odeModel Struct Reference

The internal ODE Model as constructed in odeModel.c from an SBML input file, that only contains rate rules (constructed from reaction network in odeConstruct.c). More...

#include <odeModel.h>

Data Fields
SBMLDocument_t *	d
	not-NULL only if the odeModel was directly created from file
Model_t *	m
	the input SBML reaction network
Model_t *	simple
	the derived SBML with rate rules
char **	names
	All names, i.e.
int	neq
	number of ODEs
int	nalg
	number of algebraic rules
int	nass
	number of assigned variables (nass)
int	nconst
	number of constant parameters
ASTNode_t **	assignment
	Assigned variables: stores species, compartments and parameters, that are set by an assignment rule.
ASTNode_t **	algebraic
	Algebraic Rules (constraints) as used for DAE systems.
ASTNode_t **	ode
	The Ordinary Differential Equation System (ODE)s: f(x,p,t) = dx/dt.
ASTNode_t ***	jacob
	The jacobian matrix df(x)/dx of the ODE system neq x neq.
int	jacobian
	was the jacobian matrix constructed ?
int	nsens
	number of parameters for sens.
int *	index_sens
	indexes of parameters in char **names, char *value
ASTNode_t ***	jacob_sens
	sensitivity matrix: df(x)/dp
int	sensitivity
	was the sensitivity matrix constructed ?

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Detailed Description

The internal ODE Model as constructed in odeModel.c from an SBML input file, that only contains rate rules (constructed from reaction network in odeConstruct.c).

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Field Documentation

SBMLDocument_t* odeModel::d

not-NULL only if the odeModel was directly created from file

Model_t* odeModel::m

the input SBML reaction network

Model_t* odeModel::simple

the derived SBML with rate rules

char** odeModel::names

All names, i.e. ODE variables, assigned parameters, and constant parameters

int odeModel::neq

number of ODEs

int odeModel::nalg

number of algebraic rules

int odeModel::nass

number of assigned variables (nass)

int odeModel::nconst

number of constant parameters

ASTNode_t** odeModel::assignment

Assigned variables: stores species, compartments and parameters, that are set by an assignment rule.

ASTNode_t** odeModel::algebraic

Algebraic Rules (constraints) as used for DAE systems.

ASTNode_t** odeModel::ode

The Ordinary Differential Equation System (ODE)s: f(x,p,t) = dx/dt.

ASTNode_t*** odeModel::jacob

The jacobian matrix df(x)/dx of the ODE system neq x neq.

int odeModel::jacobian

was the jacobian matrix constructed ?

int odeModel::nsens

number of parameters for sens. analysis

int* odeModel::index_sens

indexes of parameters in char **names, char *value

ASTNode_t*** odeModel::jacob_sens

sensitivity matrix: df(x)/dp

int odeModel::sensitivity

was the sensitivity matrix constructed ?

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The documentation for this struct was generated from the following file:

• src/sbmlsolver/odeModel.h

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