#include <../../nrnconf.h>
#include <stdio.h>
#include <assert.h>
#include <string.h>
#include "grids.h"
#include "rxd.h"
#include <nrnwrap_Python.h>
#include <unistd.h>
#include <cmath>

Functions
void	set_hybrid_data (int64_t num_1d_indices_per_grid, int64_t num_3d_indices_per_grid, int64_t hybrid_indices1d, int64_t hybrid_indices3d, int64_t num_3d_indices_per_1d_seg, int64_t hybrid_grid_ids, double rates, double volumes1d, double volumes3d, double dxs)

static int	solve_dd_tridiag (int N, const double l_diag, const double diag, const double u_diag, double b, double *c)

void	ics_find_deltas (long start, long stop, long node_start, double delta, long line_defs, long ordered_nodes, double states, double dc, double *alphas)

void	ics_find_deltas (long start, long stop, long node_start, double delta, long line_defs, long ordered_nodes, double states, double dc, double alphas)

static void *	do_ics_deltas (void *dataptr)

void	run_threaded_deltas (ICS_Grid_node g, ICSAdiDirection ics_adi_dir)

void	ics_dg_adi_x_inhom (ICS_Grid_node g, int line_start, int line_stop, int node_start, double, double states, double RHS, double scratchpad, double u_diag, double diag, double *l_diag)

void	ics_dg_adi_y_inhom (ICS_Grid_node g, int line_start, int line_stop, int node_start, double, double states, double RHS, double scratchpad, double u_diag, double diag, double *l_diag)

void	ics_dg_adi_z_inhom (ICS_Grid_node g, int line_start, int line_stop, int node_start, double, double states, double RHS, double scratchpad, double u_diag, double diag, double *l_diag)

void	ics_dg_adi_x (ICS_Grid_node g, int line_start, int line_stop, int node_start, double, double states, double RHS, double scratchpad, double u_diag, double diag, double *l_diag)

void	ics_dg_adi_y (ICS_Grid_node g, int line_start, int line_stop, int node_start, double, double states, double RHS, double scratchpad, double u_diag, double diag, double *l_diag)

void	ics_dg_adi_z (ICS_Grid_node g, int line_start, int line_stop, int node_start, double, double states, double RHS, double scratchpad, double u_diag, double diag, double *l_diag)

void *	do_ics_dg_adi (void *dataptr)

static double	flux (const double alphai, const double alphaj, const double statei, const double statej)

static void	variable_step_delta (long start, long stop, long node_start, double ydot, long line_defs, long ordered_nodes, double const const states, double r, double *alphas)

static void	variable_step_delta (long start, long stop, long node_start, double ydot, long line_defs, long ordered_nodes, double const const states, double r, double dcs, double alphas)

void	_ics_rhs_variable_step_helper (ICS_Grid_node g, double const const states, double *ydot)

static void	variable_step_x (ICS_Grid_node g, int line_start, int line_stop, int node_start, double states, double CVodeRHS, double RHS, double scratchpad, double alphas, double *dcs, double dt)

static void	variable_step_y (ICS_Grid_node g, int line_start, int line_stop, int node_start, double states, double RHS, double scratchpad, double alphas, double dcs, double dt)

static void	variable_step_z (ICS_Grid_node g, int line_start, int line_stop, int node_start, double states, double RHS, double scratchpad, double alphas, double dcs, double dt)

static void	variable_step_x (ICS_Grid_node g, int line_start, int line_stop, int node_start, double states, double CVodeRHS, double RHS, double scratchpad, double alphas, double dt)

static void	variable_step_y (ICS_Grid_node g, int line_start, int line_stop, int node_start, double states, double RHS, double scratchpad, double *alphas, double dt)

static void	variable_step_z (ICS_Grid_node g, int line_start, int line_stop, int node_start, double states, double RHS, double scratchpad, double *alphas, double dt)

void	ics_ode_solve_helper (ICS_Grid_node g, double dt, double CVodeRHS)

void	_ics_hybrid_helper (ICS_Grid_node *g)

void	_ics_variable_hybrid_helper (ICS_Grid_node g, const double cvode_states_3d, double const ydot_3d, const double cvode_states_1d, double *const ydot_1d)

Variables
int	NUM_THREADS

TaskQueue *	AllTasks

double *	states

const int	ICS_PREFETCH = 3

Function Documentation

◆ _ics_hybrid_helper()

void _ics_hybrid_helper ( ICS_Grid_node * g )

Definition at line 1361 of file rxd_intracellular.cpp.

◆ _ics_rhs_variable_step_helper()

void _ics_rhs_variable_step_helper	(	ICS_Grid_node *	g,
		double const *const	states,
		double *	ydot
	)

Definition at line 800 of file rxd_intracellular.cpp.

◆ _ics_variable_hybrid_helper()

void _ics_variable_hybrid_helper	(	ICS_Grid_node *	g,
		const double *	cvode_states_3d,
		double *const	ydot_3d,
		const double *	cvode_states_1d,
		double *const	ydot_1d
	)

Definition at line 1416 of file rxd_intracellular.cpp.

◆ do_ics_deltas()

static void* do_ics_deltas ( void * dataptr )

static

Definition at line 211 of file rxd_intracellular.cpp.

◆ do_ics_dg_adi()

void* do_ics_dg_adi ( void * dataptr )

Definition at line 642 of file rxd_intracellular.cpp.

◆ flux()

static double flux	(	const double	alphai,
		const double	alphaj,
		const double	statei,
		const double	statej
	)

inlinestatic

Definition at line 677 of file rxd_intracellular.cpp.

◆ ics_dg_adi_x()

void ics_dg_adi_x	(	ICS_Grid_node *	g,
		int	line_start,
		int	line_stop,
		int	node_start,
		double	,
		double *	states,
		double *	RHS,
		double *	scratchpad,
		double *	u_diag,
		double *	diag,
		double *	l_diag
	)

Definition at line 450 of file rxd_intracellular.cpp.

◆ ics_dg_adi_x_inhom()

void ics_dg_adi_x_inhom	(	ICS_Grid_node *	g,
		int	line_start,
		int	line_stop,
		int	node_start,
		double	,
		double *	states,
		double *	RHS,
		double *	scratchpad,
		double *	u_diag,
		double *	diag,
		double *	l_diag
	)

Definition at line 253 of file rxd_intracellular.cpp.

◆ ics_dg_adi_y()

void ics_dg_adi_y	(	ICS_Grid_node *	g,
		int	line_start,
		int	line_stop,
		int	node_start,
		double	,
		double *	states,
		double *	RHS,
		double *	scratchpad,
		double *	u_diag,
		double *	diag,
		double *	l_diag
	)

Definition at line 518 of file rxd_intracellular.cpp.

◆ ics_dg_adi_y_inhom()

void ics_dg_adi_y_inhom	(	ICS_Grid_node *	g,
		int	line_start,
		int	line_stop,
		int	node_start,
		double	,
		double *	states,
		double *	RHS,
		double *	scratchpad,
		double *	u_diag,
		double *	diag,
		double *	l_diag
	)

Definition at line 325 of file rxd_intracellular.cpp.

◆ ics_dg_adi_z()

void ics_dg_adi_z	(	ICS_Grid_node *	g,
		int	line_start,
		int	line_stop,
		int	node_start,
		double	,
		double *	states,
		double *	RHS,
		double *	scratchpad,
		double *	u_diag,
		double *	diag,
		double *	l_diag
	)

Definition at line 581 of file rxd_intracellular.cpp.

◆ ics_dg_adi_z_inhom()

void ics_dg_adi_z_inhom	(	ICS_Grid_node *	g,
		int	line_start,
		int	line_stop,
		int	node_start,
		double	,
		double *	states,
		double *	RHS,
		double *	scratchpad,
		double *	u_diag,
		double *	diag,
		double *	l_diag
	)

Definition at line 388 of file rxd_intracellular.cpp.

◆ ics_find_deltas() [1/2]

void ics_find_deltas	(	long	start,
		long	stop,
		long	node_start,
		double *	delta,
		long *	line_defs,
		long *	ordered_nodes,
		double *	states,
		double	dc,
		double *	alphas
	)

Definition at line 110 of file rxd_intracellular.cpp.

◆ ics_find_deltas() [2/2]

void ics_find_deltas	(	long	start,
		long	stop,
		long	node_start,
		double *	delta,
		long *	line_defs,
		long *	ordered_nodes,
		double *	states,
		double *	dc,
		double *	alphas
	)

Definition at line 161 of file rxd_intracellular.cpp.

◆ ics_ode_solve_helper()

void ics_ode_solve_helper	(	ICS_Grid_node *	g,
		double	dt,
		double *	CVodeRHS
	)

Definition at line 1276 of file rxd_intracellular.cpp.

◆ run_threaded_deltas()

void run_threaded_deltas	(	ICS_Grid_node *	g,
		ICSAdiDirection *	ics_adi_dir
	)

Definition at line 233 of file rxd_intracellular.cpp.

◆ set_hybrid_data()

void set_hybrid_data	(	int64_t *	num_1d_indices_per_grid,
		int64_t *	num_3d_indices_per_grid,
		int64_t *	hybrid_indices1d,
		int64_t *	hybrid_indices3d,
		int64_t *	num_3d_indices_per_1d_seg,
		int64_t *	hybrid_grid_ids,
		double *	rates,
		double *	volumes1d,
		double *	volumes3d,
		double *	dxs
	)

Definition at line 20 of file rxd_intracellular.cpp.

◆ solve_dd_tridiag()

static int solve_dd_tridiag	(	int	N,
		const double *	l_diag,
		const double *	diag,
		const double *	u_diag,
		double *	b,
		double *	c
	)

static

Definition at line 85 of file rxd_intracellular.cpp.

◆ variable_step_delta() [1/2]

static void variable_step_delta	(	long	start,
		long	stop,
		long	node_start,
		double *	ydot,
		long *	line_defs,
		long *	ordered_nodes,
		double const *const	states,
		double	r,
		double *	alphas
	)

static

Definition at line 684 of file rxd_intracellular.cpp.

◆ variable_step_delta() [2/2]

static void variable_step_delta	(	long	start,
		long	stop,
		long	node_start,
		double *	ydot,
		long *	line_defs,
		long *	ordered_nodes,
		double const *const	states,
		double	r,
		double *	dcs,
		double *	alphas
	)

static

Definition at line 740 of file rxd_intracellular.cpp.

◆ variable_step_x() [1/2]

static void variable_step_x	(	ICS_Grid_node *	g,
		int	line_start,
		int	line_stop,
		int	node_start,
		double *	states,
		double *	CVodeRHS,
		double *	RHS,
		double *	scratchpad,
		double *	alphas,
		double *	dcs,
		double	dt
	)

static

Definition at line 865 of file rxd_intracellular.cpp.

◆ variable_step_x() [2/2]

static void variable_step_x	(	ICS_Grid_node *	g,
		int	line_start,
		int	line_stop,
		int	node_start,
		double *	states,
		double *	CVodeRHS,
		double *	RHS,
		double *	scratchpad,
		double *	alphas,
		double	dt
	)

static

Definition at line 1067 of file rxd_intracellular.cpp.

◆ variable_step_y() [1/2]

static void variable_step_y	(	ICS_Grid_node *	g,
		int	line_start,
		int	line_stop,
		int	node_start,
		double *	states,
		double *	RHS,
		double *	scratchpad,
		double *	alphas,
		double *	dcs,
		double	dt
	)

static

Definition at line 935 of file rxd_intracellular.cpp.

◆ variable_step_y() [2/2]

static void variable_step_y	(	ICS_Grid_node *	g,
		int	line_start,
		int	line_stop,
		int	node_start,
		double *	states,
		double *	RHS,
		double *	scratchpad,
		double *	alphas,
		double	dt
	)

static

Definition at line 1139 of file rxd_intracellular.cpp.

◆ variable_step_z() [1/2]

static void variable_step_z	(	ICS_Grid_node *	g,
		int	line_start,
		int	line_stop,
		int	node_start,
		double *	states,
		double *	RHS,
		double *	scratchpad,
		double *	alphas,
		double *	dcs,
		double	dt
	)

static

Definition at line 1001 of file rxd_intracellular.cpp.

◆ variable_step_z() [2/2]

static void variable_step_z	(	ICS_Grid_node *	g,
		int	line_start,
		int	line_stop,
		int	node_start,
		double *	states,
		double *	RHS,
		double *	scratchpad,
		double *	alphas,
		double	dt
	)

static

Definition at line 1208 of file rxd_intracellular.cpp.

Variable Documentation

◆ AllTasks

TaskQueue* AllTasks

Definition at line 28 of file rxd.cpp.

◆ ICS_PREFETCH

const int ICS_PREFETCH = 3

Definition at line 15 of file rxd_intracellular.cpp.

◆ NUM_THREADS

int NUM_THREADS

Definition at line 26 of file rxd.cpp.

◆ states

double* states

Definition at line 62 of file rxd.cpp.

Functions

Variables

Function Documentation

◆ _ics_hybrid_helper()

◆ _ics_rhs_variable_step_helper()

◆ _ics_variable_hybrid_helper()

◆ do_ics_deltas()

◆ do_ics_dg_adi()

◆ flux()

◆ ics_dg_adi_x()

◆ ics_dg_adi_x_inhom()

◆ ics_dg_adi_y()

◆ ics_dg_adi_y_inhom()

◆ ics_dg_adi_z()

◆ ics_dg_adi_z_inhom()

◆ ics_find_deltas() [1/2]

◆ ics_find_deltas() [2/2]

◆ ics_ode_solve_helper()

◆ run_threaded_deltas()

◆ set_hybrid_data()

◆ solve_dd_tridiag()

◆ variable_step_delta() [1/2]

◆ variable_step_delta() [2/2]

◆ variable_step_x() [1/2]

◆ variable_step_x() [2/2]

◆ variable_step_y() [1/2]

◆ variable_step_y() [2/2]

◆ variable_step_z() [1/2]

◆ variable_step_z() [2/2]

Variable Documentation

◆ AllTasks

◆ ICS_PREFETCH

◆ NUM_THREADS

◆ states