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A

a21 - Static variable in class org.simulator.math.odes.RosenbrockSolver
Constants for solving
a31 - Static variable in class org.simulator.math.odes.RosenbrockSolver
Constants for solving
a32 - Static variable in class org.simulator.math.odes.RosenbrockSolver
Constants for solving
a41 - Static variable in class org.simulator.math.odes.RosenbrockSolver
Constants for solving
a42 - Static variable in class org.simulator.math.odes.RosenbrockSolver
Constants for solving
a43 - Static variable in class org.simulator.math.odes.RosenbrockSolver
Constants for solving
a51 - Static variable in class org.simulator.math.odes.RosenbrockSolver
Constants for solving
a52 - Static variable in class org.simulator.math.odes.RosenbrockSolver
Constants for solving
a53 - Static variable in class org.simulator.math.odes.RosenbrockSolver
Constants for solving
a54 - Static variable in class org.simulator.math.odes.RosenbrockSolver
Constants for solving
aborted(double) - Method in class org.simulator.sbml.EventInProcess
The event has been aborted between trigger and execution.
aborted(double) - Method in class org.simulator.sbml.EventInProcessWithDelay
 
abs(ASTNodeObject, double) - Method in class org.simulator.sbml.astnode.ASTNodeInterpreterWithTime
 
abs(ASTNode) - Method in class org.simulator.sbml.ASTNodeInterpreter
 
abs(ASTNode) - Method in class org.simulator.sbml.EfficientASTNodeInterpreter
 
AbstractDESSolver - Class in org.simulator.math.odes
This Class represents an Solver for event-driven DES
AbstractDESSolver() - Constructor for class org.simulator.math.odes.AbstractDESSolver
Initialize with default integration step size and non-negative attribute true.
AbstractDESSolver(AbstractDESSolver) - Constructor for class org.simulator.math.odes.AbstractDESSolver
Clone constructor.
AbstractDESSolver(double) - Constructor for class org.simulator.math.odes.AbstractDESSolver
Initialize with given integration step size.
AbstractDESSolver(double, boolean) - Constructor for class org.simulator.math.odes.AbstractDESSolver
 
AdamsBashforthSolver - Class in org.simulator.math.odes
 
AdamsBashforthSolver() - Constructor for class org.simulator.math.odes.AdamsBashforthSolver
 
AdamsBashforthSolver(AdamsBashforthSolver) - Constructor for class org.simulator.math.odes.AdamsBashforthSolver
 
AdamsBashforthSolver(double) - Constructor for class org.simulator.math.odes.AdamsBashforthSolver
 
AdamsBashforthSolver(double, boolean) - Constructor for class org.simulator.math.odes.AdamsBashforthSolver
 
AdamsMoultonSolver - Class in org.simulator.math.odes
 
AdamsMoultonSolver() - Constructor for class org.simulator.math.odes.AdamsMoultonSolver
 
AdamsMoultonSolver(AdamsMoultonSolver) - Constructor for class org.simulator.math.odes.AdamsMoultonSolver
 
AdamsMoultonSolver(double) - Constructor for class org.simulator.math.odes.AdamsMoultonSolver
 
AdamsMoultonSolver(double, boolean) - Constructor for class org.simulator.math.odes.AdamsMoultonSolver
 
addAssignment(int, double) - Method in class org.simulator.sbml.EventInProcess
 
addBlock(String[]) - Method in class org.simulator.math.odes.MultiTable
Creates a new MultiTable.Block and adds it to this object.
additionalResults(DESystem, double, double[], MultiTable, int) - Method in class org.simulator.math.odes.AbstractDESSolver
 
addPropertyChangeListener(PropertyChangeListener) - Method in class org.simulator.math.odes.AbstractDESSolver
 
addPropertyChangeListener(PropertyChangeListener) - Method in interface org.simulator.math.odes.DESSolver
Add PropertyChangedListener to this Solver
addRuleObject(AssignmentRuleObject) - Method in class org.simulator.sbml.EventInProcess
 
addValues(Double[], double) - Method in class org.simulator.sbml.EventInProcess
The event associated with this class has been triggered.
addValues(Double[], double) - Method in class org.simulator.sbml.EventInProcessWithDelay
 
ALF - Static variable in class org.simulator.math.MatrixOperations
Ensures sufficient decrease in function value
AlgebraicRuleConverter - Class in org.simulator.sbml
This class converts the algebraic rules of a model to assignment rules based on the given matching
AlgebraicRuleConverter(Map<SBase, SBase>, Model) - Constructor for class org.simulator.sbml.AlgebraicRuleConverter
Creates a new AlgebraicRuleConverter for the given matching and model
alreadyProcessed - Variable in class org.simulator.sbml.astnode.ASTNodeObject
 
and(List<ASTNodeObject>, int, double) - Method in class org.simulator.sbml.astnode.ASTNodeInterpreterWithTime
 
and(List<ASTNode>) - Method in class org.simulator.sbml.ASTNodeInterpreter
 
and(List<ASTNode>) - Method in class org.simulator.sbml.EfficientASTNodeInterpreter
 
arccos(ASTNodeObject, double) - Method in class org.simulator.sbml.astnode.ASTNodeInterpreterWithTime
 
arccos(ASTNode) - Method in class org.simulator.sbml.ASTNodeInterpreter
 
arccos(ASTNode) - Method in class org.simulator.sbml.EfficientASTNodeInterpreter
 
arccosh(ASTNodeObject, double) - Method in class org.simulator.sbml.astnode.ASTNodeInterpreterWithTime
 
arccosh(ASTNode) - Method in class org.simulator.sbml.ASTNodeInterpreter
 
arccosh(ASTNode) - Method in class org.simulator.sbml.EfficientASTNodeInterpreter
 
arccot(ASTNodeObject, double) - Method in class org.simulator.sbml.astnode.ASTNodeInterpreterWithTime
 
arccot(ASTNode) - Method in class org.simulator.sbml.ASTNodeInterpreter
 
arccot(ASTNode) - Method in class org.simulator.sbml.EfficientASTNodeInterpreter
 
arccoth(ASTNodeObject, double) - Method in class org.simulator.sbml.astnode.ASTNodeInterpreterWithTime
 
arccoth(ASTNode) - Method in class org.simulator.sbml.ASTNodeInterpreter
 
arccoth(ASTNode) - Method in class org.simulator.sbml.EfficientASTNodeInterpreter
 
arccsc(ASTNodeObject, double) - Method in class org.simulator.sbml.astnode.ASTNodeInterpreterWithTime
 
arccsc(ASTNode) - Method in class org.simulator.sbml.ASTNodeInterpreter
 
arccsc(ASTNode) - Method in class org.simulator.sbml.EfficientASTNodeInterpreter
 
arccsch(ASTNodeObject, double) - Method in class org.simulator.sbml.astnode.ASTNodeInterpreterWithTime
 
arccsch(ASTNode) - Method in class org.simulator.sbml.ASTNodeInterpreter
 
arccsch(ASTNode) - Method in class org.simulator.sbml.EfficientASTNodeInterpreter
 
arcsec(ASTNodeObject, double) - Method in class org.simulator.sbml.astnode.ASTNodeInterpreterWithTime
 
arcsec(ASTNode) - Method in class org.simulator.sbml.ASTNodeInterpreter
 
arcsec(ASTNode) - Method in class org.simulator.sbml.EfficientASTNodeInterpreter
 
arcsech(ASTNodeObject, double) - Method in class org.simulator.sbml.astnode.ASTNodeInterpreterWithTime
 
arcsech(ASTNode) - Method in class org.simulator.sbml.ASTNodeInterpreter
 
arcsech(ASTNode) - Method in class org.simulator.sbml.EfficientASTNodeInterpreter
 
arcsin(ASTNodeObject, double) - Method in class org.simulator.sbml.astnode.ASTNodeInterpreterWithTime
 
arcsin(ASTNode) - Method in class org.simulator.sbml.ASTNodeInterpreter
 
arcsin(ASTNode) - Method in class org.simulator.sbml.EfficientASTNodeInterpreter
 
arcsinh(ASTNodeObject, double) - Method in class org.simulator.sbml.astnode.ASTNodeInterpreterWithTime
 
arcsinh(ASTNode) - Method in class org.simulator.sbml.ASTNodeInterpreter
 
arcsinh(ASTNode) - Method in class org.simulator.sbml.EfficientASTNodeInterpreter
 
arctan(ASTNodeObject, double) - Method in class org.simulator.sbml.astnode.ASTNodeInterpreterWithTime
 
arctan(ASTNode) - Method in class org.simulator.sbml.ASTNodeInterpreter
 
arctan(ASTNode) - Method in class org.simulator.sbml.EfficientASTNodeInterpreter
 
arctanh(ASTNodeObject, double) - Method in class org.simulator.sbml.astnode.ASTNodeInterpreterWithTime
 
arctanh(ASTNode) - Method in class org.simulator.sbml.ASTNodeInterpreter
 
arctanh(ASTNode) - Method in class org.simulator.sbml.EfficientASTNodeInterpreter
 
argumentValues - Variable in class org.simulator.sbml.astnode.FunctionValue
 
AssignmentRuleObject - Class in org.simulator.sbml.astnode
 
AssignmentRuleObject(ASTNodeObject, int) - Constructor for class org.simulator.sbml.astnode.AssignmentRuleObject
 
AssignmentRuleObject(ASTNodeObject, String, Map<String, Double>) - Constructor for class org.simulator.sbml.astnode.AssignmentRuleObject
 
AssignmentRuleObject(ASTNodeObject, int, Species, int, boolean, ValueHolder) - Constructor for class org.simulator.sbml.astnode.AssignmentRuleObject
 
assignments - Variable in class org.simulator.sbml.EventInProcess
 
ASTNodeInterpreter - Class in org.simulator.sbml
 
ASTNodeInterpreter(ValueHolder) - Constructor for class org.simulator.sbml.ASTNodeInterpreter
 
ASTNodeInterpreterWithTime - Class in org.simulator.sbml.astnode
 
ASTNodeInterpreterWithTime(ValueHolder) - Constructor for class org.simulator.sbml.astnode.ASTNodeInterpreterWithTime
 
ASTNodeObject - Class in org.simulator.sbml.astnode
 
ASTNodeObject(ASTNodeInterpreterWithTime, ASTNode) - Constructor for class org.simulator.sbml.astnode.ASTNodeObject
 

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