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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.strategy.cache.name;
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import java.util.ArrayList;
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import java.util.Iterator;
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import java.util.List;
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import java.util.Set;
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import java.util.UUID;
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import org.apache.commons.lang.StringUtils;
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import org.apache.log4j.Logger;
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import eu.etaxonomy.cdm.common.CdmUtils;
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import eu.etaxonomy.cdm.hibernate.HibernateProxyHelper;
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import eu.etaxonomy.cdm.model.agent.INomenclaturalAuthor;
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import eu.etaxonomy.cdm.model.agent.Team;
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import eu.etaxonomy.cdm.model.common.Language;
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import eu.etaxonomy.cdm.model.common.Representation;
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import eu.etaxonomy.cdm.model.name.HybridRelationship;
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import eu.etaxonomy.cdm.model.name.NomenclaturalStatus;
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import eu.etaxonomy.cdm.model.name.NomenclaturalStatusType;
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import eu.etaxonomy.cdm.model.name.NonViralName;
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import eu.etaxonomy.cdm.model.name.Rank;
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import eu.etaxonomy.cdm.model.reference.INomenclaturalReference;
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import eu.etaxonomy.cdm.strategy.TagEnum;
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import eu.etaxonomy.cdm.strategy.TaggedText;
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import eu.etaxonomy.cdm.strategy.exceptions.UnknownCdmTypeException;
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import eu.etaxonomy.cdm.strategy.parser.NonViralNameParserImplRegExBase;
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/**
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* This class is a default implementation for the INonViralNameCacheStrategy<T extends NonViralName> interface.
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* The method actually implements a cache strategy for botanical names so no method has to be overwritten by
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* a subclass for botanic names.
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* Where differing from this Default BotanicNameCacheStrategy other subclasses should overwrite the existing methods
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* e.g. a CacheStrategy for zoological names should overwrite getAuthorAndExAuthor
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* @author a.mueller
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*/
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/**
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* @author AM
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*
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* @param <T>
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*/
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public class NonViralNameDefaultCacheStrategy<T extends NonViralName> extends NameCacheStrategyBase<T> implements INonViralNameCacheStrategy<T> {
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private static final Logger logger = Logger.getLogger(NonViralNameDefaultCacheStrategy.class);
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final static UUID uuid = UUID.fromString("1cdda0d1-d5bc-480f-bf08-40a510a2f223");
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protected String NameAuthorSeperator = " ";
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protected String BasionymStart = "(";
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protected String BasionymEnd = ")";
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protected String ExAuthorSeperator = " ex ";
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protected CharSequence BasionymAuthorCombinationAuthorSeperator = " ";
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@Override
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public UUID getUuid(){
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return uuid;
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}
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/**
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* Factory method
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* @return NonViralNameDefaultCacheStrategy A new instance of NonViralNameDefaultCacheStrategy
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*/
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public static NonViralNameDefaultCacheStrategy NewInstance(){
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return new NonViralNameDefaultCacheStrategy();
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}
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/**
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* Factory method
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* @return NonViralNameDefaultCacheStrategy A new instance of NonViralNameDefaultCacheStrategy
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*/
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public static <T extends NonViralName<?>> NonViralNameDefaultCacheStrategy<T> NewInstance(Class<T> clazz){
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return new NonViralNameDefaultCacheStrategy<T>();
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}
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/**
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* Constructor
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*/
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protected NonViralNameDefaultCacheStrategy(){
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super();
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}
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/* **************** GETTER / SETTER **************************************/
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/**
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* String that separates the NameCache part from the AuthorCache part
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* @return
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*/
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public String getNameAuthorSeperator() {
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return NameAuthorSeperator;
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}
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public void setNameAuthorSeperator(String nameAuthorSeperator) {
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NameAuthorSeperator = nameAuthorSeperator;
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}
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/**
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* String the basionym author part starts with e.g. '('.
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* This should correspond with the {@link NonViralNameDefaultCacheStrategy#getBasionymEnd() basionymEnd} attribute
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* @return
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*/
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public String getBasionymStart() {
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return BasionymStart;
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}
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public void setBasionymStart(String basionymStart) {
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BasionymStart = basionymStart;
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}
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/**
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* String the basionym author part ends with e.g. ')'.
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* This should correspond with the {@link NonViralNameDefaultCacheStrategy#getBasionymStart() basionymStart} attribute
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* @return
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*/
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public String getBasionymEnd() {
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return BasionymEnd;
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}
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public void setBasionymEnd(String basionymEnd) {
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BasionymEnd = basionymEnd;
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}
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/**
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* String to seperate ex author from author.
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* @return
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*/
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public String getExAuthorSeperator() {
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return ExAuthorSeperator;
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}
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public void setExAuthorSeperator(String exAuthorSeperator) {
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ExAuthorSeperator = exAuthorSeperator;
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}
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/**
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* String that seperates the basionym/original_combination author part from the combination author part
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* @return
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*/
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public CharSequence getBasionymAuthorCombinationAuthorSeperator() {
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return BasionymAuthorCombinationAuthorSeperator;
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}
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public void setBasionymAuthorCombinationAuthorSeperator(
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CharSequence basionymAuthorCombinationAuthorSeperator) {
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BasionymAuthorCombinationAuthorSeperator = basionymAuthorCombinationAuthorSeperator;
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}
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//** *****************************************************************************************/
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/* (non-Javadoc)
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* @see eu.etaxonomy.cdm.strategy.cache.name.NameCacheStrategyBase#getTitleCache(eu.etaxonomy.cdm.model.name.TaxonNameBase)
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*/
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@Override
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public String getTitleCache(T nonViralName) {
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List<TaggedText> tags = getTaggedTitle(nonViralName);
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if (tags == null){
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return null;
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}else{
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String result = createString(tags);
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return result;
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}
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}
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public String getTitleCache_OLD(T nonViralName) {
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if (nonViralName == null){
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return null;
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}
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if (nonViralName.isProtectedTitleCache()){
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return nonViralName.getTitleCache();
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}
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String result = "";
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if (nonViralName.isHybridFormula()){
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//hybrid formula
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result = null;
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String hybridSeparator = " " + NonViralNameParserImplRegExBase.hybridSign + " ";
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List<HybridRelationship> rels = nonViralName.getOrderedChildRelationships();
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for (HybridRelationship rel: rels){
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result = CdmUtils.concat(hybridSeparator, result, rel.getParentName().getTitleCache()).trim();
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}
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return result;
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}else if (nonViralName.isAutonym()){
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//Autonym
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result = handleAutonym(nonViralName);
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}else{ //not Autonym
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String nameCache = nonViralName.getNameCache(); //OLD: CdmUtils.Nz(getNameCache(nonViralName));
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if (nameIncludesAuthorship(nonViralName)){
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String authorCache = CdmUtils.Nz(getAuthorshipCache(nonViralName));
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result = CdmUtils.concat(NameAuthorSeperator, nameCache, authorCache);
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}else{
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result = nameCache;
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}
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}
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return result;
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}
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/**
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* Creates a string from tagged text.
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* @param tags
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* @return
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*/
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private String createString(List<TaggedText> tags) {
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StringBuffer result = new StringBuffer();
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boolean isSeparator;
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boolean wasSeparator = true; //true for start tag
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for (TaggedText tag: tags){
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isSeparator = tag.getType().equals(TagEnum.separator);
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if (! wasSeparator && ! isSeparator ){
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result.append(" ");
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}
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result.append(tag.getText());
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wasSeparator = isSeparator;
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}
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return result.toString();
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}
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/**
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* @param nonViralName
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* @param speciesPart
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* @return
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*/
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private List<TaggedText> handleTaggedAutonym(T nonViralName) {
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//species part
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List<TaggedText> tags = getSpeciesTaggedNameCache(nonViralName);
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//author
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//TODO should this include basionym authors and ex authors
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INomenclaturalAuthor author = nonViralName.getCombinationAuthorTeam();
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String authorPart = "";
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if (author != null){
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authorPart = CdmUtils.Nz(author.getNomenclaturalTitle());
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}
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INomenclaturalAuthor basAuthor = nonViralName.getBasionymAuthorTeam();
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String basAuthorPart = "";
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if (basAuthor != null){
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basAuthorPart = CdmUtils.Nz(basAuthor.getNomenclaturalTitle());
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}
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if (! "".equals(basAuthorPart)){
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authorPart = "("+ basAuthorPart +") " + authorPart;
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}
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if (StringUtils.isNotBlank(authorPart)){
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tags.add(new TaggedText(TagEnum.authors, authorPart));
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}
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//infra species marker
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if (nonViralName.getRank() == null || !nonViralName.getRank().isInfraSpecific()){
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//TODO handle exception
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logger.warn("Rank for autonym does not exist or is not lower than species !!");
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}else{
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String infraSpeciesMarker = nonViralName.getRank().getAbbreviation();
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if (StringUtils.isNotBlank(infraSpeciesMarker)){
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tags.add(new TaggedText(TagEnum.rank, infraSpeciesMarker));
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}
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}
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//infra species
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String infraSpeciesPart = CdmUtils.Nz(nonViralName.getInfraSpecificEpithet()).trim().replace("null", "");
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if (StringUtils.isNotBlank(infraSpeciesPart)){
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tags.add(new TaggedText(TagEnum.name, infraSpeciesPart));
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}
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return tags;
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}
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/**
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* @param nonViralName
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* @param speciesPart
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* @return
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*/
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private String handleAutonym(T nonViralName) {
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String result;
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String speciesPart = getSpeciesNameCache(nonViralName);
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//TODO should this include basionym authors and ex authors
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INomenclaturalAuthor author = nonViralName.getCombinationAuthorTeam();
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String authorPart = "";
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if (author != null){
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authorPart = CdmUtils.Nz(author.getNomenclaturalTitle());
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}
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INomenclaturalAuthor basAuthor = nonViralName.getBasionymAuthorTeam();
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String basAuthorPart = "";
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if (basAuthor != null){
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basAuthorPart = CdmUtils.Nz(basAuthor.getNomenclaturalTitle());
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}
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if (! "".equals(basAuthorPart)){
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authorPart = "("+ basAuthorPart +") " + authorPart;
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}
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String infraSpeciesPart = (CdmUtils.Nz(nonViralName.getInfraSpecificEpithet()));
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String infraSpeciesSeparator = "";
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if (nonViralName.getRank() == null || !nonViralName.getRank().isInfraSpecific()){
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//TODO handle exception
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logger.warn("Rank for autonym does not exist or is not lower than species !!");
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}else{
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infraSpeciesSeparator = nonViralName.getRank().getAbbreviation();
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}
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result = CdmUtils.concat(" ", new String[]{speciesPart, authorPart, infraSpeciesSeparator, infraSpeciesPart});
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result = result.trim().replace("null", "");
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return result;
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}
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protected boolean nameIncludesAuthorship(NonViralName<?> nonViralName){
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Rank rank = nonViralName.getRank();
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if (rank != null && rank.isSpeciesAggregate()){
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return false;
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}else{
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return true;
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}
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}
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/* (non-Javadoc)
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* @see eu.etaxonomy.cdm.strategy.cache.name.NameCacheStrategyBase#getFullTitleCache(eu.etaxonomy.cdm.model.name.TaxonNameBase)
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*/
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@Override
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public String getFullTitleCache(T nonViralName) {
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List<TaggedText> tags = getTaggedFullTitle(nonViralName);
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if (tags == null){
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return null;
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}else{
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String result = createString(tags);
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return result;
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}
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}
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public String getFullTitleCache_OLD(T nonViralName) {
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//null
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if (nonViralName == null){
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return null;
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}
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//full title cache
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if (nonViralName.isProtectedFullTitleCache() == true) {
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return nonViralName.getFullTitleCache();
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}
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String result = "";
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//title cache
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String titleCache = nonViralName.getTitleCache(); // OLD: getTitleCache(nonViralName);
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String microReference = nonViralName.getNomenclaturalMicroReference();
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INomenclaturalReference ref = nonViralName.getNomenclaturalReference();
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String referenceBaseCache = null;
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if (ref != null){
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INomenclaturalReference nomenclaturalReference = HibernateProxyHelper.deproxy(ref, INomenclaturalReference.class);
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nomenclaturalReference.setCacheStrategy(nomenclaturalReference.getType().getCacheStrategy());
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referenceBaseCache = nomenclaturalReference.getNomenclaturalCitation(microReference);
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}
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//make nomenclatural status
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String ncStatusCache = "";
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Set<NomenclaturalStatus> ncStati = nonViralName.getStatus();
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Iterator<NomenclaturalStatus> iterator = ncStati.iterator();
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378
|
while (iterator.hasNext()) {
|
|
379
|
NomenclaturalStatus ncStatus = (NomenclaturalStatus)iterator.next();
|
|
380
|
// since the NewInstance method of nomencatural status allows null as parameter
|
|
381
|
// we have to check for null values here
|
|
382
|
String suffix = "not defined";
|
|
383
|
if(ncStatus.getType() != null){
|
|
384
|
NomenclaturalStatusType statusType = ncStatus.getType();
|
|
385
|
Language lang = Language.LATIN();
|
|
386
|
Representation repr = statusType.getRepresentation(lang);
|
|
387
|
if (repr != null){
|
|
388
|
suffix = repr.getAbbreviatedLabel();
|
|
389
|
}else{
|
|
390
|
String message = "No latin representation available for nom. status. " + statusType.getTitleCache();
|
|
391
|
logger.warn(message);
|
|
392
|
throw new IllegalStateException(message);
|
|
393
|
}
|
|
394
|
}else if(ncStatus.getRuleConsidered() != null && ! ncStatus.getRuleConsidered().equals("")){
|
|
395
|
suffix = ncStatus.getRuleConsidered();
|
|
396
|
}
|
|
397
|
ncStatusCache = ", " + suffix;
|
|
398
|
}
|
|
399
|
String refConcat = " ";
|
|
400
|
if (referenceBaseCache != null && ! referenceBaseCache.trim().startsWith("in ")){
|
|
401
|
refConcat = ", ";
|
|
402
|
}
|
|
403
|
result = CdmUtils.concat(refConcat, titleCache, referenceBaseCache);
|
|
404
|
result = CdmUtils.concat("", result, ncStatusCache);
|
|
405
|
return result;
|
|
406
|
}
|
|
407
|
|
|
408
|
|
|
409
|
|
|
410
|
/**
|
|
411
|
* Generates and returns the "name cache" (only scientific name without author teams and year).
|
|
412
|
* @see eu.etaxonomy.cdm.strategy.cache.name.INameCacheStrategy#getNameCache(eu.etaxonomy.cdm.model.name.TaxonNameBase)
|
|
413
|
*/
|
|
414
|
@Override
|
|
415
|
public String getNameCache(T nonViralName) {
|
|
416
|
List<TaggedText> tags = getNameTags(nonViralName);
|
|
417
|
if (tags == null){
|
|
418
|
return null;
|
|
419
|
}else{
|
|
420
|
String result = createString(tags);
|
|
421
|
return result;
|
|
422
|
}
|
|
423
|
}
|
|
424
|
|
|
425
|
public String getNameCache_OLD(T nonViralName) {
|
|
426
|
if (nonViralName == null){
|
|
427
|
return null;
|
|
428
|
}
|
|
429
|
String result;
|
|
430
|
Rank rank = nonViralName.getRank();
|
|
431
|
|
|
432
|
if (nonViralName.isProtectedNameCache()){
|
|
433
|
result = nonViralName.getNameCache();
|
|
434
|
}else if (rank == null){
|
|
435
|
result = getRanklessNameCache(nonViralName);
|
|
436
|
// }else if (nonViralName.isInfragenericUnranked()){
|
|
437
|
// result = getUnrankedInfragenericNameCache(nonViralName);
|
|
438
|
}else if (rank.isInfraSpecific()){
|
|
439
|
result = getInfraSpeciesNameCache(nonViralName);
|
|
440
|
}else if (rank.isSpecies()){
|
|
441
|
result = getSpeciesNameCache(nonViralName);
|
|
442
|
}else if (rank.isInfraGeneric()){
|
|
443
|
result = getInfraGenusNameCache(nonViralName);
|
|
444
|
}else if (rank.isGenus()){
|
|
445
|
result = getGenusOrUninomialNameCache(nonViralName);
|
|
446
|
}else if (rank.isSupraGeneric()){
|
|
447
|
result = getGenusOrUninomialNameCache(nonViralName);
|
|
448
|
}else{
|
|
449
|
logger.warn("Name Strategy for Name (UUID: " + nonViralName.getUuid() + ") not yet implemented");
|
|
450
|
result = "";
|
|
451
|
}
|
|
452
|
return result;
|
|
453
|
}
|
|
454
|
|
|
455
|
|
|
456
|
private String getUnrankedInfragenericNameCache(T nonViralName) {
|
|
457
|
String result;
|
|
458
|
Rank rank = nonViralName.getRank();
|
|
459
|
if (rank.isSpeciesAggregate()){
|
|
460
|
return getSpeciesAggregateCache(nonViralName);
|
|
461
|
}
|
|
462
|
String infraGenericMarker = rank.getAbbreviation();
|
|
463
|
result = CdmUtils.Nz(nonViralName.getGenusOrUninomial()).trim();
|
|
464
|
result += " " + infraGenericMarker + " " + (CdmUtils.Nz(nonViralName.getInfraGenericEpithet())).trim().replace("null", "");
|
|
465
|
result = addAppendedPhrase(result, nonViralName).trim();
|
|
466
|
return result;
|
|
467
|
}
|
|
468
|
|
|
469
|
|
|
470
|
/* (non-Javadoc)
|
|
471
|
* @see eu.etaxonomy.cdm.strategy.cache.INonViralNameCacheStrategy#getAuthorCache(eu.etaxonomy.cdm.model.name.NonViralName)
|
|
472
|
*/
|
|
473
|
public String getAuthorshipCache(T nonViralName) {
|
|
474
|
if (nonViralName == null){
|
|
475
|
return null;
|
|
476
|
}
|
|
477
|
//cache protected
|
|
478
|
if (nonViralName.isProtectedAuthorshipCache() == true) {
|
|
479
|
return nonViralName.getAuthorshipCache();
|
|
480
|
}
|
|
481
|
return getNonCacheAuthorshipCache(nonViralName);
|
|
482
|
|
|
483
|
}
|
|
484
|
|
|
485
|
/**
|
|
486
|
* Returns the authorshipcache string for the atomized authorship fields. Does not use the authorshipfield.
|
|
487
|
* @throws NullPointerException if nonViralName is null.
|
|
488
|
* @param nonViralName
|
|
489
|
* @return
|
|
490
|
*/
|
|
491
|
protected String getNonCacheAuthorshipCache(T nonViralName){
|
|
492
|
String result = "";
|
|
493
|
INomenclaturalAuthor combinationAuthor = nonViralName.getCombinationAuthorTeam();
|
|
494
|
INomenclaturalAuthor exCombinationAuthor = nonViralName.getExCombinationAuthorTeam();
|
|
495
|
INomenclaturalAuthor basionymAuthor = nonViralName.getBasionymAuthorTeam();
|
|
496
|
INomenclaturalAuthor exBasionymAuthor = nonViralName.getExBasionymAuthorTeam();
|
|
497
|
String basionymPart = "";
|
|
498
|
String authorPart = "";
|
|
499
|
//basionym
|
|
500
|
if (basionymAuthor != null || exBasionymAuthor != null){
|
|
501
|
basionymPart = BasionymStart + getAuthorAndExAuthor(basionymAuthor, exBasionymAuthor) + BasionymEnd;
|
|
502
|
}
|
|
503
|
if (combinationAuthor != null || exCombinationAuthor != null){
|
|
504
|
authorPart = getAuthorAndExAuthor(combinationAuthor, exCombinationAuthor);
|
|
505
|
}
|
|
506
|
result = CdmUtils.concat(BasionymAuthorCombinationAuthorSeperator, basionymPart, authorPart);
|
|
507
|
return result;
|
|
508
|
}
|
|
509
|
|
|
510
|
/**
|
|
511
|
* Returns the AuthorCache part for a combination of an author and an ex author. This applies on combination authors
|
|
512
|
* as well as on basionym/orginal combination authors.
|
|
513
|
* @param author the author
|
|
514
|
* @param exAuthor the ex-author
|
|
515
|
* @return
|
|
516
|
*/
|
|
517
|
protected String getAuthorAndExAuthor(INomenclaturalAuthor author, INomenclaturalAuthor exAuthor){
|
|
518
|
String result = "";
|
|
519
|
String authorString = "";
|
|
520
|
String exAuthorString = "";
|
|
521
|
if (author != null){
|
|
522
|
authorString = CdmUtils.Nz(author.getNomenclaturalTitle());
|
|
523
|
}
|
|
524
|
if (exAuthor != null){
|
|
525
|
exAuthorString = CdmUtils.Nz(exAuthor.getNomenclaturalTitle());
|
|
526
|
}
|
|
527
|
if (exAuthorString.length() > 0 ){
|
|
528
|
exAuthorString = exAuthorString + ExAuthorSeperator;
|
|
529
|
}
|
|
530
|
result = exAuthorString + authorString;
|
|
531
|
return result;
|
|
532
|
|
|
533
|
}
|
|
534
|
|
|
535
|
// ************* TAGGED NAME ***************************************/
|
|
536
|
|
|
537
|
/* (non-Javadoc)
|
|
538
|
* @see eu.etaxonomy.cdm.strategy.cache.name.NameCacheStrategyBase#getTaggedTitle(eu.etaxonomy.cdm.model.name.TaxonNameBase)
|
|
539
|
*/
|
|
540
|
@Override
|
|
541
|
public List<TaggedText> getTaggedFullTitle(T nonViralName) {
|
|
542
|
List<TaggedText> tags = new ArrayList<TaggedText>();
|
|
543
|
|
|
544
|
//null
|
|
545
|
if (nonViralName == null){
|
|
546
|
return null;
|
|
547
|
}
|
|
548
|
|
|
549
|
//protected full title cache
|
|
550
|
if (nonViralName.isProtectedFullTitleCache()){
|
|
551
|
tags.add(new TaggedText(TagEnum.fullName, nonViralName.getFullTitleCache()));
|
|
552
|
return tags;
|
|
553
|
}
|
|
554
|
|
|
555
|
//title cache
|
|
556
|
// String titleCache = nonViralName.getTitleCache();
|
|
557
|
List<TaggedText> titleTags = getTaggedTitle(nonViralName);
|
|
558
|
tags.addAll(titleTags);
|
|
559
|
|
|
560
|
|
|
561
|
//reference
|
|
562
|
String microReference = nonViralName.getNomenclaturalMicroReference();
|
|
563
|
INomenclaturalReference ref = nonViralName.getNomenclaturalReference();
|
|
564
|
String referenceBaseCache = null;
|
|
565
|
if (ref != null){
|
|
566
|
INomenclaturalReference nomenclaturalReference = HibernateProxyHelper.deproxy(ref, INomenclaturalReference.class);
|
|
567
|
nomenclaturalReference.setCacheStrategy(nomenclaturalReference.getType().getCacheStrategy());
|
|
568
|
referenceBaseCache = nomenclaturalReference.getNomenclaturalCitation(microReference);
|
|
569
|
}
|
|
570
|
//add to tags
|
|
571
|
if (StringUtils.isNotBlank(referenceBaseCache)){
|
|
572
|
if (! referenceBaseCache.trim().startsWith("in ")){
|
|
573
|
String refConcat = ", ";
|
|
574
|
tags.add(new TaggedText(TagEnum.separator, refConcat));
|
|
575
|
}
|
|
576
|
tags.add(new TaggedText(TagEnum.reference, referenceBaseCache));
|
|
577
|
}
|
|
578
|
|
|
579
|
//nomenclatural status
|
|
580
|
Set<NomenclaturalStatus> ncStati = nonViralName.getStatus();
|
|
581
|
Iterator<NomenclaturalStatus> iterator = ncStati.iterator();
|
|
582
|
List<TaggedText> nomStatusTags = new ArrayList<TaggedText>();
|
|
583
|
while (iterator.hasNext()) {
|
|
584
|
NomenclaturalStatus ncStatus = (NomenclaturalStatus)iterator.next();
|
|
585
|
// since the NewInstance method of nomencatural status allows null as parameter
|
|
586
|
// we have to check for null values here
|
|
587
|
String suffix = "not defined";
|
|
588
|
if(ncStatus.getType() != null){
|
|
589
|
NomenclaturalStatusType statusType = ncStatus.getType();
|
|
590
|
Language lang = Language.LATIN();
|
|
591
|
Representation repr = statusType.getRepresentation(lang);
|
|
592
|
if (repr != null){
|
|
593
|
suffix = repr.getAbbreviatedLabel();
|
|
594
|
}else{
|
|
595
|
String message = "No latin representation available for nom. status. " + statusType.getTitleCache();
|
|
596
|
logger.warn(message);
|
|
597
|
throw new IllegalStateException(message);
|
|
598
|
}
|
|
599
|
}else if(ncStatus.getRuleConsidered() != null && ! ncStatus.getRuleConsidered().equals("")){
|
|
600
|
suffix = ncStatus.getRuleConsidered();
|
|
601
|
}
|
|
602
|
String statusSeparator = ", ";
|
|
603
|
nomStatusTags.add(new TaggedText(TagEnum.separator, statusSeparator));
|
|
604
|
nomStatusTags.add(new TaggedText(TagEnum.nomStatus, suffix));
|
|
605
|
}
|
|
606
|
tags.addAll(nomStatusTags);
|
|
607
|
return tags;
|
|
608
|
|
|
609
|
}
|
|
610
|
|
|
611
|
public List<TaggedText> getTaggedTitle(T nonViralName) {
|
|
612
|
if (nonViralName == null){
|
|
613
|
return null;
|
|
614
|
}
|
|
615
|
|
|
616
|
List<TaggedText> tags = new ArrayList<TaggedText>();
|
|
617
|
|
|
618
|
//TODO how to handle protected fullTitleCache here?
|
|
619
|
|
|
620
|
if (nonViralName.isProtectedTitleCache()){
|
|
621
|
//protected title cache
|
|
622
|
tags.add(new TaggedText(TagEnum.name, nonViralName.getTitleCache()));
|
|
623
|
return tags;
|
|
624
|
}else if (nonViralName.isHybridFormula()){
|
|
625
|
//hybrid formula
|
|
626
|
String hybridSeparator = NonViralNameParserImplRegExBase.hybridSign;
|
|
627
|
boolean isFirst = true;
|
|
628
|
List<HybridRelationship> rels = nonViralName.getOrderedChildRelationships();
|
|
629
|
for (HybridRelationship rel: rels){
|
|
630
|
if (! isFirst){
|
|
631
|
tags.add(new TaggedText(TagEnum.separator, hybridSeparator));
|
|
632
|
}
|
|
633
|
tags.add(new TaggedText(TagEnum.name, hybridSeparator));
|
|
634
|
isFirst = false;
|
|
635
|
tags.addAll(getTaggedTitle((T)rel.getParentName()));
|
|
636
|
}
|
|
637
|
return tags;
|
|
638
|
}else if (nonViralName.isAutonym()){
|
|
639
|
//Autonym
|
|
640
|
tags.addAll(handleTaggedAutonym(nonViralName));
|
|
641
|
}else{ //not Autonym
|
|
642
|
// String nameCache = nonViralName.getNameCache(); //OLD: CdmUtils.Nz(getNameCache(nonViralName));
|
|
643
|
List<TaggedText> nameTags = getNameTags(nonViralName);
|
|
644
|
tags.addAll(nameTags);
|
|
645
|
if (nameIncludesAuthorship(nonViralName)){
|
|
646
|
String authorCache = getAuthorshipCache(nonViralName);
|
|
647
|
if (StringUtils.isNotBlank(authorCache)){
|
|
648
|
tags.add(new TaggedText(TagEnum.authors, authorCache));
|
|
649
|
}
|
|
650
|
}
|
|
651
|
}
|
|
652
|
return tags;
|
|
653
|
|
|
654
|
}
|
|
655
|
|
|
656
|
|
|
657
|
/**
|
|
658
|
* @param nonViralName
|
|
659
|
* @return
|
|
660
|
*/
|
|
661
|
private List<TaggedText> getNameTags(T nonViralName) {
|
|
662
|
if (nonViralName == null){
|
|
663
|
return null;
|
|
664
|
}
|
|
665
|
List<TaggedText> tags = new ArrayList<TaggedText>();
|
|
666
|
Rank rank = nonViralName.getRank();
|
|
667
|
|
|
668
|
if (nonViralName.isProtectedNameCache()){
|
|
669
|
tags.add(new TaggedText(TagEnum.name, nonViralName.getNameCache()));
|
|
670
|
}else if (rank == null){
|
|
671
|
tags = getRanklessTaggedNameCache(nonViralName);
|
|
672
|
// }else if (nonViralName.isInfragenericUnranked()){
|
|
673
|
// result = getUnrankedInfragenericNameCache(nonViralName);
|
|
674
|
}else if (rank.isInfraSpecific()){
|
|
675
|
tags = getInfraSpeciesTaggedNameCache(nonViralName);
|
|
676
|
}else if (rank.isSpecies()){
|
|
677
|
tags = getSpeciesTaggedNameCache(nonViralName);
|
|
678
|
}else if (rank.isInfraGeneric()){
|
|
679
|
tags = getInfraGenusTaggedNameCache(nonViralName);
|
|
680
|
}else if (rank.isGenus()){
|
|
681
|
tags = getGenusOrUninomialTaggedNameCache(nonViralName);
|
|
682
|
}else if (rank.isSupraGeneric()){
|
|
683
|
tags = getGenusOrUninomialTaggedNameCache(nonViralName);
|
|
684
|
}else{
|
|
685
|
logger.warn("Name Strategy for Name (UUID: " + nonViralName.getUuid() + ") not yet implemented");
|
|
686
|
}
|
|
687
|
//TODO handle appended phrase here instead of different places, check first if this is true for all
|
|
688
|
//cases
|
|
689
|
|
|
690
|
return tags;
|
|
691
|
|
|
692
|
}
|
|
693
|
|
|
694
|
|
|
695
|
//Old: may be replaced once getTagged(Full)Title is fully tested
|
|
696
|
/* (non-Javadoc)
|
|
697
|
* @see eu.etaxonomy.cdm.strategy.INameCacheStrategy#getTaggedName(eu.etaxonomy.cdm.model.common.CdmBase)
|
|
698
|
*/
|
|
699
|
@Override
|
|
700
|
public List<Object> getTaggedName(T nonViralName) {
|
|
701
|
List<Object> tags = new ArrayList<Object>();
|
|
702
|
|
|
703
|
if (nonViralName.isProtectedNameCache() ||
|
|
704
|
nonViralName.isProtectedAuthorshipCache() ||
|
|
705
|
nonViralName.isProtectedFullTitleCache() ||
|
|
706
|
nonViralName.isProtectedTitleCache()){
|
|
707
|
tags.add(nonViralName.getTitleCache());
|
|
708
|
return tags;
|
|
709
|
}
|
|
710
|
|
|
711
|
// Why does it make sense to add the nameCache in case of non existing genusOrUninomial?
|
|
712
|
// if (nonViralName.getGenusOrUninomial() == null){
|
|
713
|
// tags.add(nonViralName.getNameCache());
|
|
714
|
// }else{
|
|
715
|
|
|
716
|
if (nonViralName.getGenusOrUninomial() != null) {
|
|
717
|
tags.add(nonViralName.getGenusOrUninomial());
|
|
718
|
}
|
|
719
|
if (nonViralName.isSpecies() || nonViralName.isInfraSpecific()){
|
|
720
|
tags.add(nonViralName.getSpecificEpithet());
|
|
721
|
}
|
|
722
|
|
|
723
|
// No autonym
|
|
724
|
if (nonViralName.isInfraSpecific() && ! nonViralName.getSpecificEpithet().equals(nonViralName.getInfraSpecificEpithet())){
|
|
725
|
tags.add(nonViralName.getRank());
|
|
726
|
tags.add(nonViralName.getInfraSpecificEpithet());
|
|
727
|
}
|
|
728
|
|
|
729
|
if (nonViralName.isInfraGeneric()){
|
|
730
|
//TODO choose right strategy or generic approach?
|
|
731
|
// --- strategy 1 ---
|
|
732
|
|
|
733
|
if (nonViralName.getRank().isSpeciesAggregate()){
|
|
734
|
tags.add(nonViralName.getSpecificEpithet());
|
|
735
|
tags.add(getSpeciesAggregateEpithet(nonViralName));
|
|
736
|
}else{
|
|
737
|
tags.add(nonViralName.getRank());
|
|
738
|
tags.add(nonViralName.getInfraGenericEpithet());
|
|
739
|
}
|
|
740
|
// --- strategy 2 ---
|
|
741
|
// tags.add('('+nvn.getInfraGenericEpithet()+')');
|
|
742
|
}
|
|
743
|
Team authorTeam = Team.NewInstance();
|
|
744
|
authorTeam.setProtectedTitleCache(true);
|
|
745
|
authorTeam.setTitleCache(nonViralName.getAuthorshipCache(), true);
|
|
746
|
tags.add(authorTeam);
|
|
747
|
|
|
748
|
// Name is an autonym. Rank and infraspecific epitheton follow the author
|
|
749
|
if (nonViralName.isInfraSpecific() && nonViralName.getSpecificEpithet().equals(nonViralName.getInfraSpecificEpithet())){
|
|
750
|
tags.add(nonViralName.getRank());
|
|
751
|
tags.add(nonViralName.getInfraSpecificEpithet());
|
|
752
|
}
|
|
753
|
|
|
754
|
if(! "".equals(nonViralName.getAppendedPhrase())&& (nonViralName.getAppendedPhrase() != null)){
|
|
755
|
tags.add(nonViralName.getAppendedPhrase());
|
|
756
|
}
|
|
757
|
|
|
758
|
return tags;
|
|
759
|
}
|
|
760
|
|
|
761
|
|
|
762
|
//***************************** PRIVATES ***************************************/
|
|
763
|
|
|
764
|
protected List<TaggedText> getRanklessTaggedNameCache(NonViralName<?> nonViralName){
|
|
765
|
List<TaggedText> tags = getUninomialTaggedPart(nonViralName);
|
|
766
|
String speciesEpi = CdmUtils.Nz(nonViralName.getSpecificEpithet()).trim().replace("null", "");
|
|
767
|
if (StringUtils.isNotBlank(speciesEpi)){
|
|
768
|
tags.add(new TaggedText(TagEnum.name, speciesEpi));
|
|
769
|
}
|
|
770
|
|
|
771
|
String infraSpeciesEpi = CdmUtils.Nz(nonViralName.getInfraSpecificEpithet()).trim().replace("null", "");
|
|
772
|
if (StringUtils.isNotBlank(infraSpeciesEpi)){
|
|
773
|
tags.add(new TaggedText(TagEnum.name, infraSpeciesEpi));
|
|
774
|
}
|
|
775
|
|
|
776
|
//result += " (rankless)";
|
|
777
|
addAppendedTaggedPhrase(tags, nonViralName);
|
|
778
|
return tags;
|
|
779
|
}
|
|
780
|
|
|
781
|
protected String getRanklessNameCache(NonViralName<?> nonViralName){
|
|
782
|
String result = "";
|
|
783
|
result = (result + (CdmUtils.Nz(nonViralName.getGenusOrUninomial()))).trim().replace("null", "");
|
|
784
|
result += " " + (CdmUtils.Nz(nonViralName.getSpecificEpithet())).trim();
|
|
785
|
result += " " + (CdmUtils.Nz(nonViralName.getInfraSpecificEpithet())).trim();
|
|
786
|
result = result.trim().replace("null", "");
|
|
787
|
//result += " (rankless)";
|
|
788
|
result = addAppendedPhrase(result, nonViralName);
|
|
789
|
return result;
|
|
790
|
}
|
|
791
|
|
|
792
|
|
|
793
|
protected List<TaggedText> getGenusOrUninomialTaggedNameCache(NonViralName<?> nonViralName){
|
|
794
|
List<TaggedText> tags = getUninomialTaggedPart(nonViralName);
|
|
795
|
addAppendedTaggedPhrase(tags, nonViralName);
|
|
796
|
return tags;
|
|
797
|
}
|
|
798
|
|
|
799
|
protected String getGenusOrUninomialNameCache(NonViralName<?> nonViralName){
|
|
800
|
String result;
|
|
801
|
result = getUninomialPart(nonViralName);
|
|
802
|
result = addAppendedPhrase(result, nonViralName).trim();
|
|
803
|
return result;
|
|
804
|
}
|
|
805
|
|
|
806
|
|
|
807
|
private List<TaggedText> getUninomialTaggedPart(NonViralName<?> nonViralName) {
|
|
808
|
List<TaggedText> tags = new ArrayList<TaggedText>();
|
|
809
|
|
|
810
|
if (nonViralName.isMonomHybrid()){
|
|
811
|
addHybridPrefix(tags);
|
|
812
|
}
|
|
813
|
|
|
814
|
String uninomial = CdmUtils.Nz(nonViralName.getGenusOrUninomial()).trim().replace("null", "");
|
|
815
|
if (StringUtils.isNotBlank(uninomial)){
|
|
816
|
tags.add(new TaggedText(TagEnum.name, uninomial));
|
|
817
|
}
|
|
818
|
|
|
819
|
return tags;
|
|
820
|
}
|
|
821
|
|
|
822
|
private String getUninomialPart(NonViralName<?> nonViralName) {
|
|
823
|
String result;
|
|
824
|
result = CdmUtils.Nz(nonViralName.getGenusOrUninomial()).trim();
|
|
825
|
if (nonViralName.isMonomHybrid()){
|
|
826
|
result = NonViralNameParserImplRegExBase.hybridSign + result;
|
|
827
|
}
|
|
828
|
return result;
|
|
829
|
}
|
|
830
|
|
|
831
|
|
|
832
|
protected List<TaggedText> getInfraGenusTaggedNameCache(NonViralName<?> nonViralName){
|
|
833
|
Rank rank = nonViralName.getRank();
|
|
834
|
if (rank.isSpeciesAggregate()){
|
|
835
|
return getSpeciesAggregateTaggedCache(nonViralName);
|
|
836
|
}
|
|
837
|
|
|
838
|
//genus
|
|
839
|
List<TaggedText> tags = getUninomialTaggedPart(nonViralName);
|
|
840
|
|
|
841
|
//marker
|
|
842
|
String infraGenericMarker = "'unhandled infrageneric rank'";
|
|
843
|
if (rank != null){
|
|
844
|
try {
|
|
845
|
infraGenericMarker = rank.getInfraGenericMarker();
|
|
846
|
} catch (UnknownCdmTypeException e) {
|
|
847
|
infraGenericMarker = "'unhandled infrageneric rank'";
|
|
848
|
}
|
|
849
|
}
|
|
850
|
tags.add(new TaggedText(TagEnum.rank, infraGenericMarker));
|
|
851
|
|
|
852
|
|
|
853
|
String infraGenEpi = CdmUtils.Nz(nonViralName.getInfraGenericEpithet()).trim().replace("null", "");
|
|
854
|
if (StringUtils.isNotBlank(infraGenEpi)){
|
|
855
|
tags.add(new TaggedText(TagEnum.name, infraGenEpi));
|
|
856
|
}
|
|
857
|
|
|
858
|
addAppendedTaggedPhrase(tags, nonViralName);
|
|
859
|
return tags;
|
|
860
|
}
|
|
861
|
|
|
862
|
protected String getInfraGenusNameCache(NonViralName<?> nonViralName){
|
|
863
|
String result;
|
|
864
|
Rank rank = nonViralName.getRank();
|
|
865
|
if (rank.isSpeciesAggregate()){
|
|
866
|
return getSpeciesAggregateCache(nonViralName);
|
|
867
|
}
|
|
868
|
String infraGenericMarker = "'unhandled infrageneric rank'";
|
|
869
|
if (rank != null){
|
|
870
|
try {
|
|
871
|
infraGenericMarker = rank.getInfraGenericMarker();
|
|
872
|
} catch (UnknownCdmTypeException e) {
|
|
873
|
infraGenericMarker = "'unhandled infrageneric rank'";
|
|
874
|
}
|
|
875
|
}
|
|
876
|
result = getUninomialPart(nonViralName);
|
|
877
|
result += " " + infraGenericMarker + " " + (CdmUtils.Nz(nonViralName.getInfraGenericEpithet())).trim().replace("null", "");
|
|
878
|
result = addAppendedPhrase(result, nonViralName).trim();
|
|
879
|
return result;
|
|
880
|
}
|
|
881
|
|
|
882
|
// aggr.|agg.|group
|
|
883
|
protected List<TaggedText> getSpeciesAggregateTaggedCache(NonViralName<?> nonViralName){
|
|
884
|
List<TaggedText> tags = getGenusAndSpeciesTaggedPart(nonViralName);
|
|
885
|
|
|
886
|
addSpeciesAggregateTaggedEpithet(tags, nonViralName);
|
|
887
|
addAppendedTaggedPhrase(tags, nonViralName);
|
|
888
|
return tags;
|
|
889
|
}
|
|
890
|
|
|
891
|
private void addSpeciesAggregateTaggedEpithet(List<TaggedText> tags, NonViralName<?> nonViralName) {
|
|
892
|
String marker;
|
|
893
|
try {
|
|
894
|
marker = nonViralName.getRank().getInfraGenericMarker();
|
|
895
|
} catch (UnknownCdmTypeException e) {
|
|
896
|
marker = "'unknown aggregat type'";
|
|
897
|
}
|
|
898
|
if (StringUtils.isNotBlank(marker)){
|
|
899
|
tags.add(new TaggedText(TagEnum.rank, marker));
|
|
900
|
}
|
|
901
|
}
|
|
902
|
|
|
903
|
// aggr.|agg.|group
|
|
904
|
protected String getSpeciesAggregateCache(NonViralName<?> nonViralName){
|
|
905
|
String result = getGenusAndSpeciesPart(nonViralName);
|
|
906
|
|
|
907
|
result += " " + getSpeciesAggregateEpithet(nonViralName);
|
|
908
|
result = addAppendedPhrase(result, nonViralName).trim();
|
|
909
|
return result;
|
|
910
|
}
|
|
911
|
|
|
912
|
private String getSpeciesAggregateEpithet(NonViralName<?> nonViralName) {
|
|
913
|
String marker;
|
|
914
|
try {
|
|
915
|
marker = nonViralName.getRank().getInfraGenericMarker();
|
|
916
|
} catch (UnknownCdmTypeException e) {
|
|
917
|
marker = "'unknown aggregat type'";
|
|
918
|
}
|
|
919
|
return marker;
|
|
920
|
}
|
|
921
|
|
|
922
|
|
|
923
|
protected List<TaggedText> getSpeciesTaggedNameCache(NonViralName<?> nonViralName){
|
|
924
|
List<TaggedText> tags = getGenusAndSpeciesTaggedPart(nonViralName);
|
|
925
|
addAppendedTaggedPhrase(tags, nonViralName);
|
|
926
|
return tags;
|
|
927
|
}
|
|
928
|
|
|
929
|
protected String getSpeciesNameCache(NonViralName<?> nonViralName){
|
|
930
|
String result = getGenusAndSpeciesPart(nonViralName);
|
|
931
|
result = addAppendedPhrase(result, nonViralName).trim();
|
|
932
|
result = result.replace("\\s\\", " ");
|
|
933
|
return result;
|
|
934
|
}
|
|
935
|
|
|
936
|
protected List<TaggedText> getInfraSpeciesTaggedNameCache(NonViralName<?> nonViralName){
|
|
937
|
return getInfraSpeciesTaggedNameCache(nonViralName, true);
|
|
938
|
}
|
|
939
|
|
|
940
|
protected List<TaggedText> getInfraSpeciesTaggedNameCache(NonViralName<?> nonViralName, boolean includeMarker){
|
|
941
|
List<TaggedText> tags = getGenusAndSpeciesTaggedPart(nonViralName);
|
|
942
|
if (includeMarker){
|
|
943
|
String marker = (nonViralName.getRank().getAbbreviation()).trim().replace("null", "");
|
|
944
|
if (StringUtils.isNotBlank(marker)){
|
|
945
|
tags.add(new TaggedText(TagEnum.rank, marker));
|
|
946
|
}
|
|
947
|
}
|
|
948
|
String infrSpecEpi = CdmUtils.Nz(nonViralName.getInfraSpecificEpithet());
|
|
949
|
if (nonViralName.isTrinomHybrid()){
|
|
950
|
addHybridPrefix(tags);
|
|
951
|
}
|
|
952
|
|
|
953
|
infrSpecEpi = infrSpecEpi.trim().replace("null", "");
|
|
954
|
if (StringUtils.isNotBlank(infrSpecEpi)){
|
|
955
|
tags.add(new TaggedText(TagEnum.name, infrSpecEpi));
|
|
956
|
}
|
|
957
|
|
|
958
|
addAppendedTaggedPhrase(tags, nonViralName);
|
|
959
|
return tags;
|
|
960
|
}
|
|
961
|
|
|
962
|
|
|
963
|
/**
|
|
964
|
* Adds a tag for the hybrid sign and an empty separator to avoid trailing whitespaces.
|
|
965
|
* @param tags
|
|
966
|
*/
|
|
967
|
private void addHybridPrefix(List<TaggedText> tags) {
|
|
968
|
tags.add(new TaggedText(TagEnum.hybridSign, NonViralNameParserImplRegExBase.hybridSign));
|
|
969
|
tags.add(new TaggedText(TagEnum.separator, "")); //no whitespace separator
|
|
970
|
}
|
|
971
|
|
|
972
|
protected String getInfraSpeciesNameCache(NonViralName<?> nonViralName){
|
|
973
|
return getInfraSpeciesNameCache(nonViralName, true);
|
|
974
|
}
|
|
975
|
|
|
976
|
|
|
977
|
protected String getInfraSpeciesNameCache(NonViralName<?> nonViralName, boolean includeMarker){
|
|
978
|
String result = getGenusAndSpeciesPart(nonViralName);
|
|
979
|
if (includeMarker){
|
|
980
|
result += " " + (nonViralName.getRank().getAbbreviation()).trim().replace("null", "");
|
|
981
|
}
|
|
982
|
String infrSpecEpi = CdmUtils.Nz(nonViralName.getInfraSpecificEpithet());
|
|
983
|
if (nonViralName.isTrinomHybrid()){
|
|
984
|
infrSpecEpi = NonViralNameParserImplRegExBase.hybridSign + infrSpecEpi;
|
|
985
|
}
|
|
986
|
result += " " + (infrSpecEpi).trim().replace("null", "");
|
|
987
|
result = addAppendedPhrase(result, nonViralName).trim();
|
|
988
|
return result;
|
|
989
|
}
|
|
990
|
|
|
991
|
|
|
992
|
private List<TaggedText> getGenusAndSpeciesTaggedPart(NonViralName<?> nonViralName) {
|
|
993
|
//Uninomial
|
|
994
|
List<TaggedText> tags = getUninomialTaggedPart(nonViralName);
|
|
995
|
|
|
996
|
//InfraGenericEpi
|
|
997
|
boolean hasInfraGenericEpi = StringUtils.isNotBlank(nonViralName.getInfraGenericEpithet());
|
|
998
|
if (hasInfraGenericEpi){
|
|
999
|
String infrGenEpi = nonViralName.getInfraGenericEpithet().trim();
|
|
1000
|
if (nonViralName.isBinomHybrid()){
|
|
1001
|
// addHybridPrefix(tags); FIXME hybridSign should be tag, but then we need to handle "(" ")" differently.
|
|
1002
|
infrGenEpi = NonViralNameParserImplRegExBase.hybridSign + infrGenEpi;
|
|
1003
|
}
|
|
1004
|
infrGenEpi = "(" + infrGenEpi + ")";
|
|
1005
|
tags.add(new TaggedText(TagEnum.name, infrGenEpi));
|
|
1006
|
}
|
|
1007
|
|
|
1008
|
//Species Epi
|
|
1009
|
String specEpi = CdmUtils.Nz(nonViralName.getSpecificEpithet()).trim().replace("null", "");
|
|
1010
|
if (! hasInfraGenericEpi && nonViralName.isBinomHybrid() ||
|
|
1011
|
hasInfraGenericEpi && nonViralName.isTrinomHybrid()){
|
|
1012
|
addHybridPrefix(tags);
|
|
1013
|
}
|
|
1014
|
if (StringUtils.isNotBlank(specEpi)){
|
|
1015
|
tags.add(new TaggedText(TagEnum.name, specEpi));
|
|
1016
|
}
|
|
1017
|
return tags;
|
|
1018
|
}
|
|
1019
|
|
|
1020
|
private String getGenusAndSpeciesPart(NonViralName<?> nonViralName) {
|
|
1021
|
String result;
|
|
1022
|
//Uninomial
|
|
1023
|
result = getUninomialPart(nonViralName);
|
|
1024
|
|
|
1025
|
//InfraGenericEpi
|
|
1026
|
boolean hasInfraGenericEpi = StringUtils.isNotBlank(nonViralName.getInfraGenericEpithet());
|
|
1027
|
if (hasInfraGenericEpi){
|
|
1028
|
String infrGenEpi = nonViralName.getInfraGenericEpithet().trim();
|
|
1029
|
if (nonViralName.isBinomHybrid()){
|
|
1030
|
infrGenEpi = NonViralNameParserImplRegExBase.hybridSign + infrGenEpi;
|
|
1031
|
}
|
|
1032
|
result += " (" + infrGenEpi + ")";
|
|
1033
|
}
|
|
1034
|
//Species Epi
|
|
1035
|
String specEpi = CdmUtils.Nz(nonViralName.getSpecificEpithet()).trim();
|
|
1036
|
if (! hasInfraGenericEpi && nonViralName.isBinomHybrid() ||
|
|
1037
|
hasInfraGenericEpi && nonViralName.isTrinomHybrid()){
|
|
1038
|
specEpi = NonViralNameParserImplRegExBase.hybridSign + specEpi;
|
|
1039
|
}
|
|
1040
|
result += " " + (specEpi).replace("null", "");
|
|
1041
|
return result;
|
|
1042
|
}
|
|
1043
|
|
|
1044
|
|
|
1045
|
/**
|
|
1046
|
* Adds the tag for the appended phrase if an appended phrase exists
|
|
1047
|
* @param tags
|
|
1048
|
* @param nonViralName
|
|
1049
|
*/
|
|
1050
|
protected void addAppendedTaggedPhrase(List<TaggedText> tags, NonViralName<?> nonViralName){
|
|
1051
|
String appendedPhrase = nonViralName ==null ? null : nonViralName.getAppendedPhrase();
|
|
1052
|
if (StringUtils.isNotEmpty(appendedPhrase)){
|
|
1053
|
tags.add(new TaggedText(TagEnum.name, appendedPhrase));
|
|
1054
|
}
|
|
1055
|
}
|
|
1056
|
|
|
1057
|
protected String addAppendedPhrase(String resultString, NonViralName<?> nonViralName){
|
|
1058
|
String appendedPhrase = nonViralName ==null ? null : nonViralName.getAppendedPhrase();
|
|
1059
|
if (resultString == null){
|
|
1060
|
return appendedPhrase;
|
|
1061
|
}else if(appendedPhrase == null || "".equals(appendedPhrase.trim())) {
|
|
1062
|
return resultString;
|
|
1063
|
}else if ("".equals(resultString)){
|
|
1064
|
return resultString + appendedPhrase;
|
|
1065
|
}else {
|
|
1066
|
return resultString + " " + appendedPhrase;
|
|
1067
|
}
|
|
1068
|
}
|
|
1069
|
|
|
1070
|
|
|
1071
|
public String getLastEpithet(T taxonNameBase) {
|
|
1072
|
Rank rank = taxonNameBase.getRank();
|
|
1073
|
if(rank.isGenus() || rank.isSupraGeneric()) {
|
|
1074
|
return taxonNameBase.getGenusOrUninomial();
|
|
1075
|
} else if(rank.isInfraGeneric()) {
|
|
1076
|
return taxonNameBase.getInfraGenericEpithet();
|
|
1077
|
} else if(rank.isSpecies()) {
|
|
1078
|
return taxonNameBase.getSpecificEpithet();
|
|
1079
|
} else {
|
|
1080
|
return taxonNameBase.getInfraSpecificEpithet();
|
|
1081
|
}
|
|
1082
|
}
|
|
1083
|
}
|