Uses of Class
ubic.gemma.persistence.util.Cursor

Packages that use Cursor

Package	Description
ubic.gemma.persistence.service
ubic.gemma.persistence.service.analysis.expression.diff
ubic.gemma.persistence.service.common.auditAndSecurity
ubic.gemma.persistence.service.common.auditAndSecurity.curation
ubic.gemma.persistence.service.expression.arrayDesign
ubic.gemma.persistence.service.expression.bioAssay
ubic.gemma.persistence.service.expression.designElement
ubic.gemma.persistence.service.expression.experiment
ubic.gemma.persistence.util

Uses of Cursor in ubic.gemma.persistence.service

Methods in ubic.gemma.persistence.service with parameters of type Cursor

Modifier and Type	Method	Description
CursorPage<VO>	AbstractFilteringVoEnabledService.loadValueObjectsByCursor(Filters filters, Sort sort, Cursor cursor, int limit)
CursorPage<VO>	AbstractQueryFilteringVoEnabledDao.loadValueObjectsByCursor(Filters filters, Sort sort, Cursor cursor, int limit)
default CursorPage<VO>	FilteringVoEnabledDao.loadValueObjectsByCursor(Filters filters, Sort sort, Cursor cursor, int limit)	Load VOs by keyset (cursor) pagination.
default CursorPage<VO>	FilteringVoEnabledService.loadValueObjectsByCursor(Filters filters, Sort sort, Cursor cursor, int limit)	Keyset (cursor) pagination — service-layer pass-through to FilteringVoEnabledDao.loadValueObjectsByCursor(Filters, Sort, Cursor, int).
CursorPage<VO>	AbstractQueryFilteringVoEnabledDao.loadValueObjectsByCursorWithCache(Filters filters, Sort sort, Cursor cursor, int limit)	Cursor-paged sister of AbstractQueryFilteringVoEnabledDao.loadValueObjectsWithCache(Filters, Sort, int, int).

Uses of Cursor in ubic.gemma.persistence.service.analysis.expression.diff

Methods in ubic.gemma.persistence.service.analysis.expression.diff with parameters of type Cursor

Modifier and Type	Method	Description
CursorPage<DifferentialExpressionAnalysisResultSetValueObject>	ExpressionAnalysisResultSetDao.findByBioAssaySetInAndDatabaseEntryInByCursor(Collection<BioAssaySet> bioAssaySets, Collection<DatabaseEntry> databaseEntries, Filters filters, Cursor cursor, int limit)	Cursor-paged counterpart to ExpressionAnalysisResultSetDao.findByBioAssaySetInAndDatabaseEntryInLimit(Collection, Collection, Filters, int, int, Sort): keyset pagination over the result sets associated to a set of BioAssaySet and external database entries, always sorted by ascending id.
CursorPage<DifferentialExpressionAnalysisResultSetValueObject>	ExpressionAnalysisResultSetDaoImpl.findByBioAssaySetInAndDatabaseEntryInByCursor(Collection<BioAssaySet> bioAssaySets, Collection<DatabaseEntry> databaseEntries, Filters filters, Cursor cursor, int limit)
CursorPage<DifferentialExpressionAnalysisResultSetValueObject>	ExpressionAnalysisResultSetService.findByBioAssaySetInAndDatabaseEntryInByCursor(Collection<BioAssaySet> bioAssaySets, Collection<DatabaseEntry> externalIds, Filters filters, Cursor cursor, int limit)	Cursor-paged counterpart to ExpressionAnalysisResultSetService.findByBioAssaySetInAndDatabaseEntryInLimit(Collection, Collection, Filters, int, int, Sort).
CursorPage<DifferentialExpressionAnalysisResultSetValueObject>	ExpressionAnalysisResultSetServiceImpl.findByBioAssaySetInAndDatabaseEntryInByCursor(Collection<BioAssaySet> bioAssaySets, Collection<DatabaseEntry> externalIds, Filters filters, Cursor cursor, int limit)

Uses of Cursor in ubic.gemma.persistence.service.common.auditAndSecurity

Methods in ubic.gemma.persistence.service.common.auditAndSecurity with parameters of type Cursor

Modifier and Type	Method	Description
CursorPage<AuditEvent>	AuditEventDao.getEventsByCursor(Auditable auditable, Cursor cursor, int limit)	Keyset-pagination counterpart to AuditEventDao.getEvents(Auditable) — cursor mode for GET /datasets/{dataset}/auditEvents (step 1q of CURSOR_PAGINATION_STEP1_PLAN.md).
CursorPage<AuditEvent>	AuditEventDaoImpl.getEventsByCursor(Auditable auditable, Cursor cursor, int limit)
CursorPage<AuditEvent>	AuditEventService.getEventsByCursor(Auditable auditable, Cursor cursor, int limit)	Keyset-pagination counterpart to AuditEventService.getEvents(Auditable) for the GET /datasets/{dataset}/auditEvents endpoint — see CURSOR_PAGINATION_STEP1_PLAN.md step 1q.
CursorPage<AuditEvent>	AuditEventServiceImpl.getEventsByCursor(Auditable auditable, Cursor cursor, int limit)

Uses of Cursor in ubic.gemma.persistence.service.common.auditAndSecurity.curation

Methods in ubic.gemma.persistence.service.common.auditAndSecurity.curation with parameters of type Cursor

Modifier and Type	Method	Description
CursorPage<TicketEvent>	TicketDao.findEventsByCursor(Ticket ticket, Cursor cursor, int limit)	Keyset-pagination counterpart to the Ticket.events collection on a single ticket — cursor mode for GET /tickets/{id}/events (step 1r of CURSOR_PAGINATION_STEP1_PLAN.md).
CursorPage<TicketEvent>	TicketDaoImpl.findEventsByCursor(Ticket ticket, Cursor cursor, int limit)
CursorPage<TicketEvent>	TicketService.findEventsByCursor(Ticket ticket, Cursor cursor, int limit)
CursorPage<TicketEvent>	TicketServiceImpl.findEventsByCursor(Ticket ticket, Cursor cursor, int limit)
CursorPage<Ticket>	TicketDao.findOpenForTargetByCursor(TicketTargetType targetType, Long targetId, Cursor cursor, int limit)	Keyset-pagination counterpart to TicketDao.findOpenForTarget(TicketTargetType, Long) — cursor mode for GET /datasets/{dataset}/tickets and the GET /platforms/{platform}/tickets sibling (step 1p of CURSOR_PAGINATION_STEP1_PLAN.md).
CursorPage<Ticket>	TicketDaoImpl.findOpenForTargetByCursor(TicketTargetType targetType, Long targetId, Cursor cursor, int limit)
CursorPage<Ticket>	TicketService.findOpenForTargetByCursor(TicketTargetType targetType, Long targetId, Cursor cursor, int limit)
CursorPage<Ticket>	TicketServiceImpl.findOpenForTargetByCursor(TicketTargetType targetType, Long targetId, Cursor cursor, int limit)
CursorPage<Ticket>	TicketDao.findTicketsByCursor(boolean openOnly, Long assigneeId, TicketPriority priority, TicketType type, TicketState state, TicketTargetType targetType, Date updatedSince, Cursor cursor, int limit)	Extended-filter cursor-mode counterpart to TicketDao.findTickets(boolean, Long, TicketPriority, TicketType, TicketState, TicketTargetType, Date, int, int).
CursorPage<Ticket>	TicketDao.findTicketsByCursor(boolean openOnly, Long assigneeId, TicketPriority priority, Cursor cursor, int limit)	Keyset-pagination counterpart to TicketDao.findTickets(boolean, Long, TicketPriority, int, int) — cursor mode for GET /tickets (step 1o of CURSOR_PAGINATION_STEP1_PLAN.md).
CursorPage<Ticket>	TicketDaoImpl.findTicketsByCursor(boolean openOnly, Long assigneeId, TicketPriority priority, TicketType type, TicketState state, TicketTargetType targetType, Date updatedSince, Cursor cursor, int limit)
CursorPage<Ticket>	TicketDaoImpl.findTicketsByCursor(boolean openOnly, Long assigneeId, TicketPriority priority, Cursor cursor, int limit)
CursorPage<Ticket>	TicketService.findTicketsByCursor(boolean openOnly, Long assigneeId, TicketPriority priority, TicketType type, TicketState state, TicketTargetType targetType, Date updatedSince, Cursor cursor, int limit)
CursorPage<Ticket>	TicketService.findTicketsByCursor(boolean openOnly, Long assigneeId, TicketPriority priority, Cursor cursor, int limit)
CursorPage<Ticket>	TicketServiceImpl.findTicketsByCursor(boolean openOnly, Long assigneeId, TicketPriority priority, TicketType type, TicketState state, TicketTargetType targetType, Date updatedSince, Cursor cursor, int limit)
CursorPage<Ticket>	TicketServiceImpl.findTicketsByCursor(boolean openOnly, Long assigneeId, TicketPriority priority, Cursor cursor, int limit)

Uses of Cursor in ubic.gemma.persistence.service.expression.arrayDesign

Methods in ubic.gemma.persistence.service.expression.arrayDesign with parameters of type Cursor

Modifier and Type	Method	Description
CursorPage<ArrayDesignValueObject>	ArrayDesignDao.loadBlacklistedValueObjectsByCursor(Filters filters, Sort sort, Cursor cursor, int limit)	Cursor-mode counterpart to ArrayDesignDao.loadBlacklistedValueObjects(Filters, Sort, int, int): keyset pagination over the blacklisted platforms, applying the same shortName/accession blacklist filter that the offset-mode variant composes — see CURSOR_PAGINATION_STEP1_PLAN.md step 1h.
CursorPage<ArrayDesignValueObject>	ArrayDesignDaoImpl.loadBlacklistedValueObjectsByCursor(Filters filters, Sort sort, Cursor cursor, int limit)
CursorPage<ArrayDesignValueObject>	ArrayDesignReadService.loadBlacklistedValueObjectsByCursor(Filters filters, Sort sort, Cursor cursor, int limit)	Cursor-mode counterpart to ArrayDesignReadService.loadBlacklistedValueObjects(Filters, Sort, int, int).
CursorPage<ArrayDesignValueObject>	ArrayDesignReadServiceImpl.loadBlacklistedValueObjectsByCursor(Filters filters, Sort sort, Cursor cursor, int limit)
CursorPage<ArrayDesignValueObject>	ArrayDesignService.loadBlacklistedValueObjectsByCursor(Filters filters, Sort sort, Cursor cursor, int limit)	Cursor-mode counterpart to ArrayDesignService.loadBlacklistedValueObjects(Filters, Sort, int, int) — see CURSOR_PAGINATION_STEP1_PLAN.md step 1h.
CursorPage<ArrayDesignValueObject>	ArrayDesignServiceImpl.loadBlacklistedValueObjectsByCursor(Filters filters, Sort sort, Cursor cursor, int limit)

Uses of Cursor in ubic.gemma.persistence.service.expression.bioAssay

Methods in ubic.gemma.persistence.service.expression.bioAssay with parameters of type Cursor

Modifier and Type	Method	Description
CursorPage<BioAssayValueObject>	BioAssayDao.loadValueObjectsByCursorForExpressionExperiment(ExpressionExperiment ee, Cursor cursor, int limit)	Cursor-paged listing of BioAssayValueObjects for a single ExpressionExperiment, sorted by ascending id — see CURSOR_PAGINATION_STEP1_PLAN.md step 1k.
CursorPage<BioAssayValueObject>	BioAssayDaoImpl.loadValueObjectsByCursorForExpressionExperiment(ExpressionExperiment ee, Cursor cursor, int limit)
CursorPage<BioAssayValueObject>	BioAssayReadService.loadValueObjectsByCursorForExpressionExperiment(ExpressionExperiment ee, Cursor cursor, int limit)
CursorPage<BioAssayValueObject>	BioAssayReadServiceImpl.loadValueObjectsByCursorForExpressionExperiment(ExpressionExperiment ee, Cursor cursor, int limit)
CursorPage<BioAssayValueObject>	BioAssayService.loadValueObjectsByCursorForExpressionExperiment(ExpressionExperiment ee, Cursor cursor, int limit)	Cursor-mode counterpart to the legacy unpaginated BioAssayDao EE-scoped sample listing — see CURSOR_PAGINATION_STEP1_PLAN.md step 1k.
CursorPage<BioAssayValueObject>	BioAssayServiceImpl.loadValueObjectsByCursorForExpressionExperiment(ExpressionExperiment ee, Cursor cursor, int limit)
CursorPage<BioAssayValueObject>	BioAssayDao.loadValueObjectsByCursorForSubSet(ExpressionExperimentSubSet subset, Cursor cursor, int limit)	Cursor-paged listing of BioAssayValueObjects for a single ExpressionExperimentSubSet, sorted by ascending id — see CURSOR_PAGINATION_STEP1_PLAN.md step 1u (the subset-scoped twin of step 1k).
CursorPage<BioAssayValueObject>	BioAssayDaoImpl.loadValueObjectsByCursorForSubSet(ExpressionExperimentSubSet subset, Cursor cursor, int limit)
CursorPage<BioAssayValueObject>	BioAssayReadService.loadValueObjectsByCursorForSubSet(ExpressionExperimentSubSet subset, Cursor cursor, int limit)
CursorPage<BioAssayValueObject>	BioAssayReadServiceImpl.loadValueObjectsByCursorForSubSet(ExpressionExperimentSubSet subset, Cursor cursor, int limit)
CursorPage<BioAssayValueObject>	BioAssayService.loadValueObjectsByCursorForSubSet(ExpressionExperimentSubSet subset, Cursor cursor, int limit)	Cursor-mode counterpart to the legacy unpaginated subset-scoped sample listing — see CURSOR_PAGINATION_STEP1_PLAN.md step 1u.
CursorPage<BioAssayValueObject>	BioAssayServiceImpl.loadValueObjectsByCursorForSubSet(ExpressionExperimentSubSet subset, Cursor cursor, int limit)

Uses of Cursor in ubic.gemma.persistence.service.expression.designElement

Methods in ubic.gemma.persistence.service.expression.designElement with parameters of type Cursor

Modifier and Type	Method	Description
CursorPage<CompositeSequence>	CompositeSequenceDao.findByGeneByCursor(Gene gene, Cursor cursor, int limit, boolean useGene2Cs)	Cursor-paged listing of CompositeSequences associated with a single Gene across all platforms — see CURSOR_PAGINATION_STEP1_PLAN.md step 1m.
CursorPage<CompositeSequence>	CompositeSequenceDaoImpl.findByGeneByCursor(Gene gene, Cursor cursor, int limit, boolean useGene2Cs)
CursorPage<Gene>	CompositeSequenceDao.getGenesByCursor(CompositeSequence compositeSequence, Cursor cursor, int limit, boolean useGene2Cs)	Cursor-paged listing of Genes associated with a single CompositeSequence — see CURSOR_PAGINATION_STEP1_PLAN.md step 1l.
CursorPage<Gene>	CompositeSequenceDaoImpl.getGenesByCursor(CompositeSequence compositeSequence, Cursor cursor, int limit, boolean useGene2Cs)
CursorPage<Gene>	CompositeSequenceReadService.getGenesByCursor(CompositeSequence compositeSequence, Cursor cursor, int limit, boolean useGene2Cs)
CursorPage<Gene>	CompositeSequenceReadServiceImpl.getGenesByCursor(CompositeSequence compositeSequence, Cursor cursor, int limit, boolean useGene2Cs)
CursorPage<Gene>	CompositeSequenceService.getGenesByCursor(CompositeSequence compositeSequence, Cursor cursor, int limit, boolean useGene2Cs)	Cursor-mode counterpart to CompositeSequenceService.getGenes(CompositeSequence, int, int, boolean) — see CURSOR_PAGINATION_STEP1_PLAN.md step 1l.
CursorPage<Gene>	CompositeSequenceServiceImpl.getGenesByCursor(CompositeSequence compositeSequence, Cursor cursor, int limit, boolean useGene2Cs)
CursorPage<CompositeSequenceValueObject>	CompositeSequenceService.loadValueObjectsForGeneByCursor(Gene gene, Cursor cursor, int limit, boolean useGene2Cs)	Cursor-mode counterpart to CompositeSequenceService.loadValueObjectsForGene(Gene, int, int, boolean) — see CURSOR_PAGINATION_STEP1_PLAN.md step 1m.
CursorPage<CompositeSequenceValueObject>	CompositeSequenceServiceImpl.loadValueObjectsForGeneByCursor(Gene gene, Cursor cursor, int limit, boolean useGene2Cs)

Uses of Cursor in ubic.gemma.persistence.service.expression.experiment

Methods in ubic.gemma.persistence.service.expression.experiment with parameters of type Cursor

Modifier and Type	Method	Description
CursorPage<ExpressionExperimentValueObject>	ExpressionExperimentDao.loadBlacklistedValueObjectsByCursor(Filters filters, Sort sort, Cursor cursor, int limit)	Cursor-mode counterpart to ExpressionExperimentDao.loadBlacklistedValueObjects(Filters, Sort, int, int): keyset pagination over the blacklisted-experiment view.
CursorPage<ExpressionExperimentValueObject>	ExpressionExperimentDaoImpl.loadBlacklistedValueObjectsByCursor(Filters filters, Sort sort, Cursor cursor, int limit)
CursorPage<ExpressionExperimentValueObject>	ExpressionExperimentReadService.loadBlacklistedValueObjectsByCursor(Filters filters, Sort sort, Cursor cursor, int limit)	Cursor-mode counterpart to ExpressionExperimentReadService.loadBlacklistedValueObjects(Filters, Sort, int, int).
CursorPage<ExpressionExperimentValueObject>	ExpressionExperimentReadServiceImpl.loadBlacklistedValueObjectsByCursor(Filters filters, Sort sort, Cursor cursor, int limit)
CursorPage<ExpressionExperimentValueObject>	ExpressionExperimentService.loadBlacklistedValueObjectsByCursor(Filters filters, Sort sort, Cursor cursor, int limit)	Cursor-mode counterpart to ExpressionExperimentService.loadBlacklistedValueObjects(Filters, Sort, int, int).
CursorPage<ExpressionExperimentValueObject>	ExpressionExperimentServiceImpl.loadBlacklistedValueObjectsByCursor(Filters filters, Sort sort, Cursor cursor, int limit)

Uses of Cursor in ubic.gemma.persistence.util

Methods in ubic.gemma.persistence.util that return Cursor

Modifier and Type	Method	Description
static Cursor	Cursor.decode(String encoded)	Decode a base64url-encoded cursor string.