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MCSAnalysis.h
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MCSAnalysis.h
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#include <stdlib.h>
#include <stdio.h>
#include <string>
#include <vector>
#include <typeinfo>
#include <iostream>
#include <sstream>
#include <list>
// This is what we are here for
#include "RooUnfold.h"
#include "RooUnfoldResponse.h"
#include "RooUnfoldBayes.h"
// Standard ROOT stuff
#include "TCanvas.h"
#include "TH1D.h"
#include "TH2D.h"
#include "TF1.h"
#include "TFile.h"
#include "TTree.h"
#include "TChain.h"
#include "TGraphErrors.h"
#include "TSpectrum.h"
#include "Fit/Fitter.h"
#include "Math/Functor.h"
#include "Math/RootFinder.h"
#include "TLine.h"
#include "TPaveStats.h"
#include "TLegend.h"
#include "TProfile.h"
#include "TGraphAsymmErrors.h"
#include "TStyle.h"
#include "TFileInfo.h"
#include "TSystem.h"
#include "TString.h"
#include "TFrame.h"
#include "TMultiGraph.h"
#include "TEfficiency.h"
// Read directly from the MAUS data structure.
#include "src/common_cpp/DataStructure/TOFEvent.hh"
#include "src/common_cpp/DataStructure/SciFiEvent.hh"
#include "src/common_cpp/DataStructure/SciFiTrack.hh"
#include "src/common_cpp/DataStructure/SciFiTrackPoint.hh"
#include "src/common_cpp/DataStructure/SciFiSpacePoint.hh"
#include "src/common_cpp/DataStructure/KLEvent.hh"
#include "src/common_cpp/DataStructure/CkovEvent.hh"
#include "src/common_cpp/DataStructure/EMREvent.hh"
#include "src/common_cpp/DataStructure/MCEvent.hh"
#include "src/common_cpp/DataStructure/VirtualHit.hh"
#include "src/common_cpp/DataStructure/Hit.hh"
#include "src/common_cpp/DataStructure/Primary.hh"
#include "src/common_cpp/DataStructure/Spill.hh"
#include "src/common_cpp/DataStructure/Data.hh"
// Borrowed from Chris Rogers script
#include "src/legacy/BeamTools/BTFieldConstructor.hh"
#include "src/common_cpp/Utils/JsonWrapper.hh"
#include "src/common_cpp/Utils/Globals.hh"
#include "src/common_cpp/Globals/GlobalsManager.hh"
#include "src/common_cpp/Recon/Global/GlobalTools.hh"
// #include "src/common_cpp/JsonCppStreamer/IRStream.hh"
// And my own home brew object collection.
#include "Collection.h"
#include "libxml/tree.h"
#include "libxml/parser.h"
#include "libxml/xpath.h"
#include "libxml/xpathInternals.h"
#include <stdio.h> /* printf, NULL */
#include <stdlib.h> /* strtold */
class MCSAnalysis {
public:
MCSAnalysis(std::string tree, std::string mctree, std::string reftree, std::string outname, std::map<std::string, double> histlimits);
~MCSAnalysis();
void Write();
TChain* GetTree(){ return chain; }
TChain* GetRefTree(){ return refchain; }
TChain* GetMCTree(){ return mcchain; }
TChain* GetMCEmptyTree(){ return mcemptychain; }
//TFileInfo* GetFileInfo(){ return fileinfo;}
void toffitting();
void Execute(int mode);
void dataevents(int mode);
void dataSelection(int mode);
void referenceSelection();
void generateMCSResponse();
void TruthData(int mode);
void ConvolveWithInputDistribution(std::string distname);
void ConvolveWithVirtualInputDistribution(std::string distname);
void DoUnfolding(Collection& _USsethold, Collection& _DSsethold, Collection& _USMCsethold, Collection& _DSMCsethold);
//void DoUnfolding();
void DoDeconvolution(std::string model, int mode, int n_sel);
void DoVirtualDeconvolution(std::string model, int n_sel);
void DoFFTDeconvolution();
void UpdateRunInfo();
void PlotRunInfo();
void FitGaussian(std::string outfilename);
void CalculateChi2(std::string outfilename, std::string distname);
void print();
void complots(int mode);
std::vector<float> FillCrossCheck();
int counttof1sp1 = 0;
int counttof1sp0 = 0;
int counttofcoincidence = 0;
int counttof0sp1 = 0;
int counttof0sp0 = 0;
TH1D* thetaX_all;
TH1D* thetaX_tof;
TH1D* thetaX_diff;
TH1D* thetaX_chi;
TH1D* thetaX_proj;
TH1D* thetaY_all;
TH1D* thetaY_tof;
TH1D* thetaY_diff;
TH1D* thetaY_chi;
TH1D* thetaY_proj;
TH1D* trkreffix(TH1D* h1, bool muldiv);
TH1D* trkreffiy(TH1D* h1, bool muldiv);
TH1D* trkreffiscatt(TH1D* h1);
float dte01MC;
float dte12MC;
float dte01data;
float dte12data;
float dte01;
float dte12;
TH1D* trkreffi2scatt(TH1D* h1);
double myfunc(double pz, double s1, double s2, double E, double delta);
double myfunc_deriv(double pz, double s1, double s2, double E, double delta);
double myfunc1(double x);
double myfunc_deriv1(double x);
double operator()(double x) const { return x*x; }
double Eval(double x) const { return x+x; }
double Derivative(double x) const { return 2*x; }
int list172[100] = {7764, 7826, 7766, 7827, 7767, 7831, 7782, 7832, 7783, 7861, 7785, 7863, 7786, 7864, 7787, 7865, 7799, 7866, 7800, 7768, 7806, 7833, 7822, 7823, 7824, 7825};
int list200[100] = {7726, 7807, 7729, 7834, 7735, 7835, 7736, 7836, 7754, 7838, 7770, 7841, 7771, 7842, 7772, 7843, 7773, 7777, 7778, 7837, 7784, 7788, 7789, 7797, 7798, 7804};
int list240[100] = {7727, 7817, 7733, 7818, 7737, 7819, 7738, 7844, 7775, 7847, 7776, 7848, 7790, 7849, 7794, 7741, 7795, 7852, 7796, 7853, 7805, 7854, 7808, 7855, 7809, 7856, 7813, 7858, 7814, 7859, 7816, 7860, 7845};
void Setangdef(double a){ angdef=a; }
void Setbeamtype(int a){ beamtype=a; }
void Setmode(double a){ mode=a; }
void Setoffset(double a){ offset=a; }
void SetisMC(double a){ isMC=a; }
void SetTOFsys(double a){ TOFsys=a; }
void Setoffset_needed(int a){ offset_needed=a; }
void Setrot_ang(double a){ rot_ang=a; }
void Setrot_ang_empty(double a){ rot_ang_empty=a; }
void Setrot_angX(double a){ rot_angX=a; }
void Setrot_ang_emptyX(double a){ rot_ang_emptyX=a; }
void Setaccpt(double a){ accpt=a; }
void SetTOFUpperLimit(long double a){ TOF_upper_limit=a; }
void SetTOFLowerLimit(long double a){ TOF_lower_limit=a; }
void SetPUpperLimit(double a){ P_upper_limit=a; }
void SetPLowerLimit(double a){ P_lower_limit=a; }
void SetTOFUpperLimitRef(long double a){ TOF_upper_limit_ref=a; }
void SetTOFLowerLimitRef(long double a){ TOF_lower_limit_ref=a; }
void SetRadialLimit(double a){ meanp=a; }
void SetEffCut(double a){ eff_cut=a; }
void SetGradientLimit(double a){ sigmap=a; }
void SetModelFileName(std::string a){ modelfile=a; }
void SetModelFileName2(std::string a){ modelfile2=a; }
void SetModelName1(std::string a) {modelname1=a; }
void SetModelName2(std::string a) {modelname2=a; }
void SetModelName3(std::string a) {modelname3=a; }
void SetMaterial(std::string a) {material=a; }
void SetTrkrEffiName(std::string a) {trkreffiname=a; }
void SetTrkrEffiEmptyName(std::string a) {trkreffiemptyname=a; }
void SetParentGeometryFile(std::string a) {geometryfile=a; }
void SetFFTBinLimit(int a) { binlimit=a; }
void SetFileName(std::string a) {outfilename=a; }
void SetSysOffset(std::string eff, double val) { _sys[eff] = val; }
private:
int jUS, jDS, kUS, kDS, lUS, lDS;
double percentTOF2;
double TOF1Hit = 0;
double TOF2Hit = 0;
double DSentries = 0;
double DSrefentries = 0;
double angdef;
int beamtype;
double isMC;
bool TOFsys;
int offset_needed;
bool isEmpty;
double rot_ang;
double rot_ang_empty;
double rot_angX;
double rot_ang_emptyX;
double accpt;
double DScor = 0;
double refDScor = 0;
double UScor = 0;
double refUScor = 0;
long double TOF_lower_limit;
long double TOF_upper_limit;
long double P_lower_limit;
long double P_upper_limit;
long double TOF_lower_limit_ref;
long double TOF_upper_limit_ref;
double semom;
double meanmom;
double rmsmom;
double errrmsmom;
double bwmom;
double empty_semom;
double empty_meanmom;
double empty_rmsmom;
double empty_errrmsmom;
double empty_bwmom;
double mode;
double offset;
double difradius;
double meanp;
double eff_cut;
double sigmap;
int binlimit;
double weight172;
double weight200;
double weight240;
double TOFtotal;
double tX_rG_int;
std::string modelfile;
std::string modelfile2;
std::string modelname1;
std::string modelname2;
std::string modelname3;
std::string material;
std::string trkreffiname;
std::string trkreffiemptyname;
std::string geometryfile;
double USrefplaneZ;
double DSrefplaneZ;
int USrefplaneI;
int DSrefplaneI;
Collection _USset;
Collection _DSset;
Collection _USAbsset;
Collection _DSAbsset;
Collection _USMCset;
Collection _DSMCset;
Collection _UStmpset;
Collection USTruthSet;
Collection DSTruthSet;
Collection USTruthSetLiH;
Collection DSTruthSetLiH;
Collection mcreconUSTruthSet;
Collection mcreconDSTruthSet;
Collection eventMCUSAllTOF;
Collection eventMCDSAllTOF;
Collection USeventset;
Collection DSeventset;
RooUnfoldResponse resp_thetaX;
RooUnfoldResponse resp_thetaY;
RooUnfoldResponse resp_thetaScatt;
RooUnfoldResponse resp_theta2Scatt;
RooUnfoldResponse tresp_thetaX;
RooUnfoldResponse tresp_thetaY;
RooUnfoldResponse tresp_thetaScatt;
RooUnfoldResponse tresp_theta2Scatt;
RooUnfoldResponse mresp_thetaX;
RooUnfoldResponse mresp_thetaY;
RooUnfoldResponse mresp_thetaScatt;
RooUnfoldResponse mresp_theta2Scatt;
RooUnfoldResponse fresp_thetaX;
RooUnfoldResponse fresp_thetaY;
RooUnfoldResponse fresp_thetaScatt;
RooUnfoldResponse fresp_theta2Scatt;
int USabsPlaneI;
int DSabsPlaneI;
int centre;
std::map<std::string, double> _histlimits;
std::map<std::string, double> _sys;
// Chain containing only the data of interest (not necessarily MC).
TChain* chain;
// Training tree containing the response to the volume of interest
TChain* refchain;
// Truth tree containing the response to the volume of interest
TChain* mcchain;
// Truth tree containing the response to the empty channel
TChain* mcemptychain;
int runnumber, LastRunNumber;
int SpillNumber;
int tracker0;
int tracker1;
MAUS::TOFEvent* tofevent;
MAUS::SciFiEvent* scifievent;
MAUS::KLEvent* klevent;
MAUS::CkovEvent* ckovevent;
MAUS::EMREvent* emrevent;
MAUS::MCEvent* mcevent;
MAUS::Primary* primary;
MAUS::SpecialVirtualHitArray* sphitarray;
TFile* outfile;
std::string outfilename;
TH1D* diffradius;
TH1D* chi2pern;
TH1D* projradius;
TH1D* nocutprojradius;
TH2D* trackno;
TH2D* eventnovspz;
TH2D* tofhitno;
TH1D* pathlengthabs;
TH1D* tof10;
TH1D* tof10_sel;
TH1D* noweighttof10;
TH1D* noweighttof21;
TH1D* rawtime;
TH1D* rawtime12;
TH1D* uncor_mom;
TH1D* uncor_momsel;
TH1D* tof21;
TH1D* tof21_sel;
TH1D* calc_mom;
TH2D* t_cor;
TH1D* residual;
TH1D* residual01;
TH1D* residual12;
TH1D* residualUD;
TH1D* refresidual;
TH1D* refresidual01;
TH1D* refresidual12;
TH1D* refresidualUD;
TH1D* residual12p6;
TH1D* residual01j;
TH1D* residual01short;
TH1D* residual12p2;
TH1D* residual01p6;
TH1D* residualcobb;
TH1D* TOF0Energy;
TH1D* difEloss;
TH2D* energyloss;
TH1D* energylossproj;
TProfile* energylosspro;
TH1D* TOF1Energy;
TH1D* TOF2Energy;
TH2D* pzdEdx;
TH2D* residual_plot;
TH2D* TOF01vsTOF12;
TH2D* refTOF01vsTOF12;
TH2D* TOF01forvsTOF01absfor;
TH2D* TOFcom;
TH1D* MCTruth;
TH1D* refMCTruth;
TH2D* TOF01vsMCTruth;
TH2D* refTOFvsMCTruth;
TH2D* TOFvsMCTruth;
TH2D* TOF12Paul6thforvsMCTruth;
TH2D* TOF12longPaul6thforvsMCTruth;
TH2D* TOF12Paul2ndforvsMCTruth;
TH2D* TOF01Paul6thforvsMCTruth;
TH2D* TOF01shortPaul6thforvsMCTruth;
TH2D* TOF01fordownvsMCTruth;
TH2D* TOF12fordownvsMCTruth;
TH2D* TOF12cobbvsMCTruth;
TH2D* TOF01forupvsTOF01fordown;
TH1D* cor_mom;
TH1D* mctof10;
TH1D* mctof10_sel;
TH1D* mctof21;
TH1D* mctof21_sel;
TH1D* mccalc_mom;
TH1D* mctrue_mom;
TH1D* cuts_accept;
TH1D* mccuts_accept;
TH1D* scattering_pos_x;
TH1D* scattering_pos_y;
TH1D* theta_true_x_graph;
TH1D* theta_true_x_bin;
TH1D* theta_true_y_graph;
TH1D* theta_true_scat_graph;
TH1D* theta_true_scat2_graph;
TH1D* minustheta_true_x_graph;
TH1D* minustheta_true_y_graph;
TH1D* mctheta_true_x_graph;
TH1D* mctheta_true_y_graph;
TH1D* mctheta_true_scat_graph;
TH1D* sym_theta_true_x_graph;
TH1D* sym_theta_true_y_graph;
TH2D* scattering_proj_x_R;
TH2D* scattering_proj_y_R;
TH2D* scattering_proj_x_resp;
TH2D* scattering_proj_y_resp;
TH1D* theta_meas_y_graph;
TH1D* theta_meas_x_graph;
std::vector<int> _run;
std::vector<double> _emit;
std::vector<double> _emitError;
std::vector<double> _meanX;
std::vector<double> _meanXerror;
std::vector<double> _meanY;
std::vector<double> _meanYerror;
std::vector<double> _meandXdz;
std::vector<double> _meandXdzError;
std::vector<double> _meandYdz;
std::vector<double> _meandYdzError;
std::vector<double> path_length;
bool MatchUSDS();
bool PIDSelection(const bool& isdata);
Vars RadialSelection(double& pz, double& pos, double& radius);
bool TruthMatchUSDS();
bool TruthTime(const bool& isdata);
bool TruthTime12(const bool& isdata);
bool TruthRadialSelection(double& pz, double& pos, double& radius, int& j);
std::vector<double> DefineProjectionAngles(Vars& US, Vars& DS);
std::vector<double> RotDefineProjectionAngles(const Vars& US, const Vars& DS, int l);
std::vector<double> mcRotDefineProjectionAngles(const Vars& US, const Vars& DS, int l);
TH1D *defineHist2(const char* name, const char* title, Double_t& nbinsx, Double_t& xlow, Double_t& xup);
double ReadOffset(bool file);
double WriteOffset(bool file);
double getoffset(xmlNode * a_node, bool file);
double MomentumFromTOF(const bool& isdata);
double BetheBloch(double& pz, double& Imat, double& Z, double& A, double& hw);
double MostProbBB(double& pz, double& Imat, double& Z, double& A, double& hw, double& R, double& z);
double TimeofFlight(const bool& raw);
double TimeofFlight12(const bool& raw);
std::vector<double> CalculatePathLength(double& pz);
std::vector<double> rCalculatePathLength(double& pz);
double PathLengthInLH2(double& pz);
double CorMomFromTOF(Vars& set, double& diff, const bool& isdata);
double MomCalc(double& TOF, const bool& isdata);
bool findVirtualPlanes();
void tophatl();
double_t tophatl_(double_t *x, double_t *par);
void FillMuScattResponse(bool& event_ok, Vars& US, Vars& DS, Vars& USMC, Vars& DSMC);
void FillMCSResponse(bool& event_ok, Vars& US, Vars& DS, Vars& USMC, Vars& DSMC);
void TruthGraph(Collection& USMC, Collection& DSMC, bool recon);
void FillVarsVirtual(Vars& tmpvar, int& j, int& centre);
void FillCollectionSciFi(Collection& Set, int& j, int& k, int& l, int& pid, double& pz, int& isDS, Vars& difproj, Vars& proj, std::vector<float> chi2nUS, int& beamtype, double& ptruth, const bool& difcut, const bool& fidcut, const bool& chicut, const bool& TOFcut);
void FillEventCollection(Collection& Set, Vars& tmpvar);
void FillVarsSciFi(Vars& tmpvar, int& j, int& k, int& l, int& pid, double& pz, int& isDS, Vars& proj, Vars& projdif, std::vector<float> chi2nUS, int& beamtype, double& ptruth, const bool& difcut, const bool& fidcut, const bool& chicut, const bool& TOFcut);
void make_beam_histograms(Collection& Set, std::string desc, std::string suffix);
void data_make_beam_histograms(Collection& Set, std::string desc, std::string suffix, Collection& SetMC);
void make_acceptance_histograms(Collection& USset, Collection& DSset,
std::string desc, std::string suffix);
void make_scattering_acceptance_histograms(Collection& USset,
Collection& DSset,
Collection& DSrefset,
std::string desc,
std::string suffix);
void trkr_eff(Collection& USTruthSethold,
Collection& DSTruthSethold,
Collection& _USsethold,
Collection& _DSsethold,
std::string desc,
std::string suffix);
Json::Value SetupConfig(int verbose_level);
Vars PropagateVarsMu(const Vars& event, const double& z0);
/*
static TVectorD p_vec;
static TVectorD res;
static TVectorD pStart_vec;
static TVectorD pStart_vec_y;
static TVectorD theta_true_x;
static TVectorD theta_true_y;
*/
double pStart[19];
// double p_vec[19];
int counter;
int nSize_true;
int nSize_true_y;
double scattering_proj_x_entry;
double scattering_proj_x_new;
double scattering_proj_x_centre;
double scattering_proj_y_entry;
double scattering_proj_y_new;
double scattering_proj_y_centre;
struct SumDistance2 {
TVectorD D_x_func;
TMatrixD e_x_func;
TMatrixD R_x_func;
SumDistance2(TVectorD D, TMatrixD e, TMatrixD R) :
D_x_func(D), e_x_func(e), R_x_func(R) {}
double operator() (const double * par) {
double sum = 0;
TVectorD p_vec(19);
int z = 1;
for (int j=0; j<19; j++)
p_vec[j] = par[j];
for (int i=10; i<19; i++){
p_vec[i] = par[i-z];
z += 2;
}
TVectorD res = R_x_func * e_x_func * p_vec;
for (int i = 0; i<30; i++) {
if (D_x_func(i) != 0) {
double d = pow(D_x_func(i)-res(i),2) / D_x_func(i);
sum += d;
}
/*
if (first) {
std::cout << "point " << i << "\t"
<< D_x_func(i) << "\t"
<< res(i) << "\t" << std::endl;
}
}
if (first) {
std::cout << "Total Initial distance square = " << sum << std::endl;
first = false;
*/
}
return sum;
}
};
};
class MyFunction1D {
public:
double a;
double b;
double cp;
double d;
double operator()(double x) const { return a*pow(x,6)+b*pow(x,3)+cp*pow(x,2)+d; }
double Derivative(double x) const { return 6*a*pow(x,5)+3*b*pow(x,2)+2*cp*x; }
};
class My2Function1D {
public:
double a;
double b;
double cp;
double d;
double operator()(double x) const { return a*pow(x,6)+b*pow(x,3)+cp*pow(x,2)+d; }
double Derivative(double x) const { return 6*a*pow(x,5)+3*b*pow(x,2)+2*cp*x; }
};
class My3Function1D {
public:
double a;
double b;
double cp;
double d;
double operator()(double x) const { return a*pow(x,6)+b*pow(x,4)+cp*pow(x,3)+d; }
double Derivative(double x) const { return 6*a*pow(x,5)+4*b*pow(x,3)+3*cp*pow(x,2); }
};