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
.molecular
.SingleRead
;
61 import eu
.etaxonomy
.cdm
.model
.name
.SpecimenTypeDesignation
;
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
.UuidAndTitleCache
;
73 import eu
.etaxonomy
.cdm
.persistence
.query
.Grouping
;
74 import eu
.etaxonomy
.cdm
.persistence
.query
.MatchMode
;
75 import eu
.etaxonomy
.cdm
.persistence
.query
.OrderHint
;
76 import eu
.etaxonomy
.cdm
.strategy
.cache
.common
.IIdentifiableEntityCacheStrategy
;
77 import eu
.etaxonomy
.cdm
.strategy
.match
.IMatchStrategy
;
78 import eu
.etaxonomy
.cdm
.strategy
.merge
.IMergeStrategy
;
85 public class TransientOccurenceService
implements IOccurrenceService
{
87 private final IOccurrenceService defaultService
;
88 private final Collection
<SpecimenOrObservationBase
<?
>> units
;
91 * @param defaultService
93 public TransientOccurenceService(IOccurrenceService defaultService
) {
94 this.defaultService
= defaultService
;
95 this.units
= new HashSet
<SpecimenOrObservationBase
<?
>>();
103 * @param propertyPaths
105 * @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)
108 public Pager
<AuditEventRecord
<SpecimenOrObservationBase
>> pageAuditEvents(SpecimenOrObservationBase t
, Integer pageSize
, Integer pageNumber
, AuditEventSort sort
, List
<String
> propertyPaths
) {
109 return defaultService
.pageAuditEvents(t
, pageSize
, pageNumber
, sort
, propertyPaths
);
113 * @param annotatedObj
118 * @param propertyPaths
120 * @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)
123 public Pager
<Annotation
> getAnnotations(SpecimenOrObservationBase annotatedObj
, MarkerType status
, Integer pageSize
, Integer pageNumber
, List
<OrderHint
> orderHints
, List
<String
> propertyPaths
) {
124 return defaultService
.getAnnotations(annotatedObj
, status
, pageSize
, pageNumber
, orderHints
, propertyPaths
);
129 * @see eu.etaxonomy.cdm.api.service.IService#clear()
132 public void clear() {
133 defaultService
.clear();
139 * @see eu.etaxonomy.cdm.api.service.IService#lock(eu.etaxonomy.cdm.model.common.ICdmBase, org.hibernate.LockMode)
142 public void lock(SpecimenOrObservationBase t
, LockOptions lockOptions
) {
143 defaultService
.lock(t
, lockOptions
);
149 * @param propertyPaths
150 * @see eu.etaxonomy.cdm.api.service.IService#refresh(eu.etaxonomy.cdm.model.common.ICdmBase, org.hibernate.LockMode, java.util.List)
153 public void refresh(SpecimenOrObservationBase t
, LockOptions lockOptions
, List
<String
> propertyPaths
) {
154 defaultService
.refresh(t
, lockOptions
, propertyPaths
);
159 * @see eu.etaxonomy.cdm.api.service.IIdentifiableEntityService#updateTitleCache()
162 public void updateTitleCache() {
163 defaultService
.updateTitleCache();
169 * @see eu.etaxonomy.cdm.api.service.IVersionableService#getNextAuditEvent(eu.etaxonomy.cdm.model.common.VersionableEntity)
172 public AuditEventRecord
<SpecimenOrObservationBase
> getNextAuditEvent(SpecimenOrObservationBase t
) {
173 return defaultService
.getNextAuditEvent(t
);
177 * @param annotatableEntity
182 * @param propertyPaths
184 * @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)
187 public Pager
<Marker
> getMarkers(SpecimenOrObservationBase annotatableEntity
, Boolean technical
, Integer pageSize
, Integer pageNumber
, List
<OrderHint
> orderHints
, List
<String
> propertyPaths
) {
188 return defaultService
.getMarkers(annotatableEntity
, technical
, pageSize
, pageNumber
, orderHints
, propertyPaths
);
194 * @param cacheStrategy
196 * @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)
199 public void updateTitleCache(Class
<?
extends SpecimenOrObservationBase
> clazz
, Integer stepSize
, IIdentifiableEntityCacheStrategy
<SpecimenOrObservationBase
> cacheStrategy
, IProgressMonitor monitor
) {
200 defaultService
.updateTitleCache(clazz
, stepSize
, cacheStrategy
, monitor
);
206 * @see eu.etaxonomy.cdm.api.service.IVersionableService#getPreviousAuditEvent(eu.etaxonomy.cdm.model.common.VersionableEntity)
209 public AuditEventRecord
<SpecimenOrObservationBase
> getPreviousAuditEvent(SpecimenOrObservationBase t
) {
210 return defaultService
.getPreviousAuditEvent(t
);
216 * @see eu.etaxonomy.cdm.api.service.IOccurrenceService#getCountryByIso(java.lang.String)
219 public Country
getCountryByIso(String iso639
) {
220 return defaultService
.getCountryByIso(iso639
);
226 * @see eu.etaxonomy.cdm.api.service.IService#count(java.lang.Class)
229 public int count(Class
<?
extends SpecimenOrObservationBase
> clazz
) {
230 return defaultService
.count(clazz
);
236 * @see eu.etaxonomy.cdm.api.service.IOccurrenceService#getCountryByName(java.lang.String)
239 public List
<Country
> getCountryByName(String name
) {
240 return defaultService
.getCountryByName(name
);
245 * @param determinedAs
249 * @param propertyPaths
251 * @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)
254 public Pager
<SpecimenOrObservationBase
> list(Class
<?
extends SpecimenOrObservationBase
> type
, TaxonBase determinedAs
, Integer limit
, Integer start
, List
<OrderHint
> orderHints
, List
<String
> propertyPaths
) {
255 return defaultService
.list(type
, determinedAs
, limit
, start
, orderHints
, propertyPaths
);
266 * @param propertyPaths
268 * @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)
271 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
) {
272 return defaultService
.pageAuditEvents(clazz
, from
, to
, criteria
, pageSize
, pageValue
, sort
, propertyPaths
);
278 * @see eu.etaxonomy.cdm.api.service.IIdentifiableEntityService#find(eu.etaxonomy.cdm.model.common.LSID)
281 public SpecimenOrObservationBase
find(LSID lsid
) {
282 return defaultService
.find(lsid
);
286 * @param persistentObject
288 * @see eu.etaxonomy.cdm.api.service.IService#delete(eu.etaxonomy.cdm.model.common.ICdmBase)
291 public DeleteResult
delete(SpecimenOrObservationBase persistentObject
) {
292 return defaultService
.delete(persistentObject
);
300 * @param propertyPaths
302 * @see eu.etaxonomy.cdm.api.service.IAnnotatableService#groupMarkers(java.lang.Class, java.lang.Boolean, java.lang.Integer, java.lang.Integer, java.util.List)
305 public List
<Object
[]> groupMarkers(Class
<?
extends SpecimenOrObservationBase
> clazz
, Boolean technical
, Integer pageSize
, Integer pageNumber
, List
<String
> propertyPaths
) {
306 return defaultService
.groupMarkers(clazz
, technical
, pageSize
, pageNumber
, propertyPaths
);
312 * @see eu.etaxonomy.cdm.api.service.IService#exists(java.util.UUID)
315 public boolean exists(UUID uuid
) {
316 return defaultService
.exists(uuid
);
323 * @see eu.etaxonomy.cdm.api.service.IIdentifiableEntityService#replace(eu.etaxonomy.cdm.model.common.IdentifiableEntity, eu.etaxonomy.cdm.model.common.IdentifiableEntity)
326 public SpecimenOrObservationBase
replace(SpecimenOrObservationBase x
, SpecimenOrObservationBase y
) {
327 return defaultService
.replace(x
, y
);
333 * @see eu.etaxonomy.cdm.api.service.IService#find(java.util.Set)
336 public List
<SpecimenOrObservationBase
> find(Set
<UUID
> uuidSet
) {
337 return defaultService
.find(uuidSet
);
344 * @param propertyPaths
346 * @see eu.etaxonomy.cdm.api.service.IIdentifiableEntityService#getSources(eu.etaxonomy.cdm.model.common.IdentifiableEntity, java.lang.Integer, java.lang.Integer, java.util.List)
349 public Pager
<IdentifiableSource
> getSources(SpecimenOrObservationBase t
, Integer pageSize
, Integer pageNumber
, List
<String
> propertyPaths
) {
350 return defaultService
.getSources(t
, pageSize
, pageNumber
, propertyPaths
);
356 * @see eu.etaxonomy.cdm.api.service.IService#find(java.util.UUID)
359 public SpecimenOrObservationBase
find(UUID uuid
) {
360 return defaultService
.find(uuid
);
366 * @see eu.etaxonomy.cdm.api.service.IService#find(int)
369 public SpecimenOrObservationBase
find(int id
) {
370 return defaultService
.find(id
);
377 * @param propertyPaths
379 * @see eu.etaxonomy.cdm.api.service.IIdentifiableEntityService#getRights(eu.etaxonomy.cdm.model.common.IdentifiableEntity, java.lang.Integer, java.lang.Integer, java.util.List)
382 public Pager
<Rights
> getRights(SpecimenOrObservationBase t
, Integer pageSize
, Integer pageNumber
, List
<String
> propertyPaths
) {
383 return defaultService
.getRights(t
, pageSize
, pageNumber
, propertyPaths
);
390 * @see eu.etaxonomy.cdm.api.service.IAnnotatableService#countMarkers(java.lang.Class, java.lang.Boolean)
393 public int countMarkers(Class
<?
extends SpecimenOrObservationBase
> clazz
, Boolean technical
) {
394 return defaultService
.countMarkers(clazz
, technical
);
401 * @param propertyPaths
403 * @see eu.etaxonomy.cdm.api.service.IOccurrenceService#getMedia(eu.etaxonomy.cdm.model.occurrence.SpecimenOrObservationBase, java.lang.Integer, java.lang.Integer, java.util.List)
406 public Pager
<Media
> getMedia(SpecimenOrObservationBase occurence
, Integer pageSize
, Integer pageNumber
, List
<String
> propertyPaths
) {
407 return defaultService
.getMedia(occurence
, pageSize
, pageNumber
, propertyPaths
);
413 * @see eu.etaxonomy.cdm.api.service.IService#findById(java.util.Set)
416 public List
<SpecimenOrObservationBase
> findById(Set
<Integer
> idSet
) {
417 return defaultService
.findById(idSet
);
425 * @see eu.etaxonomy.cdm.api.service.IIdentifiableEntityService#getSourcedObjectByIdInSource(java.lang.Class, java.lang.String, java.lang.String)
428 public ISourceable
getSourcedObjectByIdInSource(Class clazz
, String idInSource
, String idNamespace
) {
429 return defaultService
.getSourcedObjectByIdInSource(clazz
, idInSource
, idNamespace
);
434 * @see eu.etaxonomy.cdm.api.service.IService#getSession()
437 public Session
getSession() {
438 return defaultService
.getSession();
443 * @see eu.etaxonomy.cdm.api.service.IIdentifiableEntityService#getUuidAndTitleCache()
446 public List
<UuidAndTitleCache
<SpecimenOrObservationBase
>> getUuidAndTitleCache() {
447 return defaultService
.getUuidAndTitleCache();
455 * @param propertyPaths
457 * @see eu.etaxonomy.cdm.api.service.IService#group(java.lang.Class, java.lang.Integer, java.lang.Integer, java.util.List, java.util.List)
460 public List
<Object
[]> group(Class
<?
extends SpecimenOrObservationBase
> clazz
, Integer limit
, Integer start
, List
<Grouping
> groups
, List
<String
> propertyPaths
) {
461 return defaultService
.group(clazz
, limit
, start
, groups
, propertyPaths
);
469 * @param propertyPaths
471 * @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)
474 public Pager
<DeterminationEvent
> getDeterminations(SpecimenOrObservationBase occurence
, TaxonBase taxonBase
, Integer pageSize
, Integer pageNumber
, List
<String
> propertyPaths
) {
475 return defaultService
.getDeterminations(occurence
, taxonBase
, pageSize
, pageNumber
, propertyPaths
);
486 * @param propertyPaths
488 * @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)
491 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
) {
492 return defaultService
.findByTitle(clazz
, queryString
, matchmode
, criteria
, pageSize
, pageNumber
, orderHints
, propertyPaths
);
499 * @param propertyPaths
501 * @see eu.etaxonomy.cdm.api.service.IOccurrenceService#getDerivationEvents(eu.etaxonomy.cdm.model.occurrence.SpecimenOrObservationBase, java.lang.Integer, java.lang.Integer, java.util.List)
504 public Pager
<DerivationEvent
> getDerivationEvents(SpecimenOrObservationBase occurence
, Integer pageSize
, Integer pageNumber
, List
<String
> propertyPaths
) {
505 return defaultService
.getDerivationEvents(occurence
, pageSize
, pageNumber
, propertyPaths
);
513 * @param propertyPaths
515 * @see eu.etaxonomy.cdm.api.service.IService#list(java.lang.Class, java.lang.Integer, java.lang.Integer, java.util.List, java.util.List)
518 public <S
extends SpecimenOrObservationBase
> List
<S
> list(Class
<S
> type
, Integer limit
, Integer start
, List
<OrderHint
> orderHints
, List
<String
> propertyPaths
) {
519 return defaultService
.list(type
, limit
, start
, orderHints
, propertyPaths
);
528 * @param propertyPaths
530 * @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)
533 public Pager
<SpecimenOrObservationBase
> search(Class
<?
extends SpecimenOrObservationBase
> clazz
, String query
, Integer pageSize
, Integer pageNumber
, List
<OrderHint
> orderHints
, List
<String
> propertyPaths
) {
534 return defaultService
.search(clazz
, query
, pageSize
, pageNumber
, orderHints
, propertyPaths
);
538 * @param configurator
540 * @see eu.etaxonomy.cdm.api.service.IIdentifiableEntityService#findByTitle(eu.etaxonomy.cdm.api.service.config.IIdentifiableEntityServiceConfigurator)
543 public Pager
<SpecimenOrObservationBase
> findByTitle(IIdentifiableEntityServiceConfigurator
<SpecimenOrObservationBase
> configurator
) {
544 return defaultService
.findByTitle(configurator
);
553 * @see eu.etaxonomy.cdm.api.service.IIdentifiableEntityService#countByTitle(java.lang.Class, java.lang.String, eu.etaxonomy.cdm.persistence.query.MatchMode, java.util.List)
556 public Integer
countByTitle(Class
<?
extends SpecimenOrObservationBase
> clazz
, String queryString
, MatchMode matchmode
, List
<Criterion
> criteria
) {
557 return defaultService
.countByTitle(clazz
, queryString
, matchmode
, criteria
);
563 * @see eu.etaxonomy.cdm.api.service.IService#load(java.util.UUID)
566 public SpecimenOrObservationBase
load(UUID uuid
) {
567 return defaultService
.load(uuid
);
572 * @param propertyPaths
574 * @see eu.etaxonomy.cdm.api.service.IService#load(java.util.UUID, java.util.List)
577 public SpecimenOrObservationBase
load(UUID uuid
, List
<String
> propertyPaths
) {
578 return defaultService
.load(uuid
, propertyPaths
);
582 * @param configurator
584 * @see eu.etaxonomy.cdm.api.service.IIdentifiableEntityService#countByTitle(eu.etaxonomy.cdm.api.service.config.IIdentifiableEntityServiceConfigurator)
587 public Integer
countByTitle(IIdentifiableEntityServiceConfigurator
<SpecimenOrObservationBase
> configurator
) {
588 return defaultService
.countByTitle(configurator
);
593 * @see eu.etaxonomy.cdm.api.service.IOccurrenceService#getFieldUnitUuidAndTitleCache()
596 public List
<UuidAndTitleCache
<FieldUnit
>> getFieldUnitUuidAndTitleCache() {
597 return defaultService
.getFieldUnitUuidAndTitleCache();
602 * @see eu.etaxonomy.cdm.api.service.IOccurrenceService#getDerivedUnitUuidAndTitleCache()
605 public List
<UuidAndTitleCache
<DerivedUnit
>> getDerivedUnitUuidAndTitleCache() {
606 return defaultService
.getDerivedUnitUuidAndTitleCache();
610 * @param transientObject
612 * @see eu.etaxonomy.cdm.api.service.IService#merge(eu.etaxonomy.cdm.model.common.ICdmBase)
615 public SpecimenOrObservationBase
merge(SpecimenOrObservationBase transientObject
) {
616 return defaultService
.merge(transientObject
);
621 * @param propertyPaths
623 * @throws DerivedUnitFacadeNotSupportedException
624 * @see eu.etaxonomy.cdm.api.service.IOccurrenceService#getDerivedUnitFacade(eu.etaxonomy.cdm.model.occurrence.DerivedUnit, java.util.List)
627 public DerivedUnitFacade
getDerivedUnitFacade(DerivedUnit derivedUnit
, List
<String
> propertyPaths
) throws DerivedUnitFacadeNotSupportedException
{
628 return defaultService
.getDerivedUnitFacade(derivedUnit
, propertyPaths
);
639 * @param propertyPaths
641 * @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)
644 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
) {
645 return defaultService
.listByTitle(clazz
, queryString
, matchmode
, criteria
, pageSize
, pageNumber
, orderHints
, propertyPaths
);
650 * @param propertyPaths
652 * @see eu.etaxonomy.cdm.api.service.IOccurrenceService#listDerivedUnitFacades(eu.etaxonomy.cdm.model.description.DescriptionBase, java.util.List)
655 public List
<DerivedUnitFacade
> listDerivedUnitFacades(DescriptionBase description
, List
<String
> propertyPaths
) {
656 return defaultService
.listDerivedUnitFacades(description
, propertyPaths
);
664 * @param propertyPaths
666 * @see eu.etaxonomy.cdm.api.service.IService#page(java.lang.Class, java.lang.Integer, java.lang.Integer, java.util.List, java.util.List)
669 public <S
extends SpecimenOrObservationBase
> Pager
<S
> page(Class
<S
> type
, Integer pageSize
, Integer pageNumber
, List
<OrderHint
> orderHints
, List
<String
> propertyPaths
) {
670 return defaultService
.page(type
, pageSize
, pageNumber
, orderHints
, propertyPaths
);
675 * @param includeRelationships
676 * @param associatedTaxon
681 * @param propertyPaths
683 * @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)
686 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
) {
687 return defaultService
.listByAssociatedTaxon(type
, includeRelationships
, associatedTaxon
, maxDepth
, pageSize
, pageNumber
, orderHints
, propertyPaths
);
691 * @param persistentObject
693 * @see eu.etaxonomy.cdm.api.service.IService#refresh(eu.etaxonomy.cdm.model.common.ICdmBase)
696 public UUID
refresh(SpecimenOrObservationBase persistentObject
) {
697 return defaultService
.refresh(persistentObject
);
708 * @param propertyPaths
710 * @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)
713 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
) {
714 return defaultService
.listByReferenceTitle(clazz
, queryString
, matchmode
, criteria
, pageSize
, pageNumber
, orderHints
, propertyPaths
);
722 * @see eu.etaxonomy.cdm.api.service.IService#rows(java.lang.String, int, int)
725 public List
<SpecimenOrObservationBase
> rows(String tableName
, int limit
, int start
) {
726 return defaultService
.rows(tableName
, limit
, start
);
730 * @param newInstances
732 * @see eu.etaxonomy.cdm.api.service.IService#save(java.util.Collection)
735 public Map
<UUID
, SpecimenOrObservationBase
> save(Collection
<SpecimenOrObservationBase
> newInstances
) {
736 for(SpecimenOrObservationBase unit
:newInstances
){
744 * @param includeRelationships
745 * @param associatedTaxon
750 * @param propertyPaths
752 * @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)
755 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
) {
756 return defaultService
.pageByAssociatedTaxon(type
, includeRelationships
, associatedTaxon
, maxDepth
, pageSize
, pageNumber
, orderHints
, propertyPaths
);
762 * @see eu.etaxonomy.cdm.api.service.IService#save(eu.etaxonomy.cdm.model.common.ICdmBase)
765 public SpecimenOrObservationBase
save(SpecimenOrObservationBase newInstance
) {
766 units
.add(newInstance
);
771 * @param transientObject
773 * @see eu.etaxonomy.cdm.api.service.IService#saveOrUpdate(eu.etaxonomy.cdm.model.common.ICdmBase)
776 public UUID
saveOrUpdate(SpecimenOrObservationBase transientObject
) {
777 units
.add(transientObject
);
782 * @param transientObjects
784 * @see eu.etaxonomy.cdm.api.service.IService#saveOrUpdate(java.util.Collection)
787 public Map
<UUID
, SpecimenOrObservationBase
> saveOrUpdate(Collection
<SpecimenOrObservationBase
> transientObjects
) {
788 for(SpecimenOrObservationBase unit
:transientObjects
){
799 * @param highlightFragments
803 * @param propertyPaths
805 * @throws CorruptIndexException
806 * @throws IOException
807 * @throws ParseException
808 * @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)
811 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
{
812 return defaultService
.findByFullText(clazz
, queryString
, boundingBox
, languages
, highlightFragments
, pageSize
, pageNumber
, orderHints
, propertyPaths
);
816 * @param transientObject
818 * @see eu.etaxonomy.cdm.api.service.IService#update(eu.etaxonomy.cdm.model.common.ICdmBase)
821 public UUID
update(SpecimenOrObservationBase transientObject
) {
822 return defaultService
.update(transientObject
);
827 * @param includeProperties
831 * @param propertyPaths
833 * @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)
836 public List
<SpecimenOrObservationBase
> list(SpecimenOrObservationBase example
, Set
<String
> includeProperties
, Integer limit
, Integer start
, List
<OrderHint
> orderHints
, List
<String
> propertyPaths
) {
837 return defaultService
.list(example
, includeProperties
, limit
, start
, orderHints
, propertyPaths
);
841 public int deduplicate(Class
<?
extends SpecimenOrObservationBase
> clazz
, IMatchStrategy matchStrategy
, IMergeStrategy mergeStrategy
) {
842 return defaultService
.deduplicate(clazz
, matchStrategy
, mergeStrategy
);
846 public Pager
<SpecimenOrObservationBase
> findTitleCache(Class
<?
extends SpecimenOrObservationBase
> clazz
, String queryString
, Integer pageSize
, Integer pageNumber
, List
<OrderHint
> orderHints
, MatchMode matchMode
) {
847 return defaultService
.findTitleCache(clazz
, queryString
, pageSize
, pageNumber
, orderHints
, matchMode
);
850 public Collection
<SpecimenOrObservationBase
<?
>> getUnits() {
855 public Collection
<FieldUnit
> getFieldUnits(UUID derivedUnitUuid
) {
856 return defaultService
.getFieldUnits(derivedUnitUuid
);
860 public <T
extends SpecimenOrObservationBase
> Pager
<T
> pageByAssociatedTaxon(Class
<T
> type
,
861 Set
<TaxonRelationshipEdge
> includeRelationships
, String taxonUUID
, Integer maxDepth
, Integer pageSize
,
862 Integer pageNumber
, List
<OrderHint
> orderHints
, List
<String
> propertyPaths
) {
863 return defaultService
.pageByAssociatedTaxon(type
, includeRelationships
, taxonUUID
,
864 maxDepth
, pageSize
, pageNumber
, orderHints
, propertyPaths
);
868 public boolean moveDerivate(SpecimenOrObservationBase
<?
> from
, SpecimenOrObservationBase
<?
> to
, DerivedUnit derivate
) {
869 return defaultService
.moveDerivate(from
, to
, derivate
);
873 public boolean moveSequence(DnaSample from
, DnaSample to
, Sequence sequence
) {
874 return defaultService
.moveSequence(from
, to
, sequence
);
878 public DeleteResult
isDeletable(SpecimenOrObservationBase object
,
879 DeleteConfiguratorBase config
) {
880 return defaultService
.isDeletable(object
, config
);
884 public int countDeterminations(SpecimenOrObservationBase occurence
, TaxonBase taxonbase
) {
885 return defaultService
.countDeterminations(occurence
, taxonbase
);
889 public SpecimenOrObservationBase
findWithoutFlush(UUID uuid
) {
890 return defaultService
.findWithoutFlush(uuid
);
894 public Collection
<SpecimenOrObservationBase
> listFieldUnitsByAssociatedTaxon(Taxon associatedTaxon
,
895 List
<OrderHint
> orderHints
, List
<String
> propertyPaths
) {
896 return defaultService
.listFieldUnitsByAssociatedTaxon(associatedTaxon
, orderHints
, propertyPaths
);
900 public Pager
<SpecimenOrObservationBase
> pageFieldUnitsByAssociatedTaxon(
901 Set
<TaxonRelationshipEdge
> includeRelationships
, Taxon associatedTaxon
, Integer maxDepth
, Integer pageSize
,
902 Integer pageNumber
, List
<OrderHint
> orderHints
, List
<String
> propertyPaths
) {
903 return defaultService
.pageFieldUnitsByAssociatedTaxon(includeRelationships
, associatedTaxon
, maxDepth
, pageSize
, pageNumber
, orderHints
, propertyPaths
);
908 public FieldUnitDTO
assembleFieldUnitDTO(FieldUnit fieldUnit
, UUID associatedTaxonUuid
) {
909 return defaultService
.assembleFieldUnitDTO(fieldUnit
, associatedTaxonUuid
);
913 public PreservedSpecimenDTO
assemblePreservedSpecimenDTO(DerivedUnit derivedUnit
) {
914 return defaultService
.assemblePreservedSpecimenDTO(derivedUnit
);
918 public Collection
<ICdmBase
> getNonCascadedAssociatedElements(SpecimenOrObservationBase
<?
> specimen
) {
919 return defaultService
.getNonCascadedAssociatedElements(specimen
);
923 public DeleteResult
deleteDerivateHierarchy(CdmBase from
, SpecimenDeleteConfigurator config
) {
924 return defaultService
.deleteDerivateHierarchy(from
, config
);
928 public DeleteResult
delete(SpecimenOrObservationBase
<?
> specimen
, SpecimenDeleteConfigurator config
) {
929 return defaultService
.delete(specimen
, config
);
933 public Collection
<IndividualsAssociation
> listIndividualsAssociations(SpecimenOrObservationBase
<?
> specimen
,
934 Integer limit
, Integer start
, List
<OrderHint
> orderHints
, List
<String
> propertyPaths
) {
935 return defaultService
.listIndividualsAssociations(specimen
, limit
, start
, orderHints
, propertyPaths
);
939 public Collection
<SpecimenTypeDesignation
> listTypeDesignations(SpecimenOrObservationBase
<?
> specimen
,
940 Integer limit
, Integer start
, List
<OrderHint
> orderHints
, List
<String
> propertyPaths
) {
941 return defaultService
.listTypeDesignations(specimen
, limit
, start
, orderHints
, propertyPaths
);
945 public Collection
<DescriptionBase
<?
>> listDescriptionsWithDescriptionSpecimen(
946 SpecimenOrObservationBase
<?
> specimen
, Integer limit
, Integer start
, List
<OrderHint
> orderHints
,
947 List
<String
> propertyPaths
) {
948 return defaultService
.listDescriptionsWithDescriptionSpecimen(specimen
, limit
, start
, orderHints
, propertyPaths
);
952 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
){
953 return defaultService
.findByIdentifier(clazz
, identifier
, identifierType
, matchmode
, includeEntity
, pageSize
, pageNumber
, propertyPaths
);
957 public Collection
<DescriptionElementBase
> getCharacterDataForSpecimen(SpecimenOrObservationBase
<?
> arg0
) {
958 return defaultService
.getCharacterDataForSpecimen(arg0
);
962 public Collection
<DescriptionElementBase
> getCharacterDataForSpecimen(UUID arg0
) {
963 return getCharacterDataForSpecimen(arg0
);
967 public String
getMostSignificantIdentifier(DerivedUnit derivedUnit
) {
968 return defaultService
.getMostSignificantIdentifier(derivedUnit
);
972 public int countOccurrences(IIdentifiableEntityServiceConfigurator
<SpecimenOrObservationBase
> config
) {
973 return defaultService
.countOccurrences(config
);
980 public List
<DerivedUnit
> getAllChildDerivatives(SpecimenOrObservationBase
<?
> specimen
) {
981 return defaultService
.getAllChildDerivatives(specimen
);
988 public List
<SpecimenOrObservationBase
<?
>> getAllHierarchyDerivatives(SpecimenOrObservationBase
<?
> specimen
) {
989 return defaultService
.getAllHierarchyDerivatives(specimen
);
994 * @see eu.etaxonomy.cdm.api.service.IService#delete(java.util.UUID)
997 public DeleteResult
delete(UUID uuid
) {
998 return defaultService
.delete(uuid
);
1002 public DeleteResult
delete(Collection
<UUID
> arg0
) {
1003 return defaultService
.delete(arg0
);
1007 public DeleteResult
deleteSingleRead(SingleRead singleRead
, Sequence sequence
){
1008 return defaultService
.deleteSingleRead(singleRead
, sequence
);
1012 * @see eu.etaxonomy.cdm.api.service.IService#merge(java.util.List)
1015 public List
<SpecimenOrObservationBase
> merge(List
<SpecimenOrObservationBase
> arg0
) {
1016 return defaultService
.merge(arg0
);
1020 * @see eu.etaxonomy.cdm.api.service.IOccurrenceService#deleteDerivateHierarchy(java.util.UUID, eu.etaxonomy.cdm.api.service.config.SpecimenDeleteConfigurator)
1023 public DeleteResult
deleteDerivateHierarchy(UUID arg0
, SpecimenDeleteConfigurator arg1
) {
1024 return defaultService
.deleteDerivateHierarchy(arg0
, arg1
);
1028 * @see eu.etaxonomy.cdm.api.service.IOccurrenceService#deleteSingleRead(java.util.UUID, java.util.UUID)
1031 public DeleteResult
deleteSingleRead(UUID arg0
, UUID arg1
) {
1032 return defaultService
.deleteSingleRead(arg0
, arg1
);