658 lines
22 KiB
C++
658 lines
22 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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#define _pval pval
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// clang-format off
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#include "md1redef.h"
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#include "section_fwd.hpp"
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#include "nrniv_mf.h"
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#include "md2redef.h"
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#include "nrnconf.h"
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// clang-format on
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#include "neuron/cache/mechanism_range.hpp"
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static constexpr auto number_of_datum_variables = 3;
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static constexpr auto number_of_floating_point_variables = 18;
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namespace {
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template <typename T>
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using _nrn_mechanism_std_vector = std::vector<T>;
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using _nrn_model_sorted_token = neuron::model_sorted_token;
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using _nrn_mechanism_cache_range = neuron::cache::MechanismRange<number_of_floating_point_variables, number_of_datum_variables>;
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using _nrn_mechanism_cache_instance = neuron::cache::MechanismInstance<number_of_floating_point_variables, number_of_datum_variables>;
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using _nrn_non_owning_id_without_container = neuron::container::non_owning_identifier_without_container;
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template <typename T>
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using _nrn_mechanism_field = neuron::mechanism::field<T>;
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template <typename... Args>
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void _nrn_mechanism_register_data_fields(Args&&... args) {
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neuron::mechanism::register_data_fields(std::forward<Args>(args)...);
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}
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}
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#if !NRNGPU
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#undef exp
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#define exp hoc_Exp
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#if NRN_ENABLE_ARCH_INDEP_EXP_POW
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#undef pow
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#define pow hoc_pow
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#endif
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#endif
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#define nrn_init _nrn_init__NaTs2_t
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#define _nrn_initial _nrn_initial__NaTs2_t
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#define nrn_cur _nrn_cur__NaTs2_t
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#define _nrn_current _nrn_current__NaTs2_t
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#define nrn_jacob _nrn_jacob__NaTs2_t
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#define nrn_state _nrn_state__NaTs2_t
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#define _net_receive _net_receive__NaTs2_t
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#define rates rates__NaTs2_t
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#define states states__NaTs2_t
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#define _threadargscomma_ _ml, _iml, _ppvar, _thread, _globals, _nt,
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#define _threadargsprotocomma_ Memb_list* _ml, size_t _iml, Datum* _ppvar, Datum* _thread, double* _globals, NrnThread* _nt,
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#define _internalthreadargsprotocomma_ _nrn_mechanism_cache_range* _ml, size_t _iml, Datum* _ppvar, Datum* _thread, double* _globals, NrnThread* _nt,
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#define _threadargs_ _ml, _iml, _ppvar, _thread, _globals, _nt
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#define _threadargsproto_ Memb_list* _ml, size_t _iml, Datum* _ppvar, Datum* _thread, double* _globals, NrnThread* _nt
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#define _internalthreadargsproto_ _nrn_mechanism_cache_range* _ml, size_t _iml, Datum* _ppvar, Datum* _thread, double* _globals, 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 *hoc_getarg(int);
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#define t _nt->_t
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#define dt _nt->_dt
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#define gNaTs2_tbar _ml->template fpfield<0>(_iml)
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#define gNaTs2_tbar_columnindex 0
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#define ina _ml->template fpfield<1>(_iml)
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#define ina_columnindex 1
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#define gNaTs2_t _ml->template fpfield<2>(_iml)
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#define gNaTs2_t_columnindex 2
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#define m _ml->template fpfield<3>(_iml)
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#define m_columnindex 3
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#define h _ml->template fpfield<4>(_iml)
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#define h_columnindex 4
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#define ena _ml->template fpfield<5>(_iml)
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#define ena_columnindex 5
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#define mInf _ml->template fpfield<6>(_iml)
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#define mInf_columnindex 6
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#define mTau _ml->template fpfield<7>(_iml)
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#define mTau_columnindex 7
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#define mAlpha _ml->template fpfield<8>(_iml)
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#define mAlpha_columnindex 8
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#define mBeta _ml->template fpfield<9>(_iml)
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#define mBeta_columnindex 9
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#define hInf _ml->template fpfield<10>(_iml)
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#define hInf_columnindex 10
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#define hTau _ml->template fpfield<11>(_iml)
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#define hTau_columnindex 11
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#define hAlpha _ml->template fpfield<12>(_iml)
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#define hAlpha_columnindex 12
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#define hBeta _ml->template fpfield<13>(_iml)
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#define hBeta_columnindex 13
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#define Dm _ml->template fpfield<14>(_iml)
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#define Dm_columnindex 14
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#define Dh _ml->template fpfield<15>(_iml)
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#define Dh_columnindex 15
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#define v _ml->template fpfield<16>(_iml)
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#define v_columnindex 16
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#define _g _ml->template fpfield<17>(_iml)
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#define _g_columnindex 17
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#define _ion_ena *(_ml->dptr_field<0>(_iml))
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#define _p_ion_ena static_cast<neuron::container::data_handle<double>>(_ppvar[0])
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#define _ion_ina *(_ml->dptr_field<1>(_iml))
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#define _p_ion_ina static_cast<neuron::container::data_handle<double>>(_ppvar[1])
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#define _ion_dinadv *(_ml->dptr_field<2>(_iml))
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/* Thread safe. No static _ml, _iml or _ppvar. */
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static int hoc_nrnpointerindex = -1;
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static _nrn_mechanism_std_vector<Datum> _extcall_thread;
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static Prop* _extcall_prop;
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/* _prop_id kind of shadows _extcall_prop to allow validity checking. */
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static _nrn_non_owning_id_without_container _prop_id{};
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/* external NEURON variables */
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extern double celsius;
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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_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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#define NMODL_TEXT 1
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#if NMODL_TEXT
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static void register_nmodl_text_and_filename(int mechtype);
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#endif
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static void _hoc_setdata();
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/* connect user functions to hoc names */
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static VoidFunc hoc_intfunc[] = {
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{"setdata_NaTs2_t", _hoc_setdata},
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{"rates_NaTs2_t", _hoc_rates},
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{0, 0}
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};
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/* Direct Python call wrappers to density mechanism functions.*/
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static double _npy_rates(Prop*);
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static NPyDirectMechFunc npy_direct_func_proc[] = {
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{"rates", _npy_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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#define gind 0
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#define _gth 0
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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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{"gNaTs2_tbar_NaTs2_t", "S/cm2"},
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{"ina_NaTs2_t", "mA/cm2"},
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{"gNaTs2_t_NaTs2_t", "S/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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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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_prop_id = _nrn_get_prop_id(_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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static void nrn_alloc(Prop*);
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static void nrn_init(_nrn_model_sorted_token const&, NrnThread*, Memb_list*, int);
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static void nrn_state(_nrn_model_sorted_token const&, NrnThread*, Memb_list*, int);
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static void nrn_cur(_nrn_model_sorted_token const&, NrnThread*, Memb_list*, int);
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static void nrn_jacob(_nrn_model_sorted_token const&, NrnThread*, Memb_list*, int);
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static int _ode_count(int);
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static void _ode_map(Prop*, int, neuron::container::data_handle<double>*, neuron::container::data_handle<double>*, double*, int);
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static void _ode_spec(_nrn_model_sorted_token const&, NrnThread*, Memb_list*, int);
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static void _ode_matsol(_nrn_model_sorted_token const&, NrnThread*, Memb_list*, int);
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#define _cvode_ieq _ppvar[3].literal_value<int>()
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static void _ode_matsol_instance1(_internalthreadargsproto_);
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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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"NaTs2_t",
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"gNaTs2_tbar_NaTs2_t",
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0,
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"ina_NaTs2_t",
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"gNaTs2_t_NaTs2_t",
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0,
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"m_NaTs2_t",
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"h_NaTs2_t",
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0,
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0};
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static Symbol* _na_sym;
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/* Used by NrnProperty */
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static _nrn_mechanism_std_vector<double> _parm_default{
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1e-05, /* gNaTs2_tbar */
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};
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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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Datum *_ppvar{};
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_ppvar = nrn_prop_datum_alloc(_mechtype, 4, _prop);
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_nrn_mechanism_access_dparam(_prop) = _ppvar;
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_nrn_mechanism_cache_instance _ml_real{_prop};
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auto* const _ml = &_ml_real;
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size_t const _iml{};
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assert(_nrn_mechanism_get_num_vars(_prop) == 18);
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/*initialize range parameters*/
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gNaTs2_tbar = _parm_default[0]; /* 1e-05 */
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assert(_nrn_mechanism_get_num_vars(_prop) == 18);
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_nrn_mechanism_access_dparam(_prop) = _ppvar;
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/*connect ionic variables to this model*/
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prop_ion = need_memb(_na_sym);
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nrn_promote(prop_ion, 0, 1);
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_ppvar[0] = _nrn_mechanism_get_param_handle(prop_ion, 0); /* ena */
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_ppvar[1] = _nrn_mechanism_get_param_handle(prop_ion, 3); /* ina */
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_ppvar[2] = _nrn_mechanism_get_param_handle(prop_ion, 4); /* _ion_dinadv */
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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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extern Symbol* hoc_lookup(const char*);
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extern void _nrn_thread_reg(int, int, void(*)(Datum*));
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void _nrn_thread_table_reg(int, nrn_thread_table_check_t);
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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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extern "C" void _NaTs2_t_reg() {
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int _vectorized = 1;
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_initlists();
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ion_reg("na", -10000.);
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_na_sym = hoc_lookup("na_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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hoc_register_parm_default(_mechtype, &_parm_default);
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hoc_register_npy_direct(_mechtype, npy_direct_func_proc);
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_nrn_setdata_reg(_mechtype, _setdata);
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#if NMODL_TEXT
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register_nmodl_text_and_filename(_mechtype);
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#endif
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_nrn_mechanism_register_data_fields(_mechtype,
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_nrn_mechanism_field<double>{"gNaTs2_tbar"} /* 0 */,
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_nrn_mechanism_field<double>{"ina"} /* 1 */,
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_nrn_mechanism_field<double>{"gNaTs2_t"} /* 2 */,
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_nrn_mechanism_field<double>{"m"} /* 3 */,
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_nrn_mechanism_field<double>{"h"} /* 4 */,
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_nrn_mechanism_field<double>{"ena"} /* 5 */,
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_nrn_mechanism_field<double>{"mInf"} /* 6 */,
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_nrn_mechanism_field<double>{"mTau"} /* 7 */,
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_nrn_mechanism_field<double>{"mAlpha"} /* 8 */,
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_nrn_mechanism_field<double>{"mBeta"} /* 9 */,
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_nrn_mechanism_field<double>{"hInf"} /* 10 */,
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_nrn_mechanism_field<double>{"hTau"} /* 11 */,
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_nrn_mechanism_field<double>{"hAlpha"} /* 12 */,
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_nrn_mechanism_field<double>{"hBeta"} /* 13 */,
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_nrn_mechanism_field<double>{"Dm"} /* 14 */,
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_nrn_mechanism_field<double>{"Dh"} /* 15 */,
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_nrn_mechanism_field<double>{"v"} /* 16 */,
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_nrn_mechanism_field<double>{"_g"} /* 17 */,
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_nrn_mechanism_field<double*>{"_ion_ena", "na_ion"} /* 0 */,
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_nrn_mechanism_field<double*>{"_ion_ina", "na_ion"} /* 1 */,
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_nrn_mechanism_field<double*>{"_ion_dinadv", "na_ion"} /* 2 */,
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_nrn_mechanism_field<int>{"_cvode_ieq", "cvodeieq"} /* 3 */);
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hoc_register_prop_size(_mechtype, 18, 4);
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hoc_register_dparam_semantics(_mechtype, 0, "na_ion");
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hoc_register_dparam_semantics(_mechtype, 1, "na_ion");
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hoc_register_dparam_semantics(_mechtype, 2, "na_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 NaTs2_t /home/qh4os/neurenv/mech/NaTs2_t.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 const 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(_internalthreadargsproto_);
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static int _ode_spec1(_internalthreadargsproto_);
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/*static int _ode_matsol1(_internalthreadargsproto_);*/
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static neuron::container::field_index _slist1[2], _dlist1[2];
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static int states(_internalthreadargsproto_);
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/*CVODE*/
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static int _ode_spec1 (_internalthreadargsproto_) {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 (_internalthreadargsproto_) {
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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 (_internalthreadargsproto_) { {
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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 ( _internalthreadargsproto_ ) {
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double _lqt ;
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_lqt = pow( 2.3 , ( ( celsius - 21.0 ) / 10.0 ) ) ;
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if ( v == - 32.0 ) {
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v = v + 0.0001 ;
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}
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mAlpha = ( 0.182 * ( v - - 32.0 ) ) / ( 1.0 - ( exp ( - ( v - - 32.0 ) / 6.0 ) ) ) ;
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mBeta = ( 0.124 * ( - v - 32.0 ) ) / ( 1.0 - ( exp ( - ( - v - 32.0 ) / 6.0 ) ) ) ;
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mInf = mAlpha / ( mAlpha + mBeta ) ;
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mTau = ( 1.0 / ( mAlpha + mBeta ) ) / _lqt ;
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if ( v == - 60.0 ) {
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v = v + 0.0001 ;
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}
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hAlpha = ( - 0.015 * ( v - - 60.0 ) ) / ( 1.0 - ( exp ( ( v - - 60.0 ) / 6.0 ) ) ) ;
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hBeta = ( - 0.015 * ( - v - 60.0 ) ) / ( 1.0 - ( exp ( ( - v - 60.0 ) / 6.0 ) ) ) ;
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hInf = hAlpha / ( hAlpha + hBeta ) ;
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hTau = ( 1.0 / ( hAlpha + hBeta ) ) / _lqt ;
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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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Datum* _ppvar; Datum* _thread; NrnThread* _nt;
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Prop* _local_prop = _prop_id ? _extcall_prop : nullptr;
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_nrn_mechanism_cache_instance _ml_real{_local_prop};
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auto* const _ml = &_ml_real;
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size_t const _iml{};
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_ppvar = _local_prop ? _nrn_mechanism_access_dparam(_local_prop) : nullptr;
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_thread = _extcall_thread.data();
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double* _globals = nullptr;
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if (gind != 0 && _thread != nullptr) { _globals = _thread[_gth].get<double*>(); }
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_nt = nrn_threads;
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_r = 1.;
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rates ( _threadargs_ );
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hoc_retpushx(_r);
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}
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static double _npy_rates(Prop* _prop) {
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double _r{0.0};
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Datum* _ppvar; Datum* _thread; NrnThread* _nt;
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_nrn_mechanism_cache_instance _ml_real{_prop};
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auto* const _ml = &_ml_real;
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size_t const _iml{};
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_ppvar = _nrn_mechanism_access_dparam(_prop);
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_thread = _extcall_thread.data();
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double* _globals = nullptr;
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if (gind != 0 && _thread != nullptr) { _globals = _thread[_gth].get<double*>(); }
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_nt = nrn_threads;
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_r = 1.;
|
|
rates ( _threadargs_ );
|
|
return(_r);
|
|
}
|
|
|
|
static int _ode_count(int _type){ return 2;}
|
|
|
|
static void _ode_spec(_nrn_model_sorted_token const& _sorted_token, NrnThread* _nt, Memb_list* _ml_arg, int _type) {
|
|
Datum* _ppvar;
|
|
size_t _iml; _nrn_mechanism_cache_range* _ml; Node* _nd{};
|
|
double _v{};
|
|
int _cntml;
|
|
_nrn_mechanism_cache_range _lmr{_sorted_token, *_nt, *_ml_arg, _type};
|
|
_ml = &_lmr;
|
|
_cntml = _ml_arg->_nodecount;
|
|
Datum *_thread{_ml_arg->_thread};
|
|
double* _globals = nullptr;
|
|
if (gind != 0 && _thread != nullptr) { _globals = _thread[_gth].get<double*>(); }
|
|
for (_iml = 0; _iml < _cntml; ++_iml) {
|
|
_ppvar = _ml_arg->_pdata[_iml];
|
|
_nd = _ml_arg->_nodelist[_iml];
|
|
v = NODEV(_nd);
|
|
ena = _ion_ena;
|
|
_ode_spec1 (_threadargs_);
|
|
}}
|
|
|
|
static void _ode_map(Prop* _prop, int _ieq, neuron::container::data_handle<double>* _pv, neuron::container::data_handle<double>* _pvdot, double* _atol, int _type) {
|
|
Datum* _ppvar;
|
|
_ppvar = _nrn_mechanism_access_dparam(_prop);
|
|
_cvode_ieq = _ieq;
|
|
for (int _i=0; _i < 2; ++_i) {
|
|
_pv[_i] = _nrn_mechanism_get_param_handle(_prop, _slist1[_i]);
|
|
_pvdot[_i] = _nrn_mechanism_get_param_handle(_prop, _dlist1[_i]);
|
|
_cvode_abstol(_atollist, _atol, _i);
|
|
}
|
|
}
|
|
|
|
static void _ode_matsol_instance1(_internalthreadargsproto_) {
|
|
_ode_matsol1 (_threadargs_);
|
|
}
|
|
|
|
static void _ode_matsol(_nrn_model_sorted_token const& _sorted_token, NrnThread* _nt, Memb_list* _ml_arg, int _type) {
|
|
Datum* _ppvar;
|
|
size_t _iml; _nrn_mechanism_cache_range* _ml; Node* _nd{};
|
|
double _v{};
|
|
int _cntml;
|
|
_nrn_mechanism_cache_range _lmr{_sorted_token, *_nt, *_ml_arg, _type};
|
|
_ml = &_lmr;
|
|
_cntml = _ml_arg->_nodecount;
|
|
Datum *_thread{_ml_arg->_thread};
|
|
double* _globals = nullptr;
|
|
if (gind != 0 && _thread != nullptr) { _globals = _thread[_gth].get<double*>(); }
|
|
for (_iml = 0; _iml < _cntml; ++_iml) {
|
|
_ppvar = _ml_arg->_pdata[_iml];
|
|
_nd = _ml_arg->_nodelist[_iml];
|
|
v = NODEV(_nd);
|
|
ena = _ion_ena;
|
|
_ode_matsol_instance1(_threadargs_);
|
|
}}
|
|
|
|
static void initmodel(_internalthreadargsproto_) {
|
|
int _i; double _save;{
|
|
h = h0;
|
|
m = m0;
|
|
{
|
|
rates ( _threadargs_ ) ;
|
|
m = mInf ;
|
|
h = hInf ;
|
|
}
|
|
|
|
}
|
|
}
|
|
|
|
static void nrn_init(_nrn_model_sorted_token const& _sorted_token, NrnThread* _nt, Memb_list* _ml_arg, int _type){
|
|
_nrn_mechanism_cache_range _lmr{_sorted_token, *_nt, *_ml_arg, _type};
|
|
auto* const _vec_v = _nt->node_voltage_storage();
|
|
auto* const _ml = &_lmr;
|
|
Datum* _ppvar; Datum* _thread;
|
|
Node *_nd; double _v; int* _ni; int _iml, _cntml;
|
|
_ni = _ml_arg->_nodeindices;
|
|
_cntml = _ml_arg->_nodecount;
|
|
_thread = _ml_arg->_thread;
|
|
double* _globals = nullptr;
|
|
if (gind != 0 && _thread != nullptr) { _globals = _thread[_gth].get<double*>(); }
|
|
for (_iml = 0; _iml < _cntml; ++_iml) {
|
|
_ppvar = _ml_arg->_pdata[_iml];
|
|
_v = _vec_v[_ni[_iml]];
|
|
v = _v;
|
|
ena = _ion_ena;
|
|
initmodel(_threadargs_);
|
|
}
|
|
}
|
|
|
|
static double _nrn_current(_internalthreadargsprotocomma_ double _v) {
|
|
double _current=0.; v=_v;
|
|
{ {
|
|
gNaTs2_t = gNaTs2_tbar * m * m * m * h ;
|
|
ina = gNaTs2_t * ( v - ena ) ;
|
|
}
|
|
_current += ina;
|
|
|
|
} return _current;
|
|
}
|
|
|
|
static void nrn_cur(_nrn_model_sorted_token const& _sorted_token, NrnThread* _nt, Memb_list* _ml_arg, int _type) {
|
|
_nrn_mechanism_cache_range _lmr{_sorted_token, *_nt, *_ml_arg, _type};
|
|
auto const _vec_rhs = _nt->node_rhs_storage();
|
|
auto const _vec_sav_rhs = _nt->node_sav_rhs_storage();
|
|
auto const _vec_v = _nt->node_voltage_storage();
|
|
auto* const _ml = &_lmr;
|
|
Datum* _ppvar; Datum* _thread;
|
|
Node *_nd; int* _ni; double _rhs, _v; int _iml, _cntml;
|
|
_ni = _ml_arg->_nodeindices;
|
|
_cntml = _ml_arg->_nodecount;
|
|
_thread = _ml_arg->_thread;
|
|
double* _globals = nullptr;
|
|
if (gind != 0 && _thread != nullptr) { _globals = _thread[_gth].get<double*>(); }
|
|
for (_iml = 0; _iml < _cntml; ++_iml) {
|
|
_ppvar = _ml_arg->_pdata[_iml];
|
|
_v = _vec_v[_ni[_iml]];
|
|
ena = _ion_ena;
|
|
auto const _g_local = _nrn_current(_threadargscomma_ _v + .001);
|
|
{ double _dina;
|
|
_dina = ina;
|
|
_rhs = _nrn_current(_threadargscomma_ _v);
|
|
_ion_dinadv += (_dina - ina)/.001 ;
|
|
}
|
|
_g = (_g_local - _rhs)/.001;
|
|
_ion_ina += ina ;
|
|
_vec_rhs[_ni[_iml]] -= _rhs;
|
|
|
|
}
|
|
|
|
}
|
|
|
|
static void nrn_jacob(_nrn_model_sorted_token const& _sorted_token, NrnThread* _nt, Memb_list* _ml_arg, int _type) {
|
|
_nrn_mechanism_cache_range _lmr{_sorted_token, *_nt, *_ml_arg, _type};
|
|
auto const _vec_d = _nt->node_d_storage();
|
|
auto const _vec_sav_d = _nt->node_sav_d_storage();
|
|
auto* const _ml = &_lmr;
|
|
Datum* _ppvar; Datum* _thread;
|
|
Node *_nd; int* _ni; int _iml, _cntml;
|
|
_ni = _ml_arg->_nodeindices;
|
|
_cntml = _ml_arg->_nodecount;
|
|
_thread = _ml_arg->_thread;
|
|
double* _globals = nullptr;
|
|
if (gind != 0 && _thread != nullptr) { _globals = _thread[_gth].get<double*>(); }
|
|
for (_iml = 0; _iml < _cntml; ++_iml) {
|
|
_vec_d[_ni[_iml]] += _g;
|
|
|
|
}
|
|
|
|
}
|
|
|
|
static void nrn_state(_nrn_model_sorted_token const& _sorted_token, NrnThread* _nt, Memb_list* _ml_arg, int _type) {
|
|
_nrn_mechanism_cache_range _lmr{_sorted_token, *_nt, *_ml_arg, _type};
|
|
auto* const _vec_v = _nt->node_voltage_storage();
|
|
auto* const _ml = &_lmr;
|
|
Datum* _ppvar; Datum* _thread;
|
|
Node *_nd; double _v = 0.0; int* _ni;
|
|
_ni = _ml_arg->_nodeindices;
|
|
size_t _cntml = _ml_arg->_nodecount;
|
|
_thread = _ml_arg->_thread;
|
|
double* _globals = nullptr;
|
|
if (gind != 0 && _thread != nullptr) { _globals = _thread[_gth].get<double*>(); }
|
|
for (size_t _iml = 0; _iml < _cntml; ++_iml) {
|
|
_ppvar = _ml_arg->_pdata[_iml];
|
|
_nd = _ml_arg->_nodelist[_iml];
|
|
_v = _vec_v[_ni[_iml]];
|
|
v=_v;
|
|
{
|
|
ena = _ion_ena;
|
|
{ states(_threadargs_);
|
|
} }}
|
|
|
|
}
|
|
|
|
static void terminal(){}
|
|
|
|
static void _initlists(){
|
|
int _i; static int _first = 1;
|
|
if (!_first) return;
|
|
_slist1[0] = {m_columnindex, 0}; _dlist1[0] = {Dm_columnindex, 0};
|
|
_slist1[1] = {h_columnindex, 0}; _dlist1[1] = {Dh_columnindex, 0};
|
|
_first = 0;
|
|
}
|
|
|
|
#if NMODL_TEXT
|
|
static void register_nmodl_text_and_filename(int mech_type) {
|
|
const char* nmodl_filename = "/home/qh4os/neurenv/mech/NaTs2_t.mod";
|
|
const char* nmodl_file_text =
|
|
":Comment : L6\n"
|
|
":Reference :Colbert and Pan 2002\n"
|
|
":comment: took the NaTa and shifted both activation/inactivation by 6 mv\n"
|
|
": **Modified to use 'celsius' for temperature to correct rates by Aman Aberra**\n"
|
|
"NEURON {\n"
|
|
" SUFFIX NaTs2_t\n"
|
|
" USEION na READ ena WRITE ina\n"
|
|
" RANGE gNaTs2_tbar, gNaTs2_t, ina\n"
|
|
"}\n"
|
|
"\n"
|
|
"UNITS {\n"
|
|
" (S) = (siemens)\n"
|
|
" (mV) = (millivolt)\n"
|
|
" (mA) = (milliamp)\n"
|
|
"}\n"
|
|
"\n"
|
|
"PARAMETER {\n"
|
|
" gNaTs2_tbar = 0.00001 (S/cm2)\n"
|
|
"}\n"
|
|
"\n"
|
|
"ASSIGNED {\n"
|
|
" v (mV)\n"
|
|
" ena (mV)\n"
|
|
" ina (mA/cm2)\n"
|
|
" gNaTs2_t (S/cm2)\n"
|
|
" celsius (degC)\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"
|
|
" gNaTs2_t = gNaTs2_tbar*m*m*m*h\n"
|
|
" ina = gNaTs2_t*(v-ena)\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"
|
|
" LOCAL qt\n"
|
|
" qt = 2.3^((celsius-21)/10) \n"
|
|
" UNITSOFF\n"
|
|
" if(v == -32){\n"
|
|
" v = v+0.0001\n"
|
|
" }\n"
|
|
" mAlpha = (0.182 * (v- -32))/(1-(exp(-(v- -32)/6)))\n"
|
|
" mBeta = (0.124 * (-v -32))/(1-(exp(-(-v -32)/6)))\n"
|
|
" mInf = mAlpha/(mAlpha + mBeta)\n"
|
|
" mTau = (1/(mAlpha + mBeta))/qt\n"
|
|
"\n"
|
|
" if(v == -60){\n"
|
|
" v = v + 0.0001\n"
|
|
" }\n"
|
|
" hAlpha = (-0.015 * (v- -60))/(1-(exp((v- -60)/6)))\n"
|
|
" hBeta = (-0.015 * (-v -60))/(1-(exp((-v -60)/6)))\n"
|
|
" hInf = hAlpha/(hAlpha + hBeta)\n"
|
|
" hTau = (1/(hAlpha + hBeta))/qt\n"
|
|
" UNITSON\n"
|
|
"}\n"
|
|
;
|
|
hoc_reg_nmodl_filename(mech_type, nmodl_filename);
|
|
hoc_reg_nmodl_text(mech_type, nmodl_file_text);
|
|
}
|
|
#endif
|