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/**
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* Copyright (C) 2007 EDIT
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* European Distributed Institute of Taxonomy
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* http://www.e-taxonomy.eu
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*
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* The contents of this file are subject to the Mozilla Public License Version 1.1
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* See LICENSE.TXT at the top of this package for the full license terms.
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*/
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package eu.etaxonomy.cdm.model.name;
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import javax.persistence.Entity;
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import javax.persistence.Transient;
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import javax.xml.bind.annotation.XmlAccessType;
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import javax.xml.bind.annotation.XmlAccessorType;
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import javax.xml.bind.annotation.XmlElement;
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import javax.xml.bind.annotation.XmlRootElement;
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import javax.xml.bind.annotation.XmlType;
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import org.apache.log4j.Logger;
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import org.hibernate.envers.Audited;
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import org.hibernate.search.annotations.Field;
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import org.hibernate.search.annotations.Index;
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import org.hibernate.search.annotations.Indexed;
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import org.springframework.beans.factory.annotation.Configurable;
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/**
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* The taxon name class for bacteria.
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* <P>
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* This class corresponds to: NameBacterial according to the ABCD schema.
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*
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* @author m.doering
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* @version 1.0
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* @created 08-Nov-2007 13:06:11
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*/
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@XmlAccessorType(XmlAccessType.FIELD)
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@XmlType(name = "", propOrder = {
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"subGenusAuthorship",
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"nameApprobation"
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})
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@XmlRootElement(name = "BacterialName")
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@Entity
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@Indexed(index = "eu.etaxonomy.cdm.model.name.TaxonNameBase")
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@Audited
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@Configurable
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public class BacterialName extends NonViralName<BacterialName> {
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/**
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*
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*/
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private static final long serialVersionUID = -7641841279209976443L;
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static Logger logger = Logger.getLogger(BacterialName.class);
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//Author team and year of the subgenus name
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@XmlElement(name = "SubGenusAuthorship")
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@Field(index=Index.TOKENIZED)
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private String subGenusAuthorship;
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//Approbation of name according to approved list, validation list, or validly published, paper in IJSB after 1980
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@XmlElement(name = "NameApprobation")
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@Field(index=Index.TOKENIZED)
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private String nameApprobation;
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// ************* CONSTRUCTORS *************/
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protected BacterialName(){
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super();
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}
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/**
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* Class constructor: creates a new bacterial taxon name instance
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* only containing its {@link Rank rank},
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* its {@link HomotypicalGroup homotypical group} and
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* the {@link eu.etaxonomy.cdm.strategy.cache.name.NonViralNameDefaultCacheStrategy default cache strategy}.
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* The new bacterial taxon name instance will be also added to the set of
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* bacterial taxon names belonging to this homotypical group.
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*
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* @param rank the rank to be assigned to <i>this</i> bacterial taxon name
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* @param homotypicalGroup the homotypical group to which <i>this</i> bacterial taxon name belongs
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* @see #NewInstance(Rank)
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* @see #NewInstance(Rank, HomotypicalGroup)
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* @see eu.etaxonomy.cdm.strategy.cache.name.INonViralNameCacheStrategy
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* @see eu.etaxonomy.cdm.strategy.cache.name.INameCacheStrategy
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* @see eu.etaxonomy.cdm.strategy.cache.common.IIdentifiableEntityCacheStrategy
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*/
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protected BacterialName(Rank rank, HomotypicalGroup homotypicalGroup) {
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super(rank, homotypicalGroup);
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}
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//********* METHODS **************************************/
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/**
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* Creates a new bacterial taxon name instance
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* only containing its {@link Rank rank} and
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* the {@link eu.etaxonomy.cdm.strategy.cache.name.NonViralNameDefaultCacheStrategy default cache strategy}.
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*
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* @param rank the rank to be assigned to <i>this</i> bacterial taxon name
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* @see #NewInstance(Rank, HomotypicalGroup)
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* @see #BacterialName(Rank, HomotypicalGroup)
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* @see eu.etaxonomy.cdm.strategy.cache.name.INonViralNameCacheStrategy
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* @see eu.etaxonomy.cdm.strategy.cache.name.INameCacheStrategy
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* @see eu.etaxonomy.cdm.strategy.cache.common.IIdentifiableEntityCacheStrategy
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*/
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public static BacterialName NewInstance(Rank rank){
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return new BacterialName(rank, null);
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}
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/**
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* Creates a new bacterial taxon name instance
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* only containing its {@link Rank rank},
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* its {@link HomotypicalGroup homotypical group} and
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* the {@link eu.etaxonomy.cdm.strategy.cache.name.NonViralNameDefaultCacheStrategy default cache strategy}.
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* The new bacterial taxon name instance will be also added to the set of
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* bacterial taxon names belonging to this homotypical group.
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*
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* @param rank the rank to be assigned to <i>this</i> bacterial taxon name
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* @param homotypicalGroup the homotypical group to which <i>this</i> bacterial taxon name belongs
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* @see #NewInstance(Rank)
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* @see #BacterialName(Rank, HomotypicalGroup)
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* @see eu.etaxonomy.cdm.strategy.cache.name.INonViralNameCacheStrategy
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* @see eu.etaxonomy.cdm.strategy.cache.name.INameCacheStrategy
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* @see eu.etaxonomy.cdm.strategy.cache.common.IIdentifiableEntityCacheStrategy
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*/
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public static BacterialName NewInstance(Rank rank, HomotypicalGroup homotypicalGroup){
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return new BacterialName(rank, homotypicalGroup);
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}
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/**
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* Returns the string containing the authorship with the year and details
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* of the reference in which the subgenus included in the scientific name
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* of <i>this</i> bacterial taxon name was published.
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* For instance if the bacterial taxon name is
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* 'Bacillus (subgen. Aerobacillus Donker 1926, 128) polymyxa' the subgenus
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* authorship string is 'Donker 1926, 128'.
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*
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* @return the string containing the complete subgenus' authorship
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* included in <i>this</i> bacterial taxon name
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*/
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public String getSubGenusAuthorship(){
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return this.subGenusAuthorship;
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}
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/**
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* @see #getSubGenusAuthorship()
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*/
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public void setSubGenusAuthorship(String subGenusAuthorship){
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this.subGenusAuthorship = subGenusAuthorship;
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}
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/**
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* Returns the string representing the reason for the approbation of <i>this</i>
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* bacterial taxon name. Bacterial taxon names are valid or approved
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* according to:
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* <ul>
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* <li>the approved list, c.f.r. IJSB 1980 (AL)
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* <li>the validation list, in IJSB after 1980 (VL)
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* </ul>
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* or
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* <ul>
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* <li>are validly published as paper in IJSB after 1980 (VP).
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* </ul>
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* IJSB is the acronym for International Journal of Systematic Bacteriology.
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*
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* @return the string with the source of the approbation for <i>this</i> bacterial taxon name
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*/
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public String getNameApprobation(){
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return this.nameApprobation;
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}
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/**
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* @see #getNameApprobation()
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*/
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public void setNameApprobation(String nameApprobation){
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this.nameApprobation = nameApprobation;
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}
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/**
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* Returns the {@link NomenclaturalCode nomenclatural code} that governs
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* the construction of <i>this</i> bacterial taxon name, that is the
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* International Code of Nomenclature of Bacteria. This method overrides
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* the getNomeclaturalCode method from {@link NonViralName NonViralName}.
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*
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* @return the nomenclatural code for bacteria
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* @see NonViralName#isCodeCompliant()
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* @see TaxonNameBase#getHasProblem()
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*/
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@Override
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public NomenclaturalCode getNomenclaturalCode(){
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return NomenclaturalCode.ICNB;
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}
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}
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