Package ubic.gemma.persistence.service

Class AbstractVoEnabledDao<O extends Identifiable,VO extends IdentifiableValueObject<O>>

java.lang.Object

ubic.gemma.persistence.service.AbstractDao<O>

ubic.gemma.persistence.service.AbstractVoEnabledDao<O,VO>

All Implemented Interfaces:

BaseDao<O>, BaseVoEnabledDao<O,VO>

Direct Known Subclasses:

AbstractFilteringVoEnabledDao, AbstractNoopFilteringVoEnabledDao, BibliographicReferenceDaoImpl, BioAssayDimensionDaoImpl, BioMaterialDaoImpl, BioSequenceDaoImpl, BlacklistedEntityDaoImpl, BlatResultDaoImpl, ExperimentalFactorDaoImpl, ExpressionExperimentSetDaoImpl, GeeqDaoImpl, GeneProductDaoImpl

public abstract class AbstractVoEnabledDao<O extends Identifiable,VO extends IdentifiableValueObject<O>>
extends AbstractDao<O>
implements BaseVoEnabledDao<O,VO>

Created by tesarst on 01/06/17. Base DAO providing value object functionality.

Field Summary

Fields

Modifier and Type	Field	Description
protected static final int	REPORT_SLOW_QUERY_AFTER_MS	Amount of time in milliseconds after which a query (including post-processing) should be reported.

Fields inherited from class ubic.gemma.persistence.service.AbstractDao

log

Constructor Summary

Constructors

Modifier	Constructor	Description
protected	AbstractVoEnabledDao(Class<? extends O> elementClass, SessionFactory sessionFactory)

Method Summary

Modifier and Type	Method	Description
protected abstract VO	doLoadValueObject(O entity)	Load a value object for a given entity.
List<VO>	doLoadValueObjects(Collection<O> entities)	Load all the value objects for the given entities.
final List<VO>	loadAllValueObjects()	Should be overridden for any entity that requires special handling of larger amounts of VOs.
final VO	loadValueObject(O entity)	Load a value object corresponding to an entity
final VO	loadValueObjectById(Long id)
final List<VO>	loadValueObjects(Collection<O> entities)	The default implementation calls loadValueObject(Identifiable) for each entity and filters out nulls.
final List<VO>	loadValueObjectsByIds(Collection<Long> ids)
protected void	postProcessValueObjects(List<VO> vos)	Post-process VOs in bulk.

Methods inherited from class ubic.gemma.persistence.service.AbstractDao

countAll, create, create, find, findByProperty, findByPropertyIn, findOneByProperty, findOrCreate, getBatchSize, getElementClass, getEntityName, getIdentifierPropertyName, getSessionFactory, load, load, loadAll, loadReference, loadReference, reload, reload, remove, remove, remove, save, save, streamAll, streamAll, streamQuery, update, update

Methods inherited from class java.lang.Object

clone, equals, finalize, getClass, hashCode, notify, notifyAll, toString, wait, wait, wait

Methods inherited from interface ubic.gemma.persistence.service.BaseDao

countAll, create, create, find, findOrCreate, getElementClass, load, load, loadAll, loadReference, loadReference, reload, reload, remove, remove, remove, save, save, streamAll, streamAll, update, update

Field Details

REPORT_SLOW_QUERY_AFTER_MS

protected static final int REPORT_SLOW_QUERY_AFTER_MS

Amount of time in milliseconds after which a query (including post-processing) should be reported.

If there is no way to perform a given query under this amount of time, consider paginating results or optimizing how Hibernate entities are loaded or cached.

See Also:

• Constant Field Values

Constructor Details

AbstractVoEnabledDao

protected AbstractVoEnabledDao(Class<? extends O> elementClass,
 SessionFactory sessionFactory)

Method Details

doLoadValueObject

@Nullable
protected abstract VO doLoadValueObject(O entity)

Load a value object for a given entity.

This should be fast and efficient, and avoid any database query or post-processing. If you need to perform additional queries, implement postProcessValueObjects(List) instead.

doLoadValueObjects

public List<VO> doLoadValueObjects(Collection<O> entities)

Load all the value objects for the given entities.

The default is to apply doLoadValueObject(Identifiable) on each entry and weed out null elements.

This method should be fast and any post-processing should happen in postProcessValueObjects(List).

postProcessValueObjects

protected void postProcessValueObjects(List<VO> vos)

Post-process VOs in bulk.

Use this as an opportunity to load extra informations that could not be populated in the initial doLoadValueObject(Identifiable) or doLoadValueObjects(Collection)

loadValueObject

public final VO loadValueObject(O entity)

Description copied from interface: BaseVoEnabledDao

Load a value object corresponding to an entity

Specified by:

loadValueObject in interface BaseVoEnabledDao<O extends Identifiable,VO extends IdentifiableValueObject<O>>

Parameters:

entity - the entity to turn into a value object

Returns:

a value object

loadValueObjectById

public final VO loadValueObjectById(Long id)

Specified by:

loadValueObjectById in interface BaseVoEnabledDao<O extends Identifiable,VO extends IdentifiableValueObject<O>>

Returns:

a value object, or null if it could not be constructed

loadValueObjects

public final List<VO> loadValueObjects(Collection<O> entities)

The default implementation calls loadValueObject(Identifiable) for each entity and filters out nulls.

Specified by:

loadValueObjects in interface BaseVoEnabledDao<O extends Identifiable,VO extends IdentifiableValueObject<O>>

Parameters:

entities - the entities to turn into value objects

Returns:

a collection of value objects

loadValueObjectsByIds

public final List<VO> loadValueObjectsByIds(Collection<Long> ids)

Specified by:

loadValueObjectsByIds in interface BaseVoEnabledDao<O extends Identifiable,VO extends IdentifiableValueObject<O>>

loadAllValueObjects

public final List<VO> loadAllValueObjects()

Should be overridden for any entity that requires special handling of larger amounts of VOs.

Specified by:

loadAllValueObjects in interface BaseVoEnabledDao<O extends Identifiable,VO extends IdentifiableValueObject<O>>

Returns:

VOs of all instances of the class this DAO manages.