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
.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
.config
.DeleteConfiguratorBase
;
33 import eu
.etaxonomy
.cdm
.api
.service
.config
.IIdentifiableEntityServiceConfigurator
;
34 import eu
.etaxonomy
.cdm
.api
.service
.config
.SpecimenDeleteConfigurator
;
35 import eu
.etaxonomy
.cdm
.api
.service
.dto
.FieldUnitDTO
;
36 import eu
.etaxonomy
.cdm
.api
.service
.dto
.FindByIdentifierDTO
;
37 import eu
.etaxonomy
.cdm
.api
.service
.dto
.PreservedSpecimenDTO
;
38 import eu
.etaxonomy
.cdm
.api
.service
.pager
.Pager
;
39 import eu
.etaxonomy
.cdm
.api
.service
.search
.SearchResult
;
40 import eu
.etaxonomy
.cdm
.api
.service
.util
.TaxonRelationshipEdge
;
41 import eu
.etaxonomy
.cdm
.common
.monitor
.IProgressMonitor
;
42 import eu
.etaxonomy
.cdm
.model
.common
.Annotation
;
43 import eu
.etaxonomy
.cdm
.model
.common
.CdmBase
;
44 import eu
.etaxonomy
.cdm
.model
.common
.DefinedTerm
;
45 import eu
.etaxonomy
.cdm
.model
.common
.ICdmBase
;
46 import eu
.etaxonomy
.cdm
.model
.common
.ISourceable
;
47 import eu
.etaxonomy
.cdm
.model
.common
.IdentifiableSource
;
48 import eu
.etaxonomy
.cdm
.model
.common
.LSID
;
49 import eu
.etaxonomy
.cdm
.model
.common
.Language
;
50 import eu
.etaxonomy
.cdm
.model
.common
.Marker
;
51 import eu
.etaxonomy
.cdm
.model
.common
.MarkerType
;
52 import eu
.etaxonomy
.cdm
.model
.description
.DescriptionBase
;
53 import eu
.etaxonomy
.cdm
.model
.description
.DescriptionElementBase
;
54 import eu
.etaxonomy
.cdm
.model
.description
.IndividualsAssociation
;
55 import eu
.etaxonomy
.cdm
.model
.location
.Country
;
56 import eu
.etaxonomy
.cdm
.model
.media
.Media
;
57 import eu
.etaxonomy
.cdm
.model
.media
.Rights
;
58 import eu
.etaxonomy
.cdm
.model
.molecular
.DnaSample
;
59 import eu
.etaxonomy
.cdm
.model
.molecular
.Sequence
;
60 import eu
.etaxonomy
.cdm
.model
.name
.SpecimenTypeDesignation
;
61 import eu
.etaxonomy
.cdm
.model
.occurrence
.DerivationEvent
;
62 import eu
.etaxonomy
.cdm
.model
.occurrence
.DerivedUnit
;
63 import eu
.etaxonomy
.cdm
.model
.occurrence
.DeterminationEvent
;
64 import eu
.etaxonomy
.cdm
.model
.occurrence
.FieldUnit
;
65 import eu
.etaxonomy
.cdm
.model
.occurrence
.SpecimenOrObservationBase
;
66 import eu
.etaxonomy
.cdm
.model
.taxon
.Taxon
;
67 import eu
.etaxonomy
.cdm
.model
.taxon
.TaxonBase
;
68 import eu
.etaxonomy
.cdm
.model
.view
.AuditEvent
;
69 import eu
.etaxonomy
.cdm
.model
.view
.AuditEventRecord
;
70 import eu
.etaxonomy
.cdm
.persistence
.dao
.common
.AuditEventSort
;
71 import eu
.etaxonomy
.cdm
.persistence
.dto
.UuidAndTitleCache
;
72 import eu
.etaxonomy
.cdm
.persistence
.query
.Grouping
;
73 import eu
.etaxonomy
.cdm
.persistence
.query
.MatchMode
;
74 import eu
.etaxonomy
.cdm
.persistence
.query
.OrderHint
;
75 import eu
.etaxonomy
.cdm
.strategy
.cache
.common
.IIdentifiableEntityCacheStrategy
;
76 import eu
.etaxonomy
.cdm
.strategy
.match
.IMatchStrategy
;
77 import eu
.etaxonomy
.cdm
.strategy
.merge
.IMergeStrategy
;
84 public class TransientOccurenceService
implements IOccurrenceService
{
86 private final IOccurrenceService defaultService
;
87 private final Collection
<SpecimenOrObservationBase
<?
>> units
;
90 * @param defaultService
92 public TransientOccurenceService(IOccurrenceService defaultService
) {
93 this.defaultService
= defaultService
;
94 this.units
= new HashSet
<SpecimenOrObservationBase
<?
>>();
102 * @param propertyPaths
104 * @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)
107 public Pager
<AuditEventRecord
<SpecimenOrObservationBase
>> pageAuditEvents(SpecimenOrObservationBase t
, Integer pageSize
, Integer pageNumber
, AuditEventSort sort
, List
<String
> propertyPaths
) {
108 return defaultService
.pageAuditEvents(t
, pageSize
, pageNumber
, sort
, propertyPaths
);
112 * @param annotatedObj
117 * @param propertyPaths
119 * @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)
122 public Pager
<Annotation
> getAnnotations(SpecimenOrObservationBase annotatedObj
, MarkerType status
, Integer pageSize
, Integer pageNumber
, List
<OrderHint
> orderHints
, List
<String
> propertyPaths
) {
123 return defaultService
.getAnnotations(annotatedObj
, status
, pageSize
, pageNumber
, orderHints
, propertyPaths
);
128 * @see eu.etaxonomy.cdm.api.service.IService#clear()
131 public void clear() {
132 defaultService
.clear();
138 * @see eu.etaxonomy.cdm.api.service.IService#lock(eu.etaxonomy.cdm.model.common.ICdmBase, org.hibernate.LockMode)
141 public void lock(SpecimenOrObservationBase t
, LockOptions lockOptions
) {
142 defaultService
.lock(t
, lockOptions
);
148 * @param propertyPaths
149 * @see eu.etaxonomy.cdm.api.service.IService#refresh(eu.etaxonomy.cdm.model.common.ICdmBase, org.hibernate.LockMode, java.util.List)
152 public void refresh(SpecimenOrObservationBase t
, LockOptions lockOptions
, List
<String
> propertyPaths
) {
153 defaultService
.refresh(t
, lockOptions
, propertyPaths
);
158 * @see eu.etaxonomy.cdm.api.service.IIdentifiableEntityService#updateTitleCache()
161 public void updateTitleCache() {
162 defaultService
.updateTitleCache();
168 * @see eu.etaxonomy.cdm.api.service.IVersionableService#getNextAuditEvent(eu.etaxonomy.cdm.model.common.VersionableEntity)
171 public AuditEventRecord
<SpecimenOrObservationBase
> getNextAuditEvent(SpecimenOrObservationBase t
) {
172 return defaultService
.getNextAuditEvent(t
);
176 * @param annotatableEntity
181 * @param propertyPaths
183 * @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)
186 public Pager
<Marker
> getMarkers(SpecimenOrObservationBase annotatableEntity
, Boolean technical
, Integer pageSize
, Integer pageNumber
, List
<OrderHint
> orderHints
, List
<String
> propertyPaths
) {
187 return defaultService
.getMarkers(annotatableEntity
, technical
, pageSize
, pageNumber
, orderHints
, propertyPaths
);
193 * @param cacheStrategy
195 * @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)
198 public void updateTitleCache(Class
<?
extends SpecimenOrObservationBase
> clazz
, Integer stepSize
, IIdentifiableEntityCacheStrategy
<SpecimenOrObservationBase
> cacheStrategy
, IProgressMonitor monitor
) {
199 defaultService
.updateTitleCache(clazz
, stepSize
, cacheStrategy
, monitor
);
205 * @see eu.etaxonomy.cdm.api.service.IVersionableService#getPreviousAuditEvent(eu.etaxonomy.cdm.model.common.VersionableEntity)
208 public AuditEventRecord
<SpecimenOrObservationBase
> getPreviousAuditEvent(SpecimenOrObservationBase t
) {
209 return defaultService
.getPreviousAuditEvent(t
);
215 * @see eu.etaxonomy.cdm.api.service.IOccurrenceService#getCountryByIso(java.lang.String)
218 public Country
getCountryByIso(String iso639
) {
219 return defaultService
.getCountryByIso(iso639
);
225 * @see eu.etaxonomy.cdm.api.service.IService#count(java.lang.Class)
228 public int count(Class
<?
extends SpecimenOrObservationBase
> clazz
) {
229 return defaultService
.count(clazz
);
235 * @see eu.etaxonomy.cdm.api.service.IOccurrenceService#getCountryByName(java.lang.String)
238 public List
<Country
> getCountryByName(String name
) {
239 return defaultService
.getCountryByName(name
);
244 * @param determinedAs
248 * @param propertyPaths
250 * @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)
253 public Pager
<SpecimenOrObservationBase
> list(Class
<?
extends SpecimenOrObservationBase
> type
, TaxonBase determinedAs
, Integer limit
, Integer start
, List
<OrderHint
> orderHints
, List
<String
> propertyPaths
) {
254 return defaultService
.list(type
, determinedAs
, limit
, start
, orderHints
, propertyPaths
);
265 * @param propertyPaths
267 * @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)
270 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
) {
271 return defaultService
.pageAuditEvents(clazz
, from
, to
, criteria
, pageSize
, pageValue
, sort
, propertyPaths
);
277 * @see eu.etaxonomy.cdm.api.service.IIdentifiableEntityService#find(eu.etaxonomy.cdm.model.common.LSID)
280 public SpecimenOrObservationBase
find(LSID lsid
) {
281 return defaultService
.find(lsid
);
285 * @param persistentObject
287 * @see eu.etaxonomy.cdm.api.service.IService#delete(eu.etaxonomy.cdm.model.common.ICdmBase)
290 public DeleteResult
delete(SpecimenOrObservationBase persistentObject
) {
291 return defaultService
.delete(persistentObject
);
299 * @param propertyPaths
301 * @see eu.etaxonomy.cdm.api.service.IAnnotatableService#groupMarkers(java.lang.Class, java.lang.Boolean, java.lang.Integer, java.lang.Integer, java.util.List)
304 public List
<Object
[]> groupMarkers(Class
<?
extends SpecimenOrObservationBase
> clazz
, Boolean technical
, Integer pageSize
, Integer pageNumber
, List
<String
> propertyPaths
) {
305 return defaultService
.groupMarkers(clazz
, technical
, pageSize
, pageNumber
, propertyPaths
);
311 * @see eu.etaxonomy.cdm.api.service.IService#exists(java.util.UUID)
314 public boolean exists(UUID uuid
) {
315 return defaultService
.exists(uuid
);
322 * @see eu.etaxonomy.cdm.api.service.IIdentifiableEntityService#replace(eu.etaxonomy.cdm.model.common.IdentifiableEntity, eu.etaxonomy.cdm.model.common.IdentifiableEntity)
325 public SpecimenOrObservationBase
replace(SpecimenOrObservationBase x
, SpecimenOrObservationBase y
) {
326 return defaultService
.replace(x
, y
);
332 * @see eu.etaxonomy.cdm.api.service.IService#find(java.util.Set)
335 public List
<SpecimenOrObservationBase
> find(Set
<UUID
> uuidSet
) {
336 return defaultService
.find(uuidSet
);
343 * @param propertyPaths
345 * @see eu.etaxonomy.cdm.api.service.IIdentifiableEntityService#getSources(eu.etaxonomy.cdm.model.common.IdentifiableEntity, java.lang.Integer, java.lang.Integer, java.util.List)
348 public Pager
<IdentifiableSource
> getSources(SpecimenOrObservationBase t
, Integer pageSize
, Integer pageNumber
, List
<String
> propertyPaths
) {
349 return defaultService
.getSources(t
, pageSize
, pageNumber
, propertyPaths
);
355 * @see eu.etaxonomy.cdm.api.service.IService#find(java.util.UUID)
358 public SpecimenOrObservationBase
find(UUID uuid
) {
359 return defaultService
.find(uuid
);
365 * @see eu.etaxonomy.cdm.api.service.IService#find(int)
368 public SpecimenOrObservationBase
find(int id
) {
369 return defaultService
.find(id
);
376 * @param propertyPaths
378 * @see eu.etaxonomy.cdm.api.service.IIdentifiableEntityService#getRights(eu.etaxonomy.cdm.model.common.IdentifiableEntity, java.lang.Integer, java.lang.Integer, java.util.List)
381 public Pager
<Rights
> getRights(SpecimenOrObservationBase t
, Integer pageSize
, Integer pageNumber
, List
<String
> propertyPaths
) {
382 return defaultService
.getRights(t
, pageSize
, pageNumber
, propertyPaths
);
389 * @see eu.etaxonomy.cdm.api.service.IAnnotatableService#countMarkers(java.lang.Class, java.lang.Boolean)
392 public int countMarkers(Class
<?
extends SpecimenOrObservationBase
> clazz
, Boolean technical
) {
393 return defaultService
.countMarkers(clazz
, technical
);
400 * @param propertyPaths
402 * @see eu.etaxonomy.cdm.api.service.IOccurrenceService#getMedia(eu.etaxonomy.cdm.model.occurrence.SpecimenOrObservationBase, java.lang.Integer, java.lang.Integer, java.util.List)
405 public Pager
<Media
> getMedia(SpecimenOrObservationBase occurence
, Integer pageSize
, Integer pageNumber
, List
<String
> propertyPaths
) {
406 return defaultService
.getMedia(occurence
, pageSize
, pageNumber
, propertyPaths
);
412 * @see eu.etaxonomy.cdm.api.service.IService#findById(java.util.Set)
415 public List
<SpecimenOrObservationBase
> findById(Set
<Integer
> idSet
) {
416 return defaultService
.findById(idSet
);
424 * @see eu.etaxonomy.cdm.api.service.IIdentifiableEntityService#getSourcedObjectByIdInSource(java.lang.Class, java.lang.String, java.lang.String)
427 public ISourceable
getSourcedObjectByIdInSource(Class clazz
, String idInSource
, String idNamespace
) {
428 return defaultService
.getSourcedObjectByIdInSource(clazz
, idInSource
, idNamespace
);
433 * @see eu.etaxonomy.cdm.api.service.IService#getSession()
436 public Session
getSession() {
437 return defaultService
.getSession();
442 * @see eu.etaxonomy.cdm.api.service.IIdentifiableEntityService#getUuidAndTitleCache()
445 public List
<UuidAndTitleCache
<SpecimenOrObservationBase
>> getUuidAndTitleCache() {
446 return defaultService
.getUuidAndTitleCache();
454 * @param propertyPaths
456 * @see eu.etaxonomy.cdm.api.service.IService#group(java.lang.Class, java.lang.Integer, java.lang.Integer, java.util.List, java.util.List)
459 public List
<Object
[]> group(Class
<?
extends SpecimenOrObservationBase
> clazz
, Integer limit
, Integer start
, List
<Grouping
> groups
, List
<String
> propertyPaths
) {
460 return defaultService
.group(clazz
, limit
, start
, groups
, propertyPaths
);
468 * @param propertyPaths
470 * @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)
473 public Pager
<DeterminationEvent
> getDeterminations(SpecimenOrObservationBase occurence
, TaxonBase taxonBase
, Integer pageSize
, Integer pageNumber
, List
<String
> propertyPaths
) {
474 return defaultService
.getDeterminations(occurence
, taxonBase
, pageSize
, pageNumber
, propertyPaths
);
485 * @param propertyPaths
487 * @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)
490 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
) {
491 return defaultService
.findByTitle(clazz
, queryString
, matchmode
, criteria
, pageSize
, pageNumber
, orderHints
, propertyPaths
);
498 * @param propertyPaths
500 * @see eu.etaxonomy.cdm.api.service.IOccurrenceService#getDerivationEvents(eu.etaxonomy.cdm.model.occurrence.SpecimenOrObservationBase, java.lang.Integer, java.lang.Integer, java.util.List)
503 public Pager
<DerivationEvent
> getDerivationEvents(SpecimenOrObservationBase occurence
, Integer pageSize
, Integer pageNumber
, List
<String
> propertyPaths
) {
504 return defaultService
.getDerivationEvents(occurence
, pageSize
, pageNumber
, propertyPaths
);
512 * @param propertyPaths
514 * @see eu.etaxonomy.cdm.api.service.IService#list(java.lang.Class, java.lang.Integer, java.lang.Integer, java.util.List, java.util.List)
517 public <S
extends SpecimenOrObservationBase
> List
<S
> list(Class
<S
> type
, Integer limit
, Integer start
, List
<OrderHint
> orderHints
, List
<String
> propertyPaths
) {
518 return defaultService
.list(type
, limit
, start
, orderHints
, propertyPaths
);
527 * @param propertyPaths
529 * @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)
532 public Pager
<SpecimenOrObservationBase
> search(Class
<?
extends SpecimenOrObservationBase
> clazz
, String query
, Integer pageSize
, Integer pageNumber
, List
<OrderHint
> orderHints
, List
<String
> propertyPaths
) {
533 return defaultService
.search(clazz
, query
, pageSize
, pageNumber
, orderHints
, propertyPaths
);
537 * @param configurator
539 * @see eu.etaxonomy.cdm.api.service.IIdentifiableEntityService#findByTitle(eu.etaxonomy.cdm.api.service.config.IIdentifiableEntityServiceConfigurator)
542 public Pager
<SpecimenOrObservationBase
> findByTitle(IIdentifiableEntityServiceConfigurator
<SpecimenOrObservationBase
> configurator
) {
543 return defaultService
.findByTitle(configurator
);
552 * @see eu.etaxonomy.cdm.api.service.IIdentifiableEntityService#countByTitle(java.lang.Class, java.lang.String, eu.etaxonomy.cdm.persistence.query.MatchMode, java.util.List)
555 public Integer
countByTitle(Class
<?
extends SpecimenOrObservationBase
> clazz
, String queryString
, MatchMode matchmode
, List
<Criterion
> criteria
) {
556 return defaultService
.countByTitle(clazz
, queryString
, matchmode
, criteria
);
562 * @see eu.etaxonomy.cdm.api.service.IService#load(java.util.UUID)
565 public SpecimenOrObservationBase
load(UUID uuid
) {
566 return defaultService
.load(uuid
);
571 * @param propertyPaths
573 * @see eu.etaxonomy.cdm.api.service.IService#load(java.util.UUID, java.util.List)
576 public SpecimenOrObservationBase
load(UUID uuid
, List
<String
> propertyPaths
) {
577 return defaultService
.load(uuid
, propertyPaths
);
581 * @param configurator
583 * @see eu.etaxonomy.cdm.api.service.IIdentifiableEntityService#countByTitle(eu.etaxonomy.cdm.api.service.config.IIdentifiableEntityServiceConfigurator)
586 public Integer
countByTitle(IIdentifiableEntityServiceConfigurator
<SpecimenOrObservationBase
> configurator
) {
587 return defaultService
.countByTitle(configurator
);
592 * @see eu.etaxonomy.cdm.api.service.IOccurrenceService#getFieldUnitUuidAndTitleCache()
595 public List
<UuidAndTitleCache
<FieldUnit
>> getFieldUnitUuidAndTitleCache() {
596 return defaultService
.getFieldUnitUuidAndTitleCache();
601 * @see eu.etaxonomy.cdm.api.service.IOccurrenceService#getDerivedUnitUuidAndTitleCache()
604 public List
<UuidAndTitleCache
<DerivedUnit
>> getDerivedUnitUuidAndTitleCache() {
605 return defaultService
.getDerivedUnitUuidAndTitleCache();
609 * @param transientObject
611 * @see eu.etaxonomy.cdm.api.service.IService#merge(eu.etaxonomy.cdm.model.common.ICdmBase)
614 public SpecimenOrObservationBase
merge(SpecimenOrObservationBase transientObject
) {
615 return defaultService
.merge(transientObject
);
620 * @param propertyPaths
622 * @throws DerivedUnitFacadeNotSupportedException
623 * @see eu.etaxonomy.cdm.api.service.IOccurrenceService#getDerivedUnitFacade(eu.etaxonomy.cdm.model.occurrence.DerivedUnit, java.util.List)
626 public DerivedUnitFacade
getDerivedUnitFacade(DerivedUnit derivedUnit
, List
<String
> propertyPaths
) throws DerivedUnitFacadeNotSupportedException
{
627 return defaultService
.getDerivedUnitFacade(derivedUnit
, propertyPaths
);
638 * @param propertyPaths
640 * @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)
643 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
) {
644 return defaultService
.listByTitle(clazz
, queryString
, matchmode
, criteria
, pageSize
, pageNumber
, orderHints
, propertyPaths
);
649 * @param propertyPaths
651 * @see eu.etaxonomy.cdm.api.service.IOccurrenceService#listDerivedUnitFacades(eu.etaxonomy.cdm.model.description.DescriptionBase, java.util.List)
654 public List
<DerivedUnitFacade
> listDerivedUnitFacades(DescriptionBase description
, List
<String
> propertyPaths
) {
655 return defaultService
.listDerivedUnitFacades(description
, propertyPaths
);
663 * @param propertyPaths
665 * @see eu.etaxonomy.cdm.api.service.IService#page(java.lang.Class, java.lang.Integer, java.lang.Integer, java.util.List, java.util.List)
668 public <S
extends SpecimenOrObservationBase
> Pager
<S
> page(Class
<S
> type
, Integer pageSize
, Integer pageNumber
, List
<OrderHint
> orderHints
, List
<String
> propertyPaths
) {
669 return defaultService
.page(type
, pageSize
, pageNumber
, orderHints
, propertyPaths
);
674 * @param includeRelationships
675 * @param associatedTaxon
680 * @param propertyPaths
682 * @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)
685 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
) {
686 return defaultService
.listByAssociatedTaxon(type
, includeRelationships
, associatedTaxon
, maxDepth
, pageSize
, pageNumber
, orderHints
, propertyPaths
);
690 * @param persistentObject
692 * @see eu.etaxonomy.cdm.api.service.IService#refresh(eu.etaxonomy.cdm.model.common.ICdmBase)
695 public UUID
refresh(SpecimenOrObservationBase persistentObject
) {
696 return defaultService
.refresh(persistentObject
);
707 * @param propertyPaths
709 * @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)
712 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
) {
713 return defaultService
.listByReferenceTitle(clazz
, queryString
, matchmode
, criteria
, pageSize
, pageNumber
, orderHints
, propertyPaths
);
721 * @see eu.etaxonomy.cdm.api.service.IService#rows(java.lang.String, int, int)
724 public List
<SpecimenOrObservationBase
> rows(String tableName
, int limit
, int start
) {
725 return defaultService
.rows(tableName
, limit
, start
);
729 * @param newInstances
731 * @see eu.etaxonomy.cdm.api.service.IService#save(java.util.Collection)
734 public Map
<UUID
, SpecimenOrObservationBase
> save(Collection
<SpecimenOrObservationBase
> newInstances
) {
735 for(SpecimenOrObservationBase unit
:newInstances
){
743 * @param includeRelationships
744 * @param associatedTaxon
749 * @param propertyPaths
751 * @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)
754 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
) {
755 return defaultService
.pageByAssociatedTaxon(type
, includeRelationships
, associatedTaxon
, maxDepth
, pageSize
, pageNumber
, orderHints
, propertyPaths
);
761 * @see eu.etaxonomy.cdm.api.service.IService#save(eu.etaxonomy.cdm.model.common.ICdmBase)
764 public UUID
save(SpecimenOrObservationBase newInstance
) {
765 units
.add(newInstance
);
770 * @param transientObject
772 * @see eu.etaxonomy.cdm.api.service.IService#saveOrUpdate(eu.etaxonomy.cdm.model.common.ICdmBase)
775 public UUID
saveOrUpdate(SpecimenOrObservationBase transientObject
) {
776 units
.add(transientObject
);
781 * @param transientObjects
783 * @see eu.etaxonomy.cdm.api.service.IService#saveOrUpdate(java.util.Collection)
786 public Map
<UUID
, SpecimenOrObservationBase
> saveOrUpdate(Collection
<SpecimenOrObservationBase
> transientObjects
) {
787 for(SpecimenOrObservationBase unit
:transientObjects
){
798 * @param highlightFragments
802 * @param propertyPaths
804 * @throws CorruptIndexException
805 * @throws IOException
806 * @throws ParseException
807 * @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)
810 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
{
811 return defaultService
.findByFullText(clazz
, queryString
, boundingBox
, languages
, highlightFragments
, pageSize
, pageNumber
, orderHints
, propertyPaths
);
815 * @param transientObject
817 * @see eu.etaxonomy.cdm.api.service.IService#update(eu.etaxonomy.cdm.model.common.ICdmBase)
820 public UUID
update(SpecimenOrObservationBase transientObject
) {
821 return defaultService
.update(transientObject
);
826 * @param includeProperties
830 * @param propertyPaths
832 * @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)
835 public List
<SpecimenOrObservationBase
> list(SpecimenOrObservationBase example
, Set
<String
> includeProperties
, Integer limit
, Integer start
, List
<OrderHint
> orderHints
, List
<String
> propertyPaths
) {
836 return defaultService
.list(example
, includeProperties
, limit
, start
, orderHints
, propertyPaths
);
841 * @param matchStrategy
842 * @param mergeStrategy
844 * @see eu.etaxonomy.cdm.api.service.IIdentifiableEntityService#deduplicate(java.lang.Class, eu.etaxonomy.cdm.strategy.match.IMatchStrategy, eu.etaxonomy.cdm.strategy.merge.IMergeStrategy)
847 public int deduplicate(Class
<?
extends SpecimenOrObservationBase
> clazz
, IMatchStrategy matchStrategy
, IMergeStrategy mergeStrategy
) {
848 return defaultService
.deduplicate(clazz
, matchStrategy
, mergeStrategy
);
859 * @see eu.etaxonomy.cdm.api.service.IIdentifiableEntityService#findTitleCache(java.lang.Class, java.lang.String, java.lang.Integer, java.lang.Integer, java.util.List, eu.etaxonomy.cdm.persistence.query.MatchMode)
862 public Pager
<SpecimenOrObservationBase
> findTitleCache(Class
<?
extends SpecimenOrObservationBase
> clazz
, String queryString
, Integer pageSize
, Integer pageNumber
, List
<OrderHint
> orderHints
, MatchMode matchMode
) {
863 return defaultService
.findTitleCache(clazz
, queryString
, pageSize
, pageNumber
, orderHints
, matchMode
);
869 public Collection
<SpecimenOrObservationBase
<?
>> getUnits() {
874 * @see eu.etaxonomy.cdm.api.service.IOccurrenceService#getFieldUnits(java.util.UUID)
877 public Collection
<FieldUnit
> getFieldUnits(UUID derivedUnitUuid
) {
878 return defaultService
.getFieldUnits(derivedUnitUuid
);
882 * @see eu.etaxonomy.cdm.api.service.IOccurrenceService#pageByAssociatedTaxon(java.lang.Class, java.util.Set, java.lang.String, java.lang.Integer, java.lang.Integer, java.lang.Integer, java.util.List, java.util.List)
885 public <T
extends SpecimenOrObservationBase
> Pager
<T
> pageByAssociatedTaxon(Class
<T
> type
,
886 Set
<TaxonRelationshipEdge
> includeRelationships
, String taxonUUID
, Integer maxDepth
, Integer pageSize
,
887 Integer pageNumber
, List
<OrderHint
> orderHints
, List
<String
> propertyPaths
) {
888 return defaultService
.pageByAssociatedTaxon(type
, includeRelationships
, taxonUUID
,
889 maxDepth
, pageSize
, pageNumber
, orderHints
, propertyPaths
);
893 * @see eu.etaxonomy.cdm.api.service.IOccurrenceService#moveDerivate(eu.etaxonomy.cdm.model.occurrence.SpecimenOrObservationBase, eu.etaxonomy.cdm.model.occurrence.SpecimenOrObservationBase, eu.etaxonomy.cdm.model.occurrence.DerivedUnit)
896 public boolean moveDerivate(SpecimenOrObservationBase
<?
> from
, SpecimenOrObservationBase
<?
> to
, DerivedUnit derivate
) {
897 return defaultService
.moveDerivate(from
, to
, derivate
);
901 * @see eu.etaxonomy.cdm.api.service.IOccurrenceService#moveSequence(eu.etaxonomy.cdm.model.molecular.DnaSample, eu.etaxonomy.cdm.model.molecular.DnaSample, eu.etaxonomy.cdm.model.molecular.Sequence)
904 public boolean moveSequence(DnaSample from
, DnaSample to
, Sequence sequence
) {
905 return defaultService
.moveSequence(from
, to
, sequence
);
909 public DeleteResult
isDeletable(SpecimenOrObservationBase object
,
910 DeleteConfiguratorBase config
) {
911 return defaultService
.isDeletable(object
, config
);
915 * @see eu.etaxonomy.cdm.api.service.IOccurrenceService#countDeterminations(eu.etaxonomy.cdm.model.occurrence.SpecimenOrObservationBase, eu.etaxonomy.cdm.model.taxon.TaxonBase)
918 public int countDeterminations(SpecimenOrObservationBase occurence
, TaxonBase taxonbase
) {
919 return defaultService
.countDeterminations(occurence
, taxonbase
);
923 public SpecimenOrObservationBase
findWithoutFlush(UUID uuid
) {
924 return defaultService
.findWithoutFlush(uuid
);
928 public Collection
<SpecimenOrObservationBase
> listFieldUnitsByAssociatedTaxon(Taxon associatedTaxon
,
929 List
<OrderHint
> orderHints
, List
<String
> propertyPaths
) {
930 return defaultService
.listFieldUnitsByAssociatedTaxon(associatedTaxon
, orderHints
, propertyPaths
);
934 public Pager
<SpecimenOrObservationBase
> pageFieldUnitsByAssociatedTaxon(
935 Set
<TaxonRelationshipEdge
> includeRelationships
, Taxon associatedTaxon
, Integer maxDepth
, Integer pageSize
,
936 Integer pageNumber
, List
<OrderHint
> orderHints
, List
<String
> propertyPaths
) {
937 return defaultService
.pageFieldUnitsByAssociatedTaxon(includeRelationships
, associatedTaxon
, maxDepth
, pageSize
, pageNumber
, orderHints
, propertyPaths
);
942 * @see eu.etaxonomy.cdm.api.service.IOccurrenceService#assembleFieldUnitDTO(eu.etaxonomy.cdm.model.occurrence.FieldUnit, java.util.UUID)
945 public FieldUnitDTO
assembleFieldUnitDTO(FieldUnit fieldUnit
, UUID associatedTaxonUuid
) {
946 return defaultService
.assembleFieldUnitDTO(fieldUnit
, associatedTaxonUuid
);
950 * @see eu.etaxonomy.cdm.api.service.IOccurrenceService#assemblePreservedSpecimenDTO(eu.etaxonomy.cdm.model.occurrence.DerivedUnit)
953 public PreservedSpecimenDTO
assemblePreservedSpecimenDTO(DerivedUnit derivedUnit
) {
954 return defaultService
.assemblePreservedSpecimenDTO(derivedUnit
);
958 public Collection
<ICdmBase
> getNonCascadedAssociatedElements(SpecimenOrObservationBase
<?
> specimen
) {
959 return defaultService
.getNonCascadedAssociatedElements(specimen
);
963 * @see eu.etaxonomy.cdm.api.service.IOccurrenceService#deleteDerivateHierarchy(eu.etaxonomy.cdm.model.common.ICdmBase)
966 public DeleteResult
deleteDerivateHierarchy(CdmBase from
, SpecimenDeleteConfigurator config
) {
967 return defaultService
.deleteDerivateHierarchy(from
, config
);
971 * @see eu.etaxonomy.cdm.api.service.IOccurrenceService#delete(eu.etaxonomy.cdm.model.occurrence.SpecimenOrObservationBase, eu.etaxonomy.cdm.api.service.config.SpecimenDeleteConfigurator)
974 public DeleteResult
delete(SpecimenOrObservationBase
<?
> specimen
, SpecimenDeleteConfigurator config
) {
975 return defaultService
.delete(specimen
, config
);
979 * @see eu.etaxonomy.cdm.api.service.IOccurrenceService#listIndividualsAssociations(eu.etaxonomy.cdm.model.occurrence.SpecimenOrObservationBase, java.lang.Integer, java.lang.Integer, java.util.List, java.util.List)
982 public Collection
<IndividualsAssociation
> listIndividualsAssociations(SpecimenOrObservationBase
<?
> specimen
,
983 Integer limit
, Integer start
, List
<OrderHint
> orderHints
, List
<String
> propertyPaths
) {
984 return defaultService
.listIndividualsAssociations(specimen
, limit
, start
, orderHints
, propertyPaths
);
988 * @see eu.etaxonomy.cdm.api.service.IOccurrenceService#listTypeDesignations(eu.etaxonomy.cdm.model.occurrence.SpecimenOrObservationBase, java.lang.Integer, java.lang.Integer, java.util.List, java.util.List)
991 public Collection
<SpecimenTypeDesignation
> listTypeDesignations(SpecimenOrObservationBase
<?
> specimen
,
992 Integer limit
, Integer start
, List
<OrderHint
> orderHints
, List
<String
> propertyPaths
) {
993 return defaultService
.listTypeDesignations(specimen
, limit
, start
, orderHints
, propertyPaths
);
997 * @see eu.etaxonomy.cdm.api.service.IOccurrenceService#listDescriptionsWithDescriptionSpecimen(eu.etaxonomy.cdm.model.occurrence.SpecimenOrObservationBase, java.lang.Integer, java.lang.Integer, java.util.List, java.util.List)
1000 public Collection
<DescriptionBase
<?
>> listDescriptionsWithDescriptionSpecimen(
1001 SpecimenOrObservationBase
<?
> specimen
, Integer limit
, Integer start
, List
<OrderHint
> orderHints
,
1002 List
<String
> propertyPaths
) {
1003 return defaultService
.listDescriptionsWithDescriptionSpecimen(specimen
, limit
, start
, orderHints
, propertyPaths
);
1007 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
){
1008 return defaultService
.findByIdentifier(clazz
, identifier
, identifierType
, matchmode
, includeEntity
, pageSize
, pageNumber
, propertyPaths
);
1012 * @see eu.etaxonomy.cdm.api.service.IOccurrenceService#getCharacterDataForSpecimen(eu.etaxonomy.cdm.model.occurrence.SpecimenOrObservationBase)
1015 public Collection
<DescriptionElementBase
> getCharacterDataForSpecimen(SpecimenOrObservationBase
<?
> arg0
) {
1016 return defaultService
.getCharacterDataForSpecimen(arg0
);
1020 * @see eu.etaxonomy.cdm.api.service.IOccurrenceService#getCharacterDataForSpecimen(java.util.UUID)
1023 public Collection
<DescriptionElementBase
> getCharacterDataForSpecimen(UUID arg0
) {
1024 return getCharacterDataForSpecimen(arg0
);
1028 * @see eu.etaxonomy.cdm.api.service.IOccurrenceService#getMostSignificantIdentifier(eu.etaxonomy.cdm.model.occurrence.DerivedUnit)
1031 public String
getMostSignificantIdentifier(DerivedUnit derivedUnit
) {
1032 return defaultService
.getMostSignificantIdentifier(derivedUnit
);
1036 * @see eu.etaxonomy.cdm.api.service.IOccurrenceService#countOccurrences(eu.etaxonomy.cdm.api.service.config.IIdentifiableEntityServiceConfigurator)
1039 public int countOccurrences(IIdentifiableEntityServiceConfigurator
<SpecimenOrObservationBase
> config
) {
1040 return defaultService
.countOccurrences(config
);
1047 public List
<DerivedUnit
> getAllChildDerivatives(SpecimenOrObservationBase
<?
> specimen
) {
1048 return defaultService
.getAllChildDerivatives(specimen
);
1055 public List
<SpecimenOrObservationBase
<?
>> getAllHierarchyDerivatives(SpecimenOrObservationBase
<?
> specimen
) {
1056 return defaultService
.getAllHierarchyDerivatives(specimen
);