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
.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
.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
.name
.TaxonNameBase
;
62 import eu
.etaxonomy
.cdm
.model
.occurrence
.DerivationEvent
;
63 import eu
.etaxonomy
.cdm
.model
.occurrence
.DerivedUnit
;
64 import eu
.etaxonomy
.cdm
.model
.occurrence
.DeterminationEvent
;
65 import eu
.etaxonomy
.cdm
.model
.occurrence
.FieldUnit
;
66 import eu
.etaxonomy
.cdm
.model
.occurrence
.SpecimenOrObservationBase
;
67 import eu
.etaxonomy
.cdm
.model
.taxon
.Taxon
;
68 import eu
.etaxonomy
.cdm
.model
.taxon
.TaxonBase
;
69 import eu
.etaxonomy
.cdm
.model
.view
.AuditEvent
;
70 import eu
.etaxonomy
.cdm
.model
.view
.AuditEventRecord
;
71 import eu
.etaxonomy
.cdm
.persistence
.dao
.common
.AuditEventSort
;
72 import eu
.etaxonomy
.cdm
.persistence
.dto
.MergeResult
;
73 import eu
.etaxonomy
.cdm
.persistence
.dto
.UuidAndTitleCache
;
74 import eu
.etaxonomy
.cdm
.persistence
.query
.Grouping
;
75 import eu
.etaxonomy
.cdm
.persistence
.query
.MatchMode
;
76 import eu
.etaxonomy
.cdm
.persistence
.query
.OrderHint
;
77 import eu
.etaxonomy
.cdm
.strategy
.cache
.common
.IIdentifiableEntityCacheStrategy
;
78 import eu
.etaxonomy
.cdm
.strategy
.match
.IMatchStrategy
;
79 import eu
.etaxonomy
.cdm
.strategy
.merge
.IMergeStrategy
;
86 public class TransientOccurenceService
implements IOccurrenceService
{
88 private final IOccurrenceService defaultService
;
89 private final Collection
<SpecimenOrObservationBase
<?
>> units
;
92 * @param defaultService
94 public TransientOccurenceService(IOccurrenceService defaultService
) {
95 this.defaultService
= defaultService
;
96 this.units
= new HashSet
<SpecimenOrObservationBase
<?
>>();
104 * @param propertyPaths
106 * @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)
109 public Pager
<AuditEventRecord
<SpecimenOrObservationBase
>> pageAuditEvents(SpecimenOrObservationBase t
, Integer pageSize
, Integer pageNumber
, AuditEventSort sort
, List
<String
> propertyPaths
) {
110 return defaultService
.pageAuditEvents(t
, pageSize
, pageNumber
, sort
, propertyPaths
);
114 * @param annotatedObj
119 * @param propertyPaths
121 * @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)
124 public Pager
<Annotation
> getAnnotations(SpecimenOrObservationBase annotatedObj
, MarkerType status
, Integer pageSize
, Integer pageNumber
, List
<OrderHint
> orderHints
, List
<String
> propertyPaths
) {
125 return defaultService
.getAnnotations(annotatedObj
, status
, pageSize
, pageNumber
, orderHints
, propertyPaths
);
130 * @see eu.etaxonomy.cdm.api.service.IService#clear()
133 public void clear() {
134 defaultService
.clear();
140 * @see eu.etaxonomy.cdm.api.service.IService#lock(eu.etaxonomy.cdm.model.common.ICdmBase, org.hibernate.LockMode)
143 public void lock(SpecimenOrObservationBase t
, LockOptions lockOptions
) {
144 defaultService
.lock(t
, lockOptions
);
150 * @param propertyPaths
151 * @see eu.etaxonomy.cdm.api.service.IService#refresh(eu.etaxonomy.cdm.model.common.ICdmBase, org.hibernate.LockMode, java.util.List)
154 public void refresh(SpecimenOrObservationBase t
, LockOptions lockOptions
, List
<String
> propertyPaths
) {
155 defaultService
.refresh(t
, lockOptions
, propertyPaths
);
160 * @see eu.etaxonomy.cdm.api.service.IIdentifiableEntityService#updateTitleCache()
163 public void updateTitleCache() {
164 defaultService
.updateTitleCache();
170 * @see eu.etaxonomy.cdm.api.service.IVersionableService#getNextAuditEvent(eu.etaxonomy.cdm.model.common.VersionableEntity)
173 public AuditEventRecord
<SpecimenOrObservationBase
> getNextAuditEvent(SpecimenOrObservationBase t
) {
174 return defaultService
.getNextAuditEvent(t
);
178 * @param annotatableEntity
183 * @param propertyPaths
185 * @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)
188 public Pager
<Marker
> getMarkers(SpecimenOrObservationBase annotatableEntity
, Boolean technical
, Integer pageSize
, Integer pageNumber
, List
<OrderHint
> orderHints
, List
<String
> propertyPaths
) {
189 return defaultService
.getMarkers(annotatableEntity
, technical
, pageSize
, pageNumber
, orderHints
, propertyPaths
);
195 * @param cacheStrategy
197 * @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)
200 public void updateTitleCache(Class
<?
extends SpecimenOrObservationBase
> clazz
, Integer stepSize
, IIdentifiableEntityCacheStrategy
<SpecimenOrObservationBase
> cacheStrategy
, IProgressMonitor monitor
) {
201 defaultService
.updateTitleCache(clazz
, stepSize
, cacheStrategy
, monitor
);
207 * @see eu.etaxonomy.cdm.api.service.IVersionableService#getPreviousAuditEvent(eu.etaxonomy.cdm.model.common.VersionableEntity)
210 public AuditEventRecord
<SpecimenOrObservationBase
> getPreviousAuditEvent(SpecimenOrObservationBase t
) {
211 return defaultService
.getPreviousAuditEvent(t
);
217 * @see eu.etaxonomy.cdm.api.service.IOccurrenceService#getCountryByIso(java.lang.String)
220 public Country
getCountryByIso(String iso639
) {
221 return defaultService
.getCountryByIso(iso639
);
227 * @see eu.etaxonomy.cdm.api.service.IService#count(java.lang.Class)
230 public int count(Class
<?
extends SpecimenOrObservationBase
> clazz
) {
231 return defaultService
.count(clazz
);
237 * @see eu.etaxonomy.cdm.api.service.IOccurrenceService#getCountryByName(java.lang.String)
240 public List
<Country
> getCountryByName(String name
) {
241 return defaultService
.getCountryByName(name
);
246 * @param determinedAs
250 * @param propertyPaths
252 * @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)
255 public Pager
<SpecimenOrObservationBase
> list(Class
<?
extends SpecimenOrObservationBase
> type
, TaxonBase determinedAs
, Integer limit
, Integer start
, List
<OrderHint
> orderHints
, List
<String
> propertyPaths
) {
256 return defaultService
.list(type
, determinedAs
, limit
, start
, orderHints
, propertyPaths
);
267 * @param propertyPaths
269 * @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)
272 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
) {
273 return defaultService
.pageAuditEvents(clazz
, from
, to
, criteria
, pageSize
, pageValue
, sort
, propertyPaths
);
279 * @see eu.etaxonomy.cdm.api.service.IIdentifiableEntityService#find(eu.etaxonomy.cdm.model.common.LSID)
282 public SpecimenOrObservationBase
find(LSID lsid
) {
283 return defaultService
.find(lsid
);
287 * @param persistentObject
289 * @see eu.etaxonomy.cdm.api.service.IService#delete(eu.etaxonomy.cdm.model.common.ICdmBase)
292 public DeleteResult
delete(SpecimenOrObservationBase persistentObject
) {
293 return defaultService
.delete(persistentObject
);
301 * @param propertyPaths
303 * @see eu.etaxonomy.cdm.api.service.IAnnotatableService#groupMarkers(java.lang.Class, java.lang.Boolean, java.lang.Integer, java.lang.Integer, java.util.List)
306 public List
<Object
[]> groupMarkers(Class
<?
extends SpecimenOrObservationBase
> clazz
, Boolean technical
, Integer pageSize
, Integer pageNumber
, List
<String
> propertyPaths
) {
307 return defaultService
.groupMarkers(clazz
, technical
, pageSize
, pageNumber
, propertyPaths
);
313 * @see eu.etaxonomy.cdm.api.service.IService#exists(java.util.UUID)
316 public boolean exists(UUID uuid
) {
317 return defaultService
.exists(uuid
);
324 * @see eu.etaxonomy.cdm.api.service.IIdentifiableEntityService#replace(eu.etaxonomy.cdm.model.common.IdentifiableEntity, eu.etaxonomy.cdm.model.common.IdentifiableEntity)
327 public SpecimenOrObservationBase
replace(SpecimenOrObservationBase x
, SpecimenOrObservationBase y
) {
328 return defaultService
.replace(x
, y
);
334 * @see eu.etaxonomy.cdm.api.service.IService#find(java.util.Set)
337 public List
<SpecimenOrObservationBase
> find(Set
<UUID
> uuidSet
) {
338 return defaultService
.find(uuidSet
);
345 * @param propertyPaths
347 * @see eu.etaxonomy.cdm.api.service.IIdentifiableEntityService#getSources(eu.etaxonomy.cdm.model.common.IdentifiableEntity, java.lang.Integer, java.lang.Integer, java.util.List)
350 public Pager
<IdentifiableSource
> getSources(SpecimenOrObservationBase t
, Integer pageSize
, Integer pageNumber
, List
<String
> propertyPaths
) {
351 return defaultService
.getSources(t
, pageSize
, pageNumber
, propertyPaths
);
357 * @see eu.etaxonomy.cdm.api.service.IService#find(java.util.UUID)
360 public SpecimenOrObservationBase
find(UUID uuid
) {
361 return defaultService
.find(uuid
);
367 * @see eu.etaxonomy.cdm.api.service.IService#find(int)
370 public SpecimenOrObservationBase
find(int id
) {
371 return defaultService
.find(id
);
378 * @param propertyPaths
380 * @see eu.etaxonomy.cdm.api.service.IIdentifiableEntityService#getRights(eu.etaxonomy.cdm.model.common.IdentifiableEntity, java.lang.Integer, java.lang.Integer, java.util.List)
383 public Pager
<Rights
> getRights(SpecimenOrObservationBase t
, Integer pageSize
, Integer pageNumber
, List
<String
> propertyPaths
) {
384 return defaultService
.getRights(t
, pageSize
, pageNumber
, propertyPaths
);
391 * @see eu.etaxonomy.cdm.api.service.IAnnotatableService#countMarkers(java.lang.Class, java.lang.Boolean)
394 public int countMarkers(Class
<?
extends SpecimenOrObservationBase
> clazz
, Boolean technical
) {
395 return defaultService
.countMarkers(clazz
, technical
);
402 * @param propertyPaths
404 * @see eu.etaxonomy.cdm.api.service.IOccurrenceService#getMedia(eu.etaxonomy.cdm.model.occurrence.SpecimenOrObservationBase, java.lang.Integer, java.lang.Integer, java.util.List)
407 public Pager
<Media
> getMedia(SpecimenOrObservationBase occurence
, Integer pageSize
, Integer pageNumber
, List
<String
> propertyPaths
) {
408 return defaultService
.getMedia(occurence
, pageSize
, pageNumber
, propertyPaths
);
414 * @see eu.etaxonomy.cdm.api.service.IService#findById(java.util.Set)
417 public List
<SpecimenOrObservationBase
> findById(Set
<Integer
> idSet
) {
418 return defaultService
.findById(idSet
);
426 * @see eu.etaxonomy.cdm.api.service.IIdentifiableEntityService#getSourcedObjectByIdInSource(java.lang.Class, java.lang.String, java.lang.String)
429 public ISourceable
getSourcedObjectByIdInSource(Class clazz
, String idInSource
, String idNamespace
) {
430 return defaultService
.getSourcedObjectByIdInSource(clazz
, idInSource
, idNamespace
);
435 * @see eu.etaxonomy.cdm.api.service.IService#getSession()
438 public Session
getSession() {
439 return defaultService
.getSession();
444 * @see eu.etaxonomy.cdm.api.service.IIdentifiableEntityService#getUuidAndTitleCache()
447 public List
<UuidAndTitleCache
<SpecimenOrObservationBase
>> getUuidAndTitleCache() {
448 return defaultService
.getUuidAndTitleCache();
456 * @param propertyPaths
458 * @see eu.etaxonomy.cdm.api.service.IService#group(java.lang.Class, java.lang.Integer, java.lang.Integer, java.util.List, java.util.List)
461 public List
<Object
[]> group(Class
<?
extends SpecimenOrObservationBase
> clazz
, Integer limit
, Integer start
, List
<Grouping
> groups
, List
<String
> propertyPaths
) {
462 return defaultService
.group(clazz
, limit
, start
, groups
, propertyPaths
);
470 * @param propertyPaths
472 * @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)
475 public Pager
<DeterminationEvent
> getDeterminations(SpecimenOrObservationBase occurence
, TaxonBase taxonBase
, Integer pageSize
, Integer pageNumber
, List
<String
> propertyPaths
) {
476 return defaultService
.getDeterminations(occurence
, taxonBase
, pageSize
, pageNumber
, propertyPaths
);
487 * @param propertyPaths
489 * @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)
492 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
) {
493 return defaultService
.findByTitle(clazz
, queryString
, matchmode
, criteria
, pageSize
, pageNumber
, orderHints
, propertyPaths
);
500 * @param propertyPaths
502 * @see eu.etaxonomy.cdm.api.service.IOccurrenceService#getDerivationEvents(eu.etaxonomy.cdm.model.occurrence.SpecimenOrObservationBase, java.lang.Integer, java.lang.Integer, java.util.List)
505 public Pager
<DerivationEvent
> getDerivationEvents(SpecimenOrObservationBase occurence
, Integer pageSize
, Integer pageNumber
, List
<String
> propertyPaths
) {
506 return defaultService
.getDerivationEvents(occurence
, pageSize
, pageNumber
, propertyPaths
);
514 * @param propertyPaths
516 * @see eu.etaxonomy.cdm.api.service.IService#list(java.lang.Class, java.lang.Integer, java.lang.Integer, java.util.List, java.util.List)
519 public <S
extends SpecimenOrObservationBase
> List
<S
> list(Class
<S
> type
, Integer limit
, Integer start
, List
<OrderHint
> orderHints
, List
<String
> propertyPaths
) {
520 return defaultService
.list(type
, limit
, start
, orderHints
, propertyPaths
);
529 * @param propertyPaths
531 * @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)
534 public Pager
<SpecimenOrObservationBase
> search(Class
<?
extends SpecimenOrObservationBase
> clazz
, String query
, Integer pageSize
, Integer pageNumber
, List
<OrderHint
> orderHints
, List
<String
> propertyPaths
) {
535 return defaultService
.search(clazz
, query
, pageSize
, pageNumber
, orderHints
, propertyPaths
);
539 * @param configurator
541 * @see eu.etaxonomy.cdm.api.service.IIdentifiableEntityService#findByTitle(eu.etaxonomy.cdm.api.service.config.IIdentifiableEntityServiceConfigurator)
544 public Pager
<SpecimenOrObservationBase
> findByTitle(IIdentifiableEntityServiceConfigurator
<SpecimenOrObservationBase
> configurator
) {
545 return defaultService
.findByTitle(configurator
);
554 * @see eu.etaxonomy.cdm.api.service.IIdentifiableEntityService#countByTitle(java.lang.Class, java.lang.String, eu.etaxonomy.cdm.persistence.query.MatchMode, java.util.List)
557 public Integer
countByTitle(Class
<?
extends SpecimenOrObservationBase
> clazz
, String queryString
, MatchMode matchmode
, List
<Criterion
> criteria
) {
558 return defaultService
.countByTitle(clazz
, queryString
, matchmode
, criteria
);
564 * @see eu.etaxonomy.cdm.api.service.IService#load(java.util.UUID)
567 public SpecimenOrObservationBase
load(UUID uuid
) {
568 return defaultService
.load(uuid
);
573 * @param propertyPaths
575 * @see eu.etaxonomy.cdm.api.service.IService#load(java.util.UUID, java.util.List)
578 public SpecimenOrObservationBase
load(UUID uuid
, List
<String
> propertyPaths
) {
579 return defaultService
.load(uuid
, propertyPaths
);
583 * @param configurator
585 * @see eu.etaxonomy.cdm.api.service.IIdentifiableEntityService#countByTitle(eu.etaxonomy.cdm.api.service.config.IIdentifiableEntityServiceConfigurator)
588 public Integer
countByTitle(IIdentifiableEntityServiceConfigurator
<SpecimenOrObservationBase
> configurator
) {
589 return defaultService
.countByTitle(configurator
);
594 * @see eu.etaxonomy.cdm.api.service.IOccurrenceService#getFieldUnitUuidAndTitleCache()
597 public List
<UuidAndTitleCache
<FieldUnit
>> getFieldUnitUuidAndTitleCache() {
598 return defaultService
.getFieldUnitUuidAndTitleCache();
603 * @see eu.etaxonomy.cdm.api.service.IOccurrenceService#getDerivedUnitUuidAndTitleCache()
606 public List
<UuidAndTitleCache
<DerivedUnit
>> getDerivedUnitUuidAndTitleCache() {
607 return defaultService
.getDerivedUnitUuidAndTitleCache();
611 * @param transientObject
613 * @see eu.etaxonomy.cdm.api.service.IService#merge(eu.etaxonomy.cdm.model.common.ICdmBase)
616 public SpecimenOrObservationBase
merge(SpecimenOrObservationBase transientObject
) {
617 return defaultService
.merge(transientObject
);
622 * @param propertyPaths
624 * @throws DerivedUnitFacadeNotSupportedException
625 * @see eu.etaxonomy.cdm.api.service.IOccurrenceService#getDerivedUnitFacade(eu.etaxonomy.cdm.model.occurrence.DerivedUnit, java.util.List)
628 public DerivedUnitFacade
getDerivedUnitFacade(DerivedUnit derivedUnit
, List
<String
> propertyPaths
) throws DerivedUnitFacadeNotSupportedException
{
629 return defaultService
.getDerivedUnitFacade(derivedUnit
, propertyPaths
);
640 * @param propertyPaths
642 * @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)
645 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
) {
646 return defaultService
.listByTitle(clazz
, queryString
, matchmode
, criteria
, pageSize
, pageNumber
, orderHints
, propertyPaths
);
651 * @param propertyPaths
653 * @see eu.etaxonomy.cdm.api.service.IOccurrenceService#listDerivedUnitFacades(eu.etaxonomy.cdm.model.description.DescriptionBase, java.util.List)
656 public List
<DerivedUnitFacade
> listDerivedUnitFacades(DescriptionBase description
, List
<String
> propertyPaths
) {
657 return defaultService
.listDerivedUnitFacades(description
, propertyPaths
);
665 * @param propertyPaths
667 * @see eu.etaxonomy.cdm.api.service.IService#page(java.lang.Class, java.lang.Integer, java.lang.Integer, java.util.List, java.util.List)
670 public <S
extends SpecimenOrObservationBase
> Pager
<S
> page(Class
<S
> type
, Integer pageSize
, Integer pageNumber
, List
<OrderHint
> orderHints
, List
<String
> propertyPaths
) {
671 return defaultService
.page(type
, pageSize
, pageNumber
, orderHints
, propertyPaths
);
676 * @param includeRelationships
677 * @param associatedTaxon
682 * @param propertyPaths
684 * @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)
687 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
) {
688 return defaultService
.listByAssociatedTaxon(type
, includeRelationships
, associatedTaxon
, maxDepth
, pageSize
, pageNumber
, orderHints
, propertyPaths
);
692 * @param persistentObject
694 * @see eu.etaxonomy.cdm.api.service.IService#refresh(eu.etaxonomy.cdm.model.common.ICdmBase)
697 public UUID
refresh(SpecimenOrObservationBase persistentObject
) {
698 return defaultService
.refresh(persistentObject
);
709 * @param propertyPaths
711 * @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)
714 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
) {
715 return defaultService
.listByReferenceTitle(clazz
, queryString
, matchmode
, criteria
, pageSize
, pageNumber
, orderHints
, propertyPaths
);
723 * @see eu.etaxonomy.cdm.api.service.IService#rows(java.lang.String, int, int)
726 public List
<SpecimenOrObservationBase
> rows(String tableName
, int limit
, int start
) {
727 return defaultService
.rows(tableName
, limit
, start
);
731 * @param newInstances
733 * @see eu.etaxonomy.cdm.api.service.IService#save(java.util.Collection)
736 public Map
<UUID
, SpecimenOrObservationBase
> save(Collection
<SpecimenOrObservationBase
> newInstances
) {
737 for(SpecimenOrObservationBase unit
:newInstances
){
745 * @param includeRelationships
746 * @param associatedTaxon
751 * @param propertyPaths
753 * @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)
756 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
) {
757 return defaultService
.pageByAssociatedTaxon(type
, includeRelationships
, associatedTaxon
, maxDepth
, pageSize
, pageNumber
, orderHints
, propertyPaths
);
763 * @see eu.etaxonomy.cdm.api.service.IService#save(eu.etaxonomy.cdm.model.common.ICdmBase)
766 public SpecimenOrObservationBase
save(SpecimenOrObservationBase newInstance
) {
767 units
.add(newInstance
);
772 * @param transientObject
774 * @see eu.etaxonomy.cdm.api.service.IService#saveOrUpdate(eu.etaxonomy.cdm.model.common.ICdmBase)
777 public UUID
saveOrUpdate(SpecimenOrObservationBase transientObject
) {
778 units
.add(transientObject
);
783 * @param transientObjects
785 * @see eu.etaxonomy.cdm.api.service.IService#saveOrUpdate(java.util.Collection)
788 public Map
<UUID
, SpecimenOrObservationBase
> saveOrUpdate(Collection
<SpecimenOrObservationBase
> transientObjects
) {
789 for(SpecimenOrObservationBase unit
:transientObjects
){
800 * @param highlightFragments
804 * @param propertyPaths
806 * @throws CorruptIndexException
807 * @throws IOException
808 * @throws ParseException
809 * @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)
812 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
{
813 return defaultService
.findByFullText(clazz
, queryString
, boundingBox
, languages
, highlightFragments
, pageSize
, pageNumber
, orderHints
, propertyPaths
);
817 * @param transientObject
819 * @see eu.etaxonomy.cdm.api.service.IService#update(eu.etaxonomy.cdm.model.common.ICdmBase)
822 public UUID
update(SpecimenOrObservationBase transientObject
) {
823 return defaultService
.update(transientObject
);
828 * @param includeProperties
832 * @param propertyPaths
834 * @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)
837 public List
<SpecimenOrObservationBase
> list(SpecimenOrObservationBase example
, Set
<String
> includeProperties
, Integer limit
, Integer start
, List
<OrderHint
> orderHints
, List
<String
> propertyPaths
) {
838 return defaultService
.list(example
, includeProperties
, limit
, start
, orderHints
, propertyPaths
);
842 public int deduplicate(Class
<?
extends SpecimenOrObservationBase
> clazz
, IMatchStrategy matchStrategy
, IMergeStrategy mergeStrategy
) {
843 return defaultService
.deduplicate(clazz
, matchStrategy
, mergeStrategy
);
847 public Pager
<SpecimenOrObservationBase
> findTitleCache(Class
<?
extends SpecimenOrObservationBase
> clazz
, String queryString
, Integer pageSize
, Integer pageNumber
, List
<OrderHint
> orderHints
, MatchMode matchMode
) {
848 return defaultService
.findTitleCache(clazz
, queryString
, pageSize
, pageNumber
, orderHints
, matchMode
);
851 public Collection
<SpecimenOrObservationBase
<?
>> getUnits() {
856 public Collection
<FieldUnit
> getFieldUnits(UUID derivedUnitUuid
) {
857 return defaultService
.getFieldUnits(derivedUnitUuid
);
861 public <T
extends SpecimenOrObservationBase
> Pager
<T
> pageByAssociatedTaxon(Class
<T
> type
,
862 Set
<TaxonRelationshipEdge
> includeRelationships
, String taxonUUID
, Integer maxDepth
, Integer pageSize
,
863 Integer pageNumber
, List
<OrderHint
> orderHints
, List
<String
> propertyPaths
) {
864 return defaultService
.pageByAssociatedTaxon(type
, includeRelationships
, taxonUUID
,
865 maxDepth
, pageSize
, pageNumber
, orderHints
, propertyPaths
);
870 public UpdateResult
moveSequence(DnaSample from
, DnaSample to
, Sequence sequence
) {
871 return defaultService
.moveSequence(from
, to
, sequence
);
875 public DeleteResult
isDeletable(SpecimenOrObservationBase object
,
876 DeleteConfiguratorBase config
) {
877 return defaultService
.isDeletable(object
, config
);
881 public int countDeterminations(SpecimenOrObservationBase occurence
, TaxonBase taxonbase
) {
882 return defaultService
.countDeterminations(occurence
, taxonbase
);
886 public SpecimenOrObservationBase
findWithoutFlush(UUID uuid
) {
887 return defaultService
.findWithoutFlush(uuid
);
891 public Collection
<SpecimenOrObservationBase
> listFieldUnitsByAssociatedTaxon(Taxon associatedTaxon
,
892 List
<OrderHint
> orderHints
, List
<String
> propertyPaths
) {
893 return defaultService
.listFieldUnitsByAssociatedTaxon(associatedTaxon
, orderHints
, propertyPaths
);
897 public Pager
<SpecimenOrObservationBase
> pageFieldUnitsByAssociatedTaxon(
898 Set
<TaxonRelationshipEdge
> includeRelationships
, Taxon associatedTaxon
, Integer maxDepth
, Integer pageSize
,
899 Integer pageNumber
, List
<OrderHint
> orderHints
, List
<String
> propertyPaths
) {
900 return defaultService
.pageFieldUnitsByAssociatedTaxon(includeRelationships
, associatedTaxon
, maxDepth
, pageSize
, pageNumber
, orderHints
, propertyPaths
);
905 public FieldUnitDTO
assembleFieldUnitDTO(FieldUnit fieldUnit
, UUID associatedTaxonUuid
) {
906 return defaultService
.assembleFieldUnitDTO(fieldUnit
, associatedTaxonUuid
);
910 public PreservedSpecimenDTO
assemblePreservedSpecimenDTO(DerivedUnit derivedUnit
) {
911 return defaultService
.assemblePreservedSpecimenDTO(derivedUnit
);
915 public Collection
<ICdmBase
> getNonCascadedAssociatedElements(SpecimenOrObservationBase
<?
> specimen
) {
916 return defaultService
.getNonCascadedAssociatedElements(specimen
);
920 public DeleteResult
delete(SpecimenOrObservationBase
<?
> specimen
, SpecimenDeleteConfigurator config
) {
921 return defaultService
.delete(specimen
, config
);
925 public Collection
<IndividualsAssociation
> listIndividualsAssociations(SpecimenOrObservationBase
<?
> specimen
,
926 Integer limit
, Integer start
, List
<OrderHint
> orderHints
, List
<String
> propertyPaths
) {
927 return defaultService
.listIndividualsAssociations(specimen
, limit
, start
, orderHints
, propertyPaths
);
931 public Collection
<DescriptionBase
<?
>> listDescriptionsWithDescriptionSpecimen(
932 SpecimenOrObservationBase
<?
> specimen
, Integer limit
, Integer start
, List
<OrderHint
> orderHints
,
933 List
<String
> propertyPaths
) {
934 return defaultService
.listDescriptionsWithDescriptionSpecimen(specimen
, limit
, start
, orderHints
, propertyPaths
);
938 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
){
939 return defaultService
.findByIdentifier(clazz
, identifier
, identifierType
, matchmode
, includeEntity
, pageSize
, pageNumber
, propertyPaths
);
943 public Collection
<DescriptionElementBase
> getCharacterDataForSpecimen(SpecimenOrObservationBase
<?
> arg0
) {
944 return defaultService
.getCharacterDataForSpecimen(arg0
);
948 public Collection
<DescriptionElementBase
> getCharacterDataForSpecimen(UUID arg0
) {
949 return getCharacterDataForSpecimen(arg0
);
953 public String
getMostSignificantIdentifier(DerivedUnit derivedUnit
) {
954 return defaultService
.getMostSignificantIdentifier(derivedUnit
);
958 public int countOccurrences(IIdentifiableEntityServiceConfigurator
<SpecimenOrObservationBase
> config
) {
959 return defaultService
.countOccurrences(config
);
966 public List
<DerivedUnit
> getAllChildDerivatives(SpecimenOrObservationBase
<?
> specimen
) {
967 return defaultService
.getAllChildDerivatives(specimen
);
974 public List
<SpecimenOrObservationBase
<?
>> getAllHierarchyDerivatives(SpecimenOrObservationBase
<?
> specimen
) {
975 return defaultService
.getAllHierarchyDerivatives(specimen
);
980 public DeleteResult
delete(UUID uuid
) {
981 return defaultService
.delete(uuid
);
985 public DeleteResult
delete(Collection
<UUID
> arg0
) {
986 return defaultService
.delete(arg0
);
991 public List
<SpecimenOrObservationBase
> merge(List
<SpecimenOrObservationBase
> arg0
) {
992 return defaultService
.merge(arg0
);
996 public UpdateResult
moveDerivate(UUID arg0
, UUID arg1
, UUID arg2
) {
997 return defaultService
.moveDerivate(arg0
, arg1
, arg2
);
1001 public boolean moveDerivate(SpecimenOrObservationBase
<?
> from
, SpecimenOrObservationBase
<?
> to
, DerivedUnit derivate
) {
1002 return defaultService
.moveDerivate(from
, to
, derivate
);
1006 public UpdateResult
moveSequence(UUID arg0
, UUID arg1
, UUID arg2
) {
1007 return defaultService
.moveSequence(arg0
, arg1
, arg2
);
1011 public Pager
<Media
> getMediainHierarchy(SpecimenOrObservationBase arg0
, Integer arg1
, Integer arg2
,
1012 List
<String
> arg3
) {
1013 return defaultService
.getMediainHierarchy(arg0
, arg1
, arg2
, arg3
);
1017 public List
<MergeResult
<SpecimenOrObservationBase
>> merge(List
<SpecimenOrObservationBase
> arg0
, boolean arg1
) {
1018 return defaultService
.merge(arg0
, arg1
);
1022 public MergeResult
<SpecimenOrObservationBase
> merge(SpecimenOrObservationBase arg0
, boolean arg1
) {
1023 return defaultService
.merge(arg0
, arg1
);
1030 public Collection
<TaxonBase
<?
>> listAssociatedTaxa(SpecimenOrObservationBase
<?
> arg0
, Integer arg1
, Integer arg2
,
1031 List
<OrderHint
> arg3
, List
<String
> arg4
) {
1032 return defaultService
.listAssociatedTaxa(arg0
, arg1
, arg2
, arg3
, arg4
);
1036 public SpecimenOrObservationBase
loadWithUpdate(UUID arg0
) {
1037 return defaultService
.loadWithUpdate(arg0
);
1044 public DeleteResult
delete(UUID arg0
, SpecimenDeleteConfigurator arg1
) {
1045 return defaultService
.delete(arg0
, arg1
);
1052 public Pager
<SpecimenOrObservationBase
> list(Class
<?
extends SpecimenOrObservationBase
> arg0
, TaxonNameBase arg1
,
1053 Integer arg2
, Integer arg3
, List
<OrderHint
> arg4
, List
<String
> arg5
) {
1054 return defaultService
.list(arg0
, arg1
, arg2
, arg3
, arg4
, arg5
);
1061 public Collection
<DeterminationEvent
> listDeterminationEvents(SpecimenOrObservationBase
<?
> arg0
, Integer arg1
,
1062 Integer arg2
, List
<OrderHint
> arg3
, List
<String
> arg4
) {
1063 return defaultService
.listDeterminationEvents(arg0
, arg1
, arg2
, arg3
, arg4
);
1067 public Collection
<TaxonBase
<?
>> listDeterminedTaxa(SpecimenOrObservationBase
<?
> arg0
, Integer arg1
, Integer arg2
,
1068 List
<OrderHint
> arg3
, List
<String
> arg4
) {
1069 return defaultService
.listDeterminedTaxa(arg0
, arg1
, arg2
, arg3
, arg4
);
1073 public Collection
<TaxonBase
<?
>> listIndividualsAssociationTaxa(SpecimenOrObservationBase
<?
> arg0
, Integer arg1
,
1074 Integer arg2
, List
<OrderHint
> arg3
, List
<String
> arg4
) {
1075 return defaultService
.listIndividualsAssociationTaxa(arg0
, arg1
, arg2
, arg3
, arg4
);
1082 public List
<SpecimenOrObservationBase
> load(List
<UUID
> arg0
, List
<String
> arg1
) {
1083 return defaultService
.load(arg0
, arg1
);
1087 public Collection
<TaxonBase
<?
>> listTypeDesignationTaxa(DerivedUnit arg0
, Integer arg1
, Integer arg2
,
1088 List
<OrderHint
> arg3
, List
<String
> arg4
) {
1089 return defaultService
.listTypeDesignationTaxa(arg0
, arg1
, arg2
, arg3
, arg4
);
1093 public Map
<DerivedUnit
, Collection
<SpecimenTypeDesignation
>> listTypeDesignations(Collection
<DerivedUnit
> arg0
,
1094 Integer arg1
, Integer arg2
, List
<OrderHint
> arg3
, List
<String
> arg4
) {
1095 return defaultService
.listTypeDesignations(arg0
, arg1
, arg2
, arg3
, arg4
);
1099 public Collection
<SpecimenTypeDesignation
> listTypeDesignations(DerivedUnit arg0
, Integer arg1
, Integer arg2
,
1100 List
<OrderHint
> arg3
, List
<String
> arg4
) {
1101 return defaultService
.listTypeDesignations(arg0
, arg1
, arg2
, arg3
, arg4
);
1105 public List
<DerivedUnit
> getAllChildDerivatives(UUID arg0
) {
1106 return defaultService
.getAllChildDerivatives(arg0
);