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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.algaterra;
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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.HashSet;
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import java.util.Map;
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import java.util.Set;
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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.algaterra.validation.AlgaTerraTypeImportValidator;
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import eu.etaxonomy.cdm.io.berlinModel.in.BerlinModelImportConfigurator;
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import eu.etaxonomy.cdm.io.berlinModel.in.BerlinModelImportState;
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import eu.etaxonomy.cdm.io.berlinModel.in.BerlinModelReferenceImport;
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import eu.etaxonomy.cdm.io.common.IOValidator;
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import eu.etaxonomy.cdm.io.common.ResultSetPartitioner;
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import eu.etaxonomy.cdm.model.common.CdmBase;
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import eu.etaxonomy.cdm.model.media.Media;
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import eu.etaxonomy.cdm.model.occurrence.DerivedUnit;
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import eu.etaxonomy.cdm.model.occurrence.SpecimenOrObservationBase;
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import eu.etaxonomy.cdm.model.reference.Reference;
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/**
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* @author a.mueller
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* @created 20.03.2008
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* @version 1.0
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*/
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@Component
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public class AlgaTerraTypeImagesImport extends AlgaTerraImageImportBase {
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private static final Logger logger = Logger.getLogger(AlgaTerraTypeImagesImport.class);
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private static int modCount = 5000;
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private static final String pluralString = "type images";
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private static final String dbTableName = "SpecimenFigure"; //??
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public AlgaTerraTypeImagesImport(){
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super(dbTableName, pluralString);
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}
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/* (non-Javadoc)
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* @see eu.etaxonomy.cdm.io.berlinModel.in.BerlinModelImportBase#getIdQuery()
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*/
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@Override
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protected String getIdQuery(BerlinModelImportState state) {
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String result = " SELECT SpecimenFigureId "
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+ " FROM SpecimenFigure "
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+ " WHERE TypeSpecimenFk is NOT NULL "
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+ " ORDER BY TypeSpecimenFk ";
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return result;
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}
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/* (non-Javadoc)
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* @see eu.etaxonomy.cdm.io.berlinModel.in.BerlinModelImportBase#getRecordQuery(eu.etaxonomy.cdm.io.berlinModel.in.BerlinModelImportConfigurator)
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*/
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@Override
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protected String getRecordQuery(BerlinModelImportConfigurator config) {
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String strQuery =
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" SELECT sf.*, sf.SpecimenFigurePhrase as FigurePhrase, sf.SpecimenFigure as fileName, sf.PicturePath as filePath" +
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" FROM SpecimenFigure sf "
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+ " WHERE (sf.SpecimenFigureId IN (" + ID_LIST_TOKEN + ") )"
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+ " ORDER BY TypeSpecimenFk ";
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;
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return strQuery;
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}
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/* (non-Javadoc)
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* @see eu.etaxonomy.cdm.io.berlinModel.in.IPartitionedIO#doPartition(eu.etaxonomy.cdm.io.berlinModel.in.ResultSetPartitioner, eu.etaxonomy.cdm.io.berlinModel.in.BerlinModelImportState)
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*/
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public boolean doPartition(ResultSetPartitioner partitioner, BerlinModelImportState bmState) {
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boolean success = true;
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AlgaTerraImportState state = (AlgaTerraImportState)bmState;
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Set<SpecimenOrObservationBase> unitsToSave = new HashSet<SpecimenOrObservationBase>();
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Map<String, DerivedUnit> typeSpecimenMap = (Map<String, DerivedUnit>) partitioner.getObjectMap(AlgaTerraSpecimenImportBase.TYPE_SPECIMEN_DERIVED_UNIT_NAMESPACE);
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Map<String, Reference> biblioReference = (Map<String, Reference>) partitioner.getObjectMap(BerlinModelReferenceImport.BIBLIO_REFERENCE_NAMESPACE);
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ResultSet rs = partitioner.getResultSet();
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try {
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int i = 0;
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//for each reference
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while (rs.next()){
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if ((i++ % modCount) == 0 && i!= 1 ){ logger.info(pluralString + " handled: " + (i-1));}
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int figureId = rs.getInt("SpecimenFigureId");
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int typeSpecimenFk = rs.getInt("typeSpecimenFk");
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//TODO etc. Created, Notes, Copyright, TermsOfUse etc.
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try {
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//source ref
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Reference<?> sourceRef = state.getTransactionalSourceReference();
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DerivedUnit derivedUnit = typeSpecimenMap.get(String.valueOf(typeSpecimenFk));
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if (derivedUnit == null){
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logger.warn("Could not find type specimen (" + typeSpecimenFk +") for specimen figure " + figureId);
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}else{
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//field observation
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Media media = handleSingleImage(rs, derivedUnit, state, partitioner);
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handleTypeImageSpecificFields(rs, media, state);
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unitsToSave.add(derivedUnit);
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}
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} catch (Exception e) {
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logger.warn("Exception in " + getTableName() + ": SpecimenFigureId " + figureId + ". " + e.getMessage());
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e.printStackTrace();
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}
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}
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// logger.warn("Specimen: " + countSpecimen + ", Descriptions: " + countDescriptions );
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logger.warn(pluralString + " to save: " + unitsToSave.size());
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getOccurrenceService().saveOrUpdate(unitsToSave);
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return success;
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} catch (SQLException e) {
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logger.error("SQLException:" + e);
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return false;
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}
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}
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private void handleTypeImageSpecificFields(ResultSet rs, Media media, AlgaTerraImportState state) throws SQLException {
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//TODO refFk, refDetailFk, publishFlag
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Integer refFk = nullSafeInt(rs, "refFk");
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Integer refDetailFk = nullSafeInt(rs, "refDetailFk");
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//TODO
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}
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/* (non-Javadoc)
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* @see eu.etaxonomy.cdm.io.berlinModel.in.IPartitionedIO#getRelatedObjectsForPartition(java.sql.ResultSet)
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*/
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public Map<Object, Map<String, ? extends CdmBase>> getRelatedObjectsForPartition(ResultSet rs) {
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String nameSpace;
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Class cdmClass;
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Set<String> idSet;
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Map<Object, Map<String, ? extends CdmBase>> result = new HashMap<Object, Map<String, ? extends CdmBase>>();
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try{
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Set<String> typeSpecimenIdSet = new HashSet<String>();
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while (rs.next()){
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handleForeignKey(rs, typeSpecimenIdSet, "TypeSpecimenFk");
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}
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//type specimen map
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nameSpace = AlgaTerraSpecimenImportBase.TYPE_SPECIMEN_DERIVED_UNIT_NAMESPACE;
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cdmClass = SpecimenOrObservationBase.class;
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idSet = typeSpecimenIdSet;
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Map<String, DerivedUnit> typeSpecimenMap = (Map<String, DerivedUnit>)getCommonService().getSourcedObjectsByIdInSource(cdmClass, idSet, nameSpace);
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result.put(nameSpace, typeSpecimenMap);
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} catch (SQLException e) {
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throw new RuntimeException(e);
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}
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return result;
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}
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/* (non-Javadoc)
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* @see eu.etaxonomy.cdm.io.common.CdmIoBase#doCheck(eu.etaxonomy.cdm.io.common.IoStateBase)
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*/
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@Override
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protected boolean doCheck(BerlinModelImportState state){
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IOValidator<BerlinModelImportState> validator = new AlgaTerraTypeImportValidator();
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return validator.validate(state);
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}
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/* (non-Javadoc)
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* @see eu.etaxonomy.cdm.io.common.CdmIoBase#isIgnore(eu.etaxonomy.cdm.io.common.IImportConfigurator)
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*/
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protected boolean isIgnore(BerlinModelImportState bmState){
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AlgaTerraImportConfigurator config = ((AlgaTerraImportState) bmState).getAlgaTerraConfigurator();
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return ! ( config.isDoTypes() && config.isDoImages()) ;
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// return false;
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}
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}
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