#include <grids.h>

Inheritance diagram for ECS_Grid_node:

Public Member Functions
	ECS_Grid_node ()

	ECS_Grid_node (PyHocObject , int, int, int, double, double, double, double, double, double, PyHocObject , PyHocObject *, int, double, double)

	~ECS_Grid_node ()

void	set_num_threads (const int n)

void	do_grid_currents (double *, double, int)

void	apply_node_flux3D (double dt, double *states)

void	volume_setup ()

int	dg_adi ()

void	variable_step_diffusion (const double states, double ydot)

void	variable_step_ode_solve (double *RHS, double dt)

void	variable_step_hybrid_connections (const double cvode_states_3d, double const ydot_3d, const double cvode_states_1d, double const ydot_1d)

void	scatter_grid_concentrations ()

void	hybrid_connections ()

void	set_diffusion (double *, int)

void	set_tortuosity (PyHocObject *)

void	set_volume_fraction (PyHocObject *)

void	do_multicompartment_reactions (double *)

void	initialize_multicompartment_reaction ()

void	clear_multicompartment_reaction ()

int	add_multicompartment_reaction (int, int *, int)

double *	set_rxd_currents (int, int , PyHocObject *)

Public Member Functions inherited from Grid_node
int	insert (int grid_list_index)

virtual	~Grid_node ()

Public Attributes
struct ECSAdiGridData *	ecs_tasks

struct ECSAdiDirection *	ecs_adi_dir_x

struct ECSAdiDirection *	ecs_adi_dir_y

struct ECSAdiDirection *	ecs_adi_dir_z

int	induced_idx

int *	react_offsets

int	react_offset_count

int *	reaction_indices

int *	all_reaction_indices

int *	proc_num_reactions

int *	proc_num_reaction_states

int	total_reaction_states

unsigned char	multicompartment_inititalized

int *	induced_currents_index

int	induced_current_count

int *	proc_induced_current_count

int *	proc_induced_current_offset

double *	all_reaction_states

double *	induced_currents

double *	local_induced_currents

double *	induced_currents_scale

Public Attributes inherited from Grid_node
Grid_node *	next

double *	states

double *	states_x

double *	states_y

double *	states_z

double *	states_cur

int	size_x

int	size_y

int	size_z

double	dc_x

double	dc_y

double	dc_z

double	dx

double	dy

double	dz

bool	diffusable

bool	hybrid

BoundaryConditions *	bc

Hybrid_data *	hybrid_data

Concentration_Pair *	concentration_list

Current_Triple *	current_list

ssize_t	num_concentrations

ssize_t	num_currents

int	num_all_currents

int *	proc_offsets

int *	proc_num_currents

int *	proc_flux_offsets

int *	proc_num_fluxes

long *	current_dest

double *	all_currents

unsigned char	VARIABLE_ECS_VOLUME

double *	permeability

double *	alpha

double(*	get_alpha )(double *, int)

double(*	get_permeability )(double *, int)

double	atolscale

int64_t *	ics_surface_nodes_per_seg

int64_t *	ics_surface_nodes_per_seg_start_indices

std::vector< neuron::container::data_handle< double > >	ics_concentration_seg_handles

double **	ics_current_seg_ptrs

double *	ics_scale_factors

int	node_flux_count

long *	node_flux_idx

double *	node_flux_scale

PyObject **	node_flux_src

Detailed Description

Definition at line 161 of file grids.h.

Constructor & Destructor Documentation

◆ ECS_Grid_node() [1/2]

ECS_Grid_node::ECS_Grid_node ( )

Definition at line 50 of file grids.cpp.

◆ ECS_Grid_node() [2/2]

ECS_Grid_node::ECS_Grid_node	(	PyHocObject *	my_states,
		int	my_num_states_x,
		int	my_num_states_y,
		int	my_num_states_z,
		double	my_dc_x,
		double	my_dc_y,
		double	my_dc_z,
		double	my_dx,
		double	my_dy,
		double	my_dz,
		PyHocObject *	my_alpha,
		PyHocObject *	my_permeability,
		int	bc_type,
		double	bc_value,
		double	atolscale
	)

Definition at line 51 of file grids.cpp.

◆ ~ECS_Grid_node()

ECS_Grid_node::~ECS_Grid_node ( )

Definition at line 1247 of file grids.cpp.

Member Function Documentation

◆ add_multicompartment_reaction()

int ECS_Grid_node::add_multicompartment_reaction	(	int	nstates,
		int *	indices,
		int	step
	)

Definition at line 1068 of file grids.cpp.

◆ apply_node_flux3D()

void ECS_Grid_node::apply_node_flux3D	(	double	dt,
		double *	states
	)

virtual

Implements Grid_node.

Definition at line 962 of file grids.cpp.

◆ clear_multicompartment_reaction()

void ECS_Grid_node::clear_multicompartment_reaction ( )

Definition at line 1094 of file grids.cpp.

◆ dg_adi()

int ECS_Grid_node::dg_adi ( )

virtual

Implements Grid_node.

Definition at line 1010 of file grids.cpp.

◆ do_grid_currents()

void ECS_Grid_node::do_grid_currents	(	double *	output,
		double	dt,
		int	grid_id
	)

virtual

Implements Grid_node.

Definition at line 877 of file grids.cpp.

◆ do_multicompartment_reactions()

void ECS_Grid_node::do_multicompartment_reactions ( double * result )

Definition at line 1221 of file grids.cpp.

◆ hybrid_connections()

void ECS_Grid_node::hybrid_connections ( )

virtual

Implements Grid_node.

Definition at line 1061 of file grids.cpp.

◆ initialize_multicompartment_reaction()

void ECS_Grid_node::initialize_multicompartment_reaction ( )

Definition at line 1111 of file grids.cpp.

◆ scatter_grid_concentrations()

void ECS_Grid_node::scatter_grid_concentrations ( )

virtual

Implements Grid_node.

Definition at line 1050 of file grids.cpp.

◆ set_diffusion()

void ECS_Grid_node::set_diffusion	(	double *	dc,
		int
	)

virtual

Implements Grid_node.

Definition at line 578 of file grids.cpp.

◆ set_num_threads()

void ECS_Grid_node::set_num_threads ( const int n )

virtual

Implements Grid_node.

Definition at line 834 of file grids.cpp.

◆ set_rxd_currents()

double * ECS_Grid_node::set_rxd_currents	(	int	current_count,
		int *	current_indices,
		PyHocObject **	ptrs
	)

Definition at line 935 of file grids.cpp.

◆ set_tortuosity()

void ECS_Grid_node::set_tortuosity ( PyHocObject * my_permeability )

Definition at line 482 of file grids.cpp.

◆ set_volume_fraction()

void ECS_Grid_node::set_volume_fraction ( PyHocObject * my_alpha )

Definition at line 534 of file grids.cpp.

◆ variable_step_diffusion()

void ECS_Grid_node::variable_step_diffusion	(	const double *	states,
		double *	ydot
	)

virtual

Implements Grid_node.

Definition at line 1037 of file grids.cpp.

◆ variable_step_hybrid_connections()

void ECS_Grid_node::variable_step_hybrid_connections	(	const double *	cvode_states_3d,
		double *const	ydot_3d,
		const double *	cvode_states_1d,
		double *const	ydot_1d
	)

virtual

Implements Grid_node.

Definition at line 1063 of file grids.cpp.

◆ variable_step_ode_solve()

void ECS_Grid_node::variable_step_ode_solve	(	double *	RHS,
		double	dt
	)

virtual

Implements Grid_node.

Definition at line 1244 of file grids.cpp.

◆ volume_setup()

void ECS_Grid_node::volume_setup ( )

virtual

Implements Grid_node.

Definition at line 997 of file grids.cpp.

Member Data Documentation

◆ all_reaction_indices

int* ECS_Grid_node::all_reaction_indices

Definition at line 191 of file grids.h.

◆ all_reaction_states

double* ECS_Grid_node::all_reaction_states

Definition at line 200 of file grids.h.

◆ ecs_adi_dir_x

struct ECSAdiDirection* ECS_Grid_node::ecs_adi_dir_x

Definition at line 182 of file grids.h.

◆ ecs_adi_dir_y

struct ECSAdiDirection* ECS_Grid_node::ecs_adi_dir_y

Definition at line 183 of file grids.h.

◆ ecs_adi_dir_z

struct ECSAdiDirection* ECS_Grid_node::ecs_adi_dir_z

Definition at line 184 of file grids.h.

◆ ecs_tasks

struct ECSAdiGridData* ECS_Grid_node::ecs_tasks

Definition at line 181 of file grids.h.

◆ induced_current_count

int ECS_Grid_node::induced_current_count

Definition at line 197 of file grids.h.

◆ induced_currents

double* ECS_Grid_node::induced_currents

Definition at line 201 of file grids.h.

◆ induced_currents_index

int* ECS_Grid_node::induced_currents_index

Definition at line 196 of file grids.h.

◆ induced_currents_scale

double* ECS_Grid_node::induced_currents_scale

Definition at line 203 of file grids.h.

◆ induced_idx

int ECS_Grid_node::induced_idx

Definition at line 187 of file grids.h.

◆ local_induced_currents

double* ECS_Grid_node::local_induced_currents

Definition at line 202 of file grids.h.

◆ multicompartment_inititalized

unsigned char ECS_Grid_node::multicompartment_inititalized

Definition at line 195 of file grids.h.

◆ proc_induced_current_count

int* ECS_Grid_node::proc_induced_current_count

Definition at line 198 of file grids.h.

◆ proc_induced_current_offset

int* ECS_Grid_node::proc_induced_current_offset

Definition at line 199 of file grids.h.

◆ proc_num_reaction_states

int* ECS_Grid_node::proc_num_reaction_states

Definition at line 193 of file grids.h.

◆ proc_num_reactions

int* ECS_Grid_node::proc_num_reactions

Definition at line 192 of file grids.h.

◆ react_offset_count

int ECS_Grid_node::react_offset_count

Definition at line 189 of file grids.h.

◆ react_offsets

int* ECS_Grid_node::react_offsets

Definition at line 188 of file grids.h.

◆ reaction_indices

int* ECS_Grid_node::reaction_indices

Definition at line 190 of file grids.h.

◆ total_reaction_states

int ECS_Grid_node::total_reaction_states

Definition at line 194 of file grids.h.

The documentation for this class was generated from the following files:

/home/docs/checkouts/readthedocs.org/user_builds/nrn/checkouts/3468/src/nrnpython/grids.h
/home/docs/checkouts/readthedocs.org/user_builds/nrn/checkouts/3468/src/nrnpython/grids.cpp

Public Member Functions

Public Attributes

Detailed Description

Constructor & Destructor Documentation

◆ ECS_Grid_node() [1/2]

◆ ECS_Grid_node() [2/2]

◆ ~ECS_Grid_node()

Member Function Documentation

◆ add_multicompartment_reaction()

◆ apply_node_flux3D()

◆ clear_multicompartment_reaction()

◆ dg_adi()

◆ do_grid_currents()

◆ do_multicompartment_reactions()

◆ hybrid_connections()

◆ initialize_multicompartment_reaction()

◆ scatter_grid_concentrations()

◆ set_diffusion()

◆ set_num_threads()

◆ set_rxd_currents()

◆ set_tortuosity()

◆ set_volume_fraction()

◆ variable_step_diffusion()

◆ variable_step_hybrid_connections()

◆ variable_step_ode_solve()

◆ volume_setup()

Member Data Documentation

◆ all_reaction_indices

◆ all_reaction_states

◆ ecs_adi_dir_x

◆ ecs_adi_dir_y

◆ ecs_adi_dir_z

◆ ecs_tasks

◆ induced_current_count

◆ induced_currents

◆ induced_currents_index

◆ induced_currents_scale

◆ induced_idx

◆ local_induced_currents

◆ multicompartment_inititalized

◆ proc_induced_current_count

◆ proc_induced_current_offset

◆ proc_num_reaction_states

◆ proc_num_reactions

◆ react_offset_count

◆ react_offsets

◆ reaction_indices

◆ total_reaction_states