[u/mrichter/AliRoot.git] / HMPID / AliHMPIDReconstructor.cxx

/**************************************************************************
 * Copyright(c) 1998-1999, ALICE Experiment at CERN, All rights reserved. *
 *                                                                        *
 * Author: The ALICE Off-line Project.                                    *
 * Contributors are mentioned in the code where appropriate.              *
 *                                                                        *
 * Permission to use, copy, modify and distribute this software and its   *
 * documentation strictly for non-commercial purposes is hereby granted   *
 * without fee, provided that the above copyright notice appears in all   *
 * copies and that both the copyright notice and this permission notice   *
 * appear in the supporting documentation. The authors make no claims     *
 * about the suitability of this software for any purpose. It is          *
 * provided "as is" without express or implied warranty.                  *
 **************************************************************************/
//.
// HMPID base class to reconstruct an event
//.
//.
//.
#include "AliHMPIDReconstructor.h" //class header
#include "AliHMPID.h"              //Reconstruct() 
#include "AliHMPIDCluster.h"       //Dig2Clu()
#include "AliHMPIDParam.h"         //FillEsd() 
#include <AliESD.h>               //FillEsd()
#include <AliRawReader.h>         //Reconstruct() for raw digits
ClassImp(AliHMPIDReconstructor)

//++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++
AliHMPIDReconstructor::AliHMPIDReconstructor():AliReconstructor()
{
//
//ctor
//
  fClu=new TObjArray(AliHMPIDDigit::kMaxCh+1);
  fDig=new TObjArray(AliHMPIDDigit::kMaxCh+1);
  fClu->SetOwner(kTRUE);
  for(int i=AliHMPIDDigit::kMinCh;i<=AliHMPIDDigit::kMaxCh;i++){ 
    fDig->AddAt(new TClonesArray("AliHMPIDDigit"),i);
    fClu->AddAt(new TClonesArray("AliHMPIDCluster"),i);
  }
  fDig->SetOwner(kTRUE);
}//AliHMPIDReconstructor
//++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++
void AliHMPIDReconstructor::Dig2Clu(TObjArray *pDigAll,TObjArray *pCluAll,Bool_t isTryUnfold)
{
// Finds all clusters for a given digits list provided not empty. Currently digits list is a list of all digits for a single chamber.
// Puts all found clusters in separate lists, one per clusters. 
// Arguments: pDigAll     - list of digits for all chambers 
//            pCluAll     - list of clusters for all chambers
//            isTryUnfold - flag to choose between CoG and Mathieson fitting  
//  Returns: none    
  TMatrixF padMap(AliHMPIDDigit::kMinPx,AliHMPIDDigit::kMaxPcx,AliHMPIDDigit::kMinPy,AliHMPIDDigit::kMaxPcy);  //pads map for single chamber 0..159 x 0..143 
  
  for(Int_t iCh=AliHMPIDDigit::kMinCh;iCh<=AliHMPIDDigit::kMaxCh;iCh++){                  //chambers loop 
    TClonesArray *pDigCur=(TClonesArray*)pDigAll->At(iCh);                                //get list of digits for current chamber
    if(pDigCur->GetEntriesFast()==0) continue;                                            //no digits for current chamber
  
    padMap=(Float_t)-1;                                                                   //reset map to -1 (means no digit for this pad)  
    TClonesArray *pCluCur=(TClonesArray*)pCluAll->At(iCh);                                //get list of clusters for current chamber
    
    for(Int_t iDig=0;iDig<pDigCur->GetEntriesFast();iDig++){                              //digits loop to fill pads map
      AliHMPIDDigit *pDig= (AliHMPIDDigit*)pDigCur->At(iDig);                             //get current digit
      padMap( pDig->PadChX(), pDig->PadChY() )=iDig;                                      //fill the map, (padx,pady) cell takes digit index
    }//digits loop to fill digits map 
    
    AliHMPIDCluster clu;                                                                  //tmp cluster to be used as current
  
    for(Int_t iDig=0;iDig<pDigCur->GetEntriesFast();iDig++){                              //digits loop for current chamber
      AliHMPIDDigit *pDig=(AliHMPIDDigit*)pDigCur->At(iDig);                              //take current digit
      if(!(pDig=UseDig(pDig->PadChX(),pDig->PadChY(),pDigCur,&padMap))) continue;         //this digit is already taken in FormClu(), go after next digit
      FormClu(&clu,pDig,pDigCur,&padMap);                                                 //form cluster starting from this digit by recursion
      
      clu.Solve(pCluCur,isTryUnfold);                                                     //solve this cluster and add all unfolded clusters to provided list  
      clu.Reset();                                                                        //empty current cluster
    }//digits loop for current chamber
  }//chambers loop
}//Dig2Clu()
//++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++
void  AliHMPIDReconstructor::FormClu(AliHMPIDCluster *pClu,AliHMPIDDigit *pDig,TClonesArray *pDigLst,TMatrixF *pDigMap)
{
// Forms the initial cluster as a combination of all adjascent digits. Starts from the given digit then calls itself recursevly  for all neighbours.
// Arguments: pClu - pointer to cluster being formed
//   Returns: none   
  pClu->DigAdd(pDig);//take this digit in cluster

  Int_t cnt=0,cx[4],cy[4];
  
  if(pDig->PadPcX() != AliHMPIDDigit::kMinPx){cx[cnt]=pDig->PadChX()-1; cy[cnt]=pDig->PadChY()  ;cnt++;}       //left
  if(pDig->PadPcX() != AliHMPIDDigit::kMaxPx){cx[cnt]=pDig->PadChX()+1; cy[cnt]=pDig->PadChY()  ;cnt++;}       //right
  if(pDig->PadPcY() != AliHMPIDDigit::kMinPy){cx[cnt]=pDig->PadChX()  ; cy[cnt]=pDig->PadChY()-1;cnt++;}       //down
  if(pDig->PadPcY() != AliHMPIDDigit::kMaxPy){cx[cnt]=pDig->PadChX()  ; cy[cnt]=pDig->PadChY()+1;cnt++;}       //up
  
  for (Int_t i=0;i<cnt;i++){//neighbours loop
    if((pDig=UseDig(cx[i],cy[i],pDigLst,pDigMap))) FormClu(pClu,pDig,pDigLst,pDigMap);   //check if this neighbour pad fired and mark it as taken  
  }//neighbours loop  
}//FormClu()
//++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++
void AliHMPIDReconstructor::Reconstruct(TTree *pDigTree,TTree *pCluTree)const
{
//Invoked  by AliReconstruction to convert digits to clusters i.e. reconstruct simulated data
//Arguments: pDigTree - pointer to Digit tree
//           pCluTree - poitner to Cluster tree
//  Returns: none    
  AliDebug(1,"Start.");
  for(Int_t iCh=AliHMPIDDigit::kMinCh;iCh<=AliHMPIDDigit::kMaxCh;iCh++) {
    pCluTree->Branch(Form("HMPID%d",iCh),&((*fClu)[iCh]),4000,0);
    pDigTree->SetBranchAddress(Form("HMPID%d",iCh),&((*fDig)[iCh]));
  }   
  pDigTree->GetEntry(0);
  Dig2Clu(fDig,fClu);              //cluster finder 
  pCluTree->Fill();                //fill tree for current event
  
  for(Int_t iCh=AliHMPIDDigit::kMinCh;iCh<=AliHMPIDDigit::kMaxCh;iCh++){
    fDig->At(iCh)->Clear();
    fClu->At(iCh)->Clear();
  }
  
  AliDebug(1,"Stop.");      
}//Reconstruct(for simulated digits)
//++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++
void AliHMPIDReconstructor::Reconstruct(AliRunLoader *pAL,AliRawReader* pRR)const
{
//Invoked  by AliReconstruction to convert raw digits from DDL files to clusters
//Arguments: pAL - ALICE run loader pointer
//           pRR - ALICE raw reader pointer
//  Returns: none
  AliLoader *pRL=pAL->GetDetectorLoader("HMPID");  AliHMPID *pRich=(AliHMPID*)pAL->GetAliRun()->GetDetector("HMPID");//get pointers for HMPID and HMPID loader

  AliHMPIDDigit dig; //tmp digit, raw digit will be converted to it

  TObjArray digLst; Int_t iDigCnt[7]; for(Int_t i=0;i<7;i++){digLst.AddAt(new TClonesArray("AliHMPIDDigit"),i); iDigCnt[i]=0;} //tmp list of digits for allchambers

  Int_t iEvtN=0;
  while(pRR->NextEvent()){//events loop
    pAL->GetEvent(iEvtN++);
    pRL->MakeTree("R");  pRich->MakeBranch("R");

    for(Int_t iCh=0;iCh<7;iCh++){//chambers loop
      pRR->Select("HMPID",2*iCh,2*iCh+1);//select only DDL files for the current chamber
      UInt_t w32=0;
      while(pRR->ReadNextInt(w32)){//raw records loop (in selected DDL files)
        UInt_t ddl=pRR->GetDDLID(); //returns 0,1,2 ... 13
        dig.Raw(w32,ddl);
        AliDebug(1,Form("Ch=%i DDL=%i raw=0x%x digit=(%3i,%3i,%3i,%3i) Q=%5.2f",iCh,ddl,w32,dig.Ch(),dig.Pc(),dig.PadPcX(),dig.PadPcY(),dig.Q()));
        new((*((TClonesArray*)digLst.At(iCh)))[iDigCnt[iCh]++]) AliHMPIDDigit(dig); //add this digit to the tmp list
      }//raw records loop
      pRR->Reset();
    }//chambers loop

    Dig2Clu(&digLst,pRich->CluLst());//cluster finder for all chambers
    for(Int_t i=0;i<7;i++){digLst.At(i)->Delete(); iDigCnt[i]=0;}                    //clean up list of digits for all chambers

    pRL->TreeR()->Fill();            //fill tree for current event
    pRL->WriteRecPoints("OVERWRITE");//write out clusters for current event
    pRich->CluReset();
  }//events loop
  pRL->UnloadRecPoints();
}//Reconstruct raw data
//++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++
void AliHMPIDReconstructor::ConvertDigits(AliRawReader *pRR,TTree *pDigTree)const
{
//Invoked  by AliReconstruction to convert raw digits from DDL files to digits
//Arguments: pRR - ALICE raw reader pointer
//           pDigTree - pointer to Digit tree
//  Returns: none    
  AliDebug(1,"Start.");
  AliHMPIDDigit dig; //tmp digit, raw digit will be converted to it
  for(Int_t iCh=AliHMPIDDigit::kMinCh;iCh<=AliHMPIDDigit::kMaxCh;iCh++) {
    pDigTree->Branch(Form("HMPID%d",iCh),&((*fDig)[iCh]),4000,0);
    pRR->Select("HMPID",2*iCh,2*iCh+1);//select only DDL files for the current chamber      
    Int_t iDigCnt=0;
    UInt_t w32=0;
                while(pRR->ReadNextInt(w32)){//raw records loop (in selected DDL files)
      UInt_t ddl=pRR->GetDDLID(); //returns 0,1,2 ... 13
      dig.Raw(w32,ddl);  
      AliDebug(1,Form("Ch=%i DDL=%i raw=0x%x digit=(%3i,%3i,%3i,%3i) Q=%5.2f",iCh,ddl,w32,dig.Ch(),dig.Pc(),dig.PadPcX(),dig.PadPcY(),dig.Q()));
      new((*((TClonesArray*)fDig->At(iCh)))[iDigCnt++]) AliHMPIDDigit(dig); //add this digit to the tmp list
    }//raw records loop
    pRR->Reset();        
  }//chambers loop
  pDigTree->Fill();
  for(Int_t iCh=AliHMPIDDigit::kMinCh;iCh<=AliHMPIDDigit::kMaxCh;iCh++)fDig->At(iCh)->Clear();
  AliDebug(1,"Stop.");
}//Reconstruct digits from raw digits
//++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++
void AliHMPIDReconstructor::FillESD(AliRunLoader *, AliESD *pESD) const
{
// Calculates probability to be a electron-muon-pion-kaon-proton
// from the given Cerenkov angle and momentum assuming no initial particle composition
// (i.e. apriory probability to be the particle of the given sort is the same for all sorts)

  AliPID ppp; //needed
  Double_t pid[AliPID::kSPECIES],h[AliPID::kSPECIES];
   
  for(Int_t iTrk=0;iTrk<pESD->GetNumberOfTracks();iTrk++){//ESD tracks loop
    AliESDtrack *pTrk = pESD->GetTrack(iTrk);// get next reconstructed track
    if(pTrk->GetHMPIDsignal()<=0){//HMPID does not find anything reasonable for this track, assign 0.2 for all species
      for(Int_t iPart=0;iPart<AliPID::kSPECIES;iPart++) pid[iPart]=1.0/AliPID::kSPECIES;
      pTrk->SetHMPIDpid(pid);
      continue;
    } 
    Double_t pmod = pTrk->GetP();
    Double_t hTot=0;
    for(Int_t iPart=0;iPart<AliPID::kSPECIES;iPart++){
      Double_t mass = AliPID::ParticleMass(iPart);
      Double_t cosThetaTh = TMath::Sqrt(mass*mass+pmod*pmod)/(AliHMPIDParam::Instance()->MeanIdxRad()*pmod);
      if(cosThetaTh<1) //calculate the height of theoretical theta ckov on the gaus of experimental one
        h[iPart] =TMath::Gaus(TMath::ACos(cosThetaTh),pTrk->GetHMPIDsignal(),TMath::Sqrt(pTrk->GetHMPIDchi2()),kTRUE);      
      else             //beta < 1/ref. idx. => no light at all  
        h[iPart] =0 ;       
      hTot    +=h[iPart]; //total height of all theoretical heights for normalization
    }//species loop
     
    Double_t hMin=TMath::Gaus(pTrk->GetHMPIDsignal()-4*TMath::Sqrt(pTrk->GetHMPIDchi2()),pTrk->GetHMPIDsignal(),TMath::Sqrt(pTrk->GetHMPIDchi2()),kTRUE);//5 sigma protection
    
    for(Int_t iPart=0;iPart<AliPID::kSPECIES;iPart++)//species loop to assign probabilities
      if(hTot>hMin)  
        pid[iPart]=h[iPart]/hTot;
      else                               //all theoretical values are far away from experemental one
        pid[iPart]=1.0/AliPID::kSPECIES; 
    pTrk->SetHMPIDpid(pid);
  }//ESD tracks loop
}//FillESD()
//++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++
Commit	Line	Data
d3da6dc4	1	/**************************************************************************
	2	* Copyright(c) 1998-1999, ALICE Experiment at CERN, All rights reserved. *
	3	* *
	4	* Author: The ALICE Off-line Project. *
	5	* Contributors are mentioned in the code where appropriate. *
	6	* *
	7	* Permission to use, copy, modify and distribute this software and its *
	8	* documentation strictly for non-commercial purposes is hereby granted *
	9	* without fee, provided that the above copyright notice appears in all *
	10	* copies and that both the copyright notice and this permission notice *
	11	* appear in the supporting documentation. The authors make no claims *
	12	* about the suitability of this software for any purpose. It is *
	13	* provided "as is" without express or implied warranty. *
	14	**************************************************************************/
423554a3	15	//.
	16	// HMPID base class to reconstruct an event
	17	//.
	18	//.
	19	//.
d3da6dc4	20	#include "AliHMPIDReconstructor.h" //class header
d3da6dc4	21	#include "AliHMPID.h" //Reconstruct()
a1d55ff3	22	#include "AliHMPIDCluster.h" //Dig2Clu()
d3da6dc4	23	#include "AliHMPIDParam.h" //FillEsd()
d3da6dc4	24	#include <AliESD.h> //FillEsd()
d3da6dc4	25	#include <AliRawReader.h> //Reconstruct() for raw digits
d3da6dc4	26	ClassImp(AliHMPIDReconstructor)
d3da6dc4	27
94b1fbfa	28	//++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++
	29	AliHMPIDReconstructor::AliHMPIDReconstructor():AliReconstructor()
	30	{
	31	//
	32	//ctor
	33	//
	34	fClu=new TObjArray(AliHMPIDDigit::kMaxCh+1);
	35	fDig=new TObjArray(AliHMPIDDigit::kMaxCh+1);
	36	fClu->SetOwner(kTRUE);
	37	for(int i=AliHMPIDDigit::kMinCh;i<=AliHMPIDDigit::kMaxCh;i++){
	38	fDig->AddAt(new TClonesArray("AliHMPIDDigit"),i);
	39	fClu->AddAt(new TClonesArray("AliHMPIDCluster"),i);
	40	}
	41	fDig->SetOwner(kTRUE);
	42	}//AliHMPIDReconstructor
d3da6dc4	43	//++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++
3c6274c1	44	void AliHMPIDReconstructor::Dig2Clu(TObjArray pDigAll,TObjArray pCluAll,Bool_t isTryUnfold)
d3da6dc4	45	{
	46	// Finds all clusters for a given digits list provided not empty. Currently digits list is a list of all digits for a single chamber.
	47	// Puts all found clusters in separate lists, one per clusters.
3c6274c1	48	// Arguments: pDigAll - list of digits for all chambers
3c6274c1	49	// pCluAll - list of clusters for all chambers
d3da6dc4	50	// isTryUnfold - flag to choose between CoG and Mathieson fitting
d3da6dc4	51	// Returns: none
a1d55ff3	52	TMatrixF padMap(AliHMPIDDigit::kMinPx,AliHMPIDDigit::kMaxPcx,AliHMPIDDigit::kMinPy,AliHMPIDDigit::kMaxPcy); //pads map for single chamber 0..159 x 0..143
3c6274c1	53
a1d55ff3	54	for(Int_t iCh=AliHMPIDDigit::kMinCh;iCh<=AliHMPIDDigit::kMaxCh;iCh++){ //chambers loop
3c6274c1	55	TClonesArray pDigCur=(TClonesArray)pDigAll->At(iCh); //get list of digits for current chamber
3c6274c1	56	if(pDigCur->GetEntriesFast()==0) continue; //no digits for current chamber
d3da6dc4	57
3c6274c1	58	padMap=(Float_t)-1; //reset map to -1 (means no digit for this pad)
	59	TClonesArray pCluCur=(TClonesArray)pCluAll->At(iCh); //get list of clusters for current chamber
	60
	61	for(Int_t iDig=0;iDig<pDigCur->GetEntriesFast();iDig++){ //digits loop to fill pads map
	62	AliHMPIDDigit pDig= (AliHMPIDDigit)pDigCur->At(iDig); //get current digit
	63	padMap( pDig->PadChX(), pDig->PadChY() )=iDig; //fill the map, (padx,pady) cell takes digit index
	64	}//digits loop to fill digits map
	65
	66	AliHMPIDCluster clu; //tmp cluster to be used as current
d3da6dc4	67
3c6274c1	68	for(Int_t iDig=0;iDig<pDigCur->GetEntriesFast();iDig++){ //digits loop for current chamber
	69	AliHMPIDDigit pDig=(AliHMPIDDigit)pDigCur->At(iDig); //take current digit
	70	if(!(pDig=UseDig(pDig->PadChX(),pDig->PadChY(),pDigCur,&padMap))) continue; //this digit is already taken in FormClu(), go after next digit
	71	FormClu(&clu,pDig,pDigCur,&padMap); //form cluster starting from this digit by recursion
	72
	73	clu.Solve(pCluCur,isTryUnfold); //solve this cluster and add all unfolded clusters to provided list
	74	clu.Reset(); //empty current cluster
	75	}//digits loop for current chamber
	76	}//chambers loop
d3da6dc4	77	}//Dig2Clu()
	78	//++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++
	79	void AliHMPIDReconstructor::FormClu(AliHMPIDCluster pClu,AliHMPIDDigit pDig,TClonesArray pDigLst,TMatrixF pDigMap)
	80	{
a1d55ff3	81	// Forms the initial cluster as a combination of all adjascent digits. Starts from the given digit then calls itself recursevly for all neighbours.
d3da6dc4	82	// Arguments: pClu - pointer to cluster being formed
a1d55ff3	83	// Returns: none
d3da6dc4	84	pClu->DigAdd(pDig);//take this digit in cluster
d3da6dc4	85
3c6274c1	86	Int_t cnt=0,cx[4],cy[4];
d3da6dc4	87
a1d55ff3	88	if(pDig->PadPcX() != AliHMPIDDigit::kMinPx){cx[cnt]=pDig->PadChX()-1; cy[cnt]=pDig->PadChY() ;cnt++;} //left
	89	if(pDig->PadPcX() != AliHMPIDDigit::kMaxPx){cx[cnt]=pDig->PadChX()+1; cy[cnt]=pDig->PadChY() ;cnt++;} //right
	90	if(pDig->PadPcY() != AliHMPIDDigit::kMinPy){cx[cnt]=pDig->PadChX() ; cy[cnt]=pDig->PadChY()-1;cnt++;} //down
	91	if(pDig->PadPcY() != AliHMPIDDigit::kMaxPy){cx[cnt]=pDig->PadChX() ; cy[cnt]=pDig->PadChY()+1;cnt++;} //up
d3da6dc4	92
a1d55ff3	93	for (Int_t i=0;i<cnt;i++){//neighbours loop
3c6274c1	94	if((pDig=UseDig(cx[i],cy[i],pDigLst,pDigMap))) FormClu(pClu,pDig,pDigLst,pDigMap); //check if this neighbour pad fired and mark it as taken
a1d55ff3	95	}//neighbours loop
d3da6dc4	96	}//FormClu()
d3da6dc4	97	//++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++
94b1fbfa	98	void AliHMPIDReconstructor::Reconstruct(TTree pDigTree,TTree pCluTree)const
d3da6dc4	99	{
d3da6dc4	100	//Invoked by AliReconstruction to convert digits to clusters i.e. reconstruct simulated data
94b1fbfa	101	//Arguments: pDigTree - pointer to Digit tree
94b1fbfa	102	// pCluTree - poitner to Cluster tree
d3da6dc4	103	// Returns: none
d3da6dc4	104	AliDebug(1,"Start.");
94b1fbfa	105	for(Int_t iCh=AliHMPIDDigit::kMinCh;iCh<=AliHMPIDDigit::kMaxCh;iCh++) {
	106	pCluTree->Branch(Form("HMPID%d",iCh),&((*fClu)[iCh]),4000,0);
	107	pDigTree->SetBranchAddress(Form("HMPID%d",iCh),&((*fDig)[iCh]));
	108	}
	109	pDigTree->GetEntry(0);
	110	Dig2Clu(fDig,fClu); //cluster finder
	111	pCluTree->Fill(); //fill tree for current event
	112
	113	for(Int_t iCh=AliHMPIDDigit::kMinCh;iCh<=AliHMPIDDigit::kMaxCh;iCh++){
	114	fDig->At(iCh)->Clear();
	115	fClu->At(iCh)->Clear();
	116	}
d3da6dc4	117
d3da6dc4	118	AliDebug(1,"Stop.");
d3da6dc4	119	}//Reconstruct(for simulated digits)
a1d55ff3	120	//++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++
d3da6dc4	121	void AliHMPIDReconstructor::Reconstruct(AliRunLoader pAL,AliRawReader pRR)const
	122	{
	123	//Invoked by AliReconstruction to convert raw digits from DDL files to clusters
	124	//Arguments: pAL - ALICE run loader pointer
94b1fbfa	125	// pRR - ALICE raw reader pointer
94b1fbfa	126	// Returns: none
d3da6dc4	127	AliLoader pRL=pAL->GetDetectorLoader("HMPID"); AliHMPID pRich=(AliHMPID*)pAL->GetAliRun()->GetDetector("HMPID");//get pointers for HMPID and HMPID loader
94b1fbfa	128
d3da6dc4	129	AliHMPIDDigit dig; //tmp digit, raw digit will be converted to it
94b1fbfa	130
	131	TObjArray digLst; Int_t iDigCnt[7]; for(Int_t i=0;i<7;i++){digLst.AddAt(new TClonesArray("AliHMPIDDigit"),i); iDigCnt[i]=0;} //tmp list of digits for allchambers
	132
d3da6dc4	133	Int_t iEvtN=0;
	134	while(pRR->NextEvent()){//events loop
	135	pAL->GetEvent(iEvtN++);
	136	pRL->MakeTree("R"); pRich->MakeBranch("R");
94b1fbfa	137
d3da6dc4	138	for(Int_t iCh=0;iCh<7;iCh++){//chambers loop
94b1fbfa	139	pRR->Select("HMPID",2iCh,2iCh+1);//select only DDL files for the current chamber
d3da6dc4	140	UInt_t w32=0;
	141	while(pRR->ReadNextInt(w32)){//raw records loop (in selected DDL files)
	142	UInt_t ddl=pRR->GetDDLID(); //returns 0,1,2 ... 13
94b1fbfa	143	dig.Raw(w32,ddl);
da08475b	144	AliDebug(1,Form("Ch=%i DDL=%i raw=0x%x digit=(%3i,%3i,%3i,%3i) Q=%5.2f",iCh,ddl,w32,dig.Ch(),dig.Pc(),dig.PadPcX(),dig.PadPcY(),dig.Q()));
3c6274c1	145	new((((TClonesArray)digLst.At(iCh)))[iDigCnt[iCh]++]) AliHMPIDDigit(dig); //add this digit to the tmp list
d3da6dc4	146	}//raw records loop
94b1fbfa	147	pRR->Reset();
d3da6dc4	148	}//chambers loop
94b1fbfa	149
3c6274c1	150	Dig2Clu(&digLst,pRich->CluLst());//cluster finder for all chambers
3c6274c1	151	for(Int_t i=0;i<7;i++){digLst.At(i)->Delete(); iDigCnt[i]=0;} //clean up list of digits for all chambers
94b1fbfa	152
d3da6dc4	153	pRL->TreeR()->Fill(); //fill tree for current event
	154	pRL->WriteRecPoints("OVERWRITE");//write out clusters for current event
	155	pRich->CluReset();
94b1fbfa	156	}//events loop
94b1fbfa	157	pRL->UnloadRecPoints();
d3da6dc4	158	}//Reconstruct raw data
d3da6dc4	159	//++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++
94b1fbfa	160	void AliHMPIDReconstructor::ConvertDigits(AliRawReader pRR,TTree pDigTree)const
	161	{
	162	//Invoked by AliReconstruction to convert raw digits from DDL files to digits
	163	//Arguments: pRR - ALICE raw reader pointer
	164	// pDigTree - pointer to Digit tree
	165	// Returns: none
	166	AliDebug(1,"Start.");
	167	AliHMPIDDigit dig; //tmp digit, raw digit will be converted to it
	168	for(Int_t iCh=AliHMPIDDigit::kMinCh;iCh<=AliHMPIDDigit::kMaxCh;iCh++) {
	169	pDigTree->Branch(Form("HMPID%d",iCh),&((*fDig)[iCh]),4000,0);
	170	pRR->Select("HMPID",2iCh,2iCh+1);//select only DDL files for the current chamber
	171	Int_t iDigCnt=0;
	172	UInt_t w32=0;
	173	while(pRR->ReadNextInt(w32)){//raw records loop (in selected DDL files)
	174	UInt_t ddl=pRR->GetDDLID(); //returns 0,1,2 ... 13
	175	dig.Raw(w32,ddl);
	176	AliDebug(1,Form("Ch=%i DDL=%i raw=0x%x digit=(%3i,%3i,%3i,%3i) Q=%5.2f",iCh,ddl,w32,dig.Ch(),dig.Pc(),dig.PadPcX(),dig.PadPcY(),dig.Q()));
	177	new((((TClonesArray)fDig->At(iCh)))[iDigCnt++]) AliHMPIDDigit(dig); //add this digit to the tmp list
	178	}//raw records loop
	179	pRR->Reset();
	180	}//chambers loop
	181	pDigTree->Fill();
	182	for(Int_t iCh=AliHMPIDDigit::kMinCh;iCh<=AliHMPIDDigit::kMaxCh;iCh++)fDig->At(iCh)->Clear();
	183	AliDebug(1,"Stop.");
	184	}//Reconstruct digits from raw digits
	185	//++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++
d3da6dc4	186	void AliHMPIDReconstructor::FillESD(AliRunLoader , AliESD pESD) const
	187	{
	188	// Calculates probability to be a electron-muon-pion-kaon-proton
	189	// from the given Cerenkov angle and momentum assuming no initial particle composition
	190	// (i.e. apriory probability to be the particle of the given sort is the same for all sorts)
	191
	192	AliPID ppp; //needed
	193	Double_t pid[AliPID::kSPECIES],h[AliPID::kSPECIES];
	194
	195	for(Int_t iTrk=0;iTrk<pESD->GetNumberOfTracks();iTrk++){//ESD tracks loop
	196	AliESDtrack *pTrk = pESD->GetTrack(iTrk);// get next reconstructed track
	197	if(pTrk->GetHMPIDsignal()<=0){//HMPID does not find anything reasonable for this track, assign 0.2 for all species
	198	for(Int_t iPart=0;iPart<AliPID::kSPECIES;iPart++) pid[iPart]=1.0/AliPID::kSPECIES;
	199	pTrk->SetHMPIDpid(pid);
	200	continue;
	201	}
	202	Double_t pmod = pTrk->GetP();
	203	Double_t hTot=0;
	204	for(Int_t iPart=0;iPart<AliPID::kSPECIES;iPart++){
	205	Double_t mass = AliPID::ParticleMass(iPart);
	206	Double_t cosThetaTh = TMath::Sqrt(massmass+pmodpmod)/(AliHMPIDParam::Instance()->MeanIdxRad()*pmod);
a1d55ff3	207	if(cosThetaTh<1) //calculate the height of theoretical theta ckov on the gaus of experimental one
a1d55ff3	208	h[iPart] =TMath::Gaus(TMath::ACos(cosThetaTh),pTrk->GetHMPIDsignal(),TMath::Sqrt(pTrk->GetHMPIDchi2()),kTRUE);
d3da6dc4	209	else //beta < 1/ref. idx. => no light at all
	210	h[iPart] =0 ;
	211	hTot +=h[iPart]; //total height of all theoretical heights for normalization
	212	}//species loop
	213
	214	Double_t hMin=TMath::Gaus(pTrk->GetHMPIDsignal()-4*TMath::Sqrt(pTrk->GetHMPIDchi2()),pTrk->GetHMPIDsignal(),TMath::Sqrt(pTrk->GetHMPIDchi2()),kTRUE);//5 sigma protection
	215
	216	for(Int_t iPart=0;iPart<AliPID::kSPECIES;iPart++)//species loop to assign probabilities
	217	if(hTot>hMin)
	218	pid[iPart]=h[iPart]/hTot;
	219	else //all theoretical values are far away from experemental one
	220	pid[iPart]=1.0/AliPID::kSPECIES;
	221	pTrk->SetHMPIDpid(pid);
	222	}//ESD tracks loop
a1d55ff3	223	}//FillESD()
d3da6dc4	224	//++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++