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09f91999
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Katja Luther
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/**
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* Copyright (C) 2007 EDIT
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9dc896c9
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Andreas Müller
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* European Distributed Institute of Taxonomy
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09f91999
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Katja Luther
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* http://www.e-taxonomy.eu
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9dc896c9
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Andreas Müller
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*
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09f91999
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Katja Luther
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* The contents of this file are subject to the Mozilla Public License Version 1.1
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* See LICENSE.TXT at the top of this package for the full license terms.
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*/
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package eu.etaxonomy.cdm.io.common.mapping;
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import java.sql.ResultSet;
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import java.sql.SQLException;
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import org.apache.log4j.Logger;
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import eu.etaxonomy.cdm.io.common.CdmImportBase;
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import eu.etaxonomy.cdm.io.common.DbImportStateBase;
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import eu.etaxonomy.cdm.model.common.CdmBase;
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import eu.etaxonomy.cdm.model.name.NameTypeDesignationStatus;
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9dc896c9
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Andreas Müller
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import eu.etaxonomy.cdm.model.name.TaxonName;
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1d36aa54
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Andreas Müller
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import eu.etaxonomy.cdm.model.reference.Reference;
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09f91999
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Katja Luther
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/**
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* @author a.mueller
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* @created 12.05.2009
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* @version 1.0
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*/
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/**
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* @author a.mueller
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* @created 02.03.2010
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* @version 1.0
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* @param <CDM_BASE>
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* @param <STATE>
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*/
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892efc69
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Andreas Kohlbecker
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public class DbImportNameTypeDesignationMapper<STATE extends DbImportStateBase<?,?>, T extends IDbImportTransformed> extends DbImportMultiAttributeMapperBase<CdmBase, STATE> {
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09f91999
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Katja Luther
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private static final Logger logger = Logger.getLogger(DbImportNameTypeDesignationMapper.class);
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9dc896c9
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Andreas Müller
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09f91999
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Katja Luther
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//******************************** FACTORY METHOD ***************************************************/
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9dc896c9
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Andreas Müller
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892efc69
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Andreas Kohlbecker
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public static DbImportNameTypeDesignationMapper<?,?> NewInstance(String dbFromAttribute, String dbToAttribute, String relatedObjectNamespace, String desigStatusAttribute){
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09f91999
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Katja Luther
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return new DbImportNameTypeDesignationMapper(dbFromAttribute, dbToAttribute, null, relatedObjectNamespace, desigStatusAttribute);
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}
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9dc896c9
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Andreas Müller
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09f91999
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Katja Luther
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//******************************* ATTRIBUTES ***************************************/
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private String fromAttribute;
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private String toAttribute;
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private NameTypeDesignationStatus designationStatus;
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private String relatedObjectNamespace;
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private String citationAttribute;
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private String microCitationAttribute;
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private String designationStatusAttribute;
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9dc896c9
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Andreas Müller
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09f91999
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Katja Luther
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//********************************* CONSTRUCTOR ****************************************/
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/**
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9dc896c9
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Andreas Müller
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* @param relatedObjectNamespace
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09f91999
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Katja Luther
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* @param mappingImport
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*/
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protected DbImportNameTypeDesignationMapper(String fromAttribute, String toAttribute, NameTypeDesignationStatus designationStatus, String relatedObjectNamespace, String desigStatusAttribute) {
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super();
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//TODO make it a single attribute mapper
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this.fromAttribute = fromAttribute;
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this.toAttribute = toAttribute;
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this.relatedObjectNamespace = relatedObjectNamespace;
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this.designationStatusAttribute = desigStatusAttribute;
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this.designationStatus = designationStatus;
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}
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//************************************ METHODS *******************************************/
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9dc896c9
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Andreas Müller
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09f91999
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Katja Luther
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/* (non-Javadoc)
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* @see eu.etaxonomy.cdm.io.common.mapping.IDbImportMapper#invoke(java.sql.ResultSet, eu.etaxonomy.cdm.model.common.CdmBase)
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*/
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9dc896c9
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Andreas Müller
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@Override
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public CdmBase invoke(ResultSet rs, CdmBase cdmBase) throws SQLException {
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09f91999
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Katja Luther
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STATE state = importMapperHelper.getState();
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CdmImportBase currentImport = state.getCurrentIO();
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if (currentImport instanceof ICheckIgnoreMapper){
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boolean ignoreRecord = ((ICheckIgnoreMapper)currentImport).checkIgnoreMapper(this, rs);
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if (ignoreRecord){
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return cdmBase;
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}
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}
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9dc896c9
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Andreas Müller
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09f91999
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Katja Luther
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CdmBase fromObject = getRelatedObject(rs, fromAttribute);
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CdmBase toObject = getRelatedObject(rs, toAttribute);
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//TODO cast
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1d36aa54
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Andreas Müller
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Reference citation = (Reference)getRelatedObject(rs, citationAttribute);
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09f91999
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Katja Luther
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String microCitation = null;
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if (citationAttribute != null){
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microCitation = rs.getString(microCitationAttribute);
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}
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9dc896c9
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Andreas Müller
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09f91999
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Katja Luther
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Object designationStatusValue = null;
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if (citationAttribute != null){
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designationStatusValue = rs.getObject(designationStatusAttribute);
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}
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if (fromObject == null){
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892efc69
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Andreas Kohlbecker
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String warning = "Higher rank name could not be found. Name type not added to higher rank name";
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09f91999
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Katja Luther
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logger.warn(warning);
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return cdmBase;
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}
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9dc896c9
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Andreas Müller
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TaxonName typifiedName = checkTaxonNameType(fromObject);
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09f91999
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Katja Luther
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if (toObject == null){
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892efc69
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Andreas Kohlbecker
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String warning = "Species name could not be found. Name type not added to higher rank name";
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09f91999
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Katja Luther
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logger.warn(warning);
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return cdmBase;
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}
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9dc896c9
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Andreas Müller
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TaxonName typeName = checkTaxonNameType(toObject);
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09f91999
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Katja Luther
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boolean addToAllHomotypicNames = false; //TODO check if this is correct
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String originalNameString = null; //TODO what is this
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9dc896c9
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Andreas Müller
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09f91999
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Katja Luther
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NameTypeDesignationStatus status = this.designationStatus;
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if (designationStatusValue != null){
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892efc69
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Andreas Kohlbecker
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//FIXME this needs work in generics to remove casts. Or find an other solution
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if (currentImport instanceof IDbImportTransformed){
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IDbImportTransformer transformer = ((IDbImportTransformed)currentImport).getTransformer();
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status = transformer.transformNameTypeDesignationStatus(designationStatusValue);
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09f91999
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Katja Luther
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}
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}
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892efc69
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Andreas Kohlbecker
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typifiedName.addNameTypeDesignation(typeName, citation, microCitation, originalNameString, status, addToAllHomotypicNames);
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9dc896c9
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Andreas Müller
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892efc69
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Andreas Kohlbecker
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return typifiedName;
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09f91999
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Katja Luther
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}
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9dc896c9
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Andreas Müller
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09f91999
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Katja Luther
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/**
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* //TODO copied from DbImportObjectMapper. Maybe these can be merged again in future
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* @param rs
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* @param dbAttribute
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* @return
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* @throws SQLException
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*/
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protected CdmBase getRelatedObject(ResultSet rs, String dbAttribute) throws SQLException {
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CdmBase result = null;
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if (dbAttribute != null){
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Object dbValue = rs.getObject(dbAttribute);
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String id = String.valueOf(dbValue);
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DbImportStateBase state = importMapperHelper.getState();
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result = state.getRelatedObject(relatedObjectNamespace, id);
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}
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return result;
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}
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9dc896c9
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Andreas Müller
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09f91999
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Katja Luther
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/**
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9dc896c9
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Andreas Müller
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* Checks if cdmBase is of type Taxon
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09f91999
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Katja Luther
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* @param fromObject
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*/
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9dc896c9
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Andreas Müller
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private TaxonName checkTaxonNameType(CdmBase cdmBase) {
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if (! cdmBase.isInstanceOf(TaxonName.class)){
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String warning = "Type name or typifier name is not of type TaxonName but " + cdmBase.getClass().getName();
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09f91999
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Katja Luther
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logger.warn(warning);
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throw new IllegalArgumentException(warning);
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}
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9dc896c9
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Andreas Müller
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return (cdmBase.deproxy(cdmBase, TaxonName.class));
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09f91999
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Katja Luther
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}
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}
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