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HH_last.cpp
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HH_last.cpp
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// EC3,EC5,CA1 are implemented.
// in area1.cpp, input from CA3 is induced. (2016.3.29)
// random connection between pop. in CA1
// interarea connection induced.
// introduce input from CA3: here, CA3 input is exchanged at Tach (correspodning to place cells representing before the junction and those after that.)
// *4.cpp: last update 2016.6.5
// intorudce EC3 dynaics
// *5.cpp: last update 2016.6.6
// introduce calcium current in EC5 neurons (see Saravanan 2015)
// *6.cpp: last update 2016.6.17
// EC3,5 neuron: SC -> pyr
// VIP introduced
// *7.cpp: last update 2017.4.7
// VIP -> SOM is introduced.
// irrelevant place information is introduced.
// last update 2017.6.16
// VIP neurons are introduced as Poisson neurons
// PV receives inputs from CA3 not EC3
// delay time is changed (in previous ver, delay is dependent on hstp. this ver, I fixed it)
// update 2017.6.23: ver 9
// introduce connections between ext neurons in pre-layer to inh neurons in post layer.
// introduce calcium dynamics and CAN channel
// update 2017.7.6
// change Ach schedule.
// update 2017.7.14
// introduce the right arm
// update 2017.7.15
// VIP oscillaiton is introduced
// check point gahp in EC3 is modified 0.6 -> 0.3 in this ver.
// check point G3_CA1_EC5 in this ver.
// update 2017.10.30
// induce decoder
#include <iostream>
#include <vector>
#include <string>
#include <deque>
#include <set>
#include <algorithm>
#include <cmath>
#include <stdlib.h>
#include <stdio.h>
#include <fstream>
#include <sstream>
#include "mt.c"
#define VER_PROG 9
//#define readmode 0
using namespace std;
double const pi = 3.14159265;
double const e = 2.71828182;
double const hstp = 0.02;
double const dbl_eps=1.0e-10;
int osc_flg=0; // osc_flg==1: make oscillation input flat
// for longer ver.
double const T=7000.0;
double const Tach_strt =1500;
double const Tach_end_str = 3500; // strong Ach application is terminated at this time
double const Tach_inc = 5000;
double const Tach_end = 7000;
double Tec3off_strt =15000;
double const Tec3off_end = Tec3off_strt+15000;
double const Tca3_C = 500; //300
double const Tca3_L = 1500; //800
double const Tca3_o = 3500; //2300
double const Tca3_C1 = 5000; //3300
double const Tca3_end = 7000;
double const Tcnct_strt=200; // in beginning, inter-layer connection is quenched.
double geta=0;
double Gpv_ach = 0.015;
double Icnst_PV=0.0;
//check point
double const tmout=50;
// ECIII
int const NE_EC3 = 240;
int const NI_EC3 = 160; //check point
int const N_EC3 = NE_EC3 + NI_EC3;
int const NE_EC3_L =120;
int const NE_EC3_R =240;
// cAB: A:post ensemble B:pre ensemble
// GAB: A:post ensemble B:pre ensemble
double const GEE_EC3 = 0.01;
double const GEI_EC3 = 2.5; //check point 1.6->1.5->2.0->2.5
double const GIE_EC3= 0.5; // check point 0.2 -> 0.25 ->0.5
double const GII_EC3 = 0.01;
double const cEE_EC3 = 0.025;
double const cEI_EC3 = 0.5;
double const cIE_EC3 = 0.3;
double const cII_EC3 = 0.3;
double const Icnst_EC3= 0;
double const rec3 = 35; //[Hz]
double const Gn_EC3_E = 0.02;
double const Gn_EC3_I = 0.015;
double const Gn_EC3_IE = 0.005;
double const Gn_EC3_II = 0.02;
// ECV
int const NE_EC5 = 400;
int const NI_EC5 = 120;
int const N_EC5 = NE_EC5 + NI_EC5;
int const NE_EC5_L =200;
int const NE_EC5_R =400;
double GEE_EC5 = 0.0; // an argument of this script
double GEI_EC5 = 1.0;
double GIE_EC5 = 0.5;
double const GII_EC5 = 0.01;
double const cEE_EC5 = 0.005;
double const cIE_EC5 = 0.3;
double const cEI_EC5 = 0.5;
double const cII_EC5 = 0.3;
double const Icnst_EC5= 0.0;
double const rec5 = 30;
double const Gn_EC5_E = 0.005; //check point 2017.11.26 0.0055
double const Gn_EC5_I = 0.005;
double const Gn_EC5_IE = 0.01;
double const Gn_EC5_II = 0.015;
// CA1
int const NE_CA1 = 480;
double const rIE = 0.5;
int const NPV = NE_CA1*rIE;
double const rTE = 0.5;
int const NOLM = NE_CA1*rTE;
int const NVIP = NE_CA1*rTE;
int const N_CA1 = NE_CA1+NPV+NOLM;
int const NE_CA1_L=120;
int const NE_CA1_R=240;
int const NE_CA1_other=360;
double const GEE_CA1 = 0; // Gpost,pre
double const GEI_CA1 = 2.2;
double const GET_CA1 = 0.01;
double const GIE_CA1 = 0.2;
double const GII_CA1 = 0.3;
double const GIT_CA1 = 0.5;
double const GTE_CA1 = 0.5;
double const GTI_CA1 = 0.2;
double const GTT_CA1 = 0.0;
double const cEE_CA1 = 0.2; // Gpost,pre
double const cEI_CA1 = 0.5;
double const cET_CA1 = 0.1;
double const cIE_CA1 = 0.5;
double const cII_CA1 = 0.5;
double const cIT_CA1 = 0.5;
double const cTE_CA1 = 0.3;
double const cTI_CA1 = 0.5;
double const cTT_CA1 = 0.0;
double const Golm_ach = 0.02;
double const Icnst_E=-0.1;
double const Icnst_T=0.2;
// noise into CA1
double const rca1 = 35; //[Hz] //check point 30 -> 35
double const Gn_CA1_TE = 0.08;
double const Gn_CA1_TI = 0.01;
double const Gn_CA1_IE = 0.02;
double const Gn_CA1_II = 0.005;
double const Gn_CA1_EE = 0.008;
double const Gn_CA1_EI = 0.015; //check point
double const rvip = 20; //[Hz]
// CA3
int const NE_CA3 = 480;
int const NE_CA3_L= 120;
int const NE_CA3_R= 240;
int const NE_CA3_other=360;
int const N_CA3 = NE_CA3; // in this program, we have 3 clusters of ca3 neurons corresponding to each location
int const N_ALN_EC3=0;
int const N_ALN_EC5=N_EC3+5;
int const N_ALN_CA1=N_ALN_EC5+N_EC5+5;
int const N_all =N_ALN_CA1+N_CA1+NVIP+5;
double const rca3 =3; //[Hz]
double const GE_CA3_CA1 = 1.0;
double const GI_CA3_CA1 = 0.05;
double const cEE_CA3_CA1 = 0.3;// check G3_CA3_CA1 in HH_gennet.h. here, we introduce non-learning network
double const cIE_CA3_CA1 = 0.5;
// external poisson neurons
double const Gec2 = 0.4; //[uS]
double const Gms_ec5 = 0.1; // from MS to ECV
double const Gms = 3.7;
// from ECIII to CA1
double const GEE_EC3_CA1 = 0.001;
double const cEE_EC3_CA1 = 0.01; //check point gemma_dec in G3_EC3_CA1(), we modified prob of connections between unrelated groups. check it
//ver=="no_EC3toPV", these variables are not used
double const GIE_EC3_CA1 = 0.05;
double const cIE_EC3_CA1 = 0.3;
// effect by OLM
double const Asup = 0.1;
double const Tsup = 5.0; // [ms]
// // nonlinear interaction in CA1
double const G_Caspk = 0.01;
double const tdcy_ca=50.0;
double const Thst_ca=tdcy_ca*2; // a time we keep information of synaptic conductance.int const rca_st
int const Nhst_ca=int(Thst_ca/hstp)+1;
double const Tca_spk_overlay=100.0;
double const Tamp =10; // [ms] amplification range of CA3 and CA1 interactions
double const Tampec3 =15; // [ms] amplification range of EC3 and CA1 interactions
double const Tplat =20; // [ms] duration of plat by EC3
// from ECV to ECIII
double const GEE_EC5_EC3 = 0.01;
double const cEE_EC5_EC3 = 0.0125;
#define GIE_EC5_EC3 0
#define cIE_EC5_EC3 0
// from CA1 to ECV
double GEE_CA1_EC5 = 0.0025; // argument
double const cEE_CA1_EC5 = 0.005;
#define GIE_CA1_EC5 0.01
#define cIE_CA1_EC5 0.3
// Calcium dynamics
double gCAN_def = 0.0; // [mS/cm^2]
double const Cca_th =50;//check
double const Ca_L=0.0003;
double const Ca_H=0.004; //check point 0.0045 -> 0.004
double const rhigh=1.5; //check point 1.0 -> 1.5 -> 1.2
double const rlow=0.2;
// for decoder
int Flg_gamma = 0; // 0: t>6000 with gamma, 1: t>6500 with gamma, 2: nogamma
int const NE_Dec =100;
int const NI_Dec =100;
int const N_Dec =NE_Dec+NI_Dec;
int const NE_Dec_L =50;
int const NE_Dec_R =100;
int const NI_Dec_L =150;
int const NI_Dec_R =200;
double const GEE_Dec = 0.0; // in spike transmission function, there is no transmission between excitatory neurons by definition
double const GEI_Dec = 1.5; //check point 3.0->2.5->2.0
double const GIE_Dec= 0.0;
double const GII_Dec = 0.05;
double const cEE_Dec = 0.0;
double const cEI_Dec = 0.8;
double const cIE_Dec = 0.0;
double const cII_Dec = 0.6;
double const GEE_EC3_Dec=0.1;//0.15->0.1
double const GEE_CA1_Dec=0.4;
double const GIE_EC3_Dec=1.0;//0.6->1.0->1.2 ->1.0
double const GIE_CA1_Dec=0.4;//0.2 -> 0.4
double const cEE_EC3_Dec=0.03;
double const cEE_CA1_Dec=0.2;
double const cIE_EC3_Dec=0.4;
double const cIE_CA1_Dec=0.8;
double const Gn_Dec_E = 0.005;
double const Gn_Dec_I = 0.03;
double Gn_Dec_IE = 0.05;
double const Gn_Dec_II = 0.006;
double const rdec = 35; //[Hz]
double Icnst_Dec =-0.2;
double amp_dec=1.0;
double Aosc_gamma=30; //check point
double Aosc_gamma_EC3=20; //check point
double mE_EC3_gamma =0.02;
double mE_CA1_gamma =0.005;
int N_gamma_EC3 = 80;
int N_gamma_CA1 = 80;
double Gn_EC3_gamma =0.013;
double Gn_CA1_gamma =0.01;
// common parameters
double const Thst_syn=100.0; // a time we keep information of synaptic conductance. check point5 50.0 -> 100 to match with Thst_ca
int const Nhst=int(Thst_syn/hstp)+1;
const int Nns = 40;
const int FLG_noise=1;
double Vex = 2.0; //mV
double rex = 100.0; //Hz
double rex_e=0.0; //Hz only to excitatory neurons
double rex_i =0.0; //Hz
double Vosc= 2.0;
const int Nosc = 10;
double Aosc=5;
double Aca3=30; //[Hz] //check point 30->20->30
double freq_ext=10; //[Hz]
double freq_gamma_h=80; //[Hz]
double osc_scl=1.0;
// synapse parameters [*10ms]
double const tdcy_E=5.3;
double const tris_E=0.05;
double const tdcy_I=9.1;
double const tris_I=0.07;
double const tdcy_T=22.0;
double const tris_T=2.0;
//check point in gamma_dec
double const tdcy_E_dec=4.0;
double const tdcy_I_dec=4.0;
double VE = 0.0;
double VI = -80.0;
double Vr = -30.0;
double Vth = 0.0;
double Vmax = 20.0;
//time constants
double const tmE = 20.0;
double const tmI = 10.0;
//check point
//double ts = 2.0;
double ts = 2.0;
double tgaba = 8.0;
double tnmda = 100.0;
double tref = 5.0;
//synaptic delay
// within area
double dEmax_wti = 2.0; // [ms]
double dEmin_wti = 0.0;
double dImax_wti = 2.0;
double dImin_wti = 0.0;
// between area
double dEmax_btw = 15.0; // [ms]
double dEmin_btw = 10.0; //
double dImax_btw = 15.0; // this value is not used
double dImin_btw = 5.0; // this value is not used
int const N_plat =(dEmax_btw+Tplat)/(double)hstp;
vector<double> dvec;
vector<int> ivec;
deque<double> ddeque;
deque<int> ideque;
typedef vector< vector<double> > DBLMAT;
double dice(){
// return rand()/(RAND_MAX + 1.0);
return genrand_real2();
}
typedef struct str_var_EC3_tmp
{
vector<double> v,m,n,h,ahp,rf,rs;
vector<double> spts; //previous spike time
vector< deque<double> > gE,gI,gtest;
} STR_VAR_EC3;
typedef struct str_var_ca1_tmp
{
//caspk vector<double> v,m,n,h,a,b,r,rf,rs,ahp,mca,hca;
vector<double> v,m,n,h,a,b,r,rf,rs,ahp,t_Ca_spk;
vector<double> spts,olmspts,olmspts1,olmspts2; //previous spike time
vector< deque<double> > ca3spts,ec3spts,gE,gI,gT;
vector< deque<int> > t_plat,if_plat;
vector<int> if_spk;
} STR_VAR_CA1;
typedef struct str_var_EC5_tmp
{
vector<double> v,m,n,h,ahp,Cal,KM,Napm,Naph,KAa,KAb,Ca,mCAN,KC,hrate_can;
vector<double> spts; //previous spike time
vector< deque<double> > gE,gI;
} STR_VAR_EC5;
typedef struct str_var_Dec_tmp
{
vector<double> v,m,n,h,ahp;
vector<double> spts; //previous spike time
vector< deque<int> > recCA1_spts,recEC3_spts;
vector< deque<double> > gE,gI,gE_CA1;
} STR_VAR_Dec;
typedef struct str_para_tmp
{
double I;
double gCAN;
} STR_PARA;
#define PVinact 1
#include"HH_memdyn.h"
#include"HH_gennet.h"
double ngn(){
double u = dice(); double v = dice();
return sqrt(-2.0*log(u))*cos(2.0*pi*v);
}
double v_to_g(double v, double gm){
return gm*v;
}
double calc_nrnd(void){
static int sw=0;
static double t,u;
if(sw==0){
sw=1;
t=sqrt(-2*log(1-dice())); u = 2*pi*dice();
return t*cos(u);
}
else{
sw=0;
return t*sin(u);
}
}
void init_var_EC3(STR_VAR_EC3* pstr_var_tmp){
for(int i = 0; i < N_EC3; i++){
pstr_var_tmp->v.push_back(VI+dice()*(Vr-VI));
pstr_var_tmp->n.push_back(0.2*dice());
pstr_var_tmp->h.push_back(1.0-0.2*dice());
pstr_var_tmp->m.push_back(0.2*dice());
pstr_var_tmp->ahp.push_back(dice());
pstr_var_tmp->rf.push_back(dice());
pstr_var_tmp->rs.push_back(dice());
pstr_var_tmp->spts.push_back(-1000.0);
}
// input current into CA1 neurons: dual exponential function (cf principles of comput. neurosci.)
for(int i=0; i<N_EC3;i++){
pstr_var_tmp->gE.push_back(ddeque);
pstr_var_tmp->gI.push_back(ddeque);
for( int j=0; j<Nhst;j++){
pstr_var_tmp->gE[i].push_back(0.0);
pstr_var_tmp->gI[i].push_back(0.0);
}
//check point
pstr_var_tmp->gtest.push_back(ddeque);
for( int j=0; j<Nhst;j++)
pstr_var_tmp->gtest[i].push_back(0.0);;
}
return;
}
void init_var_CA1(STR_VAR_CA1* pstr_var_tmp){
// caspk double dtmp;
for(int i = 0; i < N_CA1; i++){
pstr_var_tmp->v.push_back(VI+dice()*(Vr-VI));
pstr_var_tmp->n.push_back(0.2*dice());
pstr_var_tmp->h.push_back(1.0-0.2*dice());
pstr_var_tmp->m.push_back(0.2*dice());
pstr_var_tmp->a.push_back(dice());
pstr_var_tmp->b.push_back(dice());
pstr_var_tmp->r.push_back(dice());
pstr_var_tmp->rf.push_back(dice());
pstr_var_tmp->rs.push_back(dice());
pstr_var_tmp->ahp.push_back(0.0);
/* caspk
dtmp=0.0;
pstr_var_tmp->mca.push_back(dtmp);
pstr_var_tmp->hca.push_back(1-dtmp);
*/
pstr_var_tmp->t_Ca_spk.push_back(-1000.0);
pstr_var_tmp->spts.push_back(-1000.0);
pstr_var_tmp->ca3spts.push_back(ddeque);
for(int j=0;j<3;j++) pstr_var_tmp->ca3spts[i].push_back(-1000.0-j*100.0);
pstr_var_tmp->ec3spts.push_back(ddeque);
for(int j=0;j<3;j++) pstr_var_tmp->ec3spts[i].push_back(-1000.0-j*100.0);
pstr_var_tmp->olmspts.push_back(-1000.0-500);
pstr_var_tmp->olmspts1.push_back(-1000.0-500);
pstr_var_tmp->olmspts2.push_back(-1000.0-500);
pstr_var_tmp->t_plat.push_back(ideque);
pstr_var_tmp->if_plat.push_back(ideque);
for(int j=0;j<N_plat;j++){
pstr_var_tmp->t_plat[i].push_back(0);
pstr_var_tmp->if_plat[i].push_back(0);
}
pstr_var_tmp->if_spk.push_back(0);
}
// input current into CA1 neurons: dual exponential function (cf principles of comput. neurosci.)
for(int i=0; i<N_CA1;i++){
pstr_var_tmp->gE.push_back(ddeque);
pstr_var_tmp->gI.push_back(ddeque);
pstr_var_tmp->gT.push_back(ddeque);
for( int j=0; j<Nhst;j++){
pstr_var_tmp->gE[i].push_back(0.0);
pstr_var_tmp->gI[i].push_back(0.0);
pstr_var_tmp->gT[i].push_back(0.0);
}
}
return;
}
void init_var_EC5(STR_VAR_EC5* pstr_var_tmp){
for(int i = 0; i < N_EC5; i++){
pstr_var_tmp->v.push_back(VI+dice()*(Vr-VI));
pstr_var_tmp->n.push_back(0.2*dice());
pstr_var_tmp->h.push_back(1.0-0.2*dice());
pstr_var_tmp->m.push_back(0.2*dice());
pstr_var_tmp->ahp.push_back(0.2); // check point (if set these values between 0 and 1, spike timings are quite similar)
pstr_var_tmp->Cal.push_back(0.0);
pstr_var_tmp->KM.push_back(0.0); // check point (if set these values between 0 and 1, spike timings are quite similar)
pstr_var_tmp->Napm.push_back(0.0); // check point (if set these values between 0 and 1, spike timings are quite similar)
pstr_var_tmp->Naph.push_back(0.0); // check point (if set these values between 0 and 1, spike timings are quite similar)
pstr_var_tmp->KAa.push_back(0.0); // check point (if set these values between 0 and 1, spike timings are quite similar)
pstr_var_tmp->KAb.push_back(0.0); // check point (if set these values between 0 and 1, spike timings are quite similar)
pstr_var_tmp->Ca.push_back(0.0);
pstr_var_tmp->mCAN.push_back(0.0);
pstr_var_tmp->KC.push_back(0.0);
pstr_var_tmp->spts.push_back(-1000.0);
pstr_var_tmp->hrate_can.push_back(1.0);
}
// input current into CA1 neurons: dual exponential function (cf principles of comput. neurosci.)
for(int i=0; i<N_EC5;i++){
pstr_var_tmp->gE.push_back(ddeque);
pstr_var_tmp->gI.push_back(ddeque);
for( int j=0; j<Nhst;j++){
pstr_var_tmp->gE[i].push_back(0.0);
pstr_var_tmp->gI[i].push_back(0.0);
}
}
return;
}
// for decoder
void init_var_Dec(STR_VAR_Dec* pstr_var_tmp){
for(int i = 0; i < N_Dec; i++){
pstr_var_tmp->v.push_back(VI+dice()*(Vr-VI));
pstr_var_tmp->n.push_back(0.2*dice());
pstr_var_tmp->h.push_back(1.0-0.2*dice());
pstr_var_tmp->m.push_back(0.2*dice());
pstr_var_tmp->ahp.push_back(0.2);
pstr_var_tmp->spts.push_back(-1000.0);
}
for(int i=0; i<N_Dec;i++){
pstr_var_tmp->gE.push_back(ddeque);
pstr_var_tmp->gE_CA1.push_back(ddeque);
pstr_var_tmp->gI.push_back(ddeque);
for( int j=0; j<Nhst;j++){
pstr_var_tmp->gE[i].push_back(0.0);
pstr_var_tmp->gE_CA1[i].push_back(0.0);
pstr_var_tmp->gI[i].push_back(0.0);
}
}
return;
}
void calc(int ik,int it,double c_Ach_aft, double Ach_test){
double dtmp;
int itmp;
double t;
double lfp;
string ver="no_EC3toPV";
double c_Ach=0.; // consentration of Ach
// srand(ik*31);
init_genrand(ik*31);
// vector< vector<double> >
DBLMAT G_EC3 = calc_G3("EC3"); // G[i][j]: i:post j:pre
DBLMAT G_EC5 = calc_G3("EC5");
DBLMAT G_CA1 = calc_G_CA1("CA1");
DBLMAT G_EC3_CA1=calc_G3_EC3_CA1("EC3","CA1",ver);
DBLMAT G_CA3_CA1=calc_G3_CA3_CA1("CA3","CA1",ver);
DBLMAT G_CA1_EC5=calc_G3_CA1_EC5("CA1","EC5");
DBLMAT G_EC5_EC3=calc_G3_EC5_EC3("EC5","EC3");
// vector< vector<double> >
vector< vector<int> > d_EC3 = calc_d(N_EC3,NE_EC3); //d[i][j]: i:post j:pre
vector< vector<int> > d_EC5 = calc_d(N_EC5,NE_EC5);
vector< vector<int> > d_CA1 = calc_d(N_CA1,NE_CA1);
vector< vector<int> > d_EC3_CA1 = calc_d_btw(N_EC3,NE_EC3,N_CA1,NE_CA1);
vector< vector<int> > d_CA1_EC5 = calc_d_btw(N_CA1,NE_CA1,N_EC5,NE_EC5);
vector< vector<int> > d_EC5_EC3 = calc_d_btw(N_EC5,NE_EC5,N_EC3,NE_EC3);
// for decoder
DBLMAT G_Dec =calc_Dec("Dec","Dec");
DBLMAT G_EC3_Dec=calc_Dec("EC3","Dec");
DBLMAT G_CA1_Dec=calc_Dec("CA1","Dec");
vector< vector<int> > d_Dec = calc_d_dec(N_Dec,N_Dec,'w'); // w: within a network, b: between networks
vector< vector<int> > d_EC3_Dec = calc_d_dec(N_EC3,N_Dec,'b');
vector< vector<int> > d_CA1_Dec = calc_d_dec(N_CA1,N_Dec,'b');
for(int i=0;i<N_Dec;i++){
for(int j=0;j<d_EC3_Dec[i].size();j++)d_EC3_Dec[i][j]+=(int)(12.5/hstp); //check point dec
}
vector< vector<int> > Goutidx_EC3; // Goutidx[i][j]: i:pre j:post
for(int i = 0; i < N_EC3; i++){
Goutidx_EC3.push_back(ivec);
for(int j = 0; j < N_EC3; j++){
if( G_EC3[j][i] > 0.0 ) Goutidx_EC3[i].push_back(j);
}
}
vector< vector<int> > Goutidx_EC5;
for(int i = 0; i < N_EC5; i++){
Goutidx_EC5.push_back(ivec);
for(int j = 0; j < N_EC5; j++){
if( G_EC5[j][i] > 0.0 ) Goutidx_EC5[i].push_back(j);
}
}
vector< vector<int> > Goutidx_CA1;
for(int i = 0; i < N_CA1; i++){
Goutidx_CA1.push_back(ivec);
for(int j = 0; j < N_CA1; j++){
if( G_CA1[j][i] > 0.0 ) Goutidx_CA1[i].push_back(j);
}
}
/*
for(int i = NE_CA1+NPV; i < N_CA1; i++){
cout<<i<< "| ";
for(int jidx = 0; jidx < Goutidx_CA1[i].size(); jidx++){
int j = Goutidx_CA1[i][jidx];
if(j<NE_CA1) cout<< j << " " ;
}
cout<<endl;
}
exit(0);
*/
vector< vector<int> > Goutidx_EC3_CA1;
for(int i = 0; i < N_EC3; i++){
Goutidx_EC3_CA1.push_back(ivec);
for(int j = 0; j < N_CA1; j++){
if( G_EC3_CA1[j][i] > 0.0 ) Goutidx_EC3_CA1[i].push_back(j);
}
}
vector< vector<int> > Goutidx_CA1_EC5;
for(int i = 0; i < N_CA1; i++){
Goutidx_CA1_EC5.push_back(ivec);
for(int j = 0; j < N_EC5; j++){
if( G_CA1_EC5[j][i] > 0.0 ) Goutidx_CA1_EC5[i].push_back(j);
}
}
vector< vector<int> > Goutidx_CA3_CA1;
for(int i = 0; i < N_CA3; i++){
Goutidx_CA3_CA1.push_back(ivec);
for(int j = 0; j < NE_CA1; j++){
if( G_CA3_CA1[j][i] > 0.0 ) Goutidx_CA3_CA1[i].push_back(j);
}
for(int j = NE_CA1; j < NE_CA1+NPV; j++){
if( G_CA3_CA1[j][i] > 0.0 ) Goutidx_CA3_CA1[i].push_back(j);
}
}
vector< vector<int> > Goutidx_EC5_EC3;
for(int i = 0; i < N_EC5; i++){
Goutidx_EC5_EC3.push_back(ivec);
for(int j = 0; j < N_EC3; j++){
if( G_EC5_EC3[j][i] > 0.0 ) Goutidx_EC5_EC3[i].push_back(j);
}
}
// setting for decoder
vector< vector<int> > Goutidx_Dec;
for(int i = 0; i < N_Dec; i++){
Goutidx_Dec.push_back(ivec);
for(int j = 0; j < N_Dec; j++){
if( G_Dec[j][i] > 0.0 ) Goutidx_Dec[i].push_back(j);
}
}
vector< vector<int> > Goutidx_EC3_Dec;
for(int i = 0; i < N_EC3; i++){
Goutidx_EC3_Dec.push_back(ivec);
for(int j = 0; j < N_Dec; j++){
if( G_EC3_Dec[j][i] > 0.0 ) Goutidx_EC3_Dec[i].push_back(j);
}
}
vector< vector<int> > Goutidx_CA1_Dec;
for(int i = 0; i < N_CA1; i++){
Goutidx_CA1_Dec.push_back(ivec);
for(int j = 0; j < N_Dec; j++){
if( G_CA1_Dec[j][i] > 0.0 ) Goutidx_CA1_Dec[i].push_back(j);
}
}
/**************/
/********** read a spike data ***************/
#ifdef readmode
ostringstream ossd;
if(Flg_gamma==0)
ossd << "sample_rast_EC5EC3" <<GEE_EC5_EC3 <<"_CA1EC5"<<GEE_CA1_EC5<<"_EC3_CA1"<<GEE_EC3_CA1<<"_Gpv"<<Gpv_ach<<"_cCA1EC5"<<cEE_CA1_EC5<<"_EC5"<<GEE_EC5<<"_gCAN"<<gCAN_def<<c_Ach_aft<<"GEI_EC5"<<GEI_EC5<<"GIE_EC5"<<GIE_EC5<<ik<<"_"<<it<<Gn_EC3_I<<".datdec4long"<<Ach_test<<Aosc_gamma<<Aosc_gamma_EC3<<"0.10.0020.018080gamma12";
else if(Flg_gamma==1)
ossd << "sample_rast_EC5EC3" <<GEE_EC5_EC3 <<"_CA1EC5"<<GEE_CA1_EC5<<"_EC3_CA1"<<GEE_EC3_CA1<<"_Gpv"<<Gpv_ach<<"_cCA1EC5"<<cEE_CA1_EC5<<"_EC5"<<GEE_EC5<<"_gCAN"<<gCAN_def<<c_Ach_aft<<"GEI_EC5"<<GEI_EC5<<"GIE_EC5"<<GIE_EC5<<ik<<"_"<<it<<Gn_EC3_I<<".datdec4long"<<Ach_test<<Aosc_gamma<<Aosc_gamma_EC3<<"0.10.0020.018080gamma1";
else if(Flg_gamma==2)
ossd << "sample_rast_EC5EC3" <<GEE_EC5_EC3 <<"_CA1EC5"<<GEE_CA1_EC5<<"_EC3_CA1"<<GEE_EC3_CA1<<"_Gpv"<<Gpv_ach<<"_cCA1EC5"<<cEE_CA1_EC5<<"_EC5"<<GEE_EC5<<"_gCAN"<<gCAN_def<<c_Ach_aft<<"GEI_EC5"<<GEI_EC5<<"GIE_EC5"<<GIE_EC5<<ik<<"_"<<it<<Gn_EC3_I<<".datdec4long"<<Ach_test<<Aosc_gamma<<Aosc_gamma_EC3<<"0.10.0020.018080gamma3";
else if(Flg_gamma==3)
ossd << "sample_rast_EC5EC3" <<GEE_EC5_EC3 <<"_CA1EC5"<<GEE_CA1_EC5<<"_EC3_CA1"<<GEE_EC3_CA1<<"_Gpv"<<Gpv_ach<<"_cCA1EC5"<<cEE_CA1_EC5<<"_EC5"<<GEE_EC5<<"_gCAN"<<gCAN_def<<c_Ach_aft<<"GEI_EC5"<<GEI_EC5<<"GIE_EC5"<<GIE_EC5<<ik<<"_"<<it<<Gn_EC3_I<<".datdec4long"<<Ach_test<<Aosc_gamma<<Aosc_gamma_EC3<<"0.10.0020.018080nogamma";
string fstr=ossd.str(); ifstream ifs(fstr.c_str());
if(ifs.fail()) {
cerr << "File do not exist."<<fstr.c_str()<<"\n" ;
exit(0);
}
string str;
DBLMAT spikeEC3; // output filter
DBLMAT spikeCA1; // output filter
for(int i=0;i<NE_EC3;i++) spikeEC3.push_back(dvec);
for(int i=0;i<NE_CA1;i++) spikeCA1.push_back(dvec);
while(true){
getline(ifs, str);
sscanf(str.data(), "%lg %d ", &dtmp, &itmp);
if(itmp>=N_ALN_EC3 && itmp<N_ALN_EC3+NE_EC3)spikeEC3[itmp-N_ALN_EC3].push_back(dtmp);
if(itmp>=N_ALN_CA1 && itmp<N_ALN_CA1+NE_CA1)spikeCA1[itmp-N_ALN_CA1].push_back(dtmp);
if(ifs.eof()) break;
}
/**********************/
// check point
ostringstream osst;
ostringstream ossf;
if(Flg_gamma==0){
osst << "rast_8080gamma12"<<ik<<it<<Icnst_Dec<<Gn_Dec_IE<<".dat";
ossf << "dyn_8080gamma12"<<ik<<it<<Icnst_Dec<<Gn_Dec_IE<<".dat";
}
else if(Flg_gamma==1){
osst << "rast_8080gamma13"<<ik<<it<<Icnst_Dec<<Gn_Dec_IE<<".dat";
ossf << "dyn_8080gamma13"<<ik<<it<<Icnst_Dec<<Gn_Dec_IE<<".dat";
}
else if(Flg_gamma==2){
osst << "rast_8080gamma3"<<ik<<it<<Icnst_Dec<<Gn_Dec_IE<<".dat";
ossf << "dyn_8080gamma3"<<ik<<it<<Icnst_Dec<<Gn_Dec_IE<<".dat";
}
else if(Flg_gamma==3){
osst << "rast_8080nogamma"<<ik<<it<<Icnst_Dec<<Gn_Dec_IE<<".dat";
ossf << "dyn_8080nogamma"<<ik<<it<<Icnst_Dec<<Gn_Dec_IE<<".dat";
}
#else
ostringstream osst;
ostringstream ossf;
if(osc_flg==1){
osst << "rast_EC5EC3" <<GEE_EC5_EC3 <<"_CA1EC5"<<GEE_CA1_EC5<<"_EC3_CA1"<<GEE_EC3_CA1<<"_Gpv"<<Gpv_ach<<"_cCA1EC5"<<cEE_CA1_EC5<<"_EC5"<<GEE_EC5<<"_gCAN"<<gCAN_def<<c_Ach_aft<<"GEI_EC5"<<GEI_EC5<<"GIE_EC5"<<GIE_EC5<<ik<<"_"<<it<<Gn_EC3_I<<osc_scl<<".datdeclong_notheta";
ossf << "dyn_EC5EC3" <<GEE_EC5_EC3 <<"_CA1EC5"<<GEE_CA1_EC5<<"_EC3_CA1"<<GEE_EC3_CA1<<"_Gpv"<<Gpv_ach<<"_cCA1EC5"<<cEE_CA1_EC5<<"_EC5"<<GEE_EC5<<"_gCAN"<<gCAN_def<<c_Ach_aft<<"GEI_EC5"<<GEI_EC5<<"GIE_EC5"<<GIE_EC5<<ik<<"_"<<it<<Gn_EC3_I<<osc_scl<<".datdeclong_notheta";
}
else if(Tach_end_str>Tec3off_strt){
osst << "rast_EC5EC3" <<GEE_EC5_EC3 <<"_CA1EC5"<<GEE_CA1_EC5<<"_EC3_CA1"<<GEE_EC3_CA1<<"_Gpv"<<Gpv_ach<<"_cCA1EC5"<<cEE_CA1_EC5<<"_EC5"<<GEE_EC5<<"_gCAN"<<gCAN_def<<c_Ach_aft<<"GEI_EC5"<<GEI_EC5<<"GIE_EC5"<<GIE_EC5<<ik<<"_"<<it<<Gn_EC3_I<<".datdeclong_block"<<Ach_test;
ossf << "dyn_EC5EC3" <<GEE_EC5_EC3 <<"_CA1EC5"<<GEE_CA1_EC5<<"_EC3_CA1"<<GEE_EC3_CA1<<"_Gpv"<<Gpv_ach<<"_cCA1EC5"<<cEE_CA1_EC5<<"_EC5"<<GEE_EC5<<"_gCAN"<<gCAN_def<<c_Ach_aft<<"GEI_EC5"<<GEI_EC5<<"GIE_EC5"<<GIE_EC5<<ik<<"_"<<it<<Gn_EC3_I<<".datdeclong_block"<<Ach_test;
}
else if(Tach_inc>Tec3off_strt){
osst << "rast_EC5EC3" <<GEE_EC5_EC3 <<"_CA1EC5"<<GEE_CA1_EC5<<"_EC3_CA1"<<GEE_EC3_CA1<<"_Gpv"<<Gpv_ach<<"_cCA1EC5"<<cEE_CA1_EC5<<"_EC5"<<GEE_EC5<<"_gCAN"<<gCAN_def<<c_Ach_aft<<"GEI_EC5"<<GEI_EC5<<"GIE_EC5"<<GIE_EC5<<ik<<"_"<<it<<Gn_EC3_I<<".datdeclong_block3"<<Ach_test;
ossf << "dyn_EC5EC3" <<GEE_EC5_EC3 <<"_CA1EC5"<<GEE_CA1_EC5<<"_EC3_CA1"<<GEE_EC3_CA1<<"_Gpv"<<Gpv_ach<<"_cCA1EC5"<<cEE_CA1_EC5<<"_EC5"<<GEE_EC5<<"_gCAN"<<gCAN_def<<c_Ach_aft<<"GEI_EC5"<<GEI_EC5<<"GIE_EC5"<<GIE_EC5<<ik<<"_"<<it<<Gn_EC3_I<<".datdeclong_block3"<<Ach_test;
}
else if( T > Tec3off_strt){
osst << "rast_EC5EC3" <<GEE_EC5_EC3 <<"_CA1EC5"<<GEE_CA1_EC5<<"_EC3_CA1"<<GEE_EC3_CA1<<"_Gpv"<<Gpv_ach<<"_cCA1EC5"<<cEE_CA1_EC5<<"_EC5"<<GEE_EC5<<"_gCAN"<<gCAN_def<<c_Ach_aft<<"GEI_EC5"<<GEI_EC5<<"GIE_EC5"<<GIE_EC5<<ik<<"_"<<it<<Gn_EC3_I<<".datdeclong_block5"<<Ach_test<<"0.1";
ossf << "dyn_EC5EC3" <<GEE_EC5_EC3 <<"_CA1EC5"<<GEE_CA1_EC5<<"_EC3_CA1"<<GEE_EC3_CA1<<"_Gpv"<<Gpv_ach<<"_cCA1EC5"<<cEE_CA1_EC5<<"_EC5"<<GEE_EC5<<"_gCAN"<<gCAN_def<<c_Ach_aft<<"GEI_EC5"<<GEI_EC5<<"GIE_EC5"<<GIE_EC5<<ik<<"_"<<it<<Gn_EC3_I<<".datdeclong_block5"<<Ach_test<<"0.1";
}
else if(Icnst_PV<-1.0){
osst << "rast_EC5EC3" <<GEE_EC5_EC3 <<"_CA1EC5"<<GEE_CA1_EC5<<"_EC3_CA1"<<GEE_EC3_CA1<<"_Gpv"<<Gpv_ach<<"_cCA1EC5"<<cEE_CA1_EC5<<"_EC5"<<GEE_EC5<<"_gCAN"<<gCAN_def<<c_Ach_aft<<"GEI_EC5"<<GEI_EC5<<"GIE_EC5"<<GIE_EC5<<ik<<"_"<<it<<Gn_EC3_I<<".datdeclong_PVinact";
ossf << "dyn_EC5EC3" <<GEE_EC5_EC3 <<"_CA1EC5"<<GEE_CA1_EC5<<"_EC3_CA1"<<GEE_EC3_CA1<<"_Gpv"<<Gpv_ach<<"_cCA1EC5"<<cEE_CA1_EC5<<"_EC5"<<GEE_EC5<<"_gCAN"<<gCAN_def<<c_Ach_aft<<"GEI_EC5"<<GEI_EC5<<"GIE_EC5"<<GIE_EC5<<ik<<"_"<<it<<Gn_EC3_I<<".datdeclong_PVinact";
}
else if(geta>0.0){
osst << "rast_EC5EC3" <<GEE_EC5_EC3 <<"_CA1EC5"<<GEE_CA1_EC5<<"_EC3_CA1"<<GEE_EC3_CA1<<"_Gpv"<<Gpv_ach<<"_cCA1EC5"<<cEE_CA1_EC5<<"_EC5"<<GEE_EC5<<"_gCAN"<<gCAN_def<<c_Ach_aft<<"GEI_EC5"<<GEI_EC5<<"GIE_EC5"<<GIE_EC5<<ik<<"_"<<it<<Gn_EC3_I<<".datdeclong_disord";
ossf << "dyn_EC5EC3" <<GEE_EC5_EC3 <<"_CA1EC5"<<GEE_CA1_EC5<<"_EC3_CA1"<<GEE_EC3_CA1<<"_Gpv"<<Gpv_ach<<"_cCA1EC5"<<cEE_CA1_EC5<<"_EC5"<<GEE_EC5<<"_gCAN"<<gCAN_def<<c_Ach_aft<<"GEI_EC5"<<GEI_EC5<<"GIE_EC5"<<GIE_EC5<<ik<<"_"<<it<<Gn_EC3_I<<".datdeclong_disord";
}
else{
osst << "rast_EC5EC3" <<GEE_EC5_EC3 <<"_CA1EC5"<<GEE_CA1_EC5<<"_EC3_CA1"<<GEE_EC3_CA1<<"_Gpv"<<Gpv_ach<<"_cCA1EC5"<<cEE_CA1_EC5<<"_EC5"<<GEE_EC5<<"_gCAN"<<gCAN_def<<c_Ach_aft<<"GEI_EC5"<<GEI_EC5<<"GIE_EC5"<<GIE_EC5<<ik<<"_"<<it<<Gn_EC3_I<<".datdec4long"<<Ach_test<<Aosc_gamma<<Aosc_gamma_EC3<<Icnst_Dec<<Gn_Dec_IE<<"0.01"<<N_gamma_EC3<<N_gamma_CA1<<"gamma15_1";
ossf << "dyn_EC5EC3" <<GEE_EC5_EC3 <<"_CA1EC5"<<GEE_CA1_EC5<<"_EC3_CA1"<<GEE_EC3_CA1<<"_Gpv"<<Gpv_ach<<"_cCA1EC5"<<cEE_CA1_EC5<<"_EC5"<<GEE_EC5<<"_gCAN"<<gCAN_def<<c_Ach_aft<<"GEI_EC5"<<GEI_EC5<<"GIE_EC5"<<GIE_EC5<<ik<<"_"<<it<<Gn_EC3_I<<".datdec4long"<<Ach_test<<Aosc_gamma<<Aosc_gamma_EC3<<Icnst_Dec<<Gn_Dec_IE<<"0.01"<<N_gamma_EC3<<N_gamma_CA1 <<"gamma15_1";
}
#endif
string fstrt = osst.str(); ofstream ofst; ofst.open( fstrt.c_str() );
fstrt = ossf.str(); ofstream ofsf; ofsf.open( fstrt.c_str() );
STR_VAR_EC3 str_var_EC3_tmp;
STR_VAR_CA1 str_var_CA1_tmp;
STR_VAR_EC5 str_var_EC5_tmp;
STR_PARA str_paras_tmp;
STR_VAR_EC3* pstr_var_EC3;
STR_VAR_CA1* pstr_var_CA1;
STR_VAR_EC5* pstr_var_EC5;
STR_PARA* pstr_paras;
pstr_var_EC3 = &str_var_EC3_tmp;
pstr_var_CA1 = &str_var_CA1_tmp;
pstr_var_EC5 = &str_var_EC5_tmp;
pstr_paras = &str_paras_tmp;
// for decoder
STR_VAR_Dec str_var_Dec_tmp;
STR_VAR_Dec* pstr_var_Dec;
pstr_var_Dec = &str_var_Dec_tmp;
for(int i=0;i<N_Dec;i++){
pstr_var_Dec->recCA1_spts.push_back(ideque);
itmp=0;
for(int j=0;j<d_CA1_Dec[i].size();j++) itmp= itmp>d_CA1_Dec[i][j] ? itmp:d_CA1_Dec[i][j];
for(int j=0;j<itmp;j++) pstr_var_Dec->recCA1_spts[i].push_back(0);
pstr_var_Dec->recEC3_spts.push_back(ideque);
itmp=0;
for(int j=0;j<d_EC3_Dec[i].size();j++) itmp= itmp>d_EC3_Dec[i][j] ? itmp:d_EC3_Dec[i][j];
for(int j=0;j<itmp;j++) pstr_var_Dec->recEC3_spts[i].push_back(0);
}
// srand(itmp);
itmp=ik*(it+1)*313+ik+it;
init_genrand(itmp);
init_var_EC3(pstr_var_EC3);
init_var_CA1(pstr_var_CA1);
init_var_EC5(pstr_var_EC5);
init_var_Dec(pstr_var_Dec);
vector<double> vgEI;
double curr_dyn_E[Nhst],curr_dyn_I[Nhst],curr_dyn_T[Nhst];
double curr_dyn_E_dec[Nhst],curr_dyn_I_dec[Nhst];
for(int i=0; i<Nhst;i++){
curr_dyn_E[i]=(1/(tris_E-tdcy_E))*(exp(-i*hstp/tris_E)-exp(-i*hstp/tdcy_E));
curr_dyn_I[i]=(1/(tris_I-tdcy_I))*(exp(-i*hstp/tris_I)-exp(-i*hstp/tdcy_I));
curr_dyn_T[i]=(1/(tris_T-tdcy_T))*(exp(-i*hstp/tris_T)-exp(-i*hstp/tdcy_T));
curr_dyn_E_dec[i]=(1/(tris_E-tdcy_E_dec))*(exp(-i*hstp/tris_E)-exp(-i*hstp/tdcy_E_dec));
curr_dyn_I_dec[i]=(1/(tris_I-tdcy_I_dec))*(exp(-i*hstp/tris_I)-exp(-i*hstp/tdcy_I_dec));
}
double Ca_g[Nhst_ca]; //check point time scale 100 -> 50
for(int i=0;i<5.0/hstp;i++) Ca_g[i]=i/(5.0/hstp);
for(int i=5.0/hstp;i<(35.0/hstp);i++) Ca_g[i]=1-(i-5.0/hstp)/(60.0/hstp);
for(int i=(35.0/hstp);i<Nhst_ca;i++) Ca_g[i]=0.5*exp(-(i-(35.0/hstp))/(30.0/hstp));
for(t = 0.0; t < T+hstp; t += hstp){
// cholinergic control
if( t>= Tach_strt && t<Tach_end_str) c_Ach=1.0-0.8*exp(-(t-Tach_strt)/200.0);
else if( t>=Tach_end_str && t<Tach_inc) c_Ach=c_Ach_aft+(1.0-c_Ach_aft)*exp(-(t-Tach_end_str)/200.0);
else if( t>=Tach_inc && t<Tach_end) c_Ach=Ach_test-(Ach_test-c_Ach_aft)*exp(-(t-Tach_inc)/200.0);//check point
else c_Ach=0.2; //check point
#ifndef readmode
// VIP input driven by Ach
double Gosc;
Gosc=rvip*(sin(2*pi*(freq_ext*t/1000.0+0.5-0.1))+0.3);
// S=3.03, scale keeping S is 0.4827
if(osc_flg==1)
Gosc=rvip*(1+0.3)*osc_scl;
//Gosc=rvip*0.4827;
if(Gosc<0.0) Gosc=0.0;
for(int j=0;j<NVIP;j++){
// inh into PV
for(int i = NE_CA1; i < NE_CA1+NPV; i++){
if( dice() < Gosc/(1000.0/hstp)){
if(i==NE_CA1)ofst << t << " " << j+N_all-NVIP << endl;
for( int k=0; k<Nhst; k++)
pstr_var_CA1->gI[i][k] += c_Ach*Gpv_ach*curr_dyn_I[k];
}
}
// inh into OLM
for(int i = NE_CA1+NPV; i < N_CA1; i++){
if( dice() < Gosc/(1000.0/hstp)){
for( int k=0; k<Nhst; k++)
pstr_var_CA1->gI[i][k] += c_Ach*Golm_ach*curr_dyn_I[k];
}
}
}
if(c_Ach>0.0)
pstr_paras->gCAN=c_Ach*gCAN_def;
else
pstr_paras->gCAN=0;
for(int i = 0; i < NE_EC3; i++){
for(int j=0;j<Nns;j++){
if( dice() < rec3/(1000.0/hstp)){
for( int k=0; k<Nhst; k++)
pstr_var_EC3->gE[i][k] += Gn_EC3_E*curr_dyn_E[k];
}
}
for(int j=0;j<Nns;j++){
if( dice() < rec3/(1000.0/hstp)){
for( int k=0; k<Nhst; k++)
pstr_var_EC3->gI[i][k] += Gn_EC3_I*curr_dyn_I[k];
}
}
}
for(int i = NE_EC3; i < N_EC3; i++){
for(int j=0;j<Nns;j++){
if( dice() < rec3/(1000.0/hstp)){
for( int k=0; k<Nhst; k++)
pstr_var_EC3->gE[i][k] += Gn_EC3_IE*curr_dyn_E[k];
}
}
for(int j=0;j<Nns;j++){
if( dice() < rec3/(1000.0/hstp)){
for( int k=0; k<Nhst; k++)
pstr_var_EC3->gI[i][k] += Gn_EC3_II*curr_dyn_I[k];
}
}