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/**
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* Copyright (C) 2017 EDIT
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* European Distributed Institute of Taxonomy
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* http://www.e-taxonomy.eu
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*
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* The contents of this file are subject to the Mozilla Public License Version 1.1
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* See LICENSE.TXT at the top of this package for the full license terms.
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*/
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package eu.etaxonomy.cdm.model.name;
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import java.util.List;
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import java.util.Set;
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import javax.persistence.Transient;
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import eu.etaxonomy.cdm.model.agent.TeamOrPersonBase;
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/**
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* @author a.mueller
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* @since 21.01.2017
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*
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*/
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public interface INonViralName extends ITaxonNameBase{
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/**
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* Creates a new {@link HybridRelationship#HybridRelationship(TaxonName, TaxonName, HybridRelationshipType, String) hybrid relationship}
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* to <i>this</i> non viral name. A HybridRelationship may be of type
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* "is first/second parent" or "is male/female parent". By invoking this
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* method <i>this</i> non viral name becomes a parent of the hybrid child
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* non viral name.
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*
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* @param childName the non viral name of the child for this new hybrid name relationship
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* @param type the type of this new name relationship
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* @param ruleConsidered the string which specifies the rule on which this name relationship is based
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* @return
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* @see #addHybridParent(TaxonName, HybridRelationshipType,String )
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* @see #getRelationsToThisName()
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* @see #getNameRelations()
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* @see #addRelationshipFromName(TaxonName, NameRelationshipType, String)
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* @see #addNameRelationship(NameRelationship)
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*/
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public HybridRelationship addHybridChild(INonViralName childName, HybridRelationshipType type, String ruleConsidered);
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/**
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* Creates a new {@link HybridRelationship#HybridRelationship(TaxonName, TaxonName, HybridRelationshipType, String) hybrid relationship}
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* to <i>this</i> non viral name. A HybridRelationship may be of type
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* "is first/second parent" or "is male/female parent". By invoking this
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* method <i>this</i> non viral name becomes a hybrid child of the parent
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* non viral name.
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*
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* @param parentName the non viral name of the parent for this new hybrid name relationship
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* @param type the type of this new name relationship
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* @param ruleConsidered the string which specifies the rule on which this name relationship is based
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* @return
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* @see #addHybridChild(TaxonName, HybridRelationshipType,String )
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* @see #getRelationsToThisName()
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* @see #getNameRelations()
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* @see #addRelationshipFromName(TaxonName, NameRelationshipType, String)
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* @see #addNameRelationship(NameRelationship)
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*/
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public HybridRelationship addHybridParent(INonViralName parentName, HybridRelationshipType type, String ruleConsidered);
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/**
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* Shortcut. Returns the basionym authors title cache. Returns null if no basionym author exists.
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* @return
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*/
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public String computeBasionymAuthorNomenclaturalTitle() ;
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/**
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* Shortcut. Returns the combination authors title cache. Returns null if no combination author exists.
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* @return
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*/
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public String computeCombinationAuthorNomenclaturalTitle();
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/**
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* Shortcut. Returns the ex-basionym authors title cache. Returns null if no exbasionym author exists.
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* @return
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*/
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public String computeExBasionymAuthorNomenclaturalTitle();
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/**
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* Shortcut. Returns the ex-combination authors title cache. Returns null if no ex-combination author exists.
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* @return
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*/
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public String computeExCombinationAuthorNomenclaturalTitle();
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/**
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* Generates and returns a concatenated and formatted author teams string
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* including basionym and combination authors of <i>this</i> non viral taxon name
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* according to the strategy defined in
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* {@link eu.etaxonomy.cdm.strategy.cache.name.INonViralNameCacheStrategy#getAuthorshipCache(NonViralName) INonViralNameCacheStrategy}.
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*
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* @return the string with the concatenated and formated author teams for <i>this</i> non viral taxon name
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* @see eu.etaxonomy.cdm.strategy.cache.name.INonViralNameCacheStrategy#getAuthorshipCache(NonViralName)
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*/
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public String generateAuthorship();
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/**
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* Returns the concatenated and formatted author teams string including
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* basionym and combination authors of <i>this</i> non viral taxon name.
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* If the protectedAuthorshipCache flag is set this method returns the
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* string stored in the the authorshipCache attribute, otherwise it
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* generates the complete authorship string, returns it and stores it in
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* the authorshipCache attribute.
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*
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* @return the string with the concatenated and formated author teams for <i>this</i> non viral taxon name
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* @see #generateAuthorship()
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*/
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@Transient
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public String getAuthorshipCache();
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/**
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* Returns the {@link eu.etaxonomy.cdm.model.agent.TeamOrPersonBase author (team)} that published the original combination
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* on which <i>this</i> non viral taxon name is nomenclaturally based. Such an
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* author (team) can only exist if <i>this</i> non viral taxon name is a new
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* combination due to a taxonomical revision.
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*
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* @return the nomenclatural basionym author (team) of <i>this</i> non viral taxon name
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* @see #getCombinationAuthorship()
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* @see eu.etaxonomy.cdm.model.agent.INomenclaturalAuthor
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* @see eu.etaxonomy.cdm.model.agent.TeamOrPersonBase#getNomenclaturalTitle()
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*/
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public TeamOrPersonBase<?> getBasionymAuthorship();
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/**
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* Returns the {@link eu.etaxonomy.cdm.model.agent.TeamOrPersonBase author (team)} that published <i>this</i> non viral
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* taxon name.
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*
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* @return the nomenclatural author (team) of <i>this</i> non viral taxon name
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* @see eu.etaxonomy.cdm.model.agent.INomenclaturalAuthor
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* @see eu.etaxonomy.cdm.model.agent.TeamOrPersonBase#getNomenclaturalTitle()
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*/
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public TeamOrPersonBase<?> getCombinationAuthorship();
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/**
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* Returns the {@link eu.etaxonomy.cdm.model.agent.TeamOrPersonBase author (team)} that contributed to
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* the publication of the original combination <i>this</i> non viral taxon name is
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* based on. This should have been generally stated by
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* the {@link #getBasionymAuthorship() basionym author (team)} itself.
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* The presence of a basionym author (team) of <i>this</i> non viral taxon name is a
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* condition for the existence of an ex basionym author (team)
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* for <i>this</i> same name.
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*
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* @return the nomenclatural ex basionym author (team) of <i>this</i> non viral taxon name
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* @see #getBasionymAuthorship()
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* @see #getExCombinationAuthorship()
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* @see #getCombinationAuthorship()
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* @see eu.etaxonomy.cdm.model.agent.INomenclaturalAuthor
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* @see eu.etaxonomy.cdm.model.agent.TeamOrPersonBase#getNomenclaturalTitle()
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*/
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public TeamOrPersonBase<?> getExBasionymAuthorship();
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/**
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* Returns the {@link eu.etaxonomy.cdm.model.agent.TeamOrPersonBase author (team)} that contributed to
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* the publication of <i>this</i> non viral taxon name as generally stated by
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* the {@link #getCombinationAuthorship() combination author (team)} itself.<BR>
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* An ex-author(-team) is an author(-team) to whom a taxon name was ascribed
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* although it is not the author(-team) of a valid publication (for instance
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* without the validating description or diagnosis in case of a name for a
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* new taxon). The name of this ascribed authorship, followed by "ex", may
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* be inserted before the name(s) of the publishing author(s) of the validly
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* published name:<BR>
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* <i>Lilium tianschanicum</i> was described by Grubov (1977) as a new species and
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* its name was ascribed to Ivanova; since there is no indication that
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* Ivanova provided the validating description, the name may be cited as
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* <i>Lilium tianschanicum</i> N. A. Ivanova ex Grubov or <i>Lilium tianschanicum</i> Grubov.
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* <P>
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* The presence of an author (team) of <i>this</i> non viral taxon name is a
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* condition for the existence of an ex author (team) for <i>this</i> same name.
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*
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* @return the nomenclatural ex author (team) of <i>this</i> non viral taxon name
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* @see #getCombinationAuthorship()
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* @see eu.etaxonomy.cdm.model.agent.INomenclaturalAuthor
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* @see eu.etaxonomy.cdm.model.agent.TeamOrPersonBase#getNomenclaturalTitle()
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*/
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public TeamOrPersonBase<?> getExCombinationAuthorship();
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/**
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* Returns either the scientific name string (without authorship) for <i>this</i>
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* non viral taxon name if its rank is genus or higher (monomial) or the string for
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* the genus part of it if its {@link Rank rank} is lower than genus (bi- or trinomial).
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* Genus or uninomial strings begin with an upper case letter.
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*
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* @return the string containing the suprageneric name, the genus name or the genus part of <i>this</i> non viral taxon name
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* @see #getNameCache()
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*/
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public String getGenusOrUninomial();
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/**
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* Returns the set of all {@link HybridRelationship hybrid relationships}
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* in which <i>this</i> taxon name is involved as a {@link common.RelationshipBase#getRelatedTo() child}.
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*
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* @see #getHybridRelationships()
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* @see #getParentRelationships()
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* @see HybridRelationshipType
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*/
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public Set<HybridRelationship> getHybridChildRelations();
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/**
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* Returns the set of all {@link HybridRelationship hybrid relationships}
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* in which <i>this</i> taxon name is involved as a {@link common.RelationshipBase#getRelatedFrom() parent}.
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*
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* @see #getHybridRelationships()
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* @see #getChildRelationships()
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* @see HybridRelationshipType
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*/
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public Set<HybridRelationship> getHybridParentRelations();
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/**
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* Returns the genus subdivision epithet string (infrageneric part) for
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* <i>this</i> non viral taxon name if its {@link Rank rank} is infrageneric (lower than genus and
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* higher than species aggregate: binomial). Genus subdivision epithet
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* strings begin with an upper case letter.
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*
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* @return the string containing the infrageneric part of <i>this</i> non viral taxon name
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* @see #getNameCache()
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*/
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public String getInfraGenericEpithet();
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/**
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* Returns the species epithet string for <i>this</i> non viral taxon name if its {@link Rank rank} is
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* species aggregate or lower (bi- or trinomial). Species epithet strings
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* begin with a lower case letter.
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*
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* @return the string containing the species epithet of <i>this</i> non viral taxon name
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* @see #getNameCache()
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*/
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public String getSpecificEpithet();
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/**
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* Returns the species subdivision epithet string (infraspecific part) for
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* <i>this</i> non viral taxon name if its {@link Rank rank} is infraspecific
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* (lower than species: trinomial). Species subdivision epithet strings
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* begin with a lower case letter.
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*
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* @return the string containing the infraspecific part of <i>this</i> non viral taxon name
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* @see #getNameCache()
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*/
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public String getInfraSpecificEpithet();
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/**
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* Defines the last part of the name.
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* This is for infraspecific taxa, the infraspecific epithet,
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* for species the specific epithet, for infageneric taxa the infrageneric epithet
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* else the genusOrUninomial.
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* However, the result does not depend on the rank (which may be not correctly set
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* in case of dirty data) but returns the first name part which is not blank
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* considering the above order.
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* @return the first not blank name part in reverse order
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*/
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public String getLastNamePart();
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/**
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* Returns or generates the nameCache (scientific name
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* without author strings and year) string for <i>this</i> non viral taxon name. If the
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* {@link #isProtectedNameCache() protectedNameCache} flag is not set (False)
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* the string will be generated according to a defined strategy,
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* otherwise the value of the actual nameCache string will be returned.
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*
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* @return the string which identifies <i>this</i> non viral taxon name (without authors or year)
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* @see #generateNameCache()
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*/
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@Transient
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public String getNameCache() ;
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/**
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* Returns the hybrid child relationships ordered by relationship type, or if equal
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* by title cache of the related names.
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* @see #getHybridParentRelations()
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*/
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@Transient
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public List<HybridRelationship> getOrderedChildRelationships();
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/**
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* Tests if the given name has any authors.
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* @return false if no author ((ex)combination or (ex)basionym) exists, true otherwise
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*/
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public boolean hasAuthors();
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/**
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* Needs to be implemented by those classes that handle autonyms (e.g. botanical names).
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**/
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@Transient
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public boolean isAutonym();
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/**
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* Returns the boolean value of the flag indicating whether the name of <i>this</i>
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* botanical taxon name is a hybrid formula (true) or not (false). A hybrid
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* named by a hybrid formula (composed with its parent names by placing the
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* multiplication sign between them) does not have an own published name
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* and therefore has neither an {@link NonViralName#getAuthorshipCache() autorship}
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* nor other name components. If this flag is set no other hybrid flags may
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* be set.
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*
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* @return the boolean value of the isHybridFormula flag
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* @see #isMonomHybrid()
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* @see #isBinomHybrid()
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* @see #isTrinomHybrid()
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* @see #isHybridName()
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* @see #isHybrid()
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*/
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public boolean isHybridFormula();
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/**
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* Returns the boolean value of the flag indicating whether <i>this</i> botanical
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* taxon name is the name of an intergeneric hybrid (true) or not (false).
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* In this case the multiplication sign is placed before the scientific
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* name. If this flag is set no other hybrid flags may be set.
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*
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* @return the boolean value of the isMonomHybrid flag
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* @see #isHybridFormula()
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* @see #isBinomHybrid()
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* @see #isTrinomHybrid()
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* @see #isHybridName()
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* @see #isHybrid()
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*/
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public boolean isMonomHybrid();
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/**
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* Returns the boolean value of the flag indicating whether <i>this</i> botanical
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* taxon name is the name of an interspecific hybrid (true) or not (false).
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* In this case the multiplication sign is placed before the species
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* epithet. If this flag is set no other hybrid flags may be set.
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*
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* @return the boolean value of the isBinomHybrid flag
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* @see #isHybridFormula()
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* @see #isMonomHybrid()
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* @see #isTrinomHybrid()
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* @see #isHybridName()
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* @see #isHybrid()
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*/
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public boolean isBinomHybrid();
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337
|
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338
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/**
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339
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* Returns the boolean value of the flag indicating whether <i>this</i> botanical
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340
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* taxon name is the name of an infraspecific hybrid (true) or not (false).
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341
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* In this case the term "notho-" (optionally abbreviated "n-") is used as
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342
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* a prefix to the term denoting the infraspecific rank of <i>this</i> botanical
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343
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* taxon name. If this flag is set no other hybrid flags may be set.
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344
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*
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345
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* @return the boolean value of the isTrinomHybrid flag
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346
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* @see #isHybridFormula()
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347
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* @see #isMonomHybrid()
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348
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* @see #isBinomHybrid()
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349
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* @see #isHybridName()
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350
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* @see #isHybrid()
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351
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*/
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352
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public boolean isTrinomHybrid();
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353
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354
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/**
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355
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* Computes if this name is a hybrid name. <code>true</code> if any of the monon, binom or trinom
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356
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* hybrid flags is set. <code>false</code> if neither of these flags is set.
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357
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* Note: usually <code>false</code> if the hybrid formula flag is set as a name is
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358
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* either a hybrid name or a hybrid formula or none of them, but never both.
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359
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*
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360
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* @return the boolean value indicating if this is a hybrid name
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361
|
* @see #isHybridFormula()
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362
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* @see #isMonomHybrid()
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363
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* @see #isBinomHybrid()
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364
|
* @see #isTrinomHybrid()
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365
|
* @see #isHybrid()
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|
366
|
*/
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367
|
@Transient
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|
368
|
@java.beans.Transient
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369
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public boolean isHybridName();
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|
370
|
|
|
371
|
/**
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372
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* Computes if this name is a hybrid (hybrid name or hybrid formula). <code>true</code> if any of the monon, binom, trinom
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373
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* hybrid flags or the hybrid formula flag is set. <code>false</code> otherwise.
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374
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*
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375
|
* @return the boolean value indicating if this is a hybrid
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376
|
* @see #isHybridFormula()
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|
377
|
* @see #isMonomHybrid()
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|
378
|
* @see #isBinomHybrid()
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|
379
|
* @see #isTrinomHybrid()
|
|
380
|
* @see #isHybridName()
|
|
381
|
*/
|
|
382
|
@Transient
|
|
383
|
@java.beans.Transient
|
|
384
|
public boolean isHybrid();
|
|
385
|
|
|
386
|
|
|
387
|
/**
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|
388
|
* Returns the boolean value of the flag intended to protect (true)
|
|
389
|
* or not (false) the {@link #getAuthorshipCache() authorshipCache} (complete authorship string)
|
|
390
|
* of <i>this</i> non viral taxon name.
|
|
391
|
*
|
|
392
|
* @return the boolean value of the protectedAuthorshipCache flag
|
|
393
|
* @see #getAuthorshipCache()
|
|
394
|
*/
|
|
395
|
public boolean isProtectedAuthorshipCache();
|
|
396
|
|
|
397
|
|
|
398
|
/**
|
|
399
|
* Returns the boolean value of the flag intended to protect (true)
|
|
400
|
* or not (false) the {@link #getNameCache() nameCache} (scientific name without author strings and year)
|
|
401
|
* string of <i>this</i> non viral taxon name.
|
|
402
|
*
|
|
403
|
* @return the boolean value of the protectedNameCache flag
|
|
404
|
* @see #getNameCache()
|
|
405
|
*/
|
|
406
|
public boolean isProtectedNameCache();
|
|
407
|
|
|
408
|
public void removeHybridChild(INonViralName child);
|
|
409
|
|
|
410
|
public void removeHybridParent(INonViralName parent);
|
|
411
|
|
|
412
|
/**
|
|
413
|
* Removes one {@link HybridRelationship hybrid relationship} from the set of
|
|
414
|
* {@link #getHybridRelationships() hybrid relationships} in which <i>this</i> botanical taxon name
|
|
415
|
* is involved. The hybrid relationship will also be removed from the set
|
|
416
|
* belonging to the second botanical taxon name involved.
|
|
417
|
*
|
|
418
|
* @param relationship the hybrid relationship which should be deleted from the corresponding sets
|
|
419
|
* @see #getHybridRelationships()
|
|
420
|
*/
|
|
421
|
public void removeHybridRelationship(HybridRelationship hybridRelation);
|
|
422
|
|
|
423
|
/**
|
|
424
|
* Assigns an authorshipCache string to <i>this</i> non viral taxon name. Sets the isProtectedAuthorshipCache
|
|
425
|
* flag to <code>true</code>.
|
|
426
|
*
|
|
427
|
* @param authorshipCache the string which identifies the complete authorship of <i>this</i> non viral taxon name
|
|
428
|
* @see #getAuthorshipCache()
|
|
429
|
*/
|
|
430
|
public void setAuthorshipCache(String authorshipCache);
|
|
431
|
|
|
432
|
|
|
433
|
/**
|
|
434
|
* Assigns an authorshipCache string to <i>this</i> non viral taxon name.
|
|
435
|
*
|
|
436
|
* @param authorshipCache the string which identifies the complete authorship of <i>this</i> non viral taxon name
|
|
437
|
* @param protectedAuthorshipCache if true the isProtectedAuthorshipCache flag is set to <code>true</code>, otherwise
|
|
438
|
* the flag is set to <code>false</code>.
|
|
439
|
* @see #getAuthorshipCache()
|
|
440
|
*/
|
|
441
|
public void setAuthorshipCache(String authorshipCache, boolean protectedAuthorshipCache);
|
|
442
|
|
|
443
|
/**
|
|
444
|
* @see #getBasionymAuthorship()
|
|
445
|
*/
|
|
446
|
public void setBasionymAuthorship(TeamOrPersonBase<?> basionymAuthorship);
|
|
447
|
|
|
448
|
/**
|
|
449
|
* @see #isBinomHybrid()
|
|
450
|
* @see #isMonomHybrid()
|
|
451
|
* @see #isTrinomHybrid()
|
|
452
|
*/
|
|
453
|
public void setBinomHybrid(boolean binomHybrid);
|
|
454
|
|
|
455
|
|
|
456
|
/**
|
|
457
|
* @see #getCombinationAuthorship()
|
|
458
|
*/
|
|
459
|
public void setCombinationAuthorship(TeamOrPersonBase<?> combinationAuthorship);
|
|
460
|
|
|
461
|
/**
|
|
462
|
* @see #getExBasionymAuthorship()
|
|
463
|
*/
|
|
464
|
public void setExBasionymAuthorship(TeamOrPersonBase<?> exBasionymAuthorship);
|
|
465
|
|
|
466
|
|
|
467
|
/**
|
|
468
|
* @see #getExCombinationAuthorship()
|
|
469
|
*/
|
|
470
|
public void setExCombinationAuthorship(TeamOrPersonBase<?> exCombinationAuthorship);
|
|
471
|
|
|
472
|
/**
|
|
473
|
* @see #getGenusOrUninomial()
|
|
474
|
*/
|
|
475
|
public void setGenusOrUninomial(String genusOrUninomial);
|
|
476
|
|
|
477
|
/**
|
|
478
|
* @see #isHybridFormula()
|
|
479
|
*/
|
|
480
|
public void setHybridFormula(boolean hybridFormula);
|
|
481
|
|
|
482
|
/**
|
|
483
|
* @see #getInfraGenericEpithet()
|
|
484
|
*/
|
|
485
|
public void setInfraGenericEpithet(String infraGenericEpithet);
|
|
486
|
|
|
487
|
/**
|
|
488
|
* @see #getInfraSpecificEpithet()
|
|
489
|
*/
|
|
490
|
public void setInfraSpecificEpithet(String infraSpecificEpithet);
|
|
491
|
|
|
492
|
/**
|
|
493
|
* @see #isMonomHybrid()
|
|
494
|
* @see #isBinomHybrid()
|
|
495
|
* @see #isTrinomHybrid()
|
|
496
|
*/
|
|
497
|
public void setMonomHybrid(boolean monomHybrid);
|
|
498
|
|
|
499
|
/**
|
|
500
|
* Assigns a nameCache string to <i>this</i> non viral taxon name and protects it from being overwritten.
|
|
501
|
* Sets the protectedNameCache flag to <code>true</code>.
|
|
502
|
*
|
|
503
|
* @param nameCache the string which identifies <i>this</i> non viral taxon name (without authors or year)
|
|
504
|
* @see #getNameCache()
|
|
505
|
*/
|
|
506
|
public void setNameCache(String nameCache);
|
|
507
|
|
|
508
|
/**
|
|
509
|
* Assigns a nameCache string to <i>this</i> non viral taxon name and protects it from being overwritten.
|
|
510
|
* Sets the protectedNameCache flag to <code>true</code>.
|
|
511
|
*
|
|
512
|
* @param nameCache the string which identifies <i>this</i> non viral taxon name (without authors or year)
|
|
513
|
* @param protectedNameCache if true teh protectedNameCache is set to <code>true</code> or otherwise set to
|
|
514
|
* <code>false</code>
|
|
515
|
* @see #getNameCache()
|
|
516
|
*/
|
|
517
|
public void setNameCache(String nameCache, boolean protectedNameCache);
|
|
518
|
|
|
519
|
/**
|
|
520
|
* @see #isProtectedAuthorshipCache()
|
|
521
|
* @see #getAuthorshipCache()
|
|
522
|
*/
|
|
523
|
public void setProtectedAuthorshipCache(boolean protectedAuthorshipCache);
|
|
524
|
|
|
525
|
/**
|
|
526
|
* @see #isProtectedNameCache()
|
|
527
|
*/
|
|
528
|
public void setProtectedNameCache(boolean protectedNameCache);
|
|
529
|
|
|
530
|
/**
|
|
531
|
* @see #getSpecificEpithet()
|
|
532
|
*/
|
|
533
|
public void setSpecificEpithet(String specificEpithet);
|
|
534
|
|
|
535
|
/**
|
|
536
|
* @see #isTrinomHybrid()
|
|
537
|
* @see #isBinomHybrid()
|
|
538
|
* @see #isMonomHybrid()
|
|
539
|
*/
|
|
540
|
public void setTrinomHybrid(boolean trinomHybrid);
|
|
541
|
}
|