bpp::AssociationDAGraphObserver< N, E > Class Template Reference

Defines a DA Graph Associator. It is a template which follows (subscribed to) a Graph. More...

#include <Bpp/Graph/AssociationDAGraphObserver.h>

Inheritance diagram for bpp::AssociationDAGraphObserver< N, E >:

Collaboration diagram for bpp::AssociationDAGraphObserver< N, E >:

Public Types
typedef AssociationDAGraphObserver< N, E >::NodeIndex	NodeIndex
typedef AssociationDAGraphObserver< N, E >::EdgeIndex	EdgeIndex
typedef DAGraph::NodeId	NodeGraphid
typedef DAGraph::EdgeId	EdgeGraphid
typedef AssociationGraphObserver< N, E >::NodeIterator	NodeIterator
typedef AssociationGraphObserver< N, E >::EdgeIterator	EdgeIterator

Public Member Functions
virtual bool	isValid () const =0
virtual bool	isRooted () const =0
virtual void	rootAt (const std::shared_ptr< N > root)=0
	Sets the root and make the DAG directed from root to leaves. More...
virtual std::vector< std::shared_ptr< N > >	getFathers (const std::shared_ptr< N > node) const =0
virtual std::vector< NodeIndex >	getFathers (const NodeIndex node) const =0
virtual bool	hasFather (const std::shared_ptr< N > nodeObject) const =0
virtual bool	hasFather (const NodeIndex node) const =0
virtual std::vector< std::shared_ptr< N > >	getSons (const std::shared_ptr< N > node) const =0
virtual std::vector< NodeIndex >	getSons (const NodeIndex node) const =0
virtual std::shared_ptr< N >	getSon (const std::shared_ptr< E > edge) const =0
virtual NodeIndex	getSon (const EdgeIndex edge) const =0
virtual std::shared_ptr< N >	getFatherOfEdge (const std::shared_ptr< E > edge) const =0
virtual NodeIndex	getFatherOfEdge (const EdgeIndex edge) const =0
virtual size_t	getNumberOfSons (const std::shared_ptr< N > node) const =0
virtual size_t	getNumberOfFathers (const std::shared_ptr< N > node) const =0
virtual std::vector< std::shared_ptr< N > >	getLeavesUnderNode (std::shared_ptr< N > node) const =0
virtual std::vector< std::shared_ptr< N > >	removeSons (const std::shared_ptr< N > node)=0
virtual void	removeSon (const std::shared_ptr< N > node, const std::shared_ptr< N > son)=0
virtual void	addSon (const std::shared_ptr< N > nodeObject, const std::shared_ptr< N > sonNodeObject, const std::shared_ptr< E > edgeObject=0)=0
virtual std::vector< std::shared_ptr< N > >	removeFathers (const std::shared_ptr< N > node)=0
virtual void	removeFather (const std::shared_ptr< N > node, const std::shared_ptr< N > father)=0
virtual void	addFather (const std::shared_ptr< N > nodeObject, const std::shared_ptr< N > fatherNodeObject, const std::shared_ptr< E > edgeObject=0)=0
virtual std::unique_ptr< NodeIterator >	sonsIterator (std::shared_ptr< N > node)=0
virtual std::unique_ptr< NodeIterator >	sonsIterator (std::shared_ptr< N > node) const =0
virtual std::unique_ptr< NodeIterator >	fathersIterator (std::shared_ptr< N > node)=0
virtual std::unique_ptr< NodeIterator >	fathersIterator (std::shared_ptr< N > node) const =0
virtual std::vector< std::shared_ptr< N > >	getBelowNodes (const std::shared_ptr< N > localRoot)=0
	Get Below Objects. More...
virtual std::vector< std::shared_ptr< E > >	getBelowEdges (const std::shared_ptr< N > localRoot)=0
virtual Clonable *	clone () const =0
	Create a copy of this object and send a pointer to it. More...
Graph Relations Management
Modificating the structure of the graph.
virtual void	createNode (std::shared_ptr< N > newNodeObject)=0
virtual void	createNode (std::shared_ptr< N > objectOriginNode, std::shared_ptr< N > newNodeObject, std::shared_ptr< E > newEdgeObject=00)=0
virtual void	link (std::shared_ptr< N > nodeObjectA, std::shared_ptr< N > nodeObjectB, std::shared_ptr< E > edgeObject=00)=0
virtual void	unlink (std::shared_ptr< N > nodeObjectA, std::shared_ptr< N > nodeObjectB)=0
virtual void	deleteNode (std::shared_ptr< N > nodeObject)=0
Object Association
Associate or dissociate N and E objects to pre-existing Graph Nodes and Graph Edges
virtual void	associateNode (std::shared_ptr< N > nodeObject, NodeGraphid node)=0
virtual void	associateEdge (std::shared_ptr< E > edgeObject, EdgeGraphid edge)=0
virtual void	dissociateNode (std::shared_ptr< N > nodeObject)=0
virtual void	dissociateEdge (std::shared_ptr< E > edgeObject)=0
virtual NodeGraphid	getNodeGraphid (const std::shared_ptr< N > nodeObject) const =0
virtual EdgeGraphid	getEdgeGraphid (const std::shared_ptr< E > edgeObject) const =0
virtual const std::shared_ptr< N >	getNodeFromGraphid (NodeGraphid) const =0
virtual std::shared_ptr< N >	getNodeFromGraphid (NodeGraphid)=0
virtual std::vector< std::shared_ptr< N > >	getNodesFromGraphid (std::vector< NodeGraphid >) const =0
virtual std::shared_ptr< E >	getEdgeFromGraphid (EdgeGraphid)=0
virtual const std::shared_ptr< E >	getEdgeFromGraphid (EdgeGraphid) const =0
virtual std::vector< std::shared_ptr< E > >	getEdgesFromGraphid (std::vector< EdgeGraphid >) const =0
virtual std::shared_ptr< N >	getRoot () const =0
virtual NodeIndex	getRootIndex () const =0
Object Indexation
Get or set indexes to nodes and edges
virtual bool	hasNodeIndex (const std::shared_ptr< N > nodeObject) const =0
	return if the object has an index. More...
virtual bool	hasEdgeIndex (const std::shared_ptr< E > edgeObject) const =0
virtual NodeIndex	getNodeIndex (const std::shared_ptr< N > nodeObject) const =0
virtual std::vector< NodeIndex >	getNodeIndexes (std::vector< std::shared_ptr< N > > nodeObjects) const =0
virtual EdgeIndex	getEdgeIndex (const std::shared_ptr< E > edgeObject) const =0
virtual std::vector< EdgeIndex >	getEdgeIndexes (std::vector< std::shared_ptr< E > > edgeObjects) const =0
virtual NodeIndex	setNodeIndex (const std::shared_ptr< N > nodeObject, NodeIndex index)=0
virtual EdgeIndex	setEdgeIndex (const std::shared_ptr< E > edgeObject, EdgeIndex index)=0
virtual bool	hasNode (NodeIndex nodeIndex) const =0
virtual bool	hasEdge (EdgeIndex edgeIndex) const =0
virtual std::shared_ptr< N >	getNode (NodeIndex nodeIndex) const =0
virtual std::shared_ptr< E >	getEdge (EdgeIndex edgeIndex) const =0
Iterator interface on Nodes
virtual std::unique_ptr< NodeIterator >	allNodesIterator ()=0
virtual std::unique_ptr< NodeIterator >	allNodesIterator () const =0
virtual std::unique_ptr< NodeIterator >	outgoingNeighborNodesIterator (std::shared_ptr< N > node)=0
virtual std::unique_ptr< NodeIterator >	outgoingNeighborNodesIterator (std::shared_ptr< N > node) const =0
virtual std::unique_ptr< NodeIterator >	incomingNeighborNodesIterator (std::shared_ptr< N > node)=0
virtual std::unique_ptr< NodeIterator >	incomingNeighborNodesIterator (std::shared_ptr< N > node) const =0
virtual std::vector< std::shared_ptr< N > >	getNeighbors (const std::shared_ptr< N > node) const =0
virtual std::vector< NodeIndex >	getNeighbors (NodeIndex node) const =0
virtual std::vector< std::shared_ptr< E > >	getEdges (const std::shared_ptr< N > node) const =0
virtual std::vector< EdgeIndex >	getEdges (NodeIndex node) const =0
virtual std::vector< std::shared_ptr< N > >	getOutgoingNeighbors (const std::shared_ptr< N > node) const =0
virtual std::vector< NodeIndex >	getOutgoingNeighbors (NodeIndex node) const =0
virtual std::vector< std::shared_ptr< E > >	getOutgoingEdges (const std::shared_ptr< N > node) const =0
virtual std::vector< EdgeIndex >	getOutgoingEdges (NodeIndex node) const =0
virtual std::vector< std::shared_ptr< N > >	getIncomingNeighbors (const std::shared_ptr< N > node) const =0
virtual std::vector< NodeIndex >	getIncomingNeighbors (NodeIndex node) const =0
virtual std::vector< std::shared_ptr< E > >	getIncomingEdges (const std::shared_ptr< N > node) const =0
virtual std::vector< EdgeIndex >	getIncomingEdges (NodeIndex node) const =0
virtual std::vector< std::shared_ptr< N > >	getLeavesFromNode (std::shared_ptr< N > node, unsigned int maxDepth) const =0
virtual std::vector< std::shared_ptr< N > >	getAllLeaves () const =0
virtual std::vector< NodeIndex >	getAllLeavesIndexes () const =0
virtual std::vector< std::shared_ptr< N > >	getAllInnerNodes () const =0
virtual std::vector< NodeIndex >	getAllInnerNodesIndexes () const =0
virtual std::vector< std::shared_ptr< N > >	getAllNodes () const =0
virtual std::vector< NodeIndex >	getAllNodesIndexes () const =0
Iterator interface on Edges
virtual std::unique_ptr< EdgeIterator >	allEdgesIterator ()=0
virtual std::unique_ptr< EdgeIterator >	outgoingEdgesIterator (std::shared_ptr< N > node)=0
virtual std::unique_ptr< EdgeIterator >	incomingEdgesIterator (std::shared_ptr< N > node)=0
virtual std::vector< std::shared_ptr< E > >	getAllEdges () const =0
virtual std::vector< EdgeIndex >	getAllEdgesIndexes () const =0
virtual std::shared_ptr< E >	getEdgeLinking (std::shared_ptr< N > nodeA, std::shared_ptr< N > nodeB) const =0
virtual void	setEdgeLinking (std::shared_ptr< N > nodeA, std::shared_ptr< N > nodeB, std::shared_ptr< E > edge)=0
Function called by the subjectGraph
Methods called by the subject graph to make this observer so fit the subject graph
virtual void	deletedEdgesUpdate (const std::vector< unsigned int > &edgesToDelete)=0
virtual void	deletedNodesUpdate (const std::vector< unsigned int > &nodesToDelete)=0

Static Public Member Functions
template<class A , class B >
static B *	copy (const A &a, typename std::enable_if< !std::is_base_of< B, A >::value &&!std::is_abstract< B >::value, B * >::type *=0)
template<class A , class B >
static B *	copy (const A &a, typename std::enable_if< !std::is_base_of< B, A >::value &&std::is_abstract< B >::value, B * >::type *=0)
template<class A , class B >
static B *	copy (const A &a, typename std::enable_if< std::is_base_of< B, A >::value &&!std::is_abstract< A >::value, B * >::type *=0)
template<class A , class B >
static B *	copy (const A &a, typename std::enable_if< std::is_base_of< B, A >::value &&std::is_abstract< A >::value &&std::is_base_of< Clonable, A >::value, B * >::type *=0)
template<class A , class B >
static B *	copy (const A &a, typename std::enable_if< std::is_base_of< B, A >::value &&std::is_abstract< A >::value &&!std::is_base_of< Clonable, A >::value, B * >::type *=0)

Detailed Description

template<class N, class E>
class bpp::AssociationDAGraphObserver< N, E >

Defines a DA Graph Associator. It is a template which follows (subscribed to) a Graph.

Author

Laurent Guéguen

Definition at line 63 of file AssociationDAGraphObserver.h.

Member Typedef Documentation

EdgeGraphid

template<class N , class E >

typedef DAGraph::EdgeId bpp::AssociationDAGraphObserver< N, E >::EdgeGraphid

Definition at line 71 of file AssociationDAGraphObserver.h.

EdgeIndex

template<class N , class E >

typedef AssociationDAGraphObserver<N, E>::EdgeIndex bpp::AssociationDAGraphObserver< N, E >::EdgeIndex

Definition at line 68 of file AssociationDAGraphObserver.h.

EdgeIterator

template<class N , class E >

typedef AssociationGraphObserver<N, E>::EdgeIterator bpp::AssociationDAGraphObserver< N, E >::EdgeIterator

Definition at line 226 of file AssociationDAGraphObserver.h.

NodeGraphid

template<class N , class E >

typedef DAGraph::NodeId bpp::AssociationDAGraphObserver< N, E >::NodeGraphid

Definition at line 70 of file AssociationDAGraphObserver.h.

NodeIndex

template<class N , class E >

typedef AssociationDAGraphObserver<N, E>::NodeIndex bpp::AssociationDAGraphObserver< N, E >::NodeIndex

Definition at line 67 of file AssociationDAGraphObserver.h.

NodeIterator

template<class N , class E >

typedef AssociationGraphObserver<N, E>::NodeIterator bpp::AssociationDAGraphObserver< N, E >::NodeIterator

Iterators

Definition at line 225 of file AssociationDAGraphObserver.h.

Member Function Documentation

addFather()

template<class N , class E >

virtual void bpp::AssociationDAGraphObserver< N, E >::addFather ( const std::shared_ptr< N >  nodeObject, const std::shared_ptr< N >  fatherNodeObject, const std::shared_ptr< E >  edgeObject = 0  )

pure virtual

Add a father to a node

Parameters

nodeObject	the concerned node
fatherNodeObject	the node to be added as a father to the node
edgeObject	the optional edge between the nodes (default = 00)

Implemented in bpp::AssociationDAGraphImplObserver< N, E, DAGraphImpl >.

addSon()

template<class N , class E >

virtual void bpp::AssociationDAGraphObserver< N, E >::addSon ( const std::shared_ptr< N >  nodeObject, const std::shared_ptr< N >  sonNodeObject, const std::shared_ptr< E >  edgeObject = 0  )

pure virtual

Add a son to a node

Parameters

nodeObject	the concerned node
sonNodeObject	the node to be added as a son to the father
edgeObject	the optional edge between the nodes (default = 0)

Implemented in bpp::AssociationDAGraphImplObserver< N, E, DAGraphImpl >.

allEdgesIterator()

template<class N , class E >

virtual std::unique_ptr<EdgeIterator> bpp::AssociationGraphObserver< N, E >::allEdgesIterator ( )

pure virtualinherited

Implemented in bpp::AssociationGraphImplObserver< N, E, GraphImpl >, bpp::AssociationGraphImplObserver< N, E, DAGraphImpl >, and bpp::AssociationGraphImplObserver< N, E, TreeGraphImpl >.

allNodesIterator() [1/2]

template<class N , class E >

virtual std::unique_ptr<NodeIterator> bpp::AssociationGraphObserver< N, E >::allNodesIterator ( ) const

pure virtualinherited

Implemented in bpp::AssociationGraphImplObserver< N, E, GraphImpl >, bpp::AssociationGraphImplObserver< N, E, DAGraphImpl >, and bpp::AssociationGraphImplObserver< N, E, TreeGraphImpl >.

allNodesIterator() [2/2]

template<class N , class E >

virtual std::unique_ptr<NodeIterator> bpp::AssociationGraphObserver< N, E >::allNodesIterator ( )

pure virtualinherited

Implemented in bpp::AssociationGraphImplObserver< N, E, GraphImpl >, bpp::AssociationGraphImplObserver< N, E, DAGraphImpl >, and bpp::AssociationGraphImplObserver< N, E, TreeGraphImpl >.

associateEdge()

template<class N , class E >

virtual void bpp::AssociationGraphObserver< N, E >::associateEdge ( std::shared_ptr< E >  edgeObject, EdgeGraphid  edge  )

pure virtualinherited

Associate a E object to an edge in the graph.

Parameters

edgeObject	object to associate
edge	existing edge to be associated

Implemented in bpp::AssociationGraphImplObserver< N, E, GraphImpl >, bpp::AssociationGraphImplObserver< N, E, DAGraphImpl >, and bpp::AssociationGraphImplObserver< N, E, TreeGraphImpl >.

associateNode()

template<class N , class E >

virtual void bpp::AssociationGraphObserver< N, E >::associateNode ( std::shared_ptr< N >  nodeObject, NodeGraphid  node  )

pure virtualinherited

Associate a N object to a node in the graph.

Parameters

nodeObject	object to associate
node	existing node to be associated

Implemented in bpp::AssociationGraphImplObserver< N, E, GraphImpl >, bpp::AssociationGraphImplObserver< N, E, DAGraphImpl >, and bpp::AssociationGraphImplObserver< N, E, TreeGraphImpl >.

clone()

virtual Clonable* bpp::Clonable::clone ( ) const

pure virtualinherited

Create a copy of this object and send a pointer to it.

Returns

A pointer toward the copy object.

Implemented in bpp::TransformedParameter, bpp::MultipleDiscreteDistribution, bpp::DiscreteDistribution, bpp::ParameterListener, bpp::BppNumberI, bpp::HmmLikelihood, bpp::HmmEmissionProbabilities, bpp::Optimizer, bpp::OptimizationStopCondition, bpp::DerivableSecondOrder, bpp::DerivableFirstOrder, bpp::AbstractNumericalDerivative, bpp::Constraint, bpp::OutputStream, bpp::PlaceboTransformedParameter, bpp::IntervalTransformedParameter, bpp::RTransformedParameter, bpp::Table< T >, bpp::PrincipalComponentAnalysis, bpp::DualityDiagram, bpp::CorrespondenceAnalysis, bpp::ContingencyTableTest, bpp::Range< T >, bpp::UniformDiscreteDistribution, bpp::TruncatedExponentialDiscreteDistribution, bpp::Simplex, bpp::SimpleDiscreteDistribution, bpp::MixtureOfDiscreteDistributions, bpp::InvariantMixedDiscreteDistribution, bpp::GaussianDiscreteDistribution, bpp::GammaDiscreteDistribution, bpp::ExponentialDiscreteDistribution, bpp::DirichletDiscreteDistribution, bpp::ConstantDistribution, bpp::BetaDiscreteDistribution, bpp::ParametrizableCollection< N >, bpp::ParameterList, bpp::Parameter, bpp::ParameterEvent, bpp::BppUnsignedInteger, bpp::BppInteger, bpp::BppDouble, bpp::Number< T >, bpp::Number< double >, bpp::Number< int >, bpp::Number< unsigned int >, bpp::BppNotANumber, bpp::LinearMatrix< Scalar >, bpp::ColMatrix< Scalar >, bpp::RowMatrix< Scalar >, bpp::RowMatrix< double >, bpp::RowMatrix< Real >, bpp::RescaledHmmLikelihood, bpp::LowMemoryRescaledHmmLikelihood, bpp::LogsumHmmLikelihood, bpp::FullHmmTransitionMatrix, bpp::AutoCorrelationTransitionMatrix, bpp::TwoPointsNumericalDerivative, bpp::ThreePointsNumericalDerivative, bpp::SimpleNewtonMultiDimensions, bpp::SimpleMultiDimensions, bpp::ReparametrizationDerivableSecondOrderWrapper, bpp::ReparametrizationDerivableFirstOrderWrapper, bpp::ReparametrizationFunctionWrapper, bpp::PowellMultiDimensions, bpp::PowellMultiDimensions::PMDStopCondition, bpp::FunctionStopCondition, bpp::ParametersStopCondition, bpp::NegativeOperator, bpp::MathOperator, bpp::FunctionOperator< F >, bpp::ConstantOperator, bpp::ComputationTree, bpp::BinaryOperator, bpp::NewtonOneDimension, bpp::NewtonBacktrackOneDimension, bpp::NewtonBacktrackOneDimension::NBODStopCondition, bpp::MetaOptimizer, bpp::MetaOptimizerInfos, bpp::GoldenSectionSearch, bpp::GoldenSectionSearch::GSSStopCondition, bpp::TestFunction, bpp::InfinityDerivableSecondOrderWrapper, bpp::InfinityDerivableFirstOrderWrapper, bpp::InfinityFunctionWrapper, bpp::FivePointsNumericalDerivative, bpp::DownhillSimplexMethod, bpp::DownhillSimplexMethod::DSMStopCondition, bpp::DirectionFunction, bpp::ConjugateGradientMultiDimensions, bpp::BrentOneDimension, bpp::BrentOneDimension::BODStopCondition, bpp::BfgsMultiDimensions, bpp::DataTable, bpp::IntervalConstraint, bpp::AutoParameter, bpp::AliasParameterListener, bpp::StdErr, bpp::StdOut, bpp::StlOutputStreamWrapper, bpp::StlOutputStream, bpp::NullOutputStream, bpp::RGBColor, bpp::Point2D< T >, bpp::Font, bpp::GlobalGraph, bpp::AssociationTreeGraphImplObserver< N, E, TreeGraphImpl >, bpp::AssociationGraphImplObserver< N, E, GraphImpl >, bpp::AssociationGraphImplObserver< N, E, DAGraphImpl >, bpp::AssociationGraphImplObserver< N, E, TreeGraphImpl >, bpp::AssociationDAGraphImplObserver< N, E, DAGraphImpl >, bpp::BppVector< T >, bpp::BppString, and bpp::BppBoolean.

Referenced by bpp::AbstractParameterAliasable::aliasParameters(), bpp::LogsumHmmLikelihood::LogsumHmmLikelihood(), and bpp::LogsumHmmLikelihood::operator=().

copy() [1/5]

template<class N , class E >

template<class A , class B >

static B* bpp::AssociationGraphObserver< N, E >::copy ( const A &  a, typename std::enable_if< !std::is_base_of< B, A >::value &&!std::is_abstract< B >::value, B * >::type *  = 0  )

inlinestaticinherited

Specific copy of A and B objects, if clonable or not.

Definition at line 82 of file AssociationGraphObserver.h.

copy() [2/5]

template<class N , class E >

template<class A , class B >

static B* bpp::AssociationGraphObserver< N, E >::copy ( const A &  a, typename std::enable_if< !std::is_base_of< B, A >::value &&std::is_abstract< B >::value, B * >::type *  = 0  )

inlinestaticinherited

Definition at line 88 of file AssociationGraphObserver.h.

copy() [3/5]

template<class N , class E >

template<class A , class B >

static B* bpp::AssociationGraphObserver< N, E >::copy ( const A &  a, typename std::enable_if< std::is_base_of< B, A >::value &&!std::is_abstract< A >::value, B * >::type *  = 0  )

inlinestaticinherited

Definition at line 95 of file AssociationGraphObserver.h.

copy() [4/5]

template<class N , class E >

template<class A , class B >

static B* bpp::AssociationGraphObserver< N, E >::copy ( const A &  a, typename std::enable_if< std::is_base_of< B, A >::value &&std::is_abstract< A >::value &&!std::is_base_of< Clonable, A >::value, B * >::type *  = 0  )

inlinestaticinherited

Definition at line 107 of file AssociationGraphObserver.h.

copy() [5/5]

template<class N , class E >

template<class A , class B >

static B* bpp::AssociationGraphObserver< N, E >::copy ( const A &  a, typename std::enable_if< std::is_base_of< B, A >::value &&std::is_abstract< A >::value &&std::is_base_of< Clonable, A >::value, B * >::type *  = 0  )

inlinestaticinherited

Definition at line 101 of file AssociationGraphObserver.h.

createNode() [1/2]

template<class N , class E >

virtual void bpp::AssociationGraphObserver< N, E >::createNode ( std::shared_ptr< N >  newNodeObject )

pure virtualinherited

Creates an orphaned node from a NodeClass object.

Parameters

newNodeObject

the N object associated to the node in the graph.

Implemented in bpp::AssociationGraphImplObserver< N, E, GraphImpl >, bpp::AssociationGraphImplObserver< N, E, DAGraphImpl >, and bpp::AssociationGraphImplObserver< N, E, TreeGraphImpl >.

createNode() [2/2]

template<class N , class E >

virtual void bpp::AssociationGraphObserver< N, E >::createNode ( std::shared_ptr< N >  objectOriginNode, std::shared_ptr< N >  newNodeObject, std::shared_ptr< E >  newEdgeObject = 00  )

pure virtualinherited

Creates an node linked to an existing node. Order of parameters match the link method.

Parameters

newNodeObject	the N object associated to the node in the graph.
objectOriginNode	existing node. In a directed graph: origin -> newNode.
newEdgeObject	optional edge between nodes (default = 00)

Implemented in bpp::AssociationGraphImplObserver< N, E, GraphImpl >, bpp::AssociationGraphImplObserver< N, E, DAGraphImpl >, and bpp::AssociationGraphImplObserver< N, E, TreeGraphImpl >.

deletedEdgesUpdate()

virtual void bpp::GraphObserver::deletedEdgesUpdate ( const std::vector< unsigned int > &  edgesToDelete )

pure virtualinherited

Delete unused object edges, since they have been deleted in the graph

Parameters

edgesToDelete

a vector of Edges to delete

Implemented in bpp::AssociationGraphImplObserver< N, E, GraphImpl >, bpp::AssociationGraphImplObserver< N, E, DAGraphImpl >, and bpp::AssociationGraphImplObserver< N, E, TreeGraphImpl >.

deletedNodesUpdate()

virtual void bpp::GraphObserver::deletedNodesUpdate ( const std::vector< unsigned int > &  nodesToDelete )

pure virtualinherited

Delete unused object nodes, since they have been deleted in the graph

Parameters

nodesToDelete

a vector of N to delete

Implemented in bpp::AssociationGraphImplObserver< N, E, GraphImpl >, bpp::AssociationGraphImplObserver< N, E, DAGraphImpl >, and bpp::AssociationGraphImplObserver< N, E, TreeGraphImpl >.

deleteNode()

template<class N , class E >

virtual void bpp::AssociationGraphObserver< N, E >::deleteNode ( std::shared_ptr< N >  nodeObject )

pure virtualinherited

Deletes a node

Parameters

nodeObject

node to be deleted

Implemented in bpp::AssociationGraphImplObserver< N, E, GraphImpl >, bpp::AssociationGraphImplObserver< N, E, DAGraphImpl >, and bpp::AssociationGraphImplObserver< N, E, TreeGraphImpl >.

dissociateEdge()

template<class N , class E >

virtual void bpp::AssociationGraphObserver< N, E >::dissociateEdge ( std::shared_ptr< E >  edgeObject )

pure virtualinherited

Implemented in bpp::AssociationGraphImplObserver< N, E, GraphImpl >, bpp::AssociationGraphImplObserver< N, E, DAGraphImpl >, and bpp::AssociationGraphImplObserver< N, E, TreeGraphImpl >.

dissociateNode()

template<class N , class E >

virtual void bpp::AssociationGraphObserver< N, E >::dissociateNode ( std::shared_ptr< N >  nodeObject )

pure virtualinherited

Dissociate a N or E object to a node or an edge in the graph. Graph is not changed.

Parameters

nodeObject

object to dissociate

Implemented in bpp::AssociationGraphImplObserver< N, E, GraphImpl >, bpp::AssociationGraphImplObserver< N, E, DAGraphImpl >, and bpp::AssociationGraphImplObserver< N, E, TreeGraphImpl >.

fathersIterator() [1/2]

template<class N , class E >

virtual std::unique_ptr<NodeIterator> bpp::AssociationDAGraphObserver< N, E >::fathersIterator ( std::shared_ptr< N >  node ) const

pure virtual

Implemented in bpp::AssociationDAGraphImplObserver< N, E, DAGraphImpl >.

fathersIterator() [2/2]

template<class N , class E >

virtual std::unique_ptr<NodeIterator> bpp::AssociationDAGraphObserver< N, E >::fathersIterator ( std::shared_ptr< N >  node )

pure virtual

Implemented in bpp::AssociationDAGraphImplObserver< N, E, DAGraphImpl >.

getAllEdges()

template<class N , class E >

virtual std::vector<std::shared_ptr<E> > bpp::AssociationGraphObserver< N, E >::getAllEdges ( ) const

pure virtualinherited

Get all the defined edges of a graphO,

Returns

a vector containing the branchesObjects

Implemented in bpp::AssociationGraphImplObserver< N, E, GraphImpl >, bpp::AssociationGraphImplObserver< N, E, DAGraphImpl >, and bpp::AssociationGraphImplObserver< N, E, TreeGraphImpl >.

getAllEdgesIndexes()

template<class N , class E >

virtual std::vector<EdgeIndex> bpp::AssociationGraphObserver< N, E >::getAllEdgesIndexes ( ) const

pure virtualinherited

Implemented in bpp::AssociationGraphImplObserver< N, E, GraphImpl >, bpp::AssociationGraphImplObserver< N, E, DAGraphImpl >, and bpp::AssociationGraphImplObserver< N, E, TreeGraphImpl >.

getAllInnerNodes()

template<class N , class E >

virtual std::vector<std::shared_ptr<N> > bpp::AssociationGraphObserver< N, E >::getAllInnerNodes ( ) const

pure virtualinherited

Get all the inner nodes of a graph, ie, nodes with degree >= 2.

Returns

a vector containing the inner nodes.

Implemented in bpp::AssociationGraphImplObserver< N, E, GraphImpl >, bpp::AssociationGraphImplObserver< N, E, DAGraphImpl >, and bpp::AssociationGraphImplObserver< N, E, TreeGraphImpl >.

getAllInnerNodesIndexes()

template<class N , class E >

virtual std::vector<NodeIndex> bpp::AssociationGraphObserver< N, E >::getAllInnerNodesIndexes ( ) const

pure virtualinherited

Implemented in bpp::AssociationGraphImplObserver< N, E, GraphImpl >, bpp::AssociationGraphImplObserver< N, E, DAGraphImpl >, and bpp::AssociationGraphImplObserver< N, E, TreeGraphImpl >.

getAllLeaves()

template<class N , class E >

virtual std::vector<std::shared_ptr<N> > bpp::AssociationGraphObserver< N, E >::getAllLeaves ( ) const

pure virtualinherited

Get all the leaves objects of a graph, ie, nodes with only one neighbor,

Returns

a vector containing the leaves

Implemented in bpp::AssociationGraphImplObserver< N, E, GraphImpl >, bpp::AssociationGraphImplObserver< N, E, DAGraphImpl >, and bpp::AssociationGraphImplObserver< N, E, TreeGraphImpl >.

getAllLeavesIndexes()

template<class N , class E >

virtual std::vector<NodeIndex> bpp::AssociationGraphObserver< N, E >::getAllLeavesIndexes ( ) const

pure virtualinherited

Implemented in bpp::AssociationGraphImplObserver< N, E, GraphImpl >, bpp::AssociationGraphImplObserver< N, E, DAGraphImpl >, and bpp::AssociationGraphImplObserver< N, E, TreeGraphImpl >.

getAllNodes()

template<class N , class E >

virtual std::vector<std::shared_ptr<N> > bpp::AssociationGraphObserver< N, E >::getAllNodes ( ) const

pure virtualinherited

Get all the defined nodes of a graphO,

Returns

a vector containing the nodesObjects

Implemented in bpp::AssociationGraphImplObserver< N, E, GraphImpl >, bpp::AssociationGraphImplObserver< N, E, DAGraphImpl >, and bpp::AssociationGraphImplObserver< N, E, TreeGraphImpl >.

getAllNodesIndexes()

template<class N , class E >

virtual std::vector<NodeIndex> bpp::AssociationGraphObserver< N, E >::getAllNodesIndexes ( ) const

pure virtualinherited

Implemented in bpp::AssociationGraphImplObserver< N, E, GraphImpl >, bpp::AssociationGraphImplObserver< N, E, DAGraphImpl >, and bpp::AssociationGraphImplObserver< N, E, TreeGraphImpl >.

getBelowEdges()

template<class N , class E >

virtual std::vector<std::shared_ptr<E> > bpp::AssociationDAGraphObserver< N, E >::getBelowEdges ( const std::shared_ptr< N >  localRoot )

pure virtual

Implemented in bpp::AssociationDAGraphImplObserver< N, E, DAGraphImpl >.

getBelowNodes()

template<class N , class E >

virtual std::vector<std::shared_ptr<N> > bpp::AssociationDAGraphObserver< N, E >::getBelowNodes ( const std::shared_ptr< N >  localRoot )

pure virtual

Get Below Objects.

Parameters

localRoot

of the subgraph.

Returns

A vector of ancestor nodes ids.

Implemented in bpp::AssociationDAGraphImplObserver< N, E, DAGraphImpl >.

getEdge()

template<class N , class E >

virtual std::shared_ptr<E> bpp::AssociationGraphObserver< N, E >::getEdge ( EdgeIndex  edgeIndex ) const

pure virtualinherited

Return the associated Node index

Parameters

edgeIndex

the index of the wanted edge

Returns

E, an edge object

Implemented in bpp::AssociationGraphImplObserver< N, E, GraphImpl >, bpp::AssociationGraphImplObserver< N, E, DAGraphImpl >, and bpp::AssociationGraphImplObserver< N, E, TreeGraphImpl >.

getEdgeFromGraphid() [1/2]

template<class N , class E >

virtual const std::shared_ptr<E> bpp::AssociationGraphObserver< N, E >::getEdgeFromGraphid ( EdgeGraphid  ) const

pure virtualinherited

Implemented in bpp::AssociationGraphImplObserver< N, E, GraphImpl >, bpp::AssociationGraphImplObserver< N, E, DAGraphImpl >, and bpp::AssociationGraphImplObserver< N, E, TreeGraphImpl >.

getEdgeFromGraphid() [2/2]

template<class N , class E >

virtual std::shared_ptr<E> bpp::AssociationGraphObserver< N, E >::getEdgeFromGraphid ( EdgeGraphid  )

pure virtualinherited

Implemented in bpp::AssociationGraphImplObserver< N, E, GraphImpl >, bpp::AssociationGraphImplObserver< N, E, DAGraphImpl >, and bpp::AssociationGraphImplObserver< N, E, TreeGraphImpl >.

getEdgeGraphid()

template<class N , class E >

virtual EdgeGraphid bpp::AssociationGraphObserver< N, E >::getEdgeGraphid ( const std::shared_ptr< E >  edgeObject ) const

pure virtualinherited

Return the associated Node ID

Parameters

edgeObject

object which to return the node ID

Returns

a node ID

Implemented in bpp::AssociationGraphImplObserver< N, E, GraphImpl >, bpp::AssociationGraphImplObserver< N, E, DAGraphImpl >, and bpp::AssociationGraphImplObserver< N, E, TreeGraphImpl >.

getEdgeIndex()

template<class N , class E >

virtual EdgeIndex bpp::AssociationGraphObserver< N, E >::getEdgeIndex ( const std::shared_ptr< E >  edgeObject ) const

pure virtualinherited

Return the associated Node index

Parameters

edgeObject

object which to return the node index

Returns

a node index

Implemented in bpp::AssociationGraphImplObserver< N, E, GraphImpl >, bpp::AssociationGraphImplObserver< N, E, DAGraphImpl >, and bpp::AssociationGraphImplObserver< N, E, TreeGraphImpl >.

getEdgeIndexes()

template<class N , class E >

virtual std::vector<EdgeIndex> bpp::AssociationGraphObserver< N, E >::getEdgeIndexes ( std::vector< std::shared_ptr< E > >  edgeObjects ) const

pure virtualinherited

Implemented in bpp::AssociationGraphImplObserver< N, E, GraphImpl >, bpp::AssociationGraphImplObserver< N, E, DAGraphImpl >, and bpp::AssociationGraphImplObserver< N, E, TreeGraphImpl >.

getEdgeLinking()

template<class N , class E >

virtual std::shared_ptr<E> bpp::AssociationGraphObserver< N, E >::getEdgeLinking ( std::shared_ptr< N >  nodeA, std::shared_ptr< N >  nodeB  ) const

pure virtualinherited

Returns the Edge between two nodes nodeA -> nodeB

Parameters

nodeA	source node (if directed)
nodeB	destination node (if directed)

Returns

the edge between these two nodes

Implemented in bpp::AssociationGraphImplObserver< N, E, GraphImpl >, bpp::AssociationGraphImplObserver< N, E, DAGraphImpl >, and bpp::AssociationGraphImplObserver< N, E, TreeGraphImpl >.

getEdges() [1/2]

template<class N , class E >

virtual std::vector<std::shared_ptr<E> > bpp::AssociationGraphObserver< N, E >::getEdges ( const std::shared_ptr< N >  node ) const

pure virtualinherited

Get all the edges from/to a node in the graph.

Parameters

node	the node one wants to get its neighbor edges

Returns

a vector containing the edges

Implemented in bpp::AssociationGraphImplObserver< N, E, GraphImpl >, bpp::AssociationGraphImplObserver< N, E, DAGraphImpl >, and bpp::AssociationGraphImplObserver< N, E, TreeGraphImpl >.

getEdges() [2/2]

template<class N , class E >

virtual std::vector<EdgeIndex> bpp::AssociationGraphObserver< N, E >::getEdges ( NodeIndex  node ) const

pure virtualinherited

Implemented in bpp::AssociationGraphImplObserver< N, E, GraphImpl >, bpp::AssociationGraphImplObserver< N, E, DAGraphImpl >, and bpp::AssociationGraphImplObserver< N, E, TreeGraphImpl >.

getEdgesFromGraphid()

template<class N , class E >

virtual std::vector<std::shared_ptr<E> > bpp::AssociationGraphObserver< N, E >::getEdgesFromGraphid ( std::vector< EdgeGraphid >  ) const

pure virtualinherited

Implemented in bpp::AssociationGraphImplObserver< N, E, GraphImpl >, bpp::AssociationGraphImplObserver< N, E, DAGraphImpl >, and bpp::AssociationGraphImplObserver< N, E, TreeGraphImpl >.

getFatherOfEdge() [1/2]

template<class N , class E >

virtual NodeIndex bpp::AssociationDAGraphObserver< N, E >::getFatherOfEdge ( const EdgeIndex  edge ) const

pure virtual

getFatherOfEdge() [2/2]

template<class N , class E >

virtual std::shared_ptr<N> bpp::AssociationDAGraphObserver< N, E >::getFatherOfEdge ( const std::shared_ptr< E >  edge ) const

pure virtual

Return the father of an edge

Parameters

edge	the concerned edge

Returns

the father Node

Implemented in bpp::AssociationDAGraphImplObserver< N, E, DAGraphImpl >.

getFathers() [1/2]

template<class N , class E >

virtual std::vector<NodeIndex> bpp::AssociationDAGraphObserver< N, E >::getFathers ( const NodeIndex  node ) const

pure virtual

getFathers() [2/2]

template<class N , class E >

virtual std::vector<std::shared_ptr<N> > bpp::AssociationDAGraphObserver< N, E >::getFathers ( const std::shared_ptr< N >  node ) const

pure virtual

Return, the fathers of a node

Parameters

node	the concerned node

Returns

the father

Implemented in bpp::AssociationDAGraphImplObserver< N, E, DAGraphImpl >.

getIncomingEdges() [1/2]

template<class N , class E >

virtual std::vector<std::shared_ptr<E> > bpp::AssociationGraphObserver< N, E >::getIncomingEdges ( const std::shared_ptr< N >  node ) const

pure virtualinherited

In an directed graph, get all the edges which are coming to a node in the graph.

Parameters

node	the node one wants to get its edges

Returns

a vector containing the incoming edges

Implemented in bpp::AssociationGraphImplObserver< N, E, GraphImpl >, bpp::AssociationGraphImplObserver< N, E, DAGraphImpl >, and bpp::AssociationGraphImplObserver< N, E, TreeGraphImpl >.

getIncomingEdges() [2/2]

template<class N , class E >

virtual std::vector<EdgeIndex> bpp::AssociationGraphObserver< N, E >::getIncomingEdges ( NodeIndex  node ) const

pure virtualinherited

Implemented in bpp::AssociationGraphImplObserver< N, E, GraphImpl >, bpp::AssociationGraphImplObserver< N, E, DAGraphImpl >, and bpp::AssociationGraphImplObserver< N, E, TreeGraphImpl >.

getIncomingNeighbors() [1/2]

template<class N , class E >

virtual std::vector<std::shared_ptr<N> > bpp::AssociationGraphObserver< N, E >::getIncomingNeighbors ( const std::shared_ptr< N >  node ) const

pure virtualinherited

In an directed graph, get all the neighbors which are coming to a node in the graph.

Parameters

node	the node one wants to get its neighbors

Returns

a vector containing the incoming neighbors

Implemented in bpp::AssociationGraphImplObserver< N, E, GraphImpl >, bpp::AssociationGraphImplObserver< N, E, DAGraphImpl >, and bpp::AssociationGraphImplObserver< N, E, TreeGraphImpl >.

getIncomingNeighbors() [2/2]

template<class N , class E >

virtual std::vector<NodeIndex> bpp::AssociationGraphObserver< N, E >::getIncomingNeighbors ( NodeIndex  node ) const

pure virtualinherited

Implemented in bpp::AssociationGraphImplObserver< N, E, GraphImpl >, bpp::AssociationGraphImplObserver< N, E, DAGraphImpl >, and bpp::AssociationGraphImplObserver< N, E, TreeGraphImpl >.

getLeavesFromNode()

template<class N , class E >

virtual std::vector<std::shared_ptr<N> > bpp::AssociationGraphObserver< N, E >::getLeavesFromNode ( std::shared_ptr< N >  node, unsigned int  maxDepth  ) const

pure virtualinherited

Get the leaves of a graph, ie, nodes with only one neighbor, starting from a peculiar node, up to a specific depth.

Parameters

node	the starting node
maxDepth	the max recursion depth

Returns

a vector containing the leaves

Implemented in bpp::AssociationGraphImplObserver< N, E, GraphImpl >, bpp::AssociationGraphImplObserver< N, E, DAGraphImpl >, and bpp::AssociationGraphImplObserver< N, E, TreeGraphImpl >.

getLeavesUnderNode()

template<class N , class E >

virtual std::vector<std::shared_ptr<N> > bpp::AssociationDAGraphObserver< N, E >::getLeavesUnderNode ( std::shared_ptr< N >  node ) const

pure virtual

Get the leaves of a tree under a peculiar node.

Parameters

node	the starting node

Returns

a vector containing the leaves

Implemented in bpp::AssociationDAGraphImplObserver< N, E, DAGraphImpl >.

getNeighbors() [1/2]

template<class N , class E >

virtual std::vector<std::shared_ptr<N> > bpp::AssociationGraphObserver< N, E >::getNeighbors ( const std::shared_ptr< N >  node ) const

pure virtualinherited

Get all the neighbors of a node in the graph.

Parameters

node	the node one wants to get its neighbors

Returns

a vector containing the neighbors

Implemented in bpp::AssociationGraphImplObserver< N, E, GraphImpl >, bpp::AssociationGraphImplObserver< N, E, DAGraphImpl >, and bpp::AssociationGraphImplObserver< N, E, TreeGraphImpl >.

getNeighbors() [2/2]

template<class N , class E >

virtual std::vector<NodeIndex> bpp::AssociationGraphObserver< N, E >::getNeighbors ( NodeIndex  node ) const

pure virtualinherited

Implemented in bpp::AssociationGraphImplObserver< N, E, GraphImpl >, bpp::AssociationGraphImplObserver< N, E, DAGraphImpl >, and bpp::AssociationGraphImplObserver< N, E, TreeGraphImpl >.

getNode()

template<class N , class E >

virtual std::shared_ptr<N> bpp::AssociationGraphObserver< N, E >::getNode ( NodeIndex  nodeIndex ) const

pure virtualinherited

Return the associated Node, querying with an index

Parameters

nodeIndex

the index of the wanted node

Returns

N, a node object

Implemented in bpp::AssociationGraphImplObserver< N, E, GraphImpl >, bpp::AssociationGraphImplObserver< N, E, DAGraphImpl >, and bpp::AssociationGraphImplObserver< N, E, TreeGraphImpl >.

getNodeFromGraphid() [1/2]

template<class N , class E >

virtual const std::shared_ptr<N> bpp::AssociationGraphObserver< N, E >::getNodeFromGraphid ( NodeGraphid  ) const

pure virtualinherited

Transforms an (a list of) id(s) into an (a list of) object(s)

Implemented in bpp::AssociationGraphImplObserver< N, E, GraphImpl >, bpp::AssociationGraphImplObserver< N, E, DAGraphImpl >, and bpp::AssociationGraphImplObserver< N, E, TreeGraphImpl >.

getNodeFromGraphid() [2/2]

template<class N , class E >

virtual std::shared_ptr<N> bpp::AssociationGraphObserver< N, E >::getNodeFromGraphid ( NodeGraphid  )

pure virtualinherited

Implemented in bpp::AssociationGraphImplObserver< N, E, GraphImpl >, bpp::AssociationGraphImplObserver< N, E, DAGraphImpl >, and bpp::AssociationGraphImplObserver< N, E, TreeGraphImpl >.

getNodeGraphid()

template<class N , class E >

virtual NodeGraphid bpp::AssociationGraphObserver< N, E >::getNodeGraphid ( const std::shared_ptr< N >  nodeObject ) const

pure virtualinherited

Return the associated Node ID

Parameters

nodeObject

object which to return the node ID

Returns

a node ID

Implemented in bpp::AssociationGraphImplObserver< N, E, GraphImpl >, bpp::AssociationGraphImplObserver< N, E, DAGraphImpl >, and bpp::AssociationGraphImplObserver< N, E, TreeGraphImpl >.

getNodeIndex()

template<class N , class E >

virtual NodeIndex bpp::AssociationGraphObserver< N, E >::getNodeIndex ( const std::shared_ptr< N >  nodeObject ) const

pure virtualinherited

Return the associated Node index

Parameters

nodeObject

object which to return the node index

Returns

a node index

Implemented in bpp::AssociationGraphImplObserver< N, E, GraphImpl >, bpp::AssociationGraphImplObserver< N, E, DAGraphImpl >, and bpp::AssociationGraphImplObserver< N, E, TreeGraphImpl >.

getNodeIndexes()

template<class N , class E >

virtual std::vector<NodeIndex> bpp::AssociationGraphObserver< N, E >::getNodeIndexes ( std::vector< std::shared_ptr< N > >  nodeObjects ) const

pure virtualinherited

Implemented in bpp::AssociationGraphImplObserver< N, E, GraphImpl >, bpp::AssociationGraphImplObserver< N, E, DAGraphImpl >, and bpp::AssociationGraphImplObserver< N, E, TreeGraphImpl >.

getNodesFromGraphid()

template<class N , class E >

virtual std::vector<std::shared_ptr<N> > bpp::AssociationGraphObserver< N, E >::getNodesFromGraphid ( std::vector< NodeGraphid >  ) const

pure virtualinherited

Implemented in bpp::AssociationGraphImplObserver< N, E, GraphImpl >, bpp::AssociationGraphImplObserver< N, E, DAGraphImpl >, and bpp::AssociationGraphImplObserver< N, E, TreeGraphImpl >.

getNumberOfFathers()

template<class N , class E >

virtual size_t bpp::AssociationDAGraphObserver< N, E >::getNumberOfFathers ( const std::shared_ptr< N >  node ) const

pure virtual

Return the number of fathers

Parameters

node	the concerned node

Returns

the number of fathers

Implemented in bpp::AssociationDAGraphImplObserver< N, E, DAGraphImpl >.

getNumberOfSons()

template<class N , class E >

virtual size_t bpp::AssociationDAGraphObserver< N, E >::getNumberOfSons ( const std::shared_ptr< N >  node ) const

pure virtual

Return the number of sons

Parameters

node	the concerned node

Returns

the number of sons

Implemented in bpp::AssociationDAGraphImplObserver< N, E, DAGraphImpl >.

getOutgoingEdges() [1/2]

template<class N , class E >

virtual std::vector<std::shared_ptr<E> > bpp::AssociationGraphObserver< N, E >::getOutgoingEdges ( const std::shared_ptr< N >  node ) const

pure virtualinherited

In an directed graph, get all the edges which are leaving a node in the graph.

Parameters

node	the node one wants to get its edges

Returns

a vector containing the outgoing edges

Implemented in bpp::AssociationGraphImplObserver< N, E, GraphImpl >, bpp::AssociationGraphImplObserver< N, E, DAGraphImpl >, and bpp::AssociationGraphImplObserver< N, E, TreeGraphImpl >.

getOutgoingEdges() [2/2]

template<class N , class E >

virtual std::vector<EdgeIndex> bpp::AssociationGraphObserver< N, E >::getOutgoingEdges ( NodeIndex  node ) const

pure virtualinherited

Implemented in bpp::AssociationGraphImplObserver< N, E, GraphImpl >, bpp::AssociationGraphImplObserver< N, E, DAGraphImpl >, and bpp::AssociationGraphImplObserver< N, E, TreeGraphImpl >.

getOutgoingNeighbors() [1/2]

template<class N , class E >

virtual std::vector<std::shared_ptr<N> > bpp::AssociationGraphObserver< N, E >::getOutgoingNeighbors ( const std::shared_ptr< N >  node ) const

pure virtualinherited

In an directed graph, get all the neighbors which are leaving a node in the graph.

Parameters

node	the node one wants to get its neighbors

Returns

a vector containing the outgoing neighbors

Implemented in bpp::AssociationGraphImplObserver< N, E, GraphImpl >, bpp::AssociationGraphImplObserver< N, E, DAGraphImpl >, and bpp::AssociationGraphImplObserver< N, E, TreeGraphImpl >.

getOutgoingNeighbors() [2/2]

template<class N , class E >

virtual std::vector<NodeIndex> bpp::AssociationGraphObserver< N, E >::getOutgoingNeighbors ( NodeIndex  node ) const

pure virtualinherited

Implemented in bpp::AssociationGraphImplObserver< N, E, GraphImpl >, bpp::AssociationGraphImplObserver< N, E, DAGraphImpl >, and bpp::AssociationGraphImplObserver< N, E, TreeGraphImpl >.

getRoot()

template<class N , class E >

virtual std::shared_ptr<N> bpp::AssociationGraphObserver< N, E >::getRoot ( ) const

pure virtualinherited

Returns

the root

Implemented in bpp::AssociationGraphImplObserver< N, E, GraphImpl >, bpp::AssociationGraphImplObserver< N, E, DAGraphImpl >, and bpp::AssociationGraphImplObserver< N, E, TreeGraphImpl >.

getRootIndex()

template<class N , class E >

virtual NodeIndex bpp::AssociationGraphObserver< N, E >::getRootIndex ( ) const

pure virtualinherited

Implemented in bpp::AssociationGraphImplObserver< N, E, GraphImpl >, bpp::AssociationGraphImplObserver< N, E, DAGraphImpl >, and bpp::AssociationGraphImplObserver< N, E, TreeGraphImpl >.

getSon() [1/2]

template<class N , class E >

virtual NodeIndex bpp::AssociationDAGraphObserver< N, E >::getSon ( const EdgeIndex  edge ) const

pure virtual

getSon() [2/2]

template<class N , class E >

virtual std::shared_ptr<N> bpp::AssociationDAGraphObserver< N, E >::getSon ( const std::shared_ptr< E >  edge ) const

pure virtual

Return the son of an edge

Parameters

edge	the concerned edge

Returns

the son Node

Implemented in bpp::AssociationDAGraphImplObserver< N, E, DAGraphImpl >.

getSons() [1/2]

template<class N , class E >

virtual std::vector<NodeIndex> bpp::AssociationDAGraphObserver< N, E >::getSons ( const NodeIndex  node ) const

pure virtual

getSons() [2/2]

template<class N , class E >

virtual std::vector<std::shared_ptr<N> > bpp::AssociationDAGraphObserver< N, E >::getSons ( const std::shared_ptr< N >  node ) const

pure virtual

Return the sons of a node

Parameters

node	the concerned node

Returns

a vector of son Nodes

Implemented in bpp::AssociationDAGraphImplObserver< N, E, DAGraphImpl >.

hasEdge()

template<class N , class E >

virtual bool bpp::AssociationGraphObserver< N, E >::hasEdge ( EdgeIndex  edgeIndex ) const

pure virtualinherited

Return if the Graph has an edge matching edgeIndex

Parameters

edgeIndex

the index of the wanted edge

Implemented in bpp::AssociationGraphImplObserver< N, E, GraphImpl >, bpp::AssociationGraphImplObserver< N, E, DAGraphImpl >, and bpp::AssociationGraphImplObserver< N, E, TreeGraphImpl >.

hasEdgeIndex()

template<class N , class E >

virtual bool bpp::AssociationGraphObserver< N, E >::hasEdgeIndex ( const std::shared_ptr< E >  edgeObject ) const

pure virtualinherited

Implemented in bpp::AssociationGraphImplObserver< N, E, GraphImpl >, bpp::AssociationGraphImplObserver< N, E, DAGraphImpl >, and bpp::AssociationGraphImplObserver< N, E, TreeGraphImpl >.

hasFather() [1/2]

template<class N , class E >

virtual bool bpp::AssociationDAGraphObserver< N, E >::hasFather ( const NodeIndex  node ) const

pure virtual

hasFather() [2/2]

template<class N , class E >

virtual bool bpp::AssociationDAGraphObserver< N, E >::hasFather ( const std::shared_ptr< N >  nodeObject ) const

pure virtual

Has the node a father?

Implemented in bpp::AssociationDAGraphImplObserver< N, E, DAGraphImpl >.

hasNode()

template<class N , class E >

virtual bool bpp::AssociationGraphObserver< N, E >::hasNode ( NodeIndex  nodeIndex ) const

pure virtualinherited

Return if the Graph has a node matching nodeIndex

Parameters

nodeIndex

the index of the wanted node

Implemented in bpp::AssociationGraphImplObserver< N, E, GraphImpl >, bpp::AssociationGraphImplObserver< N, E, DAGraphImpl >, and bpp::AssociationGraphImplObserver< N, E, TreeGraphImpl >.

hasNodeIndex()

template<class N , class E >

virtual bool bpp::AssociationGraphObserver< N, E >::hasNodeIndex ( const std::shared_ptr< N >  nodeObject ) const

pure virtualinherited

return if the object has an index.

Implemented in bpp::AssociationGraphImplObserver< N, E, GraphImpl >, bpp::AssociationGraphImplObserver< N, E, DAGraphImpl >, and bpp::AssociationGraphImplObserver< N, E, TreeGraphImpl >.

incomingEdgesIterator()

template<class N , class E >

virtual std::unique_ptr<EdgeIterator> bpp::AssociationGraphObserver< N, E >::incomingEdgesIterator ( std::shared_ptr< N >  node )

pure virtualinherited

Implemented in bpp::AssociationGraphImplObserver< N, E, GraphImpl >, bpp::AssociationGraphImplObserver< N, E, DAGraphImpl >, and bpp::AssociationGraphImplObserver< N, E, TreeGraphImpl >.

incomingNeighborNodesIterator() [1/2]

template<class N , class E >

virtual std::unique_ptr<NodeIterator> bpp::AssociationGraphObserver< N, E >::incomingNeighborNodesIterator ( std::shared_ptr< N >  node ) const

pure virtualinherited

Implemented in bpp::AssociationGraphImplObserver< N, E, GraphImpl >, bpp::AssociationGraphImplObserver< N, E, DAGraphImpl >, and bpp::AssociationGraphImplObserver< N, E, TreeGraphImpl >.

incomingNeighborNodesIterator() [2/2]

template<class N , class E >

virtual std::unique_ptr<NodeIterator> bpp::AssociationGraphObserver< N, E >::incomingNeighborNodesIterator ( std::shared_ptr< N >  node )

pure virtualinherited

Implemented in bpp::AssociationGraphImplObserver< N, E, GraphImpl >, bpp::AssociationGraphImplObserver< N, E, DAGraphImpl >, and bpp::AssociationGraphImplObserver< N, E, TreeGraphImpl >.

isRooted()

template<class N , class E >

virtual bool bpp::AssociationDAGraphObserver< N, E >::isRooted ( ) const

pure virtual

Is the DAG rooted? Ie with at most one node with no father.

Returns

true if rooted DAG

Implemented in bpp::AssociationDAGraphImplObserver< N, E, DAGraphImpl >.

isValid()

template<class N , class E >

virtual bool bpp::AssociationDAGraphObserver< N, E >::isValid ( ) const

pure virtual

Is the graph a DAG? A DAG must be acyclic.

Returns

true if valid DAG

Implemented in bpp::AssociationDAGraphImplObserver< N, E, DAGraphImpl >.

link()

template<class N , class E >

virtual void bpp::AssociationGraphObserver< N, E >::link ( std::shared_ptr< N >  nodeObjectA, std::shared_ptr< N >  nodeObjectB, std::shared_ptr< E >  edgeObject = 00  )

pure virtualinherited

Creates a link between two existing nodes. If directed graph: nodeA -> nodeB.

Parameters

nodeObjectA	source node (or first node if undirected)
nodeObjectB	target node (or second node if undirected)
edgeObject	the optional edge between the nodes (default = 00)

Implemented in bpp::AssociationGraphImplObserver< N, E, GraphImpl >, bpp::AssociationGraphImplObserver< N, E, DAGraphImpl >, and bpp::AssociationGraphImplObserver< N, E, TreeGraphImpl >.

outgoingEdgesIterator()

template<class N , class E >

virtual std::unique_ptr<EdgeIterator> bpp::AssociationGraphObserver< N, E >::outgoingEdgesIterator ( std::shared_ptr< N >  node )

pure virtualinherited

Implemented in bpp::AssociationGraphImplObserver< N, E, GraphImpl >, bpp::AssociationGraphImplObserver< N, E, DAGraphImpl >, and bpp::AssociationGraphImplObserver< N, E, TreeGraphImpl >.

outgoingNeighborNodesIterator() [1/2]

template<class N , class E >

virtual std::unique_ptr<NodeIterator> bpp::AssociationGraphObserver< N, E >::outgoingNeighborNodesIterator ( std::shared_ptr< N >  node ) const

pure virtualinherited

Implemented in bpp::AssociationGraphImplObserver< N, E, GraphImpl >, bpp::AssociationGraphImplObserver< N, E, DAGraphImpl >, and bpp::AssociationGraphImplObserver< N, E, TreeGraphImpl >.

outgoingNeighborNodesIterator() [2/2]

template<class N , class E >

virtual std::unique_ptr<NodeIterator> bpp::AssociationGraphObserver< N, E >::outgoingNeighborNodesIterator ( std::shared_ptr< N >  node )

pure virtualinherited

Implemented in bpp::AssociationGraphImplObserver< N, E, GraphImpl >, bpp::AssociationGraphImplObserver< N, E, DAGraphImpl >, and bpp::AssociationGraphImplObserver< N, E, TreeGraphImpl >.

removeFather()

template<class N , class E >

virtual void bpp::AssociationDAGraphObserver< N, E >::removeFather ( const std::shared_ptr< N >  node, const std::shared_ptr< N >  father  )

pure virtual

Remove a father of a node

Implemented in bpp::AssociationDAGraphImplObserver< N, E, DAGraphImpl >.

removeFathers()

template<class N , class E >

virtual std::vector<std::shared_ptr<N> > bpp::AssociationDAGraphObserver< N, E >::removeFathers ( const std::shared_ptr< N >  node )

pure virtual

Remove the fathers of a node

Returns

a vector containing the removed fathers

Implemented in bpp::AssociationDAGraphImplObserver< N, E, DAGraphImpl >.

removeSon()

template<class N , class E >

virtual void bpp::AssociationDAGraphObserver< N, E >::removeSon ( const std::shared_ptr< N >  node, const std::shared_ptr< N >  son  )

pure virtual

Remove a son of a node

Parameters

node	the concerned node
son	the node to be removed

Implemented in bpp::AssociationDAGraphImplObserver< N, E, DAGraphImpl >.

removeSons()

template<class N , class E >

virtual std::vector<std::shared_ptr<N> > bpp::AssociationDAGraphObserver< N, E >::removeSons ( const std::shared_ptr< N >  node )

pure virtual

Remove the sons of a node

Returns

a vector containing the removed nodes

Implemented in bpp::AssociationDAGraphImplObserver< N, E, DAGraphImpl >.

rootAt()

template<class N , class E >

virtual void bpp::AssociationDAGraphObserver< N, E >::rootAt ( const std::shared_ptr< N >  root )

pure virtual

Sets the root and make the DAG directed from root to leaves.

Implemented in bpp::AssociationDAGraphImplObserver< N, E, DAGraphImpl >.

setEdgeIndex()

template<class N , class E >

virtual EdgeIndex bpp::AssociationGraphObserver< N, E >::setEdgeIndex ( const std::shared_ptr< E >  edgeObject, EdgeIndex  index  )

pure virtualinherited

Set an index associated to an edge

Parameters

edgeObject	object to which one want to set the index
index	intex to be given, 0 to get the first free index

Returns

the given index

Implemented in bpp::AssociationGraphImplObserver< N, E, GraphImpl >, bpp::AssociationGraphImplObserver< N, E, DAGraphImpl >, and bpp::AssociationGraphImplObserver< N, E, TreeGraphImpl >.

setEdgeLinking()

template<class N , class E >

virtual void bpp::AssociationGraphObserver< N, E >::setEdgeLinking ( std::shared_ptr< N >  nodeA, std::shared_ptr< N >  nodeB, std::shared_ptr< E >  edge  )

pure virtualinherited

Sets the Edge between two nodes nodeA -> nodeB

Parameters

nodeA	source node (if directed)
nodeB	destination node (if directed)
edge	the edge between these two nodes

Implemented in bpp::AssociationGraphImplObserver< N, E, GraphImpl >, bpp::AssociationGraphImplObserver< N, E, DAGraphImpl >, and bpp::AssociationGraphImplObserver< N, E, TreeGraphImpl >.

setNodeIndex()

template<class N , class E >

virtual NodeIndex bpp::AssociationGraphObserver< N, E >::setNodeIndex ( const std::shared_ptr< N >  nodeObject, NodeIndex  index  )

pure virtualinherited

Set an index associated to a node

Parameters

nodeObject	object to which one want to set the index
index	intex to be given, 0 to get the first free index

Returns

the given index

Implemented in bpp::AssociationGraphImplObserver< N, E, GraphImpl >, bpp::AssociationGraphImplObserver< N, E, DAGraphImpl >, and bpp::AssociationGraphImplObserver< N, E, TreeGraphImpl >.

sonsIterator() [1/2]

template<class N , class E >

virtual std::unique_ptr<NodeIterator> bpp::AssociationDAGraphObserver< N, E >::sonsIterator ( std::shared_ptr< N >  node ) const

pure virtual

Implemented in bpp::AssociationDAGraphImplObserver< N, E, DAGraphImpl >.

sonsIterator() [2/2]

template<class N , class E >

virtual std::unique_ptr<NodeIterator> bpp::AssociationDAGraphObserver< N, E >::sonsIterator ( std::shared_ptr< N >  node )

pure virtual

Implemented in bpp::AssociationDAGraphImplObserver< N, E, DAGraphImpl >.

unlink()

template<class N , class E >

virtual void bpp::AssociationGraphObserver< N, E >::unlink ( std::shared_ptr< N >  nodeObjectA, std::shared_ptr< N >  nodeObjectB  )

pure virtualinherited

Detroys a link between two existing nodes in the graph. If directed graph: nodeA -> nodeB.

Parameters

nodeObjectA	source node (or first node if undirected)
nodeObjectB	target node (or second node if undirected)

Implemented in bpp::AssociationGraphImplObserver< N, E, GraphImpl >, bpp::AssociationGraphImplObserver< N, E, DAGraphImpl >, and bpp::AssociationGraphImplObserver< N, E, TreeGraphImpl >.

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

• Bpp/Graph/AssociationDAGraphObserver.h