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

Packages that use Sort

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.designElement
ubic.gemma.persistence.service.expression.experiment
ubic.gemma.persistence.service.genome
ubic.gemma.persistence.service.genome.taxon
ubic.gemma.persistence.util
ubic.gemma.rest
ubic.gemma.rest.util
ubic.gemma.rest.util.args

Uses of Sort in ubic.gemma.persistence.service

Methods in ubic.gemma.persistence.service that return Sort

Modifier and Type	Method	Description
final Sort	AbstractFilteringVoEnabledDao.getSort(String property, Sort.Direction direction, Sort.NullMode nullMode)
Sort	AbstractFilteringVoEnabledService.getSort(String property, Sort.Direction direction, Sort.NullMode nullMode)
final Sort	AbstractNoopFilteringVoEnabledDao.getSort(String property, Sort.Direction direction, Sort.NullMode nullMode)
Sort	FilteringDao.getSort(String property, Sort.Direction direction, Sort.NullMode nullMode)	Obtain a Sort object for a property of the FilteringDao.
Sort	FilteringService.getSort(String property, Sort.Direction direction, Sort.NullMode last)

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

Modifier and Type	Method	Description
protected Query	AbstractQueryFilteringVoEnabledDao.getFilteringIdQuery(Filters filters, Sort sort)	Produce a query that will be used to retrieve IDs of AbstractQueryFilteringVoEnabledDao.getFilteringQuery(Filters, Sort).
protected abstract Query	AbstractQueryFilteringVoEnabledDao.getFilteringQuery(Filters filters, Sort sort)	Produce a query for retrieving value objects after applying a set of filters and a given ordering.
List<O>	AbstractCriteriaFilteringVoEnabledDao.load(Filters filters, Sort sort)
Slice<O>	AbstractCriteriaFilteringVoEnabledDao.load(Filters filters, Sort sort, int offset, int limit)
List<O>	AbstractFilteringVoEnabledService.load(Filters filters, Sort sort)
Slice<O>	AbstractFilteringVoEnabledService.load(Filters filters, Sort sort, int offset, int limit)
final List<O>	AbstractNoopFilteringVoEnabledDao.load(Filters filters, Sort sort)
final Slice<O>	AbstractNoopFilteringVoEnabledDao.load(Filters filters, Sort sort, int offset, int limit)
List<O>	AbstractQueryFilteringVoEnabledDao.load(Filters filters, Sort sort)
Slice<O>	AbstractQueryFilteringVoEnabledDao.load(Filters filters, Sort sort, int offset, int limit)
List<O>	FilteringDao.load(Filters filters, Sort sort)	Load entities matching the given filters.
Slice<O>	FilteringDao.load(Filters filters, Sort sort, int offset, int limit)	Load a slice of entities matching the given filters.
List<O>	FilteringService.load(Filters filters, Sort sort)
Slice<O>	FilteringService.load(Filters filters, Sort sort, int offset, int limit)
List<Long>	AbstractCriteriaFilteringVoEnabledDao.loadIds(Filters filters, Sort sort)
List<Long>	AbstractFilteringVoEnabledService.loadIds(Filters filters, Sort sort)
final List<Long>	AbstractNoopFilteringVoEnabledDao.loadIds(Filters filters, Sort sort)
List<Long>	AbstractQueryFilteringVoEnabledDao.loadIds(Filters filters, Sort sort)
List<Long>	FilteringDao.loadIds(Filters filters, Sort sort)	Load IDs of entities matching the given filters.
List<Long>	FilteringService.loadIds(Filters filters, Sort sort)
List<Long>	AbstractQueryFilteringVoEnabledDao.loadIdsWithCache(Filters filters, Sort sort)
List<Long>	CachedFilteringDao.loadIdsWithCache(Filters filters, Sort sort)
List<VO>	AbstractCriteriaFilteringVoEnabledDao.loadValueObjects(Filters filters, Sort sort)
Slice<VO>	AbstractCriteriaFilteringVoEnabledDao.loadValueObjects(Filters filters, Sort sort, int offset, int limit)
List<VO>	AbstractFilteringVoEnabledService.loadValueObjects(Filters filters, Sort sort)
Slice<VO>	AbstractFilteringVoEnabledService.loadValueObjects(Filters filters, Sort sort, int offset, int limit)
final List<VO>	AbstractNoopFilteringVoEnabledDao.loadValueObjects(Filters filters, Sort sort)
final Slice<VO>	AbstractNoopFilteringVoEnabledDao.loadValueObjects(Filters filters, Sort sort, int offset, int limit)
List<VO>	AbstractQueryFilteringVoEnabledDao.loadValueObjects(Filters filters, Sort sort)
Slice<VO>	AbstractQueryFilteringVoEnabledDao.loadValueObjects(Filters filters, Sort sort, int offset, int limit)
List<VO>	FilteringVoEnabledDao.loadValueObjects(Filters filters, Sort sort)	Load VOs with minimal ordering and filtering.
Slice<VO>	FilteringVoEnabledDao.loadValueObjects(Filters filters, Sort sort, int offset, int limit)	Load VOs with ordering, filtering and offset/limit.
List<VO>	FilteringVoEnabledService.loadValueObjects(Filters filters, Sort sort)
Slice<VO>	FilteringVoEnabledService.loadValueObjects(Filters filters, Sort sort, int offset, int limit)
List<VO>	AbstractQueryFilteringVoEnabledDao.loadValueObjectsWithCache(Filters filters, Sort sort)
Slice<VO>	AbstractQueryFilteringVoEnabledDao.loadValueObjectsWithCache(Filters filters, Sort sort, int offset, int limit)
List<VO>	CachedFilteringVoEnabledDao.loadValueObjectsWithCache(Filters filters, Sort sort)
Slice<VO>	CachedFilteringVoEnabledDao.loadValueObjectsWithCache(Filters filters, Sort sort, int offset, int limit)
List<O>	AbstractQueryFilteringVoEnabledDao.loadWithCache(Filters filters, Sort sort)
Slice<O>	AbstractQueryFilteringVoEnabledDao.loadWithCache(Filters filters, Sort sort, int offset, int limit)
List<O>	CachedFilteringDao.loadWithCache(Filters filters, Sort sort)
Slice<O>	CachedFilteringDao.loadWithCache(Filters filters, Sort sort, int offset, int limit)

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

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

Modifier and Type	Method	Description
Slice<DifferentialExpressionAnalysisResultSetValueObject>	ExpressionAnalysisResultSetDao.findByBioAssaySetInAndDatabaseEntryInLimit(Collection<BioAssaySet> bioAssaySets, Collection<DatabaseEntry> databaseEntries, Filters filters, int offset, int limit, Sort sort)	Retrieve result sets associated to a set of BioAssaySet and external database entries.
Slice<DifferentialExpressionAnalysisResultSetValueObject>	ExpressionAnalysisResultSetDaoImpl.findByBioAssaySetInAndDatabaseEntryInLimit(Collection<BioAssaySet> bioAssaySets, Collection<DatabaseEntry> databaseEntries, Filters filters, int offset, int limit, Sort sort)
Slice<DifferentialExpressionAnalysisResultSetValueObject>	ExpressionAnalysisResultSetService.findByBioAssaySetInAndDatabaseEntryInLimit(Collection<BioAssaySet> bioAssaySets, Collection<DatabaseEntry> externalIds, Filters filters, int offset, int limit, Sort sort)
Slice<DifferentialExpressionAnalysisResultSetValueObject>	ExpressionAnalysisResultSetServiceImpl.findByBioAssaySetInAndDatabaseEntryInLimit(Collection<BioAssaySet> bioAssaySets, Collection<DatabaseEntry> externalIds, Filters filters, int offset, int limit, Sort sort)

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

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

Modifier and Type	Method	Description
List<C>	SecurableFilteringVoEnabledService.load(Filters filters, Sort sort)
Slice<C>	SecurableFilteringVoEnabledService.load(Filters filters, Sort sort, int offset, int limit)
List<Long>	SecurableFilteringVoEnabledService.loadIds(Filters filters, Sort sort)
List<VO>	SecurableFilteringVoEnabledService.loadValueObjects(Filters filters, Sort sort)
Slice<VO>	SecurableFilteringVoEnabledService.loadValueObjects(Filters filters, Sort sort, int offset, int limit)

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

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

Modifier and Type	Method	Description
protected String	AbstractCuratableDao.groupByIfNecessary(Sort sort, String... oneToManyAliases)	Similar logic to AbstractCuratableDao.distinctIfNecessary(), but using a group by since it's more efficient.

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

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

Modifier and Type	Method	Description
protected Query	ArrayDesignDaoImpl.getFilteringIdQuery(Filters filters, Sort sort)
protected Query	ArrayDesignDaoImpl.getFilteringQuery(Filters filters, Sort sort)
Slice<ArrayDesignValueObject>	ArrayDesignDao.loadBlacklistedValueObjects(Filters filters, Sort sort, int offset, int limit)
Slice<ArrayDesignValueObject>	ArrayDesignDaoImpl.loadBlacklistedValueObjects(Filters filters, Sort sort, int offset, int limit)
Slice<ArrayDesignValueObject>	ArrayDesignService.loadBlacklistedValueObjects(Filters filters, Sort sort, int offset, int limit)	No need for ACL_VALUE_OBJECT_COLLECTION_READ because the filtering is done in the query.
Slice<ArrayDesignValueObject>	ArrayDesignServiceImpl.loadBlacklistedValueObjects(Filters filters, Sort sort, int offset, int limit)
Collection<ArrayDesignValueObject>	ArrayDesignService.loadValueObjectsWithCache(Filters filters, Sort sort)
Collection<ArrayDesignValueObject>	ArrayDesignServiceImpl.loadValueObjectsWithCache(Filters filters, Sort sort)

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

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

Modifier and Type	Method	Description
protected Query	CompositeSequenceDaoImpl.getFilteringIdQuery(Filters filters, Sort sort)
protected Query	CompositeSequenceDaoImpl.getFilteringQuery(Filters filters, Sort sort)

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

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

Modifier and Type	Method	Description
protected Query	ExpressionExperimentDaoImpl.getFilteringIdQuery(Filters filters, Sort sort)
protected Query	ExpressionExperimentDaoImpl.getFilteringQuery(Filters filters, Sort sort)
Slice<ExpressionExperimentValueObject>	ExpressionExperimentDao.loadBlacklistedValueObjects(Filters filters, Sort sort, int offset, int limit)
Slice<ExpressionExperimentValueObject>	ExpressionExperimentDaoImpl.loadBlacklistedValueObjects(Filters filters, Sort sort, int offset, int limit)
Slice<ExpressionExperimentValueObject>	ExpressionExperimentService.loadBlacklistedValueObjects(Filters filters, Sort sort, int offset, int limit)
Slice<ExpressionExperimentValueObject>	ExpressionExperimentServiceImpl.loadBlacklistedValueObjects(Filters filters, Sort sort, int offset, int limit)
Slice<ExpressionExperimentDetailsValueObject>	ExpressionExperimentDao.loadDetailsValueObjects(Collection<Long> ids, Taxon taxon, Sort sort, int offset, int limit)	Special method for front-end access.
Slice<ExpressionExperimentDetailsValueObject>	ExpressionExperimentDaoImpl.loadDetailsValueObjects(Collection<Long> ids, Taxon taxon, Sort sort, int offset, int limit)
Slice<ExpressionExperimentDetailsValueObject>	ExpressionExperimentService.loadDetailsValueObjects(Collection<Long> ids, Taxon taxon, Sort sort, int offset, int limit)
Slice<ExpressionExperimentDetailsValueObject>	ExpressionExperimentServiceImpl.loadDetailsValueObjects(Collection<Long> ids, Taxon taxon, Sort sort, int offset, int limit)
Slice<ExpressionExperimentDetailsValueObject>	ExpressionExperimentDao.loadDetailsValueObjectsByIdsWithCache(Collection<Long> ids, Taxon taxon, Sort sort, int offset, int limit)	Flavour of ExpressionExperimentDao.loadDetailsValueObjectsByIds(Collection), but using the query cache.
Slice<ExpressionExperimentDetailsValueObject>	ExpressionExperimentDaoImpl.loadDetailsValueObjectsByIdsWithCache(Collection<Long> ids, Taxon taxon, Sort sort, int offset, int limit)
Slice<ExpressionExperimentDetailsValueObject>	ExpressionExperimentService.loadDetailsValueObjectsWithCache(Collection<Long> ids, Taxon taxon, Sort sort, int offset, int limit)
Slice<ExpressionExperimentDetailsValueObject>	ExpressionExperimentServiceImpl.loadDetailsValueObjectsWithCache(Collection<Long> ids, Taxon taxon, Sort sort, int offset, int limit)
List<Long>	ExpressionExperimentService.loadIdsWithCache(Filters filters, Sort sort)
List<Long>	ExpressionExperimentServiceImpl.loadIdsWithCache(Filters filters, Sort sort)
List<ExpressionExperimentValueObject>	ExpressionExperimentDaoImpl.loadValueObjects(Filters filters, Sort sort)
Slice<ExpressionExperimentValueObject>	ExpressionExperimentDaoImpl.loadValueObjects(Filters filters, Sort sort, int offset, int limit)
Slice<ExpressionExperimentValueObject>	ExpressionExperimentService.loadValueObjectsWithCache(Filters filters, Sort sort, int offset, int limit)
Slice<ExpressionExperimentValueObject>	ExpressionExperimentServiceImpl.loadValueObjectsWithCache(Filters filters, Sort sort, int offset, int limit)

Uses of Sort in ubic.gemma.persistence.service.genome

Methods in ubic.gemma.persistence.service.genome with parameters of type Sort

Modifier and Type	Method	Description
protected Query	GeneDaoImpl.getFilteringQuery(Filters filters, Sort sort)

Uses of Sort in ubic.gemma.persistence.service.genome.taxon

Methods in ubic.gemma.persistence.service.genome.taxon with parameters of type Sort

Modifier and Type	Method	Description
protected Query	TaxonDaoImpl.getFilteringQuery(Filters filters, Sort sort)

Uses of Sort in ubic.gemma.persistence.util

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

Modifier and Type	Method	Description
Sort	Sort.andThen(Sort andThen)	Add a next sort.
static Sort	Sort.by(String alias, String propertyName, Sort.Direction direction, Sort.NullMode nullMode)	Create a sort without an original property.
static Sort	Sort.by(String alias, String propertyName, Sort.Direction direction, Sort.NullMode nullMode, String originalProperty)	Create a Sort for a given alias, property and direction.
Sort	Sort.getAndThen()
Sort	Slice.getSort()

Methods in ubic.gemma.persistence.util with parameters of type Sort

Modifier and Type	Method	Description
Sort	Sort.andThen(Sort andThen)	Add a next sort.
static boolean	FiltersUtils.containsAnyAlias(Filters filters, Sort sort, String... aliases)	Check if an alias is mentioned in a set of Filter.
static String	FilterQueryUtils.formOrderByClause(Sort sort)	Forms an order by clause for a Hibernate query based on given arguments.

Constructors in ubic.gemma.persistence.util with parameters of type Sort

Modifier	Constructor	Description
	Slice(List<O> elements, Sort sort, Integer offset, Integer limit, Long totalElements)

Uses of Sort in ubic.gemma.rest

Constructors in ubic.gemma.rest with parameters of type Sort

Modifier	Constructor	Description
	QueriedAndFilteredAndInferredAndLimitedResponseDataObject(List<T> payload, String query, Filters filters, String[] groupBy, Sort sort, Integer limit, Collection<OntologyTerm> inferredTerms)
	QueriedAndFilteredAndInferredResponseDataObject(List<T> payload, String query, Filters filters, String[] groupBy, Sort sort, Collection<OntologyTerm> inferredTerms)

Uses of Sort in ubic.gemma.rest.util

Methods in ubic.gemma.rest.util with parameters of type Sort

Modifier and Type	Method	Description
static <T> QueriedAndFilteredResponseDataObject<T>	Responders.all(List<T> payload, String query, Filters filters, String[] groupBy, Sort sort)
static <T> FilteredResponseDataObject<T>	Responders.all(List<T> payload, Filters filters, String[] groupBy, Sort sort)	Produce all results.
Slice<T>	Responders.FilterMethod.load(Filters filters, Sort sort, int offset, int limit)
static <T> FilteredAndPaginatedResponseDataObject<T>	Responders.paginate(Responders.FilterMethod<T> filterMethod, Filters filters, String[] groupBy, Sort sort, int offset, int limit)	Paginate results with a filter using a callback to produce the payload.
static <T> FilteredAndLimitedResponseDataObject<T>	Responders.top(List<T> payload, Filters filters, String[] groupBy, Sort sort, Integer limit)	Produce top results.

Constructors in ubic.gemma.rest.util with parameters of type Sort

Modifier	Constructor	Description
	FilteredAndLimitedResponseDataObject(List<T> payload, Filters filters, String[] groupBy, Sort sort, Integer limit)
	FilteredResponseDataObject(List<T> payload, Filters filters, String[] groupBy, Sort sort)
	QueriedAndFilteredAndLimitedResponseDataObject(List<T> payload, String query, Filters filters, String[] groupBy, Sort sort, Integer limit)
	QueriedAndFilteredResponseDataObject(List<T> payload, String query, Filters filters, String[] groupBy, Sort sort)
	SortValueObject(Sort sort)

Uses of Sort in ubic.gemma.rest.util.args

Methods in ubic.gemma.rest.util.args that return Sort

Modifier and Type	Method	Description
Sort	AbstractEntityArgService.getSort(SortArg<T> sortArg)
Sort	EntityArgService.getSort(SortArg<T> sortArg)	Obtain a Sort from a sort argument.