cdmlib-io/src/main/java/eu/etaxonomy/cdm/io/taxonx2013/TaxonXXMLFieldGetter.java

   1 package eu.etaxonomy.cdm.io.taxonx2013;
   2
   3 import java.net.URI;
   4 import java.util.ArrayList;
   5 import java.util.List;
   6
   7 import org.apache.log4j.Logger;
   8 import org.w3c.dom.Document;
   9 import org.w3c.dom.Node;
  10 import org.w3c.dom.NodeList;
  11
  12 import eu.etaxonomy.cdm.model.name.NomenclaturalCode;
  13 import eu.etaxonomy.cdm.model.reference.Reference;
  14 import eu.etaxonomy.cdm.model.taxon.Classification;
  15
  16 public class TaxonXXMLFieldGetter {
  17
  18     private static final Logger logger = Logger.getLogger(TaxonXXMLFieldGetter.class);
  19     private final Document doc;
  20
  21
  22     private final NomenclaturalCode nomenclaturalCode;
  23     private Classification classification;
  24     private final TaxonXImport importer;
  25     private final TaxonXImportState taxonXstate;
  26     TaxonXModsExtractor modsextractor;
  27     TaxonXTreatmentExtractor treatmentextractor ;
  28
  29     public TaxonXXMLFieldGetter(TaxonXDataHolder dataholder, String prefix,Document document, TaxonXImport taxonXImport, TaxonXImportState taxonXstate, Classification classif){
  30         this.doc = document;
  31         this.importer = taxonXImport;
  32         this.nomenclaturalCode = taxonXstate.getConfig().getNomenclaturalCode();
  33         this.classification = classif;
  34         logger.info("CLASSIFICATION "+classification);
  35         this.taxonXstate=taxonXstate;
  36         modsextractor = new TaxonXModsExtractor(importer);
  37         treatmentextractor = new TaxonXTreatmentExtractor(nomenclaturalCode,classification,importer, taxonXstate);
  38     }
  39
  40
  41     /**
  42      * parse the Mods from the TaxonX file
  43      *
  44     *@return the created Reference object
  45     **/
  46     public Reference<?> parseMods(){
  47 //        System.out.println("PARSEMODS");
  48         //taxonx
  49         Node root = doc.getFirstChild();
  50
  51
  52         //taxonHeader, taxonBody
  53         NodeList nodes = root.getChildNodes();
  54         Reference<?> ref = null;
  55         for (int i=0; i< nodes.getLength();i++) {
  56 //            System.out.println(nodes.item(i).getNodeName());
  57             if (nodes.item(i).getNodeName().equalsIgnoreCase("tax:taxonxheader")){
  58                 NodeList nodes2 = nodes.item(i).getChildNodes();
  59                 for (int j=0; j< nodes2.getLength();j++){
  60 //                    System.out.println("nodes2 : "+nodes2.item(j).getNodeName());
  61                     if (nodes2.item(j).getNodeName().equalsIgnoreCase("mods:mods")){
  62                         ref = modsextractor.extractMods(nodes2.item(j));
  63 //                        System.out.println("reference: "+ref.getTitleCache());
  64                         importer.getReferenceService().saveOrUpdate(ref);
  65                     }
  66                 }
  67             }
  68         }
  69         if (ref!=null) {
  70             taxonXstate.getConfig().setClassificationName(ref.getCitation());
  71         } else {
  72             taxonXstate.getConfig().setClassificationName( "no reference title");
  73         }
  74         return ref;
  75     }
  76
  77
  78     /**
  79      * Foreach treatment section, launches the treatment "extractor"
  80      * @param ref : the current reference, extracted from the mods
  81      * @param sourcename: the URI of the TaxonX document
  82      */
  83     public void parseTreatment(Reference<?> ref, URI sourceName){
  84         System.out.println("PARSETREATMENT "+ref);
  85         //taxonx
  86         Node root = doc.getFirstChild();
  87         //taxonHeader, taxonBody
  88         NodeList nodes = root.getChildNodes();
  89
  90         for (int i=0; i< nodes.getLength();i++) {
  91 //            System.out.println(nodes.item(i).getNodeName());
  92             if (nodes.item(i).getNodeName().equalsIgnoreCase("tax:taxonxBody")){
  93                 NodeList nodes2 = nodes.item(i).getChildNodes();
  94                 for (int j=0; j< nodes2.getLength();j++){
  95                     if (nodes2.item(j).getNodeName().equalsIgnoreCase("tax:treatment")){
  96                         List<Object> tosave = new ArrayList<Object>();
  97                         treatmentextractor.extractTreatment(nodes2.item(j),tosave,ref,sourceName);
  98                     }
  99                 }
 100             }
 101         }
 102     }
 103
 104
 105
 106     /**
 107      * updates the classification in the treatment extractor
 108      * @param classification2
 109      */
 110     public void updateClassification(Classification classification2) {
 111        this.classification=classification2;
 112        if (treatmentextractor != null) {
 113         treatmentextractor.updateClassification(classification);
 114     }
 115
 116     }
 117
 118
 119 }