/* Created by Language version: 7.7.0 */
/* NOT VECTORIZED */
#define NRN_VECTORIZED 0
#include <stdio.h>
#include <stdlib.h>
#include <math.h>
#include "scoplib_ansi.h"
#undef PI
#define nil 0
#include "md1redef.h"
#include "section.h"
#include "nrniv_mf.h"
#include "md2redef.h"
#if METHOD3
extern int _method3;
#endif
#if !NRNGPU
#undef exp
#define exp hoc_Exp
extern double hoc_Exp(double);
#endif
#define nrn_init _nrn_init__naz
#define _nrn_initial _nrn_initial__naz
#define nrn_cur _nrn_cur__naz
#define _nrn_current _nrn_current__naz
#define nrn_jacob _nrn_jacob__naz
#define nrn_state _nrn_state__naz
#define _net_receive _net_receive__naz
#define rates rates__naz
#define states states__naz
#define _threadargscomma_ /**/
#define _threadargsprotocomma_ /**/
#define _threadargs_ /**/
#define _threadargsproto_ /**/
/*SUPPRESS 761*/
/*SUPPRESS 762*/
/*SUPPRESS 763*/
/*SUPPRESS 765*/
extern double *getarg();
static double *_p; static Datum *_ppvar;
#define t nrn_threads->_t
#define dt nrn_threads->_dt
#define gmax _p[0]
#define i _p[1]
#define gna _p[2]
#define m _p[3]
#define h _p[4]
#define ina _p[5]
#define ena _p[6]
#define Dm _p[7]
#define Dh _p[8]
#define _g _p[9]
#define _ion_ena *_ppvar[0]._pval
#define _ion_ina *_ppvar[1]._pval
#define _ion_dinadv *_ppvar[2]._pval
#if MAC
#if !defined(v)
#define v _mlhv
#endif
#if !defined(h)
#define h _mlhh
#endif
#endif
#if defined(__cplusplus)
extern "C" {
#endif
static int hoc_nrnpointerindex = -1;
/* external NEURON variables */
extern double celsius;
/* declaration of user functions */
static void _hoc_rates(void);
static void _hoc_trap0(void);
static int _mechtype;
extern void _nrn_cacheloop_reg(int, int);
extern void hoc_register_prop_size(int, int, int);
extern void hoc_register_limits(int, HocParmLimits*);
extern void hoc_register_units(int, HocParmUnits*);
extern void nrn_promote(Prop*, int, int);
extern Memb_func* memb_func;
#define NMODL_TEXT 1
#if NMODL_TEXT
static const char* nmodl_file_text;
static const char* nmodl_filename;
extern void hoc_reg_nmodl_text(int, const char*);
extern void hoc_reg_nmodl_filename(int, const char*);
#endif
extern void _nrn_setdata_reg(int, void(*)(Prop*));
static void _setdata(Prop* _prop) {
_p = _prop->param; _ppvar = _prop->dparam;
}
static void _hoc_setdata() {
Prop *_prop, *hoc_getdata_range(int);
_prop = hoc_getdata_range(_mechtype);
_setdata(_prop);
hoc_retpushx(1.);
}
/* connect user functions to hoc names */
static VoidFunc hoc_intfunc[] = {
"setdata_naz", _hoc_setdata,
"rates_naz", _hoc_rates,
"trap0_naz", _hoc_trap0,
0, 0
};
#define trap0 trap0_naz
extern double trap0( double , double , double , double );
/* declare global and static user variables */
#define Rg Rg_naz
double Rg = 0.0091;
#define Rd Rd_naz
double Rd = 0.024;
#define Rb Rb_naz
double Rb = 0.124;
#define Ra Ra_naz
double Ra = 0.182;
#define htau htau_naz
double htau = 0;
#define hinf hinf_naz
double hinf = 0;
#define mtau mtau_naz
double mtau = 0;
#define minf minf_naz
double minf = 0;
#define q10 q10_naz
double q10 = 2.3;
#define qinf qinf_naz
double qinf = 6.2;
#define qi qi_naz
double qi = 5;
#define qa qa_naz
double qa = 9;
#define tadj tadj_naz
double tadj = 0;
#define temp temp_naz
double temp = 23;
#define thinf thinf_naz
double thinf = -65;
#define thi2 thi2_naz
double thi2 = -75;
#define thi1 thi1_naz
double thi1 = -50;
#define tha tha_naz
double tha = -35;
#define vshift vshift_naz
double vshift = -10;
#define vmax vmax_naz
double vmax = 100;
#define vmin vmin_naz
double vmin = -120;
/* some parameters have upper and lower limits */
static HocParmLimits _hoc_parm_limits[] = {
0,0,0
};
static HocParmUnits _hoc_parm_units[] = {
"vshift_naz", "mV",
"tha_naz", "mV",
"qa_naz", "mV",
"Ra_naz", "/ms",
"Rb_naz", "/ms",
"thi1_naz", "mV",
"thi2_naz", "mV",
"qi_naz", "mV",
"thinf_naz", "mV",
"qinf_naz", "mV",
"Rg_naz", "/ms",
"Rd_naz", "/ms",
"temp_naz", "degC",
"vmin_naz", "mV",
"vmax_naz", "mV",
"mtau_naz", "ms",
"htau_naz", "ms",
"gmax_naz", "pS/um2",
"i_naz", "mA/cm2",
"gna_naz", "pS/um2",
0,0
};
static double delta_t = 1;
static double h0 = 0;
static double m0 = 0;
static double v = 0;
/* connect global user variables to hoc */
static DoubScal hoc_scdoub[] = {
"vshift_naz", &vshift_naz,
"tha_naz", &tha_naz,
"qa_naz", &qa_naz,
"Ra_naz", &Ra_naz,
"Rb_naz", &Rb_naz,
"thi1_naz", &thi1_naz,
"thi2_naz", &thi2_naz,
"qi_naz", &qi_naz,
"thinf_naz", &thinf_naz,
"qinf_naz", &qinf_naz,
"Rg_naz", &Rg_naz,
"Rd_naz", &Rd_naz,
"temp_naz", &temp_naz,
"q10_naz", &q10_naz,
"vmin_naz", &vmin_naz,
"vmax_naz", &vmax_naz,
"minf_naz", &minf_naz,
"hinf_naz", &hinf_naz,
"mtau_naz", &mtau_naz,
"htau_naz", &htau_naz,
"tadj_naz", &tadj_naz,
0,0
};
static DoubVec hoc_vdoub[] = {
0,0,0
};
static double _sav_indep;
static void nrn_alloc(Prop*);
static void nrn_init(_NrnThread*, _Memb_list*, int);
static void nrn_state(_NrnThread*, _Memb_list*, int);
static void nrn_cur(_NrnThread*, _Memb_list*, int);
static void nrn_jacob(_NrnThread*, _Memb_list*, int);
static int _ode_count(int);
static void _ode_map(int, double**, double**, double*, Datum*, double*, int);
static void _ode_spec(_NrnThread*, _Memb_list*, int);
static void _ode_matsol(_NrnThread*, _Memb_list*, int);
#define _cvode_ieq _ppvar[3]._i
static void _ode_matsol_instance1(_threadargsproto_);
/* connect range variables in _p that hoc is supposed to know about */
static const char *_mechanism[] = {
"7.7.0",
"naz",
"gmax_naz",
0,
"i_naz",
"gna_naz",
0,
"m_naz",
"h_naz",
0,
0};
static Symbol* _na_sym;
extern Prop* need_memb(Symbol*);
static void nrn_alloc(Prop* _prop) {
Prop *prop_ion;
double *_p; Datum *_ppvar;
_p = nrn_prop_data_alloc(_mechtype, 10, _prop);
/*initialize range parameters*/
gmax = 1000;
_prop->param = _p;
_prop->param_size = 10;
_ppvar = nrn_prop_datum_alloc(_mechtype, 4, _prop);
_prop->dparam = _ppvar;
/*connect ionic variables to this model*/
prop_ion = need_memb(_na_sym);
nrn_promote(prop_ion, 0, 1);
_ppvar[0]._pval = &prop_ion->param[0]; /* ena */
_ppvar[1]._pval = &prop_ion->param[3]; /* ina */
_ppvar[2]._pval = &prop_ion->param[4]; /* _ion_dinadv */
}
static void _initlists();
/* some states have an absolute tolerance */
static Symbol** _atollist;
static HocStateTolerance _hoc_state_tol[] = {
0,0
};
static void _update_ion_pointer(Datum*);
extern Symbol* hoc_lookup(const char*);
extern void _nrn_thread_reg(int, int, void(*)(Datum*));
extern void _nrn_thread_table_reg(int, void(*)(double*, Datum*, Datum*, _NrnThread*, int));
extern void hoc_register_tolerance(int, HocStateTolerance*, Symbol***);
extern void _cvode_abstol( Symbol**, double*, int);
void _naz_reg() {
int _vectorized = 0;
_initlists();
ion_reg("na", -10000.);
_na_sym = hoc_lookup("na_ion");
register_mech(_mechanism, nrn_alloc,nrn_cur, nrn_jacob, nrn_state, nrn_init, hoc_nrnpointerindex, 0);
_mechtype = nrn_get_mechtype(_mechanism[1]);
_nrn_setdata_reg(_mechtype, _setdata);
_nrn_thread_reg(_mechtype, 2, _update_ion_pointer);
#if NMODL_TEXT
hoc_reg_nmodl_text(_mechtype, nmodl_file_text);
hoc_reg_nmodl_filename(_mechtype, nmodl_filename);
#endif
hoc_register_prop_size(_mechtype, 10, 4);
hoc_register_dparam_semantics(_mechtype, 0, "na_ion");
hoc_register_dparam_semantics(_mechtype, 1, "na_ion");
hoc_register_dparam_semantics(_mechtype, 2, "na_ion");
hoc_register_dparam_semantics(_mechtype, 3, "cvodeieq");
hoc_register_cvode(_mechtype, _ode_count, _ode_map, _ode_spec, _ode_matsol);
hoc_register_tolerance(_mechtype, _hoc_state_tol, &_atollist);
hoc_register_var(hoc_scdoub, hoc_vdoub, hoc_intfunc);
ivoc_help("help ?1 naz /Users/salvadord/Documents/ISB/Models/M1_NetPyNE_CellReports_2023/sim/mod/naz.mod\n");
hoc_register_limits(_mechtype, _hoc_parm_limits);
hoc_register_units(_mechtype, _hoc_parm_units);
}
static double _zmexp , _zhexp ;
static int _reset;
static char *modelname = "";
static int error;
static int _ninits = 0;
static int _match_recurse=1;
static void _modl_cleanup(){ _match_recurse=1;}
static int rates(double);
static int _ode_spec1(_threadargsproto_);
/*static int _ode_matsol1(_threadargsproto_);*/
static int _slist1[2], _dlist1[2];
static int states(_threadargsproto_);
/*CVODE*/
static int _ode_spec1 () {_reset=0;
{
rates ( _threadargscomma_ v + vshift ) ;
Dm = ( minf - m ) / mtau ;
Dh = ( hinf - h ) / htau ;
}
return _reset;
}
static int _ode_matsol1 () {
rates ( _threadargscomma_ v + vshift ) ;
Dm = Dm / (1. - dt*( ( ( ( - 1.0 ) ) ) / mtau )) ;
Dh = Dh / (1. - dt*( ( ( ( - 1.0 ) ) ) / htau )) ;
return 0;
}
/*END CVODE*/
static int states () {_reset=0;
{
rates ( _threadargscomma_ v + vshift ) ;
m = m + (1. - exp(dt*(( ( ( - 1.0 ) ) ) / mtau)))*(- ( ( ( minf ) ) / mtau ) / ( ( ( ( - 1.0 ) ) ) / mtau ) - m) ;
h = h + (1. - exp(dt*(( ( ( - 1.0 ) ) ) / htau)))*(- ( ( ( hinf ) ) / htau ) / ( ( ( ( - 1.0 ) ) ) / htau ) - h) ;
}
return 0;
}
static int rates ( double _lvm ) {
double _la , _lb ;
_la = trap0 ( _threadargscomma_ _lvm , tha , Ra , qa ) ;
_lb = trap0 ( _threadargscomma_ - _lvm , - tha , Rb , qa ) ;
mtau = 1.0 / tadj / ( _la + _lb ) ;
minf = _la / ( _la + _lb ) ;
_la = trap0 ( _threadargscomma_ _lvm , thi1 , Rd , qi ) ;
_lb = trap0 ( _threadargscomma_ _lvm , thi2 , - Rg , - qi ) ;
htau = 1.0 / tadj / ( _la + _lb ) ;
hinf = 1.0 / ( 1.0 + exp ( ( _lvm - thinf ) / qinf ) ) ;
return 0; }
static void _hoc_rates(void) {
double _r;
_r = 1.;
rates ( *getarg(1) );
hoc_retpushx(_r);
}
double trap0 ( double _lv , double _lth , double _la , double _lq ) {
double _ltrap0;
if ( fabs ( _lv - _lth ) > 1e-6 ) {
_ltrap0 = _la * ( _lv - _lth ) / ( 1.0 - exp ( - ( _lv - _lth ) / _lq ) ) ;
}
else {
_ltrap0 = _la * _lq ;
}
return _ltrap0;
}
static void _hoc_trap0(void) {
double _r;
_r = trap0 ( *getarg(1) , *getarg(2) , *getarg(3) , *getarg(4) );
hoc_retpushx(_r);
}
static int _ode_count(int _type){ return 2;}
static void _ode_spec(_NrnThread* _nt, _Memb_list* _ml, int _type) {
Datum* _thread;
Node* _nd; double _v; int _iml, _cntml;
_cntml = _ml->_nodecount;
_thread = _ml->_thread;
for (_iml = 0; _iml < _cntml; ++_iml) {
_p = _ml->_data[_iml]; _ppvar = _ml->_pdata[_iml];
_nd = _ml->_nodelist[_iml];
v = NODEV(_nd);
ena = _ion_ena;
_ode_spec1 ();
}}
static void _ode_map(int _ieq, double** _pv, double** _pvdot, double* _pp, Datum* _ppd, double* _atol, int _type) {
int _i; _p = _pp; _ppvar = _ppd;
_cvode_ieq = _ieq;
for (_i=0; _i < 2; ++_i) {
_pv[_i] = _pp + _slist1[_i]; _pvdot[_i] = _pp + _dlist1[_i];
_cvode_abstol(_atollist, _atol, _i);
}
}
static void _ode_matsol_instance1(_threadargsproto_) {
_ode_matsol1 ();
}
static void _ode_matsol(_NrnThread* _nt, _Memb_list* _ml, int _type) {
Datum* _thread;
Node* _nd; double _v; int _iml, _cntml;
_cntml = _ml->_nodecount;
_thread = _ml->_thread;
for (_iml = 0; _iml < _cntml; ++_iml) {
_p = _ml->_data[_iml]; _ppvar = _ml->_pdata[_iml];
_nd = _ml->_nodelist[_iml];
v = NODEV(_nd);
ena = _ion_ena;
_ode_matsol_instance1(_threadargs_);
}}
extern void nrn_update_ion_pointer(Symbol*, Datum*, int, int);
static void _update_ion_pointer(Datum* _ppvar) {
nrn_update_ion_pointer(_na_sym, _ppvar, 0, 0);
nrn_update_ion_pointer(_na_sym, _ppvar, 1, 3);
nrn_update_ion_pointer(_na_sym, _ppvar, 2, 4);
}
static void initmodel() {
int _i; double _save;_ninits++;
_save = t;
t = 0.0;
{
h = h0;
m = m0;
{
tadj = pow( q10 , ( ( celsius - temp ) / 10.0 ) ) ;
rates ( _threadargscomma_ v + vshift ) ;
m = minf ;
h = hinf ;
}
_sav_indep = t; t = _save;
}
}
static void nrn_init(_NrnThread* _nt, _Memb_list* _ml, int _type){
Node *_nd; double _v; int* _ni; int _iml, _cntml;
#if CACHEVEC
_ni = _ml->_nodeindices;
#endif
_cntml = _ml->_nodecount;
for (_iml = 0; _iml < _cntml; ++_iml) {
_p = _ml->_data[_iml]; _ppvar = _ml->_pdata[_iml];
#if CACHEVEC
if (use_cachevec) {
_v = VEC_V(_ni[_iml]);
}else
#endif
{
_nd = _ml->_nodelist[_iml];
_v = NODEV(_nd);
}
v = _v;
ena = _ion_ena;
initmodel();
}}
static double _nrn_current(double _v){double _current=0.;v=_v;{ {
gna = tadj * gmax * m * m * m * h ;
i = ( 1e-4 ) * gna * ( v - ena ) ;
ina = i ;
}
_current += ina;
} return _current;
}
static void nrn_cur(_NrnThread* _nt, _Memb_list* _ml, int _type){
Node *_nd; int* _ni; double _rhs, _v; int _iml, _cntml;
#if CACHEVEC
_ni = _ml->_nodeindices;
#endif
_cntml = _ml->_nodecount;
for (_iml = 0; _iml < _cntml; ++_iml) {
_p = _ml->_data[_iml]; _ppvar = _ml->_pdata[_iml];
#if CACHEVEC
if (use_cachevec) {
_v = VEC_V(_ni[_iml]);
}else
#endif
{
_nd = _ml->_nodelist[_iml];
_v = NODEV(_nd);
}
ena = _ion_ena;
_g = _nrn_current(_v + .001);
{ double _dina;
_dina = ina;
_rhs = _nrn_current(_v);
_ion_dinadv += (_dina - ina)/.001 ;
}
_g = (_g - _rhs)/.001;
_ion_ina += ina ;
#if CACHEVEC
if (use_cachevec) {
VEC_RHS(_ni[_iml]) -= _rhs;
}else
#endif
{
NODERHS(_nd) -= _rhs;
}
}}
static void nrn_jacob(_NrnThread* _nt, _Memb_list* _ml, int _type){
Node *_nd; int* _ni; int _iml, _cntml;
#if CACHEVEC
_ni = _ml->_nodeindices;
#endif
_cntml = _ml->_nodecount;
for (_iml = 0; _iml < _cntml; ++_iml) {
_p = _ml->_data[_iml];
#if CACHEVEC
if (use_cachevec) {
VEC_D(_ni[_iml]) += _g;
}else
#endif
{
_nd = _ml->_nodelist[_iml];
NODED(_nd) += _g;
}
}}
static void nrn_state(_NrnThread* _nt, _Memb_list* _ml, int _type){
Node *_nd; double _v = 0.0; int* _ni; int _iml, _cntml;
#if CACHEVEC
_ni = _ml->_nodeindices;
#endif
_cntml = _ml->_nodecount;
for (_iml = 0; _iml < _cntml; ++_iml) {
_p = _ml->_data[_iml]; _ppvar = _ml->_pdata[_iml];
_nd = _ml->_nodelist[_iml];
#if CACHEVEC
if (use_cachevec) {
_v = VEC_V(_ni[_iml]);
}else
#endif
{
_nd = _ml->_nodelist[_iml];
_v = NODEV(_nd);
}
v=_v;
{
ena = _ion_ena;
{ error = states();
if(error){fprintf(stderr,"at line 96 in file naz.mod:\n SOLVE states METHOD cnexp\n"); nrn_complain(_p); abort_run(error);}
} }}
}
static void terminal(){}
static void _initlists() {
int _i; static int _first = 1;
if (!_first) return;
_slist1[0] = &(m) - _p; _dlist1[0] = &(Dm) - _p;
_slist1[1] = &(h) - _p; _dlist1[1] = &(Dh) - _p;
_first = 0;
}
#if NMODL_TEXT
static const char* nmodl_filename = "/Users/salvadord/Documents/ISB/Models/M1_NetPyNE_CellReports_2023/sim/mod/naz.mod";
static const char* nmodl_file_text =
": $Id: naz.mod,v 1.8 2004/07/27 18:41:01 billl Exp $\n"
"\n"
"COMMENT\n"
"26 Ago 2002 Modification of original channel to allow variable time step and to\n"
" correct an initialization error.\n"
"Done by Michael Hines(michael.hines@yale.e) and Ruggero\n"
" Scorcioni(rscorcio@gmu.edu) at EU Advance Course in Computational\n"
" Neuroscience. Obidos, Portugal\n"
"\n"
"na.mod\n"
"\n"
"Sodium channel, Hodgkin-Huxley style kinetics. \n"
"\n"
"Kinetics were fit to data from Huguenard et al. (1988) and Hamill et\n"
"al. (1991)\n"
"\n"
"qi is not well constrained by the data, since there are no points\n"
"between -80 and -55. So this was fixed at 5 while the thi1,thi2,Rg,Rd\n"
"were optimized using a simplex least square proc\n"
"\n"
"voltage dependencies are shifted approximately from the best\n"
"fit to give higher threshold\n"
"\n"
"Author: Zach Mainen, Salk Institute, 1994, zach@salk.edu\n"
"\n"
"ENDCOMMENT\n"
"\n"
"INDEPENDENT {t FROM 0 TO 1 WITH 1 (ms)}\n"
"\n"
"NEURON {\n"
" SUFFIX naz\n"
" USEION na READ ena WRITE ina\n"
" RANGE m, h, gna, gmax, i\n"
" GLOBAL tha, thi1, thi2, qa, qi, qinf, thinf\n"
" GLOBAL minf, hinf, mtau, htau\n"
" GLOBAL Ra, Rb, Rd, Rg\n"
" GLOBAL q10, temp, tadj, vmin, vmax, vshift\n"
"}\n"
"\n"
"PARAMETER {\n"
" gmax = 1000 (pS/um2) : 0.12 mho/cm2\n"
" vshift = -10 (mV) : voltage shift (affects all)\n"
" \n"
" tha = -35 (mV) : v 1/2 for act (-42)\n"
" qa = 9 (mV) : act slope \n"
" Ra = 0.182 (/ms) : open (v) \n"
" Rb = 0.124 (/ms) : close (v) \n"
"\n"
" thi1 = -50 (mV) : v 1/2 for inact \n"
" thi2 = -75 (mV) : v 1/2 for inact \n"
" qi = 5 (mV) : inact tau slope\n"
" thinf = -65 (mV) : inact inf slope \n"
" qinf = 6.2 (mV) : inact inf slope\n"
" Rg = 0.0091 (/ms) : inact (v) \n"
" Rd = 0.024 (/ms) : inact recov (v) \n"
"\n"
" temp = 23 (degC) : original temp \n"
" q10 = 2.3 : temperature sensitivity\n"
"\n"
" v (mV)\n"
" dt (ms)\n"
" celsius (degC)\n"
" vmin = -120 (mV)\n"
" vmax = 100 (mV)\n"
"}\n"
"\n"
"\n"
"UNITS {\n"
" (mA) = (milliamp)\n"
" (mV) = (millivolt)\n"
" (pS) = (picosiemens)\n"
" (um) = (micron)\n"
"} \n"
"\n"
"ASSIGNED {\n"
" ina (mA/cm2)\n"
" i (mA/cm2)\n"
" gna (pS/um2)\n"
" ena (mV)\n"
" minf hinf\n"
" mtau (ms) htau (ms)\n"
" tadj\n"
"}\n"
"\n"
"\n"
"STATE { m h }\n"
"\n"
"INITIAL { \n"
" tadj = q10^((celsius - temp)/10)\n"
" rates(v+vshift)\n"
" m = minf\n"
" h = hinf\n"
"}\n"
"\n"
"BREAKPOINT {\n"
" SOLVE states METHOD cnexp\n"
" gna = tadj*gmax*m*m*m*h\n"
" i = (1e-4) * gna * (v - ena)\n"
" ina = i\n"
"} \n"
"\n"
"LOCAL mexp, hexp \n"
"\n"
"DERIVATIVE states { :Computes state variables m, h, and n \n"
" rates(v+vshift) : at the current v and dt.\n"
" m' = (minf-m)/mtau\n"
" h' = (hinf-h)/htau\n"
"}\n"
"\n"
"PROCEDURE rates(vm) { \n"
" LOCAL a, b\n"
"\n"
" a = trap0(vm,tha,Ra,qa)\n"
" b = trap0(-vm,-tha,Rb,qa)\n"
"\n"
" mtau = 1/tadj/(a+b)\n"
" minf = a/(a+b)\n"
"\n"
" :\"h\" inactivation \n"
"\n"
" a = trap0(vm,thi1,Rd,qi)\n"
" b = trap0(vm,thi2,-Rg,-qi)\n"
" htau = 1/tadj/(a+b)\n"
" hinf = 1/(1+exp((vm-thinf)/qinf))\n"
"}\n"
"\n"
"\n"
"FUNCTION trap0(v,th,a,q) {\n"
" if (fabs(v-th) > 1e-6) {\n"
" trap0 = a * (v - th) / (1 - exp(-(v - th)/q))\n"
" } else {\n"
" trap0 = a * q\n"
" }\n"
"} \n"
;
#endif