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#include <string.h>
#include <stdio.h>
#include <iostream>
#include <vector>
#include <utility>
#include <TFile.h>
#include <TTree.h>
#include <TSystemDirectory.h>
#include <string.h>
#include <TFile.h>
#include <TTree.h>
#include <TH1.h>
#include <TH2.h>
#include <TNtuple.h>
#include <iostream>
#include <fstream>
#include <TRandom.h>
#include <TROOT.h>
#include <algorithm>
#include <assert.h>
#include <math.h>
#include <stdlib.h>
#include <time.h>
#include <sys/time.h>
#include <TCanvas.h>
#include <TF1.h>
#include <TProfile.h>
#include <TVectorD.h>
#include <cstdlib>
#include <cmath>
#include <vector>
#include <TApplication.h>
using namespace std;
int main(int argc, char **argv){
// Working directories
const char *dirname = "/work/leverington/beamprofilemonitor/hitdata/HIT_26-11-2016/with_timestamp/"; const char *listfile = "intensitylist_carbon.prn"; ifstream in; ofstream ic1energyfile,ic2energyfile, beamenergyfile,beamenergyfile_iccorr, noisefile, focusfile,focusHITfile, skewfile, kurtfile,focusFitfile,chi2Fitfile;
TFile *f; TTree *tree; Int_t nfiles = 0; Int_t EList = 0; Double_t Energy = 0.; Double_t F1 = 0.; Double_t Intensity = 0.; Double_t SP = 0.; char Filename[50]; Int_t id = 0; Double_t signalmean = 0.; Double_t signalmeanerror = 0.; Double_t signalmean_corr = 0.; Double_t signalmeanerror_corr = 0.; Double_t signalmean_offsetcorr = 0.; Double_t signalmeanerror_offsetcorr = 0.; Double_t ic1mean = 0.; Double_t ic1meanerror = 0.; Double_t ic2mean = 0.; Double_t ic2meanerror = 0.;
Double_t sp_air = 0.; Double_t sp_ps = 0.; Double_t sp2_air = 0.; Double_t sp2_ps = 0.;
Double_t ic_beam_ratio = 0.; Double_t ic_beam_ratioerror = 0.;
Double_t totalcurrent = 0.; Double_t totaltime = 0.; Double_t intcorr = 0.; Double_t icbpmcorrelation = 0.;
Double_t noisemean = 0.; Double_t noiseRMS = 0.; Double_t focusmean = 0.; Double_t focusRMS = 0.; Double_t skewmean = 0.; Double_t skewRMS = 0.; Double_t kurtmean = 0.; Double_t kurtRMS = 0.; Double_t focusFitmean = 0.; Double_t focusFitRMS = 0.; Double_t chi2Fitmean = 0.; Double_t chi2FitRMS = 0.;
cout << "Trying to open"<< Form(": %s%s",dirname, listfile)<<"... " << endl;
in.open(Form("%s%s",dirname, listfile)); ic1energyfile.open("ic1energyfile_int_c.txt"); ic2energyfile.open("ic2energyfile_int_c.txt");
beamenergyfile.open("beamenergyfile_int_c.txt"); beamenergyfile_iccorr.open("beamenergyfile_iccorr_int_c.txt");
noisefile.open("noisefile_int_c.txt"); focusfile.open("focusfile_int_c.txt"); focusHITfile.open("focusHITfile_int_c.txt"); skewfile.open("skewfile_int_c.txt"); kurtfile.open("kurtfile_int_c.txt"); focusFitfile.open("focusFitfile_int_c.txt"); chi2Fitfile.open("chi2Fitfile_int_c.txt");
TF1 * f_sp_air = new TF1("f_sp_air","[0]*pow(x,[1])+[2]", 50, 250); //stopping power of protons in Air [MeV cm2 /g]
f_sp_air->SetParameters(303.746, -0.873697,1.01335); //protons between 50 and 300 MeV
TF1 * f_sp_ps = new TF1("f_sp_ps","[0]*pow(x,[1])+[2]", 50, 250); //stopping power of protons in polystyrene [MeV cm2 /g]
f_sp_ps->SetParameters(361.936, -0.892255, 1.19133); //protons between 50 and 220 MeV
TF1 * f_h2sp_air = new TF1("f_h2sp_air","[0]*pow(x,[1])+[2]", 50, 250); //stopping power of helium in air [MeV cm2 /g]
f_h2sp_air->SetParameters(1236.51, -0.880225, 4.17041); //helium between 50 and 300 MeV
TF1 * f_h2sp_ps = new TF1("f_h2sp_ps","[0]*pow(x,[1])+[2]", 50, 250); //stopping power of helium in polystyrene [MeV cm2 /g]
f_h2sp_ps->SetParameters(1387.08, -0.882686,4.60833); //heelium between 50 and 300 MeV
TF1 * f_c12sp_air = new TF1("f_c12sp_air","[0]*pow(x,[1])+[2]", 80, 480); //stopping power of carbon in air [MeV cm2 /g]
f_c12sp_air->SetParameters(13291.2, -0.925464,45.3876); //carbon between 80 and 480 MeV
TF1 * f_c12sp_ps = new TF1("f_c12sp_ps","[0]*pow(x,[1])+[2]", 80, 480); //stopping power of carbon in polystyrene [MeV cm2 /g]
f_c12sp_ps->SetParameters(14538.9, -0.922423,49.2859); //carbon between 80 and 480 MeV
TF1 * f_o16sp_air = new TF1("f_o16sp_air","[0]*pow(x,[1])+[2]", 80, 480); //stopping power of oxygen in air [MeV cm2 /g]
f_o16sp_air->SetParameters(24624.9, -0.925425,80.6828); //oxygen between 80 and 480 MeV
TF1 * f_o16sp_ps = new TF1("f_o16sp_ps","[0]*pow(x,[1])+[2]", 80,480); //stopping power of oxygen in polystyrene [MeV cm2 /g]
f_o16sp_ps->SetParameters(26465.6, -0.928309,88.6728); //oxygen between 80 and 480 MeV
///// ic1/SP intensity correction factor = 19.8E6+/-0.1E6 particles/s per nA/(Mevcm2/g)
if (!in) { cout << Form("%s%s",dirname, listfile) << " not found." << endl; return 0;} cout << Form("%s%s",dirname, listfile) << " opened." << endl;
in >> EList >> Energy >> F1 >> Intensity >> SP >> Filename >> id;//prime the while loop
while (!in.eof()) { TFile * file = TFile::Open(Form("%s%s",dirname,Filename)); TFile * outfile = TFile::Open(Form("plots/%s_plots",Filename),"RECREATE"); cout << Filename << endl; // TH1D* signalDist = 0;
// file->GetObject("signalDist",signalDist);
// signalmean = signalDist->GetMean();
// signalmeanerror = signalDist->GetMeanError();
// cout << signalmean << " " << signalmeanerror << endl;
// delete signalDist;
// TCanvas *c1 = new TCanvas("c1");
TTree *data; file->GetObject("newdata", data); TH2D *h_beamSignal_channel = (TH2D*)file->Get("th2d_beamSignal_channel"); TH2D *h_bkg_channel = (TH2D*)file->Get("th2d_bkg_channel");
noisemean = h_bkg_channel->GetMean(2); noiseRMS = h_bkg_channel->GetRMS(2);
TVectorD *v = (TVectorD*)file->Get("icinfo"); // v->Print();
totalcurrent = (*v)[0]; totaltime = (*v)[1]; // data->Print();
TH1D* h_beamSignal_1 = new TH1D("h_beamSignal_1","h_beamSignal_1",510,-5000,50000); TH1D* h_ic1_1 = new TH1D("h_ic1_1","h_ic1_1",510,-5000,50000); TH1D* h_ic2_1 = new TH1D("h_ic2_1","h_ic2_1",510,-5000,50000); TH1D* h_ic1_corr = new TH1D("h_ic1_corr","h_ic1_corr",210,-0.04,8); TH1D* h_ic2_corr = new TH1D("h_ic2_corr","h_ic2_corr",210,-0.04,8); TH2D* h_beamSignal_v_ic_pscorr = new TH2D("h_beamSignal_v_ic_pscorr","h_beamSignal_v_ic_pscorr",400,-0.05,8.,400,-.05,3.0); TH1D* h_beamSignal_offsetcorr = new TH1D("h_beamSignal_offsetcorr","h_beamSignal_offsetcorr",210,-.05,8.);
TH1D* h_beamSignal_corr = new TH1D("h_beamSignal_corr","h_beamSignal_corr",210,-.0500,8); TH1D* h_ic_beam_diff = new TH1D("h_ic_beam_diff","h_ic_beam_diff",400,-4,4); TH2D* h_beamSignal_v_ic_corr = new TH2D("h_beamSignal_v_ic_corr","h_beamSignal_v_ic_corr",210,-.05,8.,410,-3.0,3.0); TH2D* h_ic_v_ic_pscorr = new TH2D("h_ic_v_ic_pscorr","h_ic_v_ic_pscorr",400,-.05,8.,400,-0.05,8); TH2D* h_ic_v_ic_corr = new TH2D("h_ic_v_ic_corr","h_ic_v_ic_corr",210,-.05,8.,410,-3.0,3.0); TH1D* h_ic_beam_ratio = new TH1D("h_ic_beam_ratio","h_ic_beam_ratio",500,0,500.); TH2D* h_beamSignal_v_ic = new TH2D("h_beamSignal_v_ic","h_beamSignal_v_ic",510,-5000,50000,510,-5000,50000);
TH1D* h_beamFocusX_1 = new TH1D("h_beamFocusX_1","h_beamFocusX_1",200,0,50.); TH1D* h_beamSkewX_1 = new TH1D("h_beamSkewX_1","h_beamSkewX_1",200,0,50.); TH1D* h_beamKurtX_1 = new TH1D("h_beamKurtX_1","h_beamKurtX_1",200,0,50.); TH1D* h_beamFocusX_fit = new TH1D("h_beamFocusX_fit","h_beamFocusX_fit",200,0,50.); TH1D* h_beamChi2_fit = new TH1D("h_beamChi2_fit","h_beamChi2_fit",200,0,50.);
sp_air = f_c12sp_air->Eval(Energy)*(Intensity/1.0E6); sp_ps = f_c12sp_ps->Eval(Energy)*(Intensity/1.0E6); sp2_air = f_c12sp_air->Eval(Energy); sp2_ps = f_c12sp_ps->Eval(Energy);
cout << sp_air << " " << sp_ps << " " << sp2_air << " " << sp2_ps << endl; // data->Project("h_beamSignal_1","beamPeakX_fit","ic1_1>0.1&&beamChi2_fit<1000");
// data->Project("h_beamSignal_1","beamSignal_1-beamSidebandNoise_1","ic1_1>0.1");
data->Project("h_beamSignal_1", "beamPeakX_fit*sqrt(2)*beamFocusX_fit/2.3548" ,"beamon==1&&ic1_1>0.001&&beamChi2_fit<200&&beamPeakX_fit>20");
data->Project("h_beamFocusX_1","beamFocusX_1","ic1_1>0.01"); data->Project("h_beamSkewX_1","beamSkewX_1","ic1_1>0.01"); data->Project("h_beamKurtX_1","beamKurtX_1","ic1_1>0.01"); data->Project("h_beamFocusX_fit","beamFocusX_fit","ic1_1>0.01&&beamChi2_fit<1000"); data->Project("h_beamChi2_fit","beamChi2_fit","ic1_1>0.01&&beamChi2_fit<1000");
focusmean = h_beamFocusX_1->GetMean(); focusRMS = h_beamFocusX_1->GetRMS(); skewmean = h_beamSkewX_1->GetMean(); skewRMS = h_beamSkewX_1->GetRMS(); kurtmean = h_beamKurtX_1->GetMean(); kurtRMS = h_beamKurtX_1->GetRMS(); focusFitmean = h_beamFocusX_fit->GetMean(); focusFitRMS = h_beamFocusX_fit->GetRMS(); chi2Fitmean = h_beamChi2_fit->GetMean(); chi2FitRMS = h_beamChi2_fit->GetRMS();
data->Project("h_ic1_1","ic1_1","ic1_1>0.01"); data->Project("h_ic2_1","ic2_1","ic2_1>0.01");
data->Project("h_ic1_corr",Form("ic1_1/%f",sp_air),"ic1_1>0.01"); data->Project("h_ic2_corr",Form("ic2_1/%f",sp_air),"ic2_1>0.01");
data->Project("h_ic_v_ic_pscorr",Form("ic1_1/%f:ic2_1/%f", sp_air, sp_air),"ic1_1>0.01&&ic2_1>0.01"); h_ic_v_ic_pscorr->FitSlicesY(0,0,-1,5); TF1 * f2 = new TF1("f2","pol1"); f2->SetParameters(10, 1.0); TH1D* h_ic_v_ic_pscorr_1 = (TH1D*)gDirectory->Get("h_ic_v_ic_pscorr_1"); Int_t fitsuccess2 = h_ic_v_ic_pscorr_1->Fit(f2,"R","",0.2,4.5); data->Project("h_ic_v_ic_corr",Form("((ic1_1/%f-%f)/%f - ic2_1/%f)/(ic2_1/%f):ic2_1/%f", sp_air,f2->GetParameter(0), f2->GetParameter(1), sp_air,sp_air,sp_air),"ic1_1>0.01&&ic2_1>0.01"); h_ic_v_ic_corr->FitSlicesY(0,0,-1,5);
data->Project("h_beamSignal_v_ic_pscorr",Form("beamSignal_1/%f:ic2_1/%f",sp_ps,sp_air),"ic2_1>0.01"); data->Project("h_beamSignal_v_ic","beamSignal_1:ic1_1","ic2_1>0.01"); icbpmcorrelation = h_beamSignal_v_ic->GetCorrelationFactor(); h_beamSignal_v_ic_pscorr->FitSlicesY(0,0,-1,10); TH1D* h_beamSignal_v_ic_pscorr_1 = (TH1D*)gDirectory->Get("h_beamSignal_v_ic_pscorr_1"); TF1 * f1 = new TF1("f1","pol1"); f1->SetParameters(10, 1.0); Int_t fitsuccess = h_beamSignal_v_ic_pscorr_1->Fit(f1,"R","",0.2,4.5); // cout << fitsuccess << " " << f1->GetParameter(0) << " " << f1->GetParameter(1) << endl;;
data->Project("h_beamSignal_corr",Form("(beamSignal_1/%f-%f)/%f",sp_ps, f1->GetParameter(0), f1->GetParameter(1)),"ic2_1>0.01"); data->Project("h_beamSignal_offsetcorr",Form("(beamSignal_1/%f-%f)",sp_ps, f1->GetParameter(0)),"ic2_1>0.01");
data->Project("h_ic_beam_diff",Form("(beamSignal_1/%f-%f)/%f-(ic2_1/%f)", sp_ps,f1->GetParameter(0), f1->GetParameter(1),sp_air),"ic2_1>0.01"); data->Project("h_beamSignal_v_ic_corr",Form("((beamSignal_1/%f-%f)/%f-(ic2_1)/%f)/(ic2_1/%f):(ic2_1)/%f", sp_ps,f1->GetParameter(0), f1->GetParameter(1),sp_air,sp_air,sp_air),"ic2_1>0.01"); data->Project("h_ic_beam_ratio","(beamSignal_1/ic1_1)","ic1_1>0.01"); h_beamSignal_v_ic_corr->FitSlicesY(0,0,-1,5);
signalmean = h_beamSignal_1->GetMean(); signalmeanerror = h_beamSignal_1->GetMeanError();
signalmean_corr = h_beamSignal_corr->GetMean(); signalmeanerror_corr = h_beamSignal_corr->GetMeanError(); signalmean_offsetcorr = h_beamSignal_offsetcorr->GetMean(); signalmeanerror_offsetcorr = h_beamSignal_offsetcorr->GetMeanError(); ic1mean = h_ic1_1->GetMean(); ic1meanerror = h_ic1_1->GetMeanError(); ic2mean = h_ic2_1->GetMean(); ic2meanerror = h_ic2_1->GetMeanError();
ic_beam_ratio=h_ic_beam_ratio->GetMean(); ic_beam_ratioerror=h_ic_beam_ratio->GetRMS(); intcorr = (Intensity /19.8E6) / (totalcurrent/sp2_air/totaltime);
//cout << id << " " <<sp_air << " " << ic1mean/sp_air << " " << ic1meanerror/sp2_air << endl;
// cout << id <<" " << Intensity/1.0E6*intcorr << " " <<signalmean/(Intensity/1.0E6)/(ic1mean/sp_air) << " " << signalmeanerror/(Intensity/1.0E6)/(ic1mean/sp_air) << endl;
ic1energyfile << Intensity/1.0E6*intcorr << " " << ic1mean *intcorr << " " << ic1meanerror*intcorr<< " " << Filename << endl; // ic2energyfile << sp2_air << " " << ic2mean / (Intensity/1.0E6) / (0.659869 + 1.50842 * sp2_air) << " " << ic2meanerror/sp_air << " " << Filename << endl;
beamenergyfile << Intensity/1.E6*intcorr << " " << signalmean*intcorr << " " << signalmeanerror*intcorr << endl;
beamenergyfile_iccorr << Intensity/1.0E6*intcorr << " " <<ic_beam_ratio*sp2_air/sp2_ps/84.5 << " " << ic_beam_ratioerror*sp2_air/sp2_ps/84.5 << endl;
cout << Intensity/1.0E6*intcorr << " " << totalcurrent << " " << totaltime/1000. << " " << totalcurrent / sp2_air << " " << totalcurrent/sp2_air/totaltime<< " " << Intensity << " " << (ic1mean/0.312) / (totalcurrent/totaltime) << " " << intcorr << endl; ic2energyfile << Intensity/1.0E6*intcorr << " " << icbpmcorrelation << endl; noisefile << Intensity/1.0E6*intcorr << " " << noisemean << " " << noiseRMS << endl; focusfile << Intensity/1.0E6*intcorr << " " << focusmean*0.8 << " " << focusRMS*0.8 << endl; focusHITfile << Intensity/1.0E6*intcorr << " " << F1 << endl; skewfile << Intensity/1.0E6*intcorr << " " << skewmean << " " << skewRMS << endl; kurtfile << Intensity/1.0E6*intcorr << " " << kurtmean << " " << kurtRMS << endl; focusFitfile << Intensity/1.0E6*intcorr << " " << focusFitmean*0.8 << " " << focusFitRMS*0.8 << endl; chi2Fitfile << Intensity/1.0E6*intcorr << " " << chi2Fitmean << " " << chi2FitRMS << endl;
// h_beamSignal_1->Draw("");
// c1->SaveAs(Form("figs/h_beamsignal_%i.pdf",nfiles));
// c1->Destructor();
file->Close(); outfile->Write(); outfile->Close(); in >> EList >> Energy >> F1 >> Intensity >> SP >> Filename >> id; // cout << EList << Energy << F1 << Intensity << SP << Filename << id << endl;
nfiles++; } ic1energyfile.close(); ic2energyfile.close();
beamenergyfile.close(); beamenergyfile_iccorr.close();
noisefile.close(); focusfile.close(); focusHITfile.close(); skewfile.close(); kurtfile.close(); in.close(); focusFitfile.close(); chi2Fitfile.close(); return 0;}
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