39.0.1

alchemist/it.unibo.alchemist.model.biochemistry.conditions/AbstractNeighborCondition

AbstractNeighborCondition

abstract class AbstractNeighborCondition<T> : AbstractCondition<T>

Represents a condition on a neighbor. Formally, this condition is satisfied if at least one neighbor satisfies the condition.

Parameters

<T>

the concentration type.

Inheritors

JunctionPresentInCell

BiomolPresentInNeighbor

NeighborhoodPresent

Properties

val node: Node<T>

Functions

abstract fun cloneCondition(node: Node<T>, reaction: Reaction<T>): Condition<T>

abstract fun cloneCondition(newNode: Node<T>, newReaction: Reaction<T>): AbstractNeighborCondition<T>

This method allows cloning this action on a new node.

fun getContext(): Context

getInboundDependencies

fun getInboundDependencies(): ListSet<? extends Dependency>

How to override: if you intend your condition to be potentially changed by any change in the context, return null.

getPropensityContribution

open fun getPropensityContribution(): Double

Override if the desired behavior differs.

getValidNeighbors

fun getValidNeighbors(): Map<Node<T>, Double>

Searches in the given neighborhood which nodes satisfy the condition and returns a list of valid neighbors.

abstract fun isValid(): Boolean

open fun reactionReady()

This method is called by the Simulation once the Reaction whose this Condition belongs to is the next one to be executed, and all its conditions passed (namely, the next operation will be the reaction execution).

open fun toString(): String