org.colomoto.biolqm.modifier.perturbation

Interface LogicalModelPerturbation

All Known Implementing Classes:

FixedValuePerturbation, InteractionPerturbation, MultiplePerturbation, RangePerturbation

public interface LogicalModelPerturbation

Common interface for perturbations.

Author:

Aurelien Naldi

Method Summary

Modifier and Type	Method and Description
boolean	affectsNode(NodeInfo node) Test if the perturbation affects the function of a specific node
default LogicalModel	apply(LogicalModel model) Apply the perturbation.
String	getStringRepresentation()
void	restrictValues(byte[] state, List<NodeInfo> components) Apply the perturbation(s) directly to a state, i.e., restricts the values of the state in the valid range of the perturbation(s).
void	update(LogicalModel model) Apply the perturbation to a model directly (do not create a modified model).

Method Detail

restrictValues

void restrictValues(byte[] state,
                    List<NodeInfo> components)

Apply the perturbation(s) directly to a state, i.e., restricts the values of the state in the valid range of the perturbation(s).

Parameters:

state - the state to be restricted

components - the ordered list of components in the state

update

void update(LogicalModel model)

Apply the perturbation to a model directly (do not create a modified model). This can be used directly when we do not need to preserve the original model. It is also convenient for multiple perturbations, to avoid creating intermediate models.

Parameters:

model - the modified model

affectsNode

boolean affectsNode(NodeInfo node)

Test if the perturbation affects the function of a specific node

Parameters:

node - a component of the model

Returns:

true if component is affected by this perturbation

apply

default LogicalModel apply(LogicalModel model)

Apply the perturbation.

Parameters:

model - the model to modify

Returns:

the modified model after applying the perturbation

getStringRepresentation

String getStringRepresentation()

Returns:

a simple serialised description of the perturbation