3 * Copyright (C) 2013 EDIT
4 * European Distributed Institute of Taxonomy
5 * http://www.e-taxonomy.eu
7 * The contents of this file are subject to the Mozilla Public License Version 1.1
8 * See LICENSE.TXT at the top of this package for the full license terms.
10 package eu
.etaxonomy
.taxeditor
.editor
.view
.dataimport
.transientServices
;
12 import java
.io
.IOException
;
13 import java
.util
.Collection
;
14 import java
.util
.HashSet
;
15 import java
.util
.List
;
18 import java
.util
.UUID
;
20 import org
.apache
.lucene
.index
.CorruptIndexException
;
21 import org
.apache
.lucene
.queryparser
.classic
.ParseException
;
22 import org
.hibernate
.LockOptions
;
23 import org
.hibernate
.Session
;
24 import org
.hibernate
.criterion
.Criterion
;
25 import org
.hibernate
.envers
.query
.criteria
.AuditCriterion
;
26 import org
.hibernate
.search
.spatial
.impl
.Rectangle
;
28 import eu
.etaxonomy
.cdm
.api
.facade
.DerivedUnitFacade
;
29 import eu
.etaxonomy
.cdm
.api
.facade
.DerivedUnitFacadeNotSupportedException
;
30 import eu
.etaxonomy
.cdm
.api
.service
.DeleteResult
;
31 import eu
.etaxonomy
.cdm
.api
.service
.IOccurrenceService
;
32 import eu
.etaxonomy
.cdm
.api
.service
.UpdateResult
;
33 import eu
.etaxonomy
.cdm
.api
.service
.config
.DeleteConfiguratorBase
;
34 import eu
.etaxonomy
.cdm
.api
.service
.config
.IIdentifiableEntityServiceConfigurator
;
35 import eu
.etaxonomy
.cdm
.api
.service
.config
.SpecimenDeleteConfigurator
;
36 import eu
.etaxonomy
.cdm
.api
.service
.dto
.FieldUnitDTO
;
37 import eu
.etaxonomy
.cdm
.api
.service
.dto
.FindByIdentifierDTO
;
38 import eu
.etaxonomy
.cdm
.api
.service
.dto
.PreservedSpecimenDTO
;
39 import eu
.etaxonomy
.cdm
.api
.service
.pager
.Pager
;
40 import eu
.etaxonomy
.cdm
.api
.service
.search
.SearchResult
;
41 import eu
.etaxonomy
.cdm
.api
.service
.util
.TaxonRelationshipEdge
;
42 import eu
.etaxonomy
.cdm
.common
.monitor
.IProgressMonitor
;
43 import eu
.etaxonomy
.cdm
.model
.common
.Annotation
;
44 import eu
.etaxonomy
.cdm
.model
.common
.DefinedTerm
;
45 import eu
.etaxonomy
.cdm
.model
.common
.DefinedTermBase
;
46 import eu
.etaxonomy
.cdm
.model
.common
.ICdmBase
;
47 import eu
.etaxonomy
.cdm
.model
.common
.ISourceable
;
48 import eu
.etaxonomy
.cdm
.model
.common
.IdentifiableSource
;
49 import eu
.etaxonomy
.cdm
.model
.common
.LSID
;
50 import eu
.etaxonomy
.cdm
.model
.common
.Language
;
51 import eu
.etaxonomy
.cdm
.model
.common
.Marker
;
52 import eu
.etaxonomy
.cdm
.model
.common
.MarkerType
;
53 import eu
.etaxonomy
.cdm
.model
.description
.DescriptionBase
;
54 import eu
.etaxonomy
.cdm
.model
.description
.DescriptionElementBase
;
55 import eu
.etaxonomy
.cdm
.model
.description
.IndividualsAssociation
;
56 import eu
.etaxonomy
.cdm
.model
.location
.Country
;
57 import eu
.etaxonomy
.cdm
.model
.media
.Media
;
58 import eu
.etaxonomy
.cdm
.model
.media
.Rights
;
59 import eu
.etaxonomy
.cdm
.model
.molecular
.DnaSample
;
60 import eu
.etaxonomy
.cdm
.model
.molecular
.Sequence
;
61 import eu
.etaxonomy
.cdm
.model
.name
.SpecimenTypeDesignation
;
62 import eu
.etaxonomy
.cdm
.model
.name
.TaxonNameBase
;
63 import eu
.etaxonomy
.cdm
.model
.occurrence
.DerivationEvent
;
64 import eu
.etaxonomy
.cdm
.model
.occurrence
.DerivedUnit
;
65 import eu
.etaxonomy
.cdm
.model
.occurrence
.DeterminationEvent
;
66 import eu
.etaxonomy
.cdm
.model
.occurrence
.FieldUnit
;
67 import eu
.etaxonomy
.cdm
.model
.occurrence
.SpecimenOrObservationBase
;
68 import eu
.etaxonomy
.cdm
.model
.taxon
.Taxon
;
69 import eu
.etaxonomy
.cdm
.model
.taxon
.TaxonBase
;
70 import eu
.etaxonomy
.cdm
.model
.view
.AuditEvent
;
71 import eu
.etaxonomy
.cdm
.model
.view
.AuditEventRecord
;
72 import eu
.etaxonomy
.cdm
.persistence
.dao
.common
.AuditEventSort
;
73 import eu
.etaxonomy
.cdm
.persistence
.dto
.MergeResult
;
74 import eu
.etaxonomy
.cdm
.persistence
.dto
.UuidAndTitleCache
;
75 import eu
.etaxonomy
.cdm
.persistence
.query
.Grouping
;
76 import eu
.etaxonomy
.cdm
.persistence
.query
.MatchMode
;
77 import eu
.etaxonomy
.cdm
.persistence
.query
.OrderHint
;
78 import eu
.etaxonomy
.cdm
.strategy
.cache
.common
.IIdentifiableEntityCacheStrategy
;
79 import eu
.etaxonomy
.cdm
.strategy
.match
.IMatchStrategy
;
80 import eu
.etaxonomy
.cdm
.strategy
.merge
.IMergeStrategy
;
87 public class TransientOccurenceService
implements IOccurrenceService
{
89 private final IOccurrenceService defaultService
;
90 private final Collection
<SpecimenOrObservationBase
<?
>> units
;
93 * @param defaultService
95 public TransientOccurenceService(IOccurrenceService defaultService
) {
96 this.defaultService
= defaultService
;
97 this.units
= new HashSet
<SpecimenOrObservationBase
<?
>>();
105 * @param propertyPaths
107 * @see eu.etaxonomy.cdm.api.service.IVersionableService#pageAuditEvents(eu.etaxonomy.cdm.model.common.VersionableEntity, java.lang.Integer, java.lang.Integer, eu.etaxonomy.cdm.persistence.dao.common.AuditEventSort, java.util.List)
110 public Pager
<AuditEventRecord
<SpecimenOrObservationBase
>> pageAuditEvents(SpecimenOrObservationBase t
, Integer pageSize
, Integer pageNumber
, AuditEventSort sort
, List
<String
> propertyPaths
) {
111 return defaultService
.pageAuditEvents(t
, pageSize
, pageNumber
, sort
, propertyPaths
);
115 * @param annotatedObj
120 * @param propertyPaths
122 * @see eu.etaxonomy.cdm.api.service.IAnnotatableService#getAnnotations(eu.etaxonomy.cdm.model.common.AnnotatableEntity, eu.etaxonomy.cdm.model.common.MarkerType, java.lang.Integer, java.lang.Integer, java.util.List, java.util.List)
125 public Pager
<Annotation
> getAnnotations(SpecimenOrObservationBase annotatedObj
, MarkerType status
, Integer pageSize
, Integer pageNumber
, List
<OrderHint
> orderHints
, List
<String
> propertyPaths
) {
126 return defaultService
.getAnnotations(annotatedObj
, status
, pageSize
, pageNumber
, orderHints
, propertyPaths
);
131 * @see eu.etaxonomy.cdm.api.service.IService#clear()
134 public void clear() {
135 defaultService
.clear();
141 * @see eu.etaxonomy.cdm.api.service.IService#lock(eu.etaxonomy.cdm.model.common.ICdmBase, org.hibernate.LockMode)
144 public void lock(SpecimenOrObservationBase t
, LockOptions lockOptions
) {
145 defaultService
.lock(t
, lockOptions
);
151 * @param propertyPaths
152 * @see eu.etaxonomy.cdm.api.service.IService#refresh(eu.etaxonomy.cdm.model.common.ICdmBase, org.hibernate.LockMode, java.util.List)
155 public void refresh(SpecimenOrObservationBase t
, LockOptions lockOptions
, List
<String
> propertyPaths
) {
156 defaultService
.refresh(t
, lockOptions
, propertyPaths
);
161 * @see eu.etaxonomy.cdm.api.service.IIdentifiableEntityService#updateTitleCache()
164 public void updateTitleCache() {
165 defaultService
.updateTitleCache();
171 * @see eu.etaxonomy.cdm.api.service.IVersionableService#getNextAuditEvent(eu.etaxonomy.cdm.model.common.VersionableEntity)
174 public AuditEventRecord
<SpecimenOrObservationBase
> getNextAuditEvent(SpecimenOrObservationBase t
) {
175 return defaultService
.getNextAuditEvent(t
);
179 * @param annotatableEntity
184 * @param propertyPaths
186 * @see eu.etaxonomy.cdm.api.service.IAnnotatableService#getMarkers(eu.etaxonomy.cdm.model.common.AnnotatableEntity, java.lang.Boolean, java.lang.Integer, java.lang.Integer, java.util.List, java.util.List)
189 public Pager
<Marker
> getMarkers(SpecimenOrObservationBase annotatableEntity
, Boolean technical
, Integer pageSize
, Integer pageNumber
, List
<OrderHint
> orderHints
, List
<String
> propertyPaths
) {
190 return defaultService
.getMarkers(annotatableEntity
, technical
, pageSize
, pageNumber
, orderHints
, propertyPaths
);
196 * @param cacheStrategy
198 * @see eu.etaxonomy.cdm.api.service.IIdentifiableEntityService#updateTitleCache(java.lang.Class, java.lang.Integer, eu.etaxonomy.cdm.strategy.cache.common.IIdentifiableEntityCacheStrategy, eu.etaxonomy.cdm.common.monitor.IProgressMonitor)
201 public void updateTitleCache(Class
<?
extends SpecimenOrObservationBase
> clazz
, Integer stepSize
, IIdentifiableEntityCacheStrategy
<SpecimenOrObservationBase
> cacheStrategy
, IProgressMonitor monitor
) {
202 defaultService
.updateTitleCache(clazz
, stepSize
, cacheStrategy
, monitor
);
208 * @see eu.etaxonomy.cdm.api.service.IVersionableService#getPreviousAuditEvent(eu.etaxonomy.cdm.model.common.VersionableEntity)
211 public AuditEventRecord
<SpecimenOrObservationBase
> getPreviousAuditEvent(SpecimenOrObservationBase t
) {
212 return defaultService
.getPreviousAuditEvent(t
);
218 * @see eu.etaxonomy.cdm.api.service.IOccurrenceService#getCountryByIso(java.lang.String)
221 public Country
getCountryByIso(String iso639
) {
222 return defaultService
.getCountryByIso(iso639
);
228 * @see eu.etaxonomy.cdm.api.service.IService#count(java.lang.Class)
231 public int count(Class
<?
extends SpecimenOrObservationBase
> clazz
) {
232 return defaultService
.count(clazz
);
238 * @see eu.etaxonomy.cdm.api.service.IOccurrenceService#getCountryByName(java.lang.String)
241 public List
<Country
> getCountryByName(String name
) {
242 return defaultService
.getCountryByName(name
);
247 * @param determinedAs
251 * @param propertyPaths
253 * @see eu.etaxonomy.cdm.api.service.IOccurrenceService#list(java.lang.Class, eu.etaxonomy.cdm.model.taxon.TaxonBase, java.lang.Integer, java.lang.Integer, java.util.List, java.util.List)
256 public Pager
<SpecimenOrObservationBase
> list(Class
<?
extends SpecimenOrObservationBase
> type
, TaxonBase determinedAs
, Integer limit
, Integer start
, List
<OrderHint
> orderHints
, List
<String
> propertyPaths
) {
257 return defaultService
.list(type
, determinedAs
, limit
, start
, orderHints
, propertyPaths
);
268 * @param propertyPaths
270 * @see eu.etaxonomy.cdm.api.service.IVersionableService#pageAuditEvents(java.lang.Class, eu.etaxonomy.cdm.model.view.AuditEvent, eu.etaxonomy.cdm.model.view.AuditEvent, java.util.List, java.lang.Integer, java.lang.Integer, eu.etaxonomy.cdm.persistence.dao.common.AuditEventSort, java.util.List)
273 public Pager
<AuditEventRecord
<SpecimenOrObservationBase
>> pageAuditEvents(Class
<?
extends SpecimenOrObservationBase
> clazz
, AuditEvent from
, AuditEvent to
, List
<AuditCriterion
> criteria
, Integer pageSize
, Integer pageValue
, AuditEventSort sort
, List
<String
> propertyPaths
) {
274 return defaultService
.pageAuditEvents(clazz
, from
, to
, criteria
, pageSize
, pageValue
, sort
, propertyPaths
);
280 * @see eu.etaxonomy.cdm.api.service.IIdentifiableEntityService#find(eu.etaxonomy.cdm.model.common.LSID)
283 public SpecimenOrObservationBase
find(LSID lsid
) {
284 return defaultService
.find(lsid
);
288 * @param persistentObject
290 * @see eu.etaxonomy.cdm.api.service.IService#delete(eu.etaxonomy.cdm.model.common.ICdmBase)
293 public DeleteResult
delete(SpecimenOrObservationBase persistentObject
) {
294 return defaultService
.delete(persistentObject
);
302 * @param propertyPaths
304 * @see eu.etaxonomy.cdm.api.service.IAnnotatableService#groupMarkers(java.lang.Class, java.lang.Boolean, java.lang.Integer, java.lang.Integer, java.util.List)
307 public List
<Object
[]> groupMarkers(Class
<?
extends SpecimenOrObservationBase
> clazz
, Boolean technical
, Integer pageSize
, Integer pageNumber
, List
<String
> propertyPaths
) {
308 return defaultService
.groupMarkers(clazz
, technical
, pageSize
, pageNumber
, propertyPaths
);
314 * @see eu.etaxonomy.cdm.api.service.IService#exists(java.util.UUID)
317 public boolean exists(UUID uuid
) {
318 return defaultService
.exists(uuid
);
325 * @see eu.etaxonomy.cdm.api.service.IIdentifiableEntityService#replace(eu.etaxonomy.cdm.model.common.IdentifiableEntity, eu.etaxonomy.cdm.model.common.IdentifiableEntity)
328 public SpecimenOrObservationBase
replace(SpecimenOrObservationBase x
, SpecimenOrObservationBase y
) {
329 return defaultService
.replace(x
, y
);
335 * @see eu.etaxonomy.cdm.api.service.IService#find(java.util.Set)
338 public List
<SpecimenOrObservationBase
> find(Set
<UUID
> uuidSet
) {
339 return defaultService
.find(uuidSet
);
346 * @param propertyPaths
348 * @see eu.etaxonomy.cdm.api.service.IIdentifiableEntityService#getSources(eu.etaxonomy.cdm.model.common.IdentifiableEntity, java.lang.Integer, java.lang.Integer, java.util.List)
351 public Pager
<IdentifiableSource
> getSources(SpecimenOrObservationBase t
, Integer pageSize
, Integer pageNumber
, List
<String
> propertyPaths
) {
352 return defaultService
.getSources(t
, pageSize
, pageNumber
, propertyPaths
);
358 * @see eu.etaxonomy.cdm.api.service.IService#find(java.util.UUID)
361 public SpecimenOrObservationBase
find(UUID uuid
) {
362 return defaultService
.find(uuid
);
368 * @see eu.etaxonomy.cdm.api.service.IService#find(int)
371 public SpecimenOrObservationBase
find(int id
) {
372 return defaultService
.find(id
);
379 * @param propertyPaths
381 * @see eu.etaxonomy.cdm.api.service.IIdentifiableEntityService#getRights(eu.etaxonomy.cdm.model.common.IdentifiableEntity, java.lang.Integer, java.lang.Integer, java.util.List)
384 public Pager
<Rights
> getRights(SpecimenOrObservationBase t
, Integer pageSize
, Integer pageNumber
, List
<String
> propertyPaths
) {
385 return defaultService
.getRights(t
, pageSize
, pageNumber
, propertyPaths
);
392 * @see eu.etaxonomy.cdm.api.service.IAnnotatableService#countMarkers(java.lang.Class, java.lang.Boolean)
395 public int countMarkers(Class
<?
extends SpecimenOrObservationBase
> clazz
, Boolean technical
) {
396 return defaultService
.countMarkers(clazz
, technical
);
403 * @param propertyPaths
405 * @see eu.etaxonomy.cdm.api.service.IOccurrenceService#getMedia(eu.etaxonomy.cdm.model.occurrence.SpecimenOrObservationBase, java.lang.Integer, java.lang.Integer, java.util.List)
408 public Pager
<Media
> getMedia(SpecimenOrObservationBase occurence
, Integer pageSize
, Integer pageNumber
, List
<String
> propertyPaths
) {
409 return defaultService
.getMedia(occurence
, pageSize
, pageNumber
, propertyPaths
);
415 * @see eu.etaxonomy.cdm.api.service.IService#findById(java.util.Set)
418 public List
<SpecimenOrObservationBase
> findById(Set
<Integer
> idSet
) {
419 return defaultService
.findById(idSet
);
427 * @see eu.etaxonomy.cdm.api.service.IIdentifiableEntityService#getSourcedObjectByIdInSource(java.lang.Class, java.lang.String, java.lang.String)
430 public ISourceable
getSourcedObjectByIdInSource(Class clazz
, String idInSource
, String idNamespace
) {
431 return defaultService
.getSourcedObjectByIdInSource(clazz
, idInSource
, idNamespace
);
436 * @see eu.etaxonomy.cdm.api.service.IService#getSession()
439 public Session
getSession() {
440 return defaultService
.getSession();
448 * @param propertyPaths
450 * @see eu.etaxonomy.cdm.api.service.IService#group(java.lang.Class, java.lang.Integer, java.lang.Integer, java.util.List, java.util.List)
453 public List
<Object
[]> group(Class
<?
extends SpecimenOrObservationBase
> clazz
, Integer limit
, Integer start
, List
<Grouping
> groups
, List
<String
> propertyPaths
) {
454 return defaultService
.group(clazz
, limit
, start
, groups
, propertyPaths
);
462 * @param propertyPaths
464 * @see eu.etaxonomy.cdm.api.service.IOccurrenceService#getDeterminations(eu.etaxonomy.cdm.model.occurrence.SpecimenOrObservationBase, eu.etaxonomy.cdm.model.taxon.TaxonBase, java.lang.Integer, java.lang.Integer, java.util.List)
467 public Pager
<DeterminationEvent
> getDeterminations(SpecimenOrObservationBase occurence
, TaxonBase taxonBase
, Integer pageSize
, Integer pageNumber
, List
<String
> propertyPaths
) {
468 return defaultService
.getDeterminations(occurence
, taxonBase
, pageSize
, pageNumber
, propertyPaths
);
479 * @param propertyPaths
481 * @see eu.etaxonomy.cdm.api.service.IIdentifiableEntityService#findByTitle(java.lang.Class, java.lang.String, eu.etaxonomy.cdm.persistence.query.MatchMode, java.util.List, java.lang.Integer, java.lang.Integer, java.util.List, java.util.List)
484 public Pager
<SpecimenOrObservationBase
> findByTitle(Class
<?
extends SpecimenOrObservationBase
> clazz
, String queryString
, MatchMode matchmode
, List
<Criterion
> criteria
, Integer pageSize
, Integer pageNumber
, List
<OrderHint
> orderHints
, List
<String
> propertyPaths
) {
485 return defaultService
.findByTitle(clazz
, queryString
, matchmode
, criteria
, pageSize
, pageNumber
, orderHints
, propertyPaths
);
492 * @param propertyPaths
494 * @see eu.etaxonomy.cdm.api.service.IOccurrenceService#getDerivationEvents(eu.etaxonomy.cdm.model.occurrence.SpecimenOrObservationBase, java.lang.Integer, java.lang.Integer, java.util.List)
497 public Pager
<DerivationEvent
> getDerivationEvents(SpecimenOrObservationBase occurence
, Integer pageSize
, Integer pageNumber
, List
<String
> propertyPaths
) {
498 return defaultService
.getDerivationEvents(occurence
, pageSize
, pageNumber
, propertyPaths
);
506 * @param propertyPaths
508 * @see eu.etaxonomy.cdm.api.service.IService#list(java.lang.Class, java.lang.Integer, java.lang.Integer, java.util.List, java.util.List)
511 public <S
extends SpecimenOrObservationBase
> List
<S
> list(Class
<S
> type
, Integer limit
, Integer start
, List
<OrderHint
> orderHints
, List
<String
> propertyPaths
) {
512 return defaultService
.list(type
, limit
, start
, orderHints
, propertyPaths
);
521 * @param propertyPaths
523 * @see eu.etaxonomy.cdm.api.service.IOccurrenceService#search(java.lang.Class, java.lang.String, java.lang.Integer, java.lang.Integer, java.util.List, java.util.List)
526 public Pager
<SpecimenOrObservationBase
> search(Class
<?
extends SpecimenOrObservationBase
> clazz
, String query
, Integer pageSize
, Integer pageNumber
, List
<OrderHint
> orderHints
, List
<String
> propertyPaths
) {
527 return defaultService
.search(clazz
, query
, pageSize
, pageNumber
, orderHints
, propertyPaths
);
531 * @param configurator
533 * @see eu.etaxonomy.cdm.api.service.IIdentifiableEntityService#findByTitle(eu.etaxonomy.cdm.api.service.config.IIdentifiableEntityServiceConfigurator)
536 public Pager
<SpecimenOrObservationBase
> findByTitle(IIdentifiableEntityServiceConfigurator
<SpecimenOrObservationBase
> configurator
) {
537 return defaultService
.findByTitle(configurator
);
546 * @see eu.etaxonomy.cdm.api.service.IIdentifiableEntityService#countByTitle(java.lang.Class, java.lang.String, eu.etaxonomy.cdm.persistence.query.MatchMode, java.util.List)
549 public Integer
countByTitle(Class
<?
extends SpecimenOrObservationBase
> clazz
, String queryString
, MatchMode matchmode
, List
<Criterion
> criteria
) {
550 return defaultService
.countByTitle(clazz
, queryString
, matchmode
, criteria
);
556 * @see eu.etaxonomy.cdm.api.service.IService#load(java.util.UUID)
559 public SpecimenOrObservationBase
load(UUID uuid
) {
560 return defaultService
.load(uuid
);
565 * @param propertyPaths
567 * @see eu.etaxonomy.cdm.api.service.IService#load(java.util.UUID, java.util.List)
570 public SpecimenOrObservationBase
load(UUID uuid
, List
<String
> propertyPaths
) {
571 return defaultService
.load(uuid
, propertyPaths
);
575 * @param configurator
577 * @see eu.etaxonomy.cdm.api.service.IIdentifiableEntityService#countByTitle(eu.etaxonomy.cdm.api.service.config.IIdentifiableEntityServiceConfigurator)
580 public Integer
countByTitle(IIdentifiableEntityServiceConfigurator
<SpecimenOrObservationBase
> configurator
) {
581 return defaultService
.countByTitle(configurator
);
586 * @see eu.etaxonomy.cdm.api.service.IOccurrenceService#getFieldUnitUuidAndTitleCache()
589 public List
<UuidAndTitleCache
<FieldUnit
>> getFieldUnitUuidAndTitleCache() {
590 return defaultService
.getFieldUnitUuidAndTitleCache();
595 * @see eu.etaxonomy.cdm.api.service.IOccurrenceService#getDerivedUnitUuidAndTitleCache()
598 public List
<UuidAndTitleCache
<DerivedUnit
>> getDerivedUnitUuidAndTitleCache() {
599 return defaultService
.getDerivedUnitUuidAndTitleCache();
603 * @param transientObject
605 * @see eu.etaxonomy.cdm.api.service.IService#merge(eu.etaxonomy.cdm.model.common.ICdmBase)
608 public SpecimenOrObservationBase
merge(SpecimenOrObservationBase transientObject
) {
609 return defaultService
.merge(transientObject
);
614 * @param propertyPaths
616 * @throws DerivedUnitFacadeNotSupportedException
617 * @see eu.etaxonomy.cdm.api.service.IOccurrenceService#getDerivedUnitFacade(eu.etaxonomy.cdm.model.occurrence.DerivedUnit, java.util.List)
620 public DerivedUnitFacade
getDerivedUnitFacade(DerivedUnit derivedUnit
, List
<String
> propertyPaths
) throws DerivedUnitFacadeNotSupportedException
{
621 return defaultService
.getDerivedUnitFacade(derivedUnit
, propertyPaths
);
632 * @param propertyPaths
634 * @see eu.etaxonomy.cdm.api.service.IIdentifiableEntityService#listByTitle(java.lang.Class, java.lang.String, eu.etaxonomy.cdm.persistence.query.MatchMode, java.util.List, java.lang.Integer, java.lang.Integer, java.util.List, java.util.List)
637 public List
<SpecimenOrObservationBase
> listByTitle(Class
<?
extends SpecimenOrObservationBase
> clazz
, String queryString
, MatchMode matchmode
, List
<Criterion
> criteria
, Integer pageSize
, Integer pageNumber
, List
<OrderHint
> orderHints
, List
<String
> propertyPaths
) {
638 return defaultService
.listByTitle(clazz
, queryString
, matchmode
, criteria
, pageSize
, pageNumber
, orderHints
, propertyPaths
);
643 * @param propertyPaths
645 * @see eu.etaxonomy.cdm.api.service.IOccurrenceService#listDerivedUnitFacades(eu.etaxonomy.cdm.model.description.DescriptionBase, java.util.List)
648 public List
<DerivedUnitFacade
> listDerivedUnitFacades(DescriptionBase description
, List
<String
> propertyPaths
) {
649 return defaultService
.listDerivedUnitFacades(description
, propertyPaths
);
657 * @param propertyPaths
659 * @see eu.etaxonomy.cdm.api.service.IService#page(java.lang.Class, java.lang.Integer, java.lang.Integer, java.util.List, java.util.List)
662 public <S
extends SpecimenOrObservationBase
> Pager
<S
> page(Class
<S
> type
, Integer pageSize
, Integer pageNumber
, List
<OrderHint
> orderHints
, List
<String
> propertyPaths
) {
663 return defaultService
.page(type
, pageSize
, pageNumber
, orderHints
, propertyPaths
);
668 * @param includeRelationships
669 * @param associatedTaxon
674 * @param propertyPaths
676 * @see eu.etaxonomy.cdm.api.service.IOccurrenceService#listByAssociatedTaxon(java.lang.Class, java.util.Set, eu.etaxonomy.cdm.model.taxon.Taxon, java.lang.Integer, java.lang.Integer, java.lang.Integer, java.util.List, java.util.List)
679 public <T
extends SpecimenOrObservationBase
> List
<T
> listByAssociatedTaxon(Class
<T
> type
, Set
<TaxonRelationshipEdge
> includeRelationships
, Taxon associatedTaxon
, Integer maxDepth
, Integer pageSize
, Integer pageNumber
, List
<OrderHint
> orderHints
, List
<String
> propertyPaths
) {
680 return defaultService
.listByAssociatedTaxon(type
, includeRelationships
, associatedTaxon
, maxDepth
, pageSize
, pageNumber
, orderHints
, propertyPaths
);
684 * @param persistentObject
686 * @see eu.etaxonomy.cdm.api.service.IService#refresh(eu.etaxonomy.cdm.model.common.ICdmBase)
689 public UUID
refresh(SpecimenOrObservationBase persistentObject
) {
690 return defaultService
.refresh(persistentObject
);
701 * @param propertyPaths
703 * @see eu.etaxonomy.cdm.api.service.IIdentifiableEntityService#listByReferenceTitle(java.lang.Class, java.lang.String, eu.etaxonomy.cdm.persistence.query.MatchMode, java.util.List, java.lang.Integer, java.lang.Integer, java.util.List, java.util.List)
706 public List
<SpecimenOrObservationBase
> listByReferenceTitle(Class
<?
extends SpecimenOrObservationBase
> clazz
, String queryString
, MatchMode matchmode
, List
<Criterion
> criteria
, Integer pageSize
, Integer pageNumber
, List
<OrderHint
> orderHints
, List
<String
> propertyPaths
) {
707 return defaultService
.listByReferenceTitle(clazz
, queryString
, matchmode
, criteria
, pageSize
, pageNumber
, orderHints
, propertyPaths
);
715 * @see eu.etaxonomy.cdm.api.service.IService#rows(java.lang.String, int, int)
718 public List
<SpecimenOrObservationBase
> rows(String tableName
, int limit
, int start
) {
719 return defaultService
.rows(tableName
, limit
, start
);
723 * @param newInstances
725 * @see eu.etaxonomy.cdm.api.service.IService#save(java.util.Collection)
728 public Map
<UUID
, SpecimenOrObservationBase
> save(Collection
<SpecimenOrObservationBase
> newInstances
) {
729 for(SpecimenOrObservationBase unit
:newInstances
){
737 * @param includeRelationships
738 * @param associatedTaxon
743 * @param propertyPaths
745 * @see eu.etaxonomy.cdm.api.service.IOccurrenceService#pageByAssociatedTaxon(java.lang.Class, java.util.Set, eu.etaxonomy.cdm.model.taxon.Taxon, java.lang.Integer, java.lang.Integer, java.lang.Integer, java.util.List, java.util.List)
748 public <T
extends SpecimenOrObservationBase
> Pager
<T
> pageByAssociatedTaxon(Class
<T
> type
, Set
<TaxonRelationshipEdge
> includeRelationships
, Taxon associatedTaxon
, Integer maxDepth
, Integer pageSize
, Integer pageNumber
, List
<OrderHint
> orderHints
, List
<String
> propertyPaths
) {
749 return defaultService
.pageByAssociatedTaxon(type
, includeRelationships
, associatedTaxon
, maxDepth
, pageSize
, pageNumber
, orderHints
, propertyPaths
);
755 * @see eu.etaxonomy.cdm.api.service.IService#save(eu.etaxonomy.cdm.model.common.ICdmBase)
758 public SpecimenOrObservationBase
save(SpecimenOrObservationBase newInstance
) {
759 units
.add(newInstance
);
764 * @param transientObject
766 * @see eu.etaxonomy.cdm.api.service.IService#saveOrUpdate(eu.etaxonomy.cdm.model.common.ICdmBase)
769 public UUID
saveOrUpdate(SpecimenOrObservationBase transientObject
) {
770 units
.add(transientObject
);
775 * @param transientObjects
777 * @see eu.etaxonomy.cdm.api.service.IService#saveOrUpdate(java.util.Collection)
780 public Map
<UUID
, SpecimenOrObservationBase
> saveOrUpdate(Collection
<SpecimenOrObservationBase
> transientObjects
) {
781 for(SpecimenOrObservationBase unit
:transientObjects
){
792 * @param highlightFragments
796 * @param propertyPaths
798 * @throws CorruptIndexException
799 * @throws IOException
800 * @throws ParseException
801 * @see eu.etaxonomy.cdm.api.service.IOccurrenceService#findByFullText(java.lang.Class, java.lang.String, org.hibernate.search.spatial.impl.Rectangle, java.util.List, boolean, java.lang.Integer, java.lang.Integer, java.util.List, java.util.List)
804 public Pager
<SearchResult
<SpecimenOrObservationBase
>> findByFullText(Class
<?
extends SpecimenOrObservationBase
> clazz
, String queryString
, Rectangle boundingBox
, List
<Language
> languages
, boolean highlightFragments
, Integer pageSize
, Integer pageNumber
, List
<OrderHint
> orderHints
, List
<String
> propertyPaths
) throws CorruptIndexException
, IOException
, ParseException
{
805 return defaultService
.findByFullText(clazz
, queryString
, boundingBox
, languages
, highlightFragments
, pageSize
, pageNumber
, orderHints
, propertyPaths
);
809 * @param transientObject
811 * @see eu.etaxonomy.cdm.api.service.IService#update(eu.etaxonomy.cdm.model.common.ICdmBase)
814 public UUID
update(SpecimenOrObservationBase transientObject
) {
815 return defaultService
.update(transientObject
);
820 * @param includeProperties
824 * @param propertyPaths
826 * @see eu.etaxonomy.cdm.api.service.IService#list(eu.etaxonomy.cdm.model.common.ICdmBase, java.util.Set, java.lang.Integer, java.lang.Integer, java.util.List, java.util.List)
829 public List
<SpecimenOrObservationBase
> list(SpecimenOrObservationBase example
, Set
<String
> includeProperties
, Integer limit
, Integer start
, List
<OrderHint
> orderHints
, List
<String
> propertyPaths
) {
830 return defaultService
.list(example
, includeProperties
, limit
, start
, orderHints
, propertyPaths
);
834 public int deduplicate(Class
<?
extends SpecimenOrObservationBase
> clazz
, IMatchStrategy matchStrategy
, IMergeStrategy mergeStrategy
) {
835 return defaultService
.deduplicate(clazz
, matchStrategy
, mergeStrategy
);
839 public Pager
<SpecimenOrObservationBase
> findTitleCache(Class
<?
extends SpecimenOrObservationBase
> clazz
, String queryString
, Integer pageSize
, Integer pageNumber
, List
<OrderHint
> orderHints
, MatchMode matchMode
) {
840 return defaultService
.findTitleCache(clazz
, queryString
, pageSize
, pageNumber
, orderHints
, matchMode
);
843 public Collection
<SpecimenOrObservationBase
<?
>> getUnits() {
848 public Collection
<FieldUnit
> getFieldUnits(UUID derivedUnitUuid
) {
849 return defaultService
.getFieldUnits(derivedUnitUuid
);
853 public <T
extends SpecimenOrObservationBase
> Pager
<T
> pageByAssociatedTaxon(Class
<T
> type
,
854 Set
<TaxonRelationshipEdge
> includeRelationships
, String taxonUUID
, Integer maxDepth
, Integer pageSize
,
855 Integer pageNumber
, List
<OrderHint
> orderHints
, List
<String
> propertyPaths
) {
856 return defaultService
.pageByAssociatedTaxon(type
, includeRelationships
, taxonUUID
,
857 maxDepth
, pageSize
, pageNumber
, orderHints
, propertyPaths
);
862 public UpdateResult
moveSequence(DnaSample from
, DnaSample to
, Sequence sequence
) {
863 return defaultService
.moveSequence(from
, to
, sequence
);
867 public DeleteResult
isDeletable(SpecimenOrObservationBase object
,
868 DeleteConfiguratorBase config
) {
869 return defaultService
.isDeletable(object
, config
);
873 public int countDeterminations(SpecimenOrObservationBase occurence
, TaxonBase taxonbase
) {
874 return defaultService
.countDeterminations(occurence
, taxonbase
);
878 public SpecimenOrObservationBase
findWithoutFlush(UUID uuid
) {
879 return defaultService
.findWithoutFlush(uuid
);
883 public Collection
<SpecimenOrObservationBase
> listFieldUnitsByAssociatedTaxon(Taxon associatedTaxon
,
884 List
<OrderHint
> orderHints
, List
<String
> propertyPaths
) {
885 return defaultService
.listFieldUnitsByAssociatedTaxon(associatedTaxon
, orderHints
, propertyPaths
);
889 public Pager
<SpecimenOrObservationBase
> pageFieldUnitsByAssociatedTaxon(
890 Set
<TaxonRelationshipEdge
> includeRelationships
, Taxon associatedTaxon
, Integer maxDepth
, Integer pageSize
,
891 Integer pageNumber
, List
<OrderHint
> orderHints
, List
<String
> propertyPaths
) {
892 return defaultService
.pageFieldUnitsByAssociatedTaxon(includeRelationships
, associatedTaxon
, maxDepth
, pageSize
, pageNumber
, orderHints
, propertyPaths
);
897 public FieldUnitDTO
assembleFieldUnitDTO(FieldUnit fieldUnit
, UUID associatedTaxonUuid
) {
898 return defaultService
.assembleFieldUnitDTO(fieldUnit
, associatedTaxonUuid
);
902 public PreservedSpecimenDTO
assemblePreservedSpecimenDTO(DerivedUnit derivedUnit
) {
903 return defaultService
.assemblePreservedSpecimenDTO(derivedUnit
);
907 public Collection
<ICdmBase
> getNonCascadedAssociatedElements(SpecimenOrObservationBase
<?
> specimen
) {
908 return defaultService
.getNonCascadedAssociatedElements(specimen
);
912 public DeleteResult
delete(SpecimenOrObservationBase
<?
> specimen
, SpecimenDeleteConfigurator config
) {
913 return defaultService
.delete(specimen
, config
);
917 public Collection
<IndividualsAssociation
> listIndividualsAssociations(SpecimenOrObservationBase
<?
> specimen
,
918 Integer limit
, Integer start
, List
<OrderHint
> orderHints
, List
<String
> propertyPaths
) {
919 return defaultService
.listIndividualsAssociations(specimen
, limit
, start
, orderHints
, propertyPaths
);
923 public Collection
<DescriptionBase
<?
>> listDescriptionsWithDescriptionSpecimen(
924 SpecimenOrObservationBase
<?
> specimen
, Integer limit
, Integer start
, List
<OrderHint
> orderHints
,
925 List
<String
> propertyPaths
) {
926 return defaultService
.listDescriptionsWithDescriptionSpecimen(specimen
, limit
, start
, orderHints
, propertyPaths
);
930 public <S
extends SpecimenOrObservationBase
> Pager
<FindByIdentifierDTO
<S
>> findByIdentifier(Class
<S
> clazz
, String identifier
, DefinedTerm identifierType
, MatchMode matchmode
, boolean includeEntity
, Integer pageSize
, Integer pageNumber
, List
<String
> propertyPaths
){
931 return defaultService
.findByIdentifier(clazz
, identifier
, identifierType
, matchmode
, includeEntity
, pageSize
, pageNumber
, propertyPaths
);
935 public Collection
<DescriptionElementBase
> getCharacterDataForSpecimen(SpecimenOrObservationBase
<?
> arg0
) {
936 return defaultService
.getCharacterDataForSpecimen(arg0
);
940 public Collection
<DescriptionElementBase
> getCharacterDataForSpecimen(UUID arg0
) {
941 return getCharacterDataForSpecimen(arg0
);
945 public String
getMostSignificantIdentifier(DerivedUnit derivedUnit
) {
946 return defaultService
.getMostSignificantIdentifier(derivedUnit
);
950 public int countOccurrences(IIdentifiableEntityServiceConfigurator
<SpecimenOrObservationBase
> config
) {
951 return defaultService
.countOccurrences(config
);
958 public List
<DerivedUnit
> getAllChildDerivatives(SpecimenOrObservationBase
<?
> specimen
) {
959 return defaultService
.getAllChildDerivatives(specimen
);
966 public List
<SpecimenOrObservationBase
<?
>> getAllHierarchyDerivatives(SpecimenOrObservationBase
<?
> specimen
) {
967 return defaultService
.getAllHierarchyDerivatives(specimen
);
972 public DeleteResult
delete(UUID uuid
) {
973 return defaultService
.delete(uuid
);
977 public DeleteResult
delete(Collection
<UUID
> arg0
) {
978 return defaultService
.delete(arg0
);
983 public List
<SpecimenOrObservationBase
> merge(List
<SpecimenOrObservationBase
> arg0
) {
984 return defaultService
.merge(arg0
);
988 public UpdateResult
moveDerivate(UUID arg0
, UUID arg1
, UUID arg2
) {
989 return defaultService
.moveDerivate(arg0
, arg1
, arg2
);
993 public boolean moveDerivate(SpecimenOrObservationBase
<?
> from
, SpecimenOrObservationBase
<?
> to
, DerivedUnit derivate
) {
994 return defaultService
.moveDerivate(from
, to
, derivate
);
998 public UpdateResult
moveSequence(UUID arg0
, UUID arg1
, UUID arg2
) {
999 return defaultService
.moveSequence(arg0
, arg1
, arg2
);
1003 public Pager
<Media
> getMediainHierarchy(SpecimenOrObservationBase arg0
, Integer arg1
, Integer arg2
,
1004 List
<String
> arg3
) {
1005 return defaultService
.getMediainHierarchy(arg0
, arg1
, arg2
, arg3
);
1009 public List
<MergeResult
<SpecimenOrObservationBase
>> merge(List
<SpecimenOrObservationBase
> arg0
, boolean arg1
) {
1010 return defaultService
.merge(arg0
, arg1
);
1014 public MergeResult
<SpecimenOrObservationBase
> merge(SpecimenOrObservationBase arg0
, boolean arg1
) {
1015 return defaultService
.merge(arg0
, arg1
);
1022 public Collection
<TaxonBase
<?
>> listAssociatedTaxa(SpecimenOrObservationBase
<?
> arg0
, Integer arg1
, Integer arg2
,
1023 List
<OrderHint
> arg3
, List
<String
> arg4
) {
1024 return defaultService
.listAssociatedTaxa(arg0
, arg1
, arg2
, arg3
, arg4
);
1028 public SpecimenOrObservationBase
loadWithUpdate(UUID arg0
) {
1029 return defaultService
.loadWithUpdate(arg0
);
1036 public DeleteResult
delete(UUID arg0
, SpecimenDeleteConfigurator arg1
) {
1037 return defaultService
.delete(arg0
, arg1
);
1044 public Pager
<SpecimenOrObservationBase
> list(Class
<?
extends SpecimenOrObservationBase
> arg0
, TaxonNameBase arg1
,
1045 Integer arg2
, Integer arg3
, List
<OrderHint
> arg4
, List
<String
> arg5
) {
1046 return defaultService
.list(arg0
, arg1
, arg2
, arg3
, arg4
, arg5
);
1053 public Collection
<DeterminationEvent
> listDeterminationEvents(SpecimenOrObservationBase
<?
> arg0
, Integer arg1
,
1054 Integer arg2
, List
<OrderHint
> arg3
, List
<String
> arg4
) {
1055 return defaultService
.listDeterminationEvents(arg0
, arg1
, arg2
, arg3
, arg4
);
1059 public Collection
<TaxonBase
<?
>> listDeterminedTaxa(SpecimenOrObservationBase
<?
> arg0
, Integer arg1
, Integer arg2
,
1060 List
<OrderHint
> arg3
, List
<String
> arg4
) {
1061 return defaultService
.listDeterminedTaxa(arg0
, arg1
, arg2
, arg3
, arg4
);
1065 public Collection
<TaxonBase
<?
>> listIndividualsAssociationTaxa(SpecimenOrObservationBase
<?
> arg0
, Integer arg1
,
1066 Integer arg2
, List
<OrderHint
> arg3
, List
<String
> arg4
) {
1067 return defaultService
.listIndividualsAssociationTaxa(arg0
, arg1
, arg2
, arg3
, arg4
);
1074 public List
<SpecimenOrObservationBase
> load(List
<UUID
> arg0
, List
<String
> arg1
) {
1075 return defaultService
.load(arg0
, arg1
);
1079 public Collection
<TaxonBase
<?
>> listTypeDesignationTaxa(DerivedUnit arg0
, Integer arg1
, Integer arg2
,
1080 List
<OrderHint
> arg3
, List
<String
> arg4
) {
1081 return defaultService
.listTypeDesignationTaxa(arg0
, arg1
, arg2
, arg3
, arg4
);
1085 public Map
<DerivedUnit
, Collection
<SpecimenTypeDesignation
>> listTypeDesignations(Collection
<DerivedUnit
> arg0
,
1086 Integer arg1
, Integer arg2
, List
<OrderHint
> arg3
, List
<String
> arg4
) {
1087 return defaultService
.listTypeDesignations(arg0
, arg1
, arg2
, arg3
, arg4
);
1091 public Collection
<SpecimenTypeDesignation
> listTypeDesignations(DerivedUnit arg0
, Integer arg1
, Integer arg2
,
1092 List
<OrderHint
> arg3
, List
<String
> arg4
) {
1093 return defaultService
.listTypeDesignations(arg0
, arg1
, arg2
, arg3
, arg4
);
1097 public List
<DerivedUnit
> getAllChildDerivatives(UUID arg0
) {
1098 return defaultService
.getAllChildDerivatives(arg0
);
1102 public List
<UuidAndTitleCache
<SpecimenOrObservationBase
>> getUuidAndTitleCache(
1103 Integer limit
, String pattern
) {
1104 return defaultService
.getUuidAndTitleCache(limit
, pattern
);
1108 public List
<SpecimenOrObservationBase
> loadByIds(List
<Integer
> idSet
, List
<String
> propertyPaths
) {
1110 return defaultService
.loadByIds(idSet
, propertyPaths
);