ * @param homotypicalGroup the homotypical group to which <i>this</i> non viral taxon name belongs
+ * @see #NonViralName()
+ * @see #NonViralName(Rank, HomotypicalGroup)
+ * @see #NewInstance(Rank, HomotypicalGroup)
+ * @see eu.etaxonomy.cdm.strategy.cache.name.INonViralNameCacheStrategy
+ * @see eu.etaxonomy.cdm.strategy.cache.name.INameCacheStrategy
+ * @see eu.etaxonomy.cdm.strategy.cache.common.IIdentifiableEntityCacheStrategy
+ */
+ protected NonViralName(Rank rank, String genusOrUninomial, String infraGenericEpithet, String specificEpithet, String infraSpecificEpithet, TeamOrPersonBase combinationAuthorTeam, INomenclaturalReference nomenclaturalReference, String nomenclMicroRef, HomotypicalGroup homotypicalGroup) {
+ super(rank, homotypicalGroup);
+ setNameCacheStrategy();
+ setGenusOrUninomial(genusOrUninomial);
+ setInfraGenericEpithet (infraGenericEpithet);
+ setSpecificEpithet(specificEpithet);
+ setInfraSpecificEpithet(infraSpecificEpithet);
+ setCombinationAuthorTeam(combinationAuthorTeam);
+ setNomenclaturalReference(nomenclaturalReference);
+ this.setNomenclaturalMicroReference(nomenclMicroRef);
+ }
+
+
+
+//**************************** METHODS **************************************/
+
+
+ private void setNameCacheStrategy(){
+ if (getClass() == NonViralName.class){
+ this.cacheStrategy = NonViralNameDefaultCacheStrategy.NewInstance();
+ }
+ }
+
+ @Override
+ protected void initListener(){
+ PropertyChangeListener listener = new PropertyChangeListener() {
+ @Override
+ public void propertyChange(PropertyChangeEvent e) {
+ boolean protectedByLowerCache = false;
+ //authorship cache
+ if (fieldHasCacheUpdateProperty(e.getPropertyName(), "authorshipCache")){
+ if (protectedAuthorshipCache){
+ protectedByLowerCache = true;
+ }else{
+ authorshipCache = null;
+ }
+ }
- /**
- * Returns the {@link eu.etaxonomy.cdm.model.agent.INomenclaturalAuthor author (team)} that published <i>this</i> non viral
- * taxon name.
- *
- * @return the nomenclatural author (team) of <i>this</i> non viral taxon name
- * @see eu.etaxonomy.cdm.model.agent.INomenclaturalAuthor
- * @see eu.etaxonomy.cdm.model.agent.TeamOrPersonBase#getNomenclaturalTitle()
- */
- public INomenclaturalAuthor getCombinationAuthorTeam(){
- return this.combinationAuthorTeam;
- }
-
- /**
- * @see #getCombinationAuthorTeam()
- */
- public void setCombinationAuthorTeam(INomenclaturalAuthor combinationAuthorTeam){
- this.combinationAuthorTeam = combinationAuthorTeam;
- }
-
- /**
- * Returns the {@link eu.etaxonomy.cdm.model.agent.INomenclaturalAuthor author (team)} that contributed to
- * the publication of <i>this</i> non viral taxon name as generally stated by
- * the {@link #getCombinationAuthorTeam() combination author (team)} itself.<BR>
- * An ex-author(-team) is an author(-team) to whom a taxon name was ascribed
- * although it is not the author(-team) of a valid publication (for instance
- * without the validating description or diagnosis in case of a name for a
- * new taxon). The name of this ascribed authorship, followed by "ex", may
- * be inserted before the name(s) of the publishing author(s) of the validly
- * published name:<BR>
- * <i>Lilium tianschanicum</i> was described by Grubov (1977) as a new species and
- * its name was ascribed to Ivanova; since there is no indication that
- * Ivanova provided the validating description, the name may be cited as
- * <i>Lilium tianschanicum</i> N. A. Ivanova ex Grubov or <i>Lilium tianschanicum</i> Grubov.
- * <P>
- * The presence of an author (team) of <i>this</i> non viral taxon name is a
- * condition for the existence of an ex author (team) for <i>this</i> same name.
- *
- * @return the nomenclatural ex author (team) of <i>this</i> non viral taxon name
- * @see #getCombinationAuthorTeam()
- * @see eu.etaxonomy.cdm.model.agent.INomenclaturalAuthor
- * @see eu.etaxonomy.cdm.model.agent.TeamOrPersonBase#getNomenclaturalTitle()
- */
- public INomenclaturalAuthor getExCombinationAuthorTeam(){
- return this.exCombinationAuthorTeam;
- }
-
- /**
- * @see #getExCombinationAuthorTeam()
- */
- public void setExCombinationAuthorTeam(INomenclaturalAuthor exCombinationAuthorTeam){
- this.exCombinationAuthorTeam = exCombinationAuthorTeam;
- }
-
- /**
- * Returns the {@link eu.etaxonomy.cdm.model.agent.INomenclaturalAuthor author (team)} that published the original combination
- * on which <i>this</i> non viral taxon name is nomenclaturally based. Such an
- * author (team) can only exist if <i>this</i> non viral taxon name is a new
- * combination due to a taxonomical revision.
- *
- * @return the nomenclatural basionym author (team) of <i>this</i> non viral taxon name
- * @see #getCombinationAuthorTeam()
- * @see eu.etaxonomy.cdm.model.agent.INomenclaturalAuthor
- * @see eu.etaxonomy.cdm.model.agent.TeamOrPersonBase#getNomenclaturalTitle()
- */
- public INomenclaturalAuthor getBasionymAuthorTeam(){
- return basionymAuthorTeam;
- }
-
- /**
- * @see #getBasionymAuthorTeam()
- */
- public void setBasionymAuthorTeam(INomenclaturalAuthor basionymAuthorTeam) {
- this.basionymAuthorTeam = basionymAuthorTeam;
- }
-
- /**
- * Returns the {@link eu.etaxonomy.cdm.model.agent.INomenclaturalAuthor author (team)} that contributed to
- * the publication of the original combination <i>this</i> non viral taxon name is
- * based on. This should have been generally stated by
- * the {@link #getBasionymAuthorTeam() basionym author (team)} itself.
- * The presence of a basionym author (team) of <i>this</i> non viral taxon name is a
- * condition for the existence of an ex basionym author (team)
- * for <i>this</i> same name.
- *
- * @return the nomenclatural ex basionym author (team) of <i>this</i> non viral taxon name
- * @see #getBasionymAuthorTeam()
- * @see #getExCombinationAuthorTeam()
- * @see #getCombinationAuthorTeam()
- * @see eu.etaxonomy.cdm.model.agent.INomenclaturalAuthor
- * @see eu.etaxonomy.cdm.model.agent.TeamOrPersonBase#getNomenclaturalTitle()
- */
- public INomenclaturalAuthor getExBasionymAuthorTeam(){
- return exBasionymAuthorTeam;
- }
-
- /**
- * @see #getExBasionymAuthorTeam()
- */
- public void setExBasionymAuthorTeam(INomenclaturalAuthor exBasionymAuthorTeam) {
- this.exBasionymAuthorTeam = exBasionymAuthorTeam;
- }
- /**
- * Returns either the scientific name string (without authorship) for <i>this</i>
- * non viral taxon name if its rank is genus or higher (monomial) or the string for
- * the genus part of it if its {@link Rank rank} is lower than genus (bi- or trinomial).
- * Genus or uninomial strings begin with an upper case letter.
- *
- * @return the string containing the suprageneric name, the genus name or the genus part of <i>this</i> non viral taxon name
- * @see #getNameCache()
- */
- public String getGenusOrUninomial() {
- return genusOrUninomial;
- }
-
- /**
- * @see #getGenusOrUninomial()
- */
- public void setGenusOrUninomial(String genusOrUninomial) {
- this.genusOrUninomial = genusOrUninomial;
- }
-
- /**
- * Returns the genus subdivision epithet string (infrageneric part) for
- * <i>this</i> non viral taxon name if its {@link Rank rank} is infrageneric (lower than genus and
- * higher than species aggregate: binomial). Genus subdivision epithet
- * strings begin with an upper case letter.
- *
- * @return the string containing the infrageneric part of <i>this</i> non viral taxon name
- * @see #getNameCache()
- */
- public String getInfraGenericEpithet(){
- return this.infraGenericEpithet;
- }
-
- /**
- * @see #getInfraGenericEpithet()
- */
- public void setInfraGenericEpithet(String infraGenericEpithet){
- this.infraGenericEpithet = infraGenericEpithet;
- }
-
- /**
- * Returns the species epithet string for <i>this</i> non viral taxon name if its {@link Rank rank} is
- * species aggregate or lower (bi- or trinomial). Species epithet strings
- * begin with a lower case letter.
- *
- * @return the string containing the species epithet of <i>this</i> non viral taxon name
- * @see #getNameCache()
- */
- public String getSpecificEpithet(){
- return this.specificEpithet;
- }
-
- /**
- * @see #getSpecificEpithet()
- */
- public void setSpecificEpithet(String specificEpithet){
- this.specificEpithet = specificEpithet;
- }
-
- /**
- * Returns the species subdivision epithet string (infraspecific part) for
- * <i>this</i> non viral taxon name if its {@link Rank rank} is infraspecific
- * (lower than species: trinomial). Species subdivision epithet strings
- * begin with a lower case letter.
- *
- * @return the string containing the infraspecific part of <i>this</i> non viral taxon name
- * @see #getNameCache()
- */
- public String getInfraSpecificEpithet(){
- return this.infraSpecificEpithet;
- }
-
- /**
- * @see #getInfraSpecificEpithet()
- */
- public void setInfraSpecificEpithet(String infraSpecificEpithet){
- this.infraSpecificEpithet = infraSpecificEpithet;
- }
-
- /**
- * Generates and returns the string with the scientific name of <i>this</i>
- * non viral taxon name including author strings and maybe year according to
- * the strategy defined in
- * {@link eu.etaxonomy.cdm.strategy.cache.name.INonViralNameCacheStrategy INonViralNameCacheStrategy}.
- * This string may be stored in the inherited
- * {@link eu.etaxonomy.cdm.model.common.IdentifiableEntity#getTitleCache() titleCache} attribute.
- * This method overrides the generic and inherited
- * TaxonNameBase#generateTitle() method.
- *
- * @return the string with the composed name of <i>this</i> non viral taxon name with authorship (and maybe year)
- * @see eu.etaxonomy.cdm.model.common.IdentifiableEntity#generateTitle()
- * @see eu.etaxonomy.cdm.model.common.IdentifiableEntity#getTitleCache()
- * @see TaxonNameBase#generateTitle()
- */
+ //nameCache
+ if (fieldHasCacheUpdateProperty(e.getPropertyName(), "nameCache")){
+ if (protectedNameCache){
+ protectedByLowerCache = true;
+ }else{
+ nameCache = null;
+ }
+ }
+ //title cache
+ if (! fieldHasNoUpdateProperty(e.getPropertyName(), "titleCache")){
+ if (isProtectedTitleCache()|| protectedByLowerCache == true ){
+ protectedByLowerCache = true;
+ }else{
+ titleCache = null;
+ }
+ }
+ //full title cache
+ if (! fieldHasNoUpdateProperty(e.getPropertyName(), "fullTitleCache")){
+ if (isProtectedFullTitleCache()|| protectedByLowerCache == true ){
+ protectedByLowerCache = true;
+ }else{
+ fullTitleCache = null;
+ }
+ }
+ }
+ };
+ addPropertyChangeListener(listener); //didn't use this.addXXX to make lsid.AssemblerTest run in cdmlib-remote
+ }
+
+ private static Map<String, java.lang.reflect.Field> allFields = null;
+ @Override
+ protected Map<String, java.lang.reflect.Field> getAllFields(){
+ if (allFields == null){
+ allFields = CdmUtils.getAllFields(this.getClass(), CdmBase.class, false, false, false, true);
+ }
+ return allFields;
+ }
+
+ /**
+ * @param propertyName
+ * @param string
+ * @return
+ */
+ private boolean fieldHasCacheUpdateProperty(String propertyName, String cacheName) {
+ java.lang.reflect.Field field;
+ try {
+ field = getAllFields().get(propertyName);
+ if (field != null){
+ CacheUpdate updateAnnotation = field.getAnnotation(CacheUpdate.class);
+ if (updateAnnotation != null){
+ for (String value : updateAnnotation.value()){
+ if (cacheName.equals(value)){
+ return true;
+ }
+ }
+ }
+ }
+ return false;
+ } catch (SecurityException e1) {
+ throw e1;
+ }
+ }
+
+ private boolean fieldHasNoUpdateProperty(String propertyName, String cacheName) {
+ java.lang.reflect.Field field;
+ //do not update fields with the same name
+ if (cacheName.equals(propertyName)){
+ return true;
+ }
+ //evaluate annotation
+ try {
+ field = getAllFields().get(propertyName);
+ if (field != null){
+ CacheUpdate updateAnnotation = field.getAnnotation(CacheUpdate.class);
+ if (updateAnnotation != null){
+ for (String value : updateAnnotation.noUpdate()){
+ if (cacheName.equals(value)){
+ return true;
+ }
+ }
+ }
+ }
+ return false;
+ } catch (SecurityException e1) {
+ throw e1;
+ }
+ }
+
+
+ /**
+ * Returns the {@link eu.etaxonomy.cdm.model.agent.INomenclaturalAuthor author (team)} that published <i>this</i> non viral
+ * taxon name.
+ *
+ * @return the nomenclatural author (team) of <i>this</i> non viral taxon name
+ * @see eu.etaxonomy.cdm.model.agent.INomenclaturalAuthor
+ * @see eu.etaxonomy.cdm.model.agent.TeamOrPersonBase#getNomenclaturalTitle()
+ */
+ public INomenclaturalAuthor getCombinationAuthorTeam(){
+ return this.combinationAuthorTeam;
+ }
+
+ /**
+ * @see #getCombinationAuthorTeam()
+ */
+ public void setCombinationAuthorTeam(INomenclaturalAuthor combinationAuthorTeam){
+ this.combinationAuthorTeam = combinationAuthorTeam;
+ }
+
+ /**
+ * Returns the {@link eu.etaxonomy.cdm.model.agent.INomenclaturalAuthor author (team)} that contributed to
+ * the publication of <i>this</i> non viral taxon name as generally stated by
+ * the {@link #getCombinationAuthorTeam() combination author (team)} itself.<BR>
+ * An ex-author(-team) is an author(-team) to whom a taxon name was ascribed
+ * although it is not the author(-team) of a valid publication (for instance
+ * without the validating description or diagnosis in case of a name for a
+ * new taxon). The name of this ascribed authorship, followed by "ex", may
+ * be inserted before the name(s) of the publishing author(s) of the validly
+ * published name:<BR>
+ * <i>Lilium tianschanicum</i> was described by Grubov (1977) as a new species and
+ * its name was ascribed to Ivanova; since there is no indication that
+ * Ivanova provided the validating description, the name may be cited as
+ * <i>Lilium tianschanicum</i> N. A. Ivanova ex Grubov or <i>Lilium tianschanicum</i> Grubov.
+ * <P>
+ * The presence of an author (team) of <i>this</i> non viral taxon name is a
+ * condition for the existence of an ex author (team) for <i>this</i> same name.
+ *
+ * @return the nomenclatural ex author (team) of <i>this</i> non viral taxon name
+ * @see #getCombinationAuthorTeam()
+ * @see eu.etaxonomy.cdm.model.agent.INomenclaturalAuthor
+ * @see eu.etaxonomy.cdm.model.agent.TeamOrPersonBase#getNomenclaturalTitle()
+ */
+ public INomenclaturalAuthor getExCombinationAuthorTeam(){
+ return this.exCombinationAuthorTeam;
+ }
+
+ /**
+ * @see #getExCombinationAuthorTeam()
+ */
+ public void setExCombinationAuthorTeam(INomenclaturalAuthor exCombinationAuthorTeam){
+ this.exCombinationAuthorTeam = exCombinationAuthorTeam;
+ }
+
+ /**
+ * Returns the {@link eu.etaxonomy.cdm.model.agent.INomenclaturalAuthor author (team)} that published the original combination
+ * on which <i>this</i> non viral taxon name is nomenclaturally based. Such an
+ * author (team) can only exist if <i>this</i> non viral taxon name is a new
+ * combination due to a taxonomical revision.
+ *
+ * @return the nomenclatural basionym author (team) of <i>this</i> non viral taxon name
+ * @see #getCombinationAuthorTeam()
+ * @see eu.etaxonomy.cdm.model.agent.INomenclaturalAuthor
+ * @see eu.etaxonomy.cdm.model.agent.TeamOrPersonBase#getNomenclaturalTitle()
+ */
+ public INomenclaturalAuthor getBasionymAuthorTeam(){
+ return basionymAuthorTeam;
+ }
+
+ /**
+ * @see #getBasionymAuthorTeam()
+ */
+ public void setBasionymAuthorTeam(INomenclaturalAuthor basionymAuthorTeam) {
+ this.basionymAuthorTeam = basionymAuthorTeam;
+ }
+
+ /**
+ * Returns the {@link eu.etaxonomy.cdm.model.agent.INomenclaturalAuthor author (team)} that contributed to
+ * the publication of the original combination <i>this</i> non viral taxon name is
+ * based on. This should have been generally stated by
+ * the {@link #getBasionymAuthorTeam() basionym author (team)} itself.
+ * The presence of a basionym author (team) of <i>this</i> non viral taxon name is a
+ * condition for the existence of an ex basionym author (team)
+ * for <i>this</i> same name.
+ *
+ * @return the nomenclatural ex basionym author (team) of <i>this</i> non viral taxon name
+ * @see #getBasionymAuthorTeam()
+ * @see #getExCombinationAuthorTeam()
+ * @see #getCombinationAuthorTeam()
+ * @see eu.etaxonomy.cdm.model.agent.INomenclaturalAuthor
+ * @see eu.etaxonomy.cdm.model.agent.TeamOrPersonBase#getNomenclaturalTitle()
+ */
+ public INomenclaturalAuthor getExBasionymAuthorTeam(){
+ return exBasionymAuthorTeam;
+ }
+
+ /**
+ * @see #getExBasionymAuthorTeam()
+ */
+ public void setExBasionymAuthorTeam(INomenclaturalAuthor exBasionymAuthorTeam) {
+ this.exBasionymAuthorTeam = exBasionymAuthorTeam;
+ }
+ /**
+ * Returns either the scientific name string (without authorship) for <i>this</i>
+ * non viral taxon name if its rank is genus or higher (monomial) or the string for
+ * the genus part of it if its {@link Rank rank} is lower than genus (bi- or trinomial).
+ * Genus or uninomial strings begin with an upper case letter.
+ *
+ * @return the string containing the suprageneric name, the genus name or the genus part of <i>this</i> non viral taxon name
+ * @see #getNameCache()
+ */
+ public String getGenusOrUninomial() {
+ return genusOrUninomial;
+ }
+
+ /**
+ * @see #getGenusOrUninomial()
+ */
+ public void setGenusOrUninomial(String genusOrUninomial) {
+ this.genusOrUninomial = genusOrUninomial;
+ }
+
+ /**
+ * Returns the genus subdivision epithet string (infrageneric part) for
+ * <i>this</i> non viral taxon name if its {@link Rank rank} is infrageneric (lower than genus and
+ * higher than species aggregate: binomial). Genus subdivision epithet
+ * strings begin with an upper case letter.
+ *
+ * @return the string containing the infrageneric part of <i>this</i> non viral taxon name
+ * @see #getNameCache()
+ */
+ public String getInfraGenericEpithet(){
+ return this.infraGenericEpithet;
+ }
+
+ /**
+ * @see #getInfraGenericEpithet()
+ */
+ public void setInfraGenericEpithet(String infraGenericEpithet){
+ this.infraGenericEpithet = infraGenericEpithet;
+ }
+
+ /**
+ * Returns the species epithet string for <i>this</i> non viral taxon name if its {@link Rank rank} is
+ * species aggregate or lower (bi- or trinomial). Species epithet strings
+ * begin with a lower case letter.
+ *
+ * @return the string containing the species epithet of <i>this</i> non viral taxon name
+ * @see #getNameCache()
+ */
+ public String getSpecificEpithet(){
+ return this.specificEpithet;
+ }
+
+ /**
+ * @see #getSpecificEpithet()
+ */
+ public void setSpecificEpithet(String specificEpithet){
+ this.specificEpithet = specificEpithet;
+ }
+
+ /**
+ * Returns the species subdivision epithet string (infraspecific part) for
+ * <i>this</i> non viral taxon name if its {@link Rank rank} is infraspecific
+ * (lower than species: trinomial). Species subdivision epithet strings
+ * begin with a lower case letter.
+ *
+ * @return the string containing the infraspecific part of <i>this</i> non viral taxon name
+ * @see #getNameCache()
+ */
+ public String getInfraSpecificEpithet(){
+ return this.infraSpecificEpithet;
+ }
+
+ /**
+ * @see #getInfraSpecificEpithet()
+ */
+ public void setInfraSpecificEpithet(String infraSpecificEpithet){
+ this.infraSpecificEpithet = infraSpecificEpithet;
+ }
+
+ /**
+ * Generates and returns the string with the scientific name of <i>this</i>
+ * non viral taxon name including author strings and maybe year according to
+ * the strategy defined in
+ * {@link eu.etaxonomy.cdm.strategy.cache.name.INonViralNameCacheStrategy INonViralNameCacheStrategy}.
+ * This string may be stored in the inherited
+ * {@link eu.etaxonomy.cdm.model.common.IdentifiableEntity#getTitleCache() titleCache} attribute.
+ * This method overrides the generic and inherited
+ * TaxonNameBase#generateTitle() method.
+ *
+ * @return the string with the composed name of <i>this</i> non viral taxon name with authorship (and maybe year)
+ * @see eu.etaxonomy.cdm.model.common.IdentifiableEntity#generateTitle()
+ * @see eu.etaxonomy.cdm.model.common.IdentifiableEntity#getTitleCache()
+ * @see TaxonNameBase#generateTitle()
+ */
// @Override
// public String generateTitle(){
// if (cacheStrategy == null){
// return cacheStrategy.getTitleCache(this);
// }
// }
-
- @Override
- public String generateFullTitle(){
- if (cacheStrategy == null){
- logger.warn("No CacheStrategy defined for nonViralName: " + this.getUuid());
- return null;
- }else{
- return cacheStrategy.getFullTitleCache(this);
- }
- }
-
- /**
- * Generates the composed name string of <i>this</i> non viral taxon name without author
- * strings or year according to the strategy defined in
- * {@link eu.etaxonomy.cdm.strategy.cache.name.INonViralNameCacheStrategy INonViralNameCacheStrategy}.
- * The result might be stored in {@link #getNameCache() nameCache} if the
- * flag {@link #isProtectedNameCache() protectedNameCache} is not set.
- *
- * @return the string with the composed name of <i>this</i> non viral taxon name without authors or year
- * @see #getNameCache()
- */
- protected String generateNameCache(){
- if (cacheStrategy == null){
- logger.warn("No CacheStrategy defined for taxonName: " + this.toString());
- return null;
- }else{
- return cacheStrategy.getNameCache(this);
- }
- }
-
- /**
- * Returns or generates the nameCache (scientific name
- * without author strings and year) string for <i>this</i> non viral taxon name. If the
- * {@link #isProtectedNameCache() protectedNameCache} flag is not set (False)
- * the string will be generated according to a defined strategy,
- * otherwise the value of the actual nameCache string will be returned.
- *
- * @return the string which identifies <i>this</i> non viral taxon name (without authors or year)
- * @see #generateNameCache()
- */
- @Transient
- public String getNameCache() {
- if (protectedNameCache){
- return this.nameCache;
- }
- // is title dirty, i.e. equal NULL?
- if (nameCache == null){
- this.nameCache = generateNameCache();
- }
- return nameCache;
- }
-
- /**
- * Assigns a nameCache string to <i>this</i> non viral taxon name and protects it from being overwritten.
- * Sets the protectedNameCache flag to <code>true</code>.
- *
- * @param nameCache the string which identifies <i>this</i> non viral taxon name (without authors or year)
- * @see #getNameCache()
- */
- public void setNameCache(String nameCache){
- setNameCache(nameCache, true);
- }
-
- /**
- * Assigns a nameCache string to <i>this</i> non viral taxon name and protects it from being overwritten.
- * Sets the protectedNameCache flag to <code>true</code>.
- *
- * @param nameCache the string which identifies <i>this</i> non viral taxon name (without authors or year)
- * @param protectedNameCache if true teh protectedNameCache is set to <code>true</code> or otherwise set to
- * <code>false</code>
- * @see #getNameCache()
- */
- public void setNameCache(String nameCache, boolean protectedNameCache){
- this.nameCache = nameCache;
- //this.setProtectedTitleCache(false); //now handled by propertyChangeListener
- this.setProtectedNameCache(protectedNameCache);
- }
-
- /**
- * Returns the boolean value of the flag intended to protect (true)
- * or not (false) the {@link #getNameCache() nameCache} (scientific name without author strings and year)
- * string of <i>this</i> non viral taxon name.
- *
- * @return the boolean value of the protectedNameCache flag
- * @see #getNameCache()
- */
- public boolean isProtectedNameCache() {
- return protectedNameCache;
- }
-
- /**
- * @see #isProtectedNameCache()
- */
- public void setProtectedNameCache(boolean protectedNameCache) {
- this.protectedNameCache = protectedNameCache;
- }
-
-
- /**
- * Generates and returns a concatenated and formated authorteams string
- * including basionym and combination authors of <i>this</i> non viral taxon name
- * according to the strategy defined in
- * {@link eu.etaxonomy.cdm.strategy.cache.name.INonViralNameCacheStrategy#getAuthorshipCache(NonViralName) INonViralNameCacheStrategy}.
- *
- * @return the string with the concatenated and formated authorteams for <i>this</i> non viral taxon name
- * @see eu.etaxonomy.cdm.strategy.cache.name.INonViralNameCacheStrategy#getAuthorshipCache(NonViralName)
- */
- public String generateAuthorship(){
- if (cacheStrategy == null){
- logger.warn("No CacheStrategy defined for nonViralName: " + this.getUuid());
- return null;
- }else{
- return ((INonViralNameCacheStrategy<T>)cacheStrategy).getAuthorshipCache((T)this);
- }
- }
-
- /**
- * Returns the concatenated and formated authorteams string including
- * basionym and combination authors of <i>this</i> non viral taxon name.
- * If the protectedAuthorshipCache flag is set this method returns the
- * string stored in the the authorshipCache attribute, otherwise it
- * generates the complete authorship string, returns it and stores it in
- * the authorshipCache attribute.
- *
- * @return the string with the concatenated and formated authorteams for <i>this</i> non viral taxon name
- * @see #generateAuthorship()
- */
- @Transient
- public String getAuthorshipCache() {
- if (protectedAuthorshipCache){
- return this.authorshipCache;
- }
- // is title dirty, i.e. equal NULL?
- if (this.authorshipCache == null || this.titleCache == null ){
- //TODO get is Dirty of authors
- this.authorshipCache = generateAuthorship();
- }
- return authorshipCache;
- }
-
- /**
- * Assigns an authorshipCache string to <i>this</i> non viral taxon name. Sets the isProtectedAuthorshipCache
- * flag to <code>true</code>.
- *
- * @param authorshipCache the string which identifies the complete authorship of <i>this</i> non viral taxon name
- * @see #getAuthorshipCache()
- */
- public void setAuthorshipCache(String authorshipCache) {
- setAuthorshipCache(authorshipCache, true);
- }
-
- /**
- * Assigns an authorshipCache string to <i>this</i> non viral taxon name.
- *
- * @param authorshipCache the string which identifies the complete authorship of <i>this</i> non viral taxon name
- * @param protectedAuthorshipCache if true the isProtectedAuthorshipCache flag is set to <code>true</code>, otherwise
- * the flag is set to <code>false</code>.
- * @see #getAuthorshipCache()
- */
- public void setAuthorshipCache(String authorshipCache, boolean protectedAuthorshipCache) {
- this.authorshipCache = authorshipCache;
- //TODO hibernate safe?
- if (! this.isProtectedTitleCache()){
- this.setTitleCache(null, false);
- }
- this.setProtectedAuthorshipCache(protectedAuthorshipCache);
- }
-
- public void setTitleCache(String titleCache, boolean protectCache){
- super.setTitleCache(titleCache, protectCache);
- if (! this.isProtectedFullTitleCache()){
- this.fullTitleCache = null;
- }
- }
-
- /**
- * Returns the boolean value "false" since the components of <i>this</i> taxon name
- * cannot follow the rules of a corresponding {@link NomenclaturalCode nomenclatural code}
- * which is not defined for this class. The nomenclature code depends on
- * the concrete name subclass ({@link BacterialName BacterialName},
- * {@link BotanicalName BotanicalName}, {@link CultivarPlantName CultivarPlantName} or
- * {@link ZoologicalName ZoologicalName} to which <i>this</i> non viral taxon name belongs.
- * This method overrides the isCodeCompliant method from the abstract
- * {@link TaxonNameBase#isCodeCompliant() TaxonNameBase} class.
- *
- * @return false
- * @see TaxonNameBase#isCodeCompliant()
- */
- @Override
- @Transient
- public boolean isCodeCompliant() {
- //FIXME
- logger.warn("is CodeCompliant not yet implemented");
- return false;
- }
-
- /* (non-Javadoc)
- * @see eu.etaxonomy.cdm.model.name.TaxonNameBase#getNomeclaturalCode()
- */
- /**
- * Returns null as {@link NomenclaturalCode nomenclatural code} that governs
- * the construction of <i>this</i> non viral taxon name since there is no specific
- * nomenclatural code defined. The real implementention takes place in the
- * subclasses {@link BacterialName BacterialName},
- * {@link BotanicalName BotanicalName}, {@link CultivarPlantName CultivarPlantName} and
- * {@link ZoologicalName ZoologicalName}.
- * This method overrides the getNomeclaturalCode method from {@link TaxonNameBase TaxonNameBase}.
- *
- * @return null
- * @see #isCodeCompliant()
- * @see TaxonNameBase#getHasProblem()
- */
- @Override
- @Transient
- public NomenclaturalCode getNomenclaturalCode() {
- logger.warn("Non Viral Name has no specific Code defined. Use subclasses");
- return null;
- }
-
- /**
- * Returns the boolean value of the flag intended to protect (true)
- * or not (false) the {@link #getAuthorshipCache() authorshipCache} (complete authorship string)
- * of <i>this</i> non viral taxon name.
- *
- * @return the boolean value of the protectedAuthorshipCache flag
- * @see #getAuthorshipCache()
- */
- public boolean isProtectedAuthorshipCache() {
- return protectedAuthorshipCache;
- }
-
- /**
- * @see #isProtectedAuthorshipCache()
- * @see #getAuthorshipCache()
- */
- public void setProtectedAuthorshipCache(boolean protectedAuthorshipCache) {
- this.protectedAuthorshipCache = protectedAuthorshipCache;
- if (protectedAuthorshipCache == false){
- if (! this.isProtectedFullTitleCache()){
- this.setFullTitleCache(null, false);
- }
- }
- }
-
-
- /**
- * Returns the boolean value of the flag indicating whether the name of <i>this</i>
- * botanical taxon name is a hybrid formula (true) or not (false). A hybrid
- * named by a hybrid formula (composed with its parent names by placing the
- * multiplication sign between them) does not have an own published name
- * and therefore has neither an {@link NonViralName#getAuthorshipCache() autorship}
- * nor other name components. If this flag is set no other hybrid flags may
- * be set.
- *
- * @return the boolean value of the isHybridFormula flag
- * @see #isMonomHybrid()
- * @see #isBinomHybrid()
- * @see #isTrinomHybrid()
- */
- public boolean isHybridFormula(){
- return this.hybridFormula;
- }
-
- /**
- * @see #isHybridFormula()
- */
- public void setHybridFormula(boolean hybridFormula){
- this.hybridFormula = hybridFormula;
- }
-
- /**
- * Returns the boolean value of the flag indicating whether <i>this</i> botanical
- * taxon name is the name of an intergeneric hybrid (true) or not (false).
- * In this case the multiplication sign is placed before the scientific
- * name. If this flag is set no other hybrid flags may be set.
- *
- * @return the boolean value of the isMonomHybrid flag
- * @see #isHybridFormula()
- * @see #isBinomHybrid()
- * @see #isTrinomHybrid()
- */
- public boolean isMonomHybrid(){
- return this.monomHybrid;
- }
-
- /**
- * @see #isMonomHybrid()
- * @see #isBinomHybrid()
- * @see #isTrinomHybrid()
- */
- public void setMonomHybrid(boolean monomHybrid){
- this.monomHybrid = monomHybrid;
- }
-
- /**
- * Returns the boolean value of the flag indicating whether <i>this</i> botanical
- * taxon name is the name of an interspecific hybrid (true) or not (false).
- * In this case the multiplication sign is placed before the species
- * epithet. If this flag is set no other hybrid flags may be set.
- *
- * @return the boolean value of the isBinomHybrid flag
- * @see #isHybridFormula()
- * @see #isMonomHybrid()
- * @see #isTrinomHybrid()
- */
- public boolean isBinomHybrid(){
- return this.binomHybrid;
- }
-
- /**
- * @see #isBinomHybrid()
- * @see #isMonomHybrid()
- * @see #isTrinomHybrid()
- */
- public void setBinomHybrid(boolean binomHybrid){
- this.binomHybrid = binomHybrid;
- }
-
- /**
- * Returns the boolean value of the flag indicating whether <i>this</i> botanical
- * taxon name is the name of an infraspecific hybrid (true) or not (false).
- * In this case the term "notho-" (optionally abbreviated "n-") is used as
- * a prefix to the term denoting the infraspecific rank of <i>this</i> botanical
- * taxon name. If this flag is set no other hybrid flags may be set.
- *
- * @return the boolean value of the isTrinomHybrid flag
- * @see #isHybridFormula()
- * @see #isMonomHybrid()
- * @see #isBinomHybrid()
- */
- public boolean isTrinomHybrid(){
- return this.trinomHybrid;
- }
-
- /**
- * @see #isTrinomHybrid()
- * @see #isBinomHybrid()
- * @see #isMonomHybrid()
- */
- public void setTrinomHybrid(boolean trinomHybrid){
- this.trinomHybrid = trinomHybrid;
- }
-
- /**
- * Returns the set of all {@link HybridRelationship hybrid relationships}
- * in which <i>this</i> taxon name is involved as a {@link common.RelationshipBase#getRelatedFrom() parent}.
- *
- * @see #getHybridRelationships()
- * @see #getChildRelationships()
- * @see HybridRelationshipType
- */
- public Set<HybridRelationship> getParentRelationships() {
- return hybridParentRelations;
- }
-
- /**
- * Returns the set of all {@link HybridRelationship hybrid relationships}
- * in which <i>this</i> taxon name is involved as a {@link common.RelationshipBase#getRelatedTo() child}.
- *
- * @see #getHybridRelationships()
- * @see #getParentRelationships()
- * @see HybridRelationshipType
- */
- public Set<HybridRelationship> getChildRelationships() {
- return hybridChildRelations;
- }
-
- /**
- * Adds the given {@link HybridRelationship hybrid relationship} to the set
- * of {@link #getHybridRelationships() hybrid relationships} of both non viral taxon names
- * involved in this hybrid relationship. One of both non viral taxon names
- * must be <i>this</i> botanical taxon name otherwise no addition will be carried
- * out. The {@link eu.etaxonomy.cdm.model.common.RelationshipBase#getRelatedTo() child non viral taxon name}
- * must be a hybrid, which means that one of its four hybrid flags must be set.
- *
- * @param relationship the hybrid relationship to be added
- * @see #isHybridFormula()
- * @see #isMonomHybrid()
- * @see #isBinomHybrid()
- * @see #isTrinomHybrid()
- * @see #getHybridRelationships()
- * @see #getParentRelationships()
- * @see #getChildRelationships()
- * @see #addRelationship(RelationshipBase)
- * @throws IllegalArgumentException
- */
- protected void addHybridRelationship(HybridRelationship rel) {
- if (rel!=null && rel.getHybridName().equals(this)){
- this.hybridChildRelations.add(rel);
- }else if(rel!=null && rel.getParentName().equals(this)){
- this.hybridParentRelations.add(rel);
- }else{
- throw new IllegalArgumentException("Hybrid relationship is either null or the relationship does not reference this name");
- }
- }
-
-
-
- /**
- * Does the same as the addHybridRelationship method if the given
- * {@link common.RelationshipBase relation} is also a {@link HybridRelationship hybrid relationship}.
- * Otherwise this method does the same as the overwritten {@link TaxonNameBase#addRelationship(RelationshipBase) addRelationship}
- * method from TaxonNameBase.
- *
- * @param relation the relationship to be added to some of <i>this</i> taxon name's relationships sets
- * @see #addHybridRelationship(HybridRelationship)
- * @see TaxonNameBase#addRelationship(RelationshipBase)
- * @see TaxonNameBase#addNameRelationship(NameRelationship)
- */
- @Override
- @Deprecated //To be used by RelationshipBase only
- public void addRelationship(RelationshipBase relation) {
- if (relation instanceof HybridRelationship){
- addHybridRelationship((HybridRelationship)relation);
- }else {
- super.addRelationship(relation);
- }
- }
-
- /**
- * Creates a new {@link HybridRelationship#HybridRelationship(BotanicalName, BotanicalName, HybridRelationshipType, String) hybrid relationship}
- * to <i>this</i> botanical name. A HybridRelationship may be of type
- * "is first/second parent" or "is male/female parent". By invoking this
- * method <i>this</i> botanical name becomes a hybrid child of the parent
- * botanical name.
- *
- * @param parentName the botanical name of the parent for this new hybrid name relationship
- * @param type the type of this new name relationship
- * @param ruleConsidered the string which specifies the rule on which this name relationship is based
- * @see #addHybridChild(BotanicalName, HybridRelationshipType,String )
- * @see #getRelationsToThisName()
- * @see #getNameRelations()
- * @see #addRelationshipFromName(TaxonNameBase, NameRelationshipType, String)
- * @see #addNameRelationship(NameRelationship)
- */
- public void addHybridParent(NonViralName parentName, HybridRelationshipType type, String ruleConsidered){
- HybridRelationship rel = new HybridRelationship(this, parentName, type, ruleConsidered);
- }
-
- /**
- * Creates a new {@link HybridRelationship#HybridRelationship(BotanicalName, BotanicalName, HybridRelationshipType, String) hybrid relationship}
- * to <i>this</i> botanical name. A HybridRelationship may be of type
- * "is first/second parent" or "is male/female parent". By invoking this
- * method <i>this</i> botanical name becomes a parent of the hybrid child
- * botanical name.
- *
- * @param childName the botanical name of the child for this new hybrid name relationship
- * @param type the type of this new name relationship
- * @param ruleConsidered the string which specifies the rule on which this name relationship is based
- * @see #addHybridParent(BotanicalName, HybridRelationshipType,String )
- * @see #getRelationsToThisName()
- * @see #getNameRelations()
- * @see #addRelationshipFromName(TaxonNameBase, NameRelationshipType, String)
- * @see #addNameRelationship(NameRelationship)
- */
- public void addHybridChild(NonViralName childName, HybridRelationshipType type, String ruleConsidered){
- HybridRelationship rel = new HybridRelationship(childName, this, type, ruleConsidered);
- }
-
-
- /**
- * Removes one {@link HybridRelationship hybrid relationship} from the set of
- * {@link #getHybridRelationships() hybrid relationships} in which <i>this</i> botanical taxon name
- * is involved. The hybrid relationship will also be removed from the set
- * belonging to the second botanical taxon name involved.
- *
- * @param relationship the hybrid relationship which should be deleted from the corresponding sets
- * @see #getHybridRelationships()
- */
- public void removeHybridRelationship(HybridRelationship hybridRelation) {
- if (hybridRelation == null) {
- return;
- }
-
- NonViralName parent = hybridRelation.getParentName();
- NonViralName child = hybridRelation.getHybridName();
-
- hybridRelation.setHybridName(null);
- hybridRelation.setParentName(null);
-
- if (parent != null) {
- parent.removeHybridRelationship(hybridRelation);
- }
-
- if (child != null) {
- child.removeHybridRelationship(hybridRelation);
- }
-
- this.hybridChildRelations.remove(hybridRelation);
- this.hybridParentRelations.remove(hybridRelation);
- }
-
-
- public void removeHybridChild(NonViralName child) {
- Set<HybridRelationship> hybridRelationships = new HashSet<HybridRelationship>();
- hybridRelationships.addAll(this.getChildRelationships());
- hybridRelationships.addAll(this.getParentRelationships());
- for(HybridRelationship hybridRelationship : hybridRelationships) {
- // remove name relationship from this side
- if (hybridRelationship.getParentName().equals(this) && hybridRelationship.getHybridName().equals(child)) {
- this.removeHybridRelationship(hybridRelationship);
- }
- }
- }
-
- public void removeHybridParent(NonViralName parent) {
- Set<HybridRelationship> hybridRelationships = new HashSet<HybridRelationship>();
- hybridRelationships.addAll(this.getChildRelationships());
- hybridRelationships.addAll(this.getParentRelationships());
- for(HybridRelationship hybridRelationship : hybridRelationships) {
- // remove name relationship from this side
- if (hybridRelationship.getParentName().equals(parent) && hybridRelationship.getHybridName().equals(this)) {
- this.removeHybridRelationship(hybridRelationship);
- }
- }
- }
+ @Override
+ public String generateFullTitle(){
+ if (cacheStrategy == null){
+ logger.warn("No CacheStrategy defined for nonViralName: " + this.getUuid());
+ return null;
+ }else{
+ return cacheStrategy.getFullTitleCache(this);
+ }
+ }
+
+ /**
+ * Generates the composed name string of <i>this</i> non viral taxon name without author
+ * strings or year according to the strategy defined in
+ * {@link eu.etaxonomy.cdm.strategy.cache.name.INonViralNameCacheStrategy INonViralNameCacheStrategy}.
+ * The result might be stored in {@link #getNameCache() nameCache} if the
+ * flag {@link #isProtectedNameCache() protectedNameCache} is not set.
+ *
+ * @return the string with the composed name of <i>this</i> non viral taxon name without authors or year
+ * @see #getNameCache()
+ */
+ protected String generateNameCache(){
+ if (cacheStrategy == null){
+ logger.warn("No CacheStrategy defined for taxonName: " + this.toString());
+ return null;
+ }else{
+ return cacheStrategy.getNameCache(this);
+ }
+ }
+
+ /**
+ * Returns or generates the nameCache (scientific name
+ * without author strings and year) string for <i>this</i> non viral taxon name. If the
+ * {@link #isProtectedNameCache() protectedNameCache} flag is not set (False)
+ * the string will be generated according to a defined strategy,
+ * otherwise the value of the actual nameCache string will be returned.
+ *
+ * @return the string which identifies <i>this</i> non viral taxon name (without authors or year)
+ * @see #generateNameCache()
+ */
+ @Transient
+ public String getNameCache() {
+ if (protectedNameCache){
+ return this.nameCache;
+ }
+ // is title dirty, i.e. equal NULL?
+ if (nameCache == null){
+ this.nameCache = generateNameCache();
+ }
+ return nameCache;
+ }
+
+ /**
+ * Assigns a nameCache string to <i>this</i> non viral taxon name and protects it from being overwritten.
+ * Sets the protectedNameCache flag to <code>true</code>.
+ *
+ * @param nameCache the string which identifies <i>this</i> non viral taxon name (without authors or year)
+ * @see #getNameCache()
+ */
+ public void setNameCache(String nameCache){
+ setNameCache(nameCache, true);
+ }
+
+ /**
+ * Assigns a nameCache string to <i>this</i> non viral taxon name and protects it from being overwritten.
+ * Sets the protectedNameCache flag to <code>true</code>.
+ *
+ * @param nameCache the string which identifies <i>this</i> non viral taxon name (without authors or year)
+ * @param protectedNameCache if true teh protectedNameCache is set to <code>true</code> or otherwise set to
+ * <code>false</code>
+ * @see #getNameCache()
+ */
+ public void setNameCache(String nameCache, boolean protectedNameCache){
+ this.nameCache = nameCache;
+ this.setProtectedNameCache(protectedNameCache);
+ }
+
+ /**
+ * Returns the boolean value of the flag intended to protect (true)
+ * or not (false) the {@link #getNameCache() nameCache} (scientific name without author strings and year)
+ * string of <i>this</i> non viral taxon name.
+ *
+ * @return the boolean value of the protectedNameCache flag
+ * @see #getNameCache()
+ */
+ public boolean isProtectedNameCache() {
+ return protectedNameCache;
+ }
+
+ /**
+ * @see #isProtectedNameCache()
+ */
+ public void setProtectedNameCache(boolean protectedNameCache) {
+ this.protectedNameCache = protectedNameCache;
+ }
+
+
+ /**
+ * Generates and returns a concatenated and formated authorteams string
+ * including basionym and combination authors of <i>this</i> non viral taxon name
+ * according to the strategy defined in
+ * {@link eu.etaxonomy.cdm.strategy.cache.name.INonViralNameCacheStrategy#getAuthorshipCache(NonViralName) INonViralNameCacheStrategy}.
+ *
+ * @return the string with the concatenated and formated authorteams for <i>this</i> non viral taxon name
+ * @see eu.etaxonomy.cdm.strategy.cache.name.INonViralNameCacheStrategy#getAuthorshipCache(NonViralName)
+ */
+ public String generateAuthorship(){
+ if (cacheStrategy == null){
+ logger.warn("No CacheStrategy defined for nonViralName: " + this.getUuid());
+ return null;
+ }else{
+ return ((INonViralNameCacheStrategy<T>)cacheStrategy).getAuthorshipCache((T)this);
+ }
+ }
+
+ /**
+ * Returns the concatenated and formated authorteams string including
+ * basionym and combination authors of <i>this</i> non viral taxon name.
+ * If the protectedAuthorshipCache flag is set this method returns the
+ * string stored in the the authorshipCache attribute, otherwise it
+ * generates the complete authorship string, returns it and stores it in
+ * the authorshipCache attribute.
+ *
+ * @return the string with the concatenated and formated authorteams for <i>this</i> non viral taxon name
+ * @see #generateAuthorship()
+ */
+ @Transient
+ public String getAuthorshipCache() {
+ if (protectedAuthorshipCache){
+ return this.authorshipCache;
+ }
+ if (this.authorshipCache == null ){
+ this.authorshipCache = generateAuthorship();
+ }else{
+ //TODO get is Dirty of authors, make better if possible
+ this.setAuthorshipCache(generateAuthorship(), protectedAuthorshipCache); //throw change event to inform higher caches
+
+ }
+ return authorshipCache;
+ }
+
+
+ /**
+ * Updates the authorship cache if any changes appeared in the authors nomenclatural caches.
+ * Deletes the titleCache and the fullTitleCache if not protected and if any change has happened
+ * @return
+ */
+ private void updateAuthorshipCache() {
+ //updates the authorship cache if necessary and via the listener updates all higher caches
+ if (protectedAuthorshipCache == false){
+ String oldCache = this.authorshipCache;
+ String newCache = this.getAuthorshipCache();
+ if ( (oldCache == null && newCache != null) || CdmUtils.nullSafeEqual(oldCache,newCache)){
+ this.setAuthorshipCache(this.getAuthorshipCache(), false);
+ }
+ }
+ }
+
+ /**
+ * Assigns an authorshipCache string to <i>this</i> non viral taxon name. Sets the isProtectedAuthorshipCache
+ * flag to <code>true</code>.
+ *
+ * @param authorshipCache the string which identifies the complete authorship of <i>this</i> non viral taxon name
+ * @see #getAuthorshipCache()
+ */
+ public void setAuthorshipCache(String authorshipCache) {
+ setAuthorshipCache(authorshipCache, true);
+ }
+
+ @Override
+ @Transient
+ public String getFullTitleCache(){
+ updateAuthorshipCache();
+ return super.getFullTitleCache();
+ }
+
+ @Override
+ public String getTitleCache(){
+ if(!protectedTitleCache) {
+ updateAuthorshipCache();
+ }
+
+ return super.getTitleCache();
+ }
+
+
+ /**
+ * Assigns an authorshipCache string to <i>this</i> non viral taxon name.
+ *
+ * @param authorshipCache the string which identifies the complete authorship of <i>this</i> non viral taxon name
+ * @param protectedAuthorshipCache if true the isProtectedAuthorshipCache flag is set to <code>true</code>, otherwise
+ * the flag is set to <code>false</code>.
+ * @see #getAuthorshipCache()
+ */
+ public void setAuthorshipCache(String authorshipCache, boolean protectedAuthorshipCache) {
+ this.authorshipCache = authorshipCache;
+ this.setProtectedAuthorshipCache(protectedAuthorshipCache);
+ }
+
+ @Override
+ public void setTitleCache(String titleCache, boolean protectCache){
+ super.setTitleCache(titleCache, protectCache);
+ }
+
+ /**
+ * Returns the boolean value "false" since the components of <i>this</i> taxon name
+ * cannot follow the rules of a corresponding {@link NomenclaturalCode nomenclatural code}
+ * which is not defined for this class. The nomenclature code depends on
+ * the concrete name subclass ({@link BacterialName BacterialName},
+ * {@link BotanicalName BotanicalName}, {@link CultivarPlantName CultivarPlantName} or
+ * {@link ZoologicalName ZoologicalName} to which <i>this</i> non viral taxon name belongs.
+ * This method overrides the isCodeCompliant method from the abstract
+ * {@link TaxonNameBase#isCodeCompliant() TaxonNameBase} class.
+ *
+ * @return false
+ * @see TaxonNameBase#isCodeCompliant()
+ */
+ @Override
+ @Transient
+ public boolean isCodeCompliant() {
+ //FIXME
+ logger.warn("is CodeCompliant not yet implemented");
+ return false;
+ }
+
+ /* (non-Javadoc)
+ * @see eu.etaxonomy.cdm.model.name.TaxonNameBase#getNomeclaturalCode()
+ */
+ /**
+ * Returns null as {@link NomenclaturalCode nomenclatural code} that governs
+ * the construction of <i>this</i> non viral taxon name since there is no specific
+ * nomenclatural code defined. The real implementention takes place in the
+ * subclasses {@link BacterialName BacterialName},
+ * {@link BotanicalName BotanicalName}, {@link CultivarPlantName CultivarPlantName} and
+ * {@link ZoologicalName ZoologicalName}.
+ * This method overrides the getNomeclaturalCode method from {@link TaxonNameBase TaxonNameBase}.
+ *
+ * @return null
+ * @see #isCodeCompliant()
+ * @see TaxonNameBase#getHasProblem()
+ */
+ @Override
+ @Transient
+ public NomenclaturalCode getNomenclaturalCode() {
+ logger.warn("Non Viral Name has no specific Code defined. Use subclasses");
+ return null;
+ }
+
+ /**
+ * Returns the boolean value of the flag intended to protect (true)
+ * or not (false) the {@link #getAuthorshipCache() authorshipCache} (complete authorship string)
+ * of <i>this</i> non viral taxon name.
+ *
+ * @return the boolean value of the protectedAuthorshipCache flag
+ * @see #getAuthorshipCache()
+ */
+ public boolean isProtectedAuthorshipCache() {
+ return protectedAuthorshipCache;
+ }
+
+ /**
+ * @see #isProtectedAuthorshipCache()
+ * @see #getAuthorshipCache()
+ */
+ public void setProtectedAuthorshipCache(boolean protectedAuthorshipCache) {
+ this.protectedAuthorshipCache = protectedAuthorshipCache;
+ }
+
+
+ /**
+ * Returns the boolean value of the flag indicating whether the name of <i>this</i>
+ * botanical taxon name is a hybrid formula (true) or not (false). A hybrid
+ * named by a hybrid formula (composed with its parent names by placing the
+ * multiplication sign between them) does not have an own published name
+ * and therefore has neither an {@link NonViralName#getAuthorshipCache() autorship}
+ * nor other name components. If this flag is set no other hybrid flags may
+ * be set.
+ *
+ * @return the boolean value of the isHybridFormula flag
+ * @see #isMonomHybrid()
+ * @see #isBinomHybrid()
+ * @see #isTrinomHybrid()
+ */
+ public boolean isHybridFormula(){
+ return this.hybridFormula;
+ }
+
+ /**
+ * @see #isHybridFormula()
+ */
+ public void setHybridFormula(boolean hybridFormula){
+ this.hybridFormula = hybridFormula;
+ }
+
+ /**
+ * Returns the boolean value of the flag indicating whether <i>this</i> botanical
+ * taxon name is the name of an intergeneric hybrid (true) or not (false).
+ * In this case the multiplication sign is placed before the scientific
+ * name. If this flag is set no other hybrid flags may be set.
+ *
+ * @return the boolean value of the isMonomHybrid flag
+ * @see #isHybridFormula()
+ * @see #isBinomHybrid()
+ * @see #isTrinomHybrid()
+ */
+ public boolean isMonomHybrid(){
+ return this.monomHybrid;
+ }
+
+ /**
+ * @see #isMonomHybrid()
+ * @see #isBinomHybrid()
+ * @see #isTrinomHybrid()
+ */
+ public void setMonomHybrid(boolean monomHybrid){
+ this.monomHybrid = monomHybrid;
+ }
+
+ /**
+ * Returns the boolean value of the flag indicating whether <i>this</i> botanical
+ * taxon name is the name of an interspecific hybrid (true) or not (false).
+ * In this case the multiplication sign is placed before the species
+ * epithet. If this flag is set no other hybrid flags may be set.
+ *
+ * @return the boolean value of the isBinomHybrid flag
+ * @see #isHybridFormula()
+ * @see #isMonomHybrid()
+ * @see #isTrinomHybrid()
+ */
+ public boolean isBinomHybrid(){
+ return this.binomHybrid;
+ }
+
+ /**
+ * @see #isBinomHybrid()
+ * @see #isMonomHybrid()
+ * @see #isTrinomHybrid()
+ */
+ public void setBinomHybrid(boolean binomHybrid){
+ this.binomHybrid = binomHybrid;
+ }
+
+ /**
+ * Returns the boolean value of the flag indicating whether <i>this</i> botanical
+ * taxon name is the name of an infraspecific hybrid (true) or not (false).
+ * In this case the term "notho-" (optionally abbreviated "n-") is used as
+ * a prefix to the term denoting the infraspecific rank of <i>this</i> botanical
+ * taxon name. If this flag is set no other hybrid flags may be set.
+ *
+ * @return the boolean value of the isTrinomHybrid flag
+ * @see #isHybridFormula()
+ * @see #isMonomHybrid()
+ * @see #isBinomHybrid()
+ */
+ public boolean isTrinomHybrid(){
+ return this.trinomHybrid;
+ }
+
+ /**
+ * @see #isTrinomHybrid()
+ * @see #isBinomHybrid()
+ * @see #isMonomHybrid()
+ */
+ public void setTrinomHybrid(boolean trinomHybrid){
+ this.trinomHybrid = trinomHybrid;
+ }
+
+
+ /**
+ * Returns the set of all {@link HybridRelationship hybrid relationships}
+ * in which <i>this</i> taxon name is involved as a {@link common.RelationshipBase#getRelatedFrom() parent}.
+ *
+ * @see #getHybridRelationships()
+ * @see #getChildRelationships()
+ * @see HybridRelationshipType
+ */
+ public Set<HybridRelationship> getHybridParentRelations() {
+ if(hybridParentRelations == null) {
+ this.hybridParentRelations = new HashSet<HybridRelationship>();
+ }
+ return hybridParentRelations;
+ }
+
+ private void setHybridParentRelations(Set<HybridRelationship> hybridParentRelations) {
+ this.hybridParentRelations = hybridParentRelations;
+ }
+
+
+ /**
+ * Returns the set of all {@link HybridRelationship hybrid relationships}
+ * in which <i>this</i> taxon name is involved as a {@link common.RelationshipBase#getRelatedTo() child}.
+ *
+ * @see #getHybridRelationships()
+ * @see #getParentRelationships()
+ * @see HybridRelationshipType
+ */
+ public Set<HybridRelationship> getHybridChildRelations() {
+ if(hybridChildRelations == null) {
+ this.hybridChildRelations = new HashSet<HybridRelationship>();
+ }
+ return hybridChildRelations;
+ }
+
+ private void setHybridChildRelations(Set<HybridRelationship> hybridChildRelations) {
+ this.hybridChildRelations = hybridChildRelations;
+ }
+
+ /**
+ * Returns the set of all {@link HybridRelationship hybrid relationships}
+ * in which <i>this</i> taxon name is involved as a {@link common.RelationshipBase#getRelatedFrom() parent}.
+ * @see #getHybridParentRelations()
+ * @see #getHybridRelationships()
+ * @see #getChildRelationships()
+ * @see HybridRelationshipType
+ * @deprecated use {@link #getHybridParentRelations()} instead. Will be removed in higher versions.
+ */
+ @Deprecated
+ @Transient
+ public Set<HybridRelationship> getParentRelationships() {
+ return getHybridParentRelations();
+ }
+
+ /**
+ * Returns the hybrid child relationships ordered by relationship type, or if equal
+ * by title cache of the related names.
+ * @see #getHybridParentRelations()
+ */
+ @Transient
+ public List<HybridRelationship> getOrderedChildRelationships(){
+ List<HybridRelationship> result = new ArrayList<HybridRelationship>();
+ result.addAll(this.hybridChildRelations);
+ Collections.sort(result);
+ Collections.reverse(result);
+ return result;
+
+ }
+
+
+ /**
+ * @see #getHybridChildRelations()
+ * @deprecated use {@link #getHybridChildRelations()} instead. Will be removed in higher versions.
+ */
+ @Transient
+ @Deprecated
+ public Set<HybridRelationship> getChildRelationships() {
+ return this.getHybridChildRelations();
+ }
+
+ /**
+ * Adds the given {@link HybridRelationship hybrid relationship} to the set
+ * of {@link #getHybridRelationships() hybrid relationships} of both non-viral names
+ * involved in this hybrid relationship. One of both non-viral names
+ * must be <i>this</i> non-viral name otherwise no addition will be carried
+ * out. The {@link eu.etaxonomy.cdm.model.common.RelationshipBase#getRelatedTo() child
+ * non viral taxon name} must be a hybrid, which means that one of its four hybrid flags must be set.
+ *
+ * @param relationship the hybrid relationship to be added
+ * @see #isHybridFormula()
+ * @see #isMonomHybrid()
+ * @see #isBinomHybrid()
+ * @see #isTrinomHybrid()
+ * @see #getHybridRelationships()
+ * @see #getParentRelationships()
+ * @see #getChildRelationships()
+ * @see #addRelationship(RelationshipBase)
+ * @throws IllegalArgumentException
+ */
+ protected void addHybridRelationship(HybridRelationship rel) {
+ if (rel!=null && rel.getHybridName().equals(this)){
+ this.hybridChildRelations.add(rel);
+ }else if(rel!=null && rel.getParentName().equals(this)){
+ this.hybridParentRelations.add(rel);
+ }else{
+ throw new IllegalArgumentException("Hybrid relationship is either null or the relationship does not reference this name");
+ }
+ }
+
+
+
+ /**
+ * Does the same as the addHybridRelationship method if the given
+ * {@link common.RelationshipBase relation} is also a {@link HybridRelationship hybrid relationship}.
+ * Otherwise this method does the same as the overwritten {@link TaxonNameBase#addRelationship(RelationshipBase) addRelationship}
+ * method from TaxonNameBase.
+ *
+ * @param relation the relationship to be added to some of <i>this</i> taxon name's relationships sets
+ * @see #addHybridRelationship(HybridRelationship)
+ * @see TaxonNameBase#addRelationship(RelationshipBase)
+ * @see TaxonNameBase#addNameRelationship(NameRelationship)
+ * @deprecated to be used by RelationshipBase only
+ */
+ @Override
+ @Deprecated //to be used by RelationshipBase only
+ public void addRelationship(RelationshipBase relation) {
+ if (relation instanceof HybridRelationship){
+ addHybridRelationship((HybridRelationship)relation);
+ }else {
+ super.addRelationship(relation);
+ }
+ }
+
+ /**
+ * Creates a new {@link HybridRelationship#HybridRelationship(BotanicalName, BotanicalName, HybridRelationshipType, String) hybrid relationship}
+ * to <i>this</i> botanical name. A HybridRelationship may be of type
+ * "is first/second parent" or "is male/female parent". By invoking this
+ * method <i>this</i> botanical name becomes a hybrid child of the parent
+ * botanical name.
+ *
+ * @param parentName the botanical name of the parent for this new hybrid name relationship
+ * @param type the type of this new name relationship
+ * @param ruleConsidered the string which specifies the rule on which this name relationship is based
+ * @return
+ * @see #addHybridChild(BotanicalName, HybridRelationshipType,String )
+ * @see #getRelationsToThisName()
+ * @see #getNameRelations()
+ * @see #addRelationshipFromName(TaxonNameBase, NameRelationshipType, String)
+ * @see #addNameRelationship(NameRelationship)
+ */
+ public HybridRelationship addHybridParent(NonViralName parentName, HybridRelationshipType type, String ruleConsidered){
+ return new HybridRelationship(this, parentName, type, ruleConsidered);
+ }
+
+ /**
+ * Creates a new {@link HybridRelationship#HybridRelationship(BotanicalName, BotanicalName, HybridRelationshipType, String) hybrid relationship}
+ * to <i>this</i> botanical name. A HybridRelationship may be of type
+ * "is first/second parent" or "is male/female parent". By invoking this
+ * method <i>this</i> botanical name becomes a parent of the hybrid child
+ * botanical name.
+ *
+ * @param childName the botanical name of the child for this new hybrid name relationship
+ * @param type the type of this new name relationship
+ * @param ruleConsidered the string which specifies the rule on which this name relationship is based
+ * @return
+ * @see #addHybridParent(BotanicalName, HybridRelationshipType,String )
+ * @see #getRelationsToThisName()
+ * @see #getNameRelations()
+ * @see #addRelationshipFromName(TaxonNameBase, NameRelationshipType, String)
+ * @see #addNameRelationship(NameRelationship)
+ */
+ public HybridRelationship addHybridChild(NonViralName childName, HybridRelationshipType type, String ruleConsidered){
+ return new HybridRelationship(childName, this, type, ruleConsidered);
+ }
+
+
+ /**
+ * Removes one {@link HybridRelationship hybrid relationship} from the set of
+ * {@link #getHybridRelationships() hybrid relationships} in which <i>this</i> botanical taxon name
+ * is involved. The hybrid relationship will also be removed from the set
+ * belonging to the second botanical taxon name involved.
+ *
+ * @param relationship the hybrid relationship which should be deleted from the corresponding sets
+ * @see #getHybridRelationships()
+ */
+ public void removeHybridRelationship(HybridRelationship hybridRelation) {
+ if (hybridRelation == null) {
+ return;
+ }
+
+ NonViralName parent = hybridRelation.getParentName();
+ NonViralName child = hybridRelation.getHybridName();
+
+ hybridRelation.setHybridName(null);
+ hybridRelation.setParentName(null);
+
+ if (parent != null) {
+ parent.removeHybridRelationship(hybridRelation);
+ }
+
+ if (child != null) {
+ child.removeHybridRelationship(hybridRelation);
+ }
+
+ this.hybridChildRelations.remove(hybridRelation);
+ this.hybridParentRelations.remove(hybridRelation);
+ }
+
+
+ public void removeHybridChild(NonViralName child) {
+ Set<HybridRelationship> hybridRelationships = new HashSet<HybridRelationship>();
+ hybridRelationships.addAll(this.getChildRelationships());
+ hybridRelationships.addAll(this.getParentRelationships());
+ for(HybridRelationship hybridRelationship : hybridRelationships) {
+ // remove name relationship from this side
+ if (hybridRelationship.getParentName().equals(this) && hybridRelationship.getHybridName().equals(child)) {
+ this.removeHybridRelationship(hybridRelationship);
+ }
+ }
+ }
+
+ public void removeHybridParent(NonViralName parent) {
+ Set<HybridRelationship> hybridRelationships = new HashSet<HybridRelationship>();
+ hybridRelationships.addAll(this.getChildRelationships());
+ hybridRelationships.addAll(this.getParentRelationships());
+ for(HybridRelationship hybridRelationship : hybridRelationships) {
+ // remove name relationship from this side
+ if (hybridRelationship.getParentName().equals(parent) && hybridRelationship.getHybridName().equals(this)) {
+ this.removeHybridRelationship(hybridRelationship);
+ }
+ }
+ }
+
+ /**
+ * Needs to be implemented by those classes that handle autonyms (e.g. botanical names).
+ **/
+ @Transient
+ public boolean isAutonym(){
+ return false;
+ }
+
+
+// /**
+// * Returns the boolean value indicating whether <i>this</i> names rank is Rank "unranked"
+// * (uuid = 'a965befb-70a9-4747-a18f-624456c65223') but most likely it is an infrageneric rank
+// * due to existing atomized data for the genus epithet and the infrageneric epithet but missing
+// * specific epithet.
+// * Returns false if <i>this</i> names rank is null.
+// *
+// * @see #isSupraGeneric()
+// * @see #isGenus()
+// * @see #isSpeciesAggregate()
+// * @see #isSpecies()
+// * @see #isInfraSpecific()
+// */
+// @Transient
+// public boolean isInfragenericUnranked() {
+// Rank rank = this.getRank();
+// if (rank == null || ! rank.equals(Rank.UNRANKED())){
+// return false;
+// }
+// if (StringUtils.isBlank(this.getSpecificEpithet()) && StringUtils.isBlank(this.getInfraSpecificEpithet()) ){
+// return true;
+// }else{
+// return false;
+// }
+// }
+
+
+ /**
+ * Tests if the given name has any authors.
+ * @return false if no author ((ex)combination or (ex)basionym) exists, true otherwise
+ */
+ public boolean hasAuthors() {
+ return (this.getCombinationAuthorTeam() != null ||
+ this.getExCombinationAuthorTeam() != null ||
+ this.getBasionymAuthorTeam() != null ||
+ this.getExBasionymAuthorTeam() != null);
+ }
+
+ /**
+ * Shortcut. Returns the combination authors title cache. Returns null if no combination author exists.
+ * @return
+ */
+ public String computeCombinationAuthorNomenclaturalTitle() {
+ return computeNomenclaturalTitle(this.getCombinationAuthorTeam());
+ }
+
+ /**
+ * Shortcut. Returns the basionym authors title cache. Returns null if no basionym author exists.
+ * @return
+ */
+ public String computeBasionymAuthorNomenclaturalTitle() {
+ return computeNomenclaturalTitle(this.getBasionymAuthorTeam());
+ }
+
+
+ /**
+ * Shortcut. Returns the ex-combination authors title cache. Returns null if no ex-combination author exists.
+ * @return
+ */
+ public String computeExCombinationAuthorNomenclaturalTitle() {
+ return computeNomenclaturalTitle(this.getExCombinationAuthorTeam());
+ }
+
+ /**
+ * Shortcut. Returns the ex-basionym authors title cache. Returns null if no exbasionym author exists.
+ * @return
+ */
+ public String computeExBasionymAuthorNomenclaturalTitle() {
+ return computeNomenclaturalTitle(this.getExBasionymAuthorTeam());
+ }
+
+ private String computeNomenclaturalTitle(INomenclaturalAuthor author){
+ if (author == null){
+ return null;
+ }else{
+ return author.getNomenclaturalTitle();
+ }
+ }
+
+//*********************** CLONE ********************************************************/
+
+ /**
+ * Clones <i>this</i> non-viral name. This is a shortcut that enables to create
+ * a new instance that differs only slightly from <i>this</i> non-viral name by
+ * modifying only some of the attributes.
+ *
+ * @see eu.etaxonomy.cdm.model.name.TaxonNameBase#clone()
+ * @see java.lang.Object#clone()
+ */
+ @Override
+ public Object clone() {
+ NonViralName result = (NonViralName)super.clone();
+
+ //HybridChildRelations
+ result.hybridChildRelations = new HashSet<HybridRelationship>();
+ for (HybridRelationship hybridRelationship : getHybridChildRelations()){
+ HybridRelationship newChildRelationship = (HybridRelationship)hybridRelationship.clone();
+ newChildRelationship.setRelatedTo(result);
+ result.hybridChildRelations.add(newChildRelationship);
+ }
+
+ //HybridParentRelations
+ result.hybridParentRelations = new HashSet<HybridRelationship>();
+ for (HybridRelationship hybridRelationship : getHybridParentRelations()){
+ HybridRelationship newParentRelationship = (HybridRelationship)hybridRelationship.clone();
+ newParentRelationship.setRelatedFrom(result);
+ result.hybridParentRelations.add(newParentRelationship);
+ }
+
+ //empty caches
+ if (! protectedNameCache){
+ result.nameCache = null;
+ }
+
+ //empty caches
+ if (! protectedAuthorshipCache){
+ result.authorshipCache = null;
+ }
+ //no changes to: basionamyAuthorTeam, combinationAuthorTeam, exBasionymAuthorTeam, exCombinationAuthorTeam
+ //genusOrUninomial, infraGenericEpithet, specificEpithet, infraSpecificEpithet,
+ //protectedAuthorshipCache, protectedNameCache
+ //binomHybrid, monomHybrid, trinomHybrid, hybridFormula,
+ return result;
+ }
}
BGBM BDI Projects / cdmlib.git / blobdiff