Package ubic.gemma.persistence.service.blacklist

Class BlacklistedEntityServiceImpl

java.lang.Object

ubic.gemma.persistence.service.AbstractService<BlacklistedEntity>

ubic.gemma.persistence.service.AbstractVoEnabledService<BlacklistedEntity,BlacklistedValueObject>

ubic.gemma.persistence.service.blacklist.BlacklistedEntityServiceImpl

All Implemented Interfaces:

BaseImmutableService<BlacklistedEntity>, BaseReadOnlyService<BlacklistedEntity>, BaseService<BlacklistedEntity>, BaseVoEnabledService<BlacklistedEntity,BlacklistedValueObject>, BlacklistedEntityService

@Service
public class BlacklistedEntityServiceImpl
extends AbstractVoEnabledService<BlacklistedEntity,BlacklistedValueObject>
implements BlacklistedEntityService

Field Summary

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

log

Constructor Summary

Constructors

Constructor	Description
BlacklistedEntityServiceImpl(BlacklistedEntityDao voDao)

Method Summary

Modifier and Type	Method	Description
BlacklistedExperiment	blacklistExpressionExperiment(ExpressionExperiment dataset, String reason)	Blacklist a given dataset.
BlacklistedPlatform	blacklistPlatform(ArrayDesign platform, String reason)	Blacklist a given platform.
BlacklistedEntity	findByAccession(String accession)
boolean	isBlacklisted(String accession)
boolean	isBlacklisted(ArrayDesign platform)
boolean	isBlacklisted(ExpressionExperiment dataset)
int	removeAll()	Remove all blacklisted platforms and experiments.

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

loadAllValueObjects, loadValueObject, loadValueObjectById, loadValueObjects, loadValueObjectsByIds

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

countAll, create, create, ensureInSession, ensureInSession, find, findOrCreate, findOrFail, getElementClass, load, load, loadAll, loadOrFail, loadOrFail, loadOrFail, loadOrFail, remove, remove, remove, save, save, streamAll, streamAll, 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.BaseImmutableService

create, create, findOrCreate, remove, remove, remove

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

countAll, find, findOrFail, getElementClass, load, load, loadAll, loadOrFail, loadOrFail, loadOrFail, loadOrFail, streamAll, streamAll

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

loadAllValueObjects, loadValueObject, loadValueObjectById, loadValueObjects, loadValueObjectsByIds

Constructor Details

BlacklistedEntityServiceImpl

@Autowired
public BlacklistedEntityServiceImpl(BlacklistedEntityDao voDao)

Method Details

isBlacklisted

@Transactional(readOnly=true)
public boolean isBlacklisted(String accession)

Specified by:

isBlacklisted in interface BlacklistedEntityService

See Also:

• BlacklistedEntityDao.isBlacklisted(String)

isBlacklisted

@Transactional(readOnly=true)
public boolean isBlacklisted(ArrayDesign platform)

Specified by:

isBlacklisted in interface BlacklistedEntityService

See Also:

• BlacklistedEntityDao.isBlacklisted(ArrayDesign)

isBlacklisted

@Transactional(readOnly=true)
public boolean isBlacklisted(ExpressionExperiment dataset)

Specified by:

isBlacklisted in interface BlacklistedEntityService

See Also:

• BlacklistedEntityDao.isBlacklisted(ExpressionExperiment)

findByAccession

@Transactional(readOnly=true)
public BlacklistedEntity findByAccession(String accession)

Specified by:

findByAccession in interface BlacklistedEntityService

See Also:

• BlacklistedEntityDao.findByAccession(String)

blacklistExpressionExperiment

@Transactional
public BlacklistedExperiment blacklistExpressionExperiment(ExpressionExperiment dataset,
 String reason)

Description copied from interface: BlacklistedEntityService

Blacklist a given dataset.

Specified by:

blacklistExpressionExperiment in interface BlacklistedEntityService

Parameters:

dataset - the dataset to blacklist

reason - a reason, which must be non-empty

blacklistPlatform

@Transactional
public BlacklistedPlatform blacklistPlatform(ArrayDesign platform,
 String reason)

Description copied from interface: BlacklistedEntityService

Blacklist a given platform.

If the platform has associated datasets, those are blacklisted as well as per BlacklistedEntityService.blacklistExpressionExperiment(ExpressionExperiment, String). The reason will be adjusted to reflect the cascading through the platform.

Specified by:

blacklistPlatform in interface BlacklistedEntityService

Parameters:

platform - the platform to blacklist

reason - a reason, which must be non-empty

removeAll

@Transactional
public int removeAll()

Description copied from interface: BlacklistedEntityService

Remove all blacklisted platforms and experiments.

Specified by:

removeAll in interface BlacklistedEntityService