#include <list>
#include <InterViews/resource.h>
#include "classreg.h"
#include "code.h"
#include "ivocvect.h"
#include "hoclist.h"
#include "bbs.h"
#include "bbsimpl.h"
#include "section.h"
#include "membfunc.h"
#include "multicore.h"
#include "nrnpy.h"
#include "utils/profile/profiler_interface.h"
#include "node_order_optim/node_order_optim.h"
#include <nrnmpi.h>
#include <cerrno>

Classes
class	OcBBS

Macros
#define	MD 2147483647.

Functions
int	vector_arg_px (int, double **)

Symbol *	hoc_which_template (Symbol *)

void	nrnmpi_source_var ()

void	nrnmpi_target_var ()

void	nrnmpi_setup_transfer ()

int	nrnmpi_spike_compress (int nspike, bool gid_compress, int xchng_meth)

int	nrnmpi_splitcell_connect (int that_host)

int	nrnmpi_multisplit (Section *, double x, int sid, int backbonestyle)

int	nrn_set_timeout (int timeout)

void	nrnmpi_gid_clear (int)

double	nrn_multisend_receive_time (int)

void	nrn_prcellstate (int gid, const char *suffix)

static void	nrnmpi_int_broadcast (int *, int, int)

static void	nrnmpi_char_broadcast (char *, int, int)

static void	nrnmpi_dbl_broadcast (double *, int, int)

size_t	nrncore_write ()

size_t	nrnbbcore_register_mapping ()
	For BBP use case, we want to write section-segment mapping to gid_3.dat file. More...

int	nrncore_run (const char *)

int	nrncore_is_enabled ()

int	nrncore_is_file_mode ()

int	nrncore_psolve (double tstop, int file_mode)

static void	pack_help (int, OcBBS *)

static void	unpack_help (int, OcBBS *)

static int	submit_help (OcBBS *)

static char *	key_help ()

void	bbs_done ()

static double	submit (void *v)

static double	context (void *v)

static double	working (void *v)

static double	retval (void *v)

static double	userid (void *v)

static double	nhost (void *v)

static double	nrn_rank (void *v)

static double	nhost_world (void *v)

static double	rank_world (void *v)

static double	nhost_bbs (void *v)

static double	rank_bbs (void *v)

static double	subworlds (void *v)

static double	worker (void *v)

static double	master_works (void *v)

static double	done (void *v)

static double	pack (void *v)

static double	post (void *v)

static double	unpack (void *v)

static double	upkscalar (void *v)

static const char **	upkstr (void *v)

static Object **	upkvec (void *v)

static Object **	upkpyobj (void *v)

static Object **	pyret (void *v)

static Object **	py_alltoall_type (int type)

static Object **	py_alltoall (void *)

static Object **	py_allgather (void *)

static Object **	py_gather (void *)

static Object **	py_broadcast (void *)

static Object **	py_scatter (void *)

static double	take (void *v)

static double	look (void *v)

static double	look_take (void *v)

static double	pctime (void *v)

static double	vtransfer_time (void *v)

static double	mech_time (void *v)

static double	prcellstate (void *v)

static double	wait_time (void *v)

static double	step_time (void *v)

static double	step_wait (void *v)

static double	send_time (void *v)

static double	event_time (void *v)

static double	integ_time (void *v)

static double	set_gid2node (void *v)

static double	gid_exists (void *v)

static double	cell (void *v)

static double	threshold (void *v)

static double	spcompress (void *v)

static double	splitcell_connect (void *v)

static double	multisplit (void *v)

static double	set_timeout (void *v)

static double	set_mpiabort_on_error (void *)

static double	gid_clear (void *v)

static double	outputcell (void *v)

static double	spike_record (void *v)

static double	psolve (void *v)

static double	set_maxstep (void *v)

static double	spike_stat (void *v)

static double	maxhist (void *v)

static double	source_var (void *)

static double	target_var (void *)

static double	setup_transfer (void *)

static double	barrier (void *)

static double	allreduce (void *)

static double	allgather (void *)

static double	alltoall (void *)

static double	broadcast (void *)

static double	nthrd (void *)

static double	number_of_worker_threads (void *)

static double	partition (void *)

static Object **	get_partition (void *)

static double	thread_stat (void *)

static double	thread_busywait (void *)

static double	thread_how_many_proc (void *)

static double	optimize_node_order (void *)

static double	sec_in_thread (void *)

static double	thread_ctime (void *)

static double	nrn_thread_t (void *)

static double	thread_dt (void *)

static double	nrncorewrite_argvec (void *)

static double	print_memory_stats (void *)

static double	nrncorewrite_argappend (void *)

static double	nrncorerun (void *)

static double	nrnbbcore_register_mapping (void *)

static Object **	gid2obj (void *v)

static Object **	gid2cell (void *v)

static Object **	gid_connect (void *v)

static void *	cons (Object *)

static void	destruct (void *v)

void	ParallelContext_reg ()

Variables
double	t

double	nrnmpi_rtcomp_time_

double	nrnmpi_step_wait_

double *	nrn_mech_wtime_

bool	nrn_trajectory_request_per_time_step_

static bool	posting_ = false

static Member_func	members []

static Member_ret_str_func	retstr_members [] = {{"upkstr", upkstr}, {0, 0}}

static Member_ret_obj_func	retobj_members []

Macro Definition Documentation

◆ MD

#define MD 2147483647.

Definition at line 20 of file ocbbs.cpp.

Function Documentation

◆ allgather()

static double allgather ( void * )

static

Definition at line 761 of file ocbbs.cpp.

◆ allreduce()

static double allreduce ( void * )

static

Definition at line 726 of file ocbbs.cpp.

◆ alltoall()

static double alltoall ( void * )

static

Definition at line 784 of file ocbbs.cpp.

◆ barrier()

static double barrier ( void * )

static

Definition at line 712 of file ocbbs.cpp.

◆ broadcast()

static double broadcast ( void * )

static

Definition at line 824 of file ocbbs.cpp.

◆ cell()

static double cell ( void * v )

static

Definition at line 540 of file ocbbs.cpp.

◆ cons()

static void* cons ( Object * )

static

Definition at line 1120 of file ocbbs.cpp.

◆ context()

static double context ( void * v )

static

Definition at line 171 of file ocbbs.cpp.

◆ destruct()

static void destruct ( void * v )

static

Definition at line 1131 of file ocbbs.cpp.

◆ done()

static double done ( void * v )

static

Definition at line 251 of file ocbbs.cpp.

◆ event_time()

static double event_time ( void * v )

static

Definition at line 520 of file ocbbs.cpp.

◆ get_partition()

static Object** get_partition ( void * )

static

Definition at line 905 of file ocbbs.cpp.

◆ gid2cell()

static Object** gid2cell ( void * v )

static

Definition at line 1013 of file ocbbs.cpp.

◆ gid2obj()

static Object** gid2obj ( void * v )

static

Definition at line 1008 of file ocbbs.cpp.

◆ gid_clear()

static double gid_clear ( void * v )

static

Definition at line 608 of file ocbbs.cpp.

◆ gid_connect()

static Object** gid_connect ( void * v )

static

Definition at line 1018 of file ocbbs.cpp.

◆ gid_exists()

static double gid_exists ( void * v )

static

Definition at line 534 of file ocbbs.cpp.

◆ hoc_which_template()

Symbol* hoc_which_template ( Symbol * s )

Definition at line 1492 of file hoc_oop.cpp.

◆ integ_time()

static double integ_time ( void * v )

static

Definition at line 524 of file ocbbs.cpp.

◆ key_help()

static char * key_help ( )

static

Definition at line 406 of file ocbbs.cpp.

◆ look()

static double look ( void * v )

static

Definition at line 423 of file ocbbs.cpp.

◆ look_take()

static double look_take ( void * v )

static

Definition at line 433 of file ocbbs.cpp.

◆ master_works()

static double master_works ( void * v )

static

Definition at line 245 of file ocbbs.cpp.

◆ maxhist()

static double maxhist ( void * v )

static

Definition at line 677 of file ocbbs.cpp.

◆ mech_time()

static double mech_time ( void * v )

static

Definition at line 463 of file ocbbs.cpp.

◆ multisplit()

static double multisplit ( void * v )

static

Definition at line 574 of file ocbbs.cpp.

◆ nhost()

static double nhost ( void * v )

static

Definition at line 201 of file ocbbs.cpp.

◆ nhost_bbs()

static double nhost_bbs ( void * v )

static

Definition at line 221 of file ocbbs.cpp.

◆ nhost_world()

static double nhost_world ( void * v )

static

Definition at line 211 of file ocbbs.cpp.

◆ nrn_multisend_receive_time()

double nrn_multisend_receive_time ( int type )

Definition at line 319 of file multisend.cpp.

◆ nrn_prcellstate()

void nrn_prcellstate	(	int	gid,
		const char *	suffix
	)

Definition at line 154 of file prcellstate.cpp.

◆ nrn_rank()

static double nrn_rank ( void * v )

static

Definition at line 206 of file ocbbs.cpp.

◆ nrn_set_timeout()

int nrn_set_timeout ( int timeout )

Definition at line 1244 of file netpar.cpp.

◆ nrn_thread_t()

static double nrn_thread_t ( void * )

static

Definition at line 955 of file ocbbs.cpp.

◆ nrnbbcore_register_mapping() [1/2]

size_t nrnbbcore_register_mapping ( )

For BBP use case, we want to write section-segment mapping to gid_3.dat file.

This information will be provided through neurodamus HOC interface with following format: gid : number of non-empty neurons in the cellgroup name : name of section list (like soma, axon, apic) nsec : number of sections sections : list of sections segments : list of segments seg_lfp_factors: list of lfp factors

Definition at line 86 of file nrncore_utils.cpp.

◆ nrnbbcore_register_mapping() [2/2]

static double nrnbbcore_register_mapping ( void * )

static

Definition at line 1004 of file ocbbs.cpp.

◆ nrncore_is_enabled()

int nrncore_is_enabled ( )

Definition at line 444 of file nrncore_write.cpp.

◆ nrncore_is_file_mode()

int nrncore_is_file_mode ( )

Definition at line 448 of file nrncore_write.cpp.

◆ nrncore_psolve()

int nrncore_psolve	(	double	tstop,
		int	file_mode
	)

Definition at line 452 of file nrncore_write.cpp.

◆ nrncore_run()

int nrncore_run ( const char * arg )

Definition at line 440 of file nrncore_write.cpp.

◆ nrncore_write()

size_t nrncore_write ( )

Definition at line 177 of file nrncore_write.cpp.

◆ nrncorerun()

static double nrncorerun ( void * )

static

Definition at line 997 of file ocbbs.cpp.

◆ nrncorewrite_argappend()

static double nrncorewrite_argappend ( void * )

static

Definition at line 988 of file ocbbs.cpp.

◆ nrncorewrite_argvec()

static double nrncorewrite_argvec ( void * )

static

Definition at line 967 of file ocbbs.cpp.

◆ nrnmpi_char_broadcast()

static void nrnmpi_char_broadcast	(	char *	,
		int	,
		int
	)

static

Definition at line 43 of file ocbbs.cpp.

◆ nrnmpi_dbl_broadcast()

static void nrnmpi_dbl_broadcast	(	double *	,
		int	,
		int
	)

static

Definition at line 44 of file ocbbs.cpp.

◆ nrnmpi_gid_clear()

void nrnmpi_gid_clear ( int arg )

Definition at line 988 of file netpar.cpp.

◆ nrnmpi_int_broadcast()

static void nrnmpi_int_broadcast	(	int *	,
		int	,
		int
	)

static

Definition at line 42 of file ocbbs.cpp.

◆ nrnmpi_multisplit()

int nrnmpi_multisplit	(	Section *	sec,
		double	x,
		int	sid,
		int	backbonestyle
	)

Definition at line 300 of file multisplit.cpp.

◆ nrnmpi_setup_transfer()

void nrnmpi_setup_transfer ( )

Definition at line 620 of file partrans.cpp.

◆ nrnmpi_source_var()

void nrnmpi_source_var ( )

◆ nrnmpi_spike_compress()

int nrnmpi_spike_compress	(	int	nspike,
		bool	gid_compress,
		int	xchng_meth
	)

Definition at line 1483 of file netpar.cpp.

◆ nrnmpi_splitcell_connect()

int nrnmpi_splitcell_connect ( int that_host )

Definition at line 48 of file splitcell.cpp.

◆ nrnmpi_target_var()

void nrnmpi_target_var ( )

◆ nthrd()

static double nthrd ( void * )

static

Definition at line 868 of file ocbbs.cpp.

◆ number_of_worker_threads()

static double number_of_worker_threads ( void * )

static

Definition at line 880 of file ocbbs.cpp.

◆ optimize_node_order()

static double optimize_node_order ( void * )

static

Definition at line 926 of file ocbbs.cpp.

◆ outputcell()

static double outputcell ( void * v )

static

Definition at line 617 of file ocbbs.cpp.

◆ pack()

static double pack ( void * v )

static

Definition at line 280 of file ocbbs.cpp.

◆ pack_help()

static void pack_help	(	int	i,
		OcBBS *	bbs
	)

static

Definition at line 257 of file ocbbs.cpp.

◆ ParallelContext_reg()

void ParallelContext_reg ( )

Definition at line 1136 of file ocbbs.cpp.

◆ partition()

static double partition ( void * )

static

Definition at line 885 of file ocbbs.cpp.

◆ pctime()

static double pctime ( void * v )

static

Definition at line 443 of file ocbbs.cpp.

◆ post()

static double post ( void * v )

static

Definition at line 286 of file ocbbs.cpp.

◆ prcellstate()

static double prcellstate ( void * v )

static

Definition at line 480 of file ocbbs.cpp.

◆ print_memory_stats()

static double print_memory_stats ( void * )

static

Definition at line 974 of file ocbbs.cpp.

◆ psolve()

static double psolve ( void * v )

static

Definition at line 638 of file ocbbs.cpp.

◆ py_allgather()

static Object** py_allgather ( void * )

static

Definition at line 390 of file ocbbs.cpp.

◆ py_alltoall()

static Object** py_alltoall ( void * )

static

Definition at line 386 of file ocbbs.cpp.

◆ py_alltoall_type()

static Object** py_alltoall_type ( int type )

static

Definition at line 374 of file ocbbs.cpp.

◆ py_broadcast()

static Object** py_broadcast ( void * )

static

Definition at line 398 of file ocbbs.cpp.

◆ py_gather()

static Object** py_gather ( void * )

static

Definition at line 394 of file ocbbs.cpp.

◆ py_scatter()

static Object** py_scatter ( void * )

static

Definition at line 402 of file ocbbs.cpp.

◆ pyret()

static Object** pyret ( void * v )

static

Definition at line 363 of file ocbbs.cpp.

◆ rank_bbs()

static double rank_bbs ( void * v )

static

Definition at line 226 of file ocbbs.cpp.

◆ rank_world()

static double rank_world ( void * v )

static

Definition at line 216 of file ocbbs.cpp.

◆ retval()

static double retval ( void * v )

static

Definition at line 191 of file ocbbs.cpp.

◆ sec_in_thread()

static double sec_in_thread ( void * )

static

Definition at line 934 of file ocbbs.cpp.

◆ send_time()

static double send_time ( void * v )

static

Definition at line 512 of file ocbbs.cpp.

◆ set_gid2node()

static double set_gid2node ( void * v )

static

Definition at line 528 of file ocbbs.cpp.

◆ set_maxstep()

static double set_maxstep ( void * v )

static

Definition at line 654 of file ocbbs.cpp.

◆ set_mpiabort_on_error()

static double set_mpiabort_on_error ( void * )

static

Definition at line 600 of file ocbbs.cpp.

◆ set_timeout()

static double set_timeout ( void * v )

static

Definition at line 591 of file ocbbs.cpp.

◆ setup_transfer()

static double setup_transfer ( void * )

static

Definition at line 707 of file ocbbs.cpp.

◆ source_var()

static double source_var ( void * )

static

Definition at line 690 of file ocbbs.cpp.

◆ spcompress()

static double spcompress ( void * v )

static

Definition at line 551 of file ocbbs.cpp.

◆ spike_record()

static double spike_record ( void * v )

static

Definition at line 624 of file ocbbs.cpp.

◆ spike_stat()

static double spike_stat ( void * v )

static

Definition at line 659 of file ocbbs.cpp.

◆ splitcell_connect()

static double splitcell_connect ( void * v )

static

Definition at line 567 of file ocbbs.cpp.

◆ step_time()

static double step_time ( void * v )

static

Definition at line 490 of file ocbbs.cpp.

◆ step_wait()

static double step_wait ( void * v )

static

Definition at line 498 of file ocbbs.cpp.

◆ submit()

static double submit ( void * v )

static

Definition at line 163 of file ocbbs.cpp.

◆ submit_help()

static int submit_help ( OcBBS * bbs )

static

Definition at line 93 of file ocbbs.cpp.

◆ subworlds()

static double subworlds ( void * v )

static

Definition at line 231 of file ocbbs.cpp.

◆ take()

static double take ( void * v )

static

Definition at line 416 of file ocbbs.cpp.

◆ target_var()

static double target_var ( void * )

static

Definition at line 698 of file ocbbs.cpp.

◆ thread_busywait()

static double thread_busywait ( void * )

static

Definition at line 915 of file ocbbs.cpp.

◆ thread_ctime()

static double thread_ctime ( void * )

static

Definition at line 940 of file ocbbs.cpp.

◆ thread_dt()

static double thread_dt ( void * )

static

Definition at line 961 of file ocbbs.cpp.

◆ thread_how_many_proc()

static double thread_how_many_proc ( void * )

static

Definition at line 920 of file ocbbs.cpp.

◆ thread_stat()

static double thread_stat ( void * )

static

Definition at line 910 of file ocbbs.cpp.

◆ threshold()

static double threshold ( void * v )

static

Definition at line 546 of file ocbbs.cpp.

◆ unpack()

static double unpack ( void * v )

static

Definition at line 321 of file ocbbs.cpp.

◆ unpack_help()

static void unpack_help	(	int	i,
		OcBBS *	bbs
	)

static

Definition at line 300 of file ocbbs.cpp.

◆ upkpyobj()

static Object** upkpyobj ( void * v )

static

Definition at line 355 of file ocbbs.cpp.

◆ upkscalar()

static double upkscalar ( void * v )

static

Definition at line 327 of file ocbbs.cpp.

◆ upkstr()

static const char** upkstr ( void * v )

static

Definition at line 332 of file ocbbs.cpp.

◆ upkvec()

static Object** upkvec ( void * v )

static

Definition at line 341 of file ocbbs.cpp.

◆ userid()

static double userid ( void * v )

static

Definition at line 196 of file ocbbs.cpp.

◆ vtransfer_time()

static double vtransfer_time ( void * v )

static

Definition at line 447 of file ocbbs.cpp.

◆ wait_time()

static double wait_time ( void * v )

static

Definition at line 485 of file ocbbs.cpp.

◆ worker()

static double worker ( void * v )

static

Definition at line 239 of file ocbbs.cpp.

◆ working()

static double working ( void * v )

static

Definition at line 179 of file ocbbs.cpp.

Variable Documentation

◆ members

Member_func members[]

static

Definition at line 1023 of file ocbbs.cpp.

◆ nrn_mech_wtime_

double* nrn_mech_wtime_

extern

Definition at line 38 of file treeset.cpp.

◆ nrn_trajectory_request_per_time_step_

bool nrn_trajectory_request_per_time_step_

extern

Definition at line 106 of file netcvode.cpp.

◆ nrnmpi_rtcomp_time_

double nrnmpi_rtcomp_time_

Definition at line 31 of file ocbbs.cpp.

◆ nrnmpi_step_wait_

double nrnmpi_step_wait_

Definition at line 34 of file ocbbs.cpp.

◆ posting_

bool posting_ = false

static

Definition at line 70 of file ocbbs.cpp.

◆ retobj_members

Member_ret_obj_func retobj_members[]

static

Initial value:

= {{"upkvec", upkvec},
                                               {"gid2obj", gid2obj},
                                               {"gid2cell", gid2cell},
                                               {"gid_connect", gid_connect},
                                               {"get_partition", get_partition},
                                               {"upkpyobj", upkpyobj},
                                               {"pyret", pyret},
                                               {"py_alltoall", py_alltoall},
                                               {"py_allgather", py_allgather},
                                               {"py_gather", py_gather},
                                               {"py_broadcast", py_broadcast},
                                               {"py_scatter", py_scatter},
                                               {0, 0}}

Definition at line 1106 of file ocbbs.cpp.

◆ retstr_members

Member_ret_str_func retstr_members[] = {{"upkstr", upkstr}, {0, 0}}

static

Definition at line 1104 of file ocbbs.cpp.

◆ t

double t

extern

Definition at line 57 of file cvodeobj.cpp.

Classes

Macros

Functions

Variables

Macro Definition Documentation

◆ MD

Function Documentation

◆ allgather()

◆ allreduce()

◆ alltoall()

◆ barrier()

◆ broadcast()

◆ cell()

◆ cons()

◆ context()

◆ destruct()

◆ done()

◆ event_time()

◆ get_partition()

◆ gid2cell()

◆ gid2obj()

◆ gid_clear()

◆ gid_connect()

◆ gid_exists()

◆ hoc_which_template()

◆ integ_time()

◆ key_help()

◆ look()

◆ look_take()

◆ master_works()

◆ maxhist()

◆ mech_time()

◆ multisplit()

◆ nhost()

◆ nhost_bbs()

◆ nhost_world()

◆ nrn_multisend_receive_time()

◆ nrn_prcellstate()

◆ nrn_rank()

◆ nrn_set_timeout()

◆ nrn_thread_t()

◆ nrnbbcore_register_mapping() [1/2]

◆ nrnbbcore_register_mapping() [2/2]

◆ nrncore_is_enabled()

◆ nrncore_is_file_mode()

◆ nrncore_psolve()

◆ nrncore_run()

◆ nrncore_write()

◆ nrncorerun()

◆ nrncorewrite_argappend()

◆ nrncorewrite_argvec()

◆ nrnmpi_char_broadcast()

◆ nrnmpi_dbl_broadcast()

◆ nrnmpi_gid_clear()

◆ nrnmpi_int_broadcast()

◆ nrnmpi_multisplit()

◆ nrnmpi_setup_transfer()

◆ nrnmpi_source_var()

◆ nrnmpi_spike_compress()

◆ nrnmpi_splitcell_connect()

◆ nrnmpi_target_var()

◆ nthrd()

◆ number_of_worker_threads()

◆ optimize_node_order()

◆ outputcell()

◆ pack()

◆ pack_help()

◆ ParallelContext_reg()

◆ partition()

◆ pctime()

◆ post()

◆ prcellstate()

◆ print_memory_stats()

◆ psolve()

◆ py_allgather()

◆ py_alltoall()

◆ py_alltoall_type()

◆ py_broadcast()

◆ py_gather()

◆ py_scatter()