SMTK  @SMTK_VERSION@
Simulation Modeling Tool Kit
Public Member Functions | Protected Attributes | List of all members
smtk::markup::OntologyIdentifier Class Reference

An entry in an ontology used to label components. More...

#include <OntologyIdentifier.h>

Inheritance diagram for smtk::markup::OntologyIdentifier:
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Collaboration diagram for smtk::markup::OntologyIdentifier:
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Public Member Functions

 smtkTypeMacro (smtk::markup::OntologyIdentifier)
 
 smtkSuperclassMacro (smtk::markup::Label)
 
template<typename... Args>
 OntologyIdentifier (Args &&... args)
 
void initialize (const nlohmann::json &data, smtk::resource::json::Helper &helper) override
 Provide an initializer for resources to call after construction.
 
bool setOntologyId (const smtk::string::Token &ontologyId)
 A URL in the ontologys schema that can be queried for relationships.
 
const smtk::string::TokenontologyId () const
 
smtk::string::TokenontologyId ()
 
Ontologyontology () const
 A convenience method to fetch the parent ontology (using the arc API).
 
ArcEndpointInterface< arcs::OntologyIdentifiersToIndividuals, ConstArc, OutgoingArcsubjects () const
 Arc to components tagged with this ontology identifier.
 
ArcEndpointInterface< arcs::OntologyIdentifiersToIndividuals, NonConstArc, OutgoingArcsubjects ()
 
ArcEndpointInterface< arcs::OntologyToIdentifiers, ConstArc, IncomingArcparent () const
 Arc to the parent ontology of this identifer.
 
ArcEndpointInterface< arcs::OntologyToIdentifiers, NonConstArc, IncomingArcparent ()
 
bool assign (const smtk::graph::Component::ConstPtr &source, smtk::resource::CopyOptions &options) override
 Assign this node's state from source.
 
- Public Member Functions inherited from smtk::markup::Label
 smtkTypeMacro (smtk::markup::Label)
 
 smtkSuperclassMacro (smtk::markup::Component)
 
template<typename... Args>
 Label (Args &&... args)
 
ArcEndpointInterface< arcs::LabelsToSubjects, ConstArc, OutgoingArcsubjects () const
 Return the container of components that this label references.
 
ArcEndpointInterface< arcs::LabelsToSubjects, NonConstArc, OutgoingArcsubjects ()
 
- Public Member Functions inherited from smtk::markup::Component
 smtkTypeMacro (smtk::markup::Component)
 
 smtkSuperclassMacro (smtk::graph::Component)
 
template<typename... Args>
 Component (Args &&... args)
 
Component::Index index () const
 The index is a compile-time intrinsic of the derived resource; as such, it cannot be set.
 
std::string name () const override
 Return the component's name.
 
bool setName (const std::string &name)
 Set the component's name.
 
ArcEndpointInterface< arcs::GroupsToMembers, ConstArc, IncomingArcgroups () const
 Return the container of groups this component belongs to.
 
ArcEndpointInterface< arcs::GroupsToMembers, NonConstArc, IncomingArcgroups ()
 
ArcEndpointInterface< arcs::LabelsToSubjects, ConstArc, IncomingArclabels () const
 Return the container of labels that reference this component.
 
ArcEndpointInterface< arcs::LabelsToSubjects, NonConstArc, IncomingArclabels ()
 
ArcEndpointInterface< arcs::URLsToImportedData, ConstArc, IncomingArcimportedFrom () const
 Return the container of URLs from which this component was imported (if any).
 
ArcEndpointInterface< arcs::URLsToImportedData, NonConstArc, IncomingArcimportedFrom ()
 
ArcEndpointInterface< arcs::OntologyIdentifiersToIndividuals, ConstArc, IncomingArcontologyClasses () const
 Return the container of ontology identifiers this component realizes. More...
 
ArcEndpointInterface< arcs::OntologyIdentifiersToIndividuals, NonConstArc, IncomingArcontologyClasses ()
 
bool assign (const smtk::graph::Component::ConstPtr &source, smtk::resource::CopyOptions &options) override
 Assign this node's state from source.
 
- Public Member Functions inherited from smtk::graph::Component
 smtkTypeMacro (smtk::graph::Component)
 
 smtkSuperclassMacro (smtk::resource::Component)
 
const smtk::resource::ResourcePtr resource () const override
 Access the containing resource.
 
smtk::resource::ResourceparentResource () const override
 Return a raw (not shared) pointer to the resource that owns this component. More...
 
const smtk::common::UUIDid () const override
 Access the component's id.
 
bool setId (const smtk::common::UUID &uid) override
 Set the component's id.
 
template<typename ArcType >
ArcEndpointInterface< ArcType, ConstArc, OutgoingArcoutgoing () const
 Return an endpoint-interface object for arcs of ArcType outgoing from this node. More...
 
template<typename ArcType >
ArcEndpointInterface< ArcType, NonConstArc, OutgoingArcoutgoing ()
 
template<typename ArcType >
ArcEndpointInterface< ArcType, ConstArc, IncomingArcincoming () const
 Return an endpoint-interface object for arcs of ArcType incoming to this node. More...
 
template<typename ArcType >
ArcEndpointInterface< ArcType, NonConstArc, IncomingArcincoming ()
 
bool disconnect (bool onlyExplicit=false)
 Remove all (editable) arcs from this node. More...
 
RuntimeArcEndpoint< NonConstArcoutgoing (smtk::string::Token arcType)
 Given a runtime arc type-name, return a runtime endpoint interface. More...
 
RuntimeArcEndpoint< ConstArcoutgoing (smtk::string::Token arcType) const
 
RuntimeArcEndpoint< NonConstArcincoming (smtk::string::Token arcType)
 
RuntimeArcEndpoint< ConstArcincoming (smtk::string::Token arcType) const
 
virtual bool assign (const ConstPtr &source, smtk::resource::CopyOptions &options)
 Assign state data from the source node to this instance. More...
 
- Public Member Functions inherited from smtk::resource::Component
 smtkTypeMacro (smtk::resource::Component)
 
 smtkSuperclassMacro (smtk::resource::PersistentObject)
 
 smtkSharedFromThisMacro (smtk::resource::PersistentObject)
 
template<typename ResourceType >
ResourceType * parentResourceAs () const
 This variant of parentResource casts the result to the given ResourceType.
 
Linkslinks () override
 Return the links that connect this component to external resources/components.
 
const Linkslinks () const override
 
Propertiesproperties () override
 Return properties defined on this component.
 
const Propertiesproperties () const override
 
- Public Member Functions inherited from smtk::resource::PersistentObject
 smtkTypeMacroBase (smtk::resource::PersistentObject)
 
template<typename T >
T::Ptr as ()
 Attempt to cast this object to a subclass.
 
template<typename T >
T::ConstPtr as () const
 Attempt to cast this object to a subclass.
 

Protected Attributes

smtk::string::Token m_ontologyId
 
- Protected Attributes inherited from smtk::markup::Component
std::string m_name
 
- Protected Attributes inherited from smtk::graph::Component
smtk::WeakReferenceWrapper< smtk::graph::ResourceBasem_resource
 
smtk::common::UUID m_id
 

Additional Inherited Members

- Public Types inherited from smtk::markup::Component
using Serialize = std::true_type
 
using Index = std::size_t
 
- Public Types inherited from smtk::resource::Component
typedef std::function< void(const ComponentPtr &)> Visitor
 
typedef detail::ComponentLinks Links
 
typedef detail::ComponentProperties Properties
 
- Static Public Attributes inherited from smtk::markup::Component
static const Component::Index type_index
 A unique integer corresponding to the component type.
 
- Protected Member Functions inherited from smtk::markup::Component
bool copyAssignment (const AssignedIds &sourceAssignment, std::shared_ptr< AssignedIds > &targetAssignment)
 Copy the sourceAssignment's IDs into the targetAssignment. More...
 
bool copyBaseData (const vtkSmartPointer< vtkDataObject > &baseSourceData, vtkSmartPointer< vtkDataObject > &baseTargetData, smtk::resource::CopyOptions &options)
 Use copyData<T>() instead. It calls this method.
 
template<typename DataType >
bool copyData (const vtkSmartPointer< DataType > &sourceData, vtkSmartPointer< DataType > &targetData, smtk::resource::CopyOptions &options)
 Copy the sourceData into the targetData. More...
 
- Protected Member Functions inherited from smtk::graph::Component
 Component (const std::shared_ptr< smtk::graph::ResourceBase > &)
 
 Component (const std::shared_ptr< smtk::graph::ResourceBase > &, const smtk::common::UUID &)
 
const ArcImplementationBasearcsOfType (smtk::string::Token arcType) const
 
ArcImplementationBasearcsOfType (smtk::string::Token arcType)
 
virtual void createDependentArcs ()
 

Detailed Description

An entry in an ontology used to label components.

Instances of this class must have an arc relating them to the ontology to which they belong. They may have any number of arcs connecting them to components, indicating an "is a" relationship (i.e., the component is an instance of the ontology ID).

For example, you may label an smtk::markup::UnstructuredData node with an OntologyIdentifier node whose ontologyId() is "http://purl.obolibrary.org/obo/UBERON_0000981", indicating the geometry represents a femur bone. The OntologyIdentifier in turn is connected to an Ontology node representing the Uberon anatomical database as well as other OntologyIdentifier nodes such as "http://purl.obolibrary.org/obo/UBERON_0003608", which is the ID for "hindlimb long bones" (the base type of femur bones).


The documentation for this class was generated from the following files: