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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.molecular;
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import javax.persistence.Column;
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import javax.persistence.Entity;
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import javax.persistence.FetchType;
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import javax.persistence.ManyToOne;
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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.XmlIDREF;
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import javax.xml.bind.annotation.XmlRootElement;
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import javax.xml.bind.annotation.XmlSchemaType;
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import javax.xml.bind.annotation.XmlType;
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import org.apache.log4j.Logger;
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import org.hibernate.envers.Audited;
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import org.hibernate.search.annotations.Field;
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import eu.etaxonomy.cdm.model.common.DefinedTerm;
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import eu.etaxonomy.cdm.model.common.EventBase;
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import eu.etaxonomy.cdm.model.occurrence.MaterialOrMethodEvent;
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/**
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* Cloning is a method used in {@link Amplification DNA amplification} for multiplying the base
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* material. Various cloning methods exist. Classical cloning methods use bacteria for cloning
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* while the latest approaches use other techniques.
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*
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* @author a.mueller
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* @created 2013-07-11
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*
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*/
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@XmlAccessorType(XmlAccessType.FIELD)
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@XmlType(name = "Cloning", propOrder = {
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"strain",
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"forwardPrimer",
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"reversePrimer"
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})
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@XmlRootElement(name = "Cloning")
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@Entity
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@Audited
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public class Cloning extends MaterialOrMethodEvent implements Cloneable{
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private static final long serialVersionUID = 6179007910988646989L;
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@SuppressWarnings("unused")
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private static final Logger logger = Logger.getLogger(Cloning.class);
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/** @see #getStrain() */
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@XmlElement(name = "strain")
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@Field
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@Column(length=100)
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private String strain;
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/** @see #getForwardPrimer() */
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@XmlElement(name = "ForwardPrimer")
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@XmlIDREF
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@XmlSchemaType(name = "IDREF")
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@ManyToOne(fetch=FetchType.LAZY)
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private Primer forwardPrimer;
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/** @see #getReversePrimer()*/
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@XmlElement(name = "ReversePrimer")
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@XmlIDREF
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@XmlSchemaType(name = "IDREF")
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@ManyToOne(fetch=FetchType.LAZY)
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private Primer reversePrimer;
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// ******************** FACTORY METHOD ******************/
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public static Cloning NewInstance(){
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return new Cloning();
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}
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public static Cloning NewInstance(DefinedTerm definedMaterialOrMethod, String methodText, String strain, Primer forwardPrimer, Primer reversePrimer){
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return new Cloning(definedMaterialOrMethod, methodText, strain, forwardPrimer, reversePrimer);
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}
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// ********************* CONSTRUCTOR ********************/
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//made protected to fix a java.lang.InstantiationException which occurred while loading
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//see https://stackoverflow.com/questions/7273125/hibernate-envers-and-javassist-enhancement-failed-exception
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protected Cloning(){};
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protected Cloning(DefinedTerm definedMaterialOrMethod, String methodText, String strain, Primer forwardPrimer, Primer reversePrimer){
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super(definedMaterialOrMethod, methodText);
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this.strain = strain;
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this.forwardPrimer = forwardPrimer;
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this.reversePrimer = reversePrimer;
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}
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// ********************* GETTER / SETTER ********************/
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/**
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* The primer used for forward cloning.
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* @see #getReversePrimer()
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*/
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public Primer getForwardPrimer() {
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return forwardPrimer;
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}
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/**
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* @see #getForwardPrimer()
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* @see #getReversePrimer()
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*/
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public void setForwardPrimer(Primer forwardPrimer) {
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this.forwardPrimer = forwardPrimer;
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}
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/**
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* The primer used for reverse cloning.
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* @see #getForwardPrimer()
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*/
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public Primer getReversePrimer() {
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return reversePrimer;
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}
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/**
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* @see #getReversePrimer()
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* @see #getForwardPrimer()
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*/
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public void setReversePrimer(Primer reversePrimer) {
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this.reversePrimer = reversePrimer;
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}
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public String getStrain() {
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return strain;
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}
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public void setStrain(String strain) {
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this.strain = strain;
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}
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// ********************* CLONE ********************/
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/**
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* Clones <i>this</i> {@link Cloning}. This is a shortcut that enables to create
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* a new instance that differs only slightly from <i>this</i> cloning by
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* modifying only some of the attributes.<BR><BR>
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*
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*
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* @see EventBase#clone()
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* @see java.lang.Object#clone()
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*/
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@Override
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public Object clone() {
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Cloning result = (Cloning)super.clone();
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//don't change strain, forwardPrimer, backwardPrimer
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return result;
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}
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}
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