odeproblem.h File Reference

#include <math.h>
#include <vector>
#include <deque>
#include "RcppInclude.h"
#include "mrgsolv.h"
#include "datarecord.h"

Go to the source code of this file.

Classes
class	odeproblem

Macros
#define	MRGSOLVE_GET_PRED_CL   (pred[0])
	map CL to pred position 0 for $PKMODEL
#define	MRGSOLVE_GET_PRED_VC   (pred[1])
	map VC to pred position 1 for $PKMODEL
#define	MRGSOLVE_GET_PRED_KA   (pred[2])
	map KA to pred position 2 for $PKMODEL
#define	MRGSOLVE_GET_PRED_Q   (pred[3])
	map Q to pred position 3 for $PKMODEL
#define	MRGSOLVE_GET_PRED_VP   (pred[4])
	map VP to pred position 4 for $PKMODEL
#define	MRGSOLVE_GET_PRED_Q2   (pred[5])
	map Q2 to pred position 5 for $PKMODEL
#define	MRGSOLVE_GET_PRED_VP2   (pred[6])
	map VP2 to pred position 6 for $PKMODEL
#define	MRGSOLVE_GET_PRED_K10   (pred[0]/pred[1])
	rate constants for $PKMODEL
#define	MRGSOLVE_GET_PRED_K12   (pred[3]/pred[1])
	rate constants for $PKMODEL
#define	MRGSOLVE_GET_PRED_K21   (pred[3]/pred[4])
	rate constants for $PKMODEL
#define	MRGSOLVE_GET_PRED_K13   (pred[5]/pred[1])
	rate constants for $PKMODEL
#define	MRGSOLVE_GET_PRED_K31   (pred[5]/pred[6])
	rate constants for $PKMODEL

Typedefs
typedef std::deque< rec_ptr >	reclist
	vector of datarecord objects for one ID
typedef std::vector< reclist >	recstack
	vector of reclist vectors comprising a data set
typedef void(*	init_func) (MRGSOLVE_INIT_SIGNATURE)
	$MAIN function
typedef void(*	table_func) (MRGSOLVE_TABLE_SIGNATURE)
	$TABLE function
typedef void(*	event_func) (MRGSOLVE_EVENT_SIGNATURE)
	$EVENT function
typedef void(*	deriv_func) (MRGSOLVE_ODE_SIGNATURE)
	$ODE function
typedef void(*	config_func) (MRGSOLVE_CONFIG_SIGNATURE)
	$PREAMBLE function
typedef void(*	LSODA_ODE_SYSTEM_TYPE) (double t, double *y, double *dydt, odeproblem *_data)
	function to hand off to DLSODA
typedef void(*	MRGSOLVE_ODE_FUNC) (int neq, double *t, double *y, double *ydot, std::vector< double > &param)

Functions
DL_FUNC	tofunptr (SEXP a)
void	neg_istate (int istate)
template<typename T, typename type2>
void	tofunptr (T b, type2 a)
void	dosimeta (void *)
void	dosimeps (void *)
double	PolyExp (const double &x, const double &dose, const double &rate, const double &xinf, const double &tau, const bool ss, const std::vector< double > &a, const std::vector< double > &alpha, const int n)

Variables
main_deriv_func	main_derivs

Macro Definition Documentation

MRGSOLVE_GET_PRED_CL

#define MRGSOLVE_GET_PRED_CL   (pred[0])

map CL to pred position 0 for $PKMODEL

MRGSOLVE_GET_PRED_K10

#define MRGSOLVE_GET_PRED_K10   (pred[0]/pred[1])

rate constants for $PKMODEL

MRGSOLVE_GET_PRED_K12

#define MRGSOLVE_GET_PRED_K12   (pred[3]/pred[1])

rate constants for $PKMODEL

MRGSOLVE_GET_PRED_K13

#define MRGSOLVE_GET_PRED_K13   (pred[5]/pred[1])

rate constants for $PKMODEL

MRGSOLVE_GET_PRED_K21

#define MRGSOLVE_GET_PRED_K21   (pred[3]/pred[4])

rate constants for $PKMODEL

MRGSOLVE_GET_PRED_K31

#define MRGSOLVE_GET_PRED_K31   (pred[5]/pred[6])

rate constants for $PKMODEL

MRGSOLVE_GET_PRED_KA

#define MRGSOLVE_GET_PRED_KA   (pred[2])

map KA to pred position 2 for $PKMODEL

MRGSOLVE_GET_PRED_Q

#define MRGSOLVE_GET_PRED_Q   (pred[3])

map Q to pred position 3 for $PKMODEL

MRGSOLVE_GET_PRED_Q2

#define MRGSOLVE_GET_PRED_Q2   (pred[5])

map Q2 to pred position 5 for $PKMODEL

MRGSOLVE_GET_PRED_VC

#define MRGSOLVE_GET_PRED_VC   (pred[1])

map VC to pred position 1 for $PKMODEL

MRGSOLVE_GET_PRED_VP

#define MRGSOLVE_GET_PRED_VP   (pred[4])

map VP to pred position 4 for $PKMODEL

MRGSOLVE_GET_PRED_VP2

#define MRGSOLVE_GET_PRED_VP2   (pred[6])

map VP2 to pred position 6 for $PKMODEL

Typedef Documentation

config_func

typedef void(* config_func) (MRGSOLVE_CONFIG_SIGNATURE)

$PREAMBLE function

deriv_func

typedef void(* deriv_func) (MRGSOLVE_ODE_SIGNATURE)

$ODE function

event_func

typedef void(* event_func) (MRGSOLVE_EVENT_SIGNATURE)

$EVENT function

init_func

typedef void(* init_func) (MRGSOLVE_INIT_SIGNATURE)

$MAIN function

LSODA_ODE_SYSTEM_TYPE

typedef void(* LSODA_ODE_SYSTEM_TYPE) (double t, double *y, double *dydt, odeproblem *_data)

function to hand off to DLSODA

MRGSOLVE_ODE_FUNC

typedef void(* MRGSOLVE_ODE_FUNC) (int neq, double *t, double *y, double *ydot, std::vector< double > &param)

reclist

typedef std::deque<rec_ptr> reclist

vector of datarecord objects for one ID

recstack

typedef std::vector<reclist> recstack

vector of reclist vectors comprising a data set

table_func

typedef void(* table_func) (MRGSOLVE_TABLE_SIGNATURE)

$TABLE function

Function Documentation

dosimeps()

void dosimeps

(

void *

prob_

)

dosimeta()

void dosimeta

(

void *

prob_

)

neg_istate()

void neg_istate

(

int

istate

)

PolyExp()

double PolyExp	(	const double &	x,
		const double &	dose,
		const double &	rate,
		const double &	xinf,
		const double &	tau,
		const bool	ss,
		const dvec &	a,
		const dvec &	alpha,
		const int	n )

Calculate PK model polyexponentials.

tofunptr() [1/2]

DL_FUNC tofunptr

(

SEXP

a

)

tofunptr() [2/2]

template<typename T, typename type2>

void tofunptr	(	T	b,
		type2	a )

Variable Documentation

main_derivs

main_deriv_func main_derivs