All Differences

Removals

Additions

Changes

Bold is New, strike is deleted

A  C D E F G H I J L M O P Q R S T U TOP
AbstractASTNodePlugin
AbstractMathContainer (String, int, int) constructor
AbstractSBase
  AbstractSBase (String) constructor
  AbstractSBase (String, int, int) constructor
  AbstractSBase (String, String, int, int) constructor
add
  type  (SBMLError) in org.sbml.jsbml.SBMLErrorLog
  type  (Option) in org.sbml.jsbml.SBMLErrorLog
addExtension (String, ASTNodePlugin)
addPlugin (String, ASTNodePlugin)
addResource (int, String)
addSemanticsAnnotation (XMLNode)
ASTNodePlugin

C  A D E F G H I J L M O P Q R S T U TOP
checkAttribute (String)
checkConsistencyOffline ()
CHILD_ELEMENT_NAMES
compileSemanticAnnotations (ASTNode)
createInvalidUnit ()
createPlugin (String)
createPluginFor (ASTNode)

D  A C E F G H I J L M O P Q R S T U TOP
disablePackage (String)

E  A C D F G H I J L M O P Q R S T U TOP
enablePackage
  type  (String) in org.sbml.jsbml.ASTNode
  type  (String, boolean) in org.sbml.jsbml.ASTNode
EXPONENTIALE

F  A C D E G H I J L M O P Q R S T U TOP
findUniqueSBase (String)

G  A C D E F H I J L M O P Q R S T U TOP
getAllostericActivator ()
getAllostericInhibitor ()
getAssignmentRuleByVariable (String)
getBiochemicalReaction ()
getCompetitiveInhibitor ()
getComplexAssembly ()
getConversion ()
getDegradation ()
getDNA ()
getDNASegment ()
getElementByMetaId
  type  (String) in org.sbml.jsbml.AbstractSBase
  type  (String) in org.sbml.jsbml.SBase
getElementBySId
  type  (String) in org.sbml.jsbml.AbstractSBase
  type  (String) in org.sbml.jsbml.Model
  type  (String) in org.sbml.jsbml.SBase
getEnthalpyChange ()
getEntropyChange ()
getEquilibriumConstant ()
getExtension (String)
getExtensionCount ()
getExtensionPackages ()
getGeneticInteraction ()
getGibbsFreeEnergyChange ()
getId
  type  () in org.sbml.jsbml.AbstractSBase
  type  () in org.sbml.jsbml.SBase
getInitialAssignmentById (String)
getInitialAssignmentBySymbol (String)
getIonicStrength ()
getIrreversibleInhibitor ()
getListOfSemanticsAnnotations ()
getModifierUnknownActivity ()
getMolecularInteraction ()
getName
  type  () in org.sbml.jsbml.AbstractSBase
  type  () in org.sbml.jsbml.SBase
getNonAllostericActivator ()
getNonCompetitiveInhibitor ()
getNumberOfNonEmptyChildElement (XMLNode)
getNumPlugins ()
getNumSemanticsAnnotations ()
getOtherListName ()
getpH ()
getPlugin (String)
getPMg ()
getPotentiator ()
getRateOf
  type  (String) in org.sbml.jsbml.util.compilers.ASTNodeCompiler
  type  (String) in org.sbml.jsbml.util.compilers.FindUnitsCompiler
  type  (String) in org.sbml.jsbml.util.compilers.FormulaCompiler
  type  (String) in org.sbml.jsbml.util.compilers.LaTeXCompiler
  type  (String) in org.sbml.jsbml.util.compilers.MathMLCompiler
  type  (String) in org.sbml.jsbml.util.compilers.UnitsCompiler
getRateRuleByVariable (String)
getResource (int)
getRNASegment ()
getRuleById (String)
getRuleByVariable (String)
getSBaseById (String)
getSemanticsAnnotation (int)
getSmallMolecule ()
getTemplateReaction ()
getTemplateReactionRegulation ()
getThermodynamicTemperature ()
getTransportWithBiochemicalReaction ()
getUncompetitiveInhibitor ()
getUnitDefinitionById (String)
getUnknownQualifierName ()

H  A C D E F G I J L M O P Q R S T U TOP
hasTerm
  type  (int) in org.sbml.jsbml.SBO
  type  (String) in org.sbml.jsbml.SBO

I  A C D E F G H J L M O P Q R S T U TOP
IdFilter
implies
  type  (List<ASTNode>) in org.sbml.jsbml.util.compilers.ASTNodeCompiler
  type  (List<ASTNode>) in org.sbml.jsbml.util.compilers.FindUnitsCompiler
  type  (List<ASTNode>) in org.sbml.jsbml.util.compilers.FormulaCompiler
  type  (List<ASTNode>) in org.sbml.jsbml.util.compilers.LaTeXCompiler
  type  (List<ASTNode>) in org.sbml.jsbml.util.compilers.MathMLCompiler
  type  (List<ASTNode>) in org.sbml.jsbml.util.compilers.UnitsCompiler
 in  org.sbml.jsbml.util.compilers.LaTeXCompiler
initDefaults
  type  (int, int, boolean) in org.sbml.jsbml.Compartment
  type  (int, int, boolean) in org.sbml.jsbml.Parameter
  type  (int, int, boolean) in org.sbml.jsbml.Reaction
  type  (int, int, boolean) in org.sbml.jsbml.Species
  type  (int, int, boolean) in org.sbml.jsbml.SpeciesReference
INVERSE_TRIGONOMETRIC_PREFIX
isExtendedByOtherPackages ()
isIdMandatory
  type  () in org.sbml.jsbml.AbstractSBase
  type  () in org.sbml.jsbml.SBase
isListOfCompartmentsEmpty ()
isListOfCompartmentTypesEmpty ()
isListOfConstraintsEmpty ()
isListOfEventAssignmentEmpty ()
isListOfEventsEmpty ()
isListOfFunctionDefinitionsEmpty ()
isListOfInitialAssignmentsEmpty ()
isListOfLocalParametersEmpty ()
isListOfModifiersEmpty ()
isListOfParametersEmpty ()
isListOfProductsEmpty ()
isListOfReactantsEmpty ()
isListOfReactionsEmpty ()
isListOfRulesEmpty ()
isListOfSpeciesEmpty ()
isListOfSpeciesTypesEmpty ()
isListOfUnitDefinitionEmpty ()
isListOfUnitsEmpty ()
isLiteral ()
isPackageEnabled (String)
isPackageURIEnabled (String)
isReadingInProgress ()
isSemantics ()
isSetId
  type  () in org.sbml.jsbml.AbstractSBase
  type  () in org.sbml.jsbml.SBase
isSetName
  type  () in org.sbml.jsbml.AbstractSBase
  type  () in org.sbml.jsbml.SBase
isSetPlugin (String)
isVariantOfDimensionless ()

J  A C D E F G H I L M O P Q R S T U TOP
JSBML_MATH_COUNT
JSBML_WRONG_SBO_TERM

L  A C D E F G H I J M O P Q R S T U TOP
ListOf
  ListOf (String) constructor
  ListOf (String, int, int) constructor
  ListOf (String, String, int, int) constructor
logicalOperationFunction (String, List<ASTNode>)

M  A C D E F G H I J L O P Q R S T U TOP
max
  type  (List<ASTNode>) in org.sbml.jsbml.util.compilers.ASTNodeCompiler
  type  (List<ASTNode>) in org.sbml.jsbml.util.compilers.FindUnitsCompiler
  type  (List<ASTNode>) in org.sbml.jsbml.util.compilers.FormulaCompiler
  type  (List<ASTNode>) in org.sbml.jsbml.util.compilers.LaTeXCompiler
  type  (List<ASTNode>) in org.sbml.jsbml.util.compilers.MathMLCompiler
  type  (List<ASTNode>) in org.sbml.jsbml.util.compilers.UnitsCompiler
MetaIdFilter
min
  type  (List<ASTNode>) in org.sbml.jsbml.util.compilers.ASTNodeCompiler
  type  (List<ASTNode>) in org.sbml.jsbml.util.compilers.FindUnitsCompiler
  type  (List<ASTNode>) in org.sbml.jsbml.util.compilers.FormulaCompiler
  type  (List<ASTNode>) in org.sbml.jsbml.util.compilers.LaTeXCompiler
  type  (List<ASTNode>) in org.sbml.jsbml.util.compilers.MathMLCompiler
  type  (List<ASTNode>) in org.sbml.jsbml.util.compilers.UnitsCompiler
org.sbml.jsbml.validator.offline
org.sbml.jsbml.validator.offline.constraints
org.sbml.jsbml.validator.offline.constraints.helper
org.sbml.jsbml.validator.offline.factory
otherListName

P  A C D E F G H I J L M O Q R S T U TOP
parseMathML (String)
PIECEWISE_ID
printASTNode ()
printCreator ()
printCVTerm ()
printSpeciesReference
  type  () in org.sbml.jsbml.SimpleSpeciesReference
  type  () in org.sbml.jsbml.SpeciesReference
printUnit ()
processUnknownElement (String, String, String, Object)

Q  A C D E F G H I J L M O P R S T U TOP
quotient
  type  (List<ASTNode>) in org.sbml.jsbml.util.compilers.ASTNodeCompiler
  type  (List<ASTNode>) in org.sbml.jsbml.util.compilers.FindUnitsCompiler
  type  (List<ASTNode>) in org.sbml.jsbml.util.compilers.FormulaCompiler
  type  (List<ASTNode>) in org.sbml.jsbml.util.compilers.LaTeXCompiler
  type  (List<ASTNode>) in org.sbml.jsbml.util.compilers.MathMLCompiler
  type  (List<ASTNode>) in org.sbml.jsbml.util.compilers.UnitsCompiler

R  A C D E F G H I J L M O P Q S T U TOP
READING_IN_PROGRESS
rem
  type  (List<ASTNode>) in org.sbml.jsbml.util.compilers.ASTNodeCompiler
  type  (List<ASTNode>) in org.sbml.jsbml.util.compilers.FindUnitsCompiler
  type  (List<ASTNode>) in org.sbml.jsbml.util.compilers.FormulaCompiler
  type  (List<ASTNode>) in org.sbml.jsbml.util.compilers.LaTeXCompiler
  type  (List<ASTNode>) in org.sbml.jsbml.util.compilers.MathMLCompiler
  type  (List<ASTNode>) in org.sbml.jsbml.util.compilers.UnitsCompiler
removeResourceURI (int)

S  A C D E F G H I J L M O P Q R T U TOP
setId
  type  (String) in org.sbml.jsbml.AbstractSBase
  type  (String) in org.sbml.jsbml.SBase
setName
  type  (String) in org.sbml.jsbml.AbstractSBase
  type  (String) in org.sbml.jsbml.SBase
setOtherListName (String)
setUnknownQualifierName (String)
SIdFilter
storeElementsOrder (String, Object)

T  A C D E F G H I J L M O P Q R S U TOP
toFormula ()

U  A C D E F G H I J L M O P Q R S T TOP
UniqueSId
UNKNOWN_XML
unsetExtension (String)
unsetId
  type  () in org.sbml.jsbml.AbstractSBase
  type  () in org.sbml.jsbml.SBase
unsetName
  type  () in org.sbml.jsbml.AbstractSBase
  type  () in org.sbml.jsbml.SBase
unsetPlugin (String)
URI_RATE_OF_DEFINITION