326 lines
7.6 KiB
C
326 lines
7.6 KiB
C
/* Created by Language version: 7.7.0 */
|
|
/* NOT VECTORIZED */
|
|
#define NRN_VECTORIZED 0
|
|
#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__xtra
|
|
#define _nrn_initial _nrn_initial__xtra
|
|
#define nrn_cur _nrn_cur__xtra
|
|
#define _nrn_current _nrn_current__xtra
|
|
#define nrn_jacob _nrn_jacob__xtra
|
|
#define nrn_state _nrn_state__xtra
|
|
#define _net_receive _net_receive__xtra
|
|
|
|
#define _threadargscomma_ /**/
|
|
#define _threadargsprotocomma_ /**/
|
|
#define _threadargs_ /**/
|
|
#define _threadargsproto_ /**/
|
|
/*SUPPRESS 761*/
|
|
/*SUPPRESS 762*/
|
|
/*SUPPRESS 763*/
|
|
/*SUPPRESS 765*/
|
|
extern double *getarg(int);
|
|
static double *_p; static Datum *_ppvar;
|
|
|
|
#define t nrn_threads->_t
|
|
#define dt nrn_threads->_dt
|
|
#define es _p[0]
|
|
#define es_columnindex 0
|
|
#define x _p[1]
|
|
#define x_columnindex 1
|
|
#define y _p[2]
|
|
#define y_columnindex 2
|
|
#define z _p[3]
|
|
#define z_columnindex 3
|
|
#define type _p[4]
|
|
#define type_columnindex 4
|
|
#define order _p[5]
|
|
#define order_columnindex 5
|
|
#define ex *_ppvar[0]._pval
|
|
#define _p_ex _ppvar[0]._pval
|
|
#define area *_ppvar[1]._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 = 0;
|
|
/* 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) {
|
|
_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_xtra", _hoc_setdata,
|
|
0, 0
|
|
};
|
|
/* declare global and static user variables */
|
|
#define stim stim_xtra
|
|
double stim = 0;
|
|
/* some parameters have upper and lower limits */
|
|
static HocParmLimits _hoc_parm_limits[] = {
|
|
0,0,0
|
|
};
|
|
static HocParmUnits _hoc_parm_units[] = {
|
|
"stim_xtra", "unitless",
|
|
"es_xtra", "mV",
|
|
"x_xtra", "1",
|
|
"y_xtra", "1",
|
|
"z_xtra", "1",
|
|
"type_xtra", "1",
|
|
"order_xtra", "1",
|
|
"ex_xtra", "millivolts",
|
|
0,0
|
|
};
|
|
static double v = 0;
|
|
/* connect global user variables to hoc */
|
|
static DoubScal hoc_scdoub[] = {
|
|
"stim_xtra", &stim_xtra,
|
|
0,0
|
|
};
|
|
static DoubVec hoc_vdoub[] = {
|
|
0,0,0
|
|
};
|
|
static double _sav_indep;
|
|
static void _ba1(Node*_nd, double* _pp, Datum* _ppd, Datum* _thread, NrnThread* _nt) ;
|
|
static void nrn_alloc(Prop*);
|
|
static void nrn_init(NrnThread*, _Memb_list*, int);
|
|
static void nrn_state(NrnThread*, _Memb_list*, int);
|
|
/* connect range variables in _p that hoc is supposed to know about */
|
|
static const char *_mechanism[] = {
|
|
"7.7.0",
|
|
"xtra",
|
|
"es_xtra",
|
|
"x_xtra",
|
|
"y_xtra",
|
|
"z_xtra",
|
|
"type_xtra",
|
|
"order_xtra",
|
|
0,
|
|
0,
|
|
0,
|
|
"ex_xtra",
|
|
0};
|
|
extern Node* nrn_alloc_node_;
|
|
|
|
extern Prop* need_memb(Symbol*);
|
|
|
|
static void nrn_alloc(Prop* _prop) {
|
|
Prop *prop_ion;
|
|
double *_p; Datum *_ppvar;
|
|
_p = nrn_prop_data_alloc(_mechtype, 6, _prop);
|
|
/*initialize range parameters*/
|
|
es = 0;
|
|
x = 0;
|
|
y = 0;
|
|
z = 0;
|
|
type = 0;
|
|
order = 0;
|
|
_prop->param = _p;
|
|
_prop->param_size = 6;
|
|
_ppvar = nrn_prop_datum_alloc(_mechtype, 2, _prop);
|
|
_prop->dparam = _ppvar;
|
|
/*connect ionic variables to this model*/
|
|
_ppvar[1]._pval = &nrn_alloc_node_->_area; /* diam */
|
|
|
|
}
|
|
static void _initlists();
|
|
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 _xtra_reg() {
|
|
int _vectorized = 0;
|
|
_initlists();
|
|
register_mech(_mechanism, nrn_alloc,(void*)0, (void*)0, (void*)0, nrn_init, hoc_nrnpointerindex, 0);
|
|
_mechtype = nrn_get_mechtype(_mechanism[1]);
|
|
_nrn_setdata_reg(_mechtype, _setdata);
|
|
#if NMODL_TEXT
|
|
hoc_reg_nmodl_text(_mechtype, nmodl_file_text);
|
|
hoc_reg_nmodl_filename(_mechtype, nmodl_filename);
|
|
#endif
|
|
hoc_register_prop_size(_mechtype, 6, 2);
|
|
hoc_register_dparam_semantics(_mechtype, 0, "pointer");
|
|
hoc_register_dparam_semantics(_mechtype, 1, "area");
|
|
hoc_reg_ba(_mechtype, _ba1, 11);
|
|
hoc_register_var(hoc_scdoub, hoc_vdoub, hoc_intfunc);
|
|
ivoc_help("help ?1 xtra /home/qh4os/neurenv/mech/xtra.mod\n");
|
|
hoc_register_limits(_mechtype, _hoc_parm_limits);
|
|
hoc_register_units(_mechtype, _hoc_parm_units);
|
|
}
|
|
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;}
|
|
/* BEFORE BREAKPOINT */
|
|
static void _ba1(Node*_nd, double* _pp, Datum* _ppd, Datum* _thread, NrnThread* _nt) {
|
|
_p = _pp; _ppvar = _ppd;
|
|
v = NODEV(_nd);
|
|
ex = stim * es ;
|
|
}
|
|
|
|
static void initmodel() {
|
|
int _i; double _save;_ninits++;
|
|
{
|
|
{
|
|
ex = stim * es ;
|
|
}
|
|
|
|
}
|
|
}
|
|
|
|
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;
|
|
initmodel();
|
|
}}
|
|
|
|
static double _nrn_current(double _v){double _current=0.;v=_v;{
|
|
} return _current;
|
|
}
|
|
|
|
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;
|
|
{
|
|
}}
|
|
|
|
}
|
|
|
|
static void terminal(){}
|
|
|
|
static void _initlists() {
|
|
int _i; static int _first = 1;
|
|
if (!_first) return;
|
|
_first = 0;
|
|
}
|
|
|
|
#if NMODL_TEXT
|
|
static const char* nmodl_filename = "/home/qh4os/neurenv/mech/xtra.mod";
|
|
static const char* nmodl_file_text =
|
|
": $Id: xtra.mod,v 1.4 2014/08/18 23:15:25 ted Exp ted $\n"
|
|
": 2018/05/20 Modified by Aman Aberra \n"
|
|
"\n"
|
|
"NEURON {\n"
|
|
" SUFFIX xtra\n"
|
|
" RANGE es : (es = max amplitude of the potential) \n"
|
|
" RANGE x, y, z, type, order\n"
|
|
" GLOBAL stim : (stim = normalized waveform)\n"
|
|
" POINTER ex \n"
|
|
"}\n"
|
|
"\n"
|
|
"PARAMETER { \n"
|
|
" es = 0 (mV)\n"
|
|
" x = 0 (1) : spatial coords\n"
|
|
" y = 0 (1)\n"
|
|
" z = 0 (1) \n"
|
|
" type = 0 (1) : numbering system for morphological category of section - unassigned is 0\n"
|
|
" order = 0 (1) : order of branch/collateral. \n"
|
|
"}\n"
|
|
"\n"
|
|
"ASSIGNED {\n"
|
|
" v (millivolts)\n"
|
|
" ex (millivolts)\n"
|
|
" stim (unitless) \n"
|
|
" area (micron2)\n"
|
|
"}\n"
|
|
"\n"
|
|
"INITIAL {\n"
|
|
" ex = stim*es \n"
|
|
"}\n"
|
|
"\n"
|
|
"\n"
|
|
"BEFORE BREAKPOINT { : before each cy' = f(y,t) setup\n"
|
|
" ex = stim*es\n"
|
|
"}\n"
|
|
"\n"
|
|
;
|
|
#endif
|