EWP-BplusToKstMuMu-AngAna/Code/FCNCFitter/sources/Helpers/helpers.cc

//Renata Kopecna

#include <helpers.hh>
#include <fstream> //Needed to remove/copy files
#include <bu2kstarmumu_parameters.hh>

#include <sstream>
#include <iostream>

#include <options.hh>
#include <parameters.hh>
#include <constants.hh>
#include <spdlog.h>
#include <fmt/ostr.h>
#include <TFile.h>
#include <TTree.h>

#include <paths.hh>
#include <numeric> //includes accumulate
#include <parse.hh>

#include <event.hh>
#include <spdlog.h>

//----------------------//
//     Print utils      //
//----------------------//
std::string boolToString(bool isTrue){
    if (isTrue) return "TRUE";
    else return "FALSE";
}

void reset_spdlog(){
    spdlog::set_pattern("[%^%l%$]\t %v");
}

void set_spdlog_level(int verboseLvl){
    switch(verboseLvl) {
    case 0:
        spdlog::set_level(spdlog::level::trace);
        break;
    case 1:
        spdlog::set_level(spdlog::level::debug);
        break;
    case 2:
        spdlog::set_level(spdlog::level::info);
        break;
    case 3:
        spdlog::set_level(spdlog::level::warn);
        break;
    case 4:
        spdlog::set_level(spdlog::level::err);
        break;
    case 5:
        spdlog::set_level(spdlog::level::critical);
        break;
    }
    return;

}

bool spdlog_trace(){
    return (spdlog::default_logger_raw()->level()<=spdlog::level::trace);
}
bool spdlog_debug(){
    return (spdlog::default_logger_raw()->level()<=spdlog::level::debug);
}
bool spdlog_info(){
    return (spdlog::default_logger_raw()->level()<=spdlog::level::info);
}
bool spdlog_warn(){
    return (spdlog::default_logger_raw()->level()<=spdlog::level::warn);
}
bool spdlog_error(){
    return (spdlog::default_logger_raw()->level()<=spdlog::level::err);
}

std::string get_sample_from_jobID(int job_id){
    if(job_id == 0)      return "DATA";
    else if(job_id == 1) return "SIGNAL MC";
    else if(job_id == 2) return "REFERENCE MC ";
    else if(job_id == 3) return "PHSP MC ";
    else if(job_id == 4) return "GenLevel PHSP MC";
    else if(job_id == 5) return "GenLevel MC";
    else {
        spdlog::error("Invalid index for conversion function given: {0:d}", job_id);
        assert(0);
    }
}

std::string format_double(double value, unsigned int digits){
    std::stringstream out;
    out << std::fixed << std::setprecision(digits) << value;
    return out.str();
};

std::string format_value(double value, double error, unsigned int digits){
    //format value such that the relevant number of digits is given back
    //determine first "digits" significant places of error
    if (error == 0.0){
        std::stringstream out; //to_string(value) returns something else than this.... I hate c++
        out << value;
        return out.str();
    }
    else{
        int first_significant = floor(log10(error));
        if (first_significant > 0) first_significant = 0;
        //ln(e^x)=x log10(c*10^x)=x+log10(c) with log10(c) < 1
        return format_double(value,fabs(first_significant)+digits-1);
    }
};

std::string format_error(double error, unsigned int digits){
    return (format_value(error,error,digits));
};


//----------------------//
//      Year utils      //
//----------------------//
//generate vector with years for every run option
//notation for usage of runs:
//1 : Run 1
//2 : Run 2
//12: Run 1+2
//21: 'Run 2.1' = 2015+2016
//22: 'Run 2.2' = 2017+2018

std::vector<int> get_years(int Run, bool MCsig, bool MCref){
    std::vector<int>years;

    if(Run == 1 || Run == 12){
      years.push_back(2011);
      years.push_back(2012);
    }    

    if(Run== 2 || Run == 12 || Run== 21){
      if (!MCsig) years.push_back(2015); //No MC for 2015
      years.push_back(2016);
    }
    if (!MCref){ //No RefMC for 2017+2018
        if(Run == 2 || Run == 12 || Run == 22){
          years.push_back(2017);
          years.push_back(2018);
        }
    }
    return years;
}

//Check if year is a run year
void check_year(int year){
    std::set<int> yearSet = {2011,2012,2015,2016,2017,2018};
    //Check if year is in a set, if not, throw exception
    assert(yearSet.find(year)!= yearSet.end());
    return;
}

int MC_dataset(bool Reference, bool PHSP){
    if (PHSP)           return 3; //PHSP
    else if (Reference) return 2; //Ref MC
    else                return 1; //Sig MC
}

int get_yearFromRun(int year){
    if (year == 2011 || year == 2012) return 1;
    if (year == 2015 || year == 2016 || year == 2017 || year == 2018) return 2;
    spdlog::error("Year not recognized!");
    assert(0);
}

//--------------------------------------//
//            General helpers           //
//--------------------------------------//

//Copy file
int copyFile(std::string from, std::string to){
    std::ifstream  src(from);
    std::ofstream  dst(to);
    dst << src.rdbuf();
    return 0;
}

//Check if file exists
//https://stackoverflow.com/questions/12774207/fastest-way-to-check-if-a-file-exist-using-standard-c-c11-c
bool existsTest (const std::string& name) {
    struct stat buffer;
    return (stat (name.c_str(), &buffer) == 0);
}

//https://stackoverflow.com/questions/50960492/creating-folders-in-c
//Create parent folders if needed
void makeFolder (const std::string& name) {
    std::string parentfolder = name.substr(0, name.find_last_of("/\\"));
    if(!existsTest(parentfolder))makeFolder(parentfolder);
    spdlog::info("Creating folder '"+name+"'");
    mkdir(name.c_str(), 0755);
    return;
}

//Convert vector into number-space-number... string
std::string convert_vector_to_string(std::vector<int> myVector){
    std::stringstream ss;
    copy(myVector.begin(), myVector.end(), std::ostream_iterator<int>(ss, " "));
    std::string s = ss.str();
    return s.substr(0, s.length()-1); // get rid of the trailing space
}

std::string convert_vector_to_string(std::vector<double> myVector){
    std::stringstream ss;
    copy(myVector.begin(), myVector.end(), std::ostream_iterator<double>(ss, " "));
    std::string s = ss.str();
    return s.substr(0, s.length()-1); // get rid of the trailing space
}
std::string convert_vector_to_string(std::vector<std::string> myVector){
    std::stringstream ss;
    copy(myVector.begin(), myVector.end(), std::ostream_iterator<std::string>(ss, " "));
    std::string s = ss.str();
    return s.substr(0, s.length()-1); // get rid of the trailing space
}

std::vector<double> merge_two_vecs(std::vector<double> one, std::vector<double> two){
    std::vector<double> merged_vec;
    merged_vec.insert(merged_vec.end(), one.begin(), one.end());
    merged_vec.insert(merged_vec.end(), two.begin(), two.end());
    return merged_vec;
}
std::vector<int> merge_two_vecs(std::vector<int> one, std::vector<int> two){
    std::vector<int> merged_vec;
    merged_vec.insert(merged_vec.end(), one.begin(), one.end());
    merged_vec.insert(merged_vec.end(), two.begin(), two.end());
    return merged_vec;
}
std::vector<std::string> merge_two_vecs(std::vector<std::string> one, std::vector<std::string> two){ //TODO: I bet there is a way to avoid overloading
    std::vector<std::string> merged_vec;
    merged_vec.insert(merged_vec.end(), one.begin(), one.end());
    merged_vec.insert(merged_vec.end(), two.begin(), two.end());
    return merged_vec;
}

bool replace(std::string& str, const std::string& from, const std::string& to) {
    size_t start_pos = str.find(from);
    if(start_pos == std::string::npos)
        return false;
    while ( (start_pos = str.find(from,start_pos)) != std::string::npos){
        str.replace(start_pos, from.length(), to);
        start_pos += to.length(); // Handles case where 'to' is a substring of 'from'
    }
    return true;
}

//Sum a vector of ints
int sum_vector(std::vector<int> vec){
    return std::accumulate(vec.begin(), vec.end(), 0);
}
//Sum a vector of doubles
double sum_vector(std::vector<double> vec){
    return std::accumulate(vec.begin(), vec.end(), 0.0);
}

//Return the center of a bin
double bin_center(double low, double high){
    return (high+low)/2.0;
}

//Return the center of a q2 bin
double bin_center_q2(fcnc::options opts, int b){
    return bin_center(opts.TheQ2binsmin.at(b),opts.TheQ2binsmax.at(b));
}
double bin_center_q2(fcnc::options *opts, int b){
    return bin_center(opts->TheQ2binsmin.at(b),opts->TheQ2binsmax.at(b));
}
double bin_center_q2(std::vector<double> q2min, std::vector<double> q2max , int b){
    return bin_center(q2min.at(b),q2max.at(b));
}

//Return half of the width (useful for errors)
double bin_halfWidth(double low, double high){
    return (high-low)/2.0;
}
double bin_halfWidth_q2(std::vector<double> q2min, std::vector<double> q2max, int b){
    return (q2max.at(b)-q2min.at(b))/2.0;
}
double bin_halfWidth_q2(fcnc::options opts, int b){
    return (opts.TheQ2binsmax.at(b)-opts.TheQ2binsmin.at(b))/2.0;
}
double bin_halfWidth_q2(fcnc::options *opts, int b){
    return (opts->TheQ2binsmax.at(b)-opts->TheQ2binsmin.at(b))/2.0;
}


//Check if the angles are in the correct range given by options
bool isEvtInAngleRange(fcnc::event *evt, fcnc::options *opts){
    if (evt->costhetal > opts->ctl_max) return false;
    if (evt->costhetal < opts->ctl_min) return false;
    if (evt->costhetak > opts->ctk_max) return false;
    if (evt->costhetak < opts->ctk_min) return false;
    if (evt->phi > opts->phi_max) return false;
    if (evt->phi < opts->phi_min) return false;
    if (evt->q2 > opts->TheQ2binsmax.back()) return false;
    if (evt->q2 < opts->TheQ2binsmin.front()) return false;
    return true;

}
//Check if the angles are in the correct range given by default
bool isEvtInAngleRange(fcnc::event *evt){
    if (evt->costhetal > CTL_MAX){
        spdlog::trace("ctl of event:\t{0:f}",evt->costhetal);
        return false;
    }
    if (evt->costhetal < CTL_MIN){
        spdlog::trace("ctl of event:\t{0:f}",evt->costhetal);
        return false;
    }
    if (evt->costhetak > CTK_MAX) {
        spdlog::trace("ctk of event:\t{0:f}",evt->costhetak);
        return false;
    }
    if (evt->costhetak < CTK_MIN) {
        spdlog::trace("ctk of event:\t{0:f}",evt->costhetak);
        return false;
    }
    if (evt->phi > PHI_MAX){
        spdlog::trace("phi of event:\t{0:f}",evt->phi);
        return false;
    }
    if (evt->phi < PHI_MIN) {
        spdlog::trace("phi of event:\t{0:f}",evt->phi);
        return false;
    }
    if (evt->q2 < Q2_MIN_RANGE) return false;
    if (evt->q2 > Q2_MAX_RANGE) return false;
    return true;

}

//For now filter out events that are dumb dumb for folding four
bool filterFldFour(fcnc::event *evt, fcnc::options *opts){
    if (opts->folding==4){
    //TODO: this is idiotic and will cause trouble if one cuts on ctl. Unfortunatelly, otherwise it cuts the folded parameters too, which is not very beneficial
        // SO this     if (!isEvtInAngleRange(&evt,&opts)) continue;   is not possible
        if (evt->costhetak > opts->ctk_max) return false;
        if (evt->costhetak < opts->ctk_min) return false;
    }
    return true;
}

//Check if value is in a vector
bool isInVec(int key, std::vector<int>vec){
    return (std::find(vec.begin(), vec.end(), key)!= vec.end());
}
bool isInVec(double key, std::vector<double>vec){
    return (std::find(vec.begin(), vec.end(), key)!= vec.end());
}
bool isInVec(std::string key, std::vector<std::string>vec){
    return (std::find(vec.begin(), vec.end(), key)!= vec.end());
}


//--------------------------------------//
//  Helpers for converting the tuples   //
//--------------------------------------//

//Returns the correct tree name as Data/MC and genLvl have different tree names
std::string get_inputTree_name(int job_id){
    if(job_id == 0)      return "DecayTree";
    else if(job_id == 1) return "DecayTreeTruthMatched";
    else if(job_id == 2) return "DecayTreeTruthMatched";
    else if(job_id == 3) return "DecayTreeTruthMatched";
    else if(job_id == 4) return "DecayTree";
    else if(job_id == 5) return "DecayTree";
    else {
        spdlog::error("Invalid index for conversion function given: {0:d}", job_id);
        assert(0);
    }
}

//--------------------------------------//
//   Helpers for angular corrections    //
//--------------------------------------//

TF1 *fitStraightLine(TH1D* hist, std::string lineName, double lowEdge, double highEdge){
    //Define the fit line
    TF1 *fitLine= new TF1(lineName.c_str(), "[0]*x+[1]", lowEdge, highEdge);

    fitLine->SetParameters(0.0, 1.0);
    fitLine->SetParLimits(0,-0.5,0.5);
    fitLine->SetParLimits(1,0.5,1.5);
    fitLine->SetParNames("a","b");

    std::string fitOption = spdlog_debug() ? "R" : "RQ"; //C turns off chi2 calculation,  faster,  Q=quiet

    hist->Fit(lineName.c_str(), fitOption.c_str());

    spdlog::debug("Fitted value is:\t{0:f}+-{1:f}",fitLine->GetParameter(0), fitLine->GetParError(0));

    return fitLine;
}

//--------------------------------------//
//     Helpers for bu2kstarmumu_pdf     //
//--------------------------------------//

const std::vector<std::vector<std::string>> get_angObser_withTeX_vec(){
    return {
        {"1s","#xi_{1}^{s}"},
        {"1c","#xi_{1}^{c}"},
        {"2s","#xi_{2}^{s}"},
        {"2c","#xi_{2}^{c}"},
        {"3","#xi_{3}"},
        {"4", "#xi_{4}"},
        {"5","#xi_{5}"},
        {"6s","#xi_{6}^{s}"},
        {"6c","#xi_{6}^{c}"},
        {"7","#xi_{7}"},
        {"8","#xi_{8}"},
        {"9","#xi_{9}"}
    };
}

std::vector<std::string> get_angObser_vec(){
    std::vector<std::string> tmp;
    for (auto obs: get_angObser_withTeX_vec()){
        tmp.push_back(obs[0]);
    }
    return tmp;
}

std::vector<std::string> get_angObserTeX_vec(){
    std::vector<std::string> tmp;
    for (auto obs: get_angObser_withTeX_vec()){
        tmp.push_back(obs[1]);
    }
    return tmp;
}

//--------------------------------------//
//      Helpers for time measuring      //
//--------------------------------------//

void runTime::start(){
    sw->Reset();
    sw->Start();
    return;
}

void runTime::stop(time_t startTime){
    sw->Stop();
    real_times.push_back(sw->RealTime());
    cpu_times.push_back(sw->CpuTime());
    cpp_times.push_back(Double_t(time(0) - startTime));
    return;
}

void runTime::print(unsigned int nBins){
        spdlog::info("");
        spdlog::info("==========================================");
        spdlog::info("||              TIME OF FIT             ||");
        spdlog::info("==========================================");
        spdlog::info("|| BIN\t\tCPU time[s]\treal time[s]\tC++ time[s]\t||");

        for(unsigned int b = 0; b < nBins; b++){
            Int_t CpuHours = Int_t(cpu_times.at(b) / 3600);
            cpu_times.at(b) -= CpuHours * 3600;
            Int_t CpuMinutes = Int_t(cpu_times.at(b) / 60);
            cpu_times.at(b) -= CpuMinutes * 60;
            Int_t CpuSeconds = Int_t(cpu_times.at(b));

            Int_t RealHours = Int_t(real_times.at(b) / 3600);
            real_times.at(b) -= RealHours * 3600;
            Int_t RealMinutes = Int_t(real_times.at(b) / 60);
            real_times.at(b) -= RealMinutes * 60;
            Int_t RealSeconds = Int_t(real_times.at(b));

            Int_t CppHours = Int_t(cpp_times.at(b) / 3600);
            cpp_times.at(b) -= CppHours * 3600;
            Int_t CppMinutes = Int_t(cpp_times.at(b) / 60);
            cpp_times.at(b) -= CppMinutes * 60;
            Int_t CppSeconds = Int_t(cpp_times.at(b));

            spdlog::info("|| {0:d}\t\t{1:d}:{2:02d}:{3:02d}\t\t{4:d}:{5:02d}:{6:02d}\t\t{7:d}:{8:02d}:{9:02d} \t||", b, CpuHours, CpuMinutes, CpuSeconds, RealHours, RealMinutes, RealSeconds, CppHours, CppMinutes, CppSeconds);
        }

}


//--------------------------------------//
//       Helpers for fit scripts        //
//--------------------------------------//
std::vector<std::string> param_string_pPrimes(bool fitFL){
    std::vector<std::string> params;
    if(fitFL) params.push_back("Fl");
    else      params.push_back("S1s");
    params.push_back("P1");
    params.push_back("P4");
    params.push_back("P5");
    params.push_back("P2");
    params.push_back("P6");
    params.push_back("P8");
    params.push_back("P3");
    return params;
}
std::vector<std::string> param_string_pPrimes(bool fitFL, int folding){
    std::vector<std::string> params;
    if(fitFL) params.push_back("Fl");
    else      params.push_back("S1s");
    if(folding == 0){
        params.push_back("P2");
        params.push_back("P3");
        return params;
    }
    else if(folding == 1)params.push_back("P4"); //could be a switch, but meh
    else if(folding == 2)params.push_back("P5");
    else if(folding == 3)params.push_back("P6");
    else if(folding == 4)params.push_back("P8");
    return params;
}

std::vector<std::string> param_string_s(bool fitFL, bool fitAFB){
    std::vector<std::string> params;
    if(fitFL) params.push_back("Fl");
    else      params.push_back("S1s");
    params.push_back("S3");
    params.push_back("S4");
    params.push_back("S5");
    if (fitAFB) params.push_back("Afb");
    else        params.push_back("S6s");
    params.push_back("S7");
    params.push_back("S8");
    params.push_back("S9");
    return params;
}
std::vector<std::string> param_string_s(bool fitFL, bool fitAFB, int folding){
    std::vector<std::string> params;
    if(fitFL) params.push_back("Fl");
    else      params.push_back("S1s");
    params.push_back("S3");
    if(folding == 0){
        if(fitAFB) params.push_back("Afb");
        else       params.push_back("S6s");

        params.push_back("S9");
        return params;
    }
    else if(folding == 1)params.push_back("S4");
    else if(folding == 2)params.push_back("S5");
    else if(folding == 3)params.push_back("S7");
    else if(folding == 4)params.push_back("S8");
    return params;
}

std::vector<std::string> param_string_sWave(){
    std::vector<std::string> params;
    params.push_back("FS");
    params.push_back("SS1");
    params.push_back("SS2");
    params.push_back("SS3");
    params.push_back("SS4");
    params.push_back("SS5");
    return params;
}
std::vector<std::string> param_string_sWave(int folding){
    std::vector<std::string> params;
    params.push_back("FS");
    if(folding == 1) params.push_back("SS2");
    if(folding == 2) params.push_back("SS3");
    if(folding > 2)  params.push_back("SS4");
    if(folding < 4)  params.push_back("SS1");
    return params;
}

//TODO: merge with parNamesWithTex
std::vector<std::string> param_string_bkg(){
    std::vector<std::string> str;
    for (auto ang: ANGLES){
        for (int i = 1; i < 5; i++){
            str.push_back("cbkg"+ang+std::to_string(i));
        }
    }
    return str;
}

std::vector<std::string> param_string_bkg_mkpi(){
    std::vector<std::string> str;
    for (int i = 1; i < 2; i++){
        str.push_back("cbkgmkpi"+std::to_string(i));
    }
    return str;
}

std::vector<std::string> param_string(fcnc::options opts, bool MC){
    std::vector<std::string> params;
    //This is suboptimal but I feel it is easier for the reader
    if (opts.full_angular){
        if(opts.fit_pprimes) params = param_string_pPrimes(opts.fit_fl);
        else                 params = param_string_s(opts.fit_fl, opts.fit_afb);
        if(opts.swave){
            std::vector<std::string> sWave = param_string_sWave();
            params.insert(params.end(), sWave.begin(), sWave.end());
        }
        if(!MC){
            std::vector<std::string> bkg = PAR_BKG_STRING(-1,opts.bkg_order_costhetal,opts.bkg_order_costhetak); //Returns only varied parameters
            params.insert(params.end(), bkg.begin(), bkg.end());
        }
        return params;
    }
    else{
        if(opts.fit_pprimes) params = param_string_pPrimes(opts.fit_fl,opts.folding);
        else params = param_string_s(opts.fit_fl, opts.fit_afb,opts.folding);
        if(opts.swave){
            std::vector<std::string> sWave = param_string_sWave(opts.folding);
            params.insert(params.end(), sWave.begin(), sWave.end());
        }
        if(!MC){
            std::vector<std::string> bkg = PAR_BKG_STRING(opts.folding,opts.bkg_order_costhetal,opts.bkg_order_costhetak);
            params.insert(params.end(), bkg.begin(), bkg.end());
        }
        return params;
    }
}

std::vector<std::string> params_string_mass(fcnc::options opts){
    std::vector<std::string> params;
    params.push_back("m_b");
    if (!opts.twotailedcrystalball) params.push_back("m_res_1");
    params.push_back("m_sigma_1");
    if (!opts.twotailedcrystalball) params.push_back("m_sigma_2");
    params.push_back("alpha_1");
    params.push_back("alpha_2");
    params.push_back("n_1");
    params.push_back("n_2");
    return params;
}

fcnc::parameter* par_with_correct_name(int pos, std::string parname, fcnc::parameters* theParams){
    //pos is the position of the parameter I want to save

    fcnc::parameter* par = theParams->get_parameter(pos);

    //I am not sure, but from the code it seems the parameters should be at the same spot for all pdfs
    //Therefore first check if the name on the spot is correct
    if (par->get_name() == parname.c_str()) return par;

    unsigned int paridx = 0;
    while(paridx != theParams->nparameters()){
        par = theParams->get_parameter(paridx);
        if (par->get_name() == parname.c_str()) return par;
        paridx++;
    }
    spdlog::warn("Parameter "+parname+" not found in PDF {0:d}. Continue with next PDF.");
    return NULL;
}


double get_sigmaRatio_fromMC(basic_params params, int nBins, int bin, int pdf){

    std::string sigma_name = "m_sigma_1"; //In case one needs m_sigma or m_sigma_2 or so
    std::string fileName_sig = final_result_name_MC(params, nBins, false, false, true, false, false);
    std::string fileName_ref = final_result_name_MC(params, 1, true, false, true, false, true);

    return double(get_param_value_from_rootfile(fileName_sig,sigma_name,pdf,bin))/ double(get_param_value_from_rootfile(fileName_ref,sigma_name,pdf,0));
}

//--------------------------------------//
//   Helpers for printing fit results   //
//--------------------------------------//

void print_all_parameters(unsigned int nBins, fcnc::bu2kstarmumu_parameters *theParams[],
                          int spdlog_level, std::string savePath){
    //Check whether the desired level >= current level
    if (spdlog_level >= spdlog::default_logger_raw()->level()){
        //If yes, print the parameters at info level

        //Save current level of spdlog
        spdlog::level::level_enum tmp_log_level =  spdlog::default_logger_raw()->level();

        //Set the level to info so it is printed for sure
        spdlog::set_level(spdlog::level::info);
        spdlog::info("");
        spdlog::info("==========================================");
        spdlog::info("||              PARAMETERS              ||");
        spdlog::info("==========================================");
        for(unsigned int b = 0; b < nBins; b++){
            spdlog::info("|| BIN {0:d}", b);
            if(spdlog::default_logger_raw()->level()<=spdlog_level){
                theParams[b]->print_parameters(false);
            }
            if (savePath != ""){
                std::string saveBinPath = savePath + "_bin" + std::to_string(b) + ".txt";
                theParams[b]->save_param_values(saveBinPath + "");
            }
            theParams[b]->print_parameters(false);
        }
        //Reset the level back where it was
        spdlog::set_level(tmp_log_level);
    }
    else return;


}


void print_all_parameters(unsigned int nBins, std::vector<UInt_t> pdf_idx,
                          std::vector<fcnc::parameters*> theParams[],
                          int spdlog_level){
    //Check whether the desired level >= current level
    if (spdlog_level >= spdlog::default_logger_raw()->level()){
        //If yes, print the parameters at info level

        //Save current level of spdlog
        spdlog::level::level_enum tmp_log_level =  spdlog::default_logger_raw()->level();

        //Set the level to trace so it is printed for sure
        //Pritn_parameters needs trace
        spdlog::set_level(spdlog::level::trace);

        spdlog::info("");
        spdlog::info("==========================================");
        spdlog::info("||              PARAMETERS              ||");
        spdlog::info("==========================================");
        for(unsigned int b = 0; b < nBins; b++){
            for(UInt_t i = 0; i < pdf_idx.size(); i++){
                spdlog::info("|| BIN {0:d}\tPDF {1:d}", b, pdf_idx.at(i));
                theParams[b].at(i)->print_parameters(false);
            }
        }
        //Reset the level back where it was
        spdlog::set_level(tmp_log_level);
    }
    else return;
}

void tex_all_parameters(unsigned int nBins, std::vector<UInt_t> pdf_idx,
                        std::vector<fcnc::parameters*> theParams[]){
    std::ofstream myFile;
    open_Latex_noteFile(latex_params(), myFile); //open file with parameters

    for(unsigned int b = 0; b < nBins; b++){
        for(UInt_t i = 0; i < pdf_idx.size(); i++){
            myFile << "\\captionof{table}{PDF " << i << " bin " << b<< "}" << std::endl;
            theParams[b].at(i)->print_parameters(true);
        }
    }
    return;
}


void tex_all_parameters(unsigned int nBins, int n_pdf, fcnc::bu2kstarmumu_parameters **theParams){
    std::ofstream myFile;
    open_Latex_noteFile(latex_params(), myFile); //open file with parameters

    for(unsigned int b = 0; b < nBins; b++){
        myFile << "\\captionof{table}{PDF " << n_pdf<< " bin " << b<< "}" << std::endl;
        theParams[b]->print_parameters(true);
    }
    return;
}


void print_fit_results(unsigned int nBins,std::vector<Int_t> fitresults){

    spdlog::info("==========================================");
    spdlog::info("||              FIT RESULTS             ||");
    spdlog::info("==========================================");
    if(spdlog_info()){
        spdlog::info("|| BIN\t\tfit result       ||");
        for(UInt_t b = 0; b < nBins; b++){
            spdlog::info("|| {0:d}\t\t{1:d}\t||", b, fitresults.at(b));
        }
    }
    return;
}
void print_fit_results(unsigned int nBins, std::vector<UInt_t> pdf_idx, std::vector<Int_t> fitresults[], bool simFit){

    spdlog::info("==========================================");
    spdlog::info("||              FIT RESULTS             ||");
    spdlog::info("==========================================");
    if(spdlog_info()){
        spdlog::info("|| BIN\t\tPDF\t\tfit result       ||");
        for(UInt_t b = 0; b < nBins; b++){
            if(!simFit){
                for_indexed(auto idx: pdf_idx){
                    spdlog::info("|| {0:d}\t\t{1:d}\t\t{2:d} \t||\n", b, idx, fitresults[b].at(i));
                }
            }
            else{
               spdlog::info("|| {0:d}\t\t All PDFs\t\t{1:d} \t||\n", b, fitresults[b].at(0)); //TODO
            }
        }
    }
    return;
}

void print_sig_yields(unsigned int nBins, std::vector<UInt_t> pdf_idx,
                     std::vector<UInt_t> *evts_cntr, std::vector<double> *f_sigs, std::vector<double> *f_sigserr){
    spdlog::info("");
    spdlog::info("==========================================");
    spdlog::info("||            SIGNAL YIELDS             ||");
    spdlog::info("==========================================");
    spdlog::info("|| BIN\t\tPDF\tsignal yield    ||");
    for(unsigned int b = 0; b < nBins; b++){
        for(UInt_t i = 0; i < pdf_idx.size(); i++){
            spdlog::info("|| {0:d}\t\t{1:d}\t{2:f}+/-{3:f}\t||", b, pdf_idx.at(i), evts_cntr[b].at(i)*f_sigs[b].at(i), evts_cntr[b].at(i)*f_sigserr[b].at(i));
        }
    }
    spdlog::info("");
}

void print_bkg_yields(unsigned int nBins, std::vector<UInt_t> pdf_idx,
                     std::vector<UInt_t> *evts_cntr, std::vector<double> *f_sigs, std::vector<double> *f_sigserr){
    spdlog::info("");
    spdlog::info("==========================================");
    spdlog::info("||          BACKGROUND YIELDS           ||");
    spdlog::info("==========================================");
    spdlog::info("|| BIN\t\tPDF\tbkg yield     ||");
    for(unsigned int b = 0; b < nBins; b++){
        for(UInt_t i = 0; i < pdf_idx.size(); i++){
            spdlog::info("|| {0:d}\t\t{1:d}\t{2:.1f}+/-{3:.1f}\t ||", b, pdf_idx.at(i),          evts_cntr[b].at(i)*(1 - f_sigs[b].at(i)), evts_cntr[b].at(i)*f_sigserr[b].at(i));
        }
    }
    spdlog::info("");

}


void print_bkgOnly_yields(unsigned int nBins, std::vector<UInt_t> pdf_idx,
                          std::vector<fcnc::bu2kstarmumu_parameters*> theParams[],
                          std::vector<double> bkg_int_full_range[], std::vector<UInt_t> *evts_cntr){
    spdlog::info("");
    spdlog::info("==========================================");
    spdlog::info("||          BACKGROUND YIELDS           ||");
    spdlog::info("==========================================");
    spdlog::info("|| BIN\t\tPDF\tbkg yield        ||");
    for(unsigned int b = 0; b < nBins; b++){
        for(UInt_t i = 0; i < pdf_idx.size(); i++){
            spdlog::info("[BIN{0:d}]\tBckgnd est.: {1:.4f}\tBkg prob: {2:.4f}\tBkg iac: {3:.4f}\tExpCoeff: {4:.4f}",
                         i,
                         evts_cntr[b].at(i) * bkg_int_full_range[i].at(b) * (1 - theParams[b].at(i)->f_sig.get_value()),
                         bkg_int_full_range[b].at(i),
                         1 - theParams[b].at(i)->f_sig.get_value(),
                         theParams[b].at(i)->m_lambda.get_value());
        }
    }
    spdlog::info("");

}


void print_sig_yields_tex(std::string texFiletag, unsigned int nBins, std::vector<UInt_t> pdf_idx,
                          fcnc::options *theOptions,
                          std::vector<UInt_t> *evts_cntr, std::vector<double> *f_sigs, std::vector<double> *f_sigserr){

    //Open texFile
    std::ofstream myFile;
    open_Latex_noteFile(texFiletag, myFile);

    double yield[nBins], yielderr[nBins];

    myFile << "\\begin{tabular}{|l|";   //TODO: have a function for this
    for(UInt_t i = 0; i < pdf_idx.size(); i++) myFile << "r";
    myFile << "|r|}\\hline" << std::endl;
    myFile << "\\qsq bin";
    for(UInt_t i = 0; i < pdf_idx.size(); i++){
        myFile << "\t& Run" << theOptions[i].run;
    }
    myFile << "\\\\" << std::endl;
    myFile << "\\hline\\hline" << std::endl;
    for(unsigned int b = 0; b < nBins; b++){
        myFile << b << "\t&";
        yield[b] = 0.0; yielderr[b] = 0.0;
        for(UInt_t i = 0; i < pdf_idx.size(); i++){
            myFile << "$" << std::setprecision(1) << std::fixed << evts_cntr[b].at(i)*f_sigs[b].at(i) << "\\pm" <<  evts_cntr[b].at(i)*f_sigserr[b].at(i) << "$ \t&";
            yield[b] += evts_cntr[b].at(i)*f_sigs[b].at(i);
            yielderr[b] += evts_cntr[b].at(i)*f_sigserr[b].at(i)*evts_cntr[b].at(i)*f_sigserr[b].at(i);
        }
        myFile << "$" << yield[b] << "\\pm" << TMath::Sqrt(yielderr[b]) << "$\\\\" << std::endl;
    }
    myFile << "\\hline\\end{tabular}" << std::endl << std::endl << std::endl << std::endl;

    myFile << "\\begin{tabular}{|l|r|}\\hline" << std::endl;
    myFile << "\\qsq bin \t& signal yield\\\\" << std::endl;
    myFile << "\\hline\\hline" << std::endl;
    for(unsigned int b = 0; b < nBins; b++) myFile << b << "\t& $" << yield[b] << "\\pm" << TMath::Sqrt(yielderr[b]) << "$\\\\" << std::endl;
    myFile << "\\hline\\end{tabular}" << std::endl << std::endl;
    myFile.close();
}


int save_results(std::string results_file, unsigned int nBins, std::vector<UInt_t> pdf_idx, std::vector<int>*fit_results, std::vector<fcnc::parameters*> *theParams, bool simFit, fcnc::options *opts){

    //Open the root file
    spdlog::info("[SAVE]\t\tSaving result values to file " + results_file);
    TFile* fout = new TFile(results_file.c_str(), "RECREATE");
    fout->cd();

    int param_index = 0;

    //loop over parameters:
    for(UInt_t p = 0; p < theParams[0].at(0)->nparameters(); p++){
        fcnc::parameter* param =  theParams[0].at(0)->get_parameter(p);
        //if(param->get_step_size() == 0.0) continue; //skip fixed parameters
        std::string parname(param->get_name());
        std::string pardesc(param->get_description());
        spdlog::trace("Creating new TTree for parameter:" + parname);
        TTree* t = new TTree(parname.c_str(), pardesc.c_str());
        int pdf = DEFAULT_TREE_INT;
        int bin = DEFAULT_TREE_INT;
        int migrad = DEFAULT_TREE_INT;
        int status_cov = DEFAULT_TREE_INT;
        int totBins = DEFAULT_TREE_INT;

        double q2a = DEFAULT_TREE_VAL;
        double q2b = DEFAULT_TREE_VAL;
        double value = DEFAULT_TREE_VAL;
        double error = DEFAULT_TREE_ERR;
        double error_up = DEFAULT_TREE_ERR;
        double error_down = DEFAULT_TREE_ERR;
        double start_value = DEFAULT_TREE_VAL;
        double prev_value  = DEFAULT_TREE_VAL;
        double prev_error = DEFAULT_TREE_ERR;

        const unsigned int corr_max = param->correlations.size();
        double tmp_corr[corr_max];

        t->Branch("pdf",&pdf,"pdf/I");
        t->Branch("bin",&bin,"bin/I");
        t->Branch("totBins",&totBins,"totBins/I");
        t->Branch("migrad",&migrad,"migrad/I");
        t->Branch("status_cov",&status_cov,"status_cov/I");

        t->Branch("value",&value,"value/D");
        t->Branch("q2min",&q2a,"q2min/D");
        t->Branch("q2max",&q2b,"q2max/D");
        t->Branch("error",&error,"error/D");
        t->Branch("error_up",&error_up,"error_up/D");
        t->Branch("error_down",&error_down,"error_down/D");
        t->Branch("start_value",&start_value,"start_value/D");
        t->Branch("prev_value",&prev_value,"prev_value/D");
        t->Branch("prev_error",&prev_error,"prev_error/D");

        t->Branch("index",&param_index, "index/I");
        t->Branch("correlations",&tmp_corr,("correlations["+std::to_string(corr_max)+"]/D").c_str());

        //loop over PDFs
        for_indexed(auto n_pdf: pdf_idx){
            for(unsigned int b = 0; b < nBins; b++){
                fcnc::parameter* par = par_with_correct_name(p, parname, theParams[b].at(i));
                if (par == NULL) break;
                totBins = nBins;
                bin = b;
                pdf = n_pdf;
                migrad = fit_results[b].at(simFit ? 0 : i) % 100;
                status_cov = fit_results[b].at(simFit ? 0 : i) / 100;

                q2a = opts->TheQ2binsmin[b];
                q2b = opts->TheQ2binsmax[b];
                value = par->get_value();
                error = par->get_error();
                error_up = par->get_error_up();
                error_down = par->get_error_down();
                if (opts->minos_errors){
                    if (error_up==0.0 && value < par->get_max())   error_up = par->get_max() - value;
                    if (error_down==0.0 && value > par->get_min()) error_down = par->get_min() - value;//needs to be negative
                }
                start_value = par->get_start_value();
                prev_value = par->get_previous_measurement();
                prev_error = par->get_previous_error();

                for (unsigned int l = 0; l < corr_max; l++) tmp_corr[l] = 0.0; //Fill with zeroes
                for (unsigned int l = 0; l < par->correlations.size(); l++){
                    tmp_corr[l] = par->correlations.at(l);
                }
                t->Fill();
            }
        } //end loop over pdfs

        //Write the parameter tree
        t->Write();
        delete t;
        param_index++;
    }

    //Close the root file
    spdlog::info("Finished saving the parameters into the file {0:s}.",fout->GetName());
    fout->Close();
    delete fout;

    //Delete the tex file with parameters
    clear_Latex_noteFile(latex_params());
    //Copy the parameter in TeX format into the same place as the final results file
    tex_all_parameters(nBins,pdf_idx,theParams);
    replace(results_file,".root",".tex");
    copyFile(get_Latex_noteFile(latex_params()),results_file);

    return 0;
}


int save_results(std::string results_file, unsigned int nBins, int n_pdf, std::vector<int> fit_results, fcnc::bu2kstarmumu_parameters **theParams, fcnc::options *opts){

    //Open the root file
    spdlog::info("[SAVE]\t\tSaving result values to file " + results_file);
    TFile* fout = new TFile(results_file.c_str(), "RECREATE");
    fout->cd();

    int param_index = 0;

    //loop over parameters:
    for(UInt_t p = 0; p < theParams[0]->nparameters(); p++){
        fcnc::parameter* param =  theParams[0]->get_parameter(p);
        //if(param->get_step_size() == 0.0) continue; //skip fixed parameters
        std::string parname(param->get_name());
        std::string pardesc(param->get_description());
        spdlog::trace("Creating new TTree for parameter:" + parname);
        TTree* t = new TTree(parname.c_str(), pardesc.c_str());
        int pdf = DEFAULT_TREE_INT;
        int bin = DEFAULT_TREE_INT;
        int migrad = DEFAULT_TREE_INT;
        int status_cov = DEFAULT_TREE_INT;
        int totBins = DEFAULT_TREE_INT;

        double q2a = DEFAULT_TREE_VAL;
        double q2b = DEFAULT_TREE_VAL;
        double value = DEFAULT_TREE_VAL;
        double error = DEFAULT_TREE_ERR;
        double error_up = DEFAULT_TREE_ERR;
        double error_down = DEFAULT_TREE_ERR;
        double start_value = DEFAULT_TREE_VAL;
        double prev_value  = DEFAULT_TREE_VAL;
        double prev_error = DEFAULT_TREE_ERR;

        const unsigned int corr_max = param->correlations.size();
        double tmp_corr[corr_max];

        t->Branch("pdf",&pdf,"pdf/I");
        t->Branch("bin",&bin,"bin/I");
        t->Branch("totBins",&totBins,"totBins/I");
        t->Branch("migrad",&migrad,"migrad/I");
        t->Branch("status_cov",&status_cov,"status_cov/I");

        t->Branch("value",&value,"value/D");
        t->Branch("q2min",&q2a,"q2min/D");
        t->Branch("q2max",&q2b,"q2max/D");
        t->Branch("error",&error,"error/D");
        t->Branch("error_up",&error_up,"error_up/D");
        t->Branch("error_down",&error_down,"error_down/D");
        t->Branch("start_value",&start_value,"start_value/D");
        t->Branch("prev_value",&prev_value,"prev_value/D");
        t->Branch("prev_error",&prev_error,"prev_error/D");

        t->Branch("index",&param_index, "index/I");
        t->Branch("correlations",&tmp_corr,("correlations["+std::to_string(corr_max)+"]/D").c_str());

        //loop over nBins
        for(unsigned int b = 0; b < nBins; b++){
            fcnc::parameter* par = par_with_correct_name(p, parname, theParams[b]);
            if (par == NULL) break;
            totBins = nBins;
            bin = b;
            pdf = n_pdf;
            migrad = fit_results[b] % 100;
            status_cov = fit_results[b] / 100;

            q2a = opts->TheQ2binsmin[b];
            q2b = opts->TheQ2binsmax[b];
            value = par->get_value();
            error = par->get_error();
            error_up = par->get_error_up();
            error_down = par->get_error_down();
            if (opts->minos_errors){
                if (error_up==0.0 && value < par->get_max())   error_up = par->get_max() - value;
                if (error_down==0.0 && value > par->get_min()) error_down = par->get_min() - value;//needs to be negative
            }
            start_value = par->get_start_value();
            prev_value = par->get_previous_measurement();
            prev_error = par->get_previous_error();

            for (unsigned int l = 0; l < corr_max; l++) tmp_corr[l] = 0.0; //Fill with zeroes
            for (unsigned int l = 0; l < par->correlations.size(); l++){
                tmp_corr[l] = par->correlations.at(l);
            }
            t->Fill();

        }
        //Write the parameter tree
        t->Write();
        delete t;
        param_index++;
    } //End loop over names

    //Close the root file
    spdlog::info("Finished saving the parameters into the file {0:s}.",fout->GetName());
    fout->Close();

    //Delete the tex file with parameters
    clear_Latex_noteFile(latex_params());
    //Copy the parameter in TeX format into the same place as the final results file
    tex_all_parameters(nBins,n_pdf,theParams);
    replace(results_file,".root",".tex");
    copyFile(get_Latex_noteFile(latex_params()),results_file);

    delete fout;
    return 0;
}


//--------------------------------------//
//   Helpers for writting latex stuff   //
//--------------------------------------//
int clear_Latex_noteFile(std::string tag){
    if( remove(get_Latex_noteFile(tag).c_str()) != 0 ) spdlog::warn( "Unable to delete file " + get_Latex_noteFile(tag) ); //Do not return an error status cause the file might just not exist, which is ok
    else spdlog::trace( "Latex noteFile successfully deleted" );
    return 0;
}

int open_Latex_noteFile(std::string tag, std::ofstream &myfile){
    //This is not working cause this thing is for whatever efin reason stuck with gcc 4.
    myfile.open (get_Latex_noteFile(tag), std::ios::out | std::ios::app);
    if (!myfile.is_open()){
        spdlog::error("Latex noteFile" + get_Latex_noteFile(tag) + " is not opened.");
        return 404;
    }
    else{
        spdlog::trace("Latex noteFile successfully deleted");
        return 0;
    }
}



//--------------------------------------//
//   Helpers for reading the parameters //
//--------------------------------------//

//Checks if the observable is in the TFile
//If required Fl and there is S1s, it returns 11, ...
//Modulo 10 then returns whether the observable actually exists
//Example usage:  if (try_getObservable(paramName, file)%10==0) assert(0)
int try_getObservable(std::string observable, TFile* file){
    if (!file->GetListOfKeys()->Contains(observable.c_str())){
        //Also check if Fl<->S1s and A_FB<->S6s is available
        if (observable == "Fl")  return 10+try_getObservable("S1s",file);
        if (observable == "S1s") return 20+try_getObservable("Fl",file);
        if (observable == "Afb") return 30+try_getObservable("S6s",file);
        if (observable == "S6s") return 40+try_getObservable("Afb",file);
        return 0;
    }
    else return 1;
}

std::vector<double> load_param_values_into_vector(std::string paramName, std::string fileName){
    //There is a function for this in bu2kstarmumu_parameters.cc, but that is inherited from parameters, therefore a parameter class needs to be created for this
    //That would be tedious, so there is a new class that opens the root file with results and reads it from a tree directly into an array

    //Create the vector that will be returned
    std::vector<double> output;

    //Open file
    spdlog::info("Opening " + fileName);
    TFile* file = new TFile(fileName.c_str(), "READ");

    int isFoundFlag = try_getObservable(paramName, file);
    if (!(isFoundFlag%10)){
        spdlog::critical("Wrong tree name " + paramName + "! Returning an empty vector!");
        //It should not crash here as it might be desired to init some observables but not use them
        return {};
    }
    else{
        switch(isFoundFlag){
        case 11: //Need Fl, have S1s
            paramName = "S1s";
            break;
        case 21: //Need S1s, have FL
            paramName = "Fl";
            break;
        case 31: //Need Afb, have S6s
            paramName = "S6s";
            break;
        case 41: //Need S6s, have Afb
            paramName = "Afb";
            break;
        }
        //case 1: all good, move one
    }

    //Get the tree
    TTree* tree = (TTree*)file->Get(paramName.c_str());
    //Activate only needed branches
    tree->SetBranchStatus("*",0);
    tree->SetBranchStatus("value",1);
    double value    = DEFAULT_TREE_VAL;
    tree->SetBranchAddress("value", &value);

    //Loop over nBins that are saved in the tree
    for (int b = 0; b < tree->GetEntries(); b++){
        tree->GetEntry(b);
        //There are not many bins so just do a switch and fill accordingly
        switch(isFoundFlag){
        case 1:
            output.push_back(value);
        case 11: //Need Fl, have S1s
            output.push_back(1-4.0/3.0*value);
            break;
        case 21: //Need S1s, have FL
            output.push_back(3.0/4.0*(1-value));
            break;
        case 31: //Need Afb, have S6s
            output.push_back(3.0/4.0*value);
            break;
        case 41: //Need S6s, have Afb
            output.push_back(4.0/3.0*value);
            break;
        }
    }

    spdlog::debug(convert_vector_to_string(output));
    return output;
}