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
.DerivateHierarchyDTO
;
36 import eu
.etaxonomy
.cdm
.api
.service
.pager
.Pager
;
37 import eu
.etaxonomy
.cdm
.api
.service
.search
.SearchResult
;
38 import eu
.etaxonomy
.cdm
.api
.service
.util
.TaxonRelationshipEdge
;
39 import eu
.etaxonomy
.cdm
.common
.monitor
.IProgressMonitor
;
40 import eu
.etaxonomy
.cdm
.model
.common
.Annotation
;
41 import eu
.etaxonomy
.cdm
.model
.common
.ICdmBase
;
42 import eu
.etaxonomy
.cdm
.model
.common
.ISourceable
;
43 import eu
.etaxonomy
.cdm
.model
.common
.IdentifiableSource
;
44 import eu
.etaxonomy
.cdm
.model
.common
.LSID
;
45 import eu
.etaxonomy
.cdm
.model
.common
.Language
;
46 import eu
.etaxonomy
.cdm
.model
.common
.Marker
;
47 import eu
.etaxonomy
.cdm
.model
.common
.MarkerType
;
48 import eu
.etaxonomy
.cdm
.model
.common
.UuidAndTitleCache
;
49 import eu
.etaxonomy
.cdm
.model
.description
.DescriptionBase
;
50 import eu
.etaxonomy
.cdm
.model
.description
.IndividualsAssociation
;
51 import eu
.etaxonomy
.cdm
.model
.location
.Country
;
52 import eu
.etaxonomy
.cdm
.model
.media
.Media
;
53 import eu
.etaxonomy
.cdm
.model
.media
.Rights
;
54 import eu
.etaxonomy
.cdm
.model
.molecular
.DnaSample
;
55 import eu
.etaxonomy
.cdm
.model
.molecular
.Sequence
;
56 import eu
.etaxonomy
.cdm
.model
.name
.SpecimenTypeDesignation
;
57 import eu
.etaxonomy
.cdm
.model
.occurrence
.DerivationEvent
;
58 import eu
.etaxonomy
.cdm
.model
.occurrence
.DerivedUnit
;
59 import eu
.etaxonomy
.cdm
.model
.occurrence
.DeterminationEvent
;
60 import eu
.etaxonomy
.cdm
.model
.occurrence
.FieldUnit
;
61 import eu
.etaxonomy
.cdm
.model
.occurrence
.SpecimenOrObservationBase
;
62 import eu
.etaxonomy
.cdm
.model
.taxon
.Taxon
;
63 import eu
.etaxonomy
.cdm
.model
.taxon
.TaxonBase
;
64 import eu
.etaxonomy
.cdm
.model
.view
.AuditEvent
;
65 import eu
.etaxonomy
.cdm
.model
.view
.AuditEventRecord
;
66 import eu
.etaxonomy
.cdm
.persistence
.dao
.common
.AuditEventSort
;
67 import eu
.etaxonomy
.cdm
.persistence
.query
.Grouping
;
68 import eu
.etaxonomy
.cdm
.persistence
.query
.MatchMode
;
69 import eu
.etaxonomy
.cdm
.persistence
.query
.OrderHint
;
70 import eu
.etaxonomy
.cdm
.strategy
.cache
.common
.IIdentifiableEntityCacheStrategy
;
71 import eu
.etaxonomy
.cdm
.strategy
.match
.IMatchStrategy
;
72 import eu
.etaxonomy
.cdm
.strategy
.merge
.IMergeStrategy
;
79 public class TransientOccurenceService
implements IOccurrenceService
{
81 private final IOccurrenceService defaultService
;
82 private final Collection
<SpecimenOrObservationBase
<?
>> units
;
85 * @param defaultService
87 public TransientOccurenceService(IOccurrenceService defaultService
) {
88 this.defaultService
= defaultService
;
89 this.units
= new HashSet
<SpecimenOrObservationBase
<?
>>();
97 * @param propertyPaths
99 * @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)
102 public Pager
<AuditEventRecord
<SpecimenOrObservationBase
>> pageAuditEvents(SpecimenOrObservationBase t
, Integer pageSize
, Integer pageNumber
, AuditEventSort sort
, List
<String
> propertyPaths
) {
103 return defaultService
.pageAuditEvents(t
, pageSize
, pageNumber
, sort
, propertyPaths
);
107 * @param annotatedObj
112 * @param propertyPaths
114 * @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)
117 public Pager
<Annotation
> getAnnotations(SpecimenOrObservationBase annotatedObj
, MarkerType status
, Integer pageSize
, Integer pageNumber
, List
<OrderHint
> orderHints
, List
<String
> propertyPaths
) {
118 return defaultService
.getAnnotations(annotatedObj
, status
, pageSize
, pageNumber
, orderHints
, propertyPaths
);
123 * @see eu.etaxonomy.cdm.api.service.IService#clear()
126 public void clear() {
127 defaultService
.clear();
133 * @see eu.etaxonomy.cdm.api.service.IService#lock(eu.etaxonomy.cdm.model.common.ICdmBase, org.hibernate.LockMode)
136 public void lock(SpecimenOrObservationBase t
, LockOptions lockOptions
) {
137 defaultService
.lock(t
, lockOptions
);
143 * @param propertyPaths
144 * @see eu.etaxonomy.cdm.api.service.IService#refresh(eu.etaxonomy.cdm.model.common.ICdmBase, org.hibernate.LockMode, java.util.List)
147 public void refresh(SpecimenOrObservationBase t
, LockOptions lockOptions
, List
<String
> propertyPaths
) {
148 defaultService
.refresh(t
, lockOptions
, propertyPaths
);
153 * @see eu.etaxonomy.cdm.api.service.IIdentifiableEntityService#updateTitleCache()
156 public void updateTitleCache() {
157 defaultService
.updateTitleCache();
163 * @see eu.etaxonomy.cdm.api.service.IVersionableService#getNextAuditEvent(eu.etaxonomy.cdm.model.common.VersionableEntity)
166 public AuditEventRecord
<SpecimenOrObservationBase
> getNextAuditEvent(SpecimenOrObservationBase t
) {
167 return defaultService
.getNextAuditEvent(t
);
171 * @param annotatableEntity
176 * @param propertyPaths
178 * @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)
181 public Pager
<Marker
> getMarkers(SpecimenOrObservationBase annotatableEntity
, Boolean technical
, Integer pageSize
, Integer pageNumber
, List
<OrderHint
> orderHints
, List
<String
> propertyPaths
) {
182 return defaultService
.getMarkers(annotatableEntity
, technical
, pageSize
, pageNumber
, orderHints
, propertyPaths
);
188 * @param cacheStrategy
190 * @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)
193 public void updateTitleCache(Class
<?
extends SpecimenOrObservationBase
> clazz
, Integer stepSize
, IIdentifiableEntityCacheStrategy
<SpecimenOrObservationBase
> cacheStrategy
, IProgressMonitor monitor
) {
194 defaultService
.updateTitleCache(clazz
, stepSize
, cacheStrategy
, monitor
);
200 * @see eu.etaxonomy.cdm.api.service.IVersionableService#getPreviousAuditEvent(eu.etaxonomy.cdm.model.common.VersionableEntity)
203 public AuditEventRecord
<SpecimenOrObservationBase
> getPreviousAuditEvent(SpecimenOrObservationBase t
) {
204 return defaultService
.getPreviousAuditEvent(t
);
210 * @see eu.etaxonomy.cdm.api.service.IOccurrenceService#getCountryByIso(java.lang.String)
213 public Country
getCountryByIso(String iso639
) {
214 return defaultService
.getCountryByIso(iso639
);
220 * @see eu.etaxonomy.cdm.api.service.IService#count(java.lang.Class)
223 public int count(Class
<?
extends SpecimenOrObservationBase
> clazz
) {
224 return defaultService
.count(clazz
);
230 * @see eu.etaxonomy.cdm.api.service.IOccurrenceService#getCountryByName(java.lang.String)
233 public List
<Country
> getCountryByName(String name
) {
234 return defaultService
.getCountryByName(name
);
239 * @param determinedAs
243 * @param propertyPaths
245 * @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)
248 public Pager
<SpecimenOrObservationBase
> list(Class
<?
extends SpecimenOrObservationBase
> type
, TaxonBase determinedAs
, Integer limit
, Integer start
, List
<OrderHint
> orderHints
, List
<String
> propertyPaths
) {
249 return defaultService
.list(type
, determinedAs
, limit
, start
, orderHints
, propertyPaths
);
260 * @param propertyPaths
262 * @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)
265 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
) {
266 return defaultService
.pageAuditEvents(clazz
, from
, to
, criteria
, pageSize
, pageValue
, sort
, propertyPaths
);
272 * @see eu.etaxonomy.cdm.api.service.IIdentifiableEntityService#find(eu.etaxonomy.cdm.model.common.LSID)
275 public SpecimenOrObservationBase
find(LSID lsid
) {
276 return defaultService
.find(lsid
);
280 * @param persistentObject
282 * @see eu.etaxonomy.cdm.api.service.IService#delete(eu.etaxonomy.cdm.model.common.ICdmBase)
285 public DeleteResult
delete(SpecimenOrObservationBase persistentObject
) {
286 return defaultService
.delete(persistentObject
);
294 * @param propertyPaths
296 * @see eu.etaxonomy.cdm.api.service.IAnnotatableService#groupMarkers(java.lang.Class, java.lang.Boolean, java.lang.Integer, java.lang.Integer, java.util.List)
299 public List
<Object
[]> groupMarkers(Class
<?
extends SpecimenOrObservationBase
> clazz
, Boolean technical
, Integer pageSize
, Integer pageNumber
, List
<String
> propertyPaths
) {
300 return defaultService
.groupMarkers(clazz
, technical
, pageSize
, pageNumber
, propertyPaths
);
306 * @see eu.etaxonomy.cdm.api.service.IService#exists(java.util.UUID)
309 public boolean exists(UUID uuid
) {
310 return defaultService
.exists(uuid
);
317 * @see eu.etaxonomy.cdm.api.service.IIdentifiableEntityService#replace(eu.etaxonomy.cdm.model.common.IdentifiableEntity, eu.etaxonomy.cdm.model.common.IdentifiableEntity)
320 public SpecimenOrObservationBase
replace(SpecimenOrObservationBase x
, SpecimenOrObservationBase y
) {
321 return defaultService
.replace(x
, y
);
327 * @see eu.etaxonomy.cdm.api.service.IService#find(java.util.Set)
330 public List
<SpecimenOrObservationBase
> find(Set
<UUID
> uuidSet
) {
331 return defaultService
.find(uuidSet
);
338 * @param propertyPaths
340 * @see eu.etaxonomy.cdm.api.service.IIdentifiableEntityService#getSources(eu.etaxonomy.cdm.model.common.IdentifiableEntity, java.lang.Integer, java.lang.Integer, java.util.List)
343 public Pager
<IdentifiableSource
> getSources(SpecimenOrObservationBase t
, Integer pageSize
, Integer pageNumber
, List
<String
> propertyPaths
) {
344 return defaultService
.getSources(t
, pageSize
, pageNumber
, propertyPaths
);
350 * @see eu.etaxonomy.cdm.api.service.IService#find(java.util.UUID)
353 public SpecimenOrObservationBase
find(UUID uuid
) {
354 return defaultService
.find(uuid
);
360 * @see eu.etaxonomy.cdm.api.service.IService#find(int)
363 public SpecimenOrObservationBase
find(int id
) {
364 return defaultService
.find(id
);
371 * @param propertyPaths
373 * @see eu.etaxonomy.cdm.api.service.IIdentifiableEntityService#getRights(eu.etaxonomy.cdm.model.common.IdentifiableEntity, java.lang.Integer, java.lang.Integer, java.util.List)
376 public Pager
<Rights
> getRights(SpecimenOrObservationBase t
, Integer pageSize
, Integer pageNumber
, List
<String
> propertyPaths
) {
377 return defaultService
.getRights(t
, pageSize
, pageNumber
, propertyPaths
);
384 * @see eu.etaxonomy.cdm.api.service.IAnnotatableService#countMarkers(java.lang.Class, java.lang.Boolean)
387 public int countMarkers(Class
<?
extends SpecimenOrObservationBase
> clazz
, Boolean technical
) {
388 return defaultService
.countMarkers(clazz
, technical
);
395 * @param propertyPaths
397 * @see eu.etaxonomy.cdm.api.service.IOccurrenceService#getMedia(eu.etaxonomy.cdm.model.occurrence.SpecimenOrObservationBase, java.lang.Integer, java.lang.Integer, java.util.List)
400 public Pager
<Media
> getMedia(SpecimenOrObservationBase occurence
, Integer pageSize
, Integer pageNumber
, List
<String
> propertyPaths
) {
401 return defaultService
.getMedia(occurence
, pageSize
, pageNumber
, propertyPaths
);
407 * @see eu.etaxonomy.cdm.api.service.IService#findById(java.util.Set)
410 public List
<SpecimenOrObservationBase
> findById(Set
<Integer
> idSet
) {
411 return defaultService
.findById(idSet
);
419 * @see eu.etaxonomy.cdm.api.service.IIdentifiableEntityService#getSourcedObjectByIdInSource(java.lang.Class, java.lang.String, java.lang.String)
422 public ISourceable
getSourcedObjectByIdInSource(Class clazz
, String idInSource
, String idNamespace
) {
423 return defaultService
.getSourcedObjectByIdInSource(clazz
, idInSource
, idNamespace
);
428 * @see eu.etaxonomy.cdm.api.service.IService#getSession()
431 public Session
getSession() {
432 return defaultService
.getSession();
437 * @see eu.etaxonomy.cdm.api.service.IIdentifiableEntityService#getUuidAndTitleCache()
440 public List
<UuidAndTitleCache
<SpecimenOrObservationBase
>> getUuidAndTitleCache() {
441 return defaultService
.getUuidAndTitleCache();
449 * @param propertyPaths
451 * @see eu.etaxonomy.cdm.api.service.IService#group(java.lang.Class, java.lang.Integer, java.lang.Integer, java.util.List, java.util.List)
454 public List
<Object
[]> group(Class
<?
extends SpecimenOrObservationBase
> clazz
, Integer limit
, Integer start
, List
<Grouping
> groups
, List
<String
> propertyPaths
) {
455 return defaultService
.group(clazz
, limit
, start
, groups
, propertyPaths
);
463 * @param propertyPaths
465 * @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)
468 public Pager
<DeterminationEvent
> getDeterminations(SpecimenOrObservationBase occurence
, TaxonBase taxonBase
, Integer pageSize
, Integer pageNumber
, List
<String
> propertyPaths
) {
469 return defaultService
.getDeterminations(occurence
, taxonBase
, pageSize
, pageNumber
, propertyPaths
);
480 * @param propertyPaths
482 * @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)
485 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
) {
486 return defaultService
.findByTitle(clazz
, queryString
, matchmode
, criteria
, pageSize
, pageNumber
, orderHints
, propertyPaths
);
493 * @param propertyPaths
495 * @see eu.etaxonomy.cdm.api.service.IOccurrenceService#getDerivationEvents(eu.etaxonomy.cdm.model.occurrence.SpecimenOrObservationBase, java.lang.Integer, java.lang.Integer, java.util.List)
498 public Pager
<DerivationEvent
> getDerivationEvents(SpecimenOrObservationBase occurence
, Integer pageSize
, Integer pageNumber
, List
<String
> propertyPaths
) {
499 return defaultService
.getDerivationEvents(occurence
, pageSize
, pageNumber
, propertyPaths
);
507 * @param propertyPaths
509 * @see eu.etaxonomy.cdm.api.service.IService#list(java.lang.Class, java.lang.Integer, java.lang.Integer, java.util.List, java.util.List)
512 public <S
extends SpecimenOrObservationBase
> List
<S
> list(Class
<S
> type
, Integer limit
, Integer start
, List
<OrderHint
> orderHints
, List
<String
> propertyPaths
) {
513 return defaultService
.list(type
, limit
, start
, orderHints
, propertyPaths
);
522 * @param propertyPaths
524 * @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)
527 public Pager
<SpecimenOrObservationBase
> search(Class
<?
extends SpecimenOrObservationBase
> clazz
, String query
, Integer pageSize
, Integer pageNumber
, List
<OrderHint
> orderHints
, List
<String
> propertyPaths
) {
528 return defaultService
.search(clazz
, query
, pageSize
, pageNumber
, orderHints
, propertyPaths
);
532 * @param configurator
534 * @see eu.etaxonomy.cdm.api.service.IIdentifiableEntityService#findByTitle(eu.etaxonomy.cdm.api.service.config.IIdentifiableEntityServiceConfigurator)
537 public Pager
<SpecimenOrObservationBase
> findByTitle(IIdentifiableEntityServiceConfigurator
<SpecimenOrObservationBase
> configurator
) {
538 return defaultService
.findByTitle(configurator
);
547 * @see eu.etaxonomy.cdm.api.service.IIdentifiableEntityService#countByTitle(java.lang.Class, java.lang.String, eu.etaxonomy.cdm.persistence.query.MatchMode, java.util.List)
550 public Integer
countByTitle(Class
<?
extends SpecimenOrObservationBase
> clazz
, String queryString
, MatchMode matchmode
, List
<Criterion
> criteria
) {
551 return defaultService
.countByTitle(clazz
, queryString
, matchmode
, criteria
);
557 * @see eu.etaxonomy.cdm.api.service.IService#load(java.util.UUID)
560 public SpecimenOrObservationBase
load(UUID uuid
) {
561 return defaultService
.load(uuid
);
566 * @param propertyPaths
568 * @see eu.etaxonomy.cdm.api.service.IService#load(java.util.UUID, java.util.List)
571 public SpecimenOrObservationBase
load(UUID uuid
, List
<String
> propertyPaths
) {
572 return defaultService
.load(uuid
, propertyPaths
);
576 * @param configurator
578 * @see eu.etaxonomy.cdm.api.service.IIdentifiableEntityService#countByTitle(eu.etaxonomy.cdm.api.service.config.IIdentifiableEntityServiceConfigurator)
581 public Integer
countByTitle(IIdentifiableEntityServiceConfigurator
<SpecimenOrObservationBase
> configurator
) {
582 return defaultService
.countByTitle(configurator
);
587 * @see eu.etaxonomy.cdm.api.service.IOccurrenceService#getFieldUnitUuidAndTitleCache()
590 public List
<UuidAndTitleCache
<FieldUnit
>> getFieldUnitUuidAndTitleCache() {
591 return defaultService
.getFieldUnitUuidAndTitleCache();
596 * @see eu.etaxonomy.cdm.api.service.IOccurrenceService#getDerivedUnitUuidAndTitleCache()
599 public List
<UuidAndTitleCache
<DerivedUnit
>> getDerivedUnitUuidAndTitleCache() {
600 return defaultService
.getDerivedUnitUuidAndTitleCache();
604 * @param transientObject
606 * @see eu.etaxonomy.cdm.api.service.IService#merge(eu.etaxonomy.cdm.model.common.ICdmBase)
609 public SpecimenOrObservationBase
merge(SpecimenOrObservationBase transientObject
) {
610 return defaultService
.merge(transientObject
);
615 * @param propertyPaths
617 * @throws DerivedUnitFacadeNotSupportedException
618 * @see eu.etaxonomy.cdm.api.service.IOccurrenceService#getDerivedUnitFacade(eu.etaxonomy.cdm.model.occurrence.DerivedUnit, java.util.List)
621 public DerivedUnitFacade
getDerivedUnitFacade(DerivedUnit derivedUnit
, List
<String
> propertyPaths
) throws DerivedUnitFacadeNotSupportedException
{
622 return defaultService
.getDerivedUnitFacade(derivedUnit
, propertyPaths
);
633 * @param propertyPaths
635 * @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)
638 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
) {
639 return defaultService
.listByTitle(clazz
, queryString
, matchmode
, criteria
, pageSize
, pageNumber
, orderHints
, propertyPaths
);
644 * @param propertyPaths
646 * @see eu.etaxonomy.cdm.api.service.IOccurrenceService#listDerivedUnitFacades(eu.etaxonomy.cdm.model.description.DescriptionBase, java.util.List)
649 public List
<DerivedUnitFacade
> listDerivedUnitFacades(DescriptionBase description
, List
<String
> propertyPaths
) {
650 return defaultService
.listDerivedUnitFacades(description
, propertyPaths
);
658 * @param propertyPaths
660 * @see eu.etaxonomy.cdm.api.service.IService#page(java.lang.Class, java.lang.Integer, java.lang.Integer, java.util.List, java.util.List)
663 public <S
extends SpecimenOrObservationBase
> Pager
<S
> page(Class
<S
> type
, Integer pageSize
, Integer pageNumber
, List
<OrderHint
> orderHints
, List
<String
> propertyPaths
) {
664 return defaultService
.page(type
, pageSize
, pageNumber
, orderHints
, propertyPaths
);
669 * @param includeRelationships
670 * @param associatedTaxon
675 * @param propertyPaths
677 * @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)
680 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
) {
681 return defaultService
.listByAssociatedTaxon(type
, includeRelationships
, associatedTaxon
, maxDepth
, pageSize
, pageNumber
, orderHints
, propertyPaths
);
685 * @param persistentObject
687 * @see eu.etaxonomy.cdm.api.service.IService#refresh(eu.etaxonomy.cdm.model.common.ICdmBase)
690 public UUID
refresh(SpecimenOrObservationBase persistentObject
) {
691 return defaultService
.refresh(persistentObject
);
702 * @param propertyPaths
704 * @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)
707 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
) {
708 return defaultService
.listByReferenceTitle(clazz
, queryString
, matchmode
, criteria
, pageSize
, pageNumber
, orderHints
, propertyPaths
);
716 * @see eu.etaxonomy.cdm.api.service.IService#rows(java.lang.String, int, int)
719 public List
<SpecimenOrObservationBase
> rows(String tableName
, int limit
, int start
) {
720 return defaultService
.rows(tableName
, limit
, start
);
724 * @param newInstances
726 * @see eu.etaxonomy.cdm.api.service.IService#save(java.util.Collection)
729 public Map
<UUID
, SpecimenOrObservationBase
> save(Collection
<SpecimenOrObservationBase
> newInstances
) {
730 for(SpecimenOrObservationBase unit
:newInstances
){
738 * @param includeRelationships
739 * @param associatedTaxon
744 * @param propertyPaths
746 * @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)
749 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
) {
750 return defaultService
.pageByAssociatedTaxon(type
, includeRelationships
, associatedTaxon
, maxDepth
, pageSize
, pageNumber
, orderHints
, propertyPaths
);
756 * @see eu.etaxonomy.cdm.api.service.IService#save(eu.etaxonomy.cdm.model.common.ICdmBase)
759 public UUID
save(SpecimenOrObservationBase newInstance
) {
760 units
.add(newInstance
);
765 * @param transientObject
767 * @see eu.etaxonomy.cdm.api.service.IService#saveOrUpdate(eu.etaxonomy.cdm.model.common.ICdmBase)
770 public UUID
saveOrUpdate(SpecimenOrObservationBase transientObject
) {
771 units
.add(transientObject
);
776 * @param transientObjects
778 * @see eu.etaxonomy.cdm.api.service.IService#saveOrUpdate(java.util.Collection)
781 public Map
<UUID
, SpecimenOrObservationBase
> saveOrUpdate(Collection
<SpecimenOrObservationBase
> transientObjects
) {
782 for(SpecimenOrObservationBase unit
:transientObjects
){
793 * @param highlightFragments
797 * @param propertyPaths
799 * @throws CorruptIndexException
800 * @throws IOException
801 * @throws ParseException
802 * @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)
805 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
{
806 return defaultService
.findByFullText(clazz
, queryString
, boundingBox
, languages
, highlightFragments
, pageSize
, pageNumber
, orderHints
, propertyPaths
);
810 * @param transientObject
812 * @see eu.etaxonomy.cdm.api.service.IService#update(eu.etaxonomy.cdm.model.common.ICdmBase)
815 public UUID
update(SpecimenOrObservationBase transientObject
) {
816 return defaultService
.update(transientObject
);
821 * @param includeProperties
825 * @param propertyPaths
827 * @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)
830 public List
<SpecimenOrObservationBase
> list(SpecimenOrObservationBase example
, Set
<String
> includeProperties
, Integer limit
, Integer start
, List
<OrderHint
> orderHints
, List
<String
> propertyPaths
) {
831 return defaultService
.list(example
, includeProperties
, limit
, start
, orderHints
, propertyPaths
);
836 * @param matchStrategy
837 * @param mergeStrategy
839 * @see eu.etaxonomy.cdm.api.service.IIdentifiableEntityService#deduplicate(java.lang.Class, eu.etaxonomy.cdm.strategy.match.IMatchStrategy, eu.etaxonomy.cdm.strategy.merge.IMergeStrategy)
842 public int deduplicate(Class
<?
extends SpecimenOrObservationBase
> clazz
, IMatchStrategy matchStrategy
, IMergeStrategy mergeStrategy
) {
843 return defaultService
.deduplicate(clazz
, matchStrategy
, mergeStrategy
);
854 * @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)
857 public Pager
<SpecimenOrObservationBase
> findTitleCache(Class
<?
extends SpecimenOrObservationBase
> clazz
, String queryString
, Integer pageSize
, Integer pageNumber
, List
<OrderHint
> orderHints
, MatchMode matchMode
) {
858 return defaultService
.findTitleCache(clazz
, queryString
, pageSize
, pageNumber
, orderHints
, matchMode
);
864 public Collection
<SpecimenOrObservationBase
<?
>> getUnits() {
869 * @see eu.etaxonomy.cdm.api.service.IOccurrenceService#getFieldUnits(java.util.UUID)
872 public Collection
<FieldUnit
> getFieldUnits(UUID derivedUnitUuid
) {
873 return defaultService
.getFieldUnits(derivedUnitUuid
);
877 * @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)
880 public <T
extends SpecimenOrObservationBase
> Pager
<T
> pageByAssociatedTaxon(Class
<T
> type
,
881 Set
<TaxonRelationshipEdge
> includeRelationships
, String taxonUUID
, Integer maxDepth
, Integer pageSize
,
882 Integer pageNumber
, List
<OrderHint
> orderHints
, List
<String
> propertyPaths
) {
883 return defaultService
.pageByAssociatedTaxon(type
, includeRelationships
, taxonUUID
,
884 maxDepth
, pageSize
, pageNumber
, orderHints
, propertyPaths
);
888 * @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)
891 public boolean moveDerivate(SpecimenOrObservationBase
<?
> from
, SpecimenOrObservationBase
<?
> to
, DerivedUnit derivate
) {
892 return defaultService
.moveDerivate(from
, to
, derivate
);
896 * @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)
899 public boolean moveSequence(DnaSample from
, DnaSample to
, Sequence sequence
) {
900 return defaultService
.moveSequence(from
, to
, sequence
);
904 public DeleteResult
isDeletable(SpecimenOrObservationBase object
,
905 DeleteConfiguratorBase config
) {
906 return defaultService
.isDeletable(object
, config
);
910 * @see eu.etaxonomy.cdm.api.service.IOccurrenceService#countDeterminations(eu.etaxonomy.cdm.model.occurrence.SpecimenOrObservationBase, eu.etaxonomy.cdm.model.taxon.TaxonBase)
913 public int countDeterminations(SpecimenOrObservationBase occurence
, TaxonBase taxonbase
) {
914 return defaultService
.countDeterminations(occurence
, taxonbase
);
918 public SpecimenOrObservationBase
findWithoutFlush(UUID uuid
) {
919 return defaultService
.findWithoutFlush(uuid
);
923 * @see eu.etaxonomy.cdm.api.service.IOccurrenceService#listFieldUnitsByAssociatedTaxon(java.util.Set, eu.etaxonomy.cdm.model.taxon.Taxon, java.lang.Integer, java.lang.Integer, java.lang.Integer, java.util.List, java.util.List)
926 public Collection
<FieldUnit
> listFieldUnitsByAssociatedTaxon(Set
<TaxonRelationshipEdge
> includeRelationships
,
927 Taxon associatedTaxon
, Integer maxDepth
, Integer pageSize
, Integer pageNumber
, List
<OrderHint
> orderHints
,
928 List
<String
> propertyPaths
) {
929 return defaultService
.listFieldUnitsByAssociatedTaxon(includeRelationships
, associatedTaxon
, maxDepth
, pageSize
, pageNumber
, orderHints
, propertyPaths
);
933 * @see eu.etaxonomy.cdm.api.service.IOccurrenceService#assembleDerivateHierarchyDTO(eu.etaxonomy.cdm.model.occurrence.FieldUnit, java.util.UUID)
936 public DerivateHierarchyDTO
assembleDerivateHierarchyDTO(FieldUnit fieldUnit
, UUID associatedTaxonUuid
) {
937 return defaultService
.assembleDerivateHierarchyDTO(fieldUnit
, associatedTaxonUuid
);
941 * @see eu.etaxonomy.cdm.api.service.IOccurrenceService#getNonCascadedAssociatedElements(eu.etaxonomy.cdm.model.occurrence.SpecimenOrObservationBase, eu.etaxonomy.cdm.api.conversation.ConversationHolder)
944 public Collection
<ICdmBase
> getNonCascadedAssociatedElements(SpecimenOrObservationBase
<?
> specimen
) {
945 return defaultService
.getNonCascadedAssociatedElements(specimen
);
949 * @see eu.etaxonomy.cdm.api.service.IOccurrenceService#deleteDerivateHierarchy(eu.etaxonomy.cdm.model.common.ICdmBase)
952 public DeleteResult
deleteDerivateHierarchy(ICdmBase from
, SpecimenDeleteConfigurator config
) {
953 return defaultService
.deleteDerivateHierarchy(from
, config
);
957 * @see eu.etaxonomy.cdm.api.service.IOccurrenceService#delete(eu.etaxonomy.cdm.model.occurrence.SpecimenOrObservationBase, eu.etaxonomy.cdm.api.service.config.SpecimenDeleteConfigurator)
960 public DeleteResult
delete(SpecimenOrObservationBase
<?
> specimen
, SpecimenDeleteConfigurator config
) {
961 return defaultService
.delete(specimen
, config
);
965 * @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)
968 public Collection
<IndividualsAssociation
> listIndividualsAssociations(SpecimenOrObservationBase
<?
> specimen
,
969 Integer limit
, Integer start
, List
<OrderHint
> orderHints
, List
<String
> propertyPaths
) {
970 return defaultService
.listIndividualsAssociations(specimen
, limit
, start
, orderHints
, propertyPaths
);
974 * @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)
977 public Collection
<SpecimenTypeDesignation
> listTypeDesignations(SpecimenOrObservationBase
<?
> specimen
,
978 Integer limit
, Integer start
, List
<OrderHint
> orderHints
, List
<String
> propertyPaths
) {
979 return defaultService
.listTypeDesignations(specimen
, limit
, start
, orderHints
, propertyPaths
);
983 * @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)
986 public Collection
<DescriptionBase
<?
>> listDescriptionsWithDescriptionSpecimen(
987 SpecimenOrObservationBase
<?
> specimen
, Integer limit
, Integer start
, List
<OrderHint
> orderHints
,
988 List
<String
> propertyPaths
) {
989 return defaultService
.listDescriptionsWithDescriptionSpecimen(specimen
, limit
, start
, orderHints
, propertyPaths
);