alchemist/it.unibo.alchemist.model.environments/AbstractEnvironment

AbstractEnvironment

abstract class AbstractEnvironment<T, P : Position<P>?> : Environment<T, P>

Very generic and basic implementation for an environment. Basically, only manages an internal set of nodes and their position.

Parameters

<T>

concentration type

<P>

Position type

Inheritors

Abstract2DEnvironment

Properties

globalReactions

val globalReactions: ListSet<GlobalReaction<T>>

incarnation

@get:Nonnull

open val incarnation: Incarnation<T, P>

nodes

val nodes: ListSet<Node<T>>

simulation

@get:Nonnull

open var simulation: Simulation<T, P>

Functions

addGlobalReaction

open fun addGlobalReaction(reaction: GlobalReaction<T>)

addLayer

fun addLayer(m: Molecule, l: Layer<T, P>)

addNode

fun addNode(node: Node<T>, p: P): Boolean

addTerminator

fun addTerminator(terminator: Predicate<Environment<T, P>>)

forEach

fun forEach(action: Consumer<in Node<T>>)

getDimensions

abstract fun getDimensions(): Int

getDistanceBetweenNodes

fun getDistanceBetweenNodes(n1: Node<T>, n2: Node<T>): Double

getGlobalReactions

abstract fun getGlobalReactions(): ListSet<GlobalReaction<T>>

getIncarnation

abstract fun getIncarnation(): Incarnation<T, P>

getLayer

fun getLayer(m: Molecule): Optional<Layer<T, P>>

getLayers

fun getLayers(): ListSet<Layer<T, P>>

getLinkingRule

fun getLinkingRule(): LinkingRule<T, P>

getNeighborhood

fun getNeighborhood(@Nonnull center: Node<T>): Neighborhood<T>

getNodeByID

fun getNodeByID(id: Int): Node<T>

getNodeCount

fun getNodeCount(): Int

getNodes

abstract fun getNodes(): ListSet<Node<T>>

getNodesWithinRange

fun getNodesWithinRange(center: P, range: Double): ListSet<Node<T>>

fun getNodesWithinRange(center: Node<T>, range: Double): ListSet<Node<T>>

getOffset

abstract fun getOffset(): Array<Double>

getPosition

@Nonnull

fun getPosition(node: Node<T>): P

getSimulation

abstract fun getSimulation(): Simulation<T, P>

getSize

abstract fun getSize(): Array<Double>

getSizeInDistanceUnits

open fun getSizeInDistanceUnits(): Array<Double>

Override this method if units measuring distance do not match with units used for coordinates.

isTerminated

fun isTerminated(): Boolean

iterator

@Nonnull

fun iterator(): Iterator<Node<T>>

makePosition

abstract fun makePosition(p: Array<Number>): P

moveNodeToPosition

abstract fun moveNodeToPosition(p: Node<T>, p1: P)

removeGlobalReaction

open fun removeGlobalReaction(reaction: GlobalReaction<T>)

removeNode

fun removeNode(@Nonnull node: Node<T>)

setLinkingRule

fun setLinkingRule(r: LinkingRule<T, P>)

setSimulation

abstract fun setSimulation(p: Simulation<T, P>)

spliterator

fun spliterator(): Spliterator<Node<T>>

subscriptionMonitor

fun <T, P : Position<out P>> Environment<T, P>.subscriptionMonitor(): EnvironmentSubscriptionMonitor<T, P>

Returns the EnvironmentSubscriptionMonitor of this Environment.

toGraphQLEnvironmentSurrogate

fun <T, P : Position<out P>> Environment<T, P>.toGraphQLEnvironmentSurrogate(): EnvironmentSurrogate<T, P>

Converts an Environment to a EnvironmentSurrogate.

toString

open fun toString(): String

Not used internally.