Revision 262c0177
Added by Andreas Müller almost 2 years ago
| cdmlib-model/src/main/java/eu/etaxonomy/cdm/compare/name/NullTypeDesignationStatus.java | ||
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import eu.etaxonomy.cdm.model.term.TermVocabulary; |
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/** |
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* NOTE: This class was moved here from TypeDesignationWorkingSet to allow to be used
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* NOTE: This class was moved here from TypeDesignationSet to allow to be used |
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* in model compare classes. |
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* |
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* @author a.kohlbecker |
| cdmlib-remote/src/main/java/eu/etaxonomy/cdm/remote/json/processor/value/MapJSONValueProcessor.java | ||
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/** |
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* Copyright (C) 2009 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.remote.json.processor.value; |
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import java.util.Map; |
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import java.util.Objects; |
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import eu.etaxonomy.cdm.api.service.l10n.TermRepresentation_L10n; |
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import eu.etaxonomy.cdm.api.service.name.TypeDesignationWorkingSet; |
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import eu.etaxonomy.cdm.model.common.LanguageString; |
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import eu.etaxonomy.cdm.model.name.TypeDesignationStatusBase; |
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import eu.etaxonomy.cdm.ref.TypedEntityReference; |
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import net.sf.json.JSONObject; |
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import net.sf.json.JsonConfig; |
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import net.sf.json.processors.JsonValueProcessor; |
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/** |
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* @author a.kohlbecker |
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* @since 23.06.2010 |
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* |
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*/ |
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public class MapJSONValueProcessor implements JsonValueProcessor {
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@Override |
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public Object processArrayValue(Object value, JsonConfig jsonConfig) {
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if(value instanceof TypeDesignationWorkingSet){
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TypeDesignationWorkingSet map = (TypeDesignationWorkingSet)value; |
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JSONObject json = new JSONObject(); |
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for(TypeDesignationStatusBase<?> key : map.keySet()){
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TermRepresentation_L10n term_L10n = new TermRepresentation_L10n(key, false); |
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String label = Objects.toString(term_L10n.getLabel(), "NULL"); |
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json.element(label, map.get(key), jsonConfig); |
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} |
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return json; |
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} else if(value instanceof Map){
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Map<?,?> map= (Map<?,?>)value; |
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if( ! map.isEmpty()){
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JSONObject json = new JSONObject(); |
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if(map.keySet().iterator().next() instanceof TypedEntityReference){
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for(Object key : map.keySet()){
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json.element(key.toString(), map.get(key), jsonConfig); |
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} |
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} else {
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for (Object val : map.values()){
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if(val instanceof LanguageString){
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json.element(((LanguageString)val).getLanguageLabel(), val, jsonConfig); |
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} else {
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return JSONObject.fromObject(value, jsonConfig); |
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} |
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} |
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} |
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return json; |
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} |
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} |
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return JSONObject.fromObject(value, jsonConfig); |
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} |
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/* (non-Javadoc) |
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* @see net.sf.json.processors.JsonValueProcessor#processObjectValue(java.lang.String, java.lang.Object, net.sf.json.JsonConfig) |
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*/ |
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@Override |
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public Object processObjectValue(String key, Object value, |
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JsonConfig jsonConfig) {
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return processArrayValue(value, jsonConfig); |
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} |
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} |
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/** |
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* Copyright (C) 2009 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.remote.json.processor.value; |
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import java.util.Map; |
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import java.util.Objects; |
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import eu.etaxonomy.cdm.api.service.l10n.TermRepresentation_L10n; |
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import eu.etaxonomy.cdm.api.service.name.TypeDesignationSet; |
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import eu.etaxonomy.cdm.model.common.LanguageString; |
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import eu.etaxonomy.cdm.model.name.TypeDesignationStatusBase; |
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import eu.etaxonomy.cdm.ref.TypedEntityReference; |
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import net.sf.json.JSONObject; |
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import net.sf.json.JsonConfig; |
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import net.sf.json.processors.JsonValueProcessor; |
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/** |
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* @author a.kohlbecker |
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* @since 23.06.2010 |
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* |
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*/ |
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public class MapJSONValueProcessor implements JsonValueProcessor {
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@Override |
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public Object processArrayValue(Object value, JsonConfig jsonConfig) {
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if(value instanceof TypeDesignationSet){
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TypeDesignationSet map = (TypeDesignationSet)value; |
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JSONObject json = new JSONObject(); |
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for(TypeDesignationStatusBase<?> key : map.keySet()){
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TermRepresentation_L10n term_L10n = new TermRepresentation_L10n(key, false); |
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String label = Objects.toString(term_L10n.getLabel(), "NULL"); |
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json.element(label, map.get(key), jsonConfig); |
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} |
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return json; |
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} else if(value instanceof Map){
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Map<?,?> map= (Map<?,?>)value; |
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if( ! map.isEmpty()){
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JSONObject json = new JSONObject(); |
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if(map.keySet().iterator().next() instanceof TypedEntityReference){
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for(Object key : map.keySet()){
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json.element(key.toString(), map.get(key), jsonConfig); |
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} |
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} else {
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for (Object val : map.values()){
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if(val instanceof LanguageString){
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json.element(((LanguageString)val).getLanguageLabel(), val, jsonConfig); |
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} else {
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return JSONObject.fromObject(value, jsonConfig); |
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} |
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} |
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} |
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return json; |
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} |
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} |
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return JSONObject.fromObject(value, jsonConfig); |
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} |
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/* (non-Javadoc) |
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* @see net.sf.json.processors.JsonValueProcessor#processObjectValue(java.lang.String, java.lang.Object, net.sf.json.JsonConfig) |
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*/ |
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@Override |
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public Object processObjectValue(String key, Object value, |
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JsonConfig jsonConfig) {
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return processArrayValue(value, jsonConfig); |
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} |
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} |
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| cdmlib-remote/src/main/resources/eu/etaxonomy/cdm/remote/json/jsonConfigurations.xml | ||
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<entry key="java.util.LinkedHashMap"> |
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<bean class="eu.etaxonomy.cdm.remote.json.processor.value.MapJSONValueProcessor" /> |
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</entry> |
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<entry key="eu.etaxonomy.cdm.api.service.name.TypeDesignationWorkingSet">
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<entry key="eu.etaxonomy.cdm.api.service.name.TypeDesignationSet"> |
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<bean class="eu.etaxonomy.cdm.remote.json.processor.value.MapJSONValueProcessor" /> |
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</entry> |
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<entry key="eu.etaxonomy.cdm.common.URI"> |
| ... | ... | |
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<entry key="java.util.LinkedHashMap"> |
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<bean class="eu.etaxonomy.cdm.remote.json.processor.value.MapJSONValueProcessor" /> |
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</entry> |
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<entry key="eu.etaxonomy.cdm.api.service.name.TypeDesignationWorkingSet">
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<entry key="eu.etaxonomy.cdm.api.service.name.TypeDesignationSet"> |
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<bean class="eu.etaxonomy.cdm.remote.json.processor.value.MapJSONValueProcessor" /> |
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</entry> |
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<entry key="eu.etaxonomy.cdm.common.URI"> |
| cdmlib-services/src/main/java/eu/etaxonomy/cdm/api/service/dto/RegistrationDTO.java | ||
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import eu.etaxonomy.cdm.api.service.name.TypeDesignationDTO; |
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import eu.etaxonomy.cdm.api.service.name.TypeDesignationSetFormatter; |
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import eu.etaxonomy.cdm.api.service.name.TypeDesignationSetManager; |
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import eu.etaxonomy.cdm.api.service.name.TypeDesignationWorkingSet;
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import eu.etaxonomy.cdm.api.service.name.TypeDesignationSet; |
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import eu.etaxonomy.cdm.format.reference.NomenclaturalSourceFormatter; |
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import eu.etaxonomy.cdm.model.common.VerbatimTimePeriod; |
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import eu.etaxonomy.cdm.model.common.VersionableEntity; |
| ... | ... | |
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return name; |
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} |
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public Map<VersionableEntity,TypeDesignationWorkingSet> getOrderedTypeDesignationWorkingSets() {
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return typeDesignationManager != null ? typeDesignationManager.getOrderedTypeDesignationWorkingSets() : null;
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public Map<VersionableEntity,TypeDesignationSet> getOrderedTypeDesignationSets() {
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return typeDesignationManager != null ? typeDesignationManager.getOrderedTypeDesignationSets() : null; |
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} |
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public TypeDesignationWorkingSet getTypeDesignationWorkingSet(VersionableEntity baseEntity) {
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return typeDesignationManager != null ? typeDesignationManager.getOrderedTypeDesignationWorkingSets().get(baseEntity) : null;
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public TypeDesignationSet getTypeDesignationSet(VersionableEntity baseEntity) {
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return typeDesignationManager != null ? typeDesignationManager.getOrderedTypeDesignationSets().get(baseEntity) : null; |
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} |
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public Set<TypeDesignationBase> getTypeDesignationsInWorkingSet(VersionableEntity baseEntity) {
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Set<TypeDesignationBase> typeDesignations = new HashSet<>(); |
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TypeDesignationWorkingSet workingSet = getTypeDesignationWorkingSet(baseEntity);
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TypeDesignationSet workingSet = getTypeDesignationSet(baseEntity);
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for(TypeDesignationDTO<?> ref : workingSet.getTypeDesignations()){
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typeDesignations.add(findTypeDesignation(ref)); |
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} |
| cdmlib-services/src/main/java/eu/etaxonomy/cdm/api/service/name/TypeDesignationSet.java | ||
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/** |
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* Copyright (C) 2020 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.name; |
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import java.util.ArrayList; |
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import java.util.Collection; |
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import java.util.Comparator; |
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import java.util.LinkedHashMap; |
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import java.util.List; |
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import java.util.Set; |
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import eu.etaxonomy.cdm.compare.name.NullTypeDesignationStatus; |
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import eu.etaxonomy.cdm.model.common.VersionableEntity; |
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import eu.etaxonomy.cdm.model.name.TypeDesignationStatusBase; |
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import eu.etaxonomy.cdm.model.occurrence.SpecimenOrObservationBase; |
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/** |
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* TypeDesignations which refer to the same base entity (e.g. FieldUnit for SpecimenTypeDesignations |
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* or TaxonName/NameTypeDesignation for NameTypeDesignation form a type designation set. |
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* The <code>TypeDesignationSet</code> internally stores the entity base |
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* and an ordered map that maps type status (TypeDesignationStatusBase) to the type designations |
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* in the <code>TypeDesignationSet</code>. |
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* |
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* The TypeDesignationStatusBase keys can be ordered by the term order defined in the vocabulary. |
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* |
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* A typeDesignationSet can be referenced by the <code>baseEntity</code>. |
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* |
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* @author a.kohlbecker |
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* @author a.mueller |
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* @since Mar 10, 2017 |
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*/ |
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public class TypeDesignationSet {
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public static final NullTypeDesignationStatus NULL_STATUS = NullTypeDesignationStatus.SINGLETON(); |
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private String label = null; |
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private VersionableEntity baseEntity; |
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private LinkedHashMap<TypeDesignationStatusBase<?>,Collection<TypeDesignationDTO>> designationByStatusMap = new LinkedHashMap<>(); |
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public enum TypeDesignationSetType {
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SPECIMEN_TYPE_DESIGNATION_SET, |
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NAME_TYPE_DESIGNATION_SET; |
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boolean isSpecimenType(){return this == SPECIMEN_TYPE_DESIGNATION_SET;}
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boolean isNameType(){return this == NAME_TYPE_DESIGNATION_SET;}
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} |
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// ********************************* CONSTRUCTOR **************************/ |
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public TypeDesignationSet(VersionableEntity baseEntity) {
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this.baseEntity = baseEntity; |
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} |
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// ***********************************************************************/ |
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public VersionableEntity getBaseEntity() {
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return baseEntity; |
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} |
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public List<TypeDesignationDTO> getTypeDesignations() {
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List<TypeDesignationDTO> typeDesignations = new ArrayList<>(); |
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designationByStatusMap.values().forEach(typeDesignationDtos -> typeDesignationDtos.forEach(td -> typeDesignations.add(td))); |
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return typeDesignations; |
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} |
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public Set<TypeDesignationStatusBase<?>> keySet() {
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return designationByStatusMap.keySet(); |
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} |
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public Collection<TypeDesignationDTO> get(TypeDesignationStatusBase<?> typeStatus) {
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return designationByStatusMap.get(typeStatus); |
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} |
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public void insert(TypeDesignationStatusBase<?> status, |
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TypeDesignationDTO<?> typeDesignationDto) {
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if(status == null){
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status = NULL_STATUS; |
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} |
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if(!designationByStatusMap.containsKey(status)){
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designationByStatusMap.put(status, new ArrayList<>()); |
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} |
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designationByStatusMap.get(status).add(typeDesignationDto); |
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} |
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public Collection<TypeDesignationDTO> put(TypeDesignationStatusBase<?> status, |
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Collection<TypeDesignationDTO> typeDesignationDtos) {
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if(status == null){
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status = NULL_STATUS; |
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} |
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return designationByStatusMap.put(status, typeDesignationDtos); |
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} |
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public String getLabel() {
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return label; |
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} |
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public void setRepresentation(String representation){
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this.label = representation; |
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} |
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//TODO if not needed anymore |
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// /** |
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// * A reference to the entity which is the common base entity for all TypeDesignations in this workingset. |
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// * For a {@link SpecimenTypeDesignation} this is usually the {@link FieldUnit} if it is present. Otherwise it can also be
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// * a {@link DerivedUnit} or something else depending on the specific use case.
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// * |
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// * @return the baseEntityReference |
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// */ |
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// public TypedEntityReference<? extends VersionableEntity> getBaseEntityReference() {
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// return baseEntityReference; |
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// } |
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public boolean isSpecimenWorkingSet() {
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return getWorkingsetType().isSpecimenType(); |
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} |
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public boolean isNameWorkingSet() {
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return getWorkingsetType().isNameType(); |
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} |
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private boolean isSpecimenTypeDesigationWorkingSet() {
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return SpecimenOrObservationBase.class.isAssignableFrom(baseEntity.getClass()); |
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} |
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public TypeDesignationSetType getWorkingsetType() {
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return isSpecimenTypeDesigationWorkingSet() ? TypeDesignationSetType.SPECIMEN_TYPE_DESIGNATION_SET : TypeDesignationSetType.NAME_TYPE_DESIGNATION_SET; |
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} |
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/** |
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* Uses the <code>comparator</code> to find the highest {@link TypeDesignationStatusBase} term and returns that.
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*/ |
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public TypeDesignationStatusBase<?> highestTypeStatus(Comparator<TypeDesignationStatusBase<?>> comparator) {
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TypeDesignationStatusBase<?> highestTypeStatus = null; |
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for(TypeDesignationStatusBase<?> status : designationByStatusMap.keySet()) {
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if(comparator.compare(status, highestTypeStatus) < 0){
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highestTypeStatus = status; |
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} |
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} |
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return highestTypeStatus; |
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} |
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// **************************** toString() ************************************ |
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@Override |
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public String toString(){
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if(label != null){
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return label; |
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} else {
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return super.toString(); |
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} |
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} |
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} |
|
| cdmlib-services/src/main/java/eu/etaxonomy/cdm/api/service/name/TypeDesignationSetFormatter.java | ||
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| 16 | 16 |
|
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import org.apache.commons.lang3.StringUtils; |
| 18 | 18 |
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import eu.etaxonomy.cdm.api.service.name.TypeDesignationWorkingSet.TypeDesignationWorkingSetType;
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import eu.etaxonomy.cdm.api.service.name.TypeDesignationSet.TypeDesignationSetType;
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import eu.etaxonomy.cdm.common.CdmUtils; |
| 21 | 21 |
import eu.etaxonomy.cdm.common.UTF8; |
| 22 | 22 |
import eu.etaxonomy.cdm.format.reference.OriginalSourceFormatter; |
| ... | ... | |
| 107 | 107 |
} |
| 108 | 108 |
|
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int typeSetCount = 0; |
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Map<VersionableEntity,TypeDesignationWorkingSet> orderedByTypesByBaseEntity
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= manager.getOrderedTypeDesignationWorkingSets();
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TypeDesignationWorkingSetType lastWsType = null;
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Map<VersionableEntity,TypeDesignationSet> orderedByTypesByBaseEntity |
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= manager.getOrderedTypeDesignationSets(); |
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TypeDesignationSetType lastWsType = null; |
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if (orderedByTypesByBaseEntity != null){
|
| 114 | 114 |
for(VersionableEntity baseEntity : orderedByTypesByBaseEntity.keySet()) {
|
| 115 | 115 |
buildTaggedTextForSingleTypeSet(manager, withBrackets, finalBuilder, |
| ... | ... | |
| 122 | 122 |
} |
| 123 | 123 |
|
| 124 | 124 |
private void buildTaggedTextForSingleTypeSet(TypeDesignationSetManager manager, boolean withBrackets, |
| 125 |
TaggedTextBuilder finalBuilder, int typeSetCount, VersionableEntity baseEntity, TypeDesignationWorkingSetType lastWsType) {
|
|
| 125 |
TaggedTextBuilder finalBuilder, int typeSetCount, VersionableEntity baseEntity, TypeDesignationSetType lastWsType) {
|
|
| 126 | 126 |
|
| 127 |
Map<VersionableEntity,TypeDesignationWorkingSet>
|
|
| 128 |
orderedByTypesByBaseEntity = manager.getOrderedTypeDesignationWorkingSets();
|
|
| 129 |
TypeDesignationWorkingSet typeDesignationWorkingSet = orderedByTypesByBaseEntity.get(baseEntity);
|
|
| 127 |
Map<VersionableEntity,TypeDesignationSet> |
|
| 128 |
orderedByTypesByBaseEntity = manager.getOrderedTypeDesignationSets(); |
|
| 129 |
TypeDesignationSet typeDesignationSet = orderedByTypesByBaseEntity.get(baseEntity);
|
|
| 130 | 130 |
|
| 131 | 131 |
TaggedTextBuilder workingsetBuilder = new TaggedTextBuilder(); |
| 132 | 132 |
if(typeSetCount > 0){
|
| ... | ... | |
| 136 | 136 |
//name types separately, but this is such a rare case (if at all) and |
| 137 | 137 |
//increases complexity so it is not yet implemented |
| 138 | 138 |
boolean isPlural = hasMultipleTypes(orderedByTypesByBaseEntity); |
| 139 |
if(typeDesignationWorkingSet.getWorkingsetType().isSpecimenType()){
|
|
| 139 |
if(typeDesignationSet.getWorkingsetType().isSpecimenType()){
|
|
| 140 | 140 |
workingsetBuilder.add(TagEnum.label, (isPlural? "Types:": "Type:")); |
| 141 |
} else if (typeDesignationWorkingSet.getWorkingsetType().isNameType()){
|
|
| 141 |
} else if (typeDesignationSet.getWorkingsetType().isNameType()){
|
|
| 142 | 142 |
workingsetBuilder.add(TagEnum.label, (isPlural? "Nametypes:": "Nametype:")); |
| 143 | 143 |
} else {
|
| 144 | 144 |
//do nothing for now |
| 145 | 145 |
} |
| 146 | 146 |
} |
| 147 | 147 |
|
| 148 |
boolean hasExplicitBaseEntity = hasExplicitBaseEntity(baseEntity, typeDesignationWorkingSet);
|
|
| 148 |
boolean hasExplicitBaseEntity = hasExplicitBaseEntity(baseEntity, typeDesignationSet); |
|
| 149 | 149 |
if(hasExplicitBaseEntity && !entityLabel(baseEntity).isEmpty()){
|
| 150 | 150 |
workingsetBuilder.add(TagEnum.specimenOrObservation, entityLabel(baseEntity), baseEntity); |
| 151 | 151 |
} |
| ... | ... | |
| 153 | 153 |
if (withBrackets && hasExplicitBaseEntity){
|
| 154 | 154 |
workingsetBuilder.add(TagEnum.separator, TYPE_STATUS_PARENTHESIS_LEFT); |
| 155 | 155 |
} |
| 156 |
for(TypeDesignationStatusBase<?> typeStatus : typeDesignationWorkingSet.keySet()) {
|
|
| 156 |
for(TypeDesignationStatusBase<?> typeStatus : typeDesignationSet.keySet()) {
|
|
| 157 | 157 |
typeStatusCount = buildTaggedTextForSingleTypeStatus(manager, workingsetBuilder, |
| 158 |
typeDesignationWorkingSet, typeStatusCount, typeStatus,
|
|
| 158 |
typeDesignationSet, typeStatusCount, typeStatus, |
|
| 159 | 159 |
lastWsType, typeSetCount); |
| 160 | 160 |
} |
| 161 | 161 |
if (withBrackets && hasExplicitBaseEntity){
|
| 162 | 162 |
workingsetBuilder.add(TagEnum.separator, TYPE_STATUS_PARENTHESIS_RIGHT); |
| 163 | 163 |
} |
| 164 |
typeDesignationWorkingSet.setRepresentation(workingsetBuilder.toString());
|
|
| 164 |
typeDesignationSet.setRepresentation(workingsetBuilder.toString()); |
|
| 165 | 165 |
finalBuilder.addAll(workingsetBuilder); |
| 166 | 166 |
return; |
| 167 | 167 |
} |
| ... | ... | |
| 170 | 170 |
* Checks if the baseType is the same as the (only?) type in the type designation workingset. |
| 171 | 171 |
*/ |
| 172 | 172 |
private boolean hasExplicitBaseEntity(VersionableEntity baseEntity, |
| 173 |
TypeDesignationWorkingSet typeDesignationWorkingSet) {
|
|
| 174 |
if (!typeDesignationWorkingSet.isSpecimenWorkingSet()){
|
|
| 173 |
TypeDesignationSet typeDesignationSet) {
|
|
| 174 |
if (!typeDesignationSet.isSpecimenWorkingSet()){
|
|
| 175 | 175 |
return false; //name type designations are not handled here |
| 176 | 176 |
}else{
|
| 177 | 177 |
UUID baseUuid = baseEntity.getUuid(); |
| 178 |
for (TypeDesignationDTO<?> dto: typeDesignationWorkingSet.getTypeDesignations()){
|
|
| 178 |
for (TypeDesignationDTO<?> dto: typeDesignationSet.getTypeDesignations()){
|
|
| 179 | 179 |
if (!baseUuid.equals(dto.getTypeUuid())){
|
| 180 | 180 |
return true; |
| 181 | 181 |
} |
| ... | ... | |
| 185 | 185 |
} |
| 186 | 186 |
|
| 187 | 187 |
private int buildTaggedTextForSingleTypeStatus(TypeDesignationSetManager manager, |
| 188 |
TaggedTextBuilder workingsetBuilder, TypeDesignationWorkingSet typeDesignationWorkingSet,
|
|
| 188 |
TaggedTextBuilder workingsetBuilder, TypeDesignationSet typeDesignationSet,
|
|
| 189 | 189 |
int typeStatusCount, TypeDesignationStatusBase<?> typeStatus, |
| 190 |
TypeDesignationWorkingSetType lastWsType, int typeSetCount) {
|
|
| 190 |
TypeDesignationSetType lastWsType, int typeSetCount) {
|
|
| 191 | 191 |
|
| 192 | 192 |
//starting separator |
| 193 | 193 |
if(typeStatusCount++ > 0){
|
| 194 | 194 |
workingsetBuilder.add(TagEnum.separator, TYPE_STATUS_SEPARATOR); |
| 195 | 195 |
} |
| 196 | 196 |
|
| 197 |
boolean isPlural = typeDesignationWorkingSet.get(typeStatus).size() > 1;
|
|
| 197 |
boolean isPlural = typeDesignationSet.get(typeStatus).size() > 1; |
|
| 198 | 198 |
String label = null; |
| 199 |
if(typeStatus != TypeDesignationWorkingSet.NULL_STATUS){
|
|
| 199 |
if(typeStatus != TypeDesignationSet.NULL_STATUS){
|
|
| 200 | 200 |
label = typeStatus.getLabel(); |
| 201 |
}else if (typeDesignationWorkingSet.getWorkingsetType() != lastWsType
|
|
| 201 |
}else if (typeDesignationSet.getWorkingsetType() != lastWsType |
|
| 202 | 202 |
&& (workingsetBuilder.size() > 0 && typeSetCount > 0)){
|
| 203 | 203 |
//only for the first name type (coming after a specimen type add the label (extremely rare case, if at all existing) |
| 204 |
if (typeDesignationWorkingSet.getWorkingsetType().isNameType()) {
|
|
| 204 |
if (typeDesignationSet.getWorkingsetType().isNameType()) {
|
|
| 205 | 205 |
label = "nametype"; |
| 206 |
}else if (typeDesignationWorkingSet.getWorkingsetType().isSpecimenType()) {
|
|
| 206 |
}else if (typeDesignationSet.getWorkingsetType().isSpecimenType()) {
|
|
| 207 | 207 |
label = "type"; |
| 208 | 208 |
} |
| 209 | 209 |
} |
| ... | ... | |
| 218 | 218 |
|
| 219 | 219 |
//designation + sources |
| 220 | 220 |
int typeDesignationCount = 0; |
| 221 |
for(TypeDesignationDTO<?> typeDesignationDTO : createSortedList(typeDesignationWorkingSet, typeStatus)) {
|
|
| 221 |
for(TypeDesignationDTO<?> typeDesignationDTO : createSortedList(typeDesignationSet, typeStatus)) {
|
|
| 222 | 222 |
TypeDesignationBase<?> typeDes = manager.findTypeDesignation(typeDesignationDTO.getUuid()); |
| 223 | 223 |
|
| 224 | 224 |
typeDesignationCount = buildTaggedTextForSingleType(typeDes, withCitation, |
| ... | ... | |
| 279 | 279 |
} |
| 280 | 280 |
|
| 281 | 281 |
private List<TypeDesignationDTO> createSortedList( |
| 282 |
TypeDesignationWorkingSet typeDesignationWorkingSet, TypeDesignationStatusBase<?> typeStatus) {
|
|
| 282 |
TypeDesignationSet typeDesignationSet, TypeDesignationStatusBase<?> typeStatus) {
|
|
| 283 | 283 |
|
| 284 |
List<TypeDesignationDTO> typeDesignationDTOs = new ArrayList<>(typeDesignationWorkingSet.get(typeStatus));
|
|
| 284 |
List<TypeDesignationDTO> typeDesignationDTOs = new ArrayList<>(typeDesignationSet.get(typeStatus)); |
|
| 285 | 285 |
Collections.sort(typeDesignationDTOs); |
| 286 | 286 |
return typeDesignationDTOs; |
| 287 | 287 |
} |
| ... | ... | |
| 291 | 291 |
* or if it has a single working set but this workingset has multiple type designations. |
| 292 | 292 |
*/ |
| 293 | 293 |
private boolean hasMultipleTypes( |
| 294 |
Map<VersionableEntity,TypeDesignationWorkingSet> typeWorkingSets) {
|
|
| 294 |
Map<VersionableEntity,TypeDesignationSet> typeWorkingSets) {
|
|
| 295 | 295 |
if (typeWorkingSets == null || typeWorkingSets.isEmpty()){
|
| 296 | 296 |
return false; |
| 297 | 297 |
}else if (typeWorkingSets.keySet().size() > 1) {
|
| 298 | 298 |
return true; |
| 299 | 299 |
} |
| 300 |
TypeDesignationWorkingSet singleSet = typeWorkingSets.values().iterator().next();
|
|
| 300 |
TypeDesignationSet singleSet = typeWorkingSets.values().iterator().next(); |
|
| 301 | 301 |
return singleSet.getTypeDesignations().size() > 1; |
| 302 | 302 |
} |
| 303 | 303 |
|
| cdmlib-services/src/main/java/eu/etaxonomy/cdm/api/service/name/TypeDesignationSetManager.java | ||
|---|---|---|
| 23 | 23 |
import java.util.UUID; |
| 24 | 24 |
|
| 25 | 25 |
import eu.etaxonomy.cdm.api.service.exception.RegistrationValidationException; |
| 26 |
import eu.etaxonomy.cdm.api.service.name.TypeDesignationWorkingSet.TypeDesignationWorkingSetType;
|
|
| 26 |
import eu.etaxonomy.cdm.api.service.name.TypeDesignationSet.TypeDesignationSetType;
|
|
| 27 | 27 |
import eu.etaxonomy.cdm.compare.name.NullTypeDesignationStatus; |
| 28 | 28 |
import eu.etaxonomy.cdm.compare.name.TypeDesignationStatusComparator; |
| 29 | 29 |
import eu.etaxonomy.cdm.hibernate.HibernateProxyHelper; |
| ... | ... | |
| 52 | 52 |
* if the former is missing. The type designations per base type are furthermore ordered by the {@link TypeDesignationStatusBase}.
|
| 53 | 53 |
* |
| 54 | 54 |
* The TypeDesignationSetManager also provides string representations of the whole ordered set of all |
| 55 |
* {@link TypeDesignationBase TypeDesignations} and of the TypeDesignationWorkingSets:
|
|
| 55 |
* {@link TypeDesignationBase TypeDesignations} and of the TypeDesignationSets:
|
|
| 56 | 56 |
* <ul> |
| 57 | 57 |
* <li>{@link #print()}
|
| 58 |
* <li>{@link #getOrderedTypeDesignationWorkingSets()} ... {@link TypeDesignationWorkingSet#getLabel()}
|
|
| 58 |
* <li>{@link #getOrderedTypeDesignationSets()} ... {@link TypeDesignationSet#getLabel()}
|
|
| 59 | 59 |
* </ul> |
| 60 | 60 |
* Prior using the representations you need to trigger their generation by calling {@link #buildString()}
|
| 61 | 61 |
* |
| ... | ... | |
| 87 | 87 |
* |
| 88 | 88 |
* {@inheritDoc}
|
| 89 | 89 |
*/ |
| 90 |
private Comparator<Entry<VersionableEntity,TypeDesignationWorkingSet>> entryComparator = (o1,o2)->{
|
|
| 90 |
private Comparator<Entry<VersionableEntity,TypeDesignationSet>> entryComparator = (o1,o2)->{
|
|
| 91 | 91 |
|
| 92 |
TypeDesignationWorkingSet ws1 = o1.getValue();
|
|
| 93 |
TypeDesignationWorkingSet ws2 = o2.getValue();
|
|
| 92 |
TypeDesignationSet ws1 = o1.getValue(); |
|
| 93 |
TypeDesignationSet ws2 = o2.getValue(); |
|
| 94 | 94 |
|
| 95 | 95 |
if (ws1.getWorkingsetType() != ws2.getWorkingsetType()){
|
| 96 | 96 |
//first specimen types, then name types (very rare case anyway) |
| 97 |
return ws1.getWorkingsetType() == TypeDesignationWorkingSetType.NAME_TYPE_DESIGNATION_WORKINGSET? 1:-1;
|
|
| 97 |
return ws1.getWorkingsetType() == TypeDesignationSetType.NAME_TYPE_DESIGNATION_SET? 1:-1;
|
|
| 98 | 98 |
} |
| 99 | 99 |
|
| 100 | 100 |
boolean hasStatus1 = !ws1.keySet().contains(null) && !ws1.keySet().contains(NullTypeDesignationStatus.SINGLETON()); |
| ... | ... | |
| 129 | 129 |
* Groups the EntityReferences for each of the TypeDesignations by the according TypeDesignationStatus. |
| 130 | 130 |
* The TypeDesignationStatusBase keys are already ordered by the term order defined in the vocabulary. |
| 131 | 131 |
*/ |
| 132 |
private LinkedHashMap<VersionableEntity,TypeDesignationWorkingSet> orderedByTypesByBaseEntity;
|
|
| 132 |
private LinkedHashMap<VersionableEntity,TypeDesignationSet> orderedByTypesByBaseEntity; |
|
| 133 | 133 |
|
| 134 | 134 |
private List<String> problems = new ArrayList<>(); |
| 135 | 135 |
|
| ... | ... | |
| 205 | 205 |
*/ |
| 206 | 206 |
protected void mapAndSort() {
|
| 207 | 207 |
|
| 208 |
Map<VersionableEntity,TypeDesignationWorkingSet> byBaseEntityByTypeStatus = new HashMap<>();
|
|
| 208 |
Map<VersionableEntity,TypeDesignationSet> byBaseEntityByTypeStatus = new HashMap<>(); |
|
| 209 | 209 |
this.typeDesignations.values().forEach(td -> mapTypeDesignation(byBaseEntityByTypeStatus, td)); |
| 210 | 210 |
orderedByTypesByBaseEntity = orderByTypeByBaseEntity(byBaseEntityByTypeStatus); |
| 211 | 211 |
} |
| 212 | 212 |
|
| 213 |
private void mapTypeDesignation(Map<VersionableEntity,TypeDesignationWorkingSet> byBaseEntityByTypeStatus,
|
|
| 213 |
private void mapTypeDesignation(Map<VersionableEntity,TypeDesignationSet> byBaseEntityByTypeStatus, |
|
| 214 | 214 |
TypeDesignationBase<?> td){
|
| 215 | 215 |
|
| 216 | 216 |
td = HibernateProxyHelper.deproxy(td); |
| ... | ... | |
| 233 | 233 |
getTypeUuid(td)); |
| 234 | 234 |
|
| 235 | 235 |
if(!byBaseEntityByTypeStatus.containsKey(baseEntity)){
|
| 236 |
byBaseEntityByTypeStatus.put(baseEntity, new TypeDesignationWorkingSet(baseEntity));
|
|
| 236 |
byBaseEntityByTypeStatus.put(baseEntity, new TypeDesignationSet(baseEntity)); |
|
| 237 | 237 |
} |
| 238 | 238 |
byBaseEntityByTypeStatus.get(baseEntity).insert(status, typeDesignationDTO); |
| 239 | 239 |
|
| ... | ... | |
| 296 | 296 |
return baseEntityReference; |
| 297 | 297 |
} |
| 298 | 298 |
|
| 299 |
private LinkedHashMap<VersionableEntity,TypeDesignationWorkingSet> orderByTypeByBaseEntity(
|
|
| 300 |
Map<VersionableEntity,TypeDesignationWorkingSet> stringsByTypeByBaseEntity){
|
|
| 299 |
private LinkedHashMap<VersionableEntity,TypeDesignationSet> orderByTypeByBaseEntity( |
|
| 300 |
Map<VersionableEntity,TypeDesignationSet> stringsByTypeByBaseEntity){
|
|
| 301 | 301 |
|
| 302 | 302 |
// order the FieldUnit TypeName keys |
| 303 |
Set<Entry<VersionableEntity,TypeDesignationWorkingSet>> entrySet
|
|
| 303 |
Set<Entry<VersionableEntity,TypeDesignationSet>> entrySet |
|
| 304 | 304 |
= stringsByTypeByBaseEntity.entrySet(); |
| 305 |
LinkedList<Entry<VersionableEntity,TypeDesignationWorkingSet>> baseEntityKeyList
|
|
| 305 |
LinkedList<Entry<VersionableEntity,TypeDesignationSet>> baseEntityKeyList |
|
| 306 | 306 |
= new LinkedList<>(entrySet); |
| 307 | 307 |
Collections.sort(baseEntityKeyList, entryComparator); |
| 308 | 308 |
|
| 309 | 309 |
// new LinkedHashMap for the ordered FieldUnitOrTypeName keys |
| 310 |
LinkedHashMap<VersionableEntity,TypeDesignationWorkingSet> stringsOrderedbyBaseEntityOrderdByType
|
|
| 310 |
LinkedHashMap<VersionableEntity,TypeDesignationSet> stringsOrderedbyBaseEntityOrderdByType |
|
| 311 | 311 |
= new LinkedHashMap<>(stringsByTypeByBaseEntity.size()); |
| 312 | 312 |
|
| 313 |
for(Entry<VersionableEntity,TypeDesignationWorkingSet> entry : baseEntityKeyList){
|
|
| 313 |
for(Entry<VersionableEntity,TypeDesignationSet> entry : baseEntityKeyList){
|
|
| 314 | 314 |
VersionableEntity baseEntity = entry.getKey(); |
| 315 |
TypeDesignationWorkingSet typeDesignationWorkingSet = stringsByTypeByBaseEntity.get(baseEntity);
|
|
| 315 |
TypeDesignationSet typeDesignationSet = stringsByTypeByBaseEntity.get(baseEntity);
|
|
| 316 | 316 |
// order the TypeDesignationStatusBase keys |
| 317 |
List<TypeDesignationStatusBase<?>> keyList = new LinkedList<>(typeDesignationWorkingSet.keySet());
|
|
| 317 |
List<TypeDesignationStatusBase<?>> keyList = new LinkedList<>(typeDesignationSet.keySet()); |
|
| 318 | 318 |
Collections.sort(keyList, new TypeDesignationStatusComparator()); |
| 319 | 319 |
// new LinkedHashMap for the ordered TypeDesignationStatusBase keys |
| 320 |
TypeDesignationWorkingSet orderedStringsByOrderedTypes = new TypeDesignationWorkingSet(
|
|
| 321 |
typeDesignationWorkingSet.getBaseEntity());
|
|
| 322 |
keyList.forEach(key -> orderedStringsByOrderedTypes.put(key, typeDesignationWorkingSet.get(key)));
|
|
| 320 |
TypeDesignationSet orderedStringsByOrderedTypes = new TypeDesignationSet(
|
|
| 321 |
typeDesignationSet.getBaseEntity()); |
|
| 322 |
keyList.forEach(key -> orderedStringsByOrderedTypes.put(key, typeDesignationSet.get(key))); |
|
| 323 | 323 |
stringsOrderedbyBaseEntityOrderdByType.put(baseEntity, orderedStringsByOrderedTypes); |
| 324 | 324 |
} |
| 325 | 325 |
|
| ... | ... | |
| 399 | 399 |
return this.typeDesignations.get(uuid); |
| 400 | 400 |
} |
| 401 | 401 |
|
| 402 |
public Map<VersionableEntity,TypeDesignationWorkingSet> getOrderedTypeDesignationWorkingSets() {
|
|
| 402 |
public Map<VersionableEntity,TypeDesignationSet> getOrderedTypeDesignationSets() {
|
|
| 403 | 403 |
return orderedByTypesByBaseEntity; |
| 404 | 404 |
} |
| 405 | 405 |
|
| cdmlib-services/src/main/java/eu/etaxonomy/cdm/api/service/name/TypeDesignationWorkingSet.java | ||
|---|---|---|
| 1 |
/** |
|
| 2 |
* Copyright (C) 2020 EDIT |
|
| 3 |
* European Distributed Institute of Taxonomy |
|
| 4 |
* http://www.e-taxonomy.eu |
|
| 5 |
* |
|
| 6 |
* The contents of this file are subject to the Mozilla Public License Version 1.1 |
|
| 7 |
* See LICENSE.TXT at the top of this package for the full license terms. |
|
| 8 |
*/ |
|
| 9 |
package eu.etaxonomy.cdm.api.service.name; |
|
| 10 |
|
|
| 11 |
import java.util.ArrayList; |
|
| 12 |
import java.util.Collection; |
|
| 13 |
import java.util.Comparator; |
|
| 14 |
import java.util.LinkedHashMap; |
|
| 15 |
import java.util.List; |
|
| 16 |
import java.util.Set; |
|
| 17 |
|
|
| 18 |
import eu.etaxonomy.cdm.compare.name.NullTypeDesignationStatus; |
|
| 19 |
import eu.etaxonomy.cdm.model.common.VersionableEntity; |
|
| 20 |
import eu.etaxonomy.cdm.model.name.TypeDesignationStatusBase; |
|
| 21 |
import eu.etaxonomy.cdm.model.occurrence.SpecimenOrObservationBase; |
|
| 22 |
|
|
| 23 |
/** |
|
| 24 |
* TypeDesignations which refer to the same FieldUnit (SpecimenTypeDesignation) or TaxonName |
|
| 25 |
* (NameTypeDesignation) form a working set. The <code>TypeDesignationWorkingSet</code> internally |
|
| 26 |
* works with EnityReferences to the actual TypeDesignations. |
|
| 27 |
* |
|
| 28 |
* The EntityReferences for TypeDesignations are grouped by the according TypeDesignationStatus. |
|
| 29 |
* The TypeDesignationStatusBase keys can be ordered by the term order defined in the vocabulary. |
|
| 30 |
* |
|
| 31 |
* A workingset can be referenced by the <code>baseEntityReference</code>. |
|
| 32 |
* |
|
| 33 |
* @author a.kohlbecker |
|
| 34 |
* @since Mar 10, 2017 |
|
| 35 |
*/ |
|
| 36 |
public class TypeDesignationWorkingSet {
|
|
| 37 |
|
|
| 38 |
public static final NullTypeDesignationStatus NULL_STATUS = NullTypeDesignationStatus.SINGLETON(); |
|
| 39 |
|
|
| 40 |
private String label = null; |
|
| 41 |
|
|
| 42 |
private VersionableEntity baseEntity; |
|
| 43 |
|
|
| 44 |
private LinkedHashMap<TypeDesignationStatusBase<?>,Collection<TypeDesignationDTO>> designationByStatusMap = new LinkedHashMap<>(); |
|
| 45 |
|
|
| 46 |
|
|
| 47 |
public enum TypeDesignationWorkingSetType {
|
|
| 48 |
SPECIMEN_TYPE_DESIGNATION_WORKINGSET, |
|
| 49 |
NAME_TYPE_DESIGNATION_WORKINGSET; |
|
| 50 |
boolean isSpecimenType(){return this == SPECIMEN_TYPE_DESIGNATION_WORKINGSET;}
|
|
| 51 |
boolean isNameType(){return this == NAME_TYPE_DESIGNATION_WORKINGSET;}
|
|
| 52 |
} |
|
| 53 |
|
|
| 54 |
// ********************************* CONSTRUCTOR **************************/ |
|
| 55 |
|
|
| 56 |
public TypeDesignationWorkingSet(VersionableEntity baseEntity) {
|
|
| 57 |
this.baseEntity = baseEntity; |
|
| 58 |
} |
|
| 59 |
|
|
| 60 |
// ***********************************************************************/ |
|
| 61 |
|
|
| 62 |
public VersionableEntity getBaseEntity() {
|
|
| 63 |
return baseEntity; |
|
| 64 |
} |
|
| 65 |
|
|
| 66 |
public List<TypeDesignationDTO> getTypeDesignations() {
|
|
| 67 |
List<TypeDesignationDTO> typeDesignations = new ArrayList<>(); |
|
| 68 |
designationByStatusMap.values().forEach(typeDesignationDtos -> typeDesignationDtos.forEach(td -> typeDesignations.add(td))); |
|
| 69 |
return typeDesignations; |
|
| 70 |
} |
|
| 71 |
|
|
| 72 |
public Set<TypeDesignationStatusBase<?>> keySet() {
|
|
| 73 |
return designationByStatusMap.keySet(); |
|
| 74 |
} |
|
| 75 |
|
|
| 76 |
public Collection<TypeDesignationDTO> get(TypeDesignationStatusBase<?> typeStatus) {
|
|
| 77 |
return designationByStatusMap.get(typeStatus); |
|
| 78 |
} |
|
| 79 |
|
|
| 80 |
public void insert(TypeDesignationStatusBase<?> status, |
|
| 81 |
TypeDesignationDTO<?> typeDesignationDto) {
|
|
| 82 |
|
|
| 83 |
if(status == null){
|
|
| 84 |
status = NULL_STATUS; |
|
| 85 |
} |
|
| 86 |
if(!designationByStatusMap.containsKey(status)){
|
|
| 87 |
designationByStatusMap.put(status, new ArrayList<>()); |
|
| 88 |
} |
|
| 89 |
designationByStatusMap.get(status).add(typeDesignationDto); |
|
| 90 |
} |
|
| 91 |
|
|
| 92 |
public Collection<TypeDesignationDTO> put(TypeDesignationStatusBase<?> status, |
|
| 93 |
Collection<TypeDesignationDTO> typeDesignationDtos) {
|
|
| 94 |
if(status == null){
|
|
| 95 |
status = NULL_STATUS; |
|
| 96 |
} |
|
| 97 |
return designationByStatusMap.put(status, typeDesignationDtos); |
|
| 98 |
} |
|
| 99 |
|
|
| 100 |
|
|
| 101 |
public String getLabel() {
|
|
| 102 |
return label; |
|
| 103 |
} |
|
| 104 |
public void setRepresentation(String representation){
|
|
| 105 |
this.label = representation; |
|
| 106 |
} |
|
| 107 |
|
|
| 108 |
//TODO if not needed anymore |
|
| 109 |
// /** |
|
| 110 |
// * A reference to the entity which is the common base entity for all TypeDesignations in this workingset. |
|
| 111 |
// * For a {@link SpecimenTypeDesignation} this is usually the {@link FieldUnit} if it is present. Otherwise it can also be
|
|
| 112 |
// * a {@link DerivedUnit} or something else depending on the specific use case.
|
|
| 113 |
// * |
|
| 114 |
// * @return the baseEntityReference |
|
| 115 |
// */ |
|
| 116 |
// public TypedEntityReference<? extends VersionableEntity> getBaseEntityReference() {
|
|
| 117 |
// return baseEntityReference; |
|
| 118 |
// } |
|
| 119 |
|
|
| 120 |
public boolean isSpecimenWorkingSet() {
|
|
| 121 |
return getWorkingsetType().isSpecimenType(); |
|
| 122 |
} |
|
| 123 |
public boolean isNameWorkingSet() {
|
|
| 124 |
return getWorkingsetType().isNameType(); |
|
| 125 |
} |
|
| 126 |
|
|
| 127 |
private boolean isSpecimenTypeDesigationWorkingSet() {
|
|
| 128 |
return SpecimenOrObservationBase.class.isAssignableFrom(baseEntity.getClass()); |
|
| 129 |
} |
|
| 130 |
|
|
| 131 |
public TypeDesignationWorkingSetType getWorkingsetType() {
|
|
| 132 |
return isSpecimenTypeDesigationWorkingSet() ? TypeDesignationWorkingSetType.SPECIMEN_TYPE_DESIGNATION_WORKINGSET : TypeDesignationWorkingSetType.NAME_TYPE_DESIGNATION_WORKINGSET; |
|
| 133 |
} |
|
| 134 |
|
|
| 135 |
/** |
|
| 136 |
* Uses the <code>comparator</code> to find the highest {@link TypeDesignationStatusBase} term and returns that.
|
|
| 137 |
*/ |
|
| 138 |
public TypeDesignationStatusBase<?> highestTypeStatus(Comparator<TypeDesignationStatusBase<?>> comparator) {
|
|
| 139 |
TypeDesignationStatusBase<?> highestTypeStatus = null; |
|
| 140 |
for(TypeDesignationStatusBase<?> status : designationByStatusMap.keySet()) {
|
|
| 141 |
if(comparator.compare(status, highestTypeStatus) < 0){
|
|
| 142 |
highestTypeStatus = status; |
|
| 143 |
} |
|
| 144 |
} |
|
| 145 |
return highestTypeStatus; |
|
| 146 |
} |
|
| 147 |
|
|
| 148 |
// **************************** toString() ************************************ |
|
| 149 |
|
|
| 150 |
@Override |
|
| 151 |
public String toString(){
|
|
| 152 |
if(label != null){
|
|
| 153 |
return label; |
|
| 154 |
} else {
|
|
| 155 |
return super.toString(); |
|
| 156 |
} |
|
| 157 |
} |
|
| 158 |
} |
|
| cdmlib-services/src/test/java/eu/etaxonomy/cdm/api/service/name/TypeDesignationSetManagerTest.java | ||
|---|---|---|
| 212 | 212 |
, result |
| 213 | 213 |
); |
| 214 | 214 |
|
| 215 |
Map<VersionableEntity,TypeDesignationWorkingSet> orderedTypeDesignations =
|
|
| 216 |
typeDesignationManager.getOrderedTypeDesignationWorkingSets();
|
|
| 217 |
Iterator<TypeDesignationWorkingSet> byStatusMapIterator = orderedTypeDesignations.values().iterator();
|
|
| 215 |
Map<VersionableEntity,TypeDesignationSet> orderedTypeDesignations = |
|
| 216 |
typeDesignationManager.getOrderedTypeDesignationSets(); |
|
| 217 |
Iterator<TypeDesignationSet> byStatusMapIterator = orderedTypeDesignations.values().iterator(); |
|
| 218 | 218 |
Iterator<TypeDesignationStatusBase<?>> keyIt_1 = byStatusMapIterator.next().keySet().iterator(); |
| 219 | 219 |
Iterator<TypeDesignationStatusBase<?>> keyIt_2 = byStatusMapIterator.next().keySet().iterator(); |
| 220 | 220 |
assertEquals("isotype", keyIt_1.next().getLabel());
|
Also available in: Unified diff
ref #10089 rename TypeDesignationWorkingSet to TypeDesignationSet in cdmlib