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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.io.pesi.erms;
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import java.sql.ResultSet;
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import java.sql.SQLException;
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import java.util.HashMap;
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import java.util.Map;
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import org.apache.log4j.Logger;
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import org.springframework.stereotype.Component;
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import eu.etaxonomy.cdm.io.common.IImportConfigurator;
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import eu.etaxonomy.cdm.io.common.IOValidator;
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import eu.etaxonomy.cdm.io.common.mapping.DbIgnoreMapper;
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import eu.etaxonomy.cdm.io.common.mapping.DbImportAnnotationMapper;
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import eu.etaxonomy.cdm.io.common.mapping.DbImportDoiMapper;
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import eu.etaxonomy.cdm.io.common.mapping.DbImportExtensionMapper;
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import eu.etaxonomy.cdm.io.common.mapping.DbImportMapping;
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import eu.etaxonomy.cdm.io.common.mapping.DbImportObjectCreationMapper;
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import eu.etaxonomy.cdm.io.common.mapping.DbImportStringMapper;
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import eu.etaxonomy.cdm.io.common.mapping.DbImportTimePeriodMapper;
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import eu.etaxonomy.cdm.io.common.mapping.DbImportTruncatedStringMapper;
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import eu.etaxonomy.cdm.io.common.mapping.IMappingImport;
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import eu.etaxonomy.cdm.io.pesi.erms.validation.ErmsReferenceImportValidator;
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import eu.etaxonomy.cdm.model.common.AnnotationType;
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import eu.etaxonomy.cdm.model.common.CdmBase;
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import eu.etaxonomy.cdm.model.common.ExtensionType;
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import eu.etaxonomy.cdm.model.common.Language;
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import eu.etaxonomy.cdm.model.reference.Reference;
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import eu.etaxonomy.cdm.model.reference.ReferenceFactory;
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/**
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* @author a.mueller
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* @since 20.02.2010
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*/
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@Component
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public class ErmsReferenceImport
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extends ErmsImportBase<Reference>
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implements IMappingImport<Reference, ErmsImportState>{
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private static final long serialVersionUID = -2345972558542643378L;
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private static final Logger logger = Logger.getLogger(ErmsReferenceImport.class);
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private DbImportMapping<ErmsImportState, ErmsImportConfigurator> mapping;
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private static final String pluralString = "sources";
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private static final String dbTableName = "sources";
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private static final Class cdmTargetClass = Reference.class;
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public ErmsReferenceImport(){
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super(pluralString, dbTableName, cdmTargetClass);
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}
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@Override
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protected String getRecordQuery(ErmsImportConfigurator config) {
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String strRecordQuery =
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" SELECT * " +
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" FROM sources " +
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" WHERE ( sources.id IN (" + ID_LIST_TOKEN + ") )";
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return strRecordQuery;
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}
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@Override
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protected DbImportMapping<ErmsImportState, ErmsImportConfigurator> getMapping() {
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if (mapping == null){
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mapping = new DbImportMapping<>();
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mapping.addMapper(DbImportObjectCreationMapper.NewInstance(this, "id", REFERENCE_NAMESPACE)); //id
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ExtensionType imisExtType = getExtensionType( ErmsTransformer.uuidExtImis, "imis", "imis", "imis");
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mapping.addMapper(DbImportExtensionMapper.NewInstance("imis_id", imisExtType));
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ExtensionType truncatedExtType = getExtensionType( ErmsTransformer.uuidExtTruncatedCache, "truncated cache", "truncated cache", "truncated cache");
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mapping.addMapper(DbImportTruncatedStringMapper.NewInstance("source_name", "titleCache", truncatedExtType, 800, true));
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mapping.addMapper(DbImportStringMapper.NewInstance("source_abstract", "referenceAbstract"));
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mapping.addMapper(DbImportStringMapper.NewInstance("source_title", "title"));
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mapping.addMapper(DbImportAnnotationMapper.NewInstance("source_note", AnnotationType.EDITORIAL(), Language.DEFAULT()));
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mapping.addMapper(DbImportTimePeriodMapper.NewVerbatimInstance("source_year", "datePublished"));
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mapping.addMapper(DbImportDoiMapper.NewInstance("source_doi", "doi"));
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//TODO handle as External Link once they are available for Reference
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logger.warn("Handle source_link as ExternalLink once available for class Reference");
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mapping.addMapper(DbImportExtensionMapper.NewInstance("source_link", ExtensionType.URL()));
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//TODO parse authors
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ExtensionType extTypeAuthor = getExtensionType(ErmsTransformer.uuidExtAuthor, "Reference author", "Reference author", null);
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mapping.addMapper(DbImportExtensionMapper.NewInstance("source_author", extTypeAuthor));
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//not yet implemented
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mapping.addMapper(DbIgnoreMapper.NewInstance("source_type", "Handled by ObjectCreateMapper - but mapping not yet fully correct. See comments there."));
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mapping.addMapper(DbIgnoreMapper.NewInstance("source_orig_fn", "Currently not needed. Holds information about pdf files."));
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mapping.addMapper(DbIgnoreMapper.NewInstance("source_openaccess", "Currently not needed. Holds information about open access of the source."));
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}
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return mapping;
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}
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@Override
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public Reference createObject(ResultSet rs, ErmsImportState state) throws SQLException {
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int id = rs.getInt("id");
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String type = rs.getString("source_type");
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Reference ref;
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if (type.equalsIgnoreCase("p")){
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//TDOO is this correct? maybe mark as 'publication'
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ref = ReferenceFactory.newGeneric();
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}else if (type.equalsIgnoreCase("d")){
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ref = ReferenceFactory.newDatabase();
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}else if (type.equalsIgnoreCase("e")){
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//TODO is this correct, maybe mark as "informal"
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ref = ReferenceFactory.newGeneric();
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}else if (type.equalsIgnoreCase("i")){
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//TODO is this correct?
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ref = ReferenceFactory.newGeneric();
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}else{
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ref = ReferenceFactory.newGeneric();
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logger.warn("Unknown reference type: " + type + ". Created generic instead.");
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}
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return ref;
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}
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@Override
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public Map<Object, Map<String, ? extends CdmBase>> getRelatedObjectsForPartition(ResultSet rs, ErmsImportState state) {
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Map<Object, Map<String, ? extends CdmBase>> result = new HashMap<>();
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return result; //not needed
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}
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@Override
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protected boolean doCheck(ErmsImportState state){
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IOValidator<ErmsImportState> validator = new ErmsReferenceImportValidator();
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return validator.validate(state);
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}
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@Override
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protected boolean isIgnore(ErmsImportState state){
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return state.getConfig().getDoReferences() != IImportConfigurator.DO_REFERENCES.ALL;
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}
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}
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