cabcode.c File Reference

#include <../../nrnconf.h>
#include <stdio.h>
#include <math.h>
#include <nrnpython_config.h>
#include "section.h"
#include "membfunc.h"
#include "parse.h"

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Defines
#define	HOC_L_LIST   1
#define	symlist   hoc_symlist
#define	NSECSTACK   200
#define	CAB_SIZE   10
#define	PI   3.14159265358979323846
#define	relative(pc)   (pc + (pc)->i)
Functions
Object **	hoc_objgetarg ()
Symbol *	hoc_table_lookup ()
void	sec_free ()
void	section_order ()
Prop *	prop_alloc ()
char *	secname ()
Section *	nrn_sec_pop ()
Node *	node_ptr ()
double *	nrn_vext_pd ()
double *	dprop ()
double *	nrnpy_dprop ()
double	chkarg ()
double	nrn_section_orientation ()
double	nrn_connection_position ()
Prop *	nrn_mechanism ()
Prop *	nrn_mechanism_check ()
Object *	nrn_sec2cell (Section *)
int	nrn_sec2cell_equals (Section *, Object *)
char *	hoc_object_name ()
double	hoc_opasgn ()
	nrn_isecstack ()
	nrn_secstack (int i)
	nrn_initcode ()
	oc_save_cabcode (int *a1, int *a2)
	oc_restore_cabcode (int *a1, int *a2)
	nrn_pushsec (Section *sec)
	nrn_popsec ()
	sec_access_pop ()
	add_section ()
	new_sections (Object *ob, Symbol *sym, Item **pitm, int size)
	delete_section ()
double	section_length (Section *sec)
int	arc0at0 (Section *sec)
double	nrn_ra (Section *sec)
	cab_alloc (Prop *p)
	morph_alloc (Prop *p)
double	nrn_diameter (Node *nd)
	nrn_chk_section (Symbol *s)
Section *	chk_access ()
	if (!sec)
	if (sec->prop)
else	execerror ("Accessing a deleted section",(char *) 0)
Section *	nrn_noerr_access ()
char *	secname (Section *sec)
int	section_owner ()
char *	hoc_section_pathname (Section *sec)
double	nrn_arc_position (Section *sec, Node *node)
char *	sec_and_position (Section *sec, Node *nd)
int	segment_limits (double *pdx)
Node *	node_exact (Section *sec, double x)
Node *	node_ptr (Section *sec, double x, double *parea)
int	nrn_get_mechtype (char *mechname)
double *	dprop (Symbol *s, int indx, Section *sec, short inode)
double *	nrnpy_dprop (Symbol *s, int indx, Section *sec, short inode, int *err)
	forall_section ()
	hoc_ifsec ()
	issection ()
	ismembrane ()
char *	secaccessname ()
	sectionname ()
	hoc_secname ()
	this_section ()
	this_node ()
	parent_section ()
	parent_connection ()
	section_orientation ()
	parent_node ()
	pop_section ()
	hoc_level_pushsec (Section *sec)
	push_section ()
	ret (1.0)
	section_exists ()
Variables
Object *	hoc_thisobject
Objectdata *	hoc_top_level_data
Symlist *	hoc_top_level_symlist
int	hoc_execerror_messages
Symlist *	symlist
int	tree_changed = 1
int	diam_changed = 1
int	nrn_shape_changed_
int	v_structure_change = 1
char *(*	nrnpy_pysec_name_p_ )(Section *)
Object *(*	nrnpy_pysec_cell_p_ )(Section *)
int(*	nrnpy_pysec_cell_equals_p_ )(Section *, Object *)
int	state_discon_allowed_
	section_object_seen
*	sec
int	type
Symbol *	s
double *	pd
int	op
Node *	nd
	inode
int	indx
Node *	node
double	d
int *	err
double	x
int	n

---

Define Documentation

#define CAB_SIZE   10

Referenced by cab_alloc().

#define HOC_L_LIST   1

#define NSECSTACK   200

Referenced by nrn_pushsec().

#define PI   3.14159265358979323846

#define relative

(

pc

)

(pc + (pc)->i)

#define symlist   hoc_symlist

---

Function Documentation

add_section

(

)

References Symbol::arayinfo, assert, emalloc, hoc_arayinfo_install(), hoc_freearay(), hoc_install_object_data_index(), hoc_objectdata, hoc_thisobject, hoc_top_level_data, hoc_total_array(), i, Item, Symbol::name, new_sections(), Symbol::oboff, OPSECITM, pc, sec_free(), Arrayinfo::sub, Symbol::type, and Symbol::u.

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int arc0at0

(

Section*

sec

)

Referenced by nrn_arc_position().

cab_alloc

(

Prop *

p

)

References CAB_SIZE, CABLESECTION, DEF_L, DEF_Ra, DEF_rallbranch, nrn_prop_datum_alloc(), pd, and Datum::val.

Referenced by hoc_last_init().

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Section* chk_access

(

)

References ForAllSections, Section::prop, and Section::refcount.

Referenced by area(), LinearMechanism::create(), delete_section(), distance(), fclamp(), fstim(), fsyn(), hoc_construct_point(), hoc_ifsec(), hoc_ifseclist(), hoc_secname(), ismembrane(), issection(), loc_point_process(), MultiSplitControl::multisplit(), nernst(), nrn_vecsim_add(), nrniv_len_scale(), nrniv_sh_color(), nrnmpi_splitcell_connect(), nrnpy_cas(), parent_connection(), parent_node(), parent_section(), MechanismType::pp_begin(), psection(), ri(), secaccessname(), section_orientation(), section_owner(), sectionname(), segment_limits(), special_pnt_call(), this_node(), and this_section().

double chkarg

(

)

delete_section

(

)

References chk_access(), Prop::dparam, hoc_execerror(), hoc_top_level_data, Datum::i, Item, Datum::obj, Symbol::oboff, Section::prop, ret, sec_free(), Datum::sym, and Symbol::u.

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double* dprop	(	Symbol *	s,
		int	indx,
		Section*	sec,
		short	inode
	)

References Prop::dparam, hoc_execerror(), nrn_mechanism_check(), NRNPOINTER, Prop::ob, Prop::param, Section::pnode, and Prop::type.

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double* dprop

(

)

else execerror	(	"Accessing a deleted section"	,
		(char *)	0
	)

forall_section

(

)

References buf, hoc_execute(), hoc_regexp_compile(), hoc_regexp_search(), hoc_returning, hoc_strpop(), hoc_thisobject, hocSEC, Item, hoc_Item::next, nrn_isecstack(), nrn_popsec(), nrn_pushsec(), nrn_secstack(), pc, relative, secname(), and section_list.

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hoc_ifsec

(

)

References buf, chk_access(), hoc_execute(), hoc_regexp_compile(), hoc_regexp_search(), hoc_returning, hoc_strpop(), pc, relative, and secname().

Referenced by debugzz(), and hoc_ifseclist().

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hoc_level_pushsec

(

Section*

sec

)

References nrn_pushsec().

Referenced by get_loc_point_process().

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char* hoc_object_name

(

)

Object** hoc_objgetarg

(

)

double hoc_opasgn

(

)

hoc_secname

(

)

References buf, chk_access(), hoc_pushstr(), hoc_ret(), and secname().

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char* hoc_section_pathname

(

Section*

sec

)

References hoc_araystr(), hoc_object_pathname(), hoc_objectdata, hoc_warning(), Symbol::name, name, secname(), Sprintf, Symbol::sym, and Symbol::u.

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Symbol* hoc_table_lookup

(

)

if

(

sec->

prop

)

if

(

!

sec

)

Referenced by SaveState::allocnet(), bbs_done(), SaveState::checknet(), clear_point_process_struct(), debugzz(), hoc_get_symbol(), hoc_getsym(), hoc_object_component(), hoc_vsscanf(), ivoc_alias_lookup(), ivoc_free_alias(), ivoc_list_item(), SymDirectoryImpl::load_aliases(), nrn_relocate_old_points(), nrniv_recalc_ptrs(), KSChan::nsingle(), point_process_pointer(), and MechanismType::pp_next().

ismembrane

(

)

References chk_access(), gargstr(), memb_func, Symbol::name, Prop::next, ret, Memb_func::sym, and Prop::type.

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issection

(

)

References chk_access(), gargstr(), hoc_regexp_compile(), hoc_regexp_search(), ret, and secname().

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morph_alloc

(

Prop *

p

)

References DEF_diam, diam_changed, MORPHOLOGY, nrn_prop_data_alloc(), and pd.

Referenced by hoc_last_init().

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new_sections	(	Object*	ob,
		Symbol*	sym,
		Item**	pitm,
		int	size
	)

References Prop::dparam, insertsec(), Datum::itm, lappendsec(), Section::prop, and section_list.

Referenced by add_section(), and hoc_newobj1().

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Node* node_exact	(	Section *	sec,
		double	x
	)

References assert, int, node, node_index(), setup_topology(), and tree_changed.

Referenced by LinearMechanism::create(), distance(), hoc_construct_point(), Imp::loc(), loc_point_process(), MultiSplitControl::multisplit(), node_ptr(), special_pnt_call(), and this_node().

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Node* node_ptr	(	Section *	sec,
		double	x,
		double *	parea
	)

References node_exact(), NODEAREA, nrn_area_ri(), Section::recalc_area_, and Node::sec.

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Node* node_ptr

(

)

Referenced by area(), clamp_prepare(), and ri().

double nrn_arc_position	(	Section *	sec,
		Node*	node
	)

References arc0at0(), assert, and Node::sec_node_index_.

Referenced by get_loc_point_process(), SymDirectoryImpl::load_section(), nrn_complain(), nrn_loc_point_process(), nrn_relocate_old_points(), and sec_and_position().

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nrn_chk_section

(

Symbol *

s

)

References execerror.

double nrn_connection_position

(

)

Referenced by dashes(), and parent_connection().

double nrn_diameter

(

Node*

nd

)

References MORPHOLOGY, nrn_mechanism(), and Prop::param.

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int nrn_get_mechtype

(

char*

mechname

)

References assert, hoc_lookup(), hoc_table_lookup(), Symbol::subtype, Symbol::template, Symbol::type, and Symbol::u.

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nrn_initcode

(

)

References nrn_popsec(), section_object_seen, and state_discon_allowed_.

Referenced by initcode().

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nrn_isecstack

(

)

Referenced by call(), forall_section(), forall_sectionlist(), forcode(), hoc_iterator_stmt(), and shortfor().

Prop* nrn_mechanism

(

)

Referenced by MechanismStandard::in(), nrn_diameter(), nrnpy_dprop(), and MechanismStandard::out().

Prop* nrn_mechanism_check

(

)

Referenced by dprop().

Section* nrn_noerr_access

(

)

References ForAllSections, Section::prop, and Section::refcount.

nrn_popsec

(

)

References Prop::dparam, Symbol::name, Section::prop, Section::refcount, sec, and Datum::sym.

Referenced by forall_section(), forall_sectionlist(), SymDirectoryImpl::load_section(), nrn_initcode(), nrn_secstack(), oc_restore_cabcode(), pop_section(), and sec_access_pop().

nrn_pushsec

(

Section *

sec

)

References fprintf(), hoc_execerror(), hoc_warning(), i, NSECSTACK, and secname().

Referenced by forall_section(), forall_sectionlist(), hoc_level_pushsec(), hoc_object_component(), SymDirectoryImpl::load_section(), nrniv_sh_push(), and nrnpy_pushsec().

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double nrn_ra

(

Section*

sec

)

References Prop::dparam, Section::prop, and Datum::val.

Referenced by nrn_area_ri(), and psection().

Object * nrn_sec2cell

(

Section *

sec

)

References Prop::dparam, nrnpy_pysec_cell_p_, Datum::obj, and Section::prop.

Referenced by BBS::gid2cell(), BBS::gid2obj(), and section_owner().

int nrn_sec2cell_equals	(	Section *	sec,
		Object *	obj
	)

References Prop::dparam, nrnpy_pysec_cell_equals_p_, Datum::obj, and Section::prop.

Section* nrn_sec_pop

(

)

Referenced by hoc_ob_pointer(), hoc_object_asgn(), and hoc_object_eval().

nrn_secstack

(

int

i

)

References hoc_warning(), nrn_popsec(), and secname().

Referenced by call(), forall_section(), forall_sectionlist(), forcode(), hoc_iterator_stmt(), and shortfor().

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double nrn_section_orientation

(

)

Referenced by dashes(), and section_orientation().

double* nrn_vext_pd

(

)

double* nrnpy_dprop	(	Symbol *	s,
		int	indx,
		Section*	sec,
		short	inode,
		int*	err
	)

References buf, Prop::dparam, hoc_object_name(), hoc_thisobject, nrn_mechanism(), NRNPOINTER, Prop::ob, Prop::param, Section::pnode, Sprintf, and Prop::type.

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double* nrnpy_dprop

(

)

oc_restore_cabcode	(	int *	a1,
		int *	a2
	)

References nrn_popsec(), and section_object_seen.

Referenced by OcJumpImpl::restore().

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oc_save_cabcode	(	int *	a1,
		int *	a2
	)

References section_object_seen.

Referenced by OcJumpImpl::begin().

parent_connection

(

)

References chk_access(), nrn_connection_position(), and ret.

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parent_node

(

)

References chk_access(), hoc_execerror(), Section::parentnode, and ret.

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parent_section

(

)

References chk_access(), Section::parentsec, and ret.

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pop_section

(

)

References nrn_popsec(), and ret.

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Prop* prop_alloc

(

)

Referenced by hoc_register_tolerance(), need_memb(), KSChan::needion(), nrn_loc_point_process(), NrnProperty::NrnProperty(), and prop_alloc_disallow().

push_section

(

)

References ForAllSections, gargstr(), hoc_execerror(), hoc_is_str_arg(), Item, and secname().

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ret

(

1.

0

)

sec_access_pop

(

)

References nrn_popsec().

Referenced by debugzz().

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char* sec_and_position	(	Section*	sec,
		Node*	nd
	)

References assert, buf, nrn_arc_position(), and secname().

Referenced by nrnallpointmenu().

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void sec_free

(

)

Referenced by add_section(), and delete_section().

char* secaccessname

(

)

References chk_access(), and secname().

Referenced by prexpr().

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char* secname

(

Section *

sec

)

References assert, hoc_araystr(), hoc_object_name(), hoc_top_level_data, Symbol::name, name, nrnpy_pysec_name_p_, PROP_PY_INDEX, Sprintf, Symbol::sym, and Symbol::u.

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char* secname

(

)

Referenced by dashes(), MultiSplitControl::exchange_setup(), for(), forall_section(), hoc_ifsec(), hoc_secname(), hoc_section_pathname(), issection(), MultiSplitControl::multisplit(), nrn_area_ri(), nrn_complain(), nrn_errno_check(), nrn_pushsec(), nrn_relocate_old_points(), nrn_secstack(), nrn_sectionref_steer(), nrnmpi_splitcell_connect(), MultiSplitControl::pexch(), MultiSplitControl::pmat(), MultiSplitControl::pmatf(), ReducedTree::pr_map(), print_clamp(), print_stim(), print_syn(), MultiSplitControl::prstruct(), psection(), push_section(), sec_and_position(), secaccessname(), sectionname(), and MultiSplitThread::v_setup().

section_exists

(

)

References buf, chkarg(), gargstr(), hoc_is_double_arg(), hoc_objgetarg(), hoc_table_lookup(), hoc_top_level_data, hoc_total_array_data(), ifarg(), int, Item, Symbol::oboff, Section::prop, Symbol::public, ret, Symbol::sym, Symbol::type, and Symbol::u.

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double section_length

(

Section*

sec

)

References e, and x.

Referenced by node_dist(), nrn_area_ri(), and psection().

void section_order

(

)

References ForAllSections, Section::order, order, and section_count.

section_orientation

(

)

References chk_access(), nrn_section_orientation(), and ret.

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int section_owner

(

)

References chk_access(), hoc_push_object(), hoc_ret(), and nrn_sec2cell().

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sectionname

(

)

References buf, chk_access(), hoc_assign_str(), hoc_pgargstr(), ret, and secname().

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int segment_limits

(

double *

pdx

)

References chk_access(), and Section::nnode.

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this_node

(

)

References chk_access(), getarg(), node_exact(), and ret.

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this_section

(

)

References chk_access(), and ret.

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---

Variable Documentation

double d

Referenced by SaveState::allocnet(), SaveState::checknet(), distance(), MyMath::distance_to_line(), OcFile::file_chooser_popup(), Fprint(), Fscan(), hoc_asgn_obj_to_str(), hoc_atan2(), hoc_call_objfunc(), hoc_ob_pointer(), hoc_obj_look_inside_stack(), hoc_object_asgn(), hoc_object_component(), hoc_object_eval(), hoc_scan(), hoc_vsscanf(), isaac64_init(), MyMath::near_line(), nrniv_sh_nearest(), nrniv_sh_push(), nrnpy_hoc_pop(), StmtInfo::parse(), MultiSplitControl::pmat1(), PRintf(), SaveState::restoreacell(), SaveState::restorenet(), ropen(), SaveState::saveacell(), SaveState::savenet(), System(), topol_distance(), BBS::upkdouble(), wopen(), Xred(), and yylex().

diam_changed = 1

Referenced by MultiSplitControl::exchange_setup(), fadvance(), fcurrent(), morph_alloc(), nrn_area_ri(), nrn_lhs(), nrn_matrix_node_free(), nrn_rhs(), nrn_shape_update(), nrn_threads_create(), recalc_diam(), and verify_structure().

int* err

Referenced by HocCommand::exec_strret(), HocCommand::execute(), fit_praxis(), hoc_exec_cmd(), hoc_obj_run(), main(), moreinput(), NonLinImpRep::NonLinImpRep(), nrn_matrix_node_alloc(), nrn_solve(), setneuronhome(), and KSChan::setupmat().

int hoc_execerror_messages

Referenced by hoc_execute1().

Object* hoc_thisobject

Objectdata* hoc_top_level_data

Symlist* hoc_top_level_symlist

int indx

Referenced by register_mech().

short inode

Referenced by SaveState::alloc(), MultiSplitControl::exchange_setup(), for(), neuron2nemo(), node_dist(), nrn_print_matrix(), SaveState::read(), SaveState::restore(), SaveState::save(), SaveState::ssfree(), and SaveState::write().

int n

Node* nd

Referenced by SaveState::alloc(), connection_coef(), NonLinImpRep::dids(), NonLinImpRep::didv(), NonLinImpRep::dsds(), NonLinImpRep::dsdv(), MultiSplitControl::exchange_setup(), for(), ForAllSections(), hoc_construct_point(), KSChan::ion_consist(), SymDirectoryImpl::load_section(), Imp::loc(), MultiSplitControl::multisplit(), N_VMinQuotient_NrnSerialLD(), NonLinImpRep::NonLinImpRep(), nrn_area_ri(), nrn_lhs(), nrn_print_matrix(), nrn_rhs(), NonLinImpRep::ode(), ReducedTree::pr_map(), MultiSplitControl::prstruct(), SaveState::restore(), SaveState::save(), KSChan::state_consist(), LinearModelAddition::v2y(), and MultiSplitThread::v_setup().

Node* node

Referenced by distance(), loc_point_process(), node_exact(), special_pnt_call(), and MultiSplitThread::v_setup().

nrn_shape_changed_

int(* nrnpy_pysec_cell_equals_p_)(Section *, Object *)

Referenced by nrn_sec2cell_equals(), and nrnpy_nrn().

Object*(* nrnpy_pysec_cell_p_)(Section *)

Referenced by nrn_sec2cell(), and nrnpy_nrn().

char*(* nrnpy_pysec_name_p_)(Section *)

Referenced by nrnpy_nrn(), and secname().

int op

Referenced by argassign(), assign(), hoc_argrefasgn(), hoc_object_asgn(), nrn_update_ion_pointer(), and nrniv_recalc_ptrs().

double * pd

Referenced by cab_alloc(), declarePtrList(), hoc_argref(), hoc_argrefarg(), hoc_argrefasgn(), hoc_object_asgn(), hoc_object_component(), morph_alloc(), nrn_partrans_update_ptrs(), nrn_prop_data_alloc(), nrniv_recalc_ptrs(), point_process_pointer(), HocDataPathImpl::search(), HocDataPathImpl::search_vectors(), and LinearMechanism::update_ptrs().

Symbol * s

Referenced by bgp_dma_receive(), call_ob_proc(), class2oc(), NonLinImpRep::current(), NonLinImpRep::delta(), NonLinImpRep::dids(), NonLinImpRep::dsds(), NonLinImpRep::dsdv(), BBSImpl::execute(), HocCommand::func_call(), MechanismStandard::get(), SingleChan::get_rates(), hoc_edit_quit(), hoc_endtemplate(), hoc_execstr(), hoc_free_allobjects(), hoc_getsym(), hoc_install_var(), hoc_last_init(), hoc_Lw(), hoc_newobj(), hoc_newobj1(), hoc_object_name(), hoc_register_var(), hoc_spinit(), hoc_vsscanf(), init(), ion_charge(), ion_reg(), ion_register(), java2nrn_class(), SymDirectoryImpl::load_aliases(), SymDirectoryImpl::load_object(), BBSLocalServer::look_take(), MechanismStandard::MechanismStandard(), MechanismType::menu(), OcFile::mktemp(), MultiSplitControl::multisplit(), MechanismStandard::name(), ncyg_fprintf(), nernst(), NonLinImpRep::NonLinImpRep(), nonvint(), nrn_finitialize(), nrn_lhs(), nrn_modeltype(), nrn_rhs(), nrn_sec_ref(), nrn_sectionref_steer(), nrn_vecsim_add(), nrn_version(), nrnglobalmechmenu(), NrnHashIterate(), nrniv_sh_observe(), nrniv_sh_push(), nrniv_sh_rotate(), nrnpython_reg_real(), objectpath(), NonLinImpRep::ode(), SingleChanState::rate(), register_mech(), MultiSplitControl::rt_map_update(), SectionRef_reg(), MechanismStandard::set(), SingleChan::set_rates(), setneuronhome(), SaveState::ssi_def(), SingleChan::state_transition(), stralloc(), BBSImpl::subworld_worker_execute(), tstkchk_actual(), BBSLocal::upkpickle(), BBS::upkpickle(), BBSLocal::upkstr(), BBS::upkstr(), and yylex().

Section* sec

section_object_seen

Referenced by hoc_object_component(), nrn_initcode(), oc_restore_cabcode(), and oc_save_cabcode().

int state_discon_allowed_

Referenced by fcurrent(), nrn_finitialize(), nrn_initcode(), and state_discontinuity().

Symlist* symlist

tree_changed = 1

Referenced by batch_run(), Imp::check(), connection_coef(), distance(), fadvance(), fcurrent(), neuron2nemo(), node_exact(), nrn_cachevec(), nrn_shape_update(), section_unlink(), topol_distance(), and verify_structure().

int type

v_structure_change = 1

Referenced by batch_run(), Imp::check(), fadvance(), fcurrent(), nrn_matrix_node_alloc(), nrn_shape_update(), nrn_thread_partition(), nrn_threads_create(), nrnmpi_setup_transfer(), prop_alloc(), single_prop_free(), KSChan::state_consist(), and verify_structure().

double x