// This is the standard "main" of C++ starting a ROOT application
int main ( int argc , char ** argv ) {
gROOT-> Reset() ;
TApplication app ( "Root Application" , &argc , argv ) ;
StandaloneApplication ( app.Argc(), app.Argv() ) ;
app.Run () ;
exit(0);
return 0 ;
}
int main(int argc , char* argv[]){
//Program Options
po::options_description desc("Allowed Options");
desc.add_options()
("help,h", "Produce this help message")
("startwl,s",po::value<double>(),"Set the start Wavelength for the Analysis")
("stopwl,p",po::value<double>(),"Set the stop Wavelength for the Analysis")
("non-interactive,n","Runs the program in Noninteractive mode. It quits when it's finished")
("version,v","Prints Version")
;
po::variables_map vm;
po::store(po::parse_command_line(argc,argv,desc),vm);
po::notify(vm);
if (vm.count("help")) {
std::cout << desc<< std::endl;
return 3;
}
if (vm.count("version")) {
std::cout << "VCSEL Laser Analysis Version " << _VERSION << std::endl;
std::cout << "Using ROOT version " << _ROOT_VERSION << " and Boost version " << _BOOST_VERSION << std::endl;
return 0;
}
if (argc < 4) {
std::cout << desc;
return 2;
}
double startwl, stopwl;
startwl = 842.;
stopwl = 860.;
bool run = true;
if (vm.count("startwl")) {
startwl = vm["startwl"].as<double>();
NUM_ARGS +=2;
}
if (vm.count("stopwl")) {
double tmp = vm["stopwl"].as<double>();
stopwl =tmp;
NUM_ARGS +=2;
}
if (vm.count("non-interactive")) {
run = false;
NUM_ARGS++;
}
//checking filetypes must be txt, csv or CSV
if (!check_extensions(argc, argv)) {
return 1;
}
std::cout <<"startwl: "<< startwl << '\t' << "stopwl: " << stopwl << std::endl;
Double_t max = -210;
Double_t maxwl = 0;
int _argc = argc;
TApplication *t = new TApplication("big",&_argc,argv);
std::cout << "Running with boost and ROOT" <<std::endl;
std::vector<double> _x,_y;
Double_t x[LINES], y[LINES], _inta[LINES], _intb[LINES];
Double_t *cmp_int = new Double_t[argc];
Double_t *argc_ary = new Double_t[argc];
Double_t *cmp_int_root = new Double_t[argc];
Double_t *asymmety_ary = new Double_t[argc];
Double_t *width_ary = new Double_t [argc];
TGraph2D *gr = new TGraph2D(LINES*(argc-1));
//Setting up canvas for plot of all sectrums (is it called spectrums? ;) )
TCanvas *c1 = new TCanvas("All Plots","All Plots",10,10,3000,1500);
TH1F *integral_hist = new TH1F("Asymmerty", "Asymmetry", 100,0, 100);
if(!(argc % ROWS)){
c1->Divide(argc/ROWS,ROWS);
}else{
c1->Divide(argc/ROWS+(argc %ROWS -1),ROWS);
}
for (Int_t i = NUM_ARGS +1; i < argc ; i++){
try{
max = -211;
maxwl = 0;
argc_ary[i] = i-NUM_ARGS;
std::ifstream in;
in.seekg(0, std::ios::beg);
// voodoo keep this;
char **arg1 = t->Argv() ;
std::string tmp = arg1[i];
in.open(tmp.c_str());
std::cout<< "file: " << tmp << std::endl;
std::string line;
int cline = 0;
std::vector<double> a,b, inta, intb;
//reading file
while(getline(in,line)){
read_file(line, a, b, inta, intb);
cline++;
}
if (cline < LINES){
for(int i = cline ; i < LINES ; i++){
a.push_back(100);
b.push_back(-70);
}
}
std::cout<< "\n\ncline: " << cline<< std::endl;
cline =(cline > LINES) ? LINES :cline;
for(Int_t j = 0; j <LINES ;j++){
x[j] = a[j];
y[j] = b[j];
_inta[j] = inta[j];
_intb[j]= (intb[j] < 0)? 0:intb[j];
}
double s_integral = 0;
std::cout <<"size of int " << intb.size()<< std::endl;
for (size_t it = 0; it < intb.size() - 1; it++){
double y_val = (intb[it]+intb[it+1])/2;
assert (y_val >= 0);
double area = 0.002*y_val;
if(area > 0 )
s_integral += area;
}
std::cout << "Simpson integral: " <<s_integral <<std::endl;
integral_hist->Fill(s_integral);
cmp_int[i] = s_integral;
Int_t lines = (Int_t)intb.size();
TGraph *r_integral = new TGraph(lines, _inta, _intb);
std::cout << "ROOT integral: " << r_integral->Integral() << std::endl;
cmp_int_root[i] = r_integral->Integral();
//expanding
//expand(y, THRS_EXPAND, RATIO_EXPAND, LINES);
//Filling TGraph2D
for(Int_t j = 0; j <LINES ; j++){
if (y[j] > max){
max = y[j];
maxwl = x[j];
}
gr->SetPoint(j+i*LINES, x[j],i,y[j]);
}
in.seekg(0, std::ios::beg);
in.close();
//Plotting each spectrum
TGraph *_gr = new TGraph(LINES,x,y);
_gr->GetHistogram()->GetXaxis()->SetTitle("#lambda in nm");
_gr->GetHistogram()->GetYaxis()->SetTitle("Intensity in dB");
c1->cd(i-NUM_ARGS);
_gr->Draw("AP");
_gr->GetYaxis()->SetRangeUser(-80.,-10.);
_gr->GetXaxis()->SetRangeUser(startwl,stopwl);
_gr->SetTitle(tmp.c_str());
c1->Update();
//Calculating asymmetry
std::cout << "maximum: " << max << std::endl;
double leftlimit, rightlimit = 1;
leftlimit = findlower(x,y, max);
rightlimit = findupper(x,y, max);
if (leftlimit != 1 && rightlimit != 1){
width_ary[i] = (leftlimit +rightlimit)/2;
}else{
width_ary[i] = maxwl;
}
double calced_asy = (maxwl-leftlimit)/(rightlimit-maxwl);
asymmety_ary[i-NUM_ARGS] = calced_asy;
std::cout << "Asymmetry: " << calced_asy << std::endl;
}catch(std::exception e){
std::cout << e.what()<< std::endl;
}
}
//Setting style for 3D Plot
TCanvas *d = new TCanvas("big","big",10,10,1500,800);
d->Divide(2,2);
d->cd(1);
TGraph *the_ints = new TGraph(argc-1,argc_ary,cmp_int);
the_ints->Draw("A*");
the_ints->SetTitle("My Ints");
d->Update();
d->cd(2);
std::cout << "Fitting\n\n";
integral_hist->SetFillColor(kBlue);
//settig everything to print fitresuts
gStyle->SetOptStat(1211);
gStyle->SetOptFit(1111);
integral_hist->Draw();
integral_hist->Fit("gaus","W","" ,10,100);
//integral_hist->Draw("SAME");
d->Update();
d->cd(3);
TGraph *roots_int = new TGraph(argc-1, argc_ary, cmp_int_root);
roots_int->SetTitle("ROOTS Int");
roots_int->Draw("A*");
d->Update();
d->cd(4);
d->Update();
//gROOT->SetStyle("modern");
gr->SetTitle("big");
gr->GetHistogram("empty")->GetXaxis()->SetTitle("#lambda in nm");
gr->GetHistogram("empty")->GetXaxis()->SetLimits(startwl,stopwl);
gr->GetHistogram("empty")->GetYaxis()->SetTitle("Messurement");
gr->GetHistogram("empty")->GetZaxis()->SetTitle("Intensity in dB");
gr->GetHistogram("empty")->GetXaxis()->SetTitleOffset(1.5);
gr->GetHistogram("empty")->GetYaxis()->SetTitleOffset(1.5);
gr->GetHistogram("empty")->GetZaxis()->SetTitleOffset(1.5);
gr->GetHistogram("empty")->GetZaxis()->SetRangeUser(-70.,max);
gr->GetHistogram("empty")->GetXaxis()->CenterTitle();
gr->GetHistogram("empty")->GetYaxis()->CenterTitle();
gr->GetHistogram("empty")->GetZaxis()->CenterTitle();
gr->Draw("PCOL");
d->SetFillColor(16);
#ifdef RENDER
//Render 3D animation
const Int_t kUPDATE = 1;
TSlider *slider = 0;
for (Int_t i = 1; i <= 125; i++){
TView3D *v = new TView3D();
v->RotateView(5+i,45+i,d);
//d->Update();
if(i && (i%kUPDATE)== 0){
if (i == kUPDATE){
gr->Draw("PCOL");
d->Update();
slider = new TSlider("slider","test",850,-70,856,max);
}
if (slider) slider->SetRange(0,Float_t(i)/10000.);
d->Modified();
d->Update();
d->Print("3d.gif+");
}
}
d->Update();
d->Print("3d.gif++");
#endif
//Saving image
TImage *img = TImage::Create();
boost::filesystem::path p(t->Argv(3));
std::string file = p.parent_path().string();
file += "_big.png";
img->FromPad(d);
img->WriteImage(file.c_str());
//cleaning
TCanvas *e = new TCanvas("Asymmetry","Asymmetry",10,10,1500,800);
e->Divide(2,1);
TGraph *asy_plot = new TGraph(argc-1, argc_ary, asymmety_ary);
e->cd(1);
asy_plot->SetTitle("Asymmetry");
asy_plot->GetHistogram()->GetXaxis()->SetTitle("# Meassurement");
asy_plot->GetHistogram()->GetYaxis()->SetTitle("Asymmetry");
asy_plot->GetHistogram()->GetXaxis()->SetRange(1, argc);
asy_plot->Draw("A*");
e->Update();
e->cd(2);
TGraph *center_plot = new TGraph(argc-1 , argc_ary, width_ary);
center_plot->GetHistogram()->GetXaxis()->SetTitle("# Meassurement");
center_plot->GetHistogram()->GetYaxis()->SetTitle("Center in nm");
center_plot->GetHistogram()->GetYaxis()->SetRangeUser(startwl, stopwl);
center_plot->SetTitle("Center");
center_plot->Draw("A*");
e->Update();
//Saving Images
TImage *secimg = TImage::Create();
boost::filesystem::path p2(t->Argv(3));
file = p2.parent_path().string();
file += "_asy_cent.png";
secimg->FromPad(e);
secimg->WriteImage(file.c_str());
TImage *thrdimg = TImage::Create();
boost::filesystem::path p3(t->Argv(3));
file = p3.parent_path().string();
file += "_allplots.png";
thrdimg->FromPad(c1);
thrdimg->WriteImage(file.c_str());
//detecting Gradients
gradient(asymmety_ary, width_ary,cmp_int, argc-1,c1);
std::cout << "\n\n\nDone !!\nYou can quit now using CTRL+C \n" ;
if (run == true){
t->Run();
}
std::cout << "With \n" ;
delete[] cmp_int;
delete[] argc_ary;
delete[] cmp_int_root;
delete[] asymmety_ary;
delete[] width_ary;
return 0;
}
