A B C D F G H I L M N O P R S T U V W _

A

accession() - Method in interface org.genesys2.rdf.model.Identifier

Accession.

ALIAS - Static variable in class org.genesys2.rdf.model.germplasm.DescriptorOntology

The Constant ALIAS.

altLabel - Static variable in class org.genesys2.rdf.model.skos.SKOS

A SKOS Concept altLabel property.

authority() - Method in interface org.genesys2.rdf.model.Identifier

Authority.

B

broader - Static variable in class org.genesys2.rdf.model.skos.SKOS

A SKOS Concept broader property.

C

categories() - Method in class org.genesys2.rdf.model.germplasm.DescriptorOntology

Method to return all the categories of descriptors in a given set.

category - Static variable in class org.genesys2.rdf.model.germplasm.CCO

The category of a trait property of a crop.

categoryDetails(String, String) - Method in class org.genesys2.rdf.model.germplasm.DescriptorOntology

Loads descriptor category-specific details.

CCO - Class in org.genesys2.rdf.model.germplasm

The Class CCO.

CCO() - Constructor for class org.genesys2.rdf.model.germplasm.CCO

CCO.Vocabulary - Enum in org.genesys2.rdf.model.germplasm

The Enum Vocabulary.

classDetails(String, String) - Method in class org.genesys2.rdf.model.rdf.ModelDocument

Method to document rdfs:Class resource specific details.

classes() - Method in class org.genesys2.rdf.model.rdf.ModelDocument

Classes.

Collection - Static variable in class org.genesys2.rdf.model.skos.SKOS

A SKOS Collection (class type) of related SKOS Concept instances.

collections() - Method in class org.genesys2.rdf.model.rdf.ModelDocument

Method to compile and return a catalog Map of collections with list of members.

COMMENT - Static variable in class org.genesys2.rdf.model.rdf.ModelDocument

The Constant COMMENT.

Concept - Static variable in class org.genesys2.rdf.model.skos.SKOS

A SKOS Concept (class type).

ConceptScheme - Static variable in class org.genesys2.rdf.model.skos.SKOS

A SKOS ConceptScheme (class type).

creator - Static variable in class org.genesys2.rdf.model.dc.DublinCore

Indicates the creator of a document.

D

DarwinCore - Class in org.genesys2.rdf.model.dwc

Wrapper of the Darwin Core (RDF) ontology.

DarwinCore() - Constructor for class org.genesys2.rdf.model.dwc.DarwinCore

Constructor to initialize Darwin Core ontology.

DarwinCoreAttributes - Class in org.genesys2.rdf.model.dwc

The Class DarwinCoreAttributes.

DarwinCoreAttributes() - Constructor for class org.genesys2.rdf.model.dwc.DarwinCoreAttributes

Constructor to initialize Darwin Core ontology.

DarwinCoreGermplasmType - Class in org.genesys2.rdf.model.germplasm

Wrapper of the Darwin Core (RDF) ontology.

DarwinCoreGermplasmType() - Constructor for class org.genesys2.rdf.model.germplasm.DarwinCoreGermplasmType

Constructor to initialize Darwin Core Germplasm Type ontology.

Database - Interface in org.genesys2.rdf.model

The Database.

DCA - Enum in org.genesys2.rdf.model.dwc

The Enum DCA.

DCMI - Class in org.genesys2.rdf.model.dc

Wrapper of the Dublin Core Metadata Initiative (RDF) ontology.

DCMI() - Constructor for class org.genesys2.rdf.model.dc.DCMI

Constructor to initialize Dublin Core Metadata Initiative ontology.

debug(Boolean) - Static method in class org.genesys2.rdf.model.Language

Debug.

DEBUG - Static variable in class org.genesys2.rdf.model.rdf.ModelDocument

The Constant VERBOSE.

DEFINITION - Static variable in class org.genesys2.rdf.model.germplasm.DescriptorOntology

The Constant DEFINITION.

definition(Map<String, String>, String, String) - Method in class org.genesys2.rdf.model.germplasm.DescriptorOntology

This is a variant of the ModelDocument details() method, which uses SKOS prefLabel instead of the rdfs:label property and the SKOS definition instead of the rdfs:comment and rdfs:description properties.

definition - Static variable in class org.genesys2.rdf.model.skos.SKOS

A SKOS Concept definition property.

description() - Method in interface org.genesys2.rdf.model.Database

Description.

description - Static variable in class org.genesys2.rdf.model.dc.DublinCore

Indicates the description of a document.

description() - Method in interface org.genesys2.rdf.model.Identifier

Description.

DESCRIPTION - Static variable in class org.genesys2.rdf.model.rdf.ModelDocument

The Constant DESCRIPTION.

descriptorDetails(String, String) - Method in class org.genesys2.rdf.model.germplasm.DescriptorOntology

Loads descriptor descriptor specific details.

DescriptorOntology - Class in org.genesys2.rdf.model.germplasm

The Class DescriptorOntology.

DescriptorOntology(String) - Constructor for class org.genesys2.rdf.model.germplasm.DescriptorOntology

Instantiates a new descriptor ontology.

DescriptorOntology(String, String) - Constructor for class org.genesys2.rdf.model.germplasm.DescriptorOntology

Instantiates a new descriptor ontology.

descriptors(String) - Method in class org.genesys2.rdf.model.germplasm.DescriptorOntology

Loads Map of descriptors from a given category.

DOMAIN - Static variable in class org.genesys2.rdf.model.rdf.ModelDocument

The Constant DOMAIN.

DublinCore - Class in org.genesys2.rdf.model.dc

Wrapper of the Dublin Core Metadata Initiative (RDF) ontology.

DublinCore() - Constructor for class org.genesys2.rdf.model.dc.DublinCore

Constructor to initialize Dublin Core Metadata Initiative ontology.

dumpModel(OutputStream, String) - Method in class org.genesys2.rdf.model.rdf.ModelDocument

Dump model.

dumpModel(String, String) - Method in class org.genesys2.rdf.model.rdf.ModelDocument

Dump model.

dumpModel(String) - Method in class org.genesys2.rdf.model.rdf.ModelDocument

Dump model.

dumpModel() - Method in class org.genesys2.rdf.model.rdf.ModelDocument

Default is to dump the model in N3 format on stdout.

dumpModel(OutputStream) - Method in class org.genesys2.rdf.model.rdf.ModelDocument

Default is to dump the model in N3 format on stdout.

dumpSchema(String) - Method in class org.genesys2.rdf.model.rdf.ModelDocument

Dump schema.

dumpSchema() - Method in class org.genesys2.rdf.model.rdf.ModelDocument

Method dumpSchema with default language.

F

FOAF - Class in org.genesys2.rdf.model.foaf

Wrapper of the Friends of a Friend (FOAF) Metadata Initiative (RDF) ontology.

FOAF() - Constructor for class org.genesys2.rdf.model.foaf.FOAF

Constructor to initialize Friends of a Friend (FOAF) Metadata Initiative ontology.

fullURIMap(Map<String, String>) - Method in class org.genesys2.rdf.model.rdf.Parser

Method to rewrite the category keys into full URIs in case they are originally only XML QNames.

G

genus - Static variable in class org.genesys2.rdf.model.dwc.DarwinCore

Indicates the creator of a document.

getDefaultLanguage() - Static method in class org.genesys2.rdf.model.Language

Gets the default language.

getDefaultLanguageCode() - Static method in class org.genesys2.rdf.model.Language

Gets the default language code.

getDocClass() - Method in enum org.genesys2.rdf.model.rdf.Vocabularies

Gets the doc class.

getLanguage(String) - Static method in class org.genesys2.rdf.model.Language

Gets the language.

getPropertyValues(String, String) - Method in class org.genesys2.rdf.model.rdf.Parser

Gets the property values.

getPropertyValues(String, String, Boolean) - Method in class org.genesys2.rdf.model.rdf.Parser

Gets the property values.

getPropertyValues(String, String, String, Boolean) - Method in class org.genesys2.rdf.model.rdf.Parser

Gets the property values.

getResource() - Method in enum org.genesys2.rdf.model.germplasm.CCO.Vocabulary

Gets the resource.

getTag() - Method in enum org.genesys2.rdf.model.germplasm.CCO.Vocabulary

Gets the tag.

getURI() - Static method in class org.genesys2.rdf.model.dc.DCMI

The namespace of the vocabulary as a string

getURI() - Static method in class org.genesys2.rdf.model.dc.DublinCore

The namespace of the vocabulary as a string

getURI() - Static method in class org.genesys2.rdf.model.dwc.DarwinCore

The namespace of the vocabulary as a string

getURI() - Method in enum org.genesys2.rdf.model.dwc.DCA

Gets the uri.

getURI() - Static method in class org.genesys2.rdf.model.germplasm.CCO

The namespace of the vocabulary as a string

getURI() - Method in enum org.genesys2.rdf.model.rdf.Vocabularies

Gets the uri.

getURI() - Static method in class org.genesys2.rdf.model.skos.SKOS

The namespace of the vocabulary as a string

H

hasVersion - Static variable in class org.genesys2.rdf.model.dc.DublinCore

Indicates the version of a document.

hiddenLabel - Static variable in class org.genesys2.rdf.model.skos.SKOS

A SKOS Concept hiddenLabel property.

I

Identifier - Interface in org.genesys2.rdf.model

The Identifier.

INFO - Static variable in class org.genesys2.rdf.model.rdf.ModelDocument

The Constant VERBOSE.

inScheme - Static variable in class org.genesys2.rdf.model.skos.SKOS

Indicates the ConceptScheme to which a given SKOS Concept belongs.

integerMaxValue - Static variable in class org.genesys2.rdf.model.germplasm.CCO

The maximum integer value of an Integer Value Range.

integerMinValue - Static variable in class org.genesys2.rdf.model.germplasm.CCO

The minimum integer value of an Integer Value Range.

IntegerValueRange - Static variable in class org.genesys2.rdf.model.germplasm.CCO

A range of integer values for a given property.

ISO_639_2() - Static method in class org.genesys2.rdf.model.Language

Checks if is o_639_2.

L

LABEL - Static variable in class org.genesys2.rdf.model.rdf.ModelDocument

The Constant LABEL.

Language - Class in org.genesys2.rdf.model

Language.

Language() - Constructor for class org.genesys2.rdf.model.Language

lookup(String, String) - Static method in class org.genesys2.rdf.model.rdf.ModelDocument

Lookup.

lookup(String) - Static method in class org.genesys2.rdf.model.rdf.ModelDocument

Method with default language.

lookup(String) - Static method in enum org.genesys2.rdf.model.rdf.Vocabularies

Method to look up the Class model wrapping a given RDF target document.

M

main(String[]) - Static method in class org.genesys2.rdf.model.dc.DCMI

Test loading of the Dublin Core RDF document.

MCPDOntology - Class in org.genesys2.rdf.model.germplasm

MultiCropPassportDescriptorOntology manages the MCPD meta-data as documented by the DarwinCore-Germplasm RDF model.

MCPDOntology() - Constructor for class org.genesys2.rdf.model.germplasm.MCPDOntology

Constructor to initialize FAO/Bioversity Multi-Crop Passport Ontology.

MEMBER - Static variable in class org.genesys2.rdf.model.rdf.ModelDocument

The Constant MEMBER.

member - Static variable in class org.genesys2.rdf.model.skos.SKOS

Indicates the ConceptScheme to which a given SKOS Concept belongs.

members(String) - Method in class org.genesys2.rdf.model.rdf.ModelDocument

Method to return the members of a skos:Collection, as complete URI's.

method - Static variable in class org.genesys2.rdf.model.germplasm.CCO

The method of a trait property of a crop.

ModelDocument - Class in org.genesys2.rdf.model.rdf

The Class ModelDocument.

ModelDocument(String) - Constructor for class org.genesys2.rdf.model.rdf.ModelDocument

Constructor.

ModelException - Exception in org.genesys2.rdf.model

ModelException.

ModelException() - Constructor for exception org.genesys2.rdf.model.ModelException

Instantiates a new model exception.

ModelException(String) - Constructor for exception org.genesys2.rdf.model.ModelException

Instantiates a new model exception.

ModelException(Throwable) - Constructor for exception org.genesys2.rdf.model.ModelException

Instantiates a new model exception.

ModelException(String, Throwable) - Constructor for exception org.genesys2.rdf.model.ModelException

Instantiates a new model exception.

ModelException(String, Throwable, boolean, boolean) - Constructor for exception org.genesys2.rdf.model.ModelException

Instantiates a new model exception.

modelURI - Variable in class org.genesys2.rdf.model.rdf.ModelDocument

The model uri.

N

name() - Method in interface org.genesys2.rdf.model.Database

Name.

NAME - Static variable in class org.genesys2.rdf.model.germplasm.DescriptorOntology

The Constant NAME.

NAMESPACE - Static variable in class org.genesys2.rdf.model.dc.DCMI

The namespace of the vocabulary as a resource

NAMESPACE - Static variable in class org.genesys2.rdf.model.dc.DublinCore

The namespace of the vocabulary as a resource

NAMESPACE - Static variable in class org.genesys2.rdf.model.dwc.DarwinCore

The namespace of the vocabulary as a resource

NAMESPACE - Static variable in class org.genesys2.rdf.model.germplasm.CCO

The namespace of the vocabulary as a resource

NAMESPACE - Static variable in class org.genesys2.rdf.model.rdf.Parser

The Constant NAMESPACE.

NAMESPACE - Static variable in class org.genesys2.rdf.model.skos.SKOS

The namespace of the vocabulary as a resource

narrower - Static variable in class org.genesys2.rdf.model.skos.SKOS

A SKOS Concept narrower property.

NONE - Static variable in class org.genesys2.rdf.model.rdf.ModelDocument

The Constant VERBOSE.

NS - Static variable in class org.genesys2.rdf.model.dc.DCMI

The namespace of the vocabulary as a string

NS - Static variable in class org.genesys2.rdf.model.dc.DublinCore

The namespace of the vocabulary as a string

NS - Static variable in class org.genesys2.rdf.model.dwc.DarwinCore

The namespace of the vocabulary as a string

NS - Static variable in class org.genesys2.rdf.model.germplasm.CCO

The namespace of the vocabulary as a string

NS - Static variable in class org.genesys2.rdf.model.skos.SKOS

The namespace of the vocabulary as a string

O

org.genesys2.rdf.model - package org.genesys2.rdf.model

org.genesys2.rdf.model.dc - package org.genesys2.rdf.model.dc

org.genesys2.rdf.model.dwc - package org.genesys2.rdf.model.dwc

org.genesys2.rdf.model.foaf - package org.genesys2.rdf.model.foaf

org.genesys2.rdf.model.germplasm - package org.genesys2.rdf.model.germplasm

org.genesys2.rdf.model.rdf - package org.genesys2.rdf.model.rdf

org.genesys2.rdf.model.skos - package org.genesys2.rdf.model.skos

org.genesys2.rdf.model.w3c - package org.genesys2.rdf.model.w3c

P

parser() - Method in class org.genesys2.rdf.model.rdf.ModelDocument

Parser.

Parser - Class in org.genesys2.rdf.model.rdf

The Class Parser.

Parser(Model) - Constructor for class org.genesys2.rdf.model.rdf.Parser

Instantiates a new parser.

parseURI(String) - Method in class org.genesys2.rdf.model.rdf.Parser

This method is a bit of a hack to repair URI's (incorrectly) abbreviated as QNames in the specified RDF model.

PlantTraitCategoryVocabulary - Static variable in class org.genesys2.rdf.model.germplasm.CCO

The PlantTraitCategoryVocabulary (as a Resource).

PlantTraitMethodVocabulary - Static variable in class org.genesys2.rdf.model.germplasm.CCO

The PlantTraitCategoryVocabulary (as a Resource).

PlantTraitScaleVocabulary - Static variable in class org.genesys2.rdf.model.germplasm.CCO

The PlantTraitCategoryVocabulary (as a Resource).

prefLabel - Static variable in class org.genesys2.rdf.model.skos.SKOS

A SKOS Concept prefLabel property.

properties() - Method in class org.genesys2.rdf.model.rdf.ModelDocument

Properties.

propertyDetails(String, String) - Method in class org.genesys2.rdf.model.dwc.DarwinCore

propertyDetails(String, String) - Method in class org.genesys2.rdf.model.rdf.ModelDocument

Method to document rdfs:Class resource specific details.

R

RANGE - Static variable in class org.genesys2.rdf.model.rdf.ModelDocument

The Constant RANGE.

RDFParserException - Exception in org.genesys2.rdf.model.rdf

The Class RDFParserException.

RDFParserException() - Constructor for exception org.genesys2.rdf.model.rdf.RDFParserException

Instantiates a new RDF parser exception.

RDFParserException(String) - Constructor for exception org.genesys2.rdf.model.rdf.RDFParserException

Instantiates a new RDF parser exception.

RDFParserException(Throwable) - Constructor for exception org.genesys2.rdf.model.rdf.RDFParserException

Instantiates a new RDF parser exception.

RDFParserException(String, Throwable) - Constructor for exception org.genesys2.rdf.model.rdf.RDFParserException

Instantiates a new RDF parser exception.

RDFParserException(String, Throwable, boolean, boolean) - Constructor for exception org.genesys2.rdf.model.rdf.RDFParserException

Instantiates a new RDF parser exception.

RDFSchema - Class in org.genesys2.rdf.model.rdf

Wrapper of the Dublin Core Metadata Initiative (RDF) ontology.

RDFSchema() - Constructor for class org.genesys2.rdf.model.rdf.RDFSchema

Constructor to initialize Dublin Core Metadata Initiative ontology.

related - Static variable in class org.genesys2.rdf.model.skos.SKOS

A SKOS Concept related property.

S

scale - Static variable in class org.genesys2.rdf.model.germplasm.CCO

The scale of the method of a trait property of a crop.

scaleType - Static variable in class org.genesys2.rdf.model.germplasm.CCO

The type of scale.

scaleUnit - Static variable in class org.genesys2.rdf.model.germplasm.CCO

The units of a scale.

scientificName - Static variable in class org.genesys2.rdf.model.dwc.DarwinCore

Indicates the creator of a document.

set(Model, Resource, CCO.Vocabulary, String) - Static method in enum org.genesys2.rdf.model.germplasm.CCO.Vocabulary

Method to create an RDF Resource documenting a CCO vocabulary.

setLanguage(String) - Method in class org.genesys2.rdf.model.rdf.ModelDocument

Method.

SKOS - Class in org.genesys2.rdf.model.skos

Wrapper of the Simple Knowledge Organization System (RDF) ontology.

SKOS() - Constructor for class org.genesys2.rdf.model.skos.SKOS

Species - Static variable in class org.genesys2.rdf.model.germplasm.CCO

A Species (class type) resource.

speciesIncluded - Static variable in class org.genesys2.rdf.model.germplasm.CCO

Indicates that a species is included in a given crop grouping (this is a GENESYS thing...).

SUB_CLASS_OF - Static variable in class org.genesys2.rdf.model.rdf.ModelDocument

The Constant SUB_CLASS_OF.

SUB_PROPERTY_OF - Static variable in class org.genesys2.rdf.model.rdf.ModelDocument

The Constant SUB_PROPERTY_OF.

subjectsOfType(String) - Method in class org.genesys2.rdf.model.rdf.ModelDocument

Subjects of type.

subjectsOfType(String) - Method in class org.genesys2.rdf.model.rdf.Parser

Subjects of type.

T

Taxon - Static variable in class org.genesys2.rdf.model.dwc.DarwinCore

A Darwin Core (class type).

taxonomicScope - Static variable in class org.genesys2.rdf.model.germplasm.CCO

The crop to which which a given trait descriptor is assigned.

term() - Method in enum org.genesys2.rdf.model.dwc.DCA

Term.

TERM - Static variable in class org.genesys2.rdf.model.rdf.Parser

The Constant TERM.

title - Static variable in class org.genesys2.rdf.model.dc.DCMI

Indicates the title of a document.

trace(int) - Static method in class org.genesys2.rdf.model.rdf.ModelDocument

Trace.

trait - Static variable in class org.genesys2.rdf.model.germplasm.CCO

The trait property of a crop.

TraitCategory - Static variable in class org.genesys2.rdf.model.germplasm.CCO

A TraitCategory (as a Resource).

translatedModel() - Method in class org.genesys2.rdf.model.rdf.ModelDocument

Method that returns the ModelDocument associated with the current language translation associated with the core RDF model (i.e.

U

uri() - Method in interface org.genesys2.rdf.model.Identifier

Uri.

URI() - Method in class org.genesys2.rdf.model.rdf.ModelDocument

Uri.

URI - Static variable in class org.genesys2.rdf.model.rdf.Parser

The Constant URI.

url() - Method in interface org.genesys2.rdf.model.Database

Url.

urlPrefix() - Method in interface org.genesys2.rdf.model.Database

Url prefix.

V

valueOf(String) - Static method in enum org.genesys2.rdf.model.dwc.DCA

Returns the enum constant of this type with the specified name.

valueOf(String) - Static method in enum org.genesys2.rdf.model.germplasm.CCO.Vocabulary

Returns the enum constant of this type with the specified name.

valueOf(String) - Static method in enum org.genesys2.rdf.model.rdf.Vocabularies

Returns the enum constant of this type with the specified name.

ValueRange - Static variable in class org.genesys2.rdf.model.germplasm.CCO

A range of values for a given property.

values() - Static method in enum org.genesys2.rdf.model.dwc.DCA

Returns an array containing the constants of this enum type, in the order they are declared.

values() - Static method in enum org.genesys2.rdf.model.germplasm.CCO.Vocabulary

Returns an array containing the constants of this enum type, in the order they are declared.

values() - Static method in enum org.genesys2.rdf.model.rdf.Vocabularies

Returns an array containing the constants of this enum type, in the order they are declared.

VERBOSE - Static variable in class org.genesys2.rdf.model.rdf.ModelDocument

The Constant VERBOSE.

vernacularName - Static variable in class org.genesys2.rdf.model.dwc.DarwinCore

Indicates the creator of a document.

version() - Method in interface org.genesys2.rdf.model.Identifier

Version.

Vocabularies - Enum in org.genesys2.rdf.model.rdf

The Enum Vocabularies.

W

WGS94GeoPositioning - Class in org.genesys2.rdf.model.w3c

WGS84 Datum Geo Positioning Ontology.

WGS94GeoPositioning() - Constructor for class org.genesys2.rdf.model.w3c.WGS94GeoPositioning

Constructor to initialize Dublin Core Metadata Initiative ontology.

_

_load(Map<String, String>, Map<String, String>, String) - Method in class org.genesys2.rdf.model.rdf.ModelDocument

Utility method for property Map management.

_trace_level - Static variable in class org.genesys2.rdf.model.rdf.ModelDocument

The _trace_level.

A B C D F G H I L M N O P R S T U V W _