Uses of Class
interaction.Relation

Packages that use Relation

Package	Description
general
interaction
interaction.cplex

Uses of Relation in general

Fields in general with type parameters of type Relation

Modifier and Type	Field and Description
protected java.util.Map<parsebionet.biodata.BioEntity,Relation>	Bind.interactionsEntitiesCause
protected java.util.Map<parsebionet.biodata.BioEntity,java.util.Map<Relation,double[]>>	Bind.interactionsEntitiesConsequence To handle time dependent interactions. the Relation is true if the bioEntity is > 0 . double[0] corresponds to how long it takes for the interactions to become active and double[1] corresponds to how long it stays active.
protected java.util.Map<parsebionet.biodata.BioEntity,Relation>	Bind.reactionToActiveGPR Link a reaction to it's GPR interaction.

Methods in general that return Relation

Modifier and Type	Method and Description
private Relation	Bind.makeRelationFromString(java.lang.String line, int nbLine) Creates a Relation from a string.

Methods in general that return types with arguments of type Relation

Modifier and Type	Method and Description
java.util.Map<parsebionet.biodata.BioEntity,java.util.Map<Relation,double[]>>	Bind.getInteractionsEntities()
java.util.Map<parsebionet.biodata.BioEntity,Relation>	Bind.getInteractionsEntitiesCause()

Uses of Relation in interaction

Subclasses of Relation in interaction

Modifier and Type	Class and Description
class	And This class represents an And relation.
class	InversedRelation Class representing an inversed Relation.
class	Or This class represents an Or relation.
class	RelationWithList Class corresponding to relations that can contain other relations.
class	Unique This class represents a Unique relation.
class	UniqueProbability Class representing a Unique with a probability.

Fields in interaction declared as Relation

Modifier and Type	Field and Description
protected Relation	Interaction.condition condition Relation.
protected Relation	Interaction.consequence consequence Relation.
protected Relation	InversedRelation.rel Relation that is the opposite.

Fields in interaction with type parameters of type Relation

Modifier and Type	Field and Description
protected java.util.List<Relation>	RelationWithList.list

Methods in interaction that return Relation

Modifier and Type	Method and Description
Relation	Interaction.getCondition()
Relation	Interaction.getConsequence()

Methods in interaction that return types with arguments of type Relation

Modifier and Type	Method and Description
java.util.List<Relation>	RelationWithList.getList()

Methods in interaction with parameters of type Relation

Modifier and Type	Method and Description
void	RelationWithList.addRelation(Relation r) Adds a relation to the list of relations.
EqInteraction	RelationFactory.makeEqInteraction(Relation object, Relation relation)
IfThenInteraction	RelationFactory.makeIfThenInteraction(Relation object, Relation relation)
InversedRelation	RelationFactory.makeInversedRelation(Relation relation)

Constructors in interaction with parameters of type Relation

Constructor and Description
EqInteraction(Relation object, Relation r)
IfThenInteraction(Relation object, Relation r)
Interaction(Relation consequence, Relation condition)
InversedRelation(Relation rel)

Uses of Relation in interaction.cplex

Subclasses of Relation in interaction.cplex

Modifier and Type	Class and Description
class	AndCPLEX CPLEX version of an AND relation.
class	InversedRelationCplex CPLEX version of an inversed relation.
class	OrCPLEX CPLEX version of an OR relation.
class	UniqueCPLEX CPLEX version on a Unique relation.

Methods in interaction.cplex with parameters of type Relation

Modifier and Type	Method and Description
EqInteraction	RelationFactoryCPLEX.makeEqInteraction(Relation objet, Relation relation)
IfThenInteraction	RelationFactoryCPLEX.makeIfThenInteraction(Relation objet, Relation relation)
InversedRelation	RelationFactoryCPLEX.makeInversedRelation(Relation relation)

Constructors in interaction.cplex with parameters of type Relation

Constructor and Description
EqInteractionCplex(Relation object, Relation r)
IfThenInteractionCplex(Relation consequence, Relation condition)
InversedRelationCplex(Relation rel)