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/**
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* Copyright (C) 2007 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.cdm.io.dwca.out;
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import java.io.FileNotFoundException;
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import java.io.IOException;
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import java.io.UnsupportedEncodingException;
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import java.util.Arrays;
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import java.util.List;
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import org.apache.logging.log4j.LogManager;import org.apache.logging.log4j.Logger;
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import org.springframework.beans.factory.annotation.Autowired;
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import org.springframework.stereotype.Component;
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import eu.etaxonomy.cdm.api.service.ITaxonNodeService;
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import eu.etaxonomy.cdm.common.monitor.IProgressMonitor;
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import eu.etaxonomy.cdm.filter.TaxonNodeFilter;
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import eu.etaxonomy.cdm.io.common.TaxonNodeOutStreamPartitioner;
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import eu.etaxonomy.cdm.io.common.XmlExportState;
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import eu.etaxonomy.cdm.model.taxon.TaxonNode;
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/**
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* @author a.mueller
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* @since 18.04.2011
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*/
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@Component
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public class DwcaTaxExport extends DwcaExportBase {
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private static final long serialVersionUID = -3770976064909193441L;
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private static final Logger logger = LogManager.getLogger(DwcaTaxExport.class);
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@Autowired
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private ITaxonNodeService taxonNodeService;
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public DwcaTaxExport() {
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super();
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this.ioName = this.getClass().getSimpleName();
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file = DwcaTaxExportFile.TAXON;
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}
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/**
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* {@inheritDoc}
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*/
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@Override
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public long countSteps(DwcaTaxExportState state) {
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TaxonNodeFilter filter = state.getConfig().getTaxonNodeFilter();
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return taxonNodeService.count(filter);
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}
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/**
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* Retrieves data from a CDM DB and serializes the CDM to XML.
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* Starts with root taxa and traverses the classification to retrieve children taxa, synonyms and relationships.
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* Taxa that are not part of the classification are not found.
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* <BR>
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* {@inheritDoc}
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*/
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@Override
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protected void doInvoke(DwcaTaxExportState state){
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IProgressMonitor monitor = state.getConfig().getProgressMonitor();
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List<DwcaDataExportBase> exports = Arrays.asList(new DwcaDataExportBase[]{
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new DwcaTaxonExport(state),
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new DwcaReferenceExport(state),
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new DwcaResourceRelationExport(state),
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new DwcaTypesExport(state),
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new DwcaVernacularExport(state),
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new DwcaDescriptionExport(state),
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new DwcaDistributionExport(state),
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new DwcaImageExport(state)
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});
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@SuppressWarnings("unchecked")
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TaxonNodeOutStreamPartitioner<XmlExportState> partitioner
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= TaxonNodeOutStreamPartitioner.NewInstance(
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this, state, state.getConfig().getTaxonNodeFilter(),
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100, monitor, null);
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try {
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monitor.subTask("Start partitioning");
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TaxonNode node = partitioner.next();
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while (node != null){
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for (DwcaDataExportBase export : exports){
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handleTaxonNode(export, state, node);
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}
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node = partitioner.next();
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}
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} catch (Exception e) {
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String message = "Unexpected exception: " + e.getMessage();
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state.getResult().addException(e, message, "DwcaTaxExport.doInvoke()");
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}
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finally{
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if(partitioner != null){
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partitioner.close();
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}
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for (DwcaDataExportBase export : exports){
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closeWriter(export, state);
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}
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}
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return;
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}
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/**
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* @param taxonExport
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* @param state
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*/
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private void closeWriter(DwcaDataExportBase export, DwcaTaxExportState state) {
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if (!export.isIgnore(state)){
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export.closeWriter(state);
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}
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}
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private void handleTaxonNode(DwcaDataExportBase export, DwcaTaxExportState state, TaxonNode node) throws FileNotFoundException, UnsupportedEncodingException, IOException {
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if (!export.isIgnore(state)){
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export.handleTaxonNode(state, node);
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}
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}
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@Override
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protected boolean doCheck(DwcaTaxExportState state) {
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boolean result = true;
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logger.warn("No check implemented for " + this.ioName);
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return result;
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}
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@Override
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public boolean isIgnore(DwcaTaxExportState state) {
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return ! state.getConfig().isDoTaxa();
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}
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}
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