A C D E F G I J L M N O P R S T W

A

additionalLabelsPattern() - Method in class org.eaglei.model.jena.SPARQLQueryUtil

allTypesPattern(boolean) - Method in class org.eaglei.model.jena.SPARQLQueryUtil

ANY_PREDICATE_VARIABLE - Static variable in class org.eaglei.model.jena.SPARQLConstants

C

convertToJenaModel(EIInstance) - Method in class org.eaglei.model.jena.JenaEIInstanceFactory

create(ResultSet) - Method in class org.eaglei.model.jena.EIInstanceMinimalFactory

Create method for abridged EIInstances (label, type, owner, WFState, creation date)

create(EIURI, Model) - Method in class org.eaglei.model.jena.JenaEIInstanceFactory

create(EIURI, String, String) - Method in class org.eaglei.model.jena.JenaEIInstanceFactory

create(Model) - Method in class org.eaglei.model.jena.JenaEIInstanceFactory

createEmbedded(EIURI, Model) - Method in class org.eaglei.model.jena.JenaEIInstanceFactory

createEmbedded(EIURI, String, String) - Method in class org.eaglei.model.jena.JenaEIInstanceFactory

createEmbedded(Model) - Method in class org.eaglei.model.jena.JenaEIInstanceFactory

createEmpty(EIURI, EIEntity) - Method in class org.eaglei.model.jena.JenaEIInstanceFactory

createEmptyMinimal(EIURI, EIEntity) - Method in class org.eaglei.model.jena.EIInstanceMinimalFactory

createExtended(EIURI, Model) - Method in class org.eaglei.model.jena.JenaEIInstanceFactory

createExtended(EIURI, String, String) - Method in class org.eaglei.model.jena.JenaEIInstanceFactory

createExtended(Model) - Method in class org.eaglei.model.jena.JenaEIInstanceFactory

createReferencedByInstances(EIOntModel, EIInstance, ResultSet) - Method in class org.eaglei.model.jena.EIInstanceMinimalFactory

CREATION_DATE_VARIABLE - Static variable in class org.eaglei.model.jena.SPARQLConstants

CREATOR - Static variable in interface org.eaglei.model.jena.SPARQLOntConstants

CREATOR_LABEL - Static variable in interface org.eaglei.model.jena.SPARQLOntConstants

CURATION_ENTITY - Static variable in class org.eaglei.model.jena.MetadataConstants

CURATION_ENTITY - Static variable in interface org.eaglei.model.jena.SPARQLOntConstants

CURATION_STATE - Static variable in interface org.eaglei.model.jena.SPARQLOntConstants

CURATION_STATE_LABEL - Static variable in class org.eaglei.model.jena.MetadataConstants

CURATION_STATE_LABEL - Static variable in interface org.eaglei.model.jena.SPARQLOntConstants

CURATION_URI - Static variable in class org.eaglei.model.jena.MetadataConstants

CURATION_URI - Static variable in interface org.eaglei.model.jena.SPARQLOntConstants

D

DATATOOLS_CONFIG - Static variable in interface org.eaglei.model.jena.SPARQLOntConstants

DC_PREFIX - Static variable in interface org.eaglei.model.jena.SPARQLOntConstants

DC_URI - Static variable in interface org.eaglei.model.jena.SPARQLOntConstants

DEFAULT_DATATOOLS_CONFIG - Static variable in interface org.eaglei.model.jena.SPARQLOntConstants

DRAFT_ENTITY - Static variable in class org.eaglei.model.jena.MetadataConstants

DRAFT_ENTITY - Static variable in interface org.eaglei.model.jena.SPARQLOntConstants

DRAFT_STATE - Static variable in interface org.eaglei.model.jena.SPARQLOntConstants

DRAFT_STATE_LABEL - Static variable in class org.eaglei.model.jena.MetadataConstants

DRAFT_STATE_LABEL - Static variable in interface org.eaglei.model.jena.SPARQLOntConstants

DRAFT_URI - Static variable in class org.eaglei.model.jena.MetadataConstants

DRAFT_URI - Static variable in interface org.eaglei.model.jena.SPARQLOntConstants

DT_TERM_REQUEST - Static variable in interface org.eaglei.model.jena.SPARQLOntConstants

DT_TOP_TERM_REQUEST - Static variable in interface org.eaglei.model.jena.SPARQLOntConstants

E

EAGLE_I_APP_PREFIX - Static variable in interface org.eaglei.model.jena.SPARQLOntConstants

EAGLE_I_APP_URI - Static variable in interface org.eaglei.model.jena.SPARQLOntConstants

EAGLE_I_DATA_URI_FRAGMENT - Static variable in interface org.eaglei.model.jena.SPARQLOntConstants

EAGLE_I_DT_PREFIX - Static variable in interface org.eaglei.model.jena.SPARQLOntConstants

EAGLE_I_DT_URI - Static variable in interface org.eaglei.model.jena.SPARQLOntConstants

EAGLE_I_PREFIX - Static variable in interface org.eaglei.model.jena.SPARQLOntConstants

EAGLE_I_REPO_PREFIX - Static variable in interface org.eaglei.model.jena.SPARQLOntConstants

EAGLE_I_REPO_URI - Static variable in interface org.eaglei.model.jena.SPARQLOntConstants

EAGLE_I_URI - Static variable in interface org.eaglei.model.jena.SPARQLOntConstants

eagleiInstanceFactory() - Method in class org.eaglei.model.jena.JenaModelConfig

eagleiOntModel() - Method in class org.eaglei.model.jena.JenaModelConfig

EagleIOntUtils - Class in org.eaglei.model.jena

Utility methods for accessing common elements of the eagle-i ontology.

EagleIOntUtils() - Constructor for class org.eaglei.model.jena.EagleIOntUtils

EI_INSTRUMENT - Static variable in interface org.eaglei.model.jena.SPARQLOntConstants

EI_LAB - Static variable in interface org.eaglei.model.jena.SPARQLOntConstants

EI_SOFTWARE - Static variable in interface org.eaglei.model.jena.SPARQLOntConstants

EI_UNIVERSITY - Static variable in interface org.eaglei.model.jena.SPARQLOntConstants

EIInstanceMinimalFactory - Class in org.eaglei.model.jena

F

FOAF_PERSON - Static variable in interface org.eaglei.model.jena.SPARQLOntConstants

FOAF_PREFIX - Static variable in interface org.eaglei.model.jena.SPARQLOntConstants

FOAF_URI - Static variable in interface org.eaglei.model.jena.SPARQLOntConstants

G

generateStackTrace(Deque<String>) - Method in class org.eaglei.model.jena.JenaEIOntModel

getAllPossibleOwnersQuery() - Method in class org.eaglei.model.jena.SPARQLQueryUtil

getClass(EIURI) - Method in class org.eaglei.model.jena.JenaEIOntModel

Retrieves the classes in the specified group.

getClass(String) - Method in class org.eaglei.model.jena.JenaEIOntModel

getClassAnnotations(List<EIURI>) - Method in class org.eaglei.model.jena.JenaEIOntModel

getClassAnnotations(EIURI) - Method in class org.eaglei.model.jena.JenaEIOntModel

getClassDefinition(EIURI) - Method in class org.eaglei.model.jena.JenaEIOntModel

getClassDefinitions(List<EIURI>) - Method in class org.eaglei.model.jena.JenaEIOntModel

getClassesInGroup(OntModel, String) - Static method in class org.eaglei.model.jena.EagleIOntUtils

Retrieves the classes in the eagle-i ontology that have been designated (via an special annotation property) as belonging to the specified group.

getClassesInGroup(OntModel, List<String>) - Static method in class org.eaglei.model.jena.EagleIOntUtils

getClassesInGroup(String) - Method in class org.eaglei.model.jena.JenaEIOntModel

getClassGroupPattern(EIURI) - Method in class org.eaglei.model.jena.SPARQLQueryUtil

getEIResourcesByLabelQuery(EIURI, String) - Method in class org.eaglei.model.jena.SPARQLQueryUtil

Returns a sparql query that asks the URI of a resource of type rootURI with a label

getEmbeddedUrisFromObjectProperties(EIInstance) - Method in class org.eaglei.model.jena.JenaEIInstanceFactory

Deprecated.

getEquivalentClasses(EIURI) - Method in class org.eaglei.model.jena.JenaEIOntModel

getInstance() - Static method in class org.eaglei.model.jena.EIInstanceMinimalFactory

getInstance() - Static method in class org.eaglei.model.jena.SPARQLQueryUtil

getLabels(EIURI) - Method in class org.eaglei.model.jena.JenaEIOntModel

getLiteralsForProperty(Resource, Property, List<String>, List<String>) - Static method in class org.eaglei.model.jena.JenaEIOntModel

getModifiedDateQuery(EIURI) - Method in class org.eaglei.model.jena.SPARQLQueryUtil

getNonResourceBaseClasses() - Method in class org.eaglei.model.jena.JenaEIOntModel

getOntModel() - Method in class org.eaglei.model.jena.JenaEIOntModel

Retrieves the underlying Jena OntModel.

getPreferredLabel(EIURI) - Method in class org.eaglei.model.jena.JenaEIOntModel

getPrefLabelProperties() - Method in class org.eaglei.model.jena.JenaEIOntModel

getProperties(EIURI) - Method in class org.eaglei.model.jena.JenaEIOntModel

getProperties(EIURI, String) - Method in class org.eaglei.model.jena.JenaEIOntModel

Retrieves the properties with the inPropertyGroup annotation set to the given value.

getPropertyDefinition(EIURI) - Method in class org.eaglei.model.jena.JenaEIOntModel

getPropertyDefinitions(List<EIURI>) - Method in class org.eaglei.model.jena.JenaEIOntModel

getReferencedByQuery(EIURI) - Method in class org.eaglei.model.jena.SPARQLQueryUtil

getResourceProviderProperties() - Method in class org.eaglei.model.jena.JenaEIOntModel

getResourceProviderProperty(EIURI) - Method in class org.eaglei.model.jena.JenaEIOntModel

getResourceProviderPropertyMap() - Method in class org.eaglei.model.jena.JenaEIOntModel

getResourcesETLedFromFileQuery(String) - Method in class org.eaglei.model.jena.SPARQLQueryUtil

getResourcesForObjectPropertyValuesQuery(EIURI, EIURI, EIURI, boolean) - Method in class org.eaglei.model.jena.SPARQLQueryUtil

getRetrieveLabelQuery(EIURI) - Method in class org.eaglei.model.jena.SPARQLQueryUtil

getRetrieveStubsQuery(EIURI) - Method in class org.eaglei.model.jena.SPARQLQueryUtil

getStatusEntity(EIURI) - Static method in class org.eaglei.model.jena.MetadataConstants

getStubPattern(boolean) - Method in class org.eaglei.model.jena.SPARQLQueryUtil

getSubClasses(EIURI) - Method in class org.eaglei.model.jena.JenaEIOntModel

getSuperClass(EIClass) - Method in class org.eaglei.model.jena.JenaEIOntModel

getSuperClasses(EIURI) - Method in class org.eaglei.model.jena.JenaEIOntModel

getTopLevelClasses() - Method in class org.eaglei.model.jena.JenaEIOntModel

getTypeEntities(EIURI) - Method in class org.eaglei.model.jena.JenaEIOntModel

getVersion() - Method in class org.eaglei.model.jena.JenaEIOntModel

I

IAO_PREFIX - Static variable in interface org.eaglei.model.jena.SPARQLOntConstants

IAO_URI - Static variable in interface org.eaglei.model.jena.SPARQLOntConstants

includeOwnerLabelPattern() - Method in class org.eaglei.model.jena.SPARQLQueryUtil

IS_STUB_URI - Static variable in interface org.eaglei.model.jena.SPARQLOntConstants

IS_STUB_VARIABLE - Static variable in class org.eaglei.model.jena.SPARQLConstants

isClassGroup(EIURI) - Method in class org.eaglei.model.jena.SPARQLQueryUtil

isModelClassURI(String) - Method in class org.eaglei.model.jena.JenaEIOntModel

isPropertyInGroup(OntModel, String, String) - Static method in class org.eaglei.model.jena.EagleIOntUtils

Determines if the specified property in the eagle-i ontology has been designated (via an special annotation property) as belonging to the specified group.

isSubClass(EIURI, EIURI) - Method in class org.eaglei.model.jena.JenaEIOntModel

isSubClass(String, String) - Method in class org.eaglei.model.jena.JenaEIOntModel

J

JenaEIInstanceFactory - Class in org.eaglei.model.jena

JenaEIInstanceFactory(EIOntModel) - Constructor for class org.eaglei.model.jena.JenaEIInstanceFactory

JenaEIOntModel - Class in org.eaglei.model.jena

Exposes the eagle-i ontology using GWT friendly model classes.

JenaEIOntModel(OntModel) - Constructor for class org.eaglei.model.jena.JenaEIOntModel

JenaModelConfig - Class in org.eaglei.model.jena

JenaModelConfig() - Constructor for class org.eaglei.model.jena.JenaModelConfig

jenaOntModel() - Method in class org.eaglei.model.jena.JenaModelConfig

L

LABEL_VARIABLE - Static variable in class org.eaglei.model.jena.SPARQLConstants

labProperties - Static variable in interface org.eaglei.model.jena.SPARQLOntConstants

log - Static variable in class org.eaglei.model.jena.SPARQLQueryUtil

logger - Static variable in class org.eaglei.model.jena.JenaEIOntModel

M

MetadataConstants - Class in org.eaglei.model.jena

MetadataConstants() - Constructor for class org.eaglei.model.jena.MetadataConstants

MODIFIED_DATE_VARIABLE - Static variable in class org.eaglei.model.jena.SPARQLConstants

modifiedDatePattern() - Method in class org.eaglei.model.jena.SPARQLQueryUtil

N

nameSpaceMap - Static variable in interface org.eaglei.model.jena.SPARQLOntConstants

NON_ONTOLOGY_URI - Static variable in interface org.eaglei.model.jena.SPARQLOntConstants

O

OBI_OBJECTIVE - Static variable in interface org.eaglei.model.jena.SPARQLOntConstants

OBI_ORGANIZATION - Static variable in interface org.eaglei.model.jena.SPARQLOntConstants

OBI_PREFIX - Static variable in interface org.eaglei.model.jena.SPARQLOntConstants

OBI_URI - Static variable in interface org.eaglei.model.jena.SPARQLOntConstants

OBO_URI - Static variable in interface org.eaglei.model.jena.SPARQLOntConstants

orderByLabelClosingClause() - Method in class org.eaglei.model.jena.SPARQLQueryUtil

orderByTypeClosingClause() - Method in class org.eaglei.model.jena.SPARQLQueryUtil

org.eaglei.model.jena - package org.eaglei.model.jena

OWNER_NAME_VARIABLE - Static variable in class org.eaglei.model.jena.SPARQLConstants

OWNER_VARIABLE - Static variable in class org.eaglei.model.jena.SPARQLConstants

ownerRestrictionPattern(EIURI, boolean) - Method in class org.eaglei.model.jena.SPARQLQueryUtil

P

PROVIDER_NAME_VARIABLE - Static variable in class org.eaglei.model.jena.SPARQLConstants

PROVIDER_VARIABLE - Static variable in class org.eaglei.model.jena.SPARQLConstants

providerRestrictionPattern(EIURI) - Method in class org.eaglei.model.jena.SPARQLQueryUtil

PUBLISH_ENTITY - Static variable in class org.eaglei.model.jena.MetadataConstants

PUBLISH_ENTITY - Static variable in interface org.eaglei.model.jena.SPARQLOntConstants

PUBLISH_STATE_LABEL - Static variable in class org.eaglei.model.jena.MetadataConstants

PUBLISH_STATE_LABEL - Static variable in interface org.eaglei.model.jena.SPARQLOntConstants

PUBLISH_URI - Static variable in class org.eaglei.model.jena.MetadataConstants

PUBLISH_URI - Static variable in interface org.eaglei.model.jena.SPARQLOntConstants

PUBLISHED_STATE - Static variable in interface org.eaglei.model.jena.SPARQLOntConstants

R

RDF_PREFIX - Static variable in interface org.eaglei.model.jena.SPARQLOntConstants

RDF_URI - Static variable in interface org.eaglei.model.jena.SPARQLOntConstants

RDFS_PREFIX - Static variable in interface org.eaglei.model.jena.SPARQLOntConstants

RDFS_URI - Static variable in interface org.eaglei.model.jena.SPARQLOntConstants

readOnlyLiterals - Static variable in class org.eaglei.model.jena.MetadataConstants

readOnlyResources - Static variable in class org.eaglei.model.jena.MetadataConstants

referencedByPattern(EIURI) - Method in class org.eaglei.model.jena.SPARQLQueryUtil

resultSetVariables - Static variable in class org.eaglei.model.jena.SPARQLConstants

RO_PREFIX - Static variable in interface org.eaglei.model.jena.SPARQLOntConstants

RO_URI - Static variable in interface org.eaglei.model.jena.SPARQLOntConstants

S

selectClause(List<String>) - Method in class org.eaglei.model.jena.SPARQLQueryUtil

selectClause(String) - Method in class org.eaglei.model.jena.SPARQLQueryUtil

serialize(EIInstance, String) - Method in class org.eaglei.model.jena.JenaEIInstanceFactory

setReferencingInstances(EIInstance, ResultSet) - Method in class org.eaglei.model.jena.EIInstanceMinimalFactory

SO_PREFIX - Static variable in interface org.eaglei.model.jena.SPARQLOntConstants

SO_URI - Static variable in interface org.eaglei.model.jena.SPARQLOntConstants

SPARQLConstants - Class in org.eaglei.model.jena

SPARQLConstants() - Constructor for class org.eaglei.model.jena.SPARQLConstants

SPARQLOntConstants - Interface in org.eaglei.model.jena

SPARQLQueryUtil - Class in org.eaglei.model.jena

STATE_LABEL_VARIABLE - Static variable in class org.eaglei.model.jena.SPARQLConstants

STATE_VARIABLE - Static variable in class org.eaglei.model.jena.SPARQLConstants

SUBJECT_VARIABLE - Static variable in class org.eaglei.model.jena.SPARQLConstants

SW_DATA - Static variable in interface org.eaglei.model.jena.SPARQLOntConstants

SWO_PREFIX - Static variable in interface org.eaglei.model.jena.SPARQLOntConstants

SWO_URI - Static variable in interface org.eaglei.model.jena.SPARQLOntConstants

T

traverseDataModel(List<EIOntModel.Visitor>) - Method in class org.eaglei.model.jena.JenaEIOntModel

TYPE_LABEL_VARIABLE - Static variable in class org.eaglei.model.jena.SPARQLConstants

TYPE_VARIABLE - Static variable in class org.eaglei.model.jena.SPARQLConstants

W

WITHDRAW_ENTITY - Static variable in class org.eaglei.model.jena.MetadataConstants

WITHDRAW_ENTITY - Static variable in interface org.eaglei.model.jena.SPARQLOntConstants

WITHDRAW_STATE_LABEL - Static variable in class org.eaglei.model.jena.MetadataConstants

WITHDRAW_STATE_LABEL - Static variable in interface org.eaglei.model.jena.SPARQLOntConstants

WITHDRAW_URI - Static variable in class org.eaglei.model.jena.MetadataConstants

WITHDRAW_URI - Static variable in interface org.eaglei.model.jena.SPARQLOntConstants

WITHDRAWN_STATE - Static variable in interface org.eaglei.model.jena.SPARQLOntConstants

WORKFLOW_OWNER - Static variable in interface org.eaglei.model.jena.SPARQLOntConstants

WORKFLOW_OWNER_LABEL - Static variable in interface org.eaglei.model.jena.SPARQLOntConstants

WORKFLOW_STATUS - Static variable in interface org.eaglei.model.jena.SPARQLOntConstants

WORKFLOW_STATUS_LABEL - Static variable in interface org.eaglei.model.jena.SPARQLOntConstants

WORKSPACE_ADD - Static variable in class org.eaglei.model.jena.MetadataConstants

WORKSPACE_NAMED_GRAPH_LABEL - Static variable in class org.eaglei.model.jena.MetadataConstants

WORKSPACE_NAMED_GRAPH_URI - Static variable in class org.eaglei.model.jena.MetadataConstants

WORKSPACE_REMOVE - Static variable in class org.eaglei.model.jena.MetadataConstants

WORKSPACE_TYPE - Static variable in class org.eaglei.model.jena.MetadataConstants

A C D E F G I J L M N O P R S T W