586 lines
15 KiB
C
586 lines
15 KiB
C
/* Created by Language version: 7.7.0 */
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/* VECTORIZED */
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#define NRN_VECTORIZED 1
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#include <stdio.h>
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#include <stdlib.h>
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#include <math.h>
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#include "mech_api.h"
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#undef PI
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#define nil 0
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#include "md1redef.h"
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#include "section.h"
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#include "nrniv_mf.h"
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#include "md2redef.h"
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#if METHOD3
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extern int _method3;
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#endif
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#if !NRNGPU
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#undef exp
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#define exp hoc_Exp
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extern double hoc_Exp(double);
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#endif
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#define nrn_init _nrn_init__Ca_HVA_soma
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#define _nrn_initial _nrn_initial__Ca_HVA_soma
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#define nrn_cur _nrn_cur__Ca_HVA_soma
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#define _nrn_current _nrn_current__Ca_HVA_soma
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#define nrn_jacob _nrn_jacob__Ca_HVA_soma
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#define nrn_state _nrn_state__Ca_HVA_soma
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#define _net_receive _net_receive__Ca_HVA_soma
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#define rates rates__Ca_HVA_soma
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#define states states__Ca_HVA_soma
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#define _threadargscomma_ _p, _ppvar, _thread, _nt,
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#define _threadargsprotocomma_ double* _p, Datum* _ppvar, Datum* _thread, NrnThread* _nt,
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#define _threadargs_ _p, _ppvar, _thread, _nt
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#define _threadargsproto_ double* _p, Datum* _ppvar, Datum* _thread, NrnThread* _nt
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/*SUPPRESS 761*/
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/*SUPPRESS 762*/
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/*SUPPRESS 763*/
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/*SUPPRESS 765*/
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extern double *getarg(int);
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/* Thread safe. No static _p or _ppvar. */
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#define t _nt->_t
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#define dt _nt->_dt
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#define gCa_HVAbar _p[0]
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#define gCa_HVAbar_columnindex 0
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#define ica _p[1]
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#define ica_columnindex 1
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#define m _p[2]
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#define m_columnindex 2
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#define h _p[3]
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#define h_columnindex 3
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#define eca _p[4]
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#define eca_columnindex 4
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#define gCa _p[5]
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#define gCa_columnindex 5
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#define mInf _p[6]
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#define mInf_columnindex 6
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#define mTau _p[7]
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#define mTau_columnindex 7
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#define mAlpha _p[8]
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#define mAlpha_columnindex 8
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#define mBeta _p[9]
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#define mBeta_columnindex 9
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#define hInf _p[10]
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#define hInf_columnindex 10
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#define hTau _p[11]
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#define hTau_columnindex 11
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#define hAlpha _p[12]
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#define hAlpha_columnindex 12
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#define hBeta _p[13]
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#define hBeta_columnindex 13
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#define Dm _p[14]
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#define Dm_columnindex 14
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#define Dh _p[15]
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#define Dh_columnindex 15
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#define v _p[16]
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#define v_columnindex 16
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#define _g _p[17]
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#define _g_columnindex 17
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#define _ion_eca *_ppvar[0]._pval
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#define _ion_ica *_ppvar[1]._pval
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#define _ion_dicadv *_ppvar[2]._pval
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#if MAC
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#if !defined(v)
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#define v _mlhv
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#endif
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#if !defined(h)
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#define h _mlhh
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#endif
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#endif
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#if defined(__cplusplus)
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extern "C" {
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#endif
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static int hoc_nrnpointerindex = -1;
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static Datum* _extcall_thread;
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static Prop* _extcall_prop;
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/* external NEURON variables */
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/* declaration of user functions */
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static void _hoc_rates(void);
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static int _mechtype;
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extern void _nrn_cacheloop_reg(int, int);
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extern void hoc_register_prop_size(int, int, int);
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extern void hoc_register_limits(int, HocParmLimits*);
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extern void hoc_register_units(int, HocParmUnits*);
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extern void nrn_promote(Prop*, int, int);
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extern Memb_func* memb_func;
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#define NMODL_TEXT 1
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#if NMODL_TEXT
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static const char* nmodl_file_text;
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static const char* nmodl_filename;
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extern void hoc_reg_nmodl_text(int, const char*);
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extern void hoc_reg_nmodl_filename(int, const char*);
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#endif
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extern void _nrn_setdata_reg(int, void(*)(Prop*));
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static void _setdata(Prop* _prop) {
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_extcall_prop = _prop;
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}
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static void _hoc_setdata() {
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Prop *_prop, *hoc_getdata_range(int);
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_prop = hoc_getdata_range(_mechtype);
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_setdata(_prop);
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hoc_retpushx(1.);
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}
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/* connect user functions to hoc names */
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static VoidFunc hoc_intfunc[] = {
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"setdata_Ca_HVA_soma", _hoc_setdata,
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"rates_Ca_HVA_soma", _hoc_rates,
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0, 0
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};
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/* declare global and static user variables */
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/* some parameters have upper and lower limits */
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static HocParmLimits _hoc_parm_limits[] = {
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0,0,0
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};
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static HocParmUnits _hoc_parm_units[] = {
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"gCa_HVAbar_Ca_HVA_soma", "S/cm2",
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"ica_Ca_HVA_soma", "mA/cm2",
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0,0
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};
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static double delta_t = 0.01;
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static double h0 = 0;
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static double m0 = 0;
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/* connect global user variables to hoc */
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static DoubScal hoc_scdoub[] = {
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0,0
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};
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static DoubVec hoc_vdoub[] = {
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0,0,0
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};
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static double _sav_indep;
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static void nrn_alloc(Prop*);
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static void nrn_init(NrnThread*, _Memb_list*, int);
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static void nrn_state(NrnThread*, _Memb_list*, int);
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static void nrn_cur(NrnThread*, _Memb_list*, int);
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static void nrn_jacob(NrnThread*, _Memb_list*, int);
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static int _ode_count(int);
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static void _ode_map(int, double**, double**, double*, Datum*, double*, int);
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static void _ode_spec(NrnThread*, _Memb_list*, int);
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static void _ode_matsol(NrnThread*, _Memb_list*, int);
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#define _cvode_ieq _ppvar[3]._i
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static void _ode_matsol_instance1(_threadargsproto_);
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/* connect range variables in _p that hoc is supposed to know about */
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static const char *_mechanism[] = {
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"7.7.0",
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"Ca_HVA_soma",
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"gCa_HVAbar_Ca_HVA_soma",
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0,
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"ica_Ca_HVA_soma",
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0,
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"m_Ca_HVA_soma",
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"h_Ca_HVA_soma",
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0,
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0};
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static Symbol* _ca_sym;
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extern Prop* need_memb(Symbol*);
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static void nrn_alloc(Prop* _prop) {
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Prop *prop_ion;
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double *_p; Datum *_ppvar;
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_p = nrn_prop_data_alloc(_mechtype, 18, _prop);
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/*initialize range parameters*/
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gCa_HVAbar = 0.000459;
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_prop->param = _p;
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_prop->param_size = 18;
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_ppvar = nrn_prop_datum_alloc(_mechtype, 4, _prop);
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_prop->dparam = _ppvar;
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/*connect ionic variables to this model*/
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prop_ion = need_memb(_ca_sym);
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nrn_promote(prop_ion, 0, 1);
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_ppvar[0]._pval = &prop_ion->param[0]; /* eca */
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_ppvar[1]._pval = &prop_ion->param[3]; /* ica */
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_ppvar[2]._pval = &prop_ion->param[4]; /* _ion_dicadv */
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}
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static void _initlists();
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/* some states have an absolute tolerance */
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static Symbol** _atollist;
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static HocStateTolerance _hoc_state_tol[] = {
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0,0
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};
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static void _update_ion_pointer(Datum*);
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extern Symbol* hoc_lookup(const char*);
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extern void _nrn_thread_reg(int, int, void(*)(Datum*));
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extern void _nrn_thread_table_reg(int, void(*)(double*, Datum*, Datum*, NrnThread*, int));
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extern void hoc_register_tolerance(int, HocStateTolerance*, Symbol***);
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extern void _cvode_abstol( Symbol**, double*, int);
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void _Ca_HVA_soma_reg() {
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int _vectorized = 1;
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_initlists();
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ion_reg("ca", -10000.);
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_ca_sym = hoc_lookup("ca_ion");
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register_mech(_mechanism, nrn_alloc,nrn_cur, nrn_jacob, nrn_state, nrn_init, hoc_nrnpointerindex, 1);
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_mechtype = nrn_get_mechtype(_mechanism[1]);
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_nrn_setdata_reg(_mechtype, _setdata);
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_nrn_thread_reg(_mechtype, 2, _update_ion_pointer);
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#if NMODL_TEXT
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hoc_reg_nmodl_text(_mechtype, nmodl_file_text);
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hoc_reg_nmodl_filename(_mechtype, nmodl_filename);
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#endif
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hoc_register_prop_size(_mechtype, 18, 4);
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hoc_register_dparam_semantics(_mechtype, 0, "ca_ion");
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hoc_register_dparam_semantics(_mechtype, 1, "ca_ion");
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hoc_register_dparam_semantics(_mechtype, 2, "ca_ion");
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hoc_register_dparam_semantics(_mechtype, 3, "cvodeieq");
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hoc_register_cvode(_mechtype, _ode_count, _ode_map, _ode_spec, _ode_matsol);
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hoc_register_tolerance(_mechtype, _hoc_state_tol, &_atollist);
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hoc_register_var(hoc_scdoub, hoc_vdoub, hoc_intfunc);
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ivoc_help("help ?1 Ca_HVA_soma /mnt/c/neuron/neurenv/mech/Ca_HVA_soma.mod\n");
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hoc_register_limits(_mechtype, _hoc_parm_limits);
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hoc_register_units(_mechtype, _hoc_parm_units);
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}
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static int _reset;
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static char *modelname = "";
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static int error;
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static int _ninits = 0;
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static int _match_recurse=1;
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static void _modl_cleanup(){ _match_recurse=1;}
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static int rates(_threadargsproto_);
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static int _ode_spec1(_threadargsproto_);
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/*static int _ode_matsol1(_threadargsproto_);*/
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static int _slist1[2], _dlist1[2];
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static int states(_threadargsproto_);
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/*CVODE*/
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static int _ode_spec1 (double* _p, Datum* _ppvar, Datum* _thread, NrnThread* _nt) {int _reset = 0; {
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rates ( _threadargs_ ) ;
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Dm = ( mInf - m ) / mTau ;
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Dh = ( hInf - h ) / hTau ;
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}
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return _reset;
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}
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static int _ode_matsol1 (double* _p, Datum* _ppvar, Datum* _thread, NrnThread* _nt) {
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rates ( _threadargs_ ) ;
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Dm = Dm / (1. - dt*( ( ( ( - 1.0 ) ) ) / mTau )) ;
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Dh = Dh / (1. - dt*( ( ( ( - 1.0 ) ) ) / hTau )) ;
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return 0;
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}
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/*END CVODE*/
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static int states (double* _p, Datum* _ppvar, Datum* _thread, NrnThread* _nt) { {
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rates ( _threadargs_ ) ;
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m = m + (1. - exp(dt*(( ( ( - 1.0 ) ) ) / mTau)))*(- ( ( ( mInf ) ) / mTau ) / ( ( ( ( - 1.0 ) ) ) / mTau ) - m) ;
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h = h + (1. - exp(dt*(( ( ( - 1.0 ) ) ) / hTau)))*(- ( ( ( hInf ) ) / hTau ) / ( ( ( ( - 1.0 ) ) ) / hTau ) - h) ;
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}
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return 0;
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}
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static int rates ( _threadargsproto_ ) {
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if ( ( v == - 27.0 ) ) {
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v = v + 0.0001 ;
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}
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mAlpha = ( 0.055 * ( - 27.0 - v ) ) / ( exp ( ( - 27.0 - v ) / 3.8 ) - 1.0 ) ;
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mBeta = ( 0.94 * exp ( ( - 75.0 - v ) / 17.0 ) ) ;
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mInf = mAlpha / ( mAlpha + mBeta ) ;
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mTau = 1.0 / ( mAlpha + mBeta ) ;
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hAlpha = ( 0.000457 * exp ( ( - 13.0 - v ) / 50.0 ) ) ;
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hBeta = ( 0.0065 / ( exp ( ( - v - 15.0 ) / 28.0 ) + 1.0 ) ) ;
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hInf = hAlpha / ( hAlpha + hBeta ) ;
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hTau = 1.0 / ( hAlpha + hBeta ) ;
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return 0; }
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static void _hoc_rates(void) {
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double _r;
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double* _p; Datum* _ppvar; Datum* _thread; NrnThread* _nt;
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if (_extcall_prop) {_p = _extcall_prop->param; _ppvar = _extcall_prop->dparam;}else{ _p = (double*)0; _ppvar = (Datum*)0; }
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_thread = _extcall_thread;
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_nt = nrn_threads;
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_r = 1.;
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rates ( _p, _ppvar, _thread, _nt );
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hoc_retpushx(_r);
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}
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static int _ode_count(int _type){ return 2;}
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static void _ode_spec(NrnThread* _nt, _Memb_list* _ml, int _type) {
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double* _p; Datum* _ppvar; Datum* _thread;
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Node* _nd; double _v; int _iml, _cntml;
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_cntml = _ml->_nodecount;
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_thread = _ml->_thread;
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for (_iml = 0; _iml < _cntml; ++_iml) {
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_p = _ml->_data[_iml]; _ppvar = _ml->_pdata[_iml];
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_nd = _ml->_nodelist[_iml];
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v = NODEV(_nd);
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eca = _ion_eca;
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_ode_spec1 (_p, _ppvar, _thread, _nt);
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}}
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static void _ode_map(int _ieq, double** _pv, double** _pvdot, double* _pp, Datum* _ppd, double* _atol, int _type) {
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double* _p; Datum* _ppvar;
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int _i; _p = _pp; _ppvar = _ppd;
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_cvode_ieq = _ieq;
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for (_i=0; _i < 2; ++_i) {
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_pv[_i] = _pp + _slist1[_i]; _pvdot[_i] = _pp + _dlist1[_i];
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_cvode_abstol(_atollist, _atol, _i);
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}
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}
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static void _ode_matsol_instance1(_threadargsproto_) {
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_ode_matsol1 (_p, _ppvar, _thread, _nt);
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}
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static void _ode_matsol(NrnThread* _nt, _Memb_list* _ml, int _type) {
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double* _p; Datum* _ppvar; Datum* _thread;
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Node* _nd; double _v; int _iml, _cntml;
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_cntml = _ml->_nodecount;
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_thread = _ml->_thread;
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for (_iml = 0; _iml < _cntml; ++_iml) {
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_p = _ml->_data[_iml]; _ppvar = _ml->_pdata[_iml];
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_nd = _ml->_nodelist[_iml];
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v = NODEV(_nd);
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eca = _ion_eca;
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_ode_matsol_instance1(_threadargs_);
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}}
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extern void nrn_update_ion_pointer(Symbol*, Datum*, int, int);
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static void _update_ion_pointer(Datum* _ppvar) {
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nrn_update_ion_pointer(_ca_sym, _ppvar, 0, 0);
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nrn_update_ion_pointer(_ca_sym, _ppvar, 1, 3);
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nrn_update_ion_pointer(_ca_sym, _ppvar, 2, 4);
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}
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static void initmodel(double* _p, Datum* _ppvar, Datum* _thread, NrnThread* _nt) {
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int _i; double _save;{
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h = h0;
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m = m0;
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{
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rates ( _threadargs_ ) ;
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m = mInf ;
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h = hInf ;
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}
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}
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}
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static void nrn_init(NrnThread* _nt, _Memb_list* _ml, int _type){
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double* _p; Datum* _ppvar; Datum* _thread;
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Node *_nd; double _v; int* _ni; int _iml, _cntml;
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#if CACHEVEC
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_ni = _ml->_nodeindices;
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#endif
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_cntml = _ml->_nodecount;
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_thread = _ml->_thread;
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for (_iml = 0; _iml < _cntml; ++_iml) {
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_p = _ml->_data[_iml]; _ppvar = _ml->_pdata[_iml];
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#if CACHEVEC
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if (use_cachevec) {
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_v = VEC_V(_ni[_iml]);
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}else
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#endif
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{
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_nd = _ml->_nodelist[_iml];
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_v = NODEV(_nd);
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}
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v = _v;
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eca = _ion_eca;
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initmodel(_p, _ppvar, _thread, _nt);
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}
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}
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static double _nrn_current(double* _p, Datum* _ppvar, Datum* _thread, NrnThread* _nt, double _v){double _current=0.;v=_v;{ {
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gCa = gCa_HVAbar * m * m * h ;
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ica = gCa * ( v - eca ) ;
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}
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_current += ica;
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} return _current;
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}
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static void nrn_cur(NrnThread* _nt, _Memb_list* _ml, int _type) {
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double* _p; Datum* _ppvar; Datum* _thread;
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Node *_nd; int* _ni; double _rhs, _v; int _iml, _cntml;
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#if CACHEVEC
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_ni = _ml->_nodeindices;
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#endif
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_cntml = _ml->_nodecount;
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_thread = _ml->_thread;
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for (_iml = 0; _iml < _cntml; ++_iml) {
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_p = _ml->_data[_iml]; _ppvar = _ml->_pdata[_iml];
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#if CACHEVEC
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if (use_cachevec) {
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_v = VEC_V(_ni[_iml]);
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}else
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#endif
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{
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_nd = _ml->_nodelist[_iml];
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_v = NODEV(_nd);
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}
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eca = _ion_eca;
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_g = _nrn_current(_p, _ppvar, _thread, _nt, _v + .001);
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{ double _dica;
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_dica = ica;
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_rhs = _nrn_current(_p, _ppvar, _thread, _nt, _v);
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_ion_dicadv += (_dica - ica)/.001 ;
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}
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_g = (_g - _rhs)/.001;
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_ion_ica += ica ;
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#if CACHEVEC
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if (use_cachevec) {
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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) {
|
|
double* _p; Datum* _ppvar; Datum* _thread;
|
|
Node *_nd; double _v = 0.0; 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];
|
|
_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;
|
|
{
|
|
eca = _ion_eca;
|
|
{ states(_p, _ppvar, _thread, _nt);
|
|
} }}
|
|
|
|
}
|
|
|
|
static void terminal(){}
|
|
|
|
static void _initlists(){
|
|
double _x; double* _p = &_x;
|
|
int _i; static int _first = 1;
|
|
if (!_first) return;
|
|
_slist1[0] = m_columnindex; _dlist1[0] = Dm_columnindex;
|
|
_slist1[1] = h_columnindex; _dlist1[1] = Dh_columnindex;
|
|
_first = 0;
|
|
}
|
|
|
|
#if defined(__cplusplus)
|
|
} /* extern "C" */
|
|
#endif
|
|
|
|
#if NMODL_TEXT
|
|
static const char* nmodl_filename = "/mnt/c/neuron/neurenv/mech/Ca_HVA_soma.mod";
|
|
static const char* nmodl_file_text =
|
|
":Comment : L6\n"
|
|
":Reference : : Reuveni, Friedman, Amitai, and Gutnick, J.Neurosci. 1993\n"
|
|
"\n"
|
|
"NEURON {\n"
|
|
" SUFFIX Ca_HVA_soma\n"
|
|
" USEION ca READ eca WRITE ica\n"
|
|
" RANGE gCa_HVAbar, gCa_HVA, ica \n"
|
|
"}\n"
|
|
"\n"
|
|
"UNITS {\n"
|
|
" (S) = (siemens)\n"
|
|
" (mV) = (millivolt)\n"
|
|
" (mA) = (milliamp)\n"
|
|
"}\n"
|
|
"\n"
|
|
"PARAMETER {\n"
|
|
" gCa_HVAbar = 0.000459 (S/cm2) \n"
|
|
"}\n"
|
|
"\n"
|
|
"ASSIGNED {\n"
|
|
" v (mV)\n"
|
|
" eca (mV)\n"
|
|
" ica (mA/cm2)\n"
|
|
" gCa (S/cm2)\n"
|
|
" mInf\n"
|
|
" mTau\n"
|
|
" mAlpha\n"
|
|
" mBeta\n"
|
|
" hInf\n"
|
|
" hTau\n"
|
|
" hAlpha\n"
|
|
" hBeta\n"
|
|
"}\n"
|
|
"\n"
|
|
"STATE { \n"
|
|
" m\n"
|
|
" h\n"
|
|
"}\n"
|
|
"\n"
|
|
"BREAKPOINT {\n"
|
|
" SOLVE states METHOD cnexp\n"
|
|
" gCa = gCa_HVAbar*m*m*h\n"
|
|
" ica = gCa*(v-eca)\n"
|
|
"}\n"
|
|
"\n"
|
|
"DERIVATIVE states {\n"
|
|
" rates()\n"
|
|
" m' = (mInf-m)/mTau\n"
|
|
" h' = (hInf-h)/hTau\n"
|
|
"}\n"
|
|
"\n"
|
|
"INITIAL{\n"
|
|
" rates()\n"
|
|
" m = mInf\n"
|
|
" h = hInf\n"
|
|
"}\n"
|
|
"\n"
|
|
"PROCEDURE rates(){\n"
|
|
" UNITSOFF\n"
|
|
" if((v == -27) ){ \n"
|
|
" v = v+0.0001\n"
|
|
" }\n"
|
|
" mAlpha = (0.055*(-27-v))/(exp((-27-v)/3.8) - 1) \n"
|
|
" mBeta = (0.94*exp((-75-v)/17))\n"
|
|
" mInf = mAlpha/(mAlpha + mBeta)\n"
|
|
" mTau = 1/(mAlpha + mBeta)\n"
|
|
" hAlpha = (0.000457*exp((-13-v)/50))\n"
|
|
" hBeta = (0.0065/(exp((-v-15)/28)+1))\n"
|
|
" hInf = hAlpha/(hAlpha + hBeta)\n"
|
|
" hTau = 1/(hAlpha + hBeta)\n"
|
|
" UNITSON\n"
|
|
"}\n"
|
|
;
|
|
#endif
|