Module omix.api

Package omix.lang.model

Interface Reaction

All Superinterfaces:

BioNode, Component, Item, MetNode, Node

@OVLExtensible
public interface Reaction
extends BioNode

This type represents reactions in OVL. It contain all methods available in OVL. The static fields in this interface declaration are public non-static instance fields in OVL. They can be read and written from OVL code.

Author:

Dr. Peter Droste, Omix Visualization

Method Summary

Modifier and Type	Method	Description
boolean	inverted()	When the inverted option is set, all flux edges of the reaction display their direction in opposition to their nominal direction.
double	localPathwayStrength()	The pathway's shape can have local divergent thicknesses according the reaction's local pathway strength.
Pathway	pathway()	Returns the pathway the reaction belongs to.
boolean	reversible()	Reversibility of the enzymatic reaction.

Methods inherited from interface omix.lang.model.BioNode

blur, collapsed, effectorEdges, fillLevel, fillLevelIndication, font, getName, getPublicIdentifiers, inEdges, outEdges, paint, scale, shadow, shape, strokeColor, strokeStyle, strokeWidth, synonyms, textBrush, textStrokeColor, textStrokeWidth, transparency

Methods inherited from interface omix.lang.model.Component

customPropertyNames, getCustomProperty, getIdentifier, id, onload, setCustomProperty, setTmpCustomProperty

Methods inherited from interface omix.lang.model.Node

comments, getComment, graphicsEdges, hidden, linkEdges, model, network

Method Details

localPathwayStrength

@OVLField double localPathwayStrength()

The pathway's shape can have local divergent thicknesses according the reaction's local pathway strength. value range: 0.0 to 1.0

reversible

@OVLField boolean reversible()

Reversibility of the enzymatic reaction.

inverted

@OVLField boolean inverted()

When the inverted option is set, all flux edges of the reaction display their direction in opposition to their nominal direction. This property can be used to invert reactions temporarily without changing the network topology.

pathway

Pathway pathway()

Returns the pathway the reaction belongs to.

Returns:

a reference to the pathway if available