AnnotationAssociationServiceImpl (Gemma 1.30.3 API)

java.lang.Object
- ubic.gemma.persistence.service.AbstractService<AnnotationAssociation>
- - ubic.gemma.persistence.service.genome.sequenceAnalysis.AnnotationAssociationServiceImpl

All Implemented Interfaces:

BaseImmutableService<AnnotationAssociation>, BaseReadOnlyService<AnnotationAssociation>, BaseService<AnnotationAssociation>, AnnotationAssociationService
```
@Service
public class AnnotationAssociationServiceImpl
extends AbstractService<AnnotationAssociation>
implements AnnotationAssociationService
```

Field Summary
- Fields inherited from class ubic.gemma.persistence.service.AbstractService
  log

Constructor Summary

Constructors
Constructor Description

AnnotationAssociationServiceImpl(AnnotationAssociationDao annotationAssociationDao)

Method Summary

All Methods Instance Methods Concrete Methods
Modifier and Type	Method	Description
`Collection<AnnotationAssociation>`	`find(BioSequence bioSequence)`
`Collection<AnnotationAssociation>`	`find(Gene gene)`
`Collection<AnnotationValueObject>`	`removeRootTerms(Collection<AnnotationValueObject> associations)`	Remove root terms, like "molecular_function", "biological_process" and "cellular_component" Also removes any null objects.

Methods inherited from class ubic.gemma.persistence.service.AbstractService
countAll, create, create, ensureInSession, ensureInSession, find, findOrCreate, findOrFail, getElementClass, load, load, loadAll, loadOrFail, loadOrFail, loadOrFail, remove, remove, remove, save, save, 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.genome.sequenceAnalysis.AnnotationAssociationService
create, remove, remove

Methods inherited from interface ubic.gemma.persistence.service.BaseImmutableService
create, findOrCreate, remove

Methods inherited from interface ubic.gemma.persistence.service.BaseReadOnlyService
countAll, find, findOrFail, getElementClass, load, load, loadAll, loadOrFail, loadOrFail, loadOrFail

Constructor Detail

AnnotationAssociationServiceImpl

@Autowired
public AnnotationAssociationServiceImpl(AnnotationAssociationDao annotationAssociationDao)

Method Detail
- find
```
@Transactional(readOnly=true)
public Collection<AnnotationAssociation> find(BioSequence bioSequence)
```
  Specified by:
  
  find in interface AnnotationAssociationService
- find
```
@Transactional(readOnly=true)
public Collection<AnnotationAssociation> find(Gene gene)
```
  Specified by:
  
  find in interface AnnotationAssociationService
- removeRootTerms
```
@Transactional
public Collection<AnnotationValueObject> removeRootTerms(Collection<AnnotationValueObject> associations)
```
  Remove root terms, like "molecular_function", "biological_process" and "cellular_component" Also removes any null objects.
  
  Specified by:
  
  removeRootTerms in interface AnnotationAssociationService
  
  Returns:
  
  cleaned up associations