Package org.sbml.libsbml

Interface Summary

libsbmlConstants

Constants defined in libSBML.

Class Summary

AlgebraicRule	Implementation of SBML's AlgebraicRule construct.
AssignmentRule	Implementation of SBML's AssignmentRule construct.
ASTNode	Abstract Syntax Tree (AST) representation of a mathematical expression.
ASTNodeList	Class for managing lists of ASTNode objects.
Compartment	Implementation of SBML's Compartment construct.
CompartmentType	Implementation of SBML's Level 2's CompartmentType construct.
Constraint	Implementation of SBML's Constraint construct.
ConversionOption	Class of object that encapsulates a conversion option.
ConversionProperties	Class of object that encapsulates the properties of an SBML converter.
CVTerm	Representation of MIRIAM-compliant controlled vocabulary annotation.
CVTermList	Class for managing lists of CVTerm objects.
Date	Representation of MIRIAM-compliant dates used in ModelHistory.
DateList	Class for managing lists of Date objects.
Delay	Implementation of SBML's Delay construct for Event.
Event	Implementation of SBML's Event construct.
EventAssignment	Implementation of SBML's EventAssignment construct for Event.
FunctionDefinition	Implementation of SBML's FunctionDefinition construct.
InitialAssignment	Implementation of SBML's InitialAssignment construct.
KineticLaw	Implementation of SBML's KineticLaw construct.
L3ParserSettings	A helper class for controlling the behavior of the text-string formula parser.
libsbml	Wrapper class for global methods and constants defined by libSBML.
ListOf	Parent class for the various SBML 'ListOfXYZ' classes.
ListOfCompartments	Implementation of SBML Level 2's ListOfCompartments construct.
ListOfCompartmentTypes	Implementation of SBML's ListOfCompartmentTypes construct.
ListOfConstraints	Implementation of SBML's ListOfConstraints construct.
ListOfEventAssignments	Implementation of SBML's ListOfEventAssignments construct.
ListOfEvents	Implementation of SBML's ListOfEvents construct.
ListOfFunctionDefinitions	Implementation of SBML's ListOfFunctionDefinitions construct.
ListOfInitialAssignments	Implementation of SBML's ListOfInitialAssignments construct.
ListOfLocalParameters	Implementation of SBML Level 3's ListOfLocalParameters construct.
ListOfParameters	Implementation of SBML's ListOfParameters construct.
ListOfReactions	Implementation of SBML's ListOfReactions construct.
ListOfRules	Implementation of SBML's ListOfRules construct.
ListOfSpecies	Implementation of SBML Level 2's ListOfSpecies construct.
ListOfSpeciesReferences	Implementation of SBML's ListOfSpeciesReferences construct.
ListOfSpeciesTypes	Implementation of SBML's ListOfSpeciesTypes construct.
ListOfUnitDefinitions	Implementation of SBML's ListOfUnitDefinitions construct.
ListOfUnits	Implementation of SBML's ListOfUnits construct.
LocalParameter	Implementation of SBML Level 3's LocalParameter construct.
Model	Implementation of SBML's Model construct.
ModelCreator	Representation of MIRIAM-compliant model creator data used in ModelHistory.
ModelCreatorList	Class for managing lists of ModelCreator objects.
ModelHistory	Representation of MIRIAM-compliant model history data.
ModifierSpeciesReference	Implementation of SBML's ModifierSpeciesReference construct.
OFStream	Wrapper class for the C++ standard file stream ofstream.
OStream	Wrapper class for the C++ standard streams cout, cerr, and clog.
OStringStream	Wrapper class for the C++ standard stream ostringstream.
Parameter	Implementation of SBML's Parameter construct.
Priority	Implementation of SBML Level 3's Priority construct for Event.
RateRule	Implementation of SBML's RateRule construct.
RDFAnnotationParser	Read/write/manipulate RDF annotations stored in SBML annotation elements.
Reaction	Implementation of SBML's Reaction construct.
Rule	Implementation of SBML's Rule construct.
SBase	Implementation of SBase, the base class of most SBML objects.
SBaseList	Class for managing lists of SBase objects.
SBasePlugin	Representation of a plug-in object of SBML's package extension.
SBMLConverter	Base class for SBML converters.
SBMLConverterRegistry	Registry of all SBML converters.
SBMLDocument	Container for an SBML document and interface for global operations on SBML documents.
SBMLDocumentPlugin
SBMLError	Representation of errors, warnings and other diagnostics
SBMLErrorLog	Log of errors and other events encountered during SBML processing.
SBMLExtensionException
SBMLExtensionRegistry
SBMLExternalValidator
SBMLFunctionDefinitionConverter	SBML converter for replacing function definitions.
SBMLInitialAssignmentConverter	SBML converter for replacing initial assignments.
SBMLLevelVersionConverter	SBML converter for transforming documents from one Level+Version to another.
SBMLNamespaces	Class to store SBML level, version and namespace information.
SBMLNamespacesList	Class for managing lists of SBMLNamespaces objects.
SBMLReader	Methods for reading SBML from files and text strings.
SBMLRuleConverter	SBML converter for reordering rules and assignments in a model.
SBMLStripPackageConverter	SBML converter for removing packages.
SBMLUnitsConverter	SBML converter to convert a model's units to SI units.
SBMLValidator	Base class for SBML validators
SBMLWriter	Methods for writing SBML to files and text strings.
SBO	Methods for interacting with Systems Biology Ontology terms.
SimpleSpeciesReference	Implementation of SBML's SimpleSpeciesReference construct.
Species	Implementation of SBML's Species construct.
SpeciesReference	Implementation of SBML's SpeciesReference construct.
SpeciesType	Implementation of SBML Level 2's SpeciesType construct.
StoichiometryMath	Implementation of SBML Level 2's StoichiometryMath construct.
SyntaxChecker	Methods for checking syntax of SBML identifiers and other strings.
Trigger	Implementation of SBML's Trigger construct for Event.
Unit	Implementation of SBML's Unit construct.
UnitDefinition	Implementation of SBML's UnitDefinition construct.
XMLAttributes	Representation of attributes on an XML node.
XMLError	Representation of errors, warnings and other diagnostics
XMLErrorLog	Log of errors and other events encountered while processing an XML file or data stream.
XMLNamespaces	Representation of XML Namespaces.
XMLNode	Representation of a node in an XML document tree.
XMLToken	Representation of a token in an XML stream.
XMLTriple	Representation of a qualified XML name.

Exception Summary

SBMLConstructorException	Exceptions class for libSBML object constructors.
XMLConstructorException	Exceptions class for libSBML object constructors.