app-import/src/main/java/eu/etaxonomy/cdm/io/greece/FloraHellenicaCommentsImport.java

   1 /**
   2 * Copyright (C) 2016 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.io.greece;
  10
  11 import java.util.Arrays;
  12 import java.util.HashMap;
  13 import java.util.List;
  14 import java.util.Set;
  15
  16 import org.apache.log4j.Logger;
  17 import org.springframework.stereotype.Component;
  18
  19 import eu.etaxonomy.cdm.io.mexico.SimpleExcelTaxonImportState;
  20 import eu.etaxonomy.cdm.model.common.Language;
  21 import eu.etaxonomy.cdm.model.description.Feature;
  22 import eu.etaxonomy.cdm.model.description.TaxonDescription;
  23 import eu.etaxonomy.cdm.model.description.TextData;
  24 import eu.etaxonomy.cdm.model.taxon.Taxon;
  25 import eu.etaxonomy.cdm.model.taxon.TaxonNode;
  26
  27 /**
  28  * Import for the Flora Hellenica taxon comments.
  29  *
  30  * @author a.mueller
  31  * @date 14.12.2016
  32  */
  33
  34 @Component
  35 public class FloraHellenicaCommentsImport<CONFIG extends FloraHellenicaImportConfigurator>
  36         extends FloraHellenicaImportBase<CONFIG>{
  37
  38     private static final long serialVersionUID = -3565782012921316901L;
  39     private static final Logger logger = Logger.getLogger(FloraHellenicaCommentsImport.class);
  40
  41     private static final String TAXON = "Taxon";
  42     private static final String UNIQUE_ID_ACCEPTED = "Unique ID of taxon name (Includes valid and excluded taxa IDs)";
  43     private static final String COMMENT = "Comment";
  44
  45
  46    private  static List<String> expectedKeys= Arrays.asList(new String[]{
  47             UNIQUE_ID_ACCEPTED,
  48             TAXON,
  49             COMMENT
  50     });
  51
  52     @Override
  53     protected String getWorksheetName() {
  54         return "comments";
  55     }
  56
  57     /**
  58      * {@inheritDoc}
  59      */
  60     @Override
  61     protected void firstPass(SimpleExcelTaxonImportState<CONFIG> state) {
  62
  63         String line = state.getCurrentLine() + ": ";
  64         HashMap<String, String> record = state.getOriginalRecord();
  65
  66         Set<String> keys = record.keySet();
  67         for (String key: keys) {
  68             if (! expectedKeys.contains(key)){
  69                 logger.warn(line + "Unexpected Key: " + key);
  70             }
  71         }
  72
  73         String noStr = getValue(record, "Unique ID");
  74         makeComment(state, line, record, noStr);
  75     }
  76
  77
  78     /**
  79      * @param state
  80      * @param line
  81      * @param record
  82      * @param noStr
  83      * @return
  84      */
  85     private void makeComment(SimpleExcelTaxonImportState<CONFIG> state, String line,
  86             HashMap<String, String> record,
  87             String noStr) {
  88
  89         Taxon acceptedTaxon = getAcceptedTaxon(record, state, UNIQUE_ID_ACCEPTED);
  90         if (acceptedTaxon == null){
  91             logger.warn(line + "Accepted not found: " + record.get(UNIQUE_ID_ACCEPTED));
  92             return;
  93         }
  94
  95         String commentStr = getValue(record, COMMENT);
  96
  97         TaxonDescription desc = getTaxonDescription(acceptedTaxon);
  98         TextData comment = TextData.NewInstance(Feature.NOTES(), commentStr, Language.ENGLISH(), null);
  99         desc.addElement(comment);
 100         comment.addImportSource(noStr, getWorksheetName(), getSourceCitation(state), null);
 101         getTaxonService().saveOrUpdate(acceptedTaxon);
 102
 103         TaxonNode taxonNode = acceptedTaxon.getTaxonNodes().iterator().next();
 104         if(taxonNode.isExcluded()){
 105             taxonNode.putExcludedNote(Language.ENGLISH(), commentStr);
 106         }
 107         return ;
 108     }
 109
 110 }