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// $Id$
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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.api.service;
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import java.util.ArrayList;
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import java.util.Collection;
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import java.util.Collections;
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import java.util.Comparator;
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import java.util.List;
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import java.util.Map;
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import java.util.TreeMap;
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import java.util.UUID;
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import org.apache.log4j.Logger;
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import org.springframework.beans.factory.annotation.Autowired;
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import org.springframework.stereotype.Service;
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import org.springframework.transaction.annotation.Transactional;
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import eu.etaxonomy.cdm.api.service.pager.Pager;
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import eu.etaxonomy.cdm.api.service.pager.PagerUtils;
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import eu.etaxonomy.cdm.api.service.pager.impl.DefaultPagerImpl;
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import eu.etaxonomy.cdm.common.monitor.IProgressMonitor;
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import eu.etaxonomy.cdm.model.common.UuidAndTitleCache;
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import eu.etaxonomy.cdm.model.description.DescriptionElementBase;
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import eu.etaxonomy.cdm.model.description.TaxonDescription;
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import eu.etaxonomy.cdm.model.media.Media;
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import eu.etaxonomy.cdm.model.media.MediaRepresentation;
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import eu.etaxonomy.cdm.model.media.MediaUtils;
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import eu.etaxonomy.cdm.model.name.Rank;
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import eu.etaxonomy.cdm.model.taxon.Classification;
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import eu.etaxonomy.cdm.model.taxon.ITaxonNodeComparator;
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import eu.etaxonomy.cdm.model.taxon.ITaxonTreeNode;
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import eu.etaxonomy.cdm.model.taxon.Taxon;
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import eu.etaxonomy.cdm.model.taxon.TaxonNode;
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import eu.etaxonomy.cdm.persistence.dao.initializer.IBeanInitializer;
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import eu.etaxonomy.cdm.persistence.dao.taxon.IClassificationDao;
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import eu.etaxonomy.cdm.persistence.dao.taxon.ITaxonDao;
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import eu.etaxonomy.cdm.persistence.dao.taxon.ITaxonNodeDao;
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import eu.etaxonomy.cdm.persistence.query.OrderHint;
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import eu.etaxonomy.cdm.strategy.cache.common.IIdentifiableEntityCacheStrategy;
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/**
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* @author n.hoffmann
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* @created Sep 21, 2009
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*/
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@Service
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@Transactional(readOnly = true)
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public class ClassificationServiceImpl extends IdentifiableServiceBase<Classification, IClassificationDao> implements IClassificationService {
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private static final Logger logger = Logger.getLogger(ClassificationServiceImpl.class);
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@Autowired
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private ITaxonNodeDao taxonNodeDao;
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@Autowired
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private ITaxonDao taxonDao;
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@Autowired
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private IBeanInitializer defaultBeanInitializer;
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/* (non-Javadoc)
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* @see eu.etaxonomy.cdm.api.service.ServiceBase#setDao(eu.etaxonomy.cdm.persistence.dao.common.ICdmEntityDao)
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*/
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@Override
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@Autowired
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protected void setDao(IClassificationDao dao) {
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this.dao = dao;
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}
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private Comparator<? super TaxonNode> taxonNodeComparator;
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@Autowired
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public void setTaxonNodeComparator(ITaxonNodeComparator<? super TaxonNode> taxonNodeComparator){
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this.taxonNodeComparator = (Comparator<? super TaxonNode>) taxonNodeComparator;
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}
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/*
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* (non-Javadoc)
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* @see eu.etaxonomy.cdm.api.service.IClassificationService#loadTaxonNodeByTaxon(eu.etaxonomy.cdm.model.taxon.Taxon, java.util.UUID, java.util.List)
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*/
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@Override
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public TaxonNode loadTaxonNodeByTaxon(Taxon taxon, UUID classificationUuid, List<String> propertyPaths){
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Classification tree = dao.load(classificationUuid);
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TaxonNode node = tree.getNode(taxon);
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return loadTaxonNode(node.getUuid(), propertyPaths);
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}
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@Override
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@Deprecated // use loadTaxonNode(UUID, List<String>) instead
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public TaxonNode loadTaxonNode(TaxonNode taxonNode, List<String> propertyPaths){
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return taxonNodeDao.load(taxonNode.getUuid(), propertyPaths);
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}
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public TaxonNode loadTaxonNode(UUID taxonNodeUuid, List<String> propertyPaths){
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return taxonNodeDao.load(taxonNodeUuid, propertyPaths);
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}
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/*
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* (non-Javadoc)
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* @see eu.etaxonomy.cdm.api.service.IClassificationService#loadRankSpecificRootNodes(eu.etaxonomy.cdm.model.taxon.Classification, eu.etaxonomy.cdm.model.name.Rank, java.util.List)
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*/
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@Override
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@Deprecated
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public List<TaxonNode> loadRankSpecificRootNodes(Classification classification, Rank rank, Integer limit, Integer start, List<String> propertyPaths){
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List<TaxonNode> rootNodes = dao.loadRankSpecificRootNodes(classification, rank, limit , start, propertyPaths);
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//sort nodes by TaxonName
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Collections.sort(rootNodes, taxonNodeComparator);
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// initialize all nodes
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defaultBeanInitializer.initializeAll(rootNodes, propertyPaths);
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return rootNodes;
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}
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/* (non-Javadoc)
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* @see eu.etaxonomy.cdm.api.service.IClassificationService#listRankSpecificRootNodes(eu.etaxonomy.cdm.model.taxon.Classification, eu.etaxonomy.cdm.model.name.Rank, java.lang.Integer, java.lang.Integer, java.util.List)
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*/
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@Override
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public List<TaxonNode> listRankSpecificRootNodes(Classification classification, Rank rank, Integer pageSize,
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Integer pageIndex, List<String> propertyPaths) {
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return pageRankSpecificRootNodes(classification, rank, pageSize, pageIndex, propertyPaths).getRecords();
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}
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/* (non-Javadoc)
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* @see eu.etaxonomy.cdm.api.service.IClassificationService#pageRankSpecificRootNodes(eu.etaxonomy.cdm.model.taxon.Classification, eu.etaxonomy.cdm.model.name.Rank, java.lang.Integer, java.lang.Integer, java.util.List)
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*/
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@Override
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public Pager<TaxonNode> pageRankSpecificRootNodes(Classification classification, Rank rank, Integer pageSize,
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Integer pageIndex, List<String> propertyPaths) {
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Long numberOfResults = dao.countRankSpecificRootNodes(classification, rank);
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List<TaxonNode> results = new ArrayList<TaxonNode>();
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if (numberOfResults > 0) { // no point checking again
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results = dao.loadRankSpecificRootNodes(classification, rank, PagerUtils.limitFor(pageSize),
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PagerUtils.startFor(pageSize, pageIndex), propertyPaths);
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}
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Collections.sort(results, taxonNodeComparator); // FIXME this is only a HACK, order during the hibernate query in the dao
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return new DefaultPagerImpl<TaxonNode>(pageIndex, numberOfResults.intValue(), pageSize, results);
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}
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/**
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* (non-Javadoc)
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* @see eu.etaxonomy.cdm.api.service.ITaxonService#loadTreeBranchTo(eu.etaxonomy.cdm.model.taxon.TaxonNode, eu.etaxonomy.cdm.model.name.Rank, java.util.List)
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* FIXME Candidate for harmonization
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* move to classification service
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*/
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@Override
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public List<TaxonNode> loadTreeBranch(TaxonNode taxonNode, Rank baseRank, List<String> propertyPaths){
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TaxonNode thisNode = taxonNodeDao.load(taxonNode.getUuid(), propertyPaths);
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List<TaxonNode> pathToRoot = new ArrayList<TaxonNode>();
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pathToRoot.add(thisNode);
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TaxonNode parentNode = thisNode.getParent();
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while(parentNode != null){
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TaxonNode parent = parentNode;
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Rank parentNodeRank = parent.getTaxon().getName().getRank();
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// stop if the next parent is higher than the baseRank
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if(baseRank != null && baseRank.isLower(parentNodeRank)){
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break;
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}
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pathToRoot.add(parentNode);
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parentNode = parentNode.getParent();
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}
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// initialize and invert order of nodes in list
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defaultBeanInitializer.initializeAll(pathToRoot, propertyPaths);
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Collections.reverse(pathToRoot);
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return pathToRoot;
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}
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/*
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* (non-Javadoc)
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* @see eu.etaxonomy.cdm.api.service.IClassificationService#loadTreeBranchToTaxon(eu.etaxonomy.cdm.model.taxon.Taxon, eu.etaxonomy.cdm.model.taxon.Classification, eu.etaxonomy.cdm.model.name.Rank, java.util.List)
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*/
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@Override
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public List<TaxonNode> loadTreeBranchToTaxon(Taxon taxon, Classification classification, Rank baseRank, List<String> propertyPaths){
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Classification tree = dao.load(classification.getUuid());
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taxon = (Taxon) taxonDao.load(taxon.getUuid());
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TaxonNode node = tree.getNode(taxon);
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if(node == null){
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logger.warn("The specified taxon is not found in the given tree.");
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return null;
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}
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return loadTreeBranch(node, baseRank, propertyPaths);
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}
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/* (non-Javadoc)
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* @see eu.etaxonomy.cdm.api.service.IClassificationService#loadChildNodesOfTaxon(eu.etaxonomy.cdm.model.taxon.TaxonNode, java.util.List)
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*/
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@Override
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public List<TaxonNode> loadChildNodesOfTaxonNode(TaxonNode taxonNode,
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List<String> propertyPaths) {
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taxonNode = taxonNodeDao.load(taxonNode.getUuid());
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List<TaxonNode> childNodes = new ArrayList<TaxonNode>(taxonNode.getChildNodes());
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defaultBeanInitializer.initializeAll(childNodes, propertyPaths);
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Collections.sort(childNodes, taxonNodeComparator);
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return childNodes;
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}
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/*
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* (non-Javadoc)
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* @see eu.etaxonomy.cdm.api.service.IClassificationService#loadChildNodesOfTaxon(eu.etaxonomy.cdm.model.taxon.Taxon, eu.etaxonomy.cdm.model.taxon.Classification, java.util.List)
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*/
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@Override
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public List<TaxonNode> loadChildNodesOfTaxon(Taxon taxon, Classification classification, List<String> propertyPaths){
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Classification tree = dao.load(classification.getUuid());
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taxon = (Taxon) taxonDao.load(taxon.getUuid());
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TaxonNode node = tree.getNode(taxon);
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if(node != null){
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return loadChildNodesOfTaxonNode(node, propertyPaths);
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} else {
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return null;
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}
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}
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/*
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* (non-Javadoc)
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* @see eu.etaxonomy.cdm.api.service.IClassificationService#getTaxonNodeByUuid(java.util.UUID)
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*/
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@Override
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public TaxonNode getTaxonNodeByUuid(UUID uuid) {
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return taxonNodeDao.findByUuid(uuid);
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}
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/*
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* (non-Javadoc)
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* @see eu.etaxonomy.cdm.api.service.IClassificationService#getTreeNodeByUuid(java.util.UUID)
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*/
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@Override
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public ITaxonTreeNode getTreeNodeByUuid(UUID uuid){
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ITaxonTreeNode treeNode = taxonNodeDao.findByUuid(uuid);
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if(treeNode == null){
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treeNode = dao.findByUuid(uuid);
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}
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return treeNode;
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}
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/* (non-Javadoc)
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* @see eu.etaxonomy.cdm.api.service.IClassificationService#listClassifications(java.lang.Integer, java.lang.Integer, java.util.List, java.util.List)
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*/
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@Override
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public List<Classification> listClassifications(Integer limit, Integer start, List<OrderHint> orderHints, List<String> propertyPaths) {
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return dao.list(limit, start, orderHints, propertyPaths);
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}
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/* (non-Javadoc)
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* @see eu.etaxonomy.cdm.api.service.IClassificationService#removeTaxonNode(eu.etaxonomy.cdm.model.taxon.Classification)
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*/
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@Override
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public UUID removeTaxonNode(TaxonNode taxonNode) {
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return taxonNodeDao.delete(taxonNode);
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}
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/* (non-Javadoc)
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* @see eu.etaxonomy.cdm.api.service.IClassificationService#removeTreeNode(eu.etaxonomy.cdm.model.taxon.ITreeNode)
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*/
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@Override
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public UUID removeTreeNode(ITaxonTreeNode treeNode) {
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if(treeNode instanceof Classification){
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return dao.delete((Classification) treeNode);
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}else if(treeNode instanceof TaxonNode){
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return taxonNodeDao.delete((TaxonNode)treeNode);
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}
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return null;
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}
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/* (non-Javadoc)
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* @see eu.etaxonomy.cdm.api.service.IClassificationService#saveTaxonNode(eu.etaxonomy.cdm.model.taxon.Classification)
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*/
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@Override
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public UUID saveTaxonNode(TaxonNode taxonNode) {
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return taxonNodeDao.save(taxonNode);
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}
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/*
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* (non-Javadoc)
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* @see eu.etaxonomy.cdm.api.service.IClassificationService#saveTaxonNodeAll(java.util.Collection)
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*/
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@Override
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public Map<UUID, TaxonNode> saveTaxonNodeAll(
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Collection<TaxonNode> taxonNodeCollection) {
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return taxonNodeDao.saveAll(taxonNodeCollection);
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}
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/* (non-Javadoc)
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* @see eu.etaxonomy.cdm.api.service.IClassificationService#saveTreeNode(eu.etaxonomy.cdm.model.taxon.ITreeNode)
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*/
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@Override
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public UUID saveTreeNode(ITaxonTreeNode treeNode) {
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if(treeNode instanceof Classification){
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return dao.save((Classification) treeNode);
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}else if(treeNode instanceof TaxonNode){
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return taxonNodeDao.save((TaxonNode)treeNode);
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}
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return null;
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}
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@Override
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public List<TaxonNode> getAllNodes(){
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return taxonNodeDao.list(null,null);
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}
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/*
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* (non-Javadoc)
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* @see eu.etaxonomy.cdm.api.service.ITaxonService#getUuidAndTitleCacheOfAcceptedTaxa(eu.etaxonomy.cdm.model.taxon.Classification)
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*/
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@Override
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public List<UuidAndTitleCache<TaxonNode>> getTaxonNodeUuidAndTitleCacheOfAcceptedTaxaByClassification(Classification classification) {
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return taxonDao.getTaxonNodeUuidAndTitleCacheOfAcceptedTaxaByClassification(classification);
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}
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/* (non-Javadoc)
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* @see eu.etaxonomy.cdm.api.service.IdentifiableServiceBase#getUuidAndTitleCache()
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334
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*/
|
|
335
|
@Override
|
|
336
|
public List<UuidAndTitleCache<Classification>> getUuidAndTitleCache() {
|
|
337
|
return dao.getUuidAndTitleCache();
|
|
338
|
}
|
|
339
|
|
|
340
|
/* (non-Javadoc)
|
|
341
|
* @see eu.etaxonomy.cdm.api.service.IClassificationService#getAllMediaForChildNodes(eu.etaxonomy.cdm.model.taxon.TaxonNode, java.util.List, int, int, int, java.lang.String[])
|
|
342
|
*/
|
|
343
|
@Override
|
|
344
|
public Map<UUID, List<MediaRepresentation>> getAllMediaForChildNodes(
|
|
345
|
TaxonNode taxonNode, List<String> propertyPaths, int size,
|
|
346
|
int height, int widthOrDuration, String[] mimeTypes) {
|
|
347
|
|
|
348
|
TreeMap<UUID, List<MediaRepresentation>> result = new TreeMap<UUID, List<MediaRepresentation>>();
|
|
349
|
List<Media> taxonMedia = new ArrayList<Media>();
|
|
350
|
List<MediaRepresentation> mediaRepresentations = new ArrayList<MediaRepresentation>();
|
|
351
|
|
|
352
|
//add all media of the children to the result map
|
|
353
|
if (taxonNode != null){
|
|
354
|
|
|
355
|
List<TaxonNode> nodes = new ArrayList<TaxonNode>();
|
|
356
|
|
|
357
|
nodes.add(loadTaxonNode(taxonNode, propertyPaths));
|
|
358
|
nodes.addAll(loadChildNodesOfTaxonNode(taxonNode, propertyPaths));
|
|
359
|
|
|
360
|
if (nodes != null){
|
|
361
|
for(TaxonNode node : nodes){
|
|
362
|
Taxon taxon = node.getTaxon();
|
|
363
|
for (TaxonDescription taxonDescription: taxon.getDescriptions()){
|
|
364
|
for (DescriptionElementBase descriptionElement: taxonDescription.getElements()){
|
|
365
|
for(Media media : descriptionElement.getMedia()){
|
|
366
|
taxonMedia.add(media);
|
|
367
|
|
|
368
|
//find the best matching representation
|
|
369
|
mediaRepresentations.add(MediaUtils.findBestMatchingRepresentation(media,null, size, height, widthOrDuration, mimeTypes));
|
|
370
|
|
|
371
|
}
|
|
372
|
}
|
|
373
|
}
|
|
374
|
result.put(taxon.getUuid(), mediaRepresentations);
|
|
375
|
|
|
376
|
}
|
|
377
|
}
|
|
378
|
|
|
379
|
}
|
|
380
|
|
|
381
|
return result;
|
|
382
|
|
|
383
|
}
|
|
384
|
|
|
385
|
@Override
|
|
386
|
public Map<UUID, List<MediaRepresentation>> getAllMediaForChildNodes(Taxon taxon, Classification taxTree, List<String> propertyPaths, int size, int height, int widthOrDuration, String[] mimeTypes){
|
|
387
|
TaxonNode node = taxTree.getNode(taxon);
|
|
388
|
|
|
389
|
return getAllMediaForChildNodes(node, propertyPaths, size, height, widthOrDuration, mimeTypes);
|
|
390
|
}
|
|
391
|
|
|
392
|
/* (non-Javadoc)
|
|
393
|
* @see eu.etaxonomy.cdm.api.service.IIdentifiableEntityService#updateTitleCache(java.lang.Integer, eu.etaxonomy.cdm.strategy.cache.common.IIdentifiableEntityCacheStrategy)
|
|
394
|
*/
|
|
395
|
@Override
|
|
396
|
@Transactional(readOnly = false)
|
|
397
|
public void updateTitleCache(Class<? extends Classification> clazz, Integer stepSize, IIdentifiableEntityCacheStrategy<Classification> cacheStrategy, IProgressMonitor monitor) {
|
|
398
|
if (clazz == null){
|
|
399
|
clazz = Classification.class;
|
|
400
|
}
|
|
401
|
super.updateTitleCacheImpl(clazz, stepSize, cacheStrategy, monitor);
|
|
402
|
}
|
|
403
|
|
|
404
|
|
|
405
|
}
|