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/**
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*
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*/
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package eu.etaxonomy.cdm.io.berlinModel;
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import java.sql.ResultSet;
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import java.sql.SQLException;
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import java.util.HashSet;
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import java.util.Set;
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import org.apache.log4j.Logger;
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import static eu.etaxonomy.cdm.io.berlinModel.BerlinModelTransformer.*;
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import eu.etaxonomy.cdm.api.application.CdmApplicationController;
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import eu.etaxonomy.cdm.api.service.ITaxonService;
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import eu.etaxonomy.cdm.io.source.Source;
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import eu.etaxonomy.cdm.model.description.CommonTaxonName;
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import eu.etaxonomy.cdm.model.description.TaxonDescription;
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import eu.etaxonomy.cdm.model.description.TextData;
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import eu.etaxonomy.cdm.model.reference.ReferenceBase;
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import eu.etaxonomy.cdm.model.taxon.Taxon;
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import eu.etaxonomy.cdm.model.taxon.TaxonBase;
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/**
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* @author a.mueller
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*
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*/
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public class BerlinModelFactsIO {
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private static final Logger logger = Logger.getLogger(BerlinModelFactsIO.class);
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private static int modCount = 10000;
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public static boolean invoke(BerlinModelImportConfigurator bmiConfig, CdmApplicationController cdmApp,
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MapWrapper<TaxonBase> taxonMap, MapWrapper<ReferenceBase> referenceMap){
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Set<TaxonBase> taxonStore = new HashSet<TaxonBase>();
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Source source = bmiConfig.getSource();
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ITaxonService taxonService = cdmApp.getTaxonService();
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String dbAttrName;
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String cdmAttrName;
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logger.info("start makeFacts ...");
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boolean delete = bmiConfig.isDeleteAll();
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try {
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//get data from database
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String strQuery =
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" SELECT Fact.*, PTaxon.RIdentifier as taxonId " +
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" FROM Fact INNER JOIN " +
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" dbo.PTaxon ON Fact.PTNameFk = PTaxon.PTNameFk AND Fact.PTRefFk = PTaxon.PTRefFk "+
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" WHERE (1=1)";
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ResultSet rs = source.getResultSet(strQuery) ;
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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){ logger.info("Facts handled: " + (i-1));}
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int factId = rs.getInt("factId");
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int taxonId = rs.getInt("taxonId");
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int factRefFk = rs.getInt("factRefFk");
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int ptDesignationRefFk = rs.getInt("PTDesignationRefFk");
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int categoryFk = rs.getInt("factCategoryFk");
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TaxonBase taxonBase = taxonMap.get(taxonId);
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if (taxonBase != null){
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Taxon taxon;
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if ( taxonBase instanceof Taxon ) {
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taxon = (Taxon) taxonBase;
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}else{
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logger.warn("TaxonBase for Fact " + factId + " was not of type Taxon but: " + taxonBase.getClass().getSimpleName());
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continue;
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}
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TaxonDescription taxonDescription = TaxonDescription.NewInstance();
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taxon.addDescription(taxonDescription);
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//textData
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// TextData textData = TextData.NewInstance();
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// textData.addText("XXX", bmiConfig.getFactLanguage());
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// taxonDescription.addFeature(textData);
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//commonNames
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String commonNameString;
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if (taxon.getName() != null){
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commonNameString = "Common " + taxon.getName().getNameCache();
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}else{
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commonNameString = "Common (null)";
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}
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CommonTaxonName commonName = CommonTaxonName.NewInstance(commonNameString, bmiConfig.getFactLanguage());
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taxonDescription.addFeature(commonName);
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if (categoryFk == FACT_DESCRIPTION){
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//;
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}else if (categoryFk == FACT_OBSERVATION){
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//;
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}else if (categoryFk == FACT_DISTIRBUTION_EM){
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//
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}else {
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//TODO
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logger.warn("FactCategory " + categoryFk + " not yet implemented");
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}
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//TODO
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//References
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//etc.
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taxonStore.add(taxon);
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}else{
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//TODO
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logger.warn("Taxon for Fact " + factId + " does not exist in store");
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}
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//put
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}
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logger.info("Taxa to save: " + taxonStore.size());
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taxonService.saveTaxonAll(taxonStore);
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logger.info("end makeFacts ...");
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return true;
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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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}
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