A B C D E F G H I J K L M N O P Q R S T U V W X

V

validate() - Method in interface info.sswap.api.model.SSWAPModel
Verifies whether the underlying RDF data conforms to SSWAP syntax and requirements.
validate() - Method in class info.sswap.impl.empire.model.GraphImpl
 
validate() - Method in class info.sswap.impl.empire.model.ModelImpl
 
validate() - Method in class info.sswap.impl.empire.model.ObjectImpl
 
validate() - Method in class info.sswap.impl.empire.model.ProtocolImpl
 
validate(boolean) - Method in class info.sswap.impl.empire.model.ProtocolImpl
 
validate() - Method in class info.sswap.impl.empire.model.ProviderImpl
 
validate() - Method in class info.sswap.impl.empire.model.ResourceImpl
 
validate() - Method in class info.sswap.impl.empire.model.SourceModelImpl
 
validate(boolean) - Method in class info.sswap.impl.empire.model.SourceModelImpl
 
validate() - Method in class info.sswap.impl.empire.model.SubjectImpl
 
validate(InputStream) - Method in interface info.sswap.ontologies.data.api.Validator
Method acts as a filter: it is passed an input stream and should return a input stream of validated data suitable for immediate reading.
validate(InputStream) - Method in class info.sswap.ontologies.data.impl.AbstractData
Default implementation just passes inputStream untouched.
validateAgainstRDG(RDG) - Method in class info.sswap.impl.empire.model.ProtocolImpl
Validates this Protocol message against an RDG.
validateAgainstRDG(RDG) - Method in class info.sswap.impl.empire.model.RRGImpl
In addition to the regular validation (provided by the superclass), it also performs computation of type triples for objects in RRG.
validateArgs(String[]) - Method in class info.sswap.ontologies.exec.impl.ExecImpl
Simple argument sanity checking.
validateConsistency() - Method in class info.sswap.impl.empire.model.ReasoningServiceImpl
Verifies the consistency of the underlying ontologies (together).
validateGraph(SSWAPGraph, Collection<SSWAPGraph>, ReasoningServiceImpl) - Method in class info.sswap.impl.empire.model.ProtocolImpl
 
validateMappedObjects(ReasoningServiceImpl, Map<SSWAPObject, SSWAPObject>) - Method in class info.sswap.impl.empire.model.ProtocolImpl
 
validateNone(ATermAppl, ATermAppl) - Method in class info.sswap.impl.empire.model.ReasoningServiceImpl.IndividualTranslator
Validate that there are no values for the property and individual.
validateProfile(Expressivity, OWLOntology, Predicate<OWLProfileViolation>) - Method in class info.sswap.impl.empire.model.ExpressivityChecker
Validates the ontology for the given profile expressivity and returns any violations that does not satisfy the given predicate.
validateProfileIgnoringUndefinedEntities(Expressivity, OWLOntology) - Method in class info.sswap.impl.empire.model.ExpressivityChecker
Checks whether the given OWLOntology belongs to the specified profile/expressivity, while ignoring any violations about undefined entities.
validateProvider() - Method in interface info.sswap.api.model.SSWAPResource
 
validateProvider() - Method in class info.sswap.impl.empire.model.ResourceImpl
 
validatesObjects() - Method in class info.sswap.impl.empire.model.ProtocolImpl
 
validatesObjects() - Method in class info.sswap.impl.empire.model.RRGImpl
 
validatesResourceURIMatch() - Method in class info.sswap.impl.empire.model.ProtocolImpl
 
validatesResourceURIMatch() - Method in class info.sswap.impl.empire.model.RQGImpl
 
validateSSWAPVocabulary(Model) - Static method in class info.sswap.impl.empire.model.ModelUtils
Validates whether all resources in SSWAP namespace used in the model are defined in SSWAP ontology.
ValidationException - Exception in info.sswap.api.model
An exception that is thrown when a validation fails in SSWAP (i.e., it is found during the validation that the underlying RDF data does not conform to the SSWAP syntax or requirements.)
ValidationException() - Constructor for exception info.sswap.api.model.ValidationException
Creates an empty ValidationException with no message.
ValidationException(String) - Constructor for exception info.sswap.api.model.ValidationException
Creates a ValidationException with a message.
ValidationException(Throwable) - Constructor for exception info.sswap.api.model.ValidationException
Creates a ValidationException with an underlying exception that caused this exception to be generated.
ValidationException(String, Throwable) - Constructor for exception info.sswap.api.model.ValidationException
Creates a ValidationException with both a message and an underlying exception that caused this exception to be generated.
validationExceptions - Variable in class info.sswap.impl.empire.model.ReasoningServiceImpl.IndividualTranslator.TranslationCache
 
Validator - Interface in info.sswap.ontologies.data.api
Interface to web resources that validate data.
ValidatorException - Exception in info.sswap.ontologies.data.api
 
ValidatorException() - Constructor for exception info.sswap.ontologies.data.api.ValidatorException
Creates a new exception
ValidatorException(String) - Constructor for exception info.sswap.ontologies.data.api.ValidatorException
Creates a new exception with the specified message
ValidatorException(Throwable) - Constructor for exception info.sswap.ontologies.data.api.ValidatorException
Creates a new exception with the specified underlying cause
ValidatorException(String, Throwable) - Constructor for exception info.sswap.ontologies.data.api.ValidatorException
Creates a new exception with the specified message and the underlying cause
value - Variable in class info.sswap.api.input.impl.AbstractInput
 
VALUE - Static variable in class info.sswap.api.input.io.JSONConstants
 
value - Variable in class info.sswap.impl.empire.model.Literal
The value of the literal.
value - Variable in class info.sswap.impl.empire.model.PropertyImpl
The value of the property.
VALUE_INDEX - Static variable in class info.sswap.api.input.io.JSONConstants
 
VALUE_TYPES - Static variable in class info.sswap.api.input.io.JSONConstants
 
valueIndex - Variable in class info.sswap.api.input.impl.UnionInputImpl
 
valueOf(String) - Static method in enum info.sswap.api.input.io.SSWAPDeserializer.VisitDepth
Returns the enum constant of this type with the specified name.
valueOf(String) - Static method in enum info.sswap.api.model.Expressivity
Returns the enum constant of this type with the specified name.
valueOf(String) - Static method in enum info.sswap.api.model.MappingPattern
Returns the enum constant of this type with the specified name.
valueOf(String) - Static method in enum info.sswap.api.model.RDFRepresentation
Returns the enum constant of this type with the specified name.
valueOf(String) - Static method in enum info.sswap.impl.empire.model.ProtocolImpl.MappingValidator.MappingType
Returns the enum constant of this type with the specified name.
valueOf(String) - Static method in enum info.sswap.impl.empire.model.ReasoningServiceImpl.ExplanationSyntax
Returns the enum constant of this type with the specified name.
valueOf(String) - Static method in enum info.sswap.impl.empire.model.ReasoningServiceImpl.PropertyType
Returns the enum constant of this type with the specified name.
valueOf(String) - Static method in enum info.sswap.ontologies.data.api.DataFactory.Open
Returns the enum constant of this type with the specified name.
values - Variable in class info.sswap.api.input.impl.EnumeratedInputImpl
 
VALUES - Static variable in class info.sswap.api.input.io.JSONConstants
 
values() - Static method in enum info.sswap.api.input.io.SSWAPDeserializer.VisitDepth
Returns an array containing the constants of this enum type, in the order they are declared.
values() - Static method in enum info.sswap.api.model.Expressivity
Returns an array containing the constants of this enum type, in the order they are declared.
values() - Static method in enum info.sswap.api.model.MappingPattern
Returns an array containing the constants of this enum type, in the order they are declared.
values() - Static method in enum info.sswap.api.model.RDFRepresentation
Returns an array containing the constants of this enum type, in the order they are declared.
values() - Static method in enum info.sswap.impl.empire.model.ProtocolImpl.MappingValidator.MappingType
Returns an array containing the constants of this enum type, in the order they are declared.
values - Variable in class info.sswap.impl.empire.model.RDFTSVWriter.DataStructure
 
values() - Static method in enum info.sswap.impl.empire.model.ReasoningServiceImpl.ExplanationSyntax
Returns an array containing the constants of this enum type, in the order they are declared.
values() - Static method in enum info.sswap.impl.empire.model.ReasoningServiceImpl.PropertyType
Returns an array containing the constants of this enum type, in the order they are declared.
values() - Static method in enum info.sswap.ontologies.data.api.DataFactory.Open
Returns an array containing the constants of this enum type, in the order they are declared.
valueTypes - Variable in class info.sswap.api.input.impl.UnionInputImpl
 
valueValidationEnabled - Variable in class info.sswap.impl.empire.model.SourceModelImpl
 
verifyReservedPredicate(SSWAPPredicate) - Method in class info.sswap.impl.empire.model.IndividualImpl
 
VERSION_PROPERTY - Static variable in class info.sswap.api.model.VersionInformation
Name of the property that contains the version of the API
VersionInformation - Class in info.sswap.api.model
Provides information about the version of Java API.
VersionInformation() - Constructor for class info.sswap.api.model.VersionInformation
Creates new version information object.
versionProperties - Variable in class info.sswap.api.model.VersionInformation
Contains properties read from the file.
visit(AtomicInput) - Method in class info.sswap.api.input.InputValidator
visit(IntersectionInput) - Method in class info.sswap.api.input.InputValidator
visit(UnionInput) - Method in class info.sswap.api.input.InputValidator
visit(EnumeratedInput) - Method in class info.sswap.api.input.InputValidator
visit(PropertyInput) - Method in class info.sswap.api.input.InputValidator
visit(URIValue) - Method in class info.sswap.api.input.InputValidator
visit(BNodeValue) - Method in class info.sswap.api.input.InputValidator
visit(LiteralValue) - Method in class info.sswap.api.input.InputValidator
visit(AtomicInput) - Method in interface info.sswap.api.input.InputVisitor
 
visit(IntersectionInput) - Method in interface info.sswap.api.input.InputVisitor
 
visit(UnionInput) - Method in interface info.sswap.api.input.InputVisitor
 
visit(EnumeratedInput) - Method in interface info.sswap.api.input.InputVisitor
 
visit(PropertyInput) - Method in interface info.sswap.api.input.InputVisitor
 
visit(URIValue) - Method in interface info.sswap.api.input.InputVisitor
 
visit(BNodeValue) - Method in interface info.sswap.api.input.InputVisitor
 
visit(LiteralValue) - Method in interface info.sswap.api.input.InputVisitor
 
visit(AtomicInput) - Method in class info.sswap.api.input.io.JenaSerializer
visit(IntersectionInput) - Method in class info.sswap.api.input.io.JenaSerializer
visit(UnionInput) - Method in class info.sswap.api.input.io.JenaSerializer
visit(EnumeratedInput) - Method in class info.sswap.api.input.io.JenaSerializer
visit(PropertyInput) - Method in class info.sswap.api.input.io.JenaSerializer
visit(URIValue) - Method in class info.sswap.api.input.io.JenaSerializer
visit(BNodeValue) - Method in class info.sswap.api.input.io.JenaSerializer
visit(LiteralValue) - Method in class info.sswap.api.input.io.JenaSerializer
visit(AtomicInput) - Method in class info.sswap.api.input.io.JSONSerializer
visit(IntersectionInput) - Method in class info.sswap.api.input.io.JSONSerializer
visit(UnionInput) - Method in class info.sswap.api.input.io.JSONSerializer
visit(EnumeratedInput) - Method in class info.sswap.api.input.io.JSONSerializer
visit(PropertyInput) - Method in class info.sswap.api.input.io.JSONSerializer
visit(URIValue) - Method in class info.sswap.api.input.io.JSONSerializer
visit(BNodeValue) - Method in class info.sswap.api.input.io.JSONSerializer
visit(LiteralValue) - Method in class info.sswap.api.input.io.JSONSerializer
visit(ATermAppl) - Method in class info.sswap.api.input.io.SSWAPDeserializer
 
visit(ATermAppl, List<Input>, boolean) - Method in class info.sswap.api.input.io.SSWAPDeserializer
 
visit(AtomicInput) - Method in class info.sswap.api.input.io.SSWAPIndividualDeserializer.PropertyInputVisitor
 
visit(IntersectionInput) - Method in class info.sswap.api.input.io.SSWAPIndividualDeserializer.PropertyInputVisitor
 
visit(UnionInput) - Method in class info.sswap.api.input.io.SSWAPIndividualDeserializer.PropertyInputVisitor
 
visit(EnumeratedInput) - Method in class info.sswap.api.input.io.SSWAPIndividualDeserializer.PropertyInputVisitor
 
visit(PropertyInput) - Method in class info.sswap.api.input.io.SSWAPIndividualDeserializer.PropertyInputVisitor
 
visit(URIValue) - Method in class info.sswap.api.input.io.SSWAPIndividualDeserializer.PropertyInputVisitor
 
visit(BNodeValue) - Method in class info.sswap.api.input.io.SSWAPIndividualDeserializer.PropertyInputVisitor
 
visit(LiteralValue) - Method in class info.sswap.api.input.io.SSWAPIndividualDeserializer.PropertyInputVisitor
 
visit(AtomicInput) - Method in class info.sswap.api.input.io.StringSerializer
visit(IntersectionInput) - Method in class info.sswap.api.input.io.StringSerializer
visit(UnionInput) - Method in class info.sswap.api.input.io.StringSerializer
visit(EnumeratedInput) - Method in class info.sswap.api.input.io.StringSerializer
visit(PropertyInput) - Method in class info.sswap.api.input.io.StringSerializer
visit(URIValue) - Method in class info.sswap.api.input.io.StringSerializer
visit(BNodeValue) - Method in class info.sswap.api.input.io.StringSerializer
visit(LiteralValue) - Method in class info.sswap.api.input.io.StringSerializer
visit(UseOfNonAbsoluteIRI) - Method in class info.sswap.impl.empire.model.ExpressivityChecker.ProfileViolationDescriptionGenerator
 
visit(UseOfIllegalFacetRestriction) - Method in class info.sswap.impl.empire.model.ExpressivityChecker.ProfileViolationDescriptionGenerator
 
visit(LexicalNotInLexicalSpace) - Method in class info.sswap.impl.empire.model.ExpressivityChecker.ProfileViolationDescriptionGenerator
 
visit(OntologyIRINotAbsolute) - Method in class info.sswap.impl.empire.model.ExpressivityChecker.ProfileViolationDescriptionGenerator
 
visit(OntologyVersionIRINotAbsolute) - Method in class info.sswap.impl.empire.model.ExpressivityChecker.ProfileViolationDescriptionGenerator
 
visit(UseOfDefinedDatatypeInDatatypeRestriction) - Method in class info.sswap.impl.empire.model.ExpressivityChecker.ProfileViolationDescriptionGenerator
 
visit(UseOfUndeclaredDatatype) - Method in class info.sswap.impl.empire.model.ExpressivityChecker.ProfileViolationDescriptionGenerator
 
visit(UseOfUnknownDatatype) - Method in class info.sswap.impl.empire.model.ExpressivityChecker.ProfileViolationDescriptionGenerator
 
visit(CycleInDatatypeDefinition) - Method in class info.sswap.impl.empire.model.ExpressivityChecker.ProfileViolationDescriptionGenerator
 
visit(UseOfBuiltInDatatypeInDatatypeDefinition) - Method in class info.sswap.impl.empire.model.ExpressivityChecker.ProfileViolationDescriptionGenerator
 
visit(DatatypeIRIAlsoUsedAsClassIRI) - Method in class info.sswap.impl.empire.model.ExpressivityChecker.ProfileViolationDescriptionGenerator
 
visit(UseOfNonSimplePropertyInAsymmetricObjectPropertyAxiom) - Method in class info.sswap.impl.empire.model.ExpressivityChecker.ProfileViolationDescriptionGenerator
 
visit(UseOfNonSimplePropertyInCardinalityRestriction) - Method in class info.sswap.impl.empire.model.ExpressivityChecker.ProfileViolationDescriptionGenerator
 
visit(UseOfNonSimplePropertyInDisjointPropertiesAxiom) - Method in class info.sswap.impl.empire.model.ExpressivityChecker.ProfileViolationDescriptionGenerator
 
visit(UseOfNonSimplePropertyInFunctionalPropertyAxiom) - Method in class info.sswap.impl.empire.model.ExpressivityChecker.ProfileViolationDescriptionGenerator
 
visit(UseOfNonSimplePropertyInInverseFunctionalObjectPropertyAxiom) - Method in class info.sswap.impl.empire.model.ExpressivityChecker.ProfileViolationDescriptionGenerator
 
visit(UseOfNonSimplePropertyInIrreflexivePropertyAxiom) - Method in class info.sswap.impl.empire.model.ExpressivityChecker.ProfileViolationDescriptionGenerator
 
visit(UseOfNonSimplePropertyInObjectHasSelf) - Method in class info.sswap.impl.empire.model.ExpressivityChecker.ProfileViolationDescriptionGenerator
 
visit(UseOfPropertyInChainCausesCycle) - Method in class info.sswap.impl.empire.model.ExpressivityChecker.ProfileViolationDescriptionGenerator
 
visit(UseOfReservedVocabularyForAnnotationPropertyIRI) - Method in class info.sswap.impl.empire.model.ExpressivityChecker.ProfileViolationDescriptionGenerator
 
visit(UseOfReservedVocabularyForClassIRI) - Method in class info.sswap.impl.empire.model.ExpressivityChecker.ProfileViolationDescriptionGenerator
 
visit(UseOfReservedVocabularyForDataPropertyIRI) - Method in class info.sswap.impl.empire.model.ExpressivityChecker.ProfileViolationDescriptionGenerator
 
visit(UseOfReservedVocabularyForIndividualIRI) - Method in class info.sswap.impl.empire.model.ExpressivityChecker.ProfileViolationDescriptionGenerator
 
visit(UseOfReservedVocabularyForObjectPropertyIRI) - Method in class info.sswap.impl.empire.model.ExpressivityChecker.ProfileViolationDescriptionGenerator
 
visit(UseOfReservedVocabularyForOntologyIRI) - Method in class info.sswap.impl.empire.model.ExpressivityChecker.ProfileViolationDescriptionGenerator
 
visit(UseOfReservedVocabularyForVersionIRI) - Method in class info.sswap.impl.empire.model.ExpressivityChecker.ProfileViolationDescriptionGenerator
 
visit(UseOfTopDataPropertyAsSubPropertyInSubPropertyAxiom) - Method in class info.sswap.impl.empire.model.ExpressivityChecker.ProfileViolationDescriptionGenerator
 
visit(UseOfUndeclaredAnnotationProperty) - Method in class info.sswap.impl.empire.model.ExpressivityChecker.ProfileViolationDescriptionGenerator
 
visit(UseOfUndeclaredClass) - Method in class info.sswap.impl.empire.model.ExpressivityChecker.ProfileViolationDescriptionGenerator
 
visit(UseOfUndeclaredDataProperty) - Method in class info.sswap.impl.empire.model.ExpressivityChecker.ProfileViolationDescriptionGenerator
 
visit(UseOfUndeclaredObjectProperty) - Method in class info.sswap.impl.empire.model.ExpressivityChecker.ProfileViolationDescriptionGenerator
 
visit(LastPropertyInChainNotInImposedRange) - Method in class info.sswap.impl.empire.model.ExpressivityChecker.ProfileViolationDescriptionGenerator
 
visit(UseOfAnonymousIndividual) - Method in class info.sswap.impl.empire.model.ExpressivityChecker.ProfileViolationDescriptionGenerator
 
visit(UseOfDataOneOfWithMultipleLiterals) - Method in class info.sswap.impl.empire.model.ExpressivityChecker.ProfileViolationDescriptionGenerator
 
visit(UseOfIllegalAxiom) - Method in class info.sswap.impl.empire.model.ExpressivityChecker.ProfileViolationDescriptionGenerator
 
visit(UseOfIllegalClassExpression) - Method in class info.sswap.impl.empire.model.ExpressivityChecker.ProfileViolationDescriptionGenerator
 
visit(UseOfIllegalDataRange) - Method in class info.sswap.impl.empire.model.ExpressivityChecker.ProfileViolationDescriptionGenerator
 
visit(UseOfObjectPropertyInverse) - Method in class info.sswap.impl.empire.model.ExpressivityChecker.ProfileViolationDescriptionGenerator
 
visit(UseOfObjectOneOfWithMultipleIndividuals) - Method in class info.sswap.impl.empire.model.ExpressivityChecker.ProfileViolationDescriptionGenerator
 
visit(UseOfNonAtomicClassExpression) - Method in class info.sswap.impl.empire.model.ExpressivityChecker.ProfileViolationDescriptionGenerator
 
visit(UseOfNonSubClassExpression) - Method in class info.sswap.impl.empire.model.ExpressivityChecker.ProfileViolationDescriptionGenerator
 
visit(UseOfNonSuperClassExpression) - Method in class info.sswap.impl.empire.model.ExpressivityChecker.ProfileViolationDescriptionGenerator
 
visit(UseOfNonEquivalentClassExpression) - Method in class info.sswap.impl.empire.model.ExpressivityChecker.ProfileViolationDescriptionGenerator
 
visitAllValues(ATermAppl, List<Input>) - Method in class info.sswap.api.input.io.SSWAPDeserializer
 
visitCard(ATermAppl, List<Input>) - Method in class info.sswap.api.input.io.SSWAPDeserializer
 
visitedByDepth - Variable in class info.sswap.api.input.io.SSWAPDeserializer.VisitedTerms
 
visitedTerms - Variable in class info.sswap.api.input.io.SSWAPDeserializer
 
visitIntersectionOf(Iterator<ATermAppl>, List<Input>) - Method in class info.sswap.api.input.io.SSWAPDeserializer
 
visitIntersectionOf(Iterator<ATermAppl>, List<Input>, boolean) - Method in class info.sswap.api.input.io.SSWAPDeserializer
 
visitMax(ATermAppl, List<Input>) - Method in class info.sswap.api.input.io.SSWAPDeserializer
 
visitMin(ATermAppl, List<Input>) - Method in class info.sswap.api.input.io.SSWAPDeserializer
 
visitMin(ATermAppl, int, ATermAppl, List<Input>) - Method in class info.sswap.api.input.io.SSWAPDeserializer
 
visitNamedClass(ATermAppl, List<Input>, boolean) - Method in class info.sswap.api.input.io.SSWAPDeserializer
 
visitNamedClass(ATermAppl, Collection<ATermAppl>, List<Input>, boolean) - Method in class info.sswap.api.input.io.SSWAPDeserializer
 
visitOneOf(Iterator<ATermAppl>, List<Input>) - Method in class info.sswap.api.input.io.SSWAPDeserializer
 
visitSomeValues(ATermAppl, List<Input>) - Method in class info.sswap.api.input.io.SSWAPDeserializer
 
visitUnionOf(Iterator<ATermAppl>, List<Input>) - Method in class info.sswap.api.input.io.SSWAPDeserializer
 
Vocabulary - Class in info.sswap.api.input
Constants used for Input objects.
Vocabulary() - Constructor for class info.sswap.api.input.Vocabulary
 
Vocabulary - Class in info.sswap.impl.empire
The class containing constants for vocabulary used in SSWAP.
Vocabulary() - Constructor for class info.sswap.impl.empire.Vocabulary
 

A B C D E F G H I J K L M N O P Q R S T U V W X
Copyright (c) 2011, iPlant Collaborative, University of Arizona, Cold Spring Harbor Laboratories, University of Texas at Austin.