A B C D E F G H I J K L M N O P Q R S T U V W X Y Z

R

r - Static variable in class org.sbml.jsbml.ext.render.RenderConstants

R - Static variable in class org.sbml.jsbml.util.Maths

Universal gas constant of 8.314472 J ⋅ mol^-1 ⋅ K^-1 according to D.

RadialGradient - Class in org.sbml.jsbml.ext.render

RadialGradient() - Constructor for class org.sbml.jsbml.ext.render.RadialGradient

Creates an RadialGradient instance

RadialGradient(RadialGradient) - Constructor for class org.sbml.jsbml.ext.render.RadialGradient

Clone constructor

raiseByThePowerOf(ASTNode) - Method in class org.sbml.jsbml.ASTNode

Raises this ASTNode by the power of the value of the given node.

raiseByThePowerOf(CallableSBase) - Method in class org.sbml.jsbml.ASTNode

Raises this ASTNode by the power of the value of this named SBase object.

raiseByThePowerOf(double) - Method in class org.sbml.jsbml.ASTNode

Raises this ASTNode by the power of the given number.

raiseByThePowerOf(double) - Method in class org.sbml.jsbml.UnitDefinition

Raises this unit definition by the power of the given exponent, i.e., the exponents of every unit contained by this unit definition are multiplied with the given exponent.

rank - Static variable in class org.sbml.jsbml.ext.qual.QualConstants

RateRule - Class in org.sbml.jsbml

Represents the rateRule XML element of a SBML file.

RateRule() - Constructor for class org.sbml.jsbml.RateRule

Creates a RateRule instance.

RateRule(ASTNode, int, int) - Constructor for class org.sbml.jsbml.RateRule

Creates a new RateRule instance.

RateRule(ASTNode, Parameter) - Constructor for class org.sbml.jsbml.RateRule

Creates a new RateRule instance.

RateRule(ASTNode, Variable) - Constructor for class org.sbml.jsbml.RateRule

Creates a new RateRule instance.

RateRule(int, int) - Constructor for class org.sbml.jsbml.RateRule

Creates a RateRule instance from a given RateRule.

RateRule(Parameter) - Constructor for class org.sbml.jsbml.RateRule

Creates a new RateRule instance.

RateRule(Parameter, ASTNode) - Constructor for class org.sbml.jsbml.RateRule

Creates a new RateRule instance.

RateRule(RateRule) - Constructor for class org.sbml.jsbml.RateRule

Creates a new RateRule instance cloned from the given RateRule.

RateRule(Variable) - Constructor for class org.sbml.jsbml.RateRule

Creates a RateRule instance from a given Symbol.

RateRule(ExplicitRule) - Constructor for class org.sbml.jsbml.RateRule

Creates a RateRule instance cloned from the given ExplicitRule

RateRule(Variable, ASTNode) - Constructor for class org.sbml.jsbml.RateRule

Creates a RateRule instance from a given Symbol and ASTNode.

RDF_NODE_COLOR - Static variable in class org.sbml.jsbml.xml.parsers.SBMLRDFAnnotationParser

A Constant String that is used to store a XMLNode color in the user objects map.

reactant - Static variable in class org.sbml.jsbml.ext.multi.MultiConstants

reactantComponent - Static variable in class org.sbml.jsbml.ext.multi.MultiConstants

reactantSpeciesFeature - Static variable in class org.sbml.jsbml.ext.multi.MultiConstants

reaction - Static variable in class org.sbml.jsbml.ext.fbc.FBCConstants

reaction - Static variable in class org.sbml.jsbml.ext.layout.LayoutConstants

Reaction - Class in org.sbml.jsbml

Represents the reaction XML element of a SBML file.

Reaction() - Constructor for class org.sbml.jsbml.Reaction

Creates a Reaction instance.

Reaction(int, int) - Constructor for class org.sbml.jsbml.Reaction

Creates a new Reaction instance from a given SBML level and version.

Reaction(Reaction) - Constructor for class org.sbml.jsbml.Reaction

Creates a Reaction instance from a given reaction.

Reaction(String) - Constructor for class org.sbml.jsbml.Reaction

Reaction(String, int, int) - Constructor for class org.sbml.jsbml.Reaction

Creates a Reaction instance from an id, level and version.

reactionEquation(Reaction) - Method in class org.sbml.jsbml.math.compiler.HTMLFormula

reactionEquation(Reaction) - Method in class org.sbml.jsbml.util.compilers.HTMLFormula

reactionGlyph - Static variable in class org.sbml.jsbml.ext.layout.LayoutConstants

ReactionGlyph - Class in org.sbml.jsbml.ext.layout

Analogous to how a Reaction object has to at least have one reactant or product, the ReactionGlyph has to at least have one SpeciesReferenceGlyph stored in the ReactionGlyph.listOfSpeciesReferencesGlyphs.

ReactionGlyph() - Constructor for class org.sbml.jsbml.ext.layout.ReactionGlyph

ReactionGlyph(int, int) - Constructor for class org.sbml.jsbml.ext.layout.ReactionGlyph

ReactionGlyph(ReactionGlyph) - Constructor for class org.sbml.jsbml.ext.layout.ReactionGlyph

ReactionGlyph(String) - Constructor for class org.sbml.jsbml.ext.layout.ReactionGlyph

ReactionGlyph(String, int, int) - Constructor for class org.sbml.jsbml.ext.layout.ReactionGlyph

read(File) - Static method in class org.sbml.jsbml.SBMLReader

Factory method for reading SBML from a given File.

read(File, TreeNodeChangeListener) - Static method in class org.sbml.jsbml.SBMLReader

Factory method for reading SBML from a given File.

read(InputStream) - Static method in class org.sbml.jsbml.SBMLReader

Factory method for reading SBML from a given InputStream.

read(String) - Static method in class org.sbml.jsbml.SBMLReader

Factory method for reading SBML from given XML code in its String representation.

readAttribute(String, String, String) - Method in class org.sbml.jsbml.AbstractMathContainer

readAttribute(String, String, String) - Method in class org.sbml.jsbml.AbstractNamedSBase

readAttribute(String, String, String) - Method in class org.sbml.jsbml.AbstractSBase

readAttribute(String, String, String) - Method in class org.sbml.jsbml.Annotation

Sets the about instance of this object if the attributeName is equal to 'about'.

readAttribute(String, String, String) - Method in class org.sbml.jsbml.Compartment

readAttribute(String, String, String, String) - Method in class org.sbml.jsbml.Creator

Returns true if the XML attribute is known by this Creator.

readAttribute(String, String, String, String) - Method in class org.sbml.jsbml.CVTerm

readAttribute(String, String, String) - Method in class org.sbml.jsbml.Event

readAttribute(String, String, String) - Method in class org.sbml.jsbml.EventAssignment

readAttribute(String, String, String) - Method in class org.sbml.jsbml.ExplicitRule

readAttribute(String, String, String) - Method in class org.sbml.jsbml.ext.arrays.ArraysSBasePlugin

readAttribute(String, String, String) - Method in class org.sbml.jsbml.ext.arrays.Dimension

readAttribute(String, String, String) - Method in class org.sbml.jsbml.ext.arrays.Index

readAttribute(String, String, String) - Method in class org.sbml.jsbml.ext.comp.AbstractNamedSBaseRef

readAttribute(String, String, String) - Method in class org.sbml.jsbml.ext.comp.CompModelPlugin

readAttribute(String, String, String) - Method in class org.sbml.jsbml.ext.comp.CompSBasePlugin

readAttribute(String, String, String) - Method in class org.sbml.jsbml.ext.comp.CompSBMLDocumentPlugin

readAttribute(String, String, String) - Method in class org.sbml.jsbml.ext.comp.ExternalModelDefinition

readAttribute(String, String, String) - Method in class org.sbml.jsbml.ext.comp.ReplacedBy

readAttribute(String, String, String) - Method in class org.sbml.jsbml.ext.comp.ReplacedElement

readAttribute(String, String, String) - Method in class org.sbml.jsbml.ext.comp.SBaseRef

readAttribute(String, String, String) - Method in class org.sbml.jsbml.ext.comp.Submodel

readAttribute(String, String, String) - Method in class org.sbml.jsbml.ext.distrib.DistribFunctionDefinitionPlugin

readAttribute(String, String, String) - Method in class org.sbml.jsbml.ext.distrib.DistribInput

readAttribute(String, String, String) - Method in class org.sbml.jsbml.ext.distrib.DistribSBasePlugin

readAttribute(String, String, String) - Method in class org.sbml.jsbml.ext.dyn.DynElement

readAttribute(String, String, String) - Method in class org.sbml.jsbml.ext.dyn.DynEventPlugin

readAttribute(String, String, String) - Method in class org.sbml.jsbml.ext.dyn.DynSBasePlugin

readAttribute(String, String, String) - Method in class org.sbml.jsbml.ext.dyn.SpatialComponent

readAttribute(String, String, String) - Method in class org.sbml.jsbml.ext.fbc.FBCModelPlugin

readAttribute(String, String, String) - Method in class org.sbml.jsbml.ext.fbc.FBCReactionPlugin

readAttribute(String, String, String) - Method in class org.sbml.jsbml.ext.fbc.FBCSpeciesPlugin

readAttribute(String, String, String) - Method in class org.sbml.jsbml.ext.fbc.FluxBound

Deprecated.

readAttribute(String, String, String) - Method in class org.sbml.jsbml.ext.fbc.FluxObjective

readAttribute(String, String, String) - Method in class org.sbml.jsbml.ext.fbc.GeneProduct

readAttribute(String, String, String) - Method in class org.sbml.jsbml.ext.fbc.GeneProductRef

readAttribute(String, String, String) - Method in class org.sbml.jsbml.ext.fbc.ListOfObjectives

readAttribute(String, String, String) - Method in class org.sbml.jsbml.ext.fbc.Objective

readAttribute(String, String, String) - Method in class org.sbml.jsbml.ext.groups.Group

readAttribute(String, String, String) - Method in class org.sbml.jsbml.ext.groups.GroupsModelPlugin

readAttribute(String, String, String) - Method in class org.sbml.jsbml.ext.groups.ListOfMemberConstraint

Deprecated.

readAttribute(String, String, String) - Method in class org.sbml.jsbml.ext.groups.Member

readAttribute(String, String, String) - Method in class org.sbml.jsbml.ext.groups.MemberConstraint

Deprecated.

readAttribute(String, String, String) - Method in class org.sbml.jsbml.ext.layout.CompartmentGlyph

readAttribute(String, String, String) - Method in class org.sbml.jsbml.ext.layout.CurveSegment

readAttribute(String, String, String) - Method in class org.sbml.jsbml.ext.layout.Dimensions

readAttribute(String, String, String) - Method in class org.sbml.jsbml.ext.layout.GeneralGlyph

readAttribute(String, String, String) - Method in class org.sbml.jsbml.ext.layout.GraphicalObject

readAttribute(String, String, String) - Method in class org.sbml.jsbml.ext.layout.Layout

readAttribute(String, String, String) - Method in class org.sbml.jsbml.ext.layout.LayoutModelPlugin

readAttribute(String, String, String) - Method in class org.sbml.jsbml.ext.layout.Point

readAttribute(String, String, String) - Method in class org.sbml.jsbml.ext.layout.ReactionGlyph

readAttribute(String, String, String) - Method in class org.sbml.jsbml.ext.layout.ReferenceGlyph

readAttribute(String, String, String) - Method in class org.sbml.jsbml.ext.layout.SpeciesGlyph

readAttribute(String, String, String) - Method in class org.sbml.jsbml.ext.layout.SpeciesReferenceGlyph

readAttribute(String, String, String) - Method in class org.sbml.jsbml.ext.layout.TextGlyph

readAttribute(String, String, String) - Method in class org.sbml.jsbml.ext.multi.CompartmentReference

readAttribute(String, String, String) - Method in class org.sbml.jsbml.ext.multi.DenotedSpeciesTypeComponentIndex

readAttribute(String, String, String) - Method in class org.sbml.jsbml.ext.multi.InSpeciesTypeBond

readAttribute(String, String, String) - Method in class org.sbml.jsbml.ext.multi.MultiASTNodePlugin

readAttribute(String, String, String) - Method in class org.sbml.jsbml.ext.multi.MultiCompartmentPlugin

readAttribute(String, String, String) - Method in class org.sbml.jsbml.ext.multi.MultiModelPlugin

readAttribute(String, String, String) - Method in class org.sbml.jsbml.ext.multi.MultiSimpleSpeciesReferencePlugin

readAttribute(String, String, String) - Method in class org.sbml.jsbml.ext.multi.MultiSpeciesPlugin

readAttribute(String, String, String) - Method in class org.sbml.jsbml.ext.multi.OutwardBindingSite

readAttribute(String, String, String) - Method in class org.sbml.jsbml.ext.multi.PossibleSpeciesFeatureValue

readAttribute(String, String, String) - Method in class org.sbml.jsbml.ext.multi.SpeciesFeature

readAttribute(String, String, String) - Method in class org.sbml.jsbml.ext.multi.SpeciesFeatureChange

readAttribute(String, String, String) - Method in class org.sbml.jsbml.ext.multi.SpeciesFeatureType

readAttribute(String, String, String) - Method in class org.sbml.jsbml.ext.multi.SpeciesFeatureValue

readAttribute(String, String, String) - Method in class org.sbml.jsbml.ext.multi.SpeciesType

readAttribute(String, String, String) - Method in class org.sbml.jsbml.ext.multi.SpeciesTypeComponentIndex

readAttribute(String, String, String) - Method in class org.sbml.jsbml.ext.multi.SpeciesTypeComponentMapInProduct

readAttribute(String, String, String) - Method in class org.sbml.jsbml.ext.multi.SpeciesTypeInstance

readAttribute(String, String, String) - Method in class org.sbml.jsbml.ext.qual.FunctionTerm

readAttribute(String, String, String) - Method in class org.sbml.jsbml.ext.qual.Input

readAttribute(String, String, String) - Method in class org.sbml.jsbml.ext.qual.Output

readAttribute(String, String, String) - Method in class org.sbml.jsbml.ext.qual.QualitativeSpecies

readAttribute(String, String, String) - Method in class org.sbml.jsbml.ext.qual.QualModelPlugin

readAttribute(String, String, String) - Method in class org.sbml.jsbml.ext.qual.Transition

readAttribute(String, String, String) - Method in class org.sbml.jsbml.ext.render.AbstractRenderPlugin

readAttribute(String, String, String) - Method in class org.sbml.jsbml.ext.render.ColorDefinition

readAttribute(String, String, String) - Method in class org.sbml.jsbml.ext.render.Ellipse

readAttribute(String, String, String) - Method in class org.sbml.jsbml.ext.render.GlobalRenderInformation

readAttribute(String, String, String) - Method in class org.sbml.jsbml.ext.render.GradientBase

readAttribute(String, String, String) - Method in class org.sbml.jsbml.ext.render.GradientStop

readAttribute(String, String, String) - Method in class org.sbml.jsbml.ext.render.GraphicalPrimitive1D

readAttribute(String, String, String) - Method in class org.sbml.jsbml.ext.render.GraphicalPrimitive2D

readAttribute(String, String, String) - Method in class org.sbml.jsbml.ext.render.Image

readAttribute(String, String, String) - Method in class org.sbml.jsbml.ext.render.LinearGradient

readAttribute(String, String, String) - Method in class org.sbml.jsbml.ext.render.LocalRenderInformation

readAttribute(String, String, String) - Method in class org.sbml.jsbml.ext.render.LocalStyle

readAttribute(String, String, String) - Method in class org.sbml.jsbml.ext.render.RadialGradient

readAttribute(String, String, String) - Method in class org.sbml.jsbml.ext.render.Rectangle

readAttribute(String, String, String) - Method in class org.sbml.jsbml.ext.render.RenderCubicBezier

readAttribute(String, String, String) - Method in class org.sbml.jsbml.ext.render.RenderCurve

readAttribute(String, String, String) - Method in class org.sbml.jsbml.ext.render.RenderGroup

readAttribute(String, String, String) - Method in class org.sbml.jsbml.ext.render.RenderInformationBase

readAttribute(String, String, String) - Method in class org.sbml.jsbml.ext.render.RenderPoint

readAttribute(String, String, String) - Method in class org.sbml.jsbml.ext.render.Style

readAttribute(String, String, String) - Method in class org.sbml.jsbml.ext.render.Text

readAttribute(String, String, String) - Method in class org.sbml.jsbml.ext.render.Transformation

readAttribute(String, String, String) - Method in class org.sbml.jsbml.ext.req.ChangedMath

readAttribute(String, String, String) - Method in class org.sbml.jsbml.ext.req.ReqSBasePlugin

readAttribute(String, String, String) - Method in interface org.sbml.jsbml.ext.SBasePlugin

Reads and sets the attribute if it is know from this SBasePlugin.

readAttribute(String, String, String) - Method in class org.sbml.jsbml.ext.spatial.AbstractSpatialNamedSBase

readAttribute(String, String, String) - Method in class org.sbml.jsbml.ext.spatial.AbstractSpatialSBasePlugin

readAttribute(String, String, String) - Method in class org.sbml.jsbml.ext.spatial.AdjacentDomains

readAttribute(String, String, String) - Method in class org.sbml.jsbml.ext.spatial.AdvectionCoefficient

readAttribute(String, String, String) - Method in class org.sbml.jsbml.ext.spatial.AnalyticVolume

readAttribute(String, String, String) - Method in class org.sbml.jsbml.ext.spatial.Boundary

readAttribute(String, String, String) - Method in class org.sbml.jsbml.ext.spatial.BoundaryCondition

readAttribute(String, String, String) - Method in class org.sbml.jsbml.ext.spatial.CompartmentMapping

readAttribute(String, String, String) - Method in class org.sbml.jsbml.ext.spatial.CoordinateComponent

readAttribute(String, String, String) - Method in class org.sbml.jsbml.ext.spatial.CoordinateReference

Deprecated.

readAttribute(String, String, String) - Method in class org.sbml.jsbml.ext.spatial.CSGObject

readAttribute(String, String, String) - Method in class org.sbml.jsbml.ext.spatial.CSGPrimitive

readAttribute(String, String, String) - Method in class org.sbml.jsbml.ext.spatial.CSGPseudoPrimitive

readAttribute(String, String, String) - Method in class org.sbml.jsbml.ext.spatial.CSGRotation

readAttribute(String, String, String) - Method in class org.sbml.jsbml.ext.spatial.CSGScale

readAttribute(String, String, String) - Method in class org.sbml.jsbml.ext.spatial.CSGSetOperator

readAttribute(String, String, String) - Method in class org.sbml.jsbml.ext.spatial.CSGTranslation

readAttribute(String, String, String) - Method in class org.sbml.jsbml.ext.spatial.DiffusionCoefficient

readAttribute(String, String, String) - Method in class org.sbml.jsbml.ext.spatial.Domain

readAttribute(String, String, String) - Method in class org.sbml.jsbml.ext.spatial.DomainType

readAttribute(String, String, String) - Method in class org.sbml.jsbml.ext.spatial.Geometry

readAttribute(String, String, String) - Method in class org.sbml.jsbml.ext.spatial.GeometryDefinition

readAttribute(String, String, String) - Method in class org.sbml.jsbml.ext.spatial.InteriorPoint

readAttribute(String, String, String) - Method in class org.sbml.jsbml.ext.spatial.OrdinalMapping

readAttribute(String, String, String) - Method in class org.sbml.jsbml.ext.spatial.ParameterType

readAttribute(String, String, String) - Method in class org.sbml.jsbml.ext.spatial.ParametricObject

readAttribute(String, String, String) - Method in class org.sbml.jsbml.ext.spatial.PolygonObject

Deprecated.

readAttribute(String, String, String) - Method in class org.sbml.jsbml.ext.spatial.SampledField

readAttribute(String, String, String) - Method in class org.sbml.jsbml.ext.spatial.SampledFieldGeometry

readAttribute(String, String, String) - Method in class org.sbml.jsbml.ext.spatial.SampledVolume

readAttribute(String, String, String) - Method in class org.sbml.jsbml.ext.spatial.SpatialPoints

readAttribute(String, String, String) - Method in class org.sbml.jsbml.ext.spatial.SpatialReactionPlugin

readAttribute(String, String, String) - Method in class org.sbml.jsbml.ext.spatial.SpatialSpeciesPlugin

readAttribute(String, String, String) - Method in class org.sbml.jsbml.ext.spatial.SpatialSymbolReference

readAttribute(String, String, String) - Method in class org.sbml.jsbml.ext.spatial.TransformationComponent

readAttribute(String, String, String) - Method in class org.sbml.jsbml.FunctionDefinition

readAttribute(String, String, String, String) - Method in class org.sbml.jsbml.History

readAttribute(String, String, String) - Method in class org.sbml.jsbml.InitialAssignment

readAttribute(String, String, String) - Method in class org.sbml.jsbml.KineticLaw

readAttribute(String, String, String) - Method in class org.sbml.jsbml.ListOf

readAttribute(String, String, String) - Method in class org.sbml.jsbml.LocalParameter

readAttribute(String, String, String) - Method in class org.sbml.jsbml.Model

readAttribute(String, String, String) - Method in class org.sbml.jsbml.Parameter

readAttribute(String, String, String) - Method in class org.sbml.jsbml.Reaction

readAttribute(String, String, String) - Method in interface org.sbml.jsbml.SBase

Sets the given attribute in this SBase.

readAttribute(String, String, String) - Method in class org.sbml.jsbml.SBMLDocument

readAttribute(String, String, String) - Method in class org.sbml.jsbml.SimpleSpeciesReference

readAttribute(String, String, String) - Method in class org.sbml.jsbml.Species

readAttribute(String, String, String) - Method in class org.sbml.jsbml.SpeciesReference

readAttribute(String, String, String) - Method in class org.sbml.jsbml.Trigger

readAttribute(String, String, String) - Method in class org.sbml.jsbml.Unit

readChar() - Method in class org.sbml.jsbml.math.parser.SimpleCharStream

Read a character.

readChar() - Method in class org.sbml.jsbml.text.parser.SimpleCharStream

Read a character.

ReadingParser - Interface in org.sbml.jsbml.xml.parsers

The interface to implement for the SBML parsers reading SBML files.

readingParsers - Variable in class org.sbml.jsbml.xml.parsers.ParserManager

readMathML(String, TreeNodeChangeListener) - Method in class org.sbml.jsbml.xml.stax.SBMLReader

Reads a mathML String into an ASTNode.

readMathML(String, TreeNodeChangeListener, MathContainer) - Method in class org.sbml.jsbml.xml.stax.SBMLReader

Reads a mathML String into an ASTNode.

readMathML(String) - Method in class org.sbml.jsbml.xml.stax.SBMLReader

readMathMLFromString(String) - Static method in class org.sbml.jsbml.ASTNode

Reads the MathML from the given XML string.

readMathMLFromString(String) - Static method in class org.sbml.jsbml.JSBML

Reads the MathML from the given XML string, constructs a corresponding abstract syntax tree, and returns a pointer to the root of the tree.

readNotes(String, TreeNodeChangeListener) - Method in class org.sbml.jsbml.xml.stax.SBMLReader

Reads a notes XML String into an XMLNode.

readNotes(String) - Method in class org.sbml.jsbml.xml.stax.SBMLReader

readProperties(String) - Static method in class org.sbml.jsbml.resources.Resource

readSBML(String) - Static method in class org.sbml.jsbml.JSBML

Reads an SBML document from the given file.

readSBML(File, TreeNodeChangeListener) - Method in class org.sbml.jsbml.SBMLReader

readSBML(File) - Method in class org.sbml.jsbml.SBMLReader

Reads an SBML document from a File.

readSBML(String) - Method in class org.sbml.jsbml.SBMLReader

Reads an SBML document from a file.

readSBML(File) - Method in class org.sbml.jsbml.xml.stax.SBMLReader

readSBML(File, TreeNodeChangeListener) - Method in class org.sbml.jsbml.xml.stax.SBMLReader

Reads a SBML String from the given file.

readSBML(String) - Method in class org.sbml.jsbml.xml.stax.SBMLReader

Reads SBML from a given file.

readSBML(XMLEventReader, TreeNodeChangeListener) - Method in class org.sbml.jsbml.xml.stax.SBMLReader

Reads an SBMLDocument from the given XMLEventReader

readSBML(XMLEventReader) - Method in class org.sbml.jsbml.xml.stax.SBMLReader

readSBMLFile(String) - Method in class org.sbml.jsbml.xml.stax.SBMLReader

Reads the SBML file 'fileName' and creates/initialises a SBMLDocument instance.

readSBMLFromFile(String) - Static method in class org.sbml.jsbml.JSBML

Reads an SBML document from the given file.

readSBMLFromFile(String) - Method in class org.sbml.jsbml.SBMLReader

Reads an SBML document from a file.

readSBMLFromStream(InputStream) - Method in class org.sbml.jsbml.SBMLReader

Reads an SBML document from a data stream.

readSBMLFromStream(InputStream, TreeNodeChangeListener) - Method in class org.sbml.jsbml.xml.stax.SBMLReader

Reads a SBML document from the given stream.

readSBMLFromStream(InputStream) - Method in class org.sbml.jsbml.xml.stax.SBMLReader

readSBMLFromString(String) - Static method in class org.sbml.jsbml.JSBML

Reads an SBML document from a string assumed to be in XML format.

readSBMLFromString(String) - Method in class org.sbml.jsbml.SBMLReader

Reads an SBML document from the given XML string.

readSBMLFromString(String, TreeNodeChangeListener) - Method in class org.sbml.jsbml.xml.stax.SBMLReader

Reads a SBML model from the given XML String.

readSBMLFromString(String) - Method in class org.sbml.jsbml.xml.stax.SBMLReader

REAL_FORMAT - Static variable in class org.sbml.jsbml.util.StringTools

Rectangle - Class in org.sbml.jsbml.ext.render

Rectangle() - Constructor for class org.sbml.jsbml.ext.render.Rectangle

Creates an Rectangle instance

Rectangle(Rectangle) - Constructor for class org.sbml.jsbml.ext.render.Rectangle

Clone constructor

reduceToBinary(ASTFunction) - Static method in class org.sbml.jsbml.math.ASTFactory

Reduces an ASTFunction to a binary tree, e.g., if the formula in the ASTFunction is and(x, y, z) then the formula of the reduced node would be and(and(x, y), z).

reference - Static variable in class org.sbml.jsbml.ext.layout.LayoutConstants

referencedAttribute - Static variable in class org.sbml.jsbml.ext.arrays.ArraysConstants

referenceGlyph - Static variable in class org.sbml.jsbml.ext.layout.LayoutConstants

ReferenceGlyph - Class in org.sbml.jsbml.ext.layout

The ReferenceGlyph element describes the graphical connection between an arbitrary GraphicalObject (or derived element) and a GeneralGlyph (which would be an arrow or some curve in most cases).

ReferenceGlyph() - Constructor for class org.sbml.jsbml.ext.layout.ReferenceGlyph

ReferenceGlyph(int, int) - Constructor for class org.sbml.jsbml.ext.layout.ReferenceGlyph

ReferenceGlyph(ReferenceGlyph) - Constructor for class org.sbml.jsbml.ext.layout.ReferenceGlyph

ReferenceGlyph(String) - Constructor for class org.sbml.jsbml.ext.layout.ReferenceGlyph

ReferenceGlyph(String, int, int) - Constructor for class org.sbml.jsbml.ext.layout.ReferenceGlyph

referenceRenderInformation - Static variable in class org.sbml.jsbml.ext.render.RenderConstants

refersTo(String) - Method in class org.sbml.jsbml.ASTNode

Returns true if this node or one of its descendants contains some identifier with the given id.

refersTo(String) - Method in class org.sbml.jsbml.math.ASTCiFunctionNode

refersTo(String) - Method in class org.sbml.jsbml.math.ASTCiNumberNode

refersTo(String) - Method in class org.sbml.jsbml.math.ASTCSymbolAvogadroNode

refersTo(String) - Method in interface org.sbml.jsbml.math.ASTCSymbolBaseNode

Returns true if this node or one of its descendants contains some identifier with the given id.

refersTo(String) - Method in class org.sbml.jsbml.math.ASTCSymbolDelayNode

refersTo(String) - Method in class org.sbml.jsbml.math.ASTCSymbolTimeNode

refId - Static variable in class org.sbml.jsbml.util.TreeNodeChangeEvent

register(SBase) - Method in class org.sbml.jsbml.ext.arrays.ArraysSBasePlugin

register(SBase) - Method in class org.sbml.jsbml.ext.comp.CompModelPlugin

register(SBase) - Method in class org.sbml.jsbml.ext.distrib.DrawFromDistribution

register(SBase) - Method in class org.sbml.jsbml.ext.spatial.SpatialModelPlugin

register(SBase) - Method in class org.sbml.jsbml.KineticLaw

register(SBase) - Method in class org.sbml.jsbml.Model

register(SBase) - Method in interface org.sbml.jsbml.util.IdManager

Registers the given SBase element and all of it's children in this IdManager.

registerChild(SBase) - Method in class org.sbml.jsbml.AbstractSBase

registerChild(SBase) - Method in interface org.sbml.jsbml.SBase

Sets this object as SBML parent of 'sbase'.

ReInit(InputStream) - Method in class org.sbml.jsbml.math.parser.FormulaParser

Reinitialise.

ReInit(InputStream, String) - Method in class org.sbml.jsbml.math.parser.FormulaParser

Reinitialise.

ReInit(Reader) - Method in class org.sbml.jsbml.math.parser.FormulaParser

Reinitialise.

ReInit(FormulaParserTokenManager) - Method in class org.sbml.jsbml.math.parser.FormulaParser

Reinitialise.

ReInit(InputStream) - Method in class org.sbml.jsbml.math.parser.FormulaParserASTNode2

Reinitialise.

ReInit(InputStream, String) - Method in class org.sbml.jsbml.math.parser.FormulaParserASTNode2

Reinitialise.

ReInit(Reader) - Method in class org.sbml.jsbml.math.parser.FormulaParserASTNode2

Reinitialise.

ReInit(FormulaParserASTNode2TokenManager) - Method in class org.sbml.jsbml.math.parser.FormulaParserASTNode2

Reinitialise.

ReInit(SimpleCharStream) - Method in class org.sbml.jsbml.math.parser.FormulaParserASTNode2TokenManager

Reinitialise parser.

ReInit(SimpleCharStream, int) - Method in class org.sbml.jsbml.math.parser.FormulaParserASTNode2TokenManager

Reinitialise parser.

ReInit(InputStream) - Method in class org.sbml.jsbml.math.parser.FormulaParserLL3

Reinitialise.

ReInit(InputStream, String) - Method in class org.sbml.jsbml.math.parser.FormulaParserLL3

Reinitialise.

ReInit(Reader) - Method in class org.sbml.jsbml.math.parser.FormulaParserLL3

Reinitialise.

ReInit(FormulaParserLL3TokenManager) - Method in class org.sbml.jsbml.math.parser.FormulaParserLL3

Reinitialise.

ReInit(InputStream) - Method in class org.sbml.jsbml.math.parser.FormulaParserLL3ASTNode2

Reinitialise.

ReInit(InputStream, String) - Method in class org.sbml.jsbml.math.parser.FormulaParserLL3ASTNode2

Reinitialise.

ReInit(Reader) - Method in class org.sbml.jsbml.math.parser.FormulaParserLL3ASTNode2

Reinitialise.

ReInit(FormulaParserLL3ASTNode2TokenManager) - Method in class org.sbml.jsbml.math.parser.FormulaParserLL3ASTNode2

Reinitialise.

ReInit(SimpleCharStream) - Method in class org.sbml.jsbml.math.parser.FormulaParserLL3ASTNode2TokenManager

Reinitialise parser.

ReInit(SimpleCharStream, int) - Method in class org.sbml.jsbml.math.parser.FormulaParserLL3ASTNode2TokenManager

Reinitialise parser.

ReInit(SimpleCharStream) - Method in class org.sbml.jsbml.math.parser.FormulaParserLL3TokenManager

Reinitialise parser.

ReInit(SimpleCharStream, int) - Method in class org.sbml.jsbml.math.parser.FormulaParserLL3TokenManager

Reinitialise parser.

ReInit(SimpleCharStream) - Method in class org.sbml.jsbml.math.parser.FormulaParserTokenManager

Reinitialise parser.

ReInit(SimpleCharStream, int) - Method in class org.sbml.jsbml.math.parser.FormulaParserTokenManager

Reinitialise parser.

ReInit(Reader) - Method in interface org.sbml.jsbml.math.parser.IFormulaParser

ReInit(InputStream, String) - Method in interface org.sbml.jsbml.math.parser.IFormulaParser

ReInit(InputStream) - Method in interface org.sbml.jsbml.math.parser.IFormulaParser

ReInit(Reader, int, int, int) - Method in class org.sbml.jsbml.math.parser.SimpleCharStream

Reinitialise.

ReInit(Reader, int, int) - Method in class org.sbml.jsbml.math.parser.SimpleCharStream

Reinitialise.

ReInit(Reader) - Method in class org.sbml.jsbml.math.parser.SimpleCharStream

Reinitialise.

ReInit(InputStream, String, int, int, int) - Method in class org.sbml.jsbml.math.parser.SimpleCharStream

Reinitialise.

ReInit(InputStream, int, int, int) - Method in class org.sbml.jsbml.math.parser.SimpleCharStream

Reinitialise.

ReInit(InputStream, String) - Method in class org.sbml.jsbml.math.parser.SimpleCharStream

Reinitialise.

ReInit(InputStream) - Method in class org.sbml.jsbml.math.parser.SimpleCharStream

Reinitialise.

ReInit(InputStream, String, int, int) - Method in class org.sbml.jsbml.math.parser.SimpleCharStream

Reinitialise.

ReInit(InputStream, int, int) - Method in class org.sbml.jsbml.math.parser.SimpleCharStream

Reinitialise.

ReInit(InputStream) - Method in class org.sbml.jsbml.text.parser.CobraFormulaParser

Reinitialise.

ReInit(InputStream, String) - Method in class org.sbml.jsbml.text.parser.CobraFormulaParser

Reinitialise.

ReInit(Reader) - Method in class org.sbml.jsbml.text.parser.CobraFormulaParser

Reinitialise.

ReInit(CobraFormulaParserTokenManager) - Method in class org.sbml.jsbml.text.parser.CobraFormulaParser

Reinitialise.

ReInit(SimpleCharStream) - Method in class org.sbml.jsbml.text.parser.CobraFormulaParserTokenManager

Reinitialise parser.

ReInit(SimpleCharStream, int) - Method in class org.sbml.jsbml.text.parser.CobraFormulaParserTokenManager

Reinitialise parser.

ReInit(InputStream) - Method in class org.sbml.jsbml.text.parser.FormulaParser

Reinitialise.

ReInit(InputStream, String) - Method in class org.sbml.jsbml.text.parser.FormulaParser

Reinitialise.

ReInit(Reader) - Method in class org.sbml.jsbml.text.parser.FormulaParser

Reinitialise.

ReInit(FormulaParserTokenManager) - Method in class org.sbml.jsbml.text.parser.FormulaParser

Reinitialise.

ReInit(InputStream) - Method in class org.sbml.jsbml.text.parser.FormulaParserASTNode2

Reinitialise.

ReInit(InputStream, String) - Method in class org.sbml.jsbml.text.parser.FormulaParserASTNode2

Reinitialise.

ReInit(Reader) - Method in class org.sbml.jsbml.text.parser.FormulaParserASTNode2

Reinitialise.

ReInit(FormulaParserASTNode2TokenManager) - Method in class org.sbml.jsbml.text.parser.FormulaParserASTNode2

Reinitialise.

ReInit(SimpleCharStream) - Method in class org.sbml.jsbml.text.parser.FormulaParserASTNode2TokenManager

Reinitialise parser.

ReInit(SimpleCharStream, int) - Method in class org.sbml.jsbml.text.parser.FormulaParserASTNode2TokenManager

Reinitialise parser.

ReInit(InputStream) - Method in class org.sbml.jsbml.text.parser.FormulaParserLL3

Reinitialise.

ReInit(InputStream, String) - Method in class org.sbml.jsbml.text.parser.FormulaParserLL3

Reinitialise.

ReInit(Reader) - Method in class org.sbml.jsbml.text.parser.FormulaParserLL3

Reinitialise.

ReInit(FormulaParserLL3TokenManager) - Method in class org.sbml.jsbml.text.parser.FormulaParserLL3

Reinitialise.

ReInit(InputStream) - Method in class org.sbml.jsbml.text.parser.FormulaParserLL3ASTNode2

Reinitialise.

ReInit(InputStream, String) - Method in class org.sbml.jsbml.text.parser.FormulaParserLL3ASTNode2

Reinitialise.

ReInit(Reader) - Method in class org.sbml.jsbml.text.parser.FormulaParserLL3ASTNode2

Reinitialise.

ReInit(FormulaParserLL3ASTNode2TokenManager) - Method in class org.sbml.jsbml.text.parser.FormulaParserLL3ASTNode2

Reinitialise.

ReInit(SimpleCharStream) - Method in class org.sbml.jsbml.text.parser.FormulaParserLL3ASTNode2TokenManager

Reinitialise parser.

ReInit(SimpleCharStream, int) - Method in class org.sbml.jsbml.text.parser.FormulaParserLL3ASTNode2TokenManager

Reinitialise parser.

ReInit(SimpleCharStream) - Method in class org.sbml.jsbml.text.parser.FormulaParserLL3TokenManager

Reinitialise parser.

ReInit(SimpleCharStream, int) - Method in class org.sbml.jsbml.text.parser.FormulaParserLL3TokenManager

Reinitialise parser.

ReInit(SimpleCharStream) - Method in class org.sbml.jsbml.text.parser.FormulaParserTokenManager

Reinitialise parser.

ReInit(SimpleCharStream, int) - Method in class org.sbml.jsbml.text.parser.FormulaParserTokenManager

Reinitialise parser.

ReInit(Reader) - Method in interface org.sbml.jsbml.text.parser.IFormulaParser

ReInit(InputStream, String) - Method in interface org.sbml.jsbml.text.parser.IFormulaParser

ReInit(InputStream) - Method in interface org.sbml.jsbml.text.parser.IFormulaParser

ReInit(Reader, int, int, int) - Method in class org.sbml.jsbml.text.parser.SimpleCharStream

Reinitialise.

ReInit(Reader, int, int) - Method in class org.sbml.jsbml.text.parser.SimpleCharStream

Reinitialise.

ReInit(Reader) - Method in class org.sbml.jsbml.text.parser.SimpleCharStream

Reinitialise.

ReInit(InputStream, String, int, int, int) - Method in class org.sbml.jsbml.text.parser.SimpleCharStream

Reinitialise.

ReInit(InputStream, int, int, int) - Method in class org.sbml.jsbml.text.parser.SimpleCharStream

Reinitialise.

ReInit(InputStream, String) - Method in class org.sbml.jsbml.text.parser.SimpleCharStream

Reinitialise.

ReInit(InputStream) - Method in class org.sbml.jsbml.text.parser.SimpleCharStream

Reinitialise.

ReInit(InputStream, String, int, int) - Method in class org.sbml.jsbml.text.parser.SimpleCharStream

Reinitialise.

ReInit(InputStream, int, int) - Method in class org.sbml.jsbml.text.parser.SimpleCharStream

Reinitialise.

Relation - Enum in org.sbml.jsbml.ext.multi

The Relation enumeration is used in the definition of the ListOfSpeciesFeatures class.

relational(ASTNode.Type, ASTNode2, ASTNode2) - Static method in class org.sbml.jsbml.math.ASTFactory

Creates a relational ASTRelationalOperatorNode of the given type with the two given children left and right.

remove(int) - Method in class org.sbml.jsbml.ListOf

remove(NamedSBase) - Method in class org.sbml.jsbml.ListOf

Removes a NamedSBase according to its unique id.

remove(Object) - Method in class org.sbml.jsbml.ListOf

remove(String) - Method in class org.sbml.jsbml.ListOf

Specialized method to remove a named SBase according to its unique id.

remove(String) - Method in class org.sbml.jsbml.Model

Removes any UniqueNamedSBase with the given identifier from this Model and returns the removed element if the operation was successfull.

remove(int) - Method in class org.sbml.jsbml.xml.XMLAttributes

Removes an attribute with the given index from this XMLAttributes set.

remove(String, String) - Method in class org.sbml.jsbml.xml.XMLAttributes

Removes an attribute with the given local name and namespace URI from this XMLAttributes set.

remove(String) - Method in class org.sbml.jsbml.xml.XMLAttributes

Removes an attribute with the given local name from this XMLAttributes set.

remove(XMLTriple) - Method in class org.sbml.jsbml.xml.XMLAttributes

Removes an attribute with the given XMLTriple from this XMLAttributes set.

remove(int) - Method in class org.sbml.jsbml.xml.XMLNamespaces

Removes an XML Namespace stored in the given position of this list.

remove(String) - Method in class org.sbml.jsbml.xml.XMLNamespaces

Removes an XML Namespace with the given prefix.

removeAdjacentDomain(AdjacentDomains) - Method in class org.sbml.jsbml.ext.spatial.Geometry

Removes an element from the listOfAdjacentDomains.

removeAdjacentDomain(int) - Method in class org.sbml.jsbml.ext.spatial.Geometry

Removes an element from the listOfAdjacentDomains at the given index.

removeAdjacentDomain(String) - Method in class org.sbml.jsbml.ext.spatial.Geometry

removeAll(Collection<?>) - Method in class org.sbml.jsbml.ListOf

removeAll(Filter) - Method in class org.sbml.jsbml.ListOf

Removes all elements from this list that fulfill the filter property of the given filter.

removeAllAssociations() - Method in class org.sbml.jsbml.ext.fbc.LogicalOperator

Returns true if LogicalOperator.listOfAssociations contains at least one element, otherwise false.

removeAllTreeNodeChangeListeners() - Method in class org.sbml.jsbml.AbstractTreeNode

removeAllTreeNodeChangeListeners(boolean) - Method in class org.sbml.jsbml.AbstractTreeNode

removeAllTreeNodeChangeListeners() - Method in class org.sbml.jsbml.math.ASTUnknown

removeAllTreeNodeChangeListeners(boolean) - Method in class org.sbml.jsbml.math.ASTUnknown

removeAllTreeNodeChangeListeners() - Method in interface org.sbml.jsbml.util.TreeNodeWithChangeSupport

Removes all tree node change listeners from this element.

removeAllTreeNodeChangeListeners(boolean) - Method in interface org.sbml.jsbml.util.TreeNodeWithChangeSupport

Removes all tree node change listeners recursively from this element.

removeAnalyticVolume(AnalyticVolume) - Method in class org.sbml.jsbml.ext.spatial.AnalyticGeometry

Removes an element from the listOfAnalyticVolumes.

removeAnalyticVolume(int) - Method in class org.sbml.jsbml.ext.spatial.AnalyticGeometry

Removes an element from the listOfAnalyticVolumes at the given index.

removeAnalyticVolume(String) - Method in class org.sbml.jsbml.ext.spatial.AnalyticGeometry

removeAssociation(Association) - Method in class org.sbml.jsbml.ext.fbc.LogicalOperator

Removes an element from the LogicalOperator.listOfAssociations.

removeAssociation(int) - Method in class org.sbml.jsbml.ext.fbc.LogicalOperator

Removes an element from the listOfAssociations at the given index.

removeAttr(int) - Method in class org.sbml.jsbml.xml.XMLToken

Removes an attribute with the given index from the attribute set in this XMLToken.

removeAttr(String) - Method in class org.sbml.jsbml.xml.XMLToken

Removes an attribute with the given local name from the attribute set in this XMLToken.

removeAttr(String, String) - Method in class org.sbml.jsbml.xml.XMLToken

Removes an attribute with the given local name and namespace URI from the attribute set in this XMLToken.

removeAttr(XMLTriple) - Method in class org.sbml.jsbml.xml.XMLToken

Removes an attribute with the given XMLTriple from the attribute set in this XMLToken.

removeBasePoint1() - Method in class org.sbml.jsbml.ext.layout.CubicBezier

removeBasePoint2() - Method in class org.sbml.jsbml.ext.layout.CubicBezier

removeChangedMath(ChangedMath) - Method in class org.sbml.jsbml.ext.req.ReqSBasePlugin

Removes an element from the listOfChangedMaths.

removeChangedMath(int) - Method in class org.sbml.jsbml.ext.req.ReqSBasePlugin

Removes an element from the listOfChangedMaths at the given index.

removeChangedMath(String) - Method in class org.sbml.jsbml.ext.req.ReqSBasePlugin

Removes an element from the listOfChangedMaths with the given id.

removeChild(int) - Method in class org.sbml.jsbml.ASTNode

Removes child n of this ASTNode.

removeChild(int) - Method in class org.sbml.jsbml.math.ASTBinaryFunctionNode

removeChild(int) - Method in class org.sbml.jsbml.math.ASTFunction

Removes child n of this ASTFunction.

removeChild(int) - Method in class org.sbml.jsbml.math.ASTUnaryFunctionNode

removeChild(int) - Method in class org.sbml.jsbml.xml.XMLNode

Removes the nth child of this XMLNode and returns the removed node.

removeChild(XMLNode) - Method in class org.sbml.jsbml.xml.XMLNode

Removes the first occurrence of the specified element from this list.

removeChildren() - Method in class org.sbml.jsbml.xml.XMLNode

Removes all children from this node.

removeColorDefinition(ColorDefinition) - Method in class org.sbml.jsbml.ext.render.RenderInformationBase

removeColorDefinition(int) - Method in class org.sbml.jsbml.ext.render.RenderInformationBase

removeColorDefinition(String) - Method in class org.sbml.jsbml.ext.render.RenderInformationBase

removeCompartment(int) - Method in class org.sbml.jsbml.Model

Removes the i-th Compartment of the Model.

removeCompartment(String) - Method in class org.sbml.jsbml.Model

Removes the Compartment of the Model with 'id' as id.

removeCompartmentGlyph(CompartmentGlyph) - Method in class org.sbml.jsbml.ext.layout.Layout

Removes an element from the listOfCompartmentGlyphs.

removeCompartmentGlyph(int) - Method in class org.sbml.jsbml.ext.layout.Layout

Removes an element from the listOfCompartmentGlyphs at the given index.

removeCompartmentGlyph(String) - Method in class org.sbml.jsbml.ext.layout.Layout

Removes an element from the listOfCompartmentGlyphs.

removeCompartmentReference(CompartmentReference) - Method in class org.sbml.jsbml.ext.multi.MultiCompartmentPlugin

Removes an element from the MultiCompartmentPlugin.listOfCompartmentReferences.

removeCompartmentReference(String) - Method in class org.sbml.jsbml.ext.multi.MultiCompartmentPlugin

Removes an element from the MultiCompartmentPlugin.listOfCompartmentReferences.

removeCompartmentReference(int) - Method in class org.sbml.jsbml.ext.multi.MultiCompartmentPlugin

Removes an element from the MultiCompartmentPlugin.listOfCompartmentReferences at the given index.

removeCompartmentType(int) - Method in class org.sbml.jsbml.Model

Deprecated.

Only valid in SBML Level 2 for Versions 2 through 4.

removeCompartmentType(String) - Method in class org.sbml.jsbml.Model

Deprecated.

Only valid in SBML Level 2 for Versions 2 through 4.

removeConstantId(String) - Method in class org.sbml.jsbml.ext.arrays.compiler.StaticallyComputableCompiler

Removes an id from the list.

removeConstraint(int) - Method in class org.sbml.jsbml.Model

Removes the n-th Constraint of the Model.

removeCoordinateComponent(CoordinateComponent) - Method in class org.sbml.jsbml.ext.spatial.Geometry

Removes an element from the listOfCoordinateComponents.

removeCoordinateComponent(int) - Method in class org.sbml.jsbml.ext.spatial.Geometry

Removes an element from the listOfCoordinateComponents at the given index.

removeCoordinateComponent(String) - Method in class org.sbml.jsbml.ext.spatial.Geometry

removeCreator(int) - Method in class org.sbml.jsbml.History

If there is no i^th Creator, it returns null.

removeCSGNode(CSGNode) - Method in class org.sbml.jsbml.ext.spatial.CSGSetOperator

Removes an element from the listOfCSGNodes.

removeCSGNode(int) - Method in class org.sbml.jsbml.ext.spatial.CSGSetOperator

Removes an element from the listOfCSGNodes at the given index.

removeCSGNode(String) - Method in class org.sbml.jsbml.ext.spatial.CSGSetOperator

removeCSGObject(CSGObject) - Method in class org.sbml.jsbml.ext.spatial.CSGeometry

Removes an element from the listOfCSGObjects.

removeCSGObject(int) - Method in class org.sbml.jsbml.ext.spatial.CSGeometry

Removes an element from the listOfCSGObjects at the given index.

removeCurveSegment(CurveSegment) - Method in class org.sbml.jsbml.ext.layout.Curve

removeCVTerm(CVTerm) - Method in class org.sbml.jsbml.AbstractSBase

Removes the given CVTerm.

removeCVTerm(int) - Method in class org.sbml.jsbml.AbstractSBase

Removes the CVTerm at the given index.

removeCVTerm(CVTerm) - Method in class org.sbml.jsbml.Annotation

Removes the given CVTerm.

removeCVTerm(int) - Method in class org.sbml.jsbml.Annotation

Removes the CVTerm at the given index.

removeCVTerm(CVTerm) - Method in interface org.sbml.jsbml.SBase

Removes the given CVTerm.

removeCVTerm(int) - Method in interface org.sbml.jsbml.SBase

Removes the CVTerm at the given index.

removeCVTerm - Static variable in class org.sbml.jsbml.util.TreeNodeChangeEvent

removeDeletion(Deletion) - Method in class org.sbml.jsbml.ext.comp.Submodel

Removes an element from the listOfDeletions.

removeDeletion(int) - Method in class org.sbml.jsbml.ext.comp.Submodel

Removes an element from the listOfDeletions at the given index.

removeDeletion(String) - Method in class org.sbml.jsbml.ext.comp.Submodel

Removes an element from the listOfDeletions with the given id.

removeDimension(Dimension) - Method in class org.sbml.jsbml.ext.arrays.ArraysSBasePlugin

Removes an element from the listOfDimensions.

removeDimension(String) - Method in class org.sbml.jsbml.ext.arrays.ArraysSBasePlugin

Removes an element from the listOfDimensions.

removeDimension(int) - Method in class org.sbml.jsbml.ext.arrays.ArraysSBasePlugin

Removes an element from the listOfDimensions at the given index.

removeDimensionByArrayDimension(int) - Method in class org.sbml.jsbml.ext.arrays.ArraysSBasePlugin

Removes an element from the listOfDimensions by array dimension.

removeDistribInput(DistribInput) - Method in class org.sbml.jsbml.ext.distrib.DrawFromDistribution

Removes an element from the listOfDistribInputs.

removeDistribInput(String) - Method in class org.sbml.jsbml.ext.distrib.DrawFromDistribution

Removes an element from the listOfDistribInputs.

removeDistribInput(int) - Method in class org.sbml.jsbml.ext.distrib.DrawFromDistribution

Removes an element from the listOfDistribInputs at the given index.

removeDomain(Domain) - Method in class org.sbml.jsbml.ext.spatial.Geometry

Removes an element from the listOfDomains.

removeDomain(int) - Method in class org.sbml.jsbml.ext.spatial.Geometry

Removes an element from the listOfDomains at the given index.

removeDomain(String) - Method in class org.sbml.jsbml.ext.spatial.Geometry

removeDomainType(DomainType) - Method in class org.sbml.jsbml.ext.spatial.Geometry

Removes an element from the listOfDomainTypes.

removeDomainType(int) - Method in class org.sbml.jsbml.ext.spatial.Geometry

Removes an element from the listOfDomainTypes at the given index.

removeDomainType(String) - Method in class org.sbml.jsbml.ext.spatial.Geometry

removeDynElement(int) - Method in class org.sbml.jsbml.ext.dyn.DynEventPlugin

Removes the ith element from the listOfDynElements

removeDynElement(DynElement) - Method in class org.sbml.jsbml.ext.dyn.DynEventPlugin

Removes an element from the listOfDynElements

removeElement(RenderPoint) - Method in class org.sbml.jsbml.ext.render.RenderCurve

removeElement(int) - Method in class org.sbml.jsbml.ext.render.RenderCurve

removeElement(Transformation2D) - Method in class org.sbml.jsbml.ext.render.RenderGroup

Removes an element from the listOfElements.

removeElement(String) - Method in class org.sbml.jsbml.ext.render.RenderGroup

Removes an element from the listOfElements.

removeElement(int) - Method in class org.sbml.jsbml.ext.render.RenderGroup

Removes an element from the listOfElements at the given index.

removeEnd() - Method in class org.sbml.jsbml.ext.layout.CurveSegment

removeEvent(int) - Method in class org.sbml.jsbml.Model

Removes the n-th Event of the Model.

removeEvent(String) - Method in class org.sbml.jsbml.Model

Removes the Event of the Model with 'id' as id.

removeEventAssignment(int) - Method in class org.sbml.jsbml.Event

Removes an element from the listOfEventAssignments at the given index.

removeEventAssignment(String) - Method in class org.sbml.jsbml.Event

Removes an element from the listOfEventAssignments.

removeEventAssignment(EventAssignment) - Method in class org.sbml.jsbml.Event

Removes an element from the listOfEventAssignments.

removeExternalModelDefinition(ExternalModelDefinition) - Method in class org.sbml.jsbml.ext.comp.CompSBMLDocumentPlugin

Removes an element from the listOfExternalModelDefinitions.

removeExternalModelDefinition(int) - Method in class org.sbml.jsbml.ext.comp.CompSBMLDocumentPlugin

Removes an element from the listOfExternalModelDefinitions at the given index.

removeExternalModelDefinition(String) - Method in class org.sbml.jsbml.ext.comp.CompSBMLDocumentPlugin

Removes an element from the listOfExternalModelDefinitions with the given id.

removeField(String) - Method in class org.sbml.jsbml.ext.arrays.compiler.ArraysCompiler

Removes an element from the idToValue.

removeFilter(Filter) - Method in class org.sbml.jsbml.util.filters.AndFilter

removeFirst(Filter) - Method in class org.sbml.jsbml.ListOf

Removes the first element from this list that fulfills the filter property of the given filter.

removeFluxBound(FluxBound) - Method in class org.sbml.jsbml.ext.fbc.FBCModelPlugin

Deprecated.

Only defined in FBC version 1.

removeFluxBound(int) - Method in class org.sbml.jsbml.ext.fbc.FBCModelPlugin

Deprecated.

Only defined in FBC version 1.

removeFluxObjective(FluxObjective) - Method in class org.sbml.jsbml.ext.fbc.Objective

Removes an element from the listOfFluxObjectives.

removeFluxObjective(int) - Method in class org.sbml.jsbml.ext.fbc.Objective

Removes an element from the listOfFluxObjectives at the given index.

removeFluxObjective(String) - Method in class org.sbml.jsbml.ext.fbc.Objective

Removes an element from the listOfFluxObjectives with the given id.

removeFromParent() - Method in class org.sbml.jsbml.AbstractTreeNode

This method is designed to be overridden for non-independent child nodes

removeFromParent() - Method in class org.sbml.jsbml.CVTerm

removeFromParent() - Method in class org.sbml.jsbml.ext.AbstractSBasePlugin

removeFromParent() - Method in class org.sbml.jsbml.ext.comp.ReplacedBy

removeFromParent() - Method in class org.sbml.jsbml.math.ASTUnknown

removeFromParent() - Method in interface org.sbml.jsbml.util.TreeNodeWithChangeSupport

Removes itself from its parent.

removeFunctionDefinition(int) - Method in class org.sbml.jsbml.Model

Removes the n-th FunctionDefinition of the Model.

removeFunctionDefinition(String) - Method in class org.sbml.jsbml.Model

Removes the FunctionDefinition of the Model with 'id' as id.

removeFunctionTerm(FunctionTerm) - Method in class org.sbml.jsbml.ext.qual.Transition

removeFunctionTerm(int) - Method in class org.sbml.jsbml.ext.qual.Transition

removeGeneProduct(GeneProduct) - Method in class org.sbml.jsbml.ext.fbc.FBCModelPlugin

Removes an element from the FBCModelPlugin.listOfGeneProducts.

removeGeneProduct(int) - Method in class org.sbml.jsbml.ext.fbc.FBCModelPlugin

Removes an element from the listOfGeneProducts at the given index.

removeGeneProduct(String) - Method in class org.sbml.jsbml.ext.fbc.FBCModelPlugin

Removes an element from the FBCModelPlugin.listOfGeneProducts.

removeGeneralGlyph(int) - Method in class org.sbml.jsbml.ext.layout.GeneralGlyph

removeGeneralGlyph(GraphicalObject) - Method in class org.sbml.jsbml.ext.layout.GeneralGlyph

removeGeneralGlyph(GeneralGlyph) - Method in class org.sbml.jsbml.ext.layout.Layout

removeGeneralGlyph(int) - Method in class org.sbml.jsbml.ext.layout.Layout

Removes an element from the Layout.listOfAdditionalGraphicalObjects at the given index.

removeGeneralGlyph(String) - Method in class org.sbml.jsbml.ext.layout.Layout

removeGeometryDefinition(GeometryDefinition) - Method in class org.sbml.jsbml.ext.spatial.Geometry

Removes an element from the listOfGeometryDefinitions.

removeGeometryDefinition(int) - Method in class org.sbml.jsbml.ext.spatial.Geometry

Removes an element from the listOfGeometryDefinitions at the given index.

removeGeometryDefinition(String) - Method in class org.sbml.jsbml.ext.spatial.Geometry

removeGeometryDefinition(GeometryDefinition) - Method in class org.sbml.jsbml.ext.spatial.MixedGeometry

Removes an element from the listOfGeometryDefinitions.

removeGeometryDefinition(int) - Method in class org.sbml.jsbml.ext.spatial.MixedGeometry

Removes an element from the listOfGeometryDefinitions at the given index.

removeGlobalRenderInformation(GlobalRenderInformation) - Method in class org.sbml.jsbml.ext.render.RenderListOfLayoutsPlugin

removeGlobalRenderInformation(int) - Method in class org.sbml.jsbml.ext.render.RenderListOfLayoutsPlugin

removeGlobalRenderInformation(String) - Method in class org.sbml.jsbml.ext.render.RenderListOfLayoutsPlugin

removeGradientBase(GradientBase) - Method in class org.sbml.jsbml.ext.render.RenderInformationBase

removeGradientBase(int) - Method in class org.sbml.jsbml.ext.render.RenderInformationBase

removeGradientStop(GradientStop) - Method in class org.sbml.jsbml.ext.render.GradientBase

removeGradientStop(int) - Method in class org.sbml.jsbml.ext.render.GradientBase

removeIndex(Index) - Method in class org.sbml.jsbml.ext.arrays.ArraysSBasePlugin

Removes an element from the listOfIndices.

removeIndex(int) - Method in class org.sbml.jsbml.ext.arrays.ArraysSBasePlugin

Removes an element from the listOfIndices at the given index.

removeIndexByArrayDimension(int) - Method in class org.sbml.jsbml.ext.arrays.ArraysSBasePlugin

Removes an element from the listOfIndices based on array dimension.

removeInitialAssignment(int) - Method in class org.sbml.jsbml.Model

Removes the n-th InitialAssignment of the Model.

removeInput(Input) - Method in class org.sbml.jsbml.ext.qual.Transition

removeInput(int) - Method in class org.sbml.jsbml.ext.qual.Transition

removeInSpeciesTypeBond(InSpeciesTypeBond) - Method in class org.sbml.jsbml.ext.multi.SpeciesType

Removes an element from the SpeciesType.listOfInSpeciesTypeBonds.

removeInSpeciesTypeBond(int) - Method in class org.sbml.jsbml.ext.multi.SpeciesType

Removes an element from the SpeciesType.listOfInSpeciesTypeBonds at the given index.

removeInSpeciesTypeBond(String) - Method in class org.sbml.jsbml.ext.multi.SpeciesType

Removes an element from the SpeciesType.listOfInSpeciesTypeBonds.

removeInteriorPoint(InteriorPoint) - Method in class org.sbml.jsbml.ext.spatial.Domain

Removes an element from the listOfInteriorPoints.

removeInteriorPoint(int) - Method in class org.sbml.jsbml.ext.spatial.Domain

Removes an element from the listOfInteriorPoints at the given index.

removeLineEnding(LineEnding) - Method in class org.sbml.jsbml.ext.render.RenderInformationBase

removeLineEnding(int) - Method in class org.sbml.jsbml.ext.render.RenderInformationBase

removeLocalParameter(int) - Method in class org.sbml.jsbml.KineticLaw

Removes the ith LocalParameter from this object.

removeLocalParameter(LocalParameter) - Method in class org.sbml.jsbml.KineticLaw

Removes the LocalParameter 'p' from the KineticLaw.listOfLocalParameters of this KineticLaw according to its 'id'.

removeLocalParameter(String) - Method in class org.sbml.jsbml.KineticLaw

Removes a LocalParameter from this object based on its 'id'.

removeLocalRenderInformation(LocalRenderInformation) - Method in class org.sbml.jsbml.ext.render.RenderLayoutPlugin

removeLocalRenderInformation(int) - Method in class org.sbml.jsbml.ext.render.RenderLayoutPlugin

removeLocalRenderInformation(String) - Method in class org.sbml.jsbml.ext.render.RenderLayoutPlugin

removeLocalStyle(LocalStyle) - Method in class org.sbml.jsbml.ext.render.LocalRenderInformation

removeLocalStyle(int) - Method in class org.sbml.jsbml.ext.render.LocalRenderInformation

removeMember(Member) - Method in class org.sbml.jsbml.ext.groups.Group

Removes an element from the Group.listOfMembers.

removeMember(String) - Method in class org.sbml.jsbml.ext.groups.Group

Removes an element from the Group.listOfMembers.

removeMember(int) - Method in class org.sbml.jsbml.ext.groups.Group

Removes an element from the Group.listOfMembers at the given index.

removeModelDefinition(ModelDefinition) - Method in class org.sbml.jsbml.ext.comp.CompSBMLDocumentPlugin

Removes an element from the listOfModelDefinitions.

removeModelDefinition(int) - Method in class org.sbml.jsbml.ext.comp.CompSBMLDocumentPlugin

Removes an element from the listOfModelDefinitions at the given index.

removeModelDefinition(String) - Method in class org.sbml.jsbml.ext.comp.CompSBMLDocumentPlugin

Removes an element from the listOfModelDefinitions with the given id.

removeModifiedDate(int) - Method in class org.sbml.jsbml.History

If there is no i^th modified Date, it returns null.

removeModifier(int) - Method in class org.sbml.jsbml.Reaction

Removes the nth modifier species (ModifierSpeciesReference object) in the list of modifiers in this Reaction and returns it.

removeModifier(ModifierSpeciesReference) - Method in class org.sbml.jsbml.Reaction

Removes the ModifierSpeciesReference 'modspecref' from this Reaction.

removeModifier(String) - Method in class org.sbml.jsbml.Reaction

Removes the modifier species (ModifierSpeciesReference object) having the given 'species' attribute in the list of modifiers in this Reaction and returns it.

removeMultiplier() - Method in class org.sbml.jsbml.Unit

This method tries to remove the Unit.multiplier of this unit.

removeNamespace(int) - Method in class org.sbml.jsbml.xml.XMLToken

Removes an XML Namespace stored in the given position of the XMLNamespaces of this XMLToken.

removeNamespace(String) - Method in class org.sbml.jsbml.xml.XMLToken

Removes an XML Namespace with the given prefix.

removeNestedCVTerm(CVTerm) - Method in class org.sbml.jsbml.CVTerm

Removes an element from the CVTerm.listOfNestedCVTerms.

removeNestedCVTerm(int) - Method in class org.sbml.jsbml.CVTerm

Removes an element from the CVTerm.listOfNestedCVTerms at the given index.

removeObjective(int) - Method in class org.sbml.jsbml.ext.fbc.FBCModelPlugin

Removes an element from the listOfObjectives at the given index.

removeObjective(Objective) - Method in class org.sbml.jsbml.ext.fbc.FBCModelPlugin

Removes an element from the listOfObjectives.

removeOffset() - Method in class org.sbml.jsbml.Unit

We remove the offset by expressing it within a new Unit.multiplier, m': m' = Unit.offset / 10^Unit.scale + Unit.multiplier When inserting this again into the unit formula, the offset vanishes: ((Unit.offset + Unit.multiplier * 10^Unit.scale) * Unit.kind)^Unit.exponent then becomes (0 + (Unit.offset / 10^Unit.scale + Unit.multiplier) * 10^Unit.scale * Unit.kind)^Unit.exponent = (m' * 10^Unit.scale * Unit.kind)^Unit.exponent This is possible because offset and multiplier are real double numbers.

removeOrdinalMapping(OrdinalMapping) - Method in class org.sbml.jsbml.ext.spatial.MixedGeometry

Removes an element from the listOfOrdinalMappings.

removeOrdinalMapping(int) - Method in class org.sbml.jsbml.ext.spatial.MixedGeometry

Removes an element from the listOfOrdinalMappings at the given index.

removeOutput(int) - Method in class org.sbml.jsbml.ext.qual.Transition

removeOutput(Output) - Method in class org.sbml.jsbml.ext.qual.Transition

removeOutwardBindingSite(OutwardBindingSite) - Method in class org.sbml.jsbml.ext.multi.MultiSpeciesPlugin

Removes an element from the MultiSpeciesPlugin.listOfOutwardBindingSites.

removeOutwardBindingSite(int) - Method in class org.sbml.jsbml.ext.multi.MultiSpeciesPlugin

Removes an element from the MultiSpeciesPlugin.listOfOutwardBindingSites at the given index.

removeParameter(int) - Method in class org.sbml.jsbml.KineticLaw

Deprecated.

use KineticLaw.removeLocalParameter(int)

removeParameter(Parameter) - Method in class org.sbml.jsbml.KineticLaw

Deprecated.

use KineticLaw.removeLocalParameter(LocalParameter)

removeParameter(String) - Method in class org.sbml.jsbml.KineticLaw

Deprecated.

use KineticLaw.removeLocalParameter(String)

removeParameter(int) - Method in class org.sbml.jsbml.Model

Removes the n-th Parameter of the Model.

removeParameter(Parameter) - Method in class org.sbml.jsbml.Model

Removes the Parameter 'parameter' from this Model.

removeParameter(String) - Method in class org.sbml.jsbml.Model

Removes the Parameter of the Model with 'id' as id.

removeParametricObject(ParametricObject) - Method in class org.sbml.jsbml.ext.spatial.ParametricGeometry

Removes an element from the listOfParametricObjects.

removeParametricObject(int) - Method in class org.sbml.jsbml.ext.spatial.ParametricGeometry

Removes an element from the listOfParametricObjects at the given index.

removePort(int) - Method in class org.sbml.jsbml.ext.comp.CompModelPlugin

Removes an element from the listOfPorts at the given index.

removePort(Port) - Method in class org.sbml.jsbml.ext.comp.CompModelPlugin

Removes an element from the listOfPorts.

removePossibleSpeciesFeatureValue(PossibleSpeciesFeatureValue) - Method in class org.sbml.jsbml.ext.multi.SpeciesFeatureType

Removes an element from the SpeciesFeatureType.listOfPossibleSpeciesFeatureValues.

removePossibleSpeciesFeatureValue(String) - Method in class org.sbml.jsbml.ext.multi.SpeciesFeatureType

Removes an element from the SpeciesFeatureType.listOfPossibleSpeciesFeatureValues.

removePossibleSpeciesFeatureValue(int) - Method in class org.sbml.jsbml.ext.multi.SpeciesFeatureType

Removes an element from the SpeciesFeatureType.listOfPossibleSpeciesFeatureValues at the given index.

removeProduct(int) - Method in class org.sbml.jsbml.Reaction

Removes the nth product species (SpeciesReference object) in the list of products in this Reaction and returns it.

removeProduct(SpeciesReference) - Method in class org.sbml.jsbml.Reaction

Removes the SpeciesReference 'modspecref' from the listOfProducts of this Reaction.

removeProduct(String) - Method in class org.sbml.jsbml.Reaction

Removes the product species (SpeciesReference object) having the given 'species' attribute in the list of products in this Reaction and returns it.

removeQualitativeSpecies(QualitativeSpecies) - Method in class org.sbml.jsbml.ext.qual.QualModelPlugin

removeReactant(int) - Method in class org.sbml.jsbml.Reaction

Removes the nth reactant species (SpeciesReference object) in the list of reactants in this Reaction and returns it.

removeReactant(SpeciesReference) - Method in class org.sbml.jsbml.Reaction

Removes the SpeciesReference 'modspecref' from the listOfReactants of this Reaction.

removeReactant(String) - Method in class org.sbml.jsbml.Reaction

Removes the reactant species (SpeciesReference object) having the given 'species' attribute in the list of reactants in this Reaction and returns it.

removeReaction(int) - Method in class org.sbml.jsbml.Model

Removes the n-th Reaction of the Model.

removeReaction(Reaction) - Method in class org.sbml.jsbml.Model

Removes a reaction from the model.

removeReaction(String) - Method in class org.sbml.jsbml.Model

Removes the Reaction of the Model with 'id' as id.

removeReactionGlyph(int) - Method in class org.sbml.jsbml.ext.layout.Layout

Removes an element from the Layout.listOfReactionGlyphs at the given index.

removeReactionGlyph(ReactionGlyph) - Method in class org.sbml.jsbml.ext.layout.Layout

Removes an element from the listOfReactionGlyphs.

removeReactionGlyph(String) - Method in class org.sbml.jsbml.ext.layout.Layout

Removes an element from the listOfReactionGlyphs.

removeReplacedElement(ReplacedElement) - Method in class org.sbml.jsbml.ext.comp.CompSBasePlugin

Removes an element from listOfReplacedElements.

removeReplacedElement(int) - Method in class org.sbml.jsbml.ext.comp.CompSBasePlugin

Removes the ith element from the ListOfReplacedElements.

removeResource(int) - Method in class org.sbml.jsbml.CVTerm

Removes the ith resource URI from the CVTerm.

removeResource(String) - Method in class org.sbml.jsbml.CVTerm

Removes the first occurrence of the given resource URI from the CVTerm.

removeResource(int) - Method in class org.sbml.jsbml.xml.XMLAttributes

Removes an attribute with the given index from this XMLAttributes set.

removeRule(int) - Method in class org.sbml.jsbml.Model

Removes the i-th Rule of the Model.

removeRule(String) - Method in class org.sbml.jsbml.Model

Removes the Rule of the Model with 'variableId' as variable.

removeRule(Rule) - Method in class org.sbml.jsbml.Model

Removes a Rule from the Model.

removeSampledField(SampledField) - Method in class org.sbml.jsbml.ext.spatial.Geometry

Removes an element from the listOfSampledFields.

removeSampledField(int) - Method in class org.sbml.jsbml.ext.spatial.Geometry

Removes an element from the listOfSampledFields at the given index.

removeSampledField(String) - Method in class org.sbml.jsbml.ext.spatial.Geometry

removeSampledVolume(SampledVolume) - Method in class org.sbml.jsbml.ext.spatial.SampledFieldGeometry

Removes an element from the listOfSampledVolumes.

removeSampledVolume(int) - Method in class org.sbml.jsbml.ext.spatial.SampledFieldGeometry

Removes an element from the listOfSampledVolumes at the given index.

removeSampledVolume(String) - Method in class org.sbml.jsbml.ext.spatial.SampledFieldGeometry

removeScale(Unit) - Static method in class org.sbml.jsbml.Unit

Manipulates the attributes of the Unit to express the unit with the value of the scale attribute reduced to zero.

removeScale() - Method in class org.sbml.jsbml.Unit

Manipulates the attributes of the Unit to express the unit with the value of the scale attribute reduced to zero.

removeSingletons() - Method in class org.sbml.jsbml.ext.layout.Layout

Removes all singleton SpeciesGlyphs (no SpeciesReferenceGlyph in ReactionGlyph) and also removes their associated TextGlyphs

removeSpatialComponent(int) - Method in class org.sbml.jsbml.ext.dyn.DynCompartmentPlugin

Removes the ith element from the ListOfSpatialComponents

removeSpatialComponent(SpatialComponent) - Method in class org.sbml.jsbml.ext.dyn.DynCompartmentPlugin

Removes an element from the ListOfSpatialComponents

removeSpecies(int) - Method in class org.sbml.jsbml.Model

Removes the i-th Species of the Model.

removeSpecies(Species) - Method in class org.sbml.jsbml.Model

Removes a species from the model.

removeSpecies(String) - Method in class org.sbml.jsbml.Model

Removes the Species of the Model with 'id' as id.

removeSpeciesFeature(SpeciesFeature) - Method in class org.sbml.jsbml.ext.multi.MultiSpeciesPlugin

Removes an element from the MultiSpeciesPlugin.listOfSpeciesFeatures.

removeSpeciesFeature(String) - Method in class org.sbml.jsbml.ext.multi.MultiSpeciesPlugin

Removes an element from the MultiSpeciesPlugin.listOfSpeciesFeatures.

removeSpeciesFeature(int) - Method in class org.sbml.jsbml.ext.multi.MultiSpeciesPlugin

Removes an element from the MultiSpeciesPlugin.listOfSpeciesFeatures at the given index.

removeSpeciesFeatureChange(SpeciesFeatureChange) - Method in class org.sbml.jsbml.ext.multi.SpeciesTypeComponentMapInProduct

Removes an element from the SpeciesTypeComponentMapInProduct.listOfSpeciesFeatureChanges.

removeSpeciesFeatureChange(String) - Method in class org.sbml.jsbml.ext.multi.SpeciesTypeComponentMapInProduct

Removes an element from the SpeciesTypeComponentMapInProduct.listOfSpeciesFeatureChanges.

removeSpeciesFeatureChange(int) - Method in class org.sbml.jsbml.ext.multi.SpeciesTypeComponentMapInProduct

Removes an element from the SpeciesTypeComponentMapInProduct.listOfSpeciesFeatureChanges at the given index.

removeSpeciesFeatureType(int) - Method in class org.sbml.jsbml.ext.multi.SpeciesType

Removes an element from the SpeciesType.listOfSpeciesFeatureTypes at the given index.

removeSpeciesFeatureType(SpeciesFeatureType) - Method in class org.sbml.jsbml.ext.multi.SpeciesType

Removes an element from the SpeciesType.listOfSpeciesFeatureTypes.

removeSpeciesFeatureType(String) - Method in class org.sbml.jsbml.ext.multi.SpeciesType

Removes an element from the SpeciesType.listOfSpeciesFeatureTypes.

removeSpeciesFeatureValue(SpeciesFeatureValue) - Method in class org.sbml.jsbml.ext.multi.SpeciesFeature

Removes an element from the SpeciesFeature.listOfSpeciesFeatureValues.

removeSpeciesFeatureValue(int) - Method in class org.sbml.jsbml.ext.multi.SpeciesFeature

Removes an element from the SpeciesFeature.listOfSpeciesFeatureValues at the given index.

removeSpeciesGlyph(int) - Method in class org.sbml.jsbml.ext.layout.Layout

Removes an element from the listOfSpeciesGlyphs at the given index.

removeSpeciesGlyph(SpeciesGlyph) - Method in class org.sbml.jsbml.ext.layout.Layout

Removes an element from the listOfSpeciesGlyphs.

removeSpeciesGlyph(String) - Method in class org.sbml.jsbml.ext.layout.Layout

Removes an element from the listOfSpeciesGlyphs.

removeSpeciesType(int) - Method in class org.sbml.jsbml.Model

Deprecated.

Only valid in SBML Level 2 for Versions 2 through 4.

removeSpeciesType(String) - Method in class org.sbml.jsbml.Model

Deprecated.

Only valid in SBML Level 2 for Versions 2 through 4.

removeSpeciesTypeComponentIndex(int) - Method in class org.sbml.jsbml.ext.multi.SpeciesType

Removes an element from the SpeciesType.listOfSpeciesTypeComponentIndexes at the given index.

removeSpeciesTypeComponentIndex(SpeciesTypeComponentIndex) - Method in class org.sbml.jsbml.ext.multi.SpeciesType

Removes an element from the SpeciesType.listOfSpeciesTypeComponentIndexes.

removeSpeciesTypeComponentIndex(String) - Method in class org.sbml.jsbml.ext.multi.SpeciesType

Removes an element from the SpeciesType.listOfSpeciesTypeComponentIndexes.

removeSpeciesTypeComponentMapInProduct(SpeciesTypeComponentMapInProduct) - Method in class org.sbml.jsbml.ext.multi.MultiSpeciesReferencePlugin

Removes an element from the MultiSpeciesReferencePlugin.listOfSpeciesTypeComponentMapInProducts.

removeSpeciesTypeComponentMapInProduct(int) - Method in class org.sbml.jsbml.ext.multi.MultiSpeciesReferencePlugin

Removes an element from the MultiSpeciesReferencePlugin.listOfSpeciesTypeComponentMapInProducts at the given index.

removeSpeciesTypeInstance(int) - Method in class org.sbml.jsbml.ext.multi.SpeciesType

Removes an element from the SpeciesType.listOfSpeciesTypeInstances at the given index.

removeSpeciesTypeInstance(SpeciesTypeInstance) - Method in class org.sbml.jsbml.ext.multi.SpeciesType

Removes an element from the SpeciesType.listOfSpeciesTypeInstances.

removeSpeciesTypeInstance(String) - Method in class org.sbml.jsbml.ext.multi.SpeciesType

Removes an element from the SpeciesType.listOfSpeciesTypeInstances.

removeStart() - Method in class org.sbml.jsbml.ext.layout.CurveSegment

removeStyle(Style) - Method in class org.sbml.jsbml.ext.render.GlobalRenderInformation

removeStyle(int) - Method in class org.sbml.jsbml.ext.render.GlobalRenderInformation

removeSubGlyph(GraphicalObject) - Method in class org.sbml.jsbml.ext.layout.GeneralGlyph

Removes an element from the listOfSubGlyphs.

removeSubGlyph(int) - Method in class org.sbml.jsbml.ext.layout.GeneralGlyph

Removes an element from the GeneralGlyph.listOfSubGlyphs at the given index.

removeSubmodel(int) - Method in class org.sbml.jsbml.ext.comp.CompModelPlugin

Removes an element from the listOfSubmodels at the given index.

removeSubmodel(String) - Method in class org.sbml.jsbml.ext.comp.CompModelPlugin

Removes an element from the listOfSubmodels.

removeSubmodel(Submodel) - Method in class org.sbml.jsbml.ext.comp.CompModelPlugin

Removes an element from the listOfSubmodels.

removeTextGlyph(int) - Method in class org.sbml.jsbml.ext.layout.Layout

Removes an element from the listOfTextGlyphs at the given index.

removeTextGlyph(String) - Method in class org.sbml.jsbml.ext.layout.Layout

Removes an element from the listOfTextGlyphs.

removeTextGlyph(TextGlyph) - Method in class org.sbml.jsbml.ext.layout.Layout

Removes an element from the listOfTextGlyphs.

removeTransition(Transition) - Method in class org.sbml.jsbml.ext.qual.QualModelPlugin

removeTreeNodeChangeListener(TreeNodeChangeListener) - Method in class org.sbml.jsbml.AbstractTreeNode

removeTreeNodeChangeListener(TreeNodeChangeListener, boolean) - Method in class org.sbml.jsbml.AbstractTreeNode

removeTreeNodeChangeListener(TreeNodeChangeListener) - Method in class org.sbml.jsbml.math.ASTUnknown

removeTreeNodeChangeListener(TreeNodeChangeListener, boolean) - Method in class org.sbml.jsbml.math.ASTUnknown

removeTreeNodeChangeListener(TreeNodeChangeListener) - Method in interface org.sbml.jsbml.SBase

Removes the given TreeNodeChangeListener from this element.

removeTreeNodeChangeListener(TreeNodeChangeListener) - Method in interface org.sbml.jsbml.util.TreeNodeWithChangeSupport

Removes recursively the given change listener from this element.

removeTreeNodeChangeListener(TreeNodeChangeListener, boolean) - Method in interface org.sbml.jsbml.util.TreeNodeWithChangeSupport

Removes the given change listener from this element.

removeUnit(int) - Method in class org.sbml.jsbml.UnitDefinition

Removes the nth Unit object from this UnitDefinition object and returns a pointer to it.

removeUnitDefinition(int) - Method in class org.sbml.jsbml.Model

Removes the n-th UnitDefinition of the Model.

removeUnitDefinition(String) - Method in class org.sbml.jsbml.Model

Removes the UnitDefinition of the Model with 'id' as id.

removeUnitDefinition(UnitDefinition) - Method in class org.sbml.jsbml.Model

Removes a UnitDefinition of the Model.

removeUserObject(Object) - Method in class org.sbml.jsbml.AbstractTreeNode

removeUserObject(Object) - Method in class org.sbml.jsbml.math.ASTUnknown

removeUserObject(Object) - Method in interface org.sbml.jsbml.util.TreeNodeWithChangeSupport

RenderConstants - Class in org.sbml.jsbml.ext.render

Contains some constants related to the render package.

RenderConstants() - Constructor for class org.sbml.jsbml.ext.render.RenderConstants

RenderCubicBezier - Class in org.sbml.jsbml.ext.render

RenderCubicBezier() - Constructor for class org.sbml.jsbml.ext.render.RenderCubicBezier

Creates an RenderCubicBezier instance

RenderCubicBezier(RenderCubicBezier) - Constructor for class org.sbml.jsbml.ext.render.RenderCubicBezier

Clone constructor

RenderCurve - Class in org.sbml.jsbml.ext.render

Implements the curve concept from the SBML render extension.

RenderCurve() - Constructor for class org.sbml.jsbml.ext.render.RenderCurve

Creates an Curve instance

RenderCurve(RenderCurve) - Constructor for class org.sbml.jsbml.ext.render.RenderCurve

Clone constructor

RenderGroup - Class in org.sbml.jsbml.ext.render

The RenderGroup class from the SBML render extension is used to group graphical primitives together to create composite representations from simple primitives.

RenderGroup() - Constructor for class org.sbml.jsbml.ext.render.RenderGroup

Creates an Group instance

RenderGroup(String) - Constructor for class org.sbml.jsbml.ext.render.RenderGroup

Creates a Group instance with an id.

RenderGroup(int, int) - Constructor for class org.sbml.jsbml.ext.render.RenderGroup

Creates a Group instance with a level and version.

RenderGroup(String, int, int) - Constructor for class org.sbml.jsbml.ext.render.RenderGroup

Creates a Group instance with an id, level, and version.

RenderGroup(String, String, int, int) - Constructor for class org.sbml.jsbml.ext.render.RenderGroup

Creates a Group instance with an id, name, level, and version.

RenderGroup(RenderGroup) - Constructor for class org.sbml.jsbml.ext.render.RenderGroup

Clone constructor

renderInformation - Static variable in class org.sbml.jsbml.ext.render.RenderConstants

RenderInformationBase - Class in org.sbml.jsbml.ext.render

RenderInformationBase() - Constructor for class org.sbml.jsbml.ext.render.RenderInformationBase

Creates an RenderInformationBase instance

RenderInformationBase(String) - Constructor for class org.sbml.jsbml.ext.render.RenderInformationBase

Creates a RenderInformationBase instance with an id.

RenderInformationBase(int, int) - Constructor for class org.sbml.jsbml.ext.render.RenderInformationBase

Creates a RenderInformationBase instance with a level and version.

RenderInformationBase(String, int, int) - Constructor for class org.sbml.jsbml.ext.render.RenderInformationBase

Creates a RenderInformationBase instance with an id, level, and version.

RenderInformationBase(String, String, int, int) - Constructor for class org.sbml.jsbml.ext.render.RenderInformationBase

Creates a RenderInformationBase instance with an id, name, level, and version.

RenderInformationBase(RenderInformationBase) - Constructor for class org.sbml.jsbml.ext.render.RenderInformationBase

Clone constructor

RenderLayoutPlugin - Class in org.sbml.jsbml.ext.render

RenderLayoutPlugin(Layout) - Constructor for class org.sbml.jsbml.ext.render.RenderLayoutPlugin

Creates an RenderLayoutPlugin instance

RenderLayoutPlugin(RenderLayoutPlugin) - Constructor for class org.sbml.jsbml.ext.render.RenderLayoutPlugin

Clone constructor

RenderListOfLayoutsPlugin - Class in org.sbml.jsbml.ext.render

RenderListOfLayoutsPlugin(ListOf<Layout>) - Constructor for class org.sbml.jsbml.ext.render.RenderListOfLayoutsPlugin

Creates an RenderModelPlugin instance

RenderListOfLayoutsPlugin(RenderListOfLayoutsPlugin) - Constructor for class org.sbml.jsbml.ext.render.RenderListOfLayoutsPlugin

Clone constructor

RenderParser - Class in org.sbml.jsbml.xml.parsers

RenderParser() - Constructor for class org.sbml.jsbml.xml.parsers.RenderParser

renderPoint - Static variable in class org.sbml.jsbml.ext.render.RenderConstants

RenderPoint - Class in org.sbml.jsbml.ext.render

RenderPoint() - Constructor for class org.sbml.jsbml.ext.render.RenderPoint

Creates an RenderPoint instance

RenderPoint(RenderPoint) - Constructor for class org.sbml.jsbml.ext.render.RenderPoint

Clone constructor

reorder(UnitDefinition) - Static method in class org.sbml.jsbml.UnitDefinition

Orders alphabetically the Unit objects within the UnitDefinition.listOfUnits of a UnitDefinition.

replaceArgument(String, ASTNode) - Method in class org.sbml.jsbml.ASTNode

Replaces occurrences of a name within this ASTNode with the name/value/formula represented by the second argument ASTNode, e.g., if the formula in this ASTNode is x + y; bvar is x and arg is an ASTNode representing the real value 3 ReplaceArgument substitutes 3 for x within this ASTNode.

replaceArgument(String, ASTNode2) - Method in class org.sbml.jsbml.math.ASTLambdaFunctionNode

Replaces occurrences of a name within this ASTLambdaFunctionNode with the name/value/formula represented by the second argument ASTNode2, e.g., if the formula in this ASTLambdaFunctionNode is x + y; bvar is x and arg is an ASTLambdaFunctionNode representing the real value 3 ReplaceArgument substitutes 3 for x within this ASTLambdaFunctionNode.

replaceChild(int, ASTNode) - Method in class org.sbml.jsbml.ASTNode

Replaces the n^th child of this ASTNode with the given ASTNode.

replaceChild(int, ASTNode2) - Method in class org.sbml.jsbml.math.ASTFunction

Replaces the n^th child of this ASTNode2 with the given ASTNode2.

replacedBy - Static variable in class org.sbml.jsbml.ext.comp.CompConstants

ReplacedBy - Class in org.sbml.jsbml.ext.comp

A ReplacedBy object indicates when the parent object is to be replaced by another object.

ReplacedBy() - Constructor for class org.sbml.jsbml.ext.comp.ReplacedBy

Creates a ReplacedBy instance

ReplacedBy(int, int) - Constructor for class org.sbml.jsbml.ext.comp.ReplacedBy

Creates a ReplacedBy instance with a level and version.

ReplacedBy(ReplacedBy) - Constructor for class org.sbml.jsbml.ext.comp.ReplacedBy

Clone constructor

replacedElement - Static variable in class org.sbml.jsbml.ext.comp.CompConstants

ReplacedElement - Class in org.sbml.jsbml.ext.comp

A ReplacedElement object is essentially a pointer to a submodel object that should be considered "replaced".

ReplacedElement() - Constructor for class org.sbml.jsbml.ext.comp.ReplacedElement

Creates an ReplacedElement instance

ReplacedElement(int, int) - Constructor for class org.sbml.jsbml.ext.comp.ReplacedElement

Creates a ReplacedElement instance with a level and version

ReplacedElement(ReplacedElement) - Constructor for class org.sbml.jsbml.ext.comp.ReplacedElement

Clone constructor

representationType - Static variable in class org.sbml.jsbml.ext.multi.MultiConstants

RepresentationType - Enum in org.sbml.jsbml.ext.multi

The RepresentationType enumeration is used in the extension of the ci element.

ReqConstants - Class in org.sbml.jsbml.ext.req

Contains some constants related to the req package.

ReqConstants() - Constructor for class org.sbml.jsbml.ext.req.ReqConstants

ReqParser - Class in org.sbml.jsbml.xml.parsers

A ReqParser is used to parse the req extension package elements and attributes.

ReqParser() - Constructor for class org.sbml.jsbml.xml.parsers.ReqParser

ReqSBasePlugin - Class in org.sbml.jsbml.ext.req

Represents the extended SBase as define in the req package.

ReqSBasePlugin() - Constructor for class org.sbml.jsbml.ext.req.ReqSBasePlugin

Creates an ReqSBasePlugin instance

ReqSBasePlugin(SBase) - Constructor for class org.sbml.jsbml.ext.req.ReqSBasePlugin

Creates a ReqSBasePlugin instance associated with the given SBase.

ReqSBasePlugin(ReqSBasePlugin) - Constructor for class org.sbml.jsbml.ext.req.ReqSBasePlugin

Clone constructor

reset() - Method in class org.sbml.jsbml.math.compiler.FindUnitsCompiler

reset() - Method in class org.sbml.jsbml.util.compilers.FindUnitsCompiler

reset() - Method in class org.sbml.jsbml.util.compilers.MathMLCompiler

Deprecated.

Allows to re-use this object to compile another ASTNode.

Resource - Class in org.sbml.jsbml.resources

Dummy class that just loads resource files if required.

ResourceManager - Class in org.sbml.jsbml.util

A ResourceManager avoids loading instances of ResourceBundle multiple times by keeping these in a Map data structure.

ResourceManager() - Constructor for class org.sbml.jsbml.util.ResourceManager

resultLevel - Static variable in class org.sbml.jsbml.ext.qual.QualConstants

retainAll(Collection<?>) - Method in class org.sbml.jsbml.ListOf

reverseTransformation - Static variable in class org.sbml.jsbml.ext.spatial.SpatialConstants

reversible - Static variable in class org.sbml.jsbml.util.TreeNodeChangeEvent

REVERSIBLE_REACTION_ARROW - Static variable in class org.sbml.jsbml.math.compiler.HTMLFormula

HTML code for the reversible reaction arrow whose upper side is directed to the right “⇌”.

REVERSIBLE_REACTION_ARROW - Static variable in class org.sbml.jsbml.util.compilers.HTMLFormula

HTML code for the reversible reaction arrow whose upper side is directed to the right “⇌”.

RIGHT_ARROW - Static variable in class org.sbml.jsbml.math.compiler.HTMLFormula

HTML code for the right arrow “→”.

RIGHT_ARROW - Static variable in class org.sbml.jsbml.util.compilers.HTMLFormula

HTML code for the right arrow “→”.

RIGHT_BRACES - Static variable in interface org.sbml.jsbml.math.parser.FormulaParserASTNode2Constants

RegularExpression Id.

RIGHT_BRACES - Static variable in interface org.sbml.jsbml.math.parser.FormulaParserConstants

RegularExpression Id.

RIGHT_BRACES - Static variable in interface org.sbml.jsbml.math.parser.FormulaParserLL3ASTNode2Constants

RegularExpression Id.

RIGHT_BRACES - Static variable in interface org.sbml.jsbml.math.parser.FormulaParserLL3Constants

RegularExpression Id.

RIGHT_BRACES - Static variable in interface org.sbml.jsbml.text.parser.CobraFormulaParserConstants

RegularExpression Id.

RIGHT_BRACES - Static variable in interface org.sbml.jsbml.text.parser.FormulaParserASTNode2Constants

RegularExpression Id.

RIGHT_BRACES - Static variable in interface org.sbml.jsbml.text.parser.FormulaParserConstants

RegularExpression Id.

RIGHT_BRACES - Static variable in interface org.sbml.jsbml.text.parser.FormulaParserLL3ASTNode2Constants

RegularExpression Id.

RIGHT_BRACES - Static variable in interface org.sbml.jsbml.text.parser.FormulaParserLL3Constants

RegularExpression Id.

RIGHT_BRACKET - Static variable in interface org.sbml.jsbml.math.parser.FormulaParserASTNode2Constants

RegularExpression Id.

RIGHT_BRACKET - Static variable in interface org.sbml.jsbml.math.parser.FormulaParserConstants

RegularExpression Id.

RIGHT_BRACKET - Static variable in interface org.sbml.jsbml.math.parser.FormulaParserLL3ASTNode2Constants

RegularExpression Id.

RIGHT_BRACKET - Static variable in interface org.sbml.jsbml.math.parser.FormulaParserLL3Constants

RegularExpression Id.

RIGHT_BRACKET - Static variable in interface org.sbml.jsbml.text.parser.CobraFormulaParserConstants

RegularExpression Id.

RIGHT_BRACKET - Static variable in interface org.sbml.jsbml.text.parser.FormulaParserASTNode2Constants

RegularExpression Id.

RIGHT_BRACKET - Static variable in interface org.sbml.jsbml.text.parser.FormulaParserConstants

RegularExpression Id.

RIGHT_BRACKET - Static variable in interface org.sbml.jsbml.text.parser.FormulaParserLL3ASTNode2Constants

RegularExpression Id.

RIGHT_BRACKET - Static variable in interface org.sbml.jsbml.text.parser.FormulaParserLL3Constants

RegularExpression Id.

rightBrace - Static variable in class org.sbml.jsbml.math.compiler.LaTeXCompiler

rightBrace - Static variable in class org.sbml.jsbml.util.compilers.LaTeXCompiler

rightChild - Static variable in class org.sbml.jsbml.ext.fbc.FBCConstants

Introduced to FBC in version 2: The right child of a logical association rule.

rightQuotationMark - Static variable in class org.sbml.jsbml.math.compiler.LaTeXCompiler

An closing quotation mark.

rightQuotationMark - Static variable in class org.sbml.jsbml.util.compilers.LaTeXCompiler

An closing quotation mark.

role - Static variable in class org.sbml.jsbml.ext.layout.LayoutConstants

roleList - Static variable in class org.sbml.jsbml.ext.render.RenderConstants

root(ASTNode, ASTNode) - Static method in class org.sbml.jsbml.ASTNode

Creates a root ASTNode.

root(ASTNode, ASTNode) - Method in class org.sbml.jsbml.ext.arrays.compiler.ArraysCompiler

root(double, ASTNode) - Method in class org.sbml.jsbml.ext.arrays.compiler.ArraysCompiler

root(ASTNode, ASTNode) - Method in class org.sbml.jsbml.ext.arrays.compiler.StaticallyComputableCompiler

root(double, ASTNode) - Method in class org.sbml.jsbml.ext.arrays.compiler.StaticallyComputableCompiler

root(ASTNode, ASTNode) - Method in class org.sbml.jsbml.ext.arrays.compiler.VectorCompiler

root(double, ASTNode) - Method in class org.sbml.jsbml.ext.arrays.compiler.VectorCompiler

root(ASTNode2, ASTNode2) - Static method in class org.sbml.jsbml.math.ASTFactory

Creates a root of type ASTNode2.

root(ASTNode2, ASTNode2) - Method in interface org.sbml.jsbml.math.compiler.ASTNode2Compiler

root(double, ASTNode2) - Method in interface org.sbml.jsbml.math.compiler.ASTNode2Compiler

root(ASTNode2, ASTNode2) - Method in class org.sbml.jsbml.math.compiler.FindUnitsCompiler

root(double, ASTNode2) - Method in class org.sbml.jsbml.math.compiler.FindUnitsCompiler

root(Object, Object) - Static method in class org.sbml.jsbml.math.compiler.FormulaCompiler

Returns the exponent-th root of the basis as StringBuffer.

root(ASTNode2, ASTNode2) - Method in class org.sbml.jsbml.math.compiler.FormulaCompiler

root(double, ASTNode2) - Method in class org.sbml.jsbml.math.compiler.FormulaCompiler

root(ASTNode2, ASTNode2) - Method in class org.sbml.jsbml.math.compiler.LaTeXCompiler

root(double, ASTNode2) - Method in class org.sbml.jsbml.math.compiler.LaTeXCompiler

root(ASTNode2, ASTNode2) - Method in class org.sbml.jsbml.math.compiler.LibSBMLFormulaCompiler

root(double, ASTNode2) - Method in class org.sbml.jsbml.math.compiler.LibSBMLFormulaCompiler

root(ASTNode2, ASTNode2) - Method in class org.sbml.jsbml.math.compiler.UnitsCompiler

root(double, ASTNode2) - Method in class org.sbml.jsbml.math.compiler.UnitsCompiler

root(ASTNode, ASTNode) - Method in interface org.sbml.jsbml.util.compilers.ASTNodeCompiler

root(double, ASTNode) - Method in interface org.sbml.jsbml.util.compilers.ASTNodeCompiler

root(ASTNode, ASTNode) - Method in class org.sbml.jsbml.util.compilers.FindUnitsCompiler

root(double, ASTNode) - Method in class org.sbml.jsbml.util.compilers.FindUnitsCompiler

root(Object, Object) - Static method in class org.sbml.jsbml.util.compilers.FormulaCompiler

Returns the exponent-th root of the basis as StringBuffer.

root(ASTNode, ASTNode) - Method in class org.sbml.jsbml.util.compilers.FormulaCompiler

root(double, ASTNode) - Method in class org.sbml.jsbml.util.compilers.FormulaCompiler

root(ASTNode, ASTNode) - Method in class org.sbml.jsbml.util.compilers.LaTeXCompiler

root(double, ASTNode) - Method in class org.sbml.jsbml.util.compilers.LaTeXCompiler

root(ASTNode, ASTNode) - Method in class org.sbml.jsbml.util.compilers.LibSBMLFormulaCompiler

root(double, ASTNode) - Method in class org.sbml.jsbml.util.compilers.LibSBMLFormulaCompiler

root(ASTNode, ASTNode) - Method in class org.sbml.jsbml.util.compilers.MathMLCompiler

Deprecated.

root(double, ASTNode) - Method in class org.sbml.jsbml.util.compilers.MathMLCompiler

Deprecated.

root(ASTNode, ASTNode) - Method in class org.sbml.jsbml.util.compilers.UnitsCompiler

root(double, ASTNode) - Method in class org.sbml.jsbml.util.compilers.UnitsCompiler

root(double, double) - Static method in class org.sbml.jsbml.util.Maths

This method computes the rootExponent-th root of the radiant

rotateAngleInRadians - Static variable in class org.sbml.jsbml.ext.spatial.SpatialConstants

rotateAxisX - Static variable in class org.sbml.jsbml.ext.spatial.SpatialConstants

rotateAxisY - Static variable in class org.sbml.jsbml.ext.spatial.SpatialConstants

rotateAxisZ - Static variable in class org.sbml.jsbml.ext.spatial.SpatialConstants

Rule - Class in org.sbml.jsbml

The base class for the AlgebraicRule, RateRule, AssignmentRule.

Rule() - Constructor for class org.sbml.jsbml.Rule

Creates a Rule instance.

Rule(ASTNode, int, int) - Constructor for class org.sbml.jsbml.Rule

Creates a Rule instance from an id, level and version.

Rule(int, int) - Constructor for class org.sbml.jsbml.Rule

Creates a Rule instance from a level and version.

Rule(Rule) - Constructor for class org.sbml.jsbml.Rule

Creates a new Rule instance from a given Rule.

rx - Static variable in class org.sbml.jsbml.ext.render.RenderConstants

ry - Static variable in class org.sbml.jsbml.ext.render.RenderConstants

A B C D E F G H I J K L M N O P Q R S T U V W X Y Z