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
.CdmBase
;
42 import eu
.etaxonomy
.cdm
.model
.common
.ICdmBase
;
43 import eu
.etaxonomy
.cdm
.model
.common
.ISourceable
;
44 import eu
.etaxonomy
.cdm
.model
.common
.IdentifiableSource
;
45 import eu
.etaxonomy
.cdm
.model
.common
.LSID
;
46 import eu
.etaxonomy
.cdm
.model
.common
.Language
;
47 import eu
.etaxonomy
.cdm
.model
.common
.Marker
;
48 import eu
.etaxonomy
.cdm
.model
.common
.MarkerType
;
49 import eu
.etaxonomy
.cdm
.model
.common
.UuidAndTitleCache
;
50 import eu
.etaxonomy
.cdm
.model
.description
.DescriptionBase
;
51 import eu
.etaxonomy
.cdm
.model
.description
.IndividualsAssociation
;
52 import eu
.etaxonomy
.cdm
.model
.location
.Country
;
53 import eu
.etaxonomy
.cdm
.model
.media
.Media
;
54 import eu
.etaxonomy
.cdm
.model
.media
.Rights
;
55 import eu
.etaxonomy
.cdm
.model
.molecular
.DnaSample
;
56 import eu
.etaxonomy
.cdm
.model
.molecular
.Sequence
;
57 import eu
.etaxonomy
.cdm
.model
.name
.SpecimenTypeDesignation
;
58 import eu
.etaxonomy
.cdm
.model
.occurrence
.DerivationEvent
;
59 import eu
.etaxonomy
.cdm
.model
.occurrence
.DerivedUnit
;
60 import eu
.etaxonomy
.cdm
.model
.occurrence
.DeterminationEvent
;
61 import eu
.etaxonomy
.cdm
.model
.occurrence
.FieldUnit
;
62 import eu
.etaxonomy
.cdm
.model
.occurrence
.SpecimenOrObservationBase
;
63 import eu
.etaxonomy
.cdm
.model
.taxon
.Taxon
;
64 import eu
.etaxonomy
.cdm
.model
.taxon
.TaxonBase
;
65 import eu
.etaxonomy
.cdm
.model
.view
.AuditEvent
;
66 import eu
.etaxonomy
.cdm
.model
.view
.AuditEventRecord
;
67 import eu
.etaxonomy
.cdm
.persistence
.dao
.common
.AuditEventSort
;
68 import eu
.etaxonomy
.cdm
.persistence
.query
.Grouping
;
69 import eu
.etaxonomy
.cdm
.persistence
.query
.MatchMode
;
70 import eu
.etaxonomy
.cdm
.persistence
.query
.OrderHint
;
71 import eu
.etaxonomy
.cdm
.strategy
.cache
.common
.IIdentifiableEntityCacheStrategy
;
72 import eu
.etaxonomy
.cdm
.strategy
.match
.IMatchStrategy
;
73 import eu
.etaxonomy
.cdm
.strategy
.merge
.IMergeStrategy
;
80 public class TransientOccurenceService
implements IOccurrenceService
{
82 private final IOccurrenceService defaultService
;
83 private final Collection
<SpecimenOrObservationBase
<?
>> units
;
86 * @param defaultService
88 public TransientOccurenceService(IOccurrenceService defaultService
) {
89 this.defaultService
= defaultService
;
90 this.units
= new HashSet
<SpecimenOrObservationBase
<?
>>();
98 * @param propertyPaths
100 * @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)
103 public Pager
<AuditEventRecord
<SpecimenOrObservationBase
>> pageAuditEvents(SpecimenOrObservationBase t
, Integer pageSize
, Integer pageNumber
, AuditEventSort sort
, List
<String
> propertyPaths
) {
104 return defaultService
.pageAuditEvents(t
, pageSize
, pageNumber
, sort
, propertyPaths
);
108 * @param annotatedObj
113 * @param propertyPaths
115 * @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)
118 public Pager
<Annotation
> getAnnotations(SpecimenOrObservationBase annotatedObj
, MarkerType status
, Integer pageSize
, Integer pageNumber
, List
<OrderHint
> orderHints
, List
<String
> propertyPaths
) {
119 return defaultService
.getAnnotations(annotatedObj
, status
, pageSize
, pageNumber
, orderHints
, propertyPaths
);
124 * @see eu.etaxonomy.cdm.api.service.IService#clear()
127 public void clear() {
128 defaultService
.clear();
134 * @see eu.etaxonomy.cdm.api.service.IService#lock(eu.etaxonomy.cdm.model.common.ICdmBase, org.hibernate.LockMode)
137 public void lock(SpecimenOrObservationBase t
, LockOptions lockOptions
) {
138 defaultService
.lock(t
, lockOptions
);
144 * @param propertyPaths
145 * @see eu.etaxonomy.cdm.api.service.IService#refresh(eu.etaxonomy.cdm.model.common.ICdmBase, org.hibernate.LockMode, java.util.List)
148 public void refresh(SpecimenOrObservationBase t
, LockOptions lockOptions
, List
<String
> propertyPaths
) {
149 defaultService
.refresh(t
, lockOptions
, propertyPaths
);
154 * @see eu.etaxonomy.cdm.api.service.IIdentifiableEntityService#updateTitleCache()
157 public void updateTitleCache() {
158 defaultService
.updateTitleCache();
164 * @see eu.etaxonomy.cdm.api.service.IVersionableService#getNextAuditEvent(eu.etaxonomy.cdm.model.common.VersionableEntity)
167 public AuditEventRecord
<SpecimenOrObservationBase
> getNextAuditEvent(SpecimenOrObservationBase t
) {
168 return defaultService
.getNextAuditEvent(t
);
172 * @param annotatableEntity
177 * @param propertyPaths
179 * @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)
182 public Pager
<Marker
> getMarkers(SpecimenOrObservationBase annotatableEntity
, Boolean technical
, Integer pageSize
, Integer pageNumber
, List
<OrderHint
> orderHints
, List
<String
> propertyPaths
) {
183 return defaultService
.getMarkers(annotatableEntity
, technical
, pageSize
, pageNumber
, orderHints
, propertyPaths
);
189 * @param cacheStrategy
191 * @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)
194 public void updateTitleCache(Class
<?
extends SpecimenOrObservationBase
> clazz
, Integer stepSize
, IIdentifiableEntityCacheStrategy
<SpecimenOrObservationBase
> cacheStrategy
, IProgressMonitor monitor
) {
195 defaultService
.updateTitleCache(clazz
, stepSize
, cacheStrategy
, monitor
);
201 * @see eu.etaxonomy.cdm.api.service.IVersionableService#getPreviousAuditEvent(eu.etaxonomy.cdm.model.common.VersionableEntity)
204 public AuditEventRecord
<SpecimenOrObservationBase
> getPreviousAuditEvent(SpecimenOrObservationBase t
) {
205 return defaultService
.getPreviousAuditEvent(t
);
211 * @see eu.etaxonomy.cdm.api.service.IOccurrenceService#getCountryByIso(java.lang.String)
214 public Country
getCountryByIso(String iso639
) {
215 return defaultService
.getCountryByIso(iso639
);
221 * @see eu.etaxonomy.cdm.api.service.IService#count(java.lang.Class)
224 public int count(Class
<?
extends SpecimenOrObservationBase
> clazz
) {
225 return defaultService
.count(clazz
);
231 * @see eu.etaxonomy.cdm.api.service.IOccurrenceService#getCountryByName(java.lang.String)
234 public List
<Country
> getCountryByName(String name
) {
235 return defaultService
.getCountryByName(name
);
240 * @param determinedAs
244 * @param propertyPaths
246 * @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)
249 public Pager
<SpecimenOrObservationBase
> list(Class
<?
extends SpecimenOrObservationBase
> type
, TaxonBase determinedAs
, Integer limit
, Integer start
, List
<OrderHint
> orderHints
, List
<String
> propertyPaths
) {
250 return defaultService
.list(type
, determinedAs
, limit
, start
, orderHints
, propertyPaths
);
261 * @param propertyPaths
263 * @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)
266 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
) {
267 return defaultService
.pageAuditEvents(clazz
, from
, to
, criteria
, pageSize
, pageValue
, sort
, propertyPaths
);
273 * @see eu.etaxonomy.cdm.api.service.IIdentifiableEntityService#find(eu.etaxonomy.cdm.model.common.LSID)
276 public SpecimenOrObservationBase
find(LSID lsid
) {
277 return defaultService
.find(lsid
);
281 * @param persistentObject
283 * @see eu.etaxonomy.cdm.api.service.IService#delete(eu.etaxonomy.cdm.model.common.ICdmBase)
286 public DeleteResult
delete(SpecimenOrObservationBase persistentObject
) {
287 return defaultService
.delete(persistentObject
);
295 * @param propertyPaths
297 * @see eu.etaxonomy.cdm.api.service.IAnnotatableService#groupMarkers(java.lang.Class, java.lang.Boolean, java.lang.Integer, java.lang.Integer, java.util.List)
300 public List
<Object
[]> groupMarkers(Class
<?
extends SpecimenOrObservationBase
> clazz
, Boolean technical
, Integer pageSize
, Integer pageNumber
, List
<String
> propertyPaths
) {
301 return defaultService
.groupMarkers(clazz
, technical
, pageSize
, pageNumber
, propertyPaths
);
307 * @see eu.etaxonomy.cdm.api.service.IService#exists(java.util.UUID)
310 public boolean exists(UUID uuid
) {
311 return defaultService
.exists(uuid
);
318 * @see eu.etaxonomy.cdm.api.service.IIdentifiableEntityService#replace(eu.etaxonomy.cdm.model.common.IdentifiableEntity, eu.etaxonomy.cdm.model.common.IdentifiableEntity)
321 public SpecimenOrObservationBase
replace(SpecimenOrObservationBase x
, SpecimenOrObservationBase y
) {
322 return defaultService
.replace(x
, y
);
328 * @see eu.etaxonomy.cdm.api.service.IService#find(java.util.Set)
331 public List
<SpecimenOrObservationBase
> find(Set
<UUID
> uuidSet
) {
332 return defaultService
.find(uuidSet
);
339 * @param propertyPaths
341 * @see eu.etaxonomy.cdm.api.service.IIdentifiableEntityService#getSources(eu.etaxonomy.cdm.model.common.IdentifiableEntity, java.lang.Integer, java.lang.Integer, java.util.List)
344 public Pager
<IdentifiableSource
> getSources(SpecimenOrObservationBase t
, Integer pageSize
, Integer pageNumber
, List
<String
> propertyPaths
) {
345 return defaultService
.getSources(t
, pageSize
, pageNumber
, propertyPaths
);
351 * @see eu.etaxonomy.cdm.api.service.IService#find(java.util.UUID)
354 public SpecimenOrObservationBase
find(UUID uuid
) {
355 return defaultService
.find(uuid
);
361 * @see eu.etaxonomy.cdm.api.service.IService#find(int)
364 public SpecimenOrObservationBase
find(int id
) {
365 return defaultService
.find(id
);
372 * @param propertyPaths
374 * @see eu.etaxonomy.cdm.api.service.IIdentifiableEntityService#getRights(eu.etaxonomy.cdm.model.common.IdentifiableEntity, java.lang.Integer, java.lang.Integer, java.util.List)
377 public Pager
<Rights
> getRights(SpecimenOrObservationBase t
, Integer pageSize
, Integer pageNumber
, List
<String
> propertyPaths
) {
378 return defaultService
.getRights(t
, pageSize
, pageNumber
, propertyPaths
);
385 * @see eu.etaxonomy.cdm.api.service.IAnnotatableService#countMarkers(java.lang.Class, java.lang.Boolean)
388 public int countMarkers(Class
<?
extends SpecimenOrObservationBase
> clazz
, Boolean technical
) {
389 return defaultService
.countMarkers(clazz
, technical
);
396 * @param propertyPaths
398 * @see eu.etaxonomy.cdm.api.service.IOccurrenceService#getMedia(eu.etaxonomy.cdm.model.occurrence.SpecimenOrObservationBase, java.lang.Integer, java.lang.Integer, java.util.List)
401 public Pager
<Media
> getMedia(SpecimenOrObservationBase occurence
, Integer pageSize
, Integer pageNumber
, List
<String
> propertyPaths
) {
402 return defaultService
.getMedia(occurence
, pageSize
, pageNumber
, propertyPaths
);
408 * @see eu.etaxonomy.cdm.api.service.IService#findById(java.util.Set)
411 public List
<SpecimenOrObservationBase
> findById(Set
<Integer
> idSet
) {
412 return defaultService
.findById(idSet
);
420 * @see eu.etaxonomy.cdm.api.service.IIdentifiableEntityService#getSourcedObjectByIdInSource(java.lang.Class, java.lang.String, java.lang.String)
423 public ISourceable
getSourcedObjectByIdInSource(Class clazz
, String idInSource
, String idNamespace
) {
424 return defaultService
.getSourcedObjectByIdInSource(clazz
, idInSource
, idNamespace
);
429 * @see eu.etaxonomy.cdm.api.service.IService#getSession()
432 public Session
getSession() {
433 return defaultService
.getSession();
438 * @see eu.etaxonomy.cdm.api.service.IIdentifiableEntityService#getUuidAndTitleCache()
441 public List
<UuidAndTitleCache
<SpecimenOrObservationBase
>> getUuidAndTitleCache() {
442 return defaultService
.getUuidAndTitleCache();
450 * @param propertyPaths
452 * @see eu.etaxonomy.cdm.api.service.IService#group(java.lang.Class, java.lang.Integer, java.lang.Integer, java.util.List, java.util.List)
455 public List
<Object
[]> group(Class
<?
extends SpecimenOrObservationBase
> clazz
, Integer limit
, Integer start
, List
<Grouping
> groups
, List
<String
> propertyPaths
) {
456 return defaultService
.group(clazz
, limit
, start
, groups
, propertyPaths
);
464 * @param propertyPaths
466 * @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)
469 public Pager
<DeterminationEvent
> getDeterminations(SpecimenOrObservationBase occurence
, TaxonBase taxonBase
, Integer pageSize
, Integer pageNumber
, List
<String
> propertyPaths
) {
470 return defaultService
.getDeterminations(occurence
, taxonBase
, pageSize
, pageNumber
, propertyPaths
);
481 * @param propertyPaths
483 * @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)
486 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
) {
487 return defaultService
.findByTitle(clazz
, queryString
, matchmode
, criteria
, pageSize
, pageNumber
, orderHints
, propertyPaths
);
494 * @param propertyPaths
496 * @see eu.etaxonomy.cdm.api.service.IOccurrenceService#getDerivationEvents(eu.etaxonomy.cdm.model.occurrence.SpecimenOrObservationBase, java.lang.Integer, java.lang.Integer, java.util.List)
499 public Pager
<DerivationEvent
> getDerivationEvents(SpecimenOrObservationBase occurence
, Integer pageSize
, Integer pageNumber
, List
<String
> propertyPaths
) {
500 return defaultService
.getDerivationEvents(occurence
, pageSize
, pageNumber
, propertyPaths
);
508 * @param propertyPaths
510 * @see eu.etaxonomy.cdm.api.service.IService#list(java.lang.Class, java.lang.Integer, java.lang.Integer, java.util.List, java.util.List)
513 public <S
extends SpecimenOrObservationBase
> List
<S
> list(Class
<S
> type
, Integer limit
, Integer start
, List
<OrderHint
> orderHints
, List
<String
> propertyPaths
) {
514 return defaultService
.list(type
, limit
, start
, orderHints
, propertyPaths
);
523 * @param propertyPaths
525 * @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)
528 public Pager
<SpecimenOrObservationBase
> search(Class
<?
extends SpecimenOrObservationBase
> clazz
, String query
, Integer pageSize
, Integer pageNumber
, List
<OrderHint
> orderHints
, List
<String
> propertyPaths
) {
529 return defaultService
.search(clazz
, query
, pageSize
, pageNumber
, orderHints
, propertyPaths
);
533 * @param configurator
535 * @see eu.etaxonomy.cdm.api.service.IIdentifiableEntityService#findByTitle(eu.etaxonomy.cdm.api.service.config.IIdentifiableEntityServiceConfigurator)
538 public Pager
<SpecimenOrObservationBase
> findByTitle(IIdentifiableEntityServiceConfigurator
<SpecimenOrObservationBase
> configurator
) {
539 return defaultService
.findByTitle(configurator
);
548 * @see eu.etaxonomy.cdm.api.service.IIdentifiableEntityService#countByTitle(java.lang.Class, java.lang.String, eu.etaxonomy.cdm.persistence.query.MatchMode, java.util.List)
551 public Integer
countByTitle(Class
<?
extends SpecimenOrObservationBase
> clazz
, String queryString
, MatchMode matchmode
, List
<Criterion
> criteria
) {
552 return defaultService
.countByTitle(clazz
, queryString
, matchmode
, criteria
);
558 * @see eu.etaxonomy.cdm.api.service.IService#load(java.util.UUID)
561 public SpecimenOrObservationBase
load(UUID uuid
) {
562 return defaultService
.load(uuid
);
567 * @param propertyPaths
569 * @see eu.etaxonomy.cdm.api.service.IService#load(java.util.UUID, java.util.List)
572 public SpecimenOrObservationBase
load(UUID uuid
, List
<String
> propertyPaths
) {
573 return defaultService
.load(uuid
, propertyPaths
);
577 * @param configurator
579 * @see eu.etaxonomy.cdm.api.service.IIdentifiableEntityService#countByTitle(eu.etaxonomy.cdm.api.service.config.IIdentifiableEntityServiceConfigurator)
582 public Integer
countByTitle(IIdentifiableEntityServiceConfigurator
<SpecimenOrObservationBase
> configurator
) {
583 return defaultService
.countByTitle(configurator
);
588 * @see eu.etaxonomy.cdm.api.service.IOccurrenceService#getFieldUnitUuidAndTitleCache()
591 public List
<UuidAndTitleCache
<FieldUnit
>> getFieldUnitUuidAndTitleCache() {
592 return defaultService
.getFieldUnitUuidAndTitleCache();
597 * @see eu.etaxonomy.cdm.api.service.IOccurrenceService#getDerivedUnitUuidAndTitleCache()
600 public List
<UuidAndTitleCache
<DerivedUnit
>> getDerivedUnitUuidAndTitleCache() {
601 return defaultService
.getDerivedUnitUuidAndTitleCache();
605 * @param transientObject
607 * @see eu.etaxonomy.cdm.api.service.IService#merge(eu.etaxonomy.cdm.model.common.ICdmBase)
610 public SpecimenOrObservationBase
merge(SpecimenOrObservationBase transientObject
) {
611 return defaultService
.merge(transientObject
);
616 * @param propertyPaths
618 * @throws DerivedUnitFacadeNotSupportedException
619 * @see eu.etaxonomy.cdm.api.service.IOccurrenceService#getDerivedUnitFacade(eu.etaxonomy.cdm.model.occurrence.DerivedUnit, java.util.List)
622 public DerivedUnitFacade
getDerivedUnitFacade(DerivedUnit derivedUnit
, List
<String
> propertyPaths
) throws DerivedUnitFacadeNotSupportedException
{
623 return defaultService
.getDerivedUnitFacade(derivedUnit
, propertyPaths
);
634 * @param propertyPaths
636 * @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)
639 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
) {
640 return defaultService
.listByTitle(clazz
, queryString
, matchmode
, criteria
, pageSize
, pageNumber
, orderHints
, propertyPaths
);
645 * @param propertyPaths
647 * @see eu.etaxonomy.cdm.api.service.IOccurrenceService#listDerivedUnitFacades(eu.etaxonomy.cdm.model.description.DescriptionBase, java.util.List)
650 public List
<DerivedUnitFacade
> listDerivedUnitFacades(DescriptionBase description
, List
<String
> propertyPaths
) {
651 return defaultService
.listDerivedUnitFacades(description
, propertyPaths
);
659 * @param propertyPaths
661 * @see eu.etaxonomy.cdm.api.service.IService#page(java.lang.Class, java.lang.Integer, java.lang.Integer, java.util.List, java.util.List)
664 public <S
extends SpecimenOrObservationBase
> Pager
<S
> page(Class
<S
> type
, Integer pageSize
, Integer pageNumber
, List
<OrderHint
> orderHints
, List
<String
> propertyPaths
) {
665 return defaultService
.page(type
, pageSize
, pageNumber
, orderHints
, propertyPaths
);
670 * @param includeRelationships
671 * @param associatedTaxon
676 * @param propertyPaths
678 * @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)
681 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
) {
682 return defaultService
.listByAssociatedTaxon(type
, includeRelationships
, associatedTaxon
, maxDepth
, pageSize
, pageNumber
, orderHints
, propertyPaths
);
686 * @param persistentObject
688 * @see eu.etaxonomy.cdm.api.service.IService#refresh(eu.etaxonomy.cdm.model.common.ICdmBase)
691 public UUID
refresh(SpecimenOrObservationBase persistentObject
) {
692 return defaultService
.refresh(persistentObject
);
703 * @param propertyPaths
705 * @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)
708 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
) {
709 return defaultService
.listByReferenceTitle(clazz
, queryString
, matchmode
, criteria
, pageSize
, pageNumber
, orderHints
, propertyPaths
);
717 * @see eu.etaxonomy.cdm.api.service.IService#rows(java.lang.String, int, int)
720 public List
<SpecimenOrObservationBase
> rows(String tableName
, int limit
, int start
) {
721 return defaultService
.rows(tableName
, limit
, start
);
725 * @param newInstances
727 * @see eu.etaxonomy.cdm.api.service.IService#save(java.util.Collection)
730 public Map
<UUID
, SpecimenOrObservationBase
> save(Collection
<SpecimenOrObservationBase
> newInstances
) {
731 for(SpecimenOrObservationBase unit
:newInstances
){
739 * @param includeRelationships
740 * @param associatedTaxon
745 * @param propertyPaths
747 * @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)
750 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
) {
751 return defaultService
.pageByAssociatedTaxon(type
, includeRelationships
, associatedTaxon
, maxDepth
, pageSize
, pageNumber
, orderHints
, propertyPaths
);
757 * @see eu.etaxonomy.cdm.api.service.IService#save(eu.etaxonomy.cdm.model.common.ICdmBase)
760 public UUID
save(SpecimenOrObservationBase newInstance
) {
761 units
.add(newInstance
);
766 * @param transientObject
768 * @see eu.etaxonomy.cdm.api.service.IService#saveOrUpdate(eu.etaxonomy.cdm.model.common.ICdmBase)
771 public UUID
saveOrUpdate(SpecimenOrObservationBase transientObject
) {
772 units
.add(transientObject
);
777 * @param transientObjects
779 * @see eu.etaxonomy.cdm.api.service.IService#saveOrUpdate(java.util.Collection)
782 public Map
<UUID
, SpecimenOrObservationBase
> saveOrUpdate(Collection
<SpecimenOrObservationBase
> transientObjects
) {
783 for(SpecimenOrObservationBase unit
:transientObjects
){
794 * @param highlightFragments
798 * @param propertyPaths
800 * @throws CorruptIndexException
801 * @throws IOException
802 * @throws ParseException
803 * @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)
806 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
{
807 return defaultService
.findByFullText(clazz
, queryString
, boundingBox
, languages
, highlightFragments
, pageSize
, pageNumber
, orderHints
, propertyPaths
);
811 * @param transientObject
813 * @see eu.etaxonomy.cdm.api.service.IService#update(eu.etaxonomy.cdm.model.common.ICdmBase)
816 public UUID
update(SpecimenOrObservationBase transientObject
) {
817 return defaultService
.update(transientObject
);
822 * @param includeProperties
826 * @param propertyPaths
828 * @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)
831 public List
<SpecimenOrObservationBase
> list(SpecimenOrObservationBase example
, Set
<String
> includeProperties
, Integer limit
, Integer start
, List
<OrderHint
> orderHints
, List
<String
> propertyPaths
) {
832 return defaultService
.list(example
, includeProperties
, limit
, start
, orderHints
, propertyPaths
);
837 * @param matchStrategy
838 * @param mergeStrategy
840 * @see eu.etaxonomy.cdm.api.service.IIdentifiableEntityService#deduplicate(java.lang.Class, eu.etaxonomy.cdm.strategy.match.IMatchStrategy, eu.etaxonomy.cdm.strategy.merge.IMergeStrategy)
843 public int deduplicate(Class
<?
extends SpecimenOrObservationBase
> clazz
, IMatchStrategy matchStrategy
, IMergeStrategy mergeStrategy
) {
844 return defaultService
.deduplicate(clazz
, matchStrategy
, mergeStrategy
);
855 * @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)
858 public Pager
<SpecimenOrObservationBase
> findTitleCache(Class
<?
extends SpecimenOrObservationBase
> clazz
, String queryString
, Integer pageSize
, Integer pageNumber
, List
<OrderHint
> orderHints
, MatchMode matchMode
) {
859 return defaultService
.findTitleCache(clazz
, queryString
, pageSize
, pageNumber
, orderHints
, matchMode
);
865 public Collection
<SpecimenOrObservationBase
<?
>> getUnits() {
870 * @see eu.etaxonomy.cdm.api.service.IOccurrenceService#getFieldUnits(java.util.UUID)
873 public Collection
<FieldUnit
> getFieldUnits(UUID derivedUnitUuid
) {
874 return defaultService
.getFieldUnits(derivedUnitUuid
);
878 * @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)
881 public <T
extends SpecimenOrObservationBase
> Pager
<T
> pageByAssociatedTaxon(Class
<T
> type
,
882 Set
<TaxonRelationshipEdge
> includeRelationships
, String taxonUUID
, Integer maxDepth
, Integer pageSize
,
883 Integer pageNumber
, List
<OrderHint
> orderHints
, List
<String
> propertyPaths
) {
884 return defaultService
.pageByAssociatedTaxon(type
, includeRelationships
, taxonUUID
,
885 maxDepth
, pageSize
, pageNumber
, orderHints
, propertyPaths
);
889 * @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)
892 public boolean moveDerivate(SpecimenOrObservationBase
<?
> from
, SpecimenOrObservationBase
<?
> to
, DerivedUnit derivate
) {
893 return defaultService
.moveDerivate(from
, to
, derivate
);
897 * @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)
900 public boolean moveSequence(DnaSample from
, DnaSample to
, Sequence sequence
) {
901 return defaultService
.moveSequence(from
, to
, sequence
);
905 public DeleteResult
isDeletable(SpecimenOrObservationBase object
,
906 DeleteConfiguratorBase config
) {
907 return defaultService
.isDeletable(object
, config
);
911 * @see eu.etaxonomy.cdm.api.service.IOccurrenceService#countDeterminations(eu.etaxonomy.cdm.model.occurrence.SpecimenOrObservationBase, eu.etaxonomy.cdm.model.taxon.TaxonBase)
914 public int countDeterminations(SpecimenOrObservationBase occurence
, TaxonBase taxonbase
) {
915 return defaultService
.countDeterminations(occurence
, taxonbase
);
919 public SpecimenOrObservationBase
findWithoutFlush(UUID uuid
) {
920 return defaultService
.findWithoutFlush(uuid
);
924 * @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)
927 public Collection
<FieldUnit
> listFieldUnitsByAssociatedTaxon(Set
<TaxonRelationshipEdge
> includeRelationships
,
928 Taxon associatedTaxon
, Integer maxDepth
, Integer pageSize
, Integer pageNumber
, List
<OrderHint
> orderHints
,
929 List
<String
> propertyPaths
) {
930 return defaultService
.listFieldUnitsByAssociatedTaxon(includeRelationships
, associatedTaxon
, maxDepth
, pageSize
, pageNumber
, orderHints
, propertyPaths
);
934 * @see eu.etaxonomy.cdm.api.service.IOccurrenceService#assembleDerivateHierarchyDTO(eu.etaxonomy.cdm.model.occurrence.FieldUnit, java.util.UUID)
937 public DerivateHierarchyDTO
assembleDerivateHierarchyDTO(FieldUnit fieldUnit
, UUID associatedTaxonUuid
) {
938 return defaultService
.assembleDerivateHierarchyDTO(fieldUnit
, associatedTaxonUuid
);
942 * @see eu.etaxonomy.cdm.api.service.IOccurrenceService#getNonCascadedAssociatedElements(eu.etaxonomy.cdm.model.occurrence.SpecimenOrObservationBase, eu.etaxonomy.cdm.api.conversation.ConversationHolder)
945 public Collection
<ICdmBase
> getNonCascadedAssociatedElements(SpecimenOrObservationBase
<?
> specimen
) {
946 return defaultService
.getNonCascadedAssociatedElements(specimen
);
950 * @see eu.etaxonomy.cdm.api.service.IOccurrenceService#deleteDerivateHierarchy(eu.etaxonomy.cdm.model.common.ICdmBase)
953 public DeleteResult
deleteDerivateHierarchy(CdmBase from
, SpecimenDeleteConfigurator config
) {
954 return defaultService
.deleteDerivateHierarchy(from
, config
);
958 * @see eu.etaxonomy.cdm.api.service.IOccurrenceService#delete(eu.etaxonomy.cdm.model.occurrence.SpecimenOrObservationBase, eu.etaxonomy.cdm.api.service.config.SpecimenDeleteConfigurator)
961 public DeleteResult
delete(SpecimenOrObservationBase
<?
> specimen
, SpecimenDeleteConfigurator config
) {
962 return defaultService
.delete(specimen
, config
);
966 * @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)
969 public Collection
<IndividualsAssociation
> listIndividualsAssociations(SpecimenOrObservationBase
<?
> specimen
,
970 Integer limit
, Integer start
, List
<OrderHint
> orderHints
, List
<String
> propertyPaths
) {
971 return defaultService
.listIndividualsAssociations(specimen
, limit
, start
, orderHints
, propertyPaths
);
975 * @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)
978 public Collection
<SpecimenTypeDesignation
> listTypeDesignations(SpecimenOrObservationBase
<?
> specimen
,
979 Integer limit
, Integer start
, List
<OrderHint
> orderHints
, List
<String
> propertyPaths
) {
980 return defaultService
.listTypeDesignations(specimen
, limit
, start
, orderHints
, propertyPaths
);
984 * @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)
987 public Collection
<DescriptionBase
<?
>> listDescriptionsWithDescriptionSpecimen(
988 SpecimenOrObservationBase
<?
> specimen
, Integer limit
, Integer start
, List
<OrderHint
> orderHints
,
989 List
<String
> propertyPaths
) {
990 return defaultService
.listDescriptionsWithDescriptionSpecimen(specimen
, limit
, start
, orderHints
, propertyPaths
);