KCa.c

/* Created by Language version: 7.7.0 */
/* VECTORIZED */
#define NRN_VECTORIZED 1
#include <stdio.h>
#include <stdlib.h>
#include <math.h>
#include "mech_api.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__KCa
#define _nrn_initial _nrn_initial__KCa
#define nrn_cur _nrn_cur__KCa
#define _nrn_current _nrn_current__KCa
#define nrn_jacob _nrn_jacob__KCa
#define nrn_state _nrn_state__KCa
#define _net_receive _net_receive__KCa 
 
#define _threadargscomma_ _p, _ppvar, _thread, _nt,
#define _threadargsprotocomma_ double* _p, Datum* _ppvar, Datum* _thread, NrnThread* _nt,
#define _threadargs_ _p, _ppvar, _thread, _nt
#define _threadargsproto_ double* _p, Datum* _ppvar, Datum* _thread, NrnThread* _nt
 	/*SUPPRESS 761*/
	/*SUPPRESS 762*/
	/*SUPPRESS 763*/
	/*SUPPRESS 765*/
	 extern double *getarg();
 /* Thread safe. No static _p or _ppvar. */
 
#define t _nt->_t
#define dt _nt->_dt
#define gkcabar _p[0]
#define gkcabar_columnindex 0
#define ik _p[1]
#define ik_columnindex 1
#define i _p[2]
#define i_columnindex 2
#define g _p[3]
#define g_columnindex 3
#define ek _p[4]
#define ek_columnindex 4
#define cai _p[5]
#define cai_columnindex 5
#define v _p[6]
#define v_columnindex 6
#define _g _p[7]
#define _g_columnindex 7
#define _ion_cai	*_ppvar[0]._pval
#define _ion_ek	*_ppvar[1]._pval
#define _ion_ik	*_ppvar[2]._pval
#define _ion_dikdv	*_ppvar[3]._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;
 static Datum* _extcall_thread;
 static Prop* _extcall_prop;
 /* external NEURON variables */
 /* declaration of user functions */
 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) {
 _extcall_prop = _prop;
 }
 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_KCa", _hoc_setdata,
 0, 0
};
 /* declare global and static user variables */
#define Kd Kd_KCa
 double Kd = 0.0005;
 /* some parameters have upper and lower limits */
 static HocParmLimits _hoc_parm_limits[] = {
 0,0,0
};
 static HocParmUnits _hoc_parm_units[] = {
 "Kd_KCa", "mM",
 "gkcabar_KCa", "S/cm2",
 "ik_KCa", "mA/cm2",
 "i_KCa", "mA/cm2",
 "g_KCa", "S/cm2",
 0,0
};
 /* connect global user variables to hoc */
 static DoubScal hoc_scdoub[] = {
 "Kd_KCa", &Kd_KCa,
 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);
 /* connect range variables in _p that hoc is supposed to know about */
 static const char *_mechanism[] = {
 "7.7.0",
"KCa",
 "gkcabar_KCa",
 0,
 "ik_KCa",
 "i_KCa",
 "g_KCa",
 0,
 0,
 0};
 static Symbol* _ca_sym;
 static Symbol* _k_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, 8, _prop);
 	/*initialize range parameters*/
 	gkcabar = 0.02;
 	_prop->param = _p;
 	_prop->param_size = 8;
 	_ppvar = nrn_prop_datum_alloc(_mechtype, 4, _prop);
 	_prop->dparam = _ppvar;
 	/*connect ionic variables to this model*/
 prop_ion = need_memb(_ca_sym);
 nrn_promote(prop_ion, 1, 0);
 	_ppvar[0]._pval = &prop_ion->param[1]; /* cai */
 prop_ion = need_memb(_k_sym);
 nrn_promote(prop_ion, 0, 1);
 	_ppvar[1]._pval = &prop_ion->param[0]; /* ek */
 	_ppvar[2]._pval = &prop_ion->param[3]; /* ik */
 	_ppvar[3]._pval = &prop_ion->param[4]; /* _ion_dikdv */
 
}
 static void _initlists();
 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 _KCa_reg() {
	int _vectorized = 1;
  _initlists();
 	ion_reg("ca", -10000.);
 	ion_reg("k", -10000.);
 	_ca_sym = hoc_lookup("ca_ion");
 	_k_sym = hoc_lookup("k_ion");
 	register_mech(_mechanism, nrn_alloc,nrn_cur, nrn_jacob, nrn_state, nrn_init, hoc_nrnpointerindex, 1);
 _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, 8, 4);
  hoc_register_dparam_semantics(_mechtype, 0, "ca_ion");
  hoc_register_dparam_semantics(_mechtype, 1, "k_ion");
  hoc_register_dparam_semantics(_mechtype, 2, "k_ion");
  hoc_register_dparam_semantics(_mechtype, 3, "k_ion");
 	hoc_register_var(hoc_scdoub, hoc_vdoub, hoc_intfunc);
 	ivoc_help("help ?1 KCa KCa.mod\n");
 hoc_register_limits(_mechtype, _hoc_parm_limits);
 hoc_register_units(_mechtype, _hoc_parm_units);
 }
static int _reset;
static char *modelname = "Ca activated potassium channel";

static int error;
static int _ninits = 0;
static int _match_recurse=1;
static void _modl_cleanup(){ _match_recurse=1;}
 extern void nrn_update_ion_pointer(Symbol*, Datum*, int, int);
 static void _update_ion_pointer(Datum* _ppvar) {
   nrn_update_ion_pointer(_ca_sym, _ppvar, 0, 1);
   nrn_update_ion_pointer(_k_sym, _ppvar, 1, 0);
   nrn_update_ion_pointer(_k_sym, _ppvar, 2, 3);
   nrn_update_ion_pointer(_k_sym, _ppvar, 3, 4);
 }

static void initmodel(double* _p, Datum* _ppvar, Datum* _thread, NrnThread* _nt) {
  int _i; double _save;{
 {
   ik = 0.0 ;
   }

}
}

static void nrn_init(NrnThread* _nt, _Memb_list* _ml, int _type){
double* _p; Datum* _ppvar; Datum* _thread;
Node *_nd; double _v; int* _ni; int _iml, _cntml;
#if CACHEVEC
    _ni = _ml->_nodeindices;
#endif
_cntml = _ml->_nodecount;
_thread = _ml->_thread;
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;
  cai = _ion_cai;
  ek = _ion_ek;
 initmodel(_p, _ppvar, _thread, _nt);
 }
}

static double _nrn_current(double* _p, Datum* _ppvar, Datum* _thread, NrnThread* _nt, double _v){double _current=0.;v=_v;{ {
   g = gkcabar * ( cai / ( cai + Kd ) ) ;
   i = g * ( v - ek ) ;
   ik = i ;
   }
 _current += ik;

} return _current;
}

static void nrn_cur(NrnThread* _nt, _Memb_list* _ml, int _type) {
double* _p; Datum* _ppvar; Datum* _thread;
Node *_nd; int* _ni; double _rhs, _v; int _iml, _cntml;
#if CACHEVEC
    _ni = _ml->_nodeindices;
#endif
_cntml = _ml->_nodecount;
_thread = _ml->_thread;
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);
  }
  cai = _ion_cai;
  ek = _ion_ek;
 _g = _nrn_current(_p, _ppvar, _thread, _nt, _v + .001);
 	{ double _dik;
  _dik = ik;
 _rhs = _nrn_current(_p, _ppvar, _thread, _nt, _v);
  _ion_dikdv += (_dik - ik)/.001 ;
 	}
 _g = (_g - _rhs)/.001;
  _ion_ik += ik ;
#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) {
double* _p; Datum* _ppvar; Datum* _thread;
Node *_nd; int* _ni; int _iml, _cntml;
#if CACHEVEC
    _ni = _ml->_nodeindices;
#endif
_cntml = _ml->_nodecount;
_thread = _ml->_thread;
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) {

}

static void terminal(){}

static void _initlists(){
 double _x; double* _p = &_x;
 int _i; static int _first = 1;
  if (!_first) return;
_first = 0;
}

#if defined(__cplusplus)
} /* extern "C" */
#endif

#if NMODL_TEXT
static const char* nmodl_filename = "KCa.mod";
static const char* nmodl_file_text = 
  "COMMENT\n"
  "Take from Kim (2017). Obtained from ModelDB (McDougal et al., 2017; accession  number 235769)\n"
  "\n"
  "- Kim, H. (2017). Muscle length-dependent contribution of motoneuron Cav1.3 channels to force production in model slow motor unit. Journal of Applied Physiology, 123(1). https://doi.org/10.1152/japplphysiol.00491.2016\n"
  "\n"
  "- McDougal, R. A., Morse, T. M., Carnevale, T., Marenco, L., Wang, R., Migliore, M., Miller, P. L., Shepherd, G. M., & Hines, M. L. (2017). Twenty years of ModelDB and beyond: building essential modeling tools for the future of neuroscience. In Journal of Computational Neuroscience (Vol. 42, Issue 1). https://doi.org/10.1007/s10827-016-0623-7\n"
  "\n"
  "ENDCOMMENT\n"
  "\n"
  "\n"
  "TITLE Ca activated potassium channel\n"
  "\n"
  "NEURON {\n"
  "	SUFFIX KCa\n"
  "	USEION ca READ cai\n"
  "	USEION k READ ek WRITE ik\n"
  "	RANGE gkcabar, ik, i, g\n"
  "}\n"
  "\n"
  "UNITS {\n"
  "	(mV)	=	(millivolt)\n"
  "	(mA)	=	(milliamp)\n"
  "	(molar)	=	(1/liter)\n"
  "	(mM)	=	(millimolar)\n"
  "	(S)	=	(siemens)\n"
  "}\n"
  "\n"
  "PARAMETER {\n"
  "	gkcabar = 0.02		(S/cm2)\n"
  "	Kd		= 0.0005		(mM)\n"
  "}\n"
  "\n"
  "ASSIGNED {\n"
  "	ik			(mA/cm2)\n"
  "	v			(mV)\n"
  "	ek			(mV)\n"
  "	cai			(mM)\n"
  "	i			(mA/cm2)\n"
  "	g			(S/cm2)\n"
  "}\n"
  "\n"
  "INITIAL {\n"
  "	ik = 0\n"
  "}\n"
  "\n"
  "BREAKPOINT {\n"
  "	g = gkcabar * (cai/(cai+Kd))\n"
  "	i = g * (v - ek)\n"
  "	ik = i\n"
  "}\n"
  "\n"
  "\n"
  ;
#endif