app-import/src/main/java/eu/etaxonomy/cdm/app/caryophyllales/CaryoSppIdentifierActivator.java

   1 /**
   2 * Copyright (C) 2015 EDIT
   3 * European Distributed Institute of Taxonomy
   4 * http://www.e-taxonomy.eu
   5 *
   6 * The contents of this file are subject to the Mozilla Public License Version 1.1
   7 * See LICENSE.TXT at the top of this package for the full license terms.
   8 */
   9 package eu.etaxonomy.cdm.app.caryophyllales;
  10
  11 import java.io.File;
  12 import java.io.FileReader;
  13 import java.io.IOException;
  14 import java.io.InputStreamReader;
  15 import java.util.UUID;
  16
  17 import org.apache.log4j.Logger;
  18
  19 import eu.etaxonomy.cdm.app.common.CdmDestinations;
  20 import eu.etaxonomy.cdm.database.DbSchemaValidation;
  21 import eu.etaxonomy.cdm.database.ICdmDataSource;
  22 import eu.etaxonomy.cdm.io.common.CdmDefaultImport;
  23 import eu.etaxonomy.cdm.io.common.IImportConfigurator.CHECK;
  24 import eu.etaxonomy.cdm.io.identifier.IdentifierImportConfigurator;
  25 import eu.etaxonomy.cdm.model.name.TaxonName;
  26 import eu.etaxonomy.cdm.model.term.DefinedTerm;
  27
  28 /**
  29  * @author a.mueller
  30  * @since 18.10.2017
  31  */
  32 public class CaryoSppIdentifierActivator {
  33
  34     @SuppressWarnings("unused")
  35     private static final Logger logger = Logger.getLogger(CaryoSppIdentifierActivator.class);
  36
  37     //database validation status (create, update, validate ...)
  38     static DbSchemaValidation dbSchemaValidation = DbSchemaValidation.VALIDATE;
  39
  40 //    static final ICdmDataSource cdmDestination = CdmDestinations.cdm_local_caryo_spp();
  41     static final ICdmDataSource cdmDestination = CdmDestinations.cdm_production_caryophyllales_spp();
  42
  43     private static final UUID idTypeUuid = DefinedTerm.uuidWfoNameIdentifier;
  44 //    private static final UUID idTypeUuid = DefinedTerm.uuidIpniNameIdentifier;
  45
  46     //check - import
  47     static CHECK check = CHECK.IMPORT_WITHOUT_CHECK;
  48
  49     private void doImport(ICdmDataSource cdmDestination){
  50
  51         InputStreamReader source = getIdentifierStream();
  52         IdentifierImportConfigurator config= IdentifierImportConfigurator.NewInstance(source, cdmDestination);
  53         config.setDbSchemaValidation(dbSchemaValidation);
  54         config.setIdentifierTypeUuid(idTypeUuid);
  55         config.setCdmClass(TaxonName.class);
  56         config.setCheck(check);
  57         config.setIgnoreEmptyIdentifier(true);
  58
  59         CdmDefaultImport<IdentifierImportConfigurator> myImport = new CdmDefaultImport<>();
  60         myImport.invoke(config);
  61
  62     }
  63
  64     private InputStreamReader getIdentifierStream() {
  65         String filename = "Cactaceae-SpeciesAndBelowWithoutWFO-ID3.csv";
  66
  67 //        URI.create("file:////BGBM-PESIHPC/FloraMalesianaXml/fmvol14_final2.xml")
  68         String path = "C://opt//data//Caryophyllales";
  69         File file = new File(path + File.separator + filename);
  70         if (!file.exists()){
  71             System.exit(-1);
  72             return null;
  73         }
  74         try {
  75             InputStreamReader input = new FileReader(file);
  76             return input;
  77         } catch (IOException e) {
  78             e.printStackTrace();
  79             System.exit(-1);
  80             return null;
  81         }
  82     }
  83
  84     /**
  85      * @param args
  86      */
  87     public static void main(String[] args) {
  88         CaryoSppIdentifierActivator me = new CaryoSppIdentifierActivator();
  89         me.doImport(cdmDestination);
  90         System.exit(0);
  91     }
  92 }