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/**
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* Copyright (C) 2017 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.taxeditor.editor.workingSet.matrix;
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import java.util.ArrayList;
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import java.util.Collection;
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import java.util.HashMap;
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import java.util.Map;
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import java.util.Set;
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import eu.etaxonomy.cdm.api.service.IOccurrenceService;
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import eu.etaxonomy.cdm.hibernate.HibernateProxyHelper;
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import eu.etaxonomy.cdm.model.description.CategoricalData;
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import eu.etaxonomy.cdm.model.description.DescriptionElementBase;
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import eu.etaxonomy.cdm.model.description.Feature;
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import eu.etaxonomy.cdm.model.description.QuantitativeData;
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import eu.etaxonomy.cdm.model.description.SpecimenDescription;
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import eu.etaxonomy.cdm.model.description.State;
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import eu.etaxonomy.cdm.model.location.NamedArea;
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import eu.etaxonomy.cdm.model.occurrence.DerivedUnit;
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import eu.etaxonomy.cdm.model.occurrence.FieldUnit;
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import eu.etaxonomy.cdm.model.occurrence.SpecimenOrObservationBase;
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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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import eu.etaxonomy.taxeditor.model.MessagingUtils;
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import eu.etaxonomy.taxeditor.store.CdmStore;
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/**
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* Wrapper object representing one row in the character matrix
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* containing a specimen description and supplemental information
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* about the taxon and the specimen
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* @author pplitzner
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* @since Dec 14, 2017
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*
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*/
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public class RowWrapper {
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private SpecimenDescription description;
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private Taxon associatedTaxon;
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private FieldUnit fieldUnit;
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private String identifier;
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private NamedArea country;
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private Map<Feature, DescriptionElementBase> featureToElementMap = new HashMap<>();
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public RowWrapper(SpecimenDescription description) {
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this.description = description;
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IOccurrenceService occurrenceService = CdmStore.getService(IOccurrenceService.class);
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SpecimenOrObservationBase<?> specimen = HibernateProxyHelper.deproxy(description.getDescribedSpecimenOrObservation(), SpecimenOrObservationBase.class);
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//supplemental information
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if(specimen!=null){
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Collection<TaxonBase<?>> associatedTaxa = occurrenceService.listAssociatedTaxa(specimen, null, null, null, null);
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if(associatedTaxa!=null){
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associatedTaxon = (Taxon) associatedTaxa.iterator().next();
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}
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Collection<FieldUnit> fieldUnits = occurrenceService.getFieldUnits(specimen.getUuid());
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if(fieldUnits.size()!=1){
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MessagingUtils.error(RowWrapper.class, "More than one or no field unit found for specimen", null);
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}
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else{
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fieldUnit = fieldUnits.iterator().next();
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}
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if(specimen instanceof DerivedUnit){
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identifier = occurrenceService.getMostSignificantIdentifier(HibernateProxyHelper.deproxy(specimen, DerivedUnit.class));
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}
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if(fieldUnit!=null && fieldUnit.getGatheringEvent()!=null){
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country = fieldUnit.getGatheringEvent().getCountry();
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}
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}
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//description elements
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Set<DescriptionElementBase> elements = description.getElements();
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for (DescriptionElementBase descriptionElementBase : elements) {
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Feature feature = descriptionElementBase.getFeature();
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featureToElementMap.put(feature, descriptionElementBase);
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}
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}
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public QuantitativeData addQuantitativeData(Feature feature){
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QuantitativeData data = QuantitativeData.NewInstance(feature);
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description.addElement(data);
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featureToElementMap.put(feature, data);
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return data;
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}
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public CategoricalData addCategoricalData(Feature feature){
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CategoricalData data = CategoricalData.NewInstance(feature);
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description.addElement(data);
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featureToElementMap.put(feature, data);
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return data;
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}
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public SpecimenDescription getSpecimenDescription() {
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return description;
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}
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public Taxon getAssociatedTaxon() {
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return associatedTaxon;
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}
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public FieldUnit getFieldUnit() {
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return fieldUnit;
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}
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public String getIdentifier() {
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return identifier;
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}
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public NamedArea getCountry() {
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return country;
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}
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public Object getDataValueForFeature(Feature feature){
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DescriptionElementBase descriptionElementBase = featureToElementMap.get(feature);
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if(descriptionElementBase!=null && descriptionElementBase.isInstanceOf(CategoricalData.class)){
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CategoricalData categoricalData = HibernateProxyHelper.deproxy(descriptionElementBase, CategoricalData.class);
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return categoricalData.getStatesOnly();
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}
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return descriptionElementBase;
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}
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public void setDataValueForFeature(Feature feature, Object newValue){
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DescriptionElementBase descriptionElementBase = featureToElementMap.get(feature);
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if(descriptionElementBase!=null && descriptionElementBase.isInstanceOf(CategoricalData.class) && newValue instanceof Collection){
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CategoricalData categoricalData = HibernateProxyHelper.deproxy(descriptionElementBase, CategoricalData.class);
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categoricalData.setStateDataOnly(new ArrayList<>((Collection<State>) newValue));
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}
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}
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}
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