- c -
- canonicalize()
: ASTNode
- changeErrorSeverity()
: XMLErrorLog
- checkCompatibility()
: CobraToFbcConverter
- checkConsistency()
: SBMLDocument
, SBMLInternalValidator
- checkInternalConsistency()
: SBMLDocument
, SBMLInternalValidator
- checkL1Compatibility()
: SBMLDocument
, SBMLInternalValidator
- checkL2v1Compatibility()
: SBMLDocument
, SBMLInternalValidator
- checkL2v2Compatibility()
: SBMLDocument
, SBMLInternalValidator
- checkL2v3Compatibility()
: SBMLDocument
, SBMLInternalValidator
- checkL2v4Compatibility()
: SBMLDocument
, SBMLInternalValidator
- checkL3v1Compatibility()
: SBMLDocument
, SBMLInternalValidator
- checkTerm()
: SBO
- clear()
: ListOf
, XMLAttributes
, XMLNamespaces
- clearAdditionalDirs()
: SBMLFileResolver
- clearAssociations()
: Association
- clearAttributes()
: XMLToken
- clearFailures()
: SBMLValidator
, Validator
- clearInstantiation()
: Submodel
- clearLog()
: XMLErrorLog
- clearNamespaces()
: XMLToken
- clearReferencedElement()
: SBaseRef
- clearReplacedElements()
: CompSBasePlugin
- clone()
: AlgebraicRule
, AssignmentRule
, Association
, BoundingBox
, CobraToFbcConverter
, Compartment
, CompartmentGlyph
, CompartmentType
, CompExtension
, CompFlatteningConverter
, CompModelPlugin
, CompSBasePlugin
, CompSBMLDocumentPlugin
, Constraint
, ConversionOption
, ConversionProperties
, CubicBezier
, Curve
, CVTerm
, Date
, DefaultTerm
, Delay
, Deletion
, Dimensions
, Event
, EventAssignment
, ExternalModelDefinition
, FbcExtension
, FbcModelPlugin
, FbcSBMLDocumentPlugin
, FbcSpeciesPlugin
, FbcToCobraConverter
, FluxBound
, FluxObjective
, FunctionDefinition
, FunctionTerm
, GeneAssociation
, GeneralGlyph
, GraphicalObject
, InitialAssignment
, Input
, KineticLaw
, Layout
, LayoutExtension
, LayoutModelPlugin
, LayoutSBMLDocumentPlugin
, LayoutSpeciesReferencePlugin
, LineSegment
, ListOf
, ListOfCompartmentGlyphs
, ListOfCompartments
, ListOfCompartmentTypes
, ListOfConstraints
, ListOfDeletions
, ListOfEventAssignments
, ListOfEvents
, ListOfExternalModelDefinitions
, ListOfFluxBounds
, ListOfFluxObjectives
, ListOfFunctionDefinitions
, ListOfFunctionTerms
, ListOfGeneAssociations
, ListOfGraphicalObjects
, ListOfInitialAssignments
, ListOfInputs
, ListOfLayouts
, ListOfLineSegments
, ListOfLocalParameters
, ListOfModelDefinitions
, ListOfObjectives
, ListOfOutputs
, ListOfParameters
, ListOfPorts
, ListOfQualitativeSpecies
, ListOfReactionGlyphs
, ListOfReactions
, ListOfReferenceGlyphs
, ListOfReplacedElements
, ListOfRules
, ListOfSpecies
, ListOfSpeciesGlyphs
, ListOfSpeciesReferenceGlyphs
, ListOfSpeciesReferences
, ListOfSpeciesTypes
, ListOfSubmodels
, ListOfTextGlyphs
, ListOfTransitions
, ListOfUnitDefinitions
, ListOfUnits
, LocalParameter
, Model
, ModelCreator
, ModelDefinition
, ModelHistory
, ModifierSpeciesReference
, Objective
, Output
, Parameter
, Point
, Port
, Priority
, QualExtension
, QualitativeSpecies
, QualModelPlugin
, QualSBMLDocumentPlugin
, RateRule
, Reaction
, ReactionGlyph
, ReferenceGlyph
, ReplacedBy
, ReplacedElement
, Rule
, SBase
, SBaseExtensionPoint
, SBasePlugin
, SBasePluginCreator< SBasePluginType, SBMLExtensionType >
, SBasePluginCreatorBase
, SBaseRef
, SBMLConverter
, SBMLDocument
, SBMLDocumentPlugin
, SBMLExtension
, SBMLExtensionNamespaces< SBMLExtensionType >
, SBMLFileResolver
, SBMLFunctionDefinitionConverter
, SBMLIdConverter
, SBMLInferUnitsConverter
, SBMLInitialAssignmentConverter
, SBMLInternalValidator
, SBMLLevelVersionConverter
, SBMLLocalParameterConverter
, SBMLNamespaces
, SBMLReactionConverter
, SBMLResolver
, SBMLRuleConverter
, SBMLStripPackageConverter
, SBMLUnitsConverter
, SBMLUri
, SBMLValidator
, Species
, SpeciesGlyph
, SpeciesReference
, SpeciesReferenceGlyph
, SpeciesType
, StoichiometryMath
, Submodel
, TextGlyph
, Transition
, Trigger
, Unit
, UnitDefinition
, XMLAttributes
, XMLNamespaces
, XMLNode
, XMLToken
, XMLTriple
- CobraToFbcConverter()
: CobraToFbcConverter
- combine()
: UnitDefinition
- Compartment()
: Compartment
- CompartmentGlyph()
: CompartmentGlyph
- CompartmentType()
: CompartmentType
- CompExtension()
: CompExtension
- CompFlatteningConverter()
: CompFlatteningConverter
- CompModelPlugin()
: CompModelPlugin
- CompSBasePlugin()
: CompSBasePlugin
- CompSBMLDocumentPlugin()
: CompSBMLDocumentPlugin
- CompValidator()
: CompValidator
- Constraint()
: Constraint
- contains()
: SBMLErrorLog
- containsUndeclaredUnits()
: Delay
, EventAssignment
, InitialAssignment
, KineticLaw
, Rule
, StoichiometryMath
- containsUri()
: XMLNamespaces
- ConversionOption()
: ConversionOption
- ConversionProperties()
: ConversionProperties
- convert()
: CobraToFbcConverter
, CompFlatteningConverter
, FbcToCobraConverter
, SBMLConverter
, SBMLDocument
, SBMLFunctionDefinitionConverter
, SBMLIdConverter
, SBMLInferUnitsConverter
, SBMLInitialAssignmentConverter
, SBMLLevelVersionConverter
, SBMLLocalParameterConverter
, SBMLReactionConverter
, SBMLRuleConverter
, SBMLStripPackageConverter
, SBMLUnitsConverter
- convertStringToXMLNode()
: XMLNode
- convertTimeAndExtent()
: Submodel
- convertToSI()
: Unit
, UnitDefinition
- convertXMLNodeToString()
: XMLNode
- countIf()
: List
- createAdditionalGraphicalObject()
: Layout
- createAlgebraicRule()
: Model
- createAnd()
: Association
- createAnnotation()
: RDFAnnotationParser
- createAssignmentRule()
: Model
- createAssociation()
: GeneAssociation
- createCompartment()
: Model
- createCompartmentGlyph()
: Layout
- createCompartmentType()
: Model
- createConstraint()
: Model
- createCubicBezier()
: Curve
, GeneralGlyph
, Layout
, ReactionGlyph
, ReferenceGlyph
, SpeciesReferenceGlyph
- createCVTerms()
: RDFAnnotationParser
- createDefaultTerm()
: ListOfFunctionTerms
, Transition
- createDelay()
: Event
, Model
- createDeletion()
: Submodel
- createEvent()
: Model
- createEventAssignment()
: Event
, Model
- createExternalModelDefinition()
: CompSBMLDocumentPlugin
- createFluxBound()
: FbcModelPlugin
- createFluxObjective()
: Objective
- createFunctionDefinition()
: Model
- createFunctionTerm()
: Transition
- createGene()
: Association
- createGeneAssociation()
: FbcModelPlugin
- createGeneralGlyph()
: Layout
- createInitialAssignment()
: Model
- createInput()
: Transition
- createKineticLaw()
: Model
, Reaction
- createKineticLawLocalParameter()
: Model
- createKineticLawParameter()
: Model
- createLayout()
: LayoutModelPlugin
- createLineSegment()
: Curve
, GeneralGlyph
, Layout
, ReactionGlyph
, ReferenceGlyph
, SpeciesReferenceGlyph
- createLocalParameter()
: KineticLaw
- createModel()
: SBMLDocument
- createModelDefinition()
: CompSBMLDocumentPlugin
- createModifier()
: Model
, Reaction
- createObjective()
: FbcModelPlugin
- createOr()
: Association
- createOutput()
: Transition
- createParameter()
: KineticLaw
, Model
- createPlugin()
: SBasePluginCreator< SBasePluginType, SBMLExtensionType >
, SBasePluginCreatorBase
- createPort()
: CompModelPlugin
- createPriority()
: Event
- createProduct()
: Model
, Reaction
- createQualitativeSpecies()
: QualModelPlugin
- createRateRule()
: Model
- createRDFAnnotation()
: RDFAnnotationParser
- createRDFDescription()
: RDFAnnotationParser
- createReactant()
: Model
, Reaction
- createReaction()
: Model
- createReactionGlyph()
: Layout
- createReferenceGlyph()
: GeneralGlyph
- createReplacedBy()
: CompSBasePlugin
- createReplacedElement()
: CompSBasePlugin
- createSBaseRef()
: SBaseRef
- createSpecies()
: Model
- createSpeciesGlyph()
: Layout
- createSpeciesReferenceGlyph()
: Layout
, ReactionGlyph
- createSpeciesType()
: Model
- createStoichiometryMath()
: SpeciesReference
- createSubmodel()
: CompModelPlugin
- createTextGlyph()
: Layout
- createTransition()
: QualModelPlugin
- createTrigger()
: Event
, Model
- createUnit()
: Model
, UnitDefinition
- createUnitDefinition()
: Model
- CubicBezier()
: CubicBezier
- Curve()
: Curve
- CVTerm()
: CVTerm