Package org.molgenis.semanticsearch.service.impl

Class OntologyTagServiceImpl

java.lang.Object

org.molgenis.semanticsearch.service.impl.OntologyTagServiceImpl

All Implemented Interfaces:

OntologyTagService, TagService<org.molgenis.ontology.core.model.OntologyTerm,org.molgenis.ontology.core.model.Ontology>

public class OntologyTagServiceImpl
extends Object
implements OntologyTagService

Service to tag metadata with ontology terms.

Constructor Summary

Constructors

Constructor	Description
OntologyTagServiceImpl(org.molgenis.data.DataService dataService, org.molgenis.ontology.core.service.OntologyService ontologyService, TagRepository tagRepository, org.molgenis.data.populate.IdGenerator idGenerator, org.molgenis.data.meta.model.TagMetadata tagMetadata)

Method Summary

Modifier and Type	Method	Description
OntologyTag	addAttributeTag(String entity, String attribute, String relationIRI, List<String> ontologyTermIRIs)
void	addAttributeTag(org.molgenis.data.meta.model.EntityType entityType, org.molgenis.data.semantic.SemanticTag<org.molgenis.data.meta.model.Attribute,org.molgenis.ontology.core.model.OntologyTerm,org.molgenis.ontology.core.model.Ontology> tag)	Tags an attribute.
void	addEntityTag(org.molgenis.data.semantic.SemanticTag<org.molgenis.data.meta.model.EntityType,org.molgenis.ontology.core.model.OntologyTerm,org.molgenis.ontology.core.model.Ontology> tag)	Tags an entity.
org.molgenis.data.Entity	getTagEntity(org.molgenis.data.semantic.SemanticTag<?,org.molgenis.ontology.core.model.OntologyTerm,org.molgenis.ontology.core.model.Ontology> tag)
com.google.common.collect.Multimap<org.molgenis.data.semantic.Relation,org.molgenis.ontology.core.model.OntologyTerm>	getTagsForAttribute(org.molgenis.data.meta.model.EntityType entityType, org.molgenis.data.meta.model.Attribute attribute)	Retrieves all tags for an attribute, and groups them by relation
Iterable<org.molgenis.data.semantic.SemanticTag<org.molgenis.data.meta.model.EntityType,org.molgenis.data.semantic.LabeledResource,org.molgenis.data.semantic.LabeledResource>>	getTagsForEntity(org.molgenis.data.meta.model.EntityType entityType)	Retrieves all tags for an entity.
Iterable<org.molgenis.data.semantic.SemanticTag<org.molgenis.data.meta.model.Package,org.molgenis.ontology.core.model.OntologyTerm,org.molgenis.ontology.core.model.Ontology>>	getTagsForPackage(org.molgenis.data.meta.model.Package aPackage)	Retrieves all tags for a package
void	removeAllTagsFromEntity(String entityTypeId)	Removes all tags for a given entity
void	removeAttributeTag(String entity, String attribute, String relationIRI, String ontologyTermIRI)
void	removeAttributeTag(org.molgenis.data.meta.model.EntityType entityType, org.molgenis.data.semantic.SemanticTag<org.molgenis.data.meta.model.Attribute,org.molgenis.ontology.core.model.OntologyTerm,org.molgenis.ontology.core.model.Ontology> removeTag)	Removes attribute tag
void	removeEntityTag(org.molgenis.data.semantic.SemanticTag<org.molgenis.data.meta.model.EntityType,org.molgenis.ontology.core.model.OntologyTerm,org.molgenis.ontology.core.model.Ontology> tag)	Removes an entity tag.
Map<String,OntologyTag>	tagAttributesInEntity(String entity, Map<org.molgenis.data.meta.model.Attribute,org.molgenis.ontology.core.model.OntologyTerm> tags)

Methods inherited from class java.lang.Object

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

Constructor Detail

OntologyTagServiceImpl

public OntologyTagServiceImpl(org.molgenis.data.DataService dataService,
                              org.molgenis.ontology.core.service.OntologyService ontologyService,
                              TagRepository tagRepository,
                              org.molgenis.data.populate.IdGenerator idGenerator,
                              org.molgenis.data.meta.model.TagMetadata tagMetadata)

Method Detail

removeAttributeTag

public void removeAttributeTag(String entity,
                               String attribute,
                               String relationIRI,
                               String ontologyTermIRI)

Specified by:

removeAttributeTag in interface OntologyTagService

removeAttributeTag

public void removeAttributeTag(org.molgenis.data.meta.model.EntityType entityType,
                               org.molgenis.data.semantic.SemanticTag<org.molgenis.data.meta.model.Attribute,org.molgenis.ontology.core.model.OntologyTerm,org.molgenis.ontology.core.model.Ontology> removeTag)

Description copied from interface: TagService

Removes attribute tag

Specified by:

removeAttributeTag in interface TagService<org.molgenis.ontology.core.model.OntologyTerm,org.molgenis.ontology.core.model.Ontology>

Parameters:

entityType - the entity the tagged attribute sits on

removeTag - the tag to remove

getTagsForAttribute

public com.google.common.collect.Multimap<org.molgenis.data.semantic.Relation,org.molgenis.ontology.core.model.OntologyTerm> getTagsForAttribute(org.molgenis.data.meta.model.EntityType entityType,
                                                                                                                                                       org.molgenis.data.meta.model.Attribute attribute)

Description copied from interface: TagService

Retrieves all tags for an attribute, and groups them by relation

Specified by:

getTagsForAttribute in interface TagService<org.molgenis.ontology.core.model.OntologyTerm,org.molgenis.ontology.core.model.Ontology>

getTagsForPackage

public Iterable<org.molgenis.data.semantic.SemanticTag<org.molgenis.data.meta.model.Package,org.molgenis.ontology.core.model.OntologyTerm,org.molgenis.ontology.core.model.Ontology>> getTagsForPackage(org.molgenis.data.meta.model.Package aPackage)

Description copied from interface: TagService

Retrieves all tags for a package

Specified by:

getTagsForPackage in interface TagService<org.molgenis.ontology.core.model.OntologyTerm,org.molgenis.ontology.core.model.Ontology>

addAttributeTag

public void addAttributeTag(org.molgenis.data.meta.model.EntityType entityType,
                            org.molgenis.data.semantic.SemanticTag<org.molgenis.data.meta.model.Attribute,org.molgenis.ontology.core.model.OntologyTerm,org.molgenis.ontology.core.model.Ontology> tag)

Description copied from interface: TagService

Tags an attribute.

Specified by:

addAttributeTag in interface TagService<org.molgenis.ontology.core.model.OntologyTerm,org.molgenis.ontology.core.model.Ontology>

Parameters:

entityType - the entity the tagged attribute sits on

tag - the tag to add

addAttributeTag

public OntologyTag addAttributeTag(String entity,
                                   String attribute,
                                   String relationIRI,
                                   List<String> ontologyTermIRIs)

Specified by:

addAttributeTag in interface OntologyTagService

getTagEntity

public org.molgenis.data.Entity getTagEntity(org.molgenis.data.semantic.SemanticTag<?,org.molgenis.ontology.core.model.OntologyTerm,org.molgenis.ontology.core.model.Ontology> tag)

removeAllTagsFromEntity

@Transactional
public void removeAllTagsFromEntity(String entityTypeId)

Description copied from interface: TagService

Removes all tags for a given entity

Specified by:

removeAllTagsFromEntity in interface TagService<org.molgenis.ontology.core.model.OntologyTerm,org.molgenis.ontology.core.model.Ontology>

Parameters:

entityTypeId - the name of the entity for which all tags should be removed

tagAttributesInEntity

@Transactional
public Map<String,OntologyTag> tagAttributesInEntity(String entity,
                                                           Map<org.molgenis.data.meta.model.Attribute,org.molgenis.ontology.core.model.OntologyTerm> tags)

Specified by:

tagAttributesInEntity in interface OntologyTagService

addEntityTag

public void addEntityTag(org.molgenis.data.semantic.SemanticTag<org.molgenis.data.meta.model.EntityType,org.molgenis.ontology.core.model.OntologyTerm,org.molgenis.ontology.core.model.Ontology> tag)

Description copied from interface: TagService

Tags an entity.

Specified by:

addEntityTag in interface TagService<org.molgenis.ontology.core.model.OntologyTerm,org.molgenis.ontology.core.model.Ontology>

Parameters:

tag - the tag to add

removeEntityTag

public void removeEntityTag(org.molgenis.data.semantic.SemanticTag<org.molgenis.data.meta.model.EntityType,org.molgenis.ontology.core.model.OntologyTerm,org.molgenis.ontology.core.model.Ontology> tag)

Description copied from interface: TagService

Removes an entity tag.

Specified by:

removeEntityTag in interface TagService<org.molgenis.ontology.core.model.OntologyTerm,org.molgenis.ontology.core.model.Ontology>

Parameters:

tag - the tag to remove

getTagsForEntity

public Iterable<org.molgenis.data.semantic.SemanticTag<org.molgenis.data.meta.model.EntityType,org.molgenis.data.semantic.LabeledResource,org.molgenis.data.semantic.LabeledResource>> getTagsForEntity(org.molgenis.data.meta.model.EntityType entityType)

Description copied from interface: TagService

Retrieves all tags for an entity.

Specified by:

getTagsForEntity in interface TagService<org.molgenis.ontology.core.model.OntologyTerm,org.molgenis.ontology.core.model.Ontology>