libSBML Perl API
libSBML 5.17.2 Perl API
- c -
canonicalize() :
ASTNode
changeErrorSeverity() :
XMLErrorLog
checkCompatibility() :
CobraToFbcConverter
checkConsistency() :
SBMLDocument
,
SBMLInternalValidator
checkConsistencyWithStrictUnits() :
SBMLDocument
checkInternalConsistency() :
SBMLDocument
,
SBMLInternalValidator
checkL1Compatibility() :
SBMLDocument
,
SBMLInternalValidator
checkL2v1Compatibility() :
SBMLDocument
,
SBMLInternalValidator
checkL2v2Compatibility() :
SBMLDocument
,
SBMLInternalValidator
checkL2v3Compatibility() :
SBMLDocument
,
SBMLInternalValidator
checkL2v4Compatibility() :
SBMLDocument
,
SBMLInternalValidator
checkL2v5Compatibility() :
SBMLDocument
,
SBMLInternalValidator
checkL3v1Compatibility() :
SBMLDocument
,
SBMLInternalValidator
checkL3v2Compatibility() :
SBMLDocument
,
SBMLInternalValidator
checkTerm() :
SBO
clear() :
ListOf
,
XMLAttributes
,
XMLNamespaces
clearAdditionalDirs() :
SBMLFileResolver
clearAllElementIdList() :
Model
clearAllElementMetaIdList() :
Model
clearAssociations() :
Association
clearAttributes() :
XMLToken
clearDashes() :
GraphicalPrimitive1D
clearFailures() :
SBMLValidator
,
Validator
clearInstantiation() :
Submodel
clearLog() :
XMLErrorLog
clearNamespaces() :
XMLToken
clearReferencedElement() :
SBaseRef
clearReplacedElements() :
CompSBasePlugin
clone() :
AlgebraicRule
,
AssignmentRule
,
Association
,
BindingSiteSpeciesType
,
BoundingBox
,
CobraToFbcConverter
,
ColorDefinition
,
Compartment
,
CompartmentGlyph
,
CompartmentReference
,
CompartmentType
,
CompExtension
,
CompFlatteningConverter
,
CompModelPlugin
,
CompSBasePlugin
,
CompSBMLDocumentPlugin
,
Constraint
,
ConversionOption
,
ConversionProperties
,
CubicBezier
,
Curve
,
CVTerm
,
Date
,
DefaultTerm
,
DefaultValues
,
Delay
,
Deletion
,
Dimensions
,
Ellipse
,
Event
,
EventAssignment
,
ExternalModelDefinition
,
FbcAnd
,
FbcAssociation
,
FbcExtension
,
FbcModelPlugin
,
FbcOr
,
FbcReactionPlugin
,
FbcSBMLDocumentPlugin
,
FbcSpeciesPlugin
,
FbcToCobraConverter
,
FbcV1ToV2Converter
,
FbcV2ToV1Converter
,
FluxBound
,
FluxObjective
,
FunctionDefinition
,
FunctionTerm
,
GeneAssociation
,
GeneProduct
,
GeneProductAssociation
,
GeneProductRef
,
GeneralGlyph
,
GlobalRenderInformation
,
GlobalStyle
,
GradientBase
,
GradientStop
,
GraphicalObject
,
GraphicalPrimitive1D
,
GraphicalPrimitive2D
,
Group
,
GroupsExtension
,
GroupsModelPlugin
,
GroupsSBMLDocumentPlugin
,
Image
,
InitialAssignment
,
Input
,
InSpeciesTypeBond
,
IntraSpeciesReaction
,
KineticLaw
,
Layout
,
LayoutExtension
,
LayoutModelPlugin
,
LayoutSBMLDocumentPlugin
,
LayoutSpeciesReferencePlugin
,
LinearGradient
,
LineEnding
,
LineSegment
,
ListOf
,
ListOfColorDefinitions
,
ListOfCompartmentGlyphs
,
ListOfCompartmentReferences
,
ListOfCompartments
,
ListOfCompartmentTypes
,
ListOfConstraints
,
ListOfCurveElements
,
ListOfDeletions
,
ListOfDrawables
,
ListOfEventAssignments
,
ListOfEvents
,
ListOfExternalModelDefinitions
,
ListOfFbcAssociations
,
ListOfFluxBounds
,
ListOfFluxObjectives
,
ListOfFunctionDefinitions
,
ListOfFunctionTerms
,
ListOfGeneAssociations
,
ListOfGeneProducts
,
ListOfGlobalRenderInformation
,
ListOfGlobalStyles
,
ListOfGradientDefinitions
,
ListOfGradientStops
,
ListOfGraphicalObjects
,
ListOfGroups
,
ListOfInitialAssignments
,
ListOfInputs
,
ListOfInSpeciesTypeBonds
,
ListOfLayouts
,
ListOfLineEndings
,
ListOfLineSegments
,
ListOfLocalParameters
,
ListOfLocalRenderInformation
,
ListOfLocalStyles
,
ListOfMembers
,
ListOfModelDefinitions
,
ListOfMultiSpeciesTypes
,
ListOfObjectives
,
ListOfOutputs
,
ListOfOutwardBindingSites
,
ListOfParameters
,
ListOfPorts
,
ListOfPossibleSpeciesFeatureValues
,
ListOfQualitativeSpecies
,
ListOfReactionGlyphs
,
ListOfReactions
,
ListOfReferenceGlyphs
,
ListOfReplacedElements
,
ListOfRules
,
ListOfSpecies
,
ListOfSpeciesFeatures
,
ListOfSpeciesFeatureTypes
,
ListOfSpeciesFeatureValues
,
ListOfSpeciesGlyphs
,
ListOfSpeciesReferenceGlyphs
,
ListOfSpeciesReferences
,
ListOfSpeciesTypeComponentIndexes
,
ListOfSpeciesTypeComponentMapInProducts
,
ListOfSpeciesTypeInstances
,
ListOfSpeciesTypes
,
ListOfSubmodels
,
ListOfTextGlyphs
,
ListOfTransitions
,
ListOfUnitDefinitions
,
ListOfUnits
,
LocalParameter
,
LocalRenderInformation
,
LocalStyle
,
Member
,
Model
,
ModelCreator
,
ModelDefinition
,
ModelHistory
,
ModifierSpeciesReference
,
MultiASTPlugin
,
MultiCompartmentPlugin
,
MultiExtension
,
MultiListOfReactionsPlugin
,
MultiModelPlugin
,
MultiSBMLDocumentPlugin
,
MultiSimpleSpeciesReferencePlugin
,
MultiSpeciesPlugin
,
MultiSpeciesReferencePlugin
,
MultiSpeciesType
,
Objective
,
Output
,
OutwardBindingSite
,
Parameter
,
Point
,
Polygon
,
Port
,
PossibleSpeciesFeatureValue
,
Priority
,
QualExtension
,
QualitativeSpecies
,
QualModelPlugin
,
QualSBMLDocumentPlugin
,
RadialGradient
,
RateRule
,
Reaction
,
ReactionGlyph
,
Rectangle
,
ReferenceGlyph
,
RelAbsVector
,
RenderCubicBezier
,
RenderCurve
,
RenderExtension
,
RenderGraphicalObjectPlugin
,
RenderGroup
,
RenderInformationBase
,
RenderLayoutConverter
,
RenderLayoutPlugin
,
RenderListOfLayoutsPlugin
,
RenderPoint
,
RenderSBMLDocumentPlugin
,
ReplacedBy
,
ReplacedElement
,
Rule
,
SBase
,
SBaseExtensionPoint
,
SBasePlugin
,
SBasePluginCreator< SBasePluginType, SBMLExtensionType >
,
SBasePluginCreatorBase
,
SBaseRef
,
SBMLConverter
,
SBMLDocument
,
SBMLDocumentPlugin
,
SBMLExtension
,
SBMLExtensionNamespaces< SBMLExtensionType >
,
SBMLFileResolver
,
SBMLFunctionDefinitionConverter
,
SBMLIdConverter
,
SBMLInferUnitsConverter
,
SBMLInitialAssignmentConverter
,
SBMLInternalValidator
,
SBMLLevel1Version1Converter
,
SBMLLevelVersionConverter
,
SBMLLocalParameterConverter
,
SBMLNamespaces
,
SBMLRateOfConverter
,
SBMLReactionConverter
,
SBMLResolver
,
SBMLRuleConverter
,
SBMLStripPackageConverter
,
SBMLUnitsConverter
,
SBMLUri
,
SBMLValidator
,
Species
,
SpeciesFeature
,
SpeciesFeatureType
,
SpeciesFeatureValue
,
SpeciesGlyph
,
SpeciesReference
,
SpeciesReferenceGlyph
,
SpeciesType
,
SpeciesTypeComponentIndex
,
SpeciesTypeComponentMapInProduct
,
SpeciesTypeInstance
,
StoichiometryMath
,
Style
,
SubListOfSpeciesFeatures
,
Submodel
,
Text
,
TextGlyph
,
Transformation2D
,
Transformation
,
Transition
,
Trigger
,
Unit
,
UnitDefinition
,
XMLAttributes
,
XMLNamespaces
,
XMLNode
,
XMLToken
,
XMLTriple
CobraToFbcConverter() :
CobraToFbcConverter
ColorDefinition() :
ColorDefinition
combine() :
UnitDefinition
Compartment() :
Compartment
CompartmentGlyph() :
CompartmentGlyph
CompartmentReference() :
CompartmentReference
CompartmentType() :
CompartmentType
CompBase() :
CompBase
CompExtension() :
CompExtension
CompFlatteningConverter() :
CompFlatteningConverter
CompModelPlugin() :
CompModelPlugin
CompSBasePlugin() :
CompSBasePlugin
CompSBMLDocumentPlugin() :
CompSBMLDocumentPlugin
CompValidator() :
CompValidator
Constraint() :
Constraint
contains() :
SBMLErrorLog
,
XMLErrorLog
containsChild() :
XMLInputStream
containsUndeclaredUnits() :
Delay
,
EventAssignment
,
InitialAssignment
,
KineticLaw
,
Rule
,
StoichiometryMath
containsUri() :
XMLNamespaces
ConversionOption() :
ConversionOption
ConversionProperties() :
ConversionProperties
convert() :
CobraToFbcConverter
,
CompFlatteningConverter
,
FbcToCobraConverter
,
FbcV1ToV2Converter
,
FbcV2ToV1Converter
,
RenderLayoutConverter
,
SBMLConverter
,
SBMLDocument
,
SBMLFunctionDefinitionConverter
,
SBMLIdConverter
,
SBMLInferUnitsConverter
,
SBMLInitialAssignmentConverter
,
SBMLLevel1Version1Converter
,
SBMLLevelVersionConverter
,
SBMLLocalParameterConverter
,
SBMLRateOfConverter
,
SBMLReactionConverter
,
SBMLRuleConverter
,
SBMLStripPackageConverter
,
SBMLUnitsConverter
convertStringToXMLNode() :
XMLNode
convertTimeAndExtent() :
Submodel
convertToSI() :
Unit
,
UnitDefinition
convertXMLNodeToString() :
XMLNode
copyInformationToNestedLists() :
GroupsModelPlugin
countIf() :
List
createAdditionalGraphicalObject() :
Layout
createAlgebraicRule() :
Model
createAnd() :
Association
,
FbcAnd
,
FbcOr
,
GeneProductAssociation
,
ListOfFbcAssociations
createAnnotation() :
RDFAnnotationParser
createAssignmentRule() :
Model
createAssociation() :
GeneAssociation
createBindingSiteSpeciesType() :
MultiModelPlugin
createBoundingBox() :
LineEnding
createColorDefinition() :
ListOfColorDefinitions
,
RenderInformationBase
createCompartment() :
Model
createCompartmentGlyph() :
Layout
createCompartmentReference() :
MultiCompartmentPlugin
createCompartmentType() :
Model
createConstraint() :
Model
createCubicBezier() :
Curve
,
GeneralGlyph
,
Layout
,
ListOfCurveElements
,
Polygon
,
ReactionGlyph
,
ReferenceGlyph
,
RenderCurve
,
SpeciesReferenceGlyph
createCurve() :
ListOfDrawables
,
RenderGroup
createCVTerms() :
RDFAnnotationParser
createDefaultTerm() :
ListOfFunctionTerms
,
Transition
createDefaultValues() :
ListOfGlobalRenderInformation
,
ListOfLocalRenderInformation
createDelay() :
Event
,
Model
createDeletion() :
Submodel
createEllipse() :
ListOfDrawables
,
RenderGroup
createEvent() :
Model
createEventAssignment() :
Event
,
Model
createExternalModelDefinition() :
CompSBMLDocumentPlugin
createFluxBound() :
FbcModelPlugin
createFluxObjective() :
ListOfFluxObjectives
,
Objective
createFunctionDefinition() :
Model
createFunctionTerm() :
Transition
createGene() :
Association
createGeneAssociation() :
FbcModelPlugin
createGeneProduct() :
FbcModelPlugin
,
ListOfGeneProducts
createGeneProductAssociation() :
FbcReactionPlugin
createGeneProductRef() :
FbcAnd
,
FbcOr
,
GeneProductAssociation
,
ListOfFbcAssociations
createGeneralGlyph() :
Layout
createGlobalRenderInformation() :
ListOfGlobalRenderInformation
,
RenderListOfLayoutsPlugin
createGlobalStyle() :
GlobalRenderInformation
,
ListOfGlobalStyles
createGradientStop() :
GradientBase
,
ListOfGradientStops
createGroup() :
GroupsModelPlugin
,
LineEnding
,
ListOfDrawables
,
ListOfGroups
,
RenderGroup
,
Style
createIdString() :
LocalStyle
createImage() :
ListOfDrawables
,
RenderGroup
createInitialAssignment() :
Model
createInput() :
Transition
createInSpeciesTypeBond() :
MultiSpeciesType
createIntraSpeciesReaction() :
MultiModelPlugin
createKineticLaw() :
Model
,
Reaction
createKineticLawLocalParameter() :
Model
createKineticLawParameter() :
Model
createLayout() :
LayoutModelPlugin
createLinearGradient() :
ListOfGradientDefinitions
createLinearGradientDefinition() :
RenderInformationBase
createLineEnding() :
ListOfDrawables
,
ListOfLineEndings
,
RenderGroup
,
RenderInformationBase
createLineSegment() :
Curve
,
GeneralGlyph
,
Layout
,
ReactionGlyph
,
ReferenceGlyph
,
SpeciesReferenceGlyph
createLocalParameter() :
KineticLaw
createLocalRenderInformation() :
ListOfLocalRenderInformation
,
RenderLayoutPlugin
createLocalStyle() :
ListOfLocalStyles
,
LocalRenderInformation
createMember() :
Group
,
ListOfMembers
createModel() :
SBMLDocument
createModelDefinition() :
CompSBMLDocumentPlugin
createModifier() :
Model
,
Reaction
createMultiSpeciesType() :
MultiModelPlugin
createObject() :
Transition
createObjective() :
FbcModelPlugin
,
ListOfObjectives
createOr() :
Association
,
FbcAnd
,
FbcOr
,
GeneProductAssociation
,
ListOfFbcAssociations
createOutput() :
Transition
createOutwardBindingSite() :
MultiSpeciesPlugin
createParameter() :
KineticLaw
,
Model
createPlugin() :
SBasePluginCreator< SBasePluginType, SBMLExtensionType >
,
SBasePluginCreatorBase
createPoint() :
Polygon
,
RenderCurve
createPolygon() :
ListOfDrawables
,
RenderGroup
createPort() :
CompModelPlugin
createPossibleSpeciesFeatureValue() :
SpeciesFeatureType
createPriority() :
Event
createProduct() :
Model
,
Reaction
createQualitativeSpecies() :
QualModelPlugin
createRadialGradient() :
ListOfGradientDefinitions
createRadialGradientDefinition() :
RenderInformationBase
createRateRule() :
Model
createRDFAnnotation() :
RDFAnnotationParser
createRDFDescription() :
RDFAnnotationParser
createReactant() :
Model
,
Reaction
createReaction() :
Model
createReactionGlyph() :
Layout
createRectangle() :
ListOfDrawables
,
RenderGroup
createReferenceGlyph() :
GeneralGlyph
createReplacedBy() :
CompSBasePlugin
createReplacedElement() :
CompSBasePlugin
createRoleString() :
Style
createSBaseRef() :
SBaseRef
createSpecies() :
Model
createSpeciesFeature() :
MultiSpeciesPlugin
,
SubListOfSpeciesFeatures
createSpeciesFeatureType() :
MultiSpeciesType
createSpeciesFeatureValue() :
SpeciesFeature
createSpeciesGlyph() :
Layout
createSpeciesReferenceGlyph() :
Layout
,
ReactionGlyph
createSpeciesType() :
Model
createSpeciesTypeComponentIndex() :
MultiSpeciesType
createSpeciesTypeComponentMapInProduct() :
MultiSpeciesReferencePlugin
createSpeciesTypeInstance() :
MultiSpeciesType
createStoichiometryMath() :
SpeciesReference
createStyle() :
GlobalRenderInformation
createSubListOfSpeciesFeatures() :
MultiSpeciesPlugin
createSubmodel() :
CompModelPlugin
createText() :
ListOfDrawables
,
RenderGroup
createTextGlyph() :
Layout
createTransition() :
QualModelPlugin
createTrigger() :
Event
,
Model
createTypeString() :
Style
createUnit() :
Model
,
UnitDefinition
createUnitDefinition() :
Model
createValueString() :
ColorDefinition
CubicBezier() :
CubicBezier
Curve() :
Curve
CVTerm() :
CVTerm
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