CoreNEURON
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coreneuron::Phase2 Class Reference

Detailed Description

Definition at line 24 of file phase2.hpp.

#include <phase2.hpp>

Classes

struct  EventTypeBase
 
struct  NetConType_
 
struct  NetParEvent_
 
struct  PlayRecordEventType_
 
struct  PreSynType_
 
struct  SelfEventType_
 
struct  TML
 
struct  VecPlayContinuous_
 

Public Member Functions

void read_file (FileHandler &F, const NrnThread &nt)
 
void read_direct (int thread_id, const NrnThread &nt)
 
void populate (NrnThread &nt, const UserParams &userParams)
 

Public Attributes

std::vector< int > preSynConditionEventFlags
 
std::vector< VecPlayContinuous_ > vec_play_continuous
 
int patstim_index
 
std::vector< std::pair< int, std::shared_ptr< EventTypeBase > > > events
 

Private Member Functions

void check_mechanism ()
 Check if MOD file used between NEURON and CoreNEURON is same. More...
 
void transform_int_data (int elem0, int nodecount, int *pdata, int i, int dparam_size, int layout, int n_node_)
 Perform in memory transformation between AoS<>SoA for integer data. More...
 
void set_net_send_buffer (Memb_list **ml_list, const std::vector< int > &pnt_offset)
 
void restore_events (FileHandler &F)
 
void fill_before_after_lists (NrnThread &nt, const std::vector< Memb_func > &memb_func)
 
void pdata_relocation (const NrnThread &nt, const std::vector< Memb_func > &memb_func)
 
void set_dependencies (const NrnThread &nt, const std::vector< Memb_func > &memb_func)
 
void handle_weights (NrnThread &nt, int n_netcon, NrnThreadChkpnt &ntc)
 
void get_info_from_bbcore (NrnThread &nt, const std::vector< Memb_func > &memb_func, NrnThreadChkpnt &ntc)
 
void set_vec_play (NrnThread &nt, NrnThreadChkpnt &ntc)
 

Private Attributes

int n_real_cell
 
int n_output
 
int n_real_output
 
int n_node
 
int n_diam
 
int n_mech
 
std::vector< int > mech_types
 
std::vector< int > nodecounts
 
int n_idata
 
int n_vdata
 
int * v_parent_index
 
double * _data
 
std::vector< TML > tmls
 
std::vector< int > output_vindex
 
std::vector< double > output_threshold
 
std::vector< int > pnttype
 
std::vector< int > pntindex
 
std::vector< double > weights
 
std::vector< double > delay
 
int num_point_process
 

Member Function Documentation

◆ check_mechanism()

void coreneuron::Phase2::check_mechanism ( )
private

Check if MOD file used between NEURON and CoreNEURON is same.

Definition at line 434 of file phase2.cpp.

◆ fill_before_after_lists()

void coreneuron::Phase2::fill_before_after_lists ( NrnThread &  nt,
const std::vector< Memb_func > &  memb_func 
)
private

Fill the BA lists

Definition at line 570 of file phase2.cpp.

◆ get_info_from_bbcore()

void coreneuron::Phase2::get_info_from_bbcore ( NrnThread &  nt,
const std::vector< Memb_func > &  memb_func,
NrnThreadChkpnt &  ntc 
)
private

Definition at line 820 of file phase2.cpp.

◆ handle_weights()

void coreneuron::Phase2::handle_weights ( NrnThread &  nt,
int  n_netcon,
NrnThreadChkpnt &  ntc 
)
private

Definition at line 788 of file phase2.cpp.

◆ pdata_relocation()

void coreneuron::Phase2::pdata_relocation ( const NrnThread &  nt,
const std::vector< Memb_func > &  memb_func 
)
private

transform_int_data( nt._actual_v - nt._data, cnt, pdata, i, szdp, layout, nt.end);

Definition at line 603 of file phase2.cpp.

◆ populate()

void coreneuron::Phase2::populate ( NrnThread &  nt,
const UserParams &  userParams 
)

Checkpoint in coreneuron is defined for both phase 1 and phase 2 since they are written together

Potentially uninitialized pnt_offset[], check for previous assignments

Definition at line 918 of file phase2.cpp.

◆ read_direct()

void coreneuron::Phase2::read_direct ( int  thread_id,
const NrnThread &  nt 
)

Definition at line 256 of file phase2.cpp.

◆ read_file()

void coreneuron::Phase2::read_file ( FileHandler &  F,
const NrnThread &  nt 
)

Definition at line 110 of file phase2.cpp.

◆ restore_events()

void coreneuron::Phase2::restore_events ( FileHandler &  F)
private

Definition at line 512 of file phase2.cpp.

◆ set_dependencies()

void coreneuron::Phase2::set_dependencies ( const NrnThread &  nt,
const std::vector< Memb_func > &  memb_func 
)
private

Definition at line 718 of file phase2.cpp.

◆ set_net_send_buffer()

void coreneuron::Phase2::set_net_send_buffer ( Memb_list **  ml_list,
const std::vector< int > &  pnt_offset 
)
private

Definition at line 475 of file phase2.cpp.

◆ set_vec_play()

void coreneuron::Phase2::set_vec_play ( NrnThread &  nt,
NrnThreadChkpnt &  ntc 
)
private

Definition at line 878 of file phase2.cpp.

◆ transform_int_data()

void coreneuron::Phase2::transform_int_data ( int  elem0,
int  nodecount,
int *  pdata,
int  i,
int  dparam_size,
int  layout,
int  n_node_ 
)
private

Perform in memory transformation between AoS<>SoA for integer data.

Definition at line 460 of file phase2.cpp.

Member Data Documentation

◆ _data

double* coreneuron::Phase2::_data
private

Definition at line 110 of file phase2.hpp.

◆ delay

std::vector<double> coreneuron::Phase2::delay
private

Definition at line 125 of file phase2.hpp.

◆ events

std::vector<std::pair<int, std::shared_ptr<EventTypeBase> > > coreneuron::Phase2::events

Definition at line 70 of file phase2.hpp.

◆ mech_types

std::vector<int> coreneuron::Phase2::mech_types
private

Definition at line 98 of file phase2.hpp.

◆ n_diam

int coreneuron::Phase2::n_diam
private

Definition at line 96 of file phase2.hpp.

◆ n_idata

int coreneuron::Phase2::n_idata
private

Definition at line 100 of file phase2.hpp.

◆ n_mech

int coreneuron::Phase2::n_mech
private

Definition at line 97 of file phase2.hpp.

◆ n_node

int coreneuron::Phase2::n_node
private

Definition at line 95 of file phase2.hpp.

◆ n_output

int coreneuron::Phase2::n_output
private

Definition at line 93 of file phase2.hpp.

◆ n_real_cell

int coreneuron::Phase2::n_real_cell
private

Definition at line 92 of file phase2.hpp.

◆ n_real_output

int coreneuron::Phase2::n_real_output
private

Definition at line 94 of file phase2.hpp.

◆ n_vdata

int coreneuron::Phase2::n_vdata
private

Definition at line 101 of file phase2.hpp.

◆ nodecounts

std::vector<int> coreneuron::Phase2::nodecounts
private

Definition at line 99 of file phase2.hpp.

◆ num_point_process

int coreneuron::Phase2::num_point_process
private

Definition at line 126 of file phase2.hpp.

◆ output_threshold

std::vector<double> coreneuron::Phase2::output_threshold
private

Definition at line 121 of file phase2.hpp.

◆ output_vindex

std::vector<int> coreneuron::Phase2::output_vindex
private

Definition at line 120 of file phase2.hpp.

◆ patstim_index

int coreneuron::Phase2::patstim_index

Definition at line 68 of file phase2.hpp.

◆ pntindex

std::vector<int> coreneuron::Phase2::pntindex
private

Definition at line 123 of file phase2.hpp.

◆ pnttype

std::vector<int> coreneuron::Phase2::pnttype
private

Definition at line 122 of file phase2.hpp.

◆ preSynConditionEventFlags

std::vector<int> coreneuron::Phase2::preSynConditionEventFlags

Definition at line 30 of file phase2.hpp.

◆ tmls

std::vector<TML> coreneuron::Phase2::tmls
private

Definition at line 119 of file phase2.hpp.

◆ v_parent_index

int* coreneuron::Phase2::v_parent_index
private

Definition at line 102 of file phase2.hpp.

◆ vec_play_continuous

std::vector<VecPlayContinuous_> coreneuron::Phase2::vec_play_continuous

Definition at line 67 of file phase2.hpp.

◆ weights

std::vector<double> coreneuron::Phase2::weights
private

Definition at line 124 of file phase2.hpp.

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