THcHodoscope.cxx

///////////////////////////////////////////////////////////////////////////////
//                                                                           //
// THcHodoscope                                                              //
//                                                                           //
// Class for a generic hodoscope consisting of multiple                      //
// planes with multiple paddles with phototubes on both ends.                //
// This differs from Hall A scintillator class in that it is the whole       //
// hodoscope array, not just one plane.                                      //
//                                                                           //
// Date July 8 2014:                                                         //
// Zafr Ahmed                                                                //
// Beta and chis square are calculated for each of the hodoscope track.      //
// Two new variables are added. fBeta and fBetaChisq                         //
//                                                                           //
///////////////////////////////////////////////////////////////////////////////

#include "THcSignalHit.h"
#include "THcShower.h"
#include "THcCherenkov.h"
#include "THcHallCSpectrometer.h"

#include "THcHitList.h"
#include "THcRawShowerHit.h"
#include "TClass.h"
#include "math.h"
#include "THaSubDetector.h"

#include "THcHodoscope.h"
#include "THaEvData.h"
#include "THaDetMap.h"
#include "THcDetectorMap.h"
#include "THaGlobals.h"
#include "THaCutList.h"
#include "THcGlobals.h"
#include "THcParmList.h"
#include "VarDef.h"
#include "VarType.h"
#include "THaTrack.h"
#include "TClonesArray.h"
#include "TMath.h"

#include "THaTrackProj.h"
#include <vector>

#include <cstring>
#include <cstdio>
#include <cstdlib>
#include <iostream>
#include <fstream>

using namespace std;
using std::vector;

//_____________________________________________________________________________
THcHodoscope::THcHodoscope( const char* name, const char* description,
				  THaApparatus* apparatus ) :
  THaNonTrackingDetector(name,description,apparatus)
{
  // Constructor

  //fTrackProj = new TClonesArray( "THaTrackProj", 5 );
  // Construct the planes
  fNPlanes = 0;			// No planes until we make them
  fStartTime=-1e5;
  fGoodStartTime=kFALSE;
}

//_____________________________________________________________________________
THcHodoscope::THcHodoscope( ) :
  THaNonTrackingDetector()
{
  // Constructor
}

//_____________________________________________________________________________
void THcHodoscope::Setup(const char* name, const char* description)
{

  //  static const char* const here = "Setup()";
  //  static const char* const message = 
  //    "Must construct %s detector with valid name! Object construction failed.";

  cout << "In THcHodoscope::Setup()" << endl;
  // Base class constructor failed?
  if( IsZombie()) return;

  fDebug   = 1;  // Keep this at one while we're working on the code    

  char prefix[2];

  prefix[0]=tolower(GetApparatus()->GetName()[0]);
  prefix[1]='\0';

  string planenamelist;
  DBRequest listextra[]={
    {"hodo_num_planes", &fNPlanes, kInt},
    {"hodo_plane_names",&planenamelist, kString},
    {0}
  };
  //fNPlanes = 4; 		// Default if not defined
  gHcParms->LoadParmValues((DBRequest*)&listextra,prefix);
  
  cout << "Plane Name List : " << planenamelist << endl;

  vector<string> plane_names = vsplit(planenamelist);
  // Plane names  
  if(plane_names.size() != (UInt_t) fNPlanes) {
    cout << "ERROR: Number of planes " << fNPlanes << " doesn't agree with number of plane names " << plane_names.size() << endl;
    // Should quit.  Is there an official way to quit?
  }
  fPlaneNames = new char* [fNPlanes];
  for(Int_t i=0;i<fNPlanes;i++) {
    fPlaneNames[i] = new char[plane_names[i].length()+1];
    strcpy(fPlaneNames[i], plane_names[i].c_str());
  }

  /*  fPlaneNames = new char* [fNPlanes];
  for(Int_t i=0;i<fNPlanes;i++) {fPlaneNames[i] = new char[3];}
  // Should get the plane names from parameters.  
  // could try this: grep _zpos PARAM/hhodo.pos | sed 's/\_/\ /g' | awk '{print $2}'
  strcpy(fPlaneNames[0],"1x");  
  strcpy(fPlaneNames[1],"1y");
  strcpy(fPlaneNames[2],"2x");
  strcpy(fPlaneNames[3],"2y");
  */
  // Probably shouldn't assume that description is defined
  char* desc = new char[strlen(description)+100];
  fPlanes = new THcScintillatorPlane* [fNPlanes];
  for(Int_t i=0;i < fNPlanes;i++) {
    strcpy(desc, description);
    strcat(desc, " Plane ");
    strcat(desc, fPlaneNames[i]);
    fPlanes[i] = new THcScintillatorPlane(fPlaneNames[i], desc, i+1,fNPlanes,this); // Number planes starting from zero!!
    cout << "Created Scintillator Plane " << fPlaneNames[i] << ", " << desc << endl;
  }

  // --------------- To get energy from THcShower ----------------------
  const char* shower_detector_name = "cal";  
  //  THaApparatus* app;
  THcHallCSpectrometer *app = dynamic_cast<THcHallCSpectrometer*>(GetApparatus());
  THaDetector* det = app->GetDetector( shower_detector_name );

  if( dynamic_cast<THcShower*>(det) ) {
    fShower = dynamic_cast<THcShower*>(det);
  }
  else if( !dynamic_cast<THcShower*>(det) ) {
    cout << "Warining: calorimeter analysis module " 
	 << shower_detector_name << " not loaded for spectrometer "
	 << prefix << endl;
    
    fShower = NULL;
  }
  
  // --------------- To get energy from THcShower ----------------------

  // --------------- To get NPEs from THcCherenkov -------------------
  const char* chern_detector_name = "cher";
  THaDetector* detc = app->GetDetector( chern_detector_name );
  
  if( dynamic_cast<THcCherenkov*>(detc) ) {
    fChern = dynamic_cast<THcCherenkov*>(detc);  
  }
  else if( !dynamic_cast<THcCherenkov*>(detc) ) {
    cout << "Warining: Cherenkov detector analysis module " 
	 << chern_detector_name << " not loaded for spectrometer "
	 << prefix << endl;
    
    fChern = NULL;
  }
  
  // --------------- To get NPEs from THcCherenkov -------------------

  fScinShould = 0;
  fScinDid = 0;
  gHcParms->Define(Form("%shodo_did",prefix),"Total hodo tracks",fScinDid);
  gHcParms->Define(Form("%shodo_should",prefix),"Total hodo triggers",fScinShould);

  delete [] desc;
}

//_____________________________________________________________________________
THaAnalysisObject::EStatus THcHodoscope::Init( const TDatime& date )
{
  cout << "In THcHodoscope::Init()" << endl;
  Setup(GetName(), GetTitle());

  // Should probably put this in ReadDatabase as we will know the
  // maximum number of hits after setting up the detector map
  // But it needs to happen before the sub detectors are initialized
  // so that they can get the pointer to the hitlist.


  InitHitList(fDetMap, "THcRawHodoHit", 100);

  EStatus status;
  // This triggers call of ReadDatabase and DefineVariables
  if( (status = THaNonTrackingDetector::Init( date )) )
    return fStatus=status;

  for(Int_t ip=0;ip<fNPlanes;ip++) {
    if((status = fPlanes[ip]->Init( date ))) {
      return fStatus=status;
    }
  }

  // Replace with what we need for Hall C
  //  const DataDest tmp[NDEST] = {
  //    { &fRTNhit, &fRANhit, fRT, fRT_c, fRA, fRA_p, fRA_c, fROff, fRPed, fRGain },
  //    { &fLTNhit, &fLANhit, fLT, fLT_c, fLA, fLA_p, fLA_c, fLOff, fLPed, fLGain }
  //  };
  //  memcpy( fDataDest, tmp, NDEST*sizeof(DataDest) );

  char EngineDID[]="xSCIN";
  EngineDID[0] = toupper(GetApparatus()->GetName()[0]);
  if( gHcDetectorMap->FillMap(fDetMap, EngineDID) < 0 ) {
    static const char* const here = "Init()";
    Error( Here(here), "Error filling detectormap for %s.", 
	     EngineDID);
      return kInitError;
  }

  fNScinHits     = new Int_t [fNPlanes];
  fGoodPlaneTime = new Bool_t [fNPlanes];
  fNPlaneTime    = new Int_t [fNPlanes];
  fSumPlaneTime  = new Double_t [fNPlanes];

  //  Double_t  fHitCnt4 = 0., fHitCnt3 = 0.;
  
  // Int_t m = 0;
  // fScinHit = new Double_t*[fNPlanes];         
  // for ( m = 0; m < fNPlanes; m++ ){
  //   fScinHit[m] = new Double_t[fNPaddle[0]];
  // }
  

  return fStatus = kOK;
}
//_____________________________________________________________________________
Double_t THcHodoscope::DefineDoubleVariable(const char* fName)
{
  // Define a variale of type double by looking it up in the THcParmList
  char prefix[2];
  char parname[100];
  Double_t tmpvar=-1e6;
  prefix[0]=tolower(GetApparatus()->GetName()[0]);
  prefix[1]='\0';
  strcpy(parname,prefix);
  strcat(parname,fName);
  if (gHcParms->Find(parname)) {
    tmpvar=*(Double_t *)gHcParms->Find(parname)->GetValuePointer();
    if (fDebug>=1)  cout << parname << " "<< tmpvar << endl;
  } else {
    cout << "*** ERROR!!! Could not find " << parname << " in the list of variables! ***" << endl;
  }
  return tmpvar;
}

//_____________________________________________________________________________
Int_t THcHodoscope::DefineIntVariable(const char* fName)
{
  // Define a variale of type int by looking it up in the THcParmList
  char prefix[2];
  char parname[100];
  Int_t tmpvar=-100000;
  prefix[0]=tolower(GetApparatus()->GetName()[0]);
  prefix[1]='\0';
  strcpy(parname,prefix);
  strcat(parname,fName);
  if (gHcParms->Find(parname)) {
    tmpvar=*(Int_t *)gHcParms->Find(parname)->GetValuePointer();
    if (fDebug>=1)  cout << parname << " "<< tmpvar << endl;
  } else {
    cout << "*** ERROR!!! Could not find " << parname << " in the list of variables! ***" << endl;
  }
  return tmpvar;
}

//_____________________________________________________________________________
void THcHodoscope::DefineArray(const char* fName, const Int_t index, Double_t *myArray)
{
  char prefix[2];
  char parname[100];
  //  Int_t tmpvar=-100000;
   prefix[0]=tolower(GetApparatus()->GetName()[0]);
  prefix[1]='\0';
  strcpy(parname,prefix);
  strcat(parname,fName);
  if (gHcParms->Find(parname)) {
    if (fDebug >=1) cout <<parname;
    Double_t* p = (Double_t *)gHcParms->Find(parname)->GetValuePointer();
    for(Int_t i=0;i<index;i++) {
      myArray[i] = p[i];
      if (fDebug>=1)    cout << " " << myArray[i];
    }
    if (fDebug>=1)  cout << endl;

  }
  else {
    cout <<" Could not find "<<parname<<" in the DataBase!!!\n";
  }
}

//_____________________________________________________________________________
void THcHodoscope::DefineArray(const char* fName, char** Suffix, const Int_t index, Double_t *myArray)
{
  // Try to read an array made up of what used to be (in the f77 days) a number of variables
  // example: hscin_1x_center, hscin_1y_center, hscin_2x_center, hscin_2y_center will become scin_center
  //
  char prefix[2];
  char parname[100],parname2[100];
  //  
  prefix[0]=tolower(GetApparatus()->GetName()[0]);
  prefix[1]='\0';
  strcpy(parname,prefix);
  strcat(parname,fName);
  for(Int_t i=0;i<index;i++) {
    strcpy(parname2,Form(parname,Suffix[i]));
    if (gHcParms->Find(parname2)) {
      if (fDebug >=1) cout <<parname2;
      myArray[i] = *(Double_t *)gHcParms->Find(parname2)->GetValuePointer();
      if (fDebug>=1)    cout << " " << myArray[i];
    }
    if (fDebug>=1)  cout << endl;
    else {
      cout <<" Could not find "<<parname2<<" in the DataBase!!!\n";
    }
  }
}

//_____________________________________________________________________________
void THcHodoscope::DefineArray(const char* fName, char** Suffix, const Int_t index, Int_t *myArray)
{
  // Try to read an array made up of what used to be (in the f77 days) a number of variables
  // example: hscin_1x_center, hscin_1y_center, hscin_2x_center, hscin_2y_center will become scin_center
  //
  char prefix[2];
  char parname[100],parname2[100];
  //  
  prefix[0]=tolower(GetApparatus()->GetName()[0]);
  prefix[1]='\0';
  strcpy(parname,prefix);
  strcat(parname,fName);
  for(Int_t i=0;i<index;i++) {
    strcpy(parname2,Form(parname,Suffix[i]));
    if (gHcParms->Find(parname2)) {
      if (fDebug >=1) cout <<parname2;
      myArray[i] = *(Int_t *)gHcParms->Find(parname2)->GetValuePointer();
      if (fDebug>=1)    cout << " " << myArray[i];
    }
    if (fDebug>=1)  cout << endl;
    else {
      cout <<" Could not find "<<parname2<<" in the DataBase!!!\n";
    }
  }
}

//_____________________________________________________________________________
Int_t THcHodoscope::ReadDatabase( const TDatime& date )
{

  // Read this detector's parameters from the database file 'fi'.
  // This function is called by THaDetectorBase::Init() once at the
  // beginning of the analysis.
  // 'date' contains the date/time of the run being analyzed.

  //  static const char* const here = "ReadDatabase()";
  char prefix[2];
  char parname[100];

  // Read data from database 
  // Pull values from the THcParmList instead of reading a database
  // file like Hall A does.

  // Will need to determine which spectrometer in order to construct
  // the parameter names (e.g. hscin_1x_nr vs. sscin_1x_nr)

  prefix[0]=tolower(GetApparatus()->GetName()[0]);
  //
  prefix[1]='\0';
  strcpy(parname,prefix);
  strcat(parname,"scin_");
  //  Int_t plen=strlen(parname);
  cout << " readdatabse hodo fnplanes = " << fNPlanes << endl;

  fNPaddle = new UInt_t [fNPlanes];
  fFPTime = new Double_t [fNPlanes];
  fPlaneCenter = new Double_t[fNPlanes];
  fPlaneSpacing = new Double_t[fNPlanes];

  prefix[0]=tolower(GetApparatus()->GetName()[0]);
  //
  prefix[1]='\0';

  for(Int_t i=0;i<fNPlanes;i++) {
    
    DBRequest list[]={
      {Form("scin_%s_nr",fPlaneNames[i]), &fNPaddle[i], kInt},
      {0}
    };
    gHcParms->LoadParmValues((DBRequest*)&list,prefix);
  }

  // GN added
  // reading variables from *hodo.param
  fMaxScinPerPlane=fNPaddle[0];
  for (Int_t i=1;i<fNPlanes;i++) {
    fMaxScinPerPlane=(fMaxScinPerPlane > fNPaddle[i])? fMaxScinPerPlane : fNPaddle[i];
  }
// need this for "padded arrays" i.e. 4x16 lists of parameters (GN)
  fMaxHodoScin=fMaxScinPerPlane*fNPlanes; 
  if (fDebug>=1)  cout <<"fMaxScinPerPlane = "<<fMaxScinPerPlane<<" fMaxHodoScin = "<<fMaxHodoScin<<endl;
  
  fHodoVelLight=new Double_t [fMaxHodoScin];
  fHodoPosSigma=new Double_t [fMaxHodoScin];
  fHodoNegSigma=new Double_t [fMaxHodoScin];
  fHodoPosMinPh=new Double_t [fMaxHodoScin];
  fHodoNegMinPh=new Double_t [fMaxHodoScin];
  fHodoPosPhcCoeff=new Double_t [fMaxHodoScin];
  fHodoNegPhcCoeff=new Double_t [fMaxHodoScin];
  fHodoPosTimeOffset=new Double_t [fMaxHodoScin];
  fHodoNegTimeOffset=new Double_t [fMaxHodoScin];
  fHodoPosPedLimit=new Int_t [fMaxHodoScin];
  fHodoNegPedLimit=new Int_t [fMaxHodoScin];
  fHodoPosInvAdcOffset=new Double_t [fMaxHodoScin];
  fHodoNegInvAdcOffset=new Double_t [fMaxHodoScin];
  fHodoPosInvAdcLinear=new Double_t [fMaxHodoScin];
  fHodoNegInvAdcLinear=new Double_t [fMaxHodoScin];
  fHodoPosInvAdcAdc=new Double_t [fMaxHodoScin];
  fHodoNegInvAdcAdc=new Double_t [fMaxHodoScin];
  
  fNHodoscopes = 2;
  fxLoScin = new Int_t [fNHodoscopes]; 
  fxHiScin = new Int_t [fNHodoscopes]; 
  fyLoScin = new Int_t [fNHodoscopes]; 
  fyHiScin = new Int_t [fNHodoscopes]; 

  prefix[1]='\0';
  DBRequest list[]={
    {"start_time_center",                &fStartTimeCenter,                      kDouble},
    {"start_time_slop",                  &fStartTimeSlop,                        kDouble},
    {"scin_tdc_to_time",                 &fScinTdcToTime,                        kDouble},
    {"scin_tdc_min",                     &fScinTdcMin,                           kDouble},
    {"scin_tdc_max",                     &fScinTdcMax,                           kDouble},
    {"tof_tolerance",                    &fTofTolerance,          kDouble,         0,  1},
    {"pathlength_central",               &fPathLengthCentral,                    kDouble},
    {"hodo_vel_light",                   &fHodoVelLight[0],       kDouble,  fMaxHodoScin},
    {"hodo_pos_sigma",                   &fHodoPosSigma[0],       kDouble,  fMaxHodoScin},
    {"hodo_neg_sigma",                   &fHodoNegSigma[0],       kDouble,  fMaxHodoScin},
    {"hodo_pos_minph",                   &fHodoPosMinPh[0],       kDouble,  fMaxHodoScin},
    {"hodo_neg_minph",                   &fHodoNegMinPh[0],       kDouble,  fMaxHodoScin},
    {"hodo_pos_phc_coeff",               &fHodoPosPhcCoeff[0],    kDouble,  fMaxHodoScin},
    {"hodo_neg_phc_coeff",               &fHodoNegPhcCoeff[0],    kDouble,  fMaxHodoScin},
    {"hodo_pos_time_offset",             &fHodoPosTimeOffset[0],  kDouble,  fMaxHodoScin},
    {"hodo_neg_time_offset",             &fHodoNegTimeOffset[0],  kDouble,  fMaxHodoScin},
    {"hodo_pos_ped_limit",               &fHodoPosPedLimit[0],    kInt,     fMaxHodoScin},
    {"hodo_neg_ped_limit",               &fHodoNegPedLimit[0],    kInt,     fMaxHodoScin},
    {"tofusinginvadc",                   &fTofUsingInvAdc,        kInt,            0,  1},       
    {"xloscin",                          &fxLoScin[0],            kInt,     (UInt_t) fNHodoscopes},
    {"xhiscin",                          &fxHiScin[0],            kInt,     (UInt_t) fNHodoscopes},
    {"yloscin",                          &fyLoScin[0],            kInt,     (UInt_t) fNHodoscopes},
    {"yhiscin",                          &fyHiScin[0],            kInt,     (UInt_t) fNHodoscopes},
    {"track_eff_test_num_scin_planes",   &fTrackEffTestNScinPlanes,                 kInt},
    {"cer_npe",                          &fNCerNPE,               kDouble,         0,  1},
    {"normalized_energy_tot",            &fNormETot,              kDouble,         0,  1},
    {0}
  };
  
  fTofUsingInvAdc = 0;		// Default if not defined
  fTofTolerance = 3.0;		// Default if not defined
  fNCerNPE = 2.0;
  fNormETot = 0.7;

  gHcParms->LoadParmValues((DBRequest*)&list,prefix);

  cout << " x1 lo = " << fxLoScin[0] 
       << " x2 lo = " << fxLoScin[1] 
       << " x1 hi = " << fxHiScin[0] 
       << " x2 hi = " << fxHiScin[1] 
       << endl;

  cout << " y1 lo = " << fyLoScin[0] 
       << " y2 lo = " << fyLoScin[1] 
       << " y1 hi = " << fyHiScin[0] 
       << " y2 hi = " << fyHiScin[1] 
       << endl;

  cout << "Hdososcope planes hits for trigger = " << fTrackEffTestNScinPlanes 
       << " normalized energy min = " << fNormETot
       << " number of photo electrons = " << fNCerNPE
       << endl;

  if (fTofUsingInvAdc) {
    DBRequest list2[]={
      {"hodo_pos_invadc_offset",&fHodoPosInvAdcOffset[0],kDouble,fMaxHodoScin},
      {"hodo_neg_invadc_offset",&fHodoNegInvAdcOffset[0],kDouble,fMaxHodoScin},
      {"hodo_pos_invadc_linear",&fHodoPosInvAdcLinear[0],kDouble,fMaxHodoScin},
      {"hodo_neg_invadc_linear",&fHodoNegInvAdcLinear[0],kDouble,fMaxHodoScin},
      {"hodo_pos_invadc_adc",&fHodoPosInvAdcAdc[0],kDouble,fMaxHodoScin},
      {"hodo_neg_invadc_adc",&fHodoNegInvAdcAdc[0],kDouble,fMaxHodoScin},
      {0}
    };
    gHcParms->LoadParmValues((DBRequest*)&list2,prefix);
  };
  if (fDebug >=1) {
    cout <<"******* Testing Hodoscope Parameter Reading ***\n";
    cout<<"StarTimeCenter = "<<fStartTimeCenter<<endl;
    cout<<"StartTimeSlop = "<<fStartTimeSlop<<endl;
    cout <<"ScintTdcToTime = "<<fScinTdcToTime<<endl;
    cout <<"TdcMin = "<<fScinTdcMin<<" TdcMax = "<<fScinTdcMax<<endl;
    cout <<"TofTolerance = "<<fTofTolerance<<endl;
    cout <<"*** VelLight ***\n";
    for (Int_t i1=0;i1<fNPlanes;i1++) {
      cout<<"Plane "<<i1<<endl;
      for (UInt_t i2=0;i2<fMaxScinPerPlane;i2++) {
	cout<<fHodoVelLight[GetScinIndex(i1,i2)]<<" ";
      }
      cout <<endl;
    }
    cout <<endl<<endl;
    // check fHodoPosPhcCoeff
    /*
    cout <<"fHodoPosPhcCoeff = ";
    for (int i1=0;i1<fMaxHodoScin;i1++) {
      cout<<this->GetHodoPosPhcCoeff(i1)<<" ";
    }
    cout<<endl;
    */
  }
  //
  if ((fTofTolerance > 0.5) && (fTofTolerance < 10000.)) {
    cout << "USING "<<fTofTolerance<<" NSEC WINDOW FOR FP NO_TRACK CALCULATIONS.\n";
  }
  else {
    fTofTolerance= 3.0;
    cout << "*** USING DEFAULT 3 NSEC WINDOW FOR FP NO_TRACK CALCULATIONS!! ***\n";
  }
  fIsInit = true;
  return kOK;
}

//_____________________________________________________________________________
Int_t THcHodoscope::DefineVariables( EMode mode )
{
  // Initialize global variables and lookup table for decoder
  cout << "THcHodoscope::DefineVariables called " << GetName() << endl;
  if( mode == kDefine && fIsSetup ) return kOK;
  fIsSetup = ( mode == kDefine );

  // Register variables in global list

  RVarDef vars[] = {
    // Move these into THcHallCSpectrometer using track fTracks
    {"fpHitsTime",      "Time at focal plane from all hits",         "fFPTime"},
    {"starttime",       "Hodoscope Start Time",                      "fStartTime"},
    {"goodstarttime",   "Hodoscope Good Start Time",                 "fGoodStartTime"},
    {"goodscinhit",     "Hit in fid area",                           "fGoodScinHits"},
    {"goodscinhitx",    "Hit in fid x range",                        "fGoodScinHitsX"},
    {"scinshould",      "Total scin Hits in fid area",               "fScinShould"},
    {"scindid",         "Total scin Hits in fid area with a track",  "fScinDid"},
    { 0 }
  };
  return DefineVarsFromList( vars, mode );
  //  return kOK;
}

//_____________________________________________________________________________
THcHodoscope::~THcHodoscope()
{
  // Destructor. Remove variables from global list.

  delete [] fFPTime;
  delete [] fPlaneCenter;
  delete [] fPlaneSpacing;

  if( fIsSetup )
    RemoveVariables();
  if( fIsInit )
    DeleteArrays();
  if (fTrackProj) {
    fTrackProj->Clear();
    delete fTrackProj; fTrackProj = 0;
  }
}

//_____________________________________________________________________________
void THcHodoscope::DeleteArrays()
{
  // Delete member arrays. Used by destructor.
  // Int_t k;  
  // for( k = 0; k < fNPlanes; k++){
  //   delete [] fScinHit[k];
  // }
  // delete [] fScinHit;
  
  delete [] fxLoScin;             fxLoScin = NULL;
  delete [] fxHiScin;             fxHiScin = NULL;

  delete [] fNPaddle;             fNPaddle = NULL;
  delete [] fHodoVelLight;        fHodoVelLight = NULL;
  delete [] fHodoPosSigma;        fHodoPosSigma = NULL;
  delete [] fHodoNegSigma;        fHodoNegSigma = NULL;
  delete [] fHodoPosMinPh;        fHodoPosMinPh = NULL;
  delete [] fHodoNegMinPh;        fHodoNegMinPh = NULL;
  delete [] fHodoPosPhcCoeff;     fHodoPosPhcCoeff = NULL;
  delete [] fHodoNegPhcCoeff;     fHodoNegPhcCoeff = NULL;
  delete [] fHodoPosTimeOffset;   fHodoPosTimeOffset = NULL;
  delete [] fHodoNegTimeOffset;   fHodoNegTimeOffset = NULL;
  delete [] fHodoPosPedLimit;     fHodoPosPedLimit = NULL;
  delete [] fHodoNegPedLimit;     fHodoNegPedLimit = NULL;
  delete [] fHodoPosInvAdcOffset; fHodoPosInvAdcOffset = NULL;
  delete [] fHodoNegInvAdcOffset; fHodoNegInvAdcOffset = NULL;
  delete [] fHodoPosInvAdcLinear; fHodoPosInvAdcLinear = NULL;
  delete [] fHodoNegInvAdcLinear; fHodoNegInvAdcLinear = NULL;
  delete [] fHodoPosInvAdcAdc;    fHodoPosInvAdcAdc = NULL;
  delete [] fGoodPlaneTime;       fGoodPlaneTime = NULL;
  delete [] fNPlaneTime;          fNPlaneTime = NULL;
  delete [] fSumPlaneTime;        fSumPlaneTime = NULL;
  delete [] fNScinHits;           fNScinHits = NULL;

}

//_____________________________________________________________________________
inline 
void THcHodoscope::ClearEvent()
{
  // Reset per-event data.

  //  for ( Int_t imaxhit = 0; imaxhit < MAXHODHITS; imaxhit++ ){
  //    fBeta[imaxhit] = 0.;
  //    fBetaChisq[imaxhit] = 0.;
  //  }

  for(Int_t ip=0;ip<fNPlanes;ip++) {
    fPlanes[ip]->Clear();
    fFPTime[ip]=0.;
    fPlaneCenter[ip]=0.;
    fPlaneSpacing[ip]=0.;
  }
  fdEdX.clear();
  fScinHitPaddle.clear();
  fNScinHit.clear();
  fNClust.clear();
  fThreeScin.clear();
  fGoodScinHitsX.clear();
}

//_____________________________________________________________________________
Int_t THcHodoscope::Decode( const THaEvData& evdata )
{
  ClearEvent();
  // Get the Hall C style hitlist (fRawHitList) for this event
  Int_t nhits = DecodeToHitList(evdata);
  //
  // GN: print event number so we can cross-check with engine
  // if (evdata.GetEvNum()>1000) 
  //   cout <<"\nhcana_event " << evdata.GetEvNum()<<endl;
  
  fCheckEvent = evdata.GetEvNum();
  fEventType =  evdata.GetEvType();

  if(gHaCuts->Result("Pedestal_event")) {
    Int_t nexthit = 0;
    for(Int_t ip=0;ip<fNPlanes;ip++) {
            
      nexthit = fPlanes[ip]->AccumulatePedestals(fRawHitList, nexthit);
    }
    fAnalyzePedestals = 1;	// Analyze pedestals first normal events
    return(0);
  }
  if(fAnalyzePedestals) {
    for(Int_t ip=0;ip<fNPlanes;ip++) {
      
      fPlanes[ip]->CalculatePedestals();
    }
    fAnalyzePedestals = 0;	// Don't analyze pedestals next event
  }

  // Let each plane get its hits
  Int_t nexthit = 0;

  fStartTime=0;
  fNfptimes=0;
  for(Int_t ip=0;ip<fNPlanes;ip++) {

    fPlaneCenter[ip] = fPlanes[ip]->GetPosCenter(0) + fPlanes[ip]->GetPosOffset();
    fPlaneSpacing[ip] = fPlanes[ip]->GetSpacing();
    
    //    nexthit = fPlanes[ip]->ProcessHits(fRawHitList, nexthit);
    // GN: select only events that have reasonable TDC values to start with
    // as per the Engine h_strip_scin.f
    nexthit = fPlanes[ip]->ProcessHits(fRawHitList,nexthit);
    if (fPlanes[ip]->GetNScinHits()>0) {
      fPlanes[ip]->PulseHeightCorrection();
      // GN: allow for more than one fptime per plane!!
      for (Int_t i=0;i<fPlanes[ip]->GetNScinGoodHits();i++) {
	if (TMath::Abs(fPlanes[ip]->GetFpTime(i)-fStartTimeCenter)<=fStartTimeSlop) {
	  fStartTime=fStartTime+fPlanes[ip]->GetFpTime(i);
	  // GN write stuff out so I can compare with engine
	  ///	  cout<<"hcana event= "<<evdata.GetEvNum()<<" fNfptimes= "<<fNfptimes<<" fptime= "<<fPlanes[ip]->GetFpTime(i)<<endl;
	  fNfptimes++;
	}
      }
    }
  }
  if (fNfptimes>0) {
    fStartTime=fStartTime/fNfptimes;
    fGoodStartTime=kTRUE;
  } else {
    fGoodStartTime=kFALSE;
    fStartTime=fStartTimeCenter;
  }
#if 0
  for(Int_t ihit = 0; ihit < fNRawHits ; ihit++) {
    THcRawHodoHit* hit = (THcRawHodoHit *) fRawHitList->At(ihit);
    cout << ihit << " : " << hit->fPlane << ":" << hit->fCounter << " : "
	 << hit->fADC_pos << " " << hit->fADC_neg << " "  <<  hit->fTDC_pos
	 << " " <<  hit->fTDC_neg << endl;
  }
  cout << endl;
#endif
  ///  fStartTime = 500;		// Drift Chamber will need this

  return nhits;
}

//_____________________________________________________________________________
Int_t THcHodoscope::ApplyCorrections( void )
{
  return(0);
}
//_____________________________________________________________________________
Double_t THcHodoscope::TimeWalkCorrection(const Int_t& paddle,
					     const ESide side)
{
  return(0.0);
}

//_____________________________________________________________________________
Int_t THcHodoscope::CoarseProcess( TClonesArray&  tracks  )
{

  ApplyCorrections();
 
  return 0;
}

//_____________________________________________________________________________
Int_t THcHodoscope::FineProcess( TClonesArray& tracks )
{

  Int_t fNtracks = tracks.GetLast()+1; // Number of reconstructed tracks
  Int_t fJMax, fMaxHit;
  Int_t fRawIndex = -1;
  Double_t fScinTrnsCoord, fScinLongCoord, fScinCenter, fSumfpTime, fSlope;
  Double_t fP, fXcoord, fYcoord, fTMin, fBestXpScin, fBestYpScin;
  // -------------------------------------------------

  Double_t hpartmass=0.00051099; // Fix it
  fGoodScinHits = 0;
  fScinShould = 0; fScinDid = 0;

  if (tracks.GetLast()+1 > 0 ) {

    // **MAIN LOOP: Loop over all tracks and get corrected time, tof, beta...
    Double_t* fNPmtHit = new Double_t [fNtracks];
    Double_t* fTimeAtFP = new Double_t [fNtracks];
    for ( Int_t itrack = 0; itrack < fNtracks; itrack++ ) { // Line 133
      fNPmtHit[itrack]=0;
      fTimeAtFP[itrack]=0;

      THaTrack* theTrack = dynamic_cast<THaTrack*>( tracks.At(itrack) );
      if (!theTrack) return -1;
      
      for (Int_t ip = 0; ip < fNPlanes; ip++ ){ 
	fGoodPlaneTime[ip] = kFALSE; 
	fNScinHits[ip] = 0;
	fNPlaneTime[ip] = 0;
	fSumPlaneTime[ip] = 0.;
      }
      std::vector<Double_t> dedx_temp;
      fdEdX.push_back(dedx_temp); // Create array of dedx per hit
      
      Int_t fNfpTime = 0;
      Double_t betaChiSq = -3;
      Double_t beta = 0;
      //      fTimeAtFP[itrack] = 0.;
      fSumfpTime = 0.; // Line 138
      fNScinHit.push_back(0);
      fP = theTrack->GetP(); // Line 142 
      Double_t betaP = fP/( TMath::Sqrt( fP * fP + hpartmass * hpartmass) );
      
      //! Calculate all corrected hit times and histogram
      //! This uses a copy of code below. Results are save in time_pos,neg
      //! including the z-pos. correction assuming nominal value of betap
      //! Code is currently hard-wired to look for a peak in the
      //! range of 0 to 100 nsec, with a group of times that all
      //! agree withing a time_tolerance of time_tolerance nsec. The normal
      //! peak position appears to be around 35 nsec.
      //! NOTE: if want to find farticles with beta different than
      //! reference particle, need to make sure this is big enough
      //! to accomodate difference in TOF for other particles
      //! Default value in case user hasnt definedd something reasonable
      // Line 162 to 171 is already done above in ReadDatabase
      
      for (Int_t j=0; j<200; j++) { fTimeHist[j]=0; } // Line 176
      
      // Loop over scintillator planes.
      // In ENGINE, its loop over good scintillator hits.
      
      fTOFCalc.clear();
      Int_t ihhit = 0;		// Hit # overall
      for(Int_t ip = 0; ip < fNPlanes; ip++ ) {
	
	fNScinHits[ip] = fPlanes[ip]->GetNScinHits();

	// first loop over hits with in a single plane
	fTOFPInfo.clear();
	for (Int_t iphit = 0; iphit < fNScinHits[ip]; iphit++ ){
	  // iphit is hit # within a plane
	  	  
	  fTOFPInfo.push_back(TOFPInfo());
	  // Can remove these as we will initialize in the constructor
	  fTOFPInfo[iphit].time_pos = -99.0;
	  fTOFPInfo[iphit].time_neg = -99.0;
	  fTOFPInfo[iphit].keep_pos = kFALSE;
	  fTOFPInfo[iphit].keep_neg = kFALSE;
	  fTOFPInfo[iphit].scin_pos_time = 0.0;
	  fTOFPInfo[iphit].scin_neg_time = 0.0;
	  
	  scinPosADC = fPlanes[ip]->GetPosADC();
	  scinNegADC = fPlanes[ip]->GetNegADC();
	  scinPosTDC = fPlanes[ip]->GetPosTDC();
	  scinNegTDC = fPlanes[ip]->GetNegTDC();  
	  	  
	  Int_t paddle = ((THcSignalHit*)scinPosTDC->At(iphit))->GetPaddleNumber()-1;
	  
	  fXcoord = theTrack->GetX() + theTrack->GetTheta() *
	    ( fPlanes[ip]->GetZpos() +
	      ( paddle % 2 ) * fPlanes[ip]->GetDzpos() ); // Line 183
	  
	  fYcoord = theTrack->GetY() + theTrack->GetPhi() *
	    ( fPlanes[ip]->GetZpos() +
	      ( paddle % 2 ) * fPlanes[ip]->GetDzpos() ); // Line 184
	  	  
	  if ( ( ip == 0 ) || ( ip == 2 ) ){ // !x plane. Line 185
	    fScinTrnsCoord = fXcoord;
	    fScinLongCoord = fYcoord;
	  }
	  
	  else if ( ( ip == 1 ) || ( ip == 3 ) ){ // !y plane. Line 188
	    fScinTrnsCoord = fYcoord;
	    fScinLongCoord = fXcoord;
	  }
	  else { return -1; } // Line 195
	  
	  fScinCenter = fPlanes[ip]->GetPosCenter(paddle) + fPlanes[ip]->GetPosOffset();

	  // Index to access the 2d arrays of paddle/scintillator properties
	  Int_t fPIndex = fNPlanes * paddle + ip;
	  

	  if ( TMath::Abs( fScinCenter - fScinTrnsCoord ) <
	       ( fPlanes[ip]->GetSize() * 0.5 + fPlanes[ip]->GetHodoSlop() ) ){ // Line 293
	    
	    if ( ( ((THcSignalHit*)scinPosTDC->At(iphit))->GetData() > fScinTdcMin ) &&
		 ( ((THcSignalHit*)scinPosTDC->At(iphit))->GetData() < fScinTdcMax ) ) { // Line 199
	      
	      Double_t fADCph = ((THcSignalHit*)scinPosADC->At(iphit))->GetData();
	      fTOFPInfo[iphit].adcPh = fADCph;
	      Double_t fPath = fPlanes[ip]->GetPosLeft() - fScinLongCoord;
	      fTOFPInfo[iphit].path = fPath;
	      Double_t fTime = ((THcSignalHit*)scinPosTDC->At(iphit))->GetData() * fScinTdcToTime;
	      fTime = fTime - fHodoPosPhcCoeff[fPIndex] *
		TMath::Sqrt( TMath::Max( 0., ( ( fADCph / fHodoPosMinPh[fPIndex] ) - 1 ) ) );
	      fTime = fTime - ( fPath / fHodoVelLight[fPIndex] ) - ( fPlanes[ip]->GetZpos() +  
			    ( paddle % 2 ) * fPlanes[ip]->GetDzpos() ) / ( 29.979 * betaP ) *
		            TMath::Sqrt( 1. + theTrack->GetTheta() * theTrack->GetTheta() +
			    theTrack->GetPhi() * theTrack->GetPhi() );
	      fTOFPInfo[iphit].time = fTime;
	      fTOFPInfo[iphit].time_pos = fTime - fHodoPosTimeOffset[fPIndex];
	      
	      for ( Int_t k = 0; k < 200; k++ ){ // Line 211
		fTMin = 0.5 * ( k + 1 ) ;
		if ( ( fTOFPInfo[iphit].time_pos > fTMin ) && ( fTOFPInfo[iphit].time_pos < ( fTMin + fTofTolerance ) ) )
		  fTimeHist[k] ++;
	      }
	    } // TDC pos hit condition
	    
	    
	    if ( ( ((THcSignalHit*)scinNegTDC->At(iphit))->GetData() > fScinTdcMin ) &&
		 ( ((THcSignalHit*)scinNegTDC->At(iphit))->GetData() < fScinTdcMax ) ) { // Line 218
	      
	      Double_t fADCph = ((THcSignalHit*)scinNegADC->At(iphit))->GetData();
	      fTOFPInfo[iphit].adcPh = fADCph;
	      Double_t fPath =  fScinLongCoord - fPlanes[ip]->GetPosRight();
	      fTOFPInfo[iphit].path = fPath;
	      Double_t fTime = ((THcSignalHit*)scinNegTDC->At(iphit))->GetData() * fScinTdcToTime;
	      fTime =fTime - fHodoNegPhcCoeff[fPIndex] * 
		TMath::Sqrt( TMath::Max( 0., ( ( fADCph / fHodoNegMinPh[fPIndex] ) - 1 ) ) );
	      fTime = fTime - ( fPath / fHodoVelLight[fPIndex] ) - ( fPlanes[ip]->GetZpos() +
			      ( paddle % 2 ) * fPlanes[ip]->GetDzpos() ) / ( 29.979 * betaP ) *
		TMath::Sqrt( 1. + theTrack->GetTheta() * theTrack->GetTheta() +
			     theTrack->GetPhi() * theTrack->GetPhi() );
	      fTOFPInfo[iphit].time = fTime;
	      fTOFPInfo[iphit].time_neg = fTime - fHodoNegTimeOffset[fPIndex];
	      
	      for ( Int_t k = 0; k < 200; k++ ){ // Line 230
		fTMin = 0.5 * ( k + 1 );
		if ( ( fTOFPInfo[iphit].time_neg > fTMin ) && ( fTOFPInfo[iphit].time_neg < ( fTMin + fTofTolerance ) ) )
		  fTimeHist[k] ++;
	      }
	    } // TDC neg hit condition
	  } // condition for cenetr on a paddle
	} // First loop over hits in a plane <---------

	//-----------------------------------------------------------------------------------------------
	//------------- First large loop over scintillator hits in a plane ends here --------------------
	//-----------------------------------------------------------------------------------------------
	
	fJMax = 0; // Line 240
	fMaxHit = 0;
	
	for ( Int_t k = 0; k < 200; k++ ){
	  if ( fTimeHist[k] > fMaxHit ){
	    fJMax = k+1;
	    fMaxHit = fTimeHist[k];
	  }
	}
	
	if ( fJMax > 0 ){ // Line 248. Here I followed the code of THcSCintilaltorPlane::PulseHeightCorrection
	  fTMin = 0.5 * fJMax;
	  for(Int_t iphit = 0; iphit < fNScinHits[ip]; iphit++) { // Loop over sinc. hits. in plane
	    if ( ( fTOFPInfo[iphit].time_pos > fTMin ) && ( fTOFPInfo[iphit].time_pos < ( fTMin + fTofTolerance ) ) ) {
	      fTOFPInfo[iphit].keep_pos=kTRUE;
	    }	
	    if ( ( fTOFPInfo[iphit].time_neg > fTMin ) && ( fTOFPInfo[iphit].time_neg < ( fTMin + fTofTolerance ) ) ){
	      fTOFPInfo[iphit].keep_neg=kTRUE;
	    }	
	  }
	} // fJMax > 0 condition
	
	//---------------------------------------------------------------------------------------------	
	// ---------------------- Scond loop over scint. hits in a plane ------------------------------
	//---------------------------------------------------------------------------------------------

	for (Int_t iphit = 0; iphit < fNScinHits[ip]; iphit++ ){
	  
	  fTOFCalc.push_back(TOFCalc());
	  // Do we set back to false for each track, or just once per event?
	  fTOFCalc[ihhit].good_scin_time = kFALSE;
	  // These need a track index too to calculate efficiencies
	  fTOFCalc[ihhit].good_tdc_pos = kFALSE;
	  fTOFCalc[ihhit].good_tdc_neg = kFALSE;

	  //	  ihhit ++;
	  //	  fRawIndex ++;   // Is fRawIndex ever different from ihhit
	  fRawIndex = ihhit;

	  Int_t paddle = ((THcSignalHit*)scinPosTDC->At(iphit))->GetPaddleNumber()-1;
	  fTOFCalc[ihhit].hit_paddle = paddle;
	  fTOFCalc[fRawIndex].good_raw_pad = paddle;
	  
	  fXcoord = theTrack->GetX() + theTrack->GetTheta() *
	    ( fPlanes[ip]->GetZpos() + ( paddle % 2 ) * fPlanes[ip]->GetDzpos() ); // Line 277
	  fYcoord = theTrack->GetY() + theTrack->GetPhi() *
	    ( fPlanes[ip]->GetZpos() + ( paddle % 2 ) * fPlanes[ip]->GetDzpos() ); // Line 278
	  
	  
	  if ( ( ip == 0 ) || ( ip == 2 ) ){ // !x plane. Line 278
	    fScinTrnsCoord = fXcoord;
	    fScinLongCoord = fYcoord;
	  }
	  else if ( ( ip == 1 ) || ( ip == 3 ) ){ // !y plane. Line 281
	    fScinTrnsCoord = fYcoord;
	    fScinLongCoord = fXcoord;
	  }
	  else { return -1; } // Line 288
	  
	  fScinCenter = fPlanes[ip]->GetPosCenter(paddle) + fPlanes[ip]->GetPosOffset();
	  Int_t fPIndex = fNPlanes * paddle + ip;
	  
	  // ** Check if scin is on track
	  if ( TMath::Abs( fScinCenter - fScinTrnsCoord ) >
	       ( fPlanes[ip]->GetSize() * 0.5 + fPlanes[ip]->GetHodoSlop() ) ){ // Line 293
	  }
	  else{	    
	    // * * Check for good TDC
	    if ( ( ((THcSignalHit*)scinPosTDC->At(iphit))->GetData() > fScinTdcMin ) &&
		 ( ((THcSignalHit*)scinPosTDC->At(iphit))->GetData() < fScinTdcMax ) &&
		 ( fTOFPInfo[iphit].keep_pos ) ) { // 301
	      
	      // ** Calculate time for each tube with a good tdc. 'pos' side first.
	      fTOFCalc[ihhit].good_tdc_pos = kTRUE;
	      Double_t fADCph = ((THcSignalHit*)scinPosADC->At(iphit))->GetData();
	      fTOFPInfo[iphit].adcPh = fADCph;
	      Double_t fPath = fPlanes[ip]->GetPosLeft() - fScinLongCoord;
	      fTOFPInfo[iphit].path = fPath;
	      
	      // * Convert TDC value to time, do pulse height correction, correction for
	      // * propogation of light thru scintillator, and offset.