[u/mrichter/AliRoot.git] / EMCAL / AliEMCALReconstructor.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.                  *
 **************************************************************************/

/* $Id$ */

//_________________________________________________________________________
//--
//-- Yves Schutz (SUBATECH) 
// Reconstruction class. Redesigned from the old AliReconstructionner class and 
// derived from STEER/AliReconstructor. 
// 
//-- Aleksei Pavlinov : added staf for EMCAL jet trigger 9Apr 25, 2008)
//                    : fgDigitsArr should read just once at event

// --- ROOT system ---
#include <TList.h>
#include <TClonesArray.h>
#include <TH2.h>

// --- Standard library ---

// --- AliRoot header files ---
#include "AliEMCALReconstructor.h"

#include "AliCodeTimer.h"
#include "AliESDEvent.h"
#include "AliESDCaloCluster.h"
#include "AliESDCaloCells.h"
#include "AliESDtrack.h"
#include "AliEMCALLoader.h"
#include "AliEMCALRawUtils.h"
#include "AliEMCALDigit.h"
#include "AliEMCALClusterizerv1.h"
#include "AliEMCALRecPoint.h"
#include "AliEMCALPID.h"
#include "AliEMCALTrigger.h"
#include "AliRawReader.h"
#include "AliCDBEntry.h"
#include "AliCDBManager.h"
#include "AliEMCALRecParam.h"
#include "AliEMCALGeometry.h"
#include "AliEMCAL.h"
#include "AliEMCALHistoUtilities.h"
#include "AliESDVZERO.h"

#include "AliRunLoader.h"
#include "AliRun.h"

ClassImp(AliEMCALReconstructor) 

AliEMCALRecParam* AliEMCALReconstructor::fgkRecParam = 0;  // EMCAL rec. parameters
AliEMCALRawUtils* AliEMCALReconstructor::fgRawUtils = 0;   // EMCAL raw utilities class
AliEMCALClusterizer* AliEMCALReconstructor::fgClusterizer = 0;   // EMCAL clusterizer class
TClonesArray*     AliEMCALReconstructor::fgDigitsArr = 0;  // shoud read just once at event
//____________________________________________________________________________
AliEMCALReconstructor::AliEMCALReconstructor() 
  : fDebug(kFALSE), fList(0), fGeom(0) 
{
  // ctor
  InitRecParam();

  fgRawUtils = new AliEMCALRawUtils;
  fgClusterizer = new AliEMCALClusterizerv1;

  //To make sure we match with the geometry in a simulation file,
  //let's try to get it first.  If not, take the default geometry
  AliRunLoader *rl = AliRunLoader::GetRunLoader();
  if (rl->GetAliRun() && rl->GetAliRun()->GetDetector("EMCAL")) {
    fGeom = dynamic_cast<AliEMCAL*>(rl->GetAliRun()->GetDetector("EMCAL"))->GetGeometry();
  } else {
    AliInfo(Form("Using default geometry in reconstruction"));
    fGeom =  AliEMCALGeometry::GetInstance(AliEMCALGeometry::GetDefaultGeometryName());
  }

  if(!fGeom) AliFatal(Form("Could not get geometry!"));

} 

//____________________________________________________________________________
AliEMCALReconstructor::AliEMCALReconstructor(const AliEMCALReconstructor & rec)
  : AliReconstructor(rec),
    fDebug(rec.fDebug),
    fList(rec.fList),
    fGeom(rec.fGeom)
{
  //copy ctor
}

//____________________________________________________________________________
AliEMCALReconstructor::~AliEMCALReconstructor()
{
  // dtor
  delete fGeom;
  AliCodeTimer::Instance()->Print();
} 

//____________________________________________________________________________
void AliEMCALReconstructor::Init()
{
  // Trigger hists - Oct 24, 2007
  fList = AliEMCALHistoUtilities::GetTriggersListOfHists(kTRUE);
}

//____________________________________________________________________________
void AliEMCALReconstructor::InitRecParam() const
{
  // Check if the instance of AliEMCALRecParam exists, 
  // if not, get it from OCDB if available, otherwise create a default one

 if (!fgkRecParam  && (AliCDBManager::Instance()->IsDefaultStorageSet())) {
    AliCDBEntry *entry = (AliCDBEntry*) 
      AliCDBManager::Instance()->Get("EMCAL/Config/RecParam");
    if (entry) fgkRecParam =  (AliEMCALRecParam*) entry->GetObject();
  }
  
  if(!fgkRecParam){
    AliWarning("The Reconstruction parameters for EMCAL nonitialized - Used default one");
    fgkRecParam = new AliEMCALRecParam;
  }
}

//____________________________________________________________________________
void AliEMCALReconstructor::Reconstruct(TTree* digitsTree, TTree* clustersTree) const
{
  // method called by AliReconstruction; 
  // Only the clusterization is performed,; the rest of the reconstruction is done in FillESD because the track
  // segment maker needs access to the AliESD object to retrieve the tracks reconstructed by 
  // the global tracking.
  // Works on the current event.

  AliCodeTimerAuto("")

  ReadDigitsArrayFromTree(digitsTree);

  fgClusterizer->SetOutput(clustersTree);

  if(fgDigitsArr && fgDigitsArr->GetEntries()) {

    fgClusterizer->SetInput(digitsTree);
    
    if(Debug())
      fgClusterizer->Digits2Clusters("deb all") ;
    else
      fgClusterizer->Digits2Clusters("");
    
    fgClusterizer->Clear();

  }

}

//____________________________________________________________________________
void AliEMCALReconstructor::ConvertDigits(AliRawReader* rawReader, TTree* digitsTree) const

{
  // Conversion from raw data to
  // EMCAL digits.
  // Works on a single-event basis

  rawReader->Reset() ; 

  TClonesArray *digitsArr = new TClonesArray("AliEMCALDigit",100);
  Int_t bufsize = 32000;
  digitsTree->Branch("EMCAL", &digitsArr, bufsize);

  //must be done here because, in constructor, option is not yet known
  fgRawUtils->SetOption(GetOption());

  fgRawUtils->SetRawFormatHighLowGainFactor(fgkRecParam->GetHighLowGainFactor());
  fgRawUtils->SetRawFormatOrder(fgkRecParam->GetOrderParameter());
  fgRawUtils->SetRawFormatTau(fgkRecParam->GetTau());
  fgRawUtils->SetNoiseThreshold(fgkRecParam->GetNoiseThreshold());
  fgRawUtils->SetNPedSamples(fgkRecParam->GetNPedSamples());

  fgRawUtils->Raw2Digits(rawReader,digitsArr);

  digitsTree->Fill();
  digitsArr->Delete();
  delete digitsArr;

}


//____________________________________________________________________________
void AliEMCALReconstructor::FillESD(TTree* digitsTree, TTree* clustersTree, 
				    AliESDEvent* esd) const
{
  // Called by AliReconstruct after Reconstruct() and global tracking and vertexing 
  // and V0 
  // Works on the current event
  //  printf(" ## AliEMCALReconstructor::FillESD() is started ### \n ");
  //return;

  //######################################################
  //#########Calculate trigger and set trigger info###########
  //######################################################
 
  AliEMCALTrigger tr;
  //   tr.SetPatchSize(1);  // create 4x4 patches
  tr.SetSimulation(kFALSE); // Reconstruction mode
  tr.SetDigitsList(fgDigitsArr);
  // Get VZERO total multiplicity for jet trigger simulation 
  // The simulation of jey trigger will be incorrect if no VZERO data 
  // at ESD
  AliESDVZERO* vZero = esd->GetVZEROData();
  if(vZero) {
    tr.SetVZER0Multiplicity(vZero->GetMTotV0A() + vZero->GetMTotV0C());
  }
  //
  tr.Trigger();

  Float_t maxAmp2x2  = tr.Get2x2MaxAmplitude();
  Float_t maxAmpnxn  = tr.GetnxnMaxAmplitude();
  Float_t ampOutOfPatch2x2  = tr.Get2x2AmpOutOfPatch() ;
  Float_t ampOutOfPatchnxn  = tr.GetnxnAmpOutOfPatch() ;

  Int_t iSM2x2      = tr.Get2x2SuperModule();
  Int_t iSMnxn      = tr.GetnxnSuperModule();
  Int_t iModulePhi2x2 = tr.Get2x2ModulePhi();
  Int_t iModulePhinxn = tr.GetnxnModulePhi();
  Int_t iModuleEta2x2 = tr.Get2x2ModuleEta();
  Int_t iModuleEtanxn = tr.GetnxnModuleEta();

  AliDebug(2, Form("Trigger 2x2 max amp %f, out amp %f, SM %d, iphi %d ieta %d",  maxAmp2x2, ampOutOfPatch2x2, iSM2x2,iModulePhi2x2, iModuleEta2x2));
  AliDebug(2, Form("Trigger 4x4 max amp %f , out amp %f, SM %d, iphi %d, ieta %d",  maxAmpnxn, ampOutOfPatchnxn, iSMnxn,iModulePhinxn, iModuleEtanxn));

  TVector3    pos2x2(-1,-1,-1);
  TVector3    posnxn(-1,-1,-1);

  Int_t iAbsId2x2 = fGeom->GetAbsCellIdFromCellIndexes( iSM2x2, iModulePhi2x2, iModuleEta2x2) ; // should be changed to Module
  Int_t iAbsIdnxn = fGeom->GetAbsCellIdFromCellIndexes( iSMnxn, iModulePhinxn, iModuleEtanxn) ;
  fGeom->GetGlobal(iAbsId2x2, pos2x2);
  fGeom->GetGlobal(iAbsIdnxn, posnxn);
  //printf(" iAbsId2x2 %i iAbsIdnxn %i \n", iAbsId2x2, iAbsIdnxn);
  
  TArrayF triggerPosition(6);
  triggerPosition[0] = pos2x2(0) ;   
  triggerPosition[1] = pos2x2(1) ;   
  triggerPosition[2] = pos2x2(2) ;  
  triggerPosition[3] = posnxn(0) ;   
  triggerPosition[4] = posnxn(1) ;   
  triggerPosition[5] = posnxn(2) ;
  //printf(" triggerPosition ");
  //for(int i=0; i<6; i++) printf(" %i %f : ", i, triggerPosition[i]);

  TArrayF triggerAmplitudes(4);
  triggerAmplitudes[0] = maxAmp2x2 ;   
  triggerAmplitudes[1] = ampOutOfPatch2x2 ;    
  triggerAmplitudes[2] = maxAmpnxn ;   
  triggerAmplitudes[3] = ampOutOfPatchnxn ;   
  //printf("\n triggerAmplitudes ");
  //for(int i=0; i<4; i++) printf(" %i %f : ", i, triggerAmplitudes[i]);
  //printf("\n");
  tr.Print("");
  //
  // Trigger jet staff
  //
  if(tr.GetNJetThreshold()>0) {
    // Jet phi/eta
    Int_t n0 = triggerPosition.GetSize();
    const TH2F *hpatch = tr.GetJetMatrixE();
    triggerPosition.Set(n0 + 2);
    for(Int_t i=0; i<2; i++) triggerPosition[n0+i] = hpatch->GetMean(i+1);   
    // Add jet ampitudes
    n0 = triggerAmplitudes.GetSize();
    triggerAmplitudes.Set(n0 + tr.GetNJetThreshold());
    Double_t *ampJet = tr.GetL1JetThresholds();
    for(Int_t i=0; i<tr.GetNJetThreshold(); i++){
      triggerAmplitudes[n0 + i] = Float_t(ampJet[i]);
    }
  }
  esd->AddEMCALTriggerPosition(triggerPosition);
  esd->AddEMCALTriggerAmplitudes(triggerAmplitudes);
  // Fill trigger hists
  AliEMCALHistoUtilities::FillTriggersListOfHists(fList,&triggerPosition,&triggerAmplitudes);

  //########################################
  //##############Fill CaloCells###############
  //########################################

  TClonesArray *digits = new TClonesArray("AliEMCALDigit",1000);
  TBranch *branchdig = digitsTree->GetBranch("EMCAL");
  if (!branchdig) { 
    AliError("can't get the branch with the PHOS digits !");
    return;
  }
  branchdig->SetAddress(&digits);
  digitsTree->GetEvent(0);
  Int_t nDigits = digits->GetEntries(), idignew = 0 ;
  AliDebug(1,Form("%d digits",nDigits));

  AliESDCaloCells &emcCells = *(esd->GetEMCALCells());
  emcCells.CreateContainer(nDigits);
  emcCells.SetType(AliESDCaloCells::kEMCALCell);
  for (Int_t idig = 0 ; idig < nDigits ; idig++) {
    const AliEMCALDigit * dig = (const AliEMCALDigit*)digits->At(idig);
    if(dig->GetAmp() > 0 ){
      emcCells.SetCell(idignew,dig->GetId(),dig->GetAmp(), dig->GetTime());   
      idignew++;
    }
  }
  emcCells.SetNumberOfCells(idignew);
  emcCells.Sort();

  //------------------------------------------------------------
  //-----------------CLUSTERS-----------------------------
  //------------------------------------------------------------
  TObjArray *clusters = new TObjArray(100);
  TBranch *branch = clustersTree->GetBranch("EMCALECARP");
  branch->SetAddress(&clusters);
  clustersTree->GetEvent(0);

  Int_t nClusters = clusters->GetEntries(),  nClustersNew=0;
  AliDebug(1,Form("%d clusters",nClusters));
  esd->SetFirstEMCALCluster(esd->GetNumberOfCaloClusters()); // Put after Phos clusters 


  //######################################################
  //#######################TRACK MATCHING###############
  //######################################################
  //Fill list of integers, each one is index of track to which the cluster belongs.

  // step 1 - initialize array of matched track indexes
  Int_t *matchedTrack = new Int_t[nClusters];
  for (Int_t iclus = 0; iclus < nClusters; iclus++)
    matchedTrack[iclus] = -1;  // neg. index --> no matched track
  
  // step 2, change the flag for all matched clusters found in tracks
  Int_t iemcalMatch = -1;
  Int_t endtpc = esd->GetNumberOfTracks();
  for (Int_t itrack = 0; itrack < endtpc; itrack++) {
    AliESDtrack * track = esd->GetTrack(itrack) ; // retrieve track
    iemcalMatch = track->GetEMCALcluster();
    if(iemcalMatch >= 0) matchedTrack[iemcalMatch] = itrack;
  } 
  
  //########################################
  //##############Fill CaloClusters#############
  //########################################
  esd->SetNumberOfEMCALClusters(nClusters);
  for (Int_t iClust = 0 ; iClust < nClusters ; iClust++) {
    const AliEMCALRecPoint * clust = (const AliEMCALRecPoint*)clusters->At(iClust);
    //if(clust->GetClusterType()== AliESDCaloCluster::kEMCALClusterv1) nRP++; else nPC++;
    if (Debug()) clust->Print();
    // Get information from EMCAL reconstruction points
    Float_t xyz[3];
    TVector3 gpos;
    clust->GetGlobalPosition(gpos);
    for (Int_t ixyz=0; ixyz<3; ixyz++)
      xyz[ixyz] = gpos[ixyz];
    Float_t elipAxis[2];
    clust->GetElipsAxis(elipAxis);
       //Create digits lists
    Int_t cellMult = clust->GetMultiplicity();
    //TArrayS digiList(digitMult);
    Float_t *amplFloat = clust->GetEnergiesList();
    Int_t   *digitInts = clust->GetAbsId();
    TArrayS absIdList(cellMult);
    //Uncomment when unfolding is done
    //TArrayD fracList(cellMult);

    Int_t newCellMult = 0;
    for (Int_t iCell=0; iCell<cellMult; iCell++) {
      if (amplFloat[iCell] > 0) {
      absIdList[newCellMult] = (UShort_t)(digitInts[iCell]);
    //Uncomment when unfolding is done
    //fracList[newCellMult] = amplFloat[iCell]/emcCells.GetCellAmplitude(digitInts[iCell]);
      newCellMult++;
      }
    }
    absIdList.Set(newCellMult);
    //Uncomment when unfolding is done
    //fracList.Set(newCellMult);

    if(newCellMult > 0) { // accept cluster if it has some digit
      nClustersNew++;
      //Primaries
      Int_t  parentMult  = 0;
      Int_t *parentList =  clust->GetParents(parentMult);
      // fills the ESDCaloCluster
      AliESDCaloCluster * ec = new AliESDCaloCluster() ;
      ec->SetClusterType(AliESDCaloCluster::kEMCALClusterv1);
      ec->SetPosition(xyz);
      ec->SetE(clust->GetEnergy());
      ec->SetNCells(newCellMult);
      //Change type of list from short to ushort
      UShort_t *newAbsIdList  = new UShort_t[newCellMult];
      //Uncomment when unfolding is done
      //Double_t *newFracList  = new Double_t[newCellMult];
      for(Int_t i = 0; i < newCellMult ; i++) {
        newAbsIdList[i]=absIdList[i];
      //Uncomment when unfolding is done
      //newFracList[i]=fracList[i];
      }
      ec->SetCellsAbsId(newAbsIdList);
      //Uncomment when unfolding is done
      //ec->SetCellsAmplitudeFraction(newFracList);
      ec->SetClusterDisp(clust->GetDispersion());
      ec->SetClusterChi2(-1); //not yet implemented
      ec->SetM02(elipAxis[0]*elipAxis[0]) ;
      ec->SetM20(elipAxis[1]*elipAxis[1]) ;
      ec->SetTOF(clust->GetTime()) ; //time-of-fligh

      TArrayI arrayTrackMatched(1);// Only one track, temporal solution.
      arrayTrackMatched[0]= matchedTrack[iClust];
      ec->AddTracksMatched(arrayTrackMatched);

      TArrayI arrayParents(parentMult,parentList);
      ec->AddLabels(arrayParents);

      // add the cluster to the esd object
     esd->AddCaloCluster(ec);
      delete ec;
     //delete [] newAbsIdList ;
     //delete [] newFracList ;
   }
 } // cycle on clusters

 delete [] matchedTrack;

 esd->SetNumberOfEMCALClusters(nClustersNew);
 //if(nClustersNew != nClusters)
 //printf(" ##### nClusters %i -> new %i ##### \n", nClusters, nClustersNew );

 //Fill ESDCaloCluster with PID weights
  AliEMCALPID *pid = new AliEMCALPID;
  //pid->SetPrintInfo(kTRUE);
  pid->SetReconstructor(kTRUE);
  pid->RunPID(esd);
  delete pid;

  delete digits;
  delete clusters;

  // printf(" ## AliEMCALReconstructor::FillESD() is ended : ncl %i -> %i ### \n ",nClusters, nClustersNew); 
}

//__________________________________________________________________________
void AliEMCALReconstructor::ReadDigitsArrayFromTree(TTree *digitsTree) const
{
  // See AliEMCALClusterizer::SetInput(TTree *digitsTree);
  if(fgDigitsArr) {
    // Clear previous digits 
    fgDigitsArr->Delete();
    delete fgDigitsArr;
  }
  // Read the digits from the input tree
  TBranch *branch = digitsTree->GetBranch("EMCAL");
  if (!branch) { 
    AliError("can't get the branch with the EMCAL digits !");
    return;
  }
  fgDigitsArr = new TClonesArray("AliEMCALDigit",100);
  branch->SetAddress(&fgDigitsArr);
  branch->GetEntry(0);
}
Commit	Line	Data
	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	**************************************************************************/
	15
	16	/* $Id$ */
	17
	18	//_________________________________________________________________________
	19	//--
	20	//-- Yves Schutz (SUBATECH)
	21	// Reconstruction class. Redesigned from the old AliReconstructionner class and
	22	// derived from STEER/AliReconstructor.
	23	//
	24	//-- Aleksei Pavlinov : added staf for EMCAL jet trigger 9Apr 25, 2008)
	25	// : fgDigitsArr should read just once at event
	26
	27	// --- ROOT system ---
	28	#include <TList.h>
	29	#include <TClonesArray.h>
	30	#include <TH2.h>
	31
	32	// --- Standard library ---
	33
	34	// --- AliRoot header files ---
	35	#include "AliEMCALReconstructor.h"
	36
	37	#include "AliCodeTimer.h"
	38	#include "AliESDEvent.h"
	39	#include "AliESDCaloCluster.h"
	40	#include "AliESDCaloCells.h"
	41	#include "AliESDtrack.h"
	42	#include "AliEMCALLoader.h"
	43	#include "AliEMCALRawUtils.h"
	44	#include "AliEMCALDigit.h"
	45	#include "AliEMCALClusterizerv1.h"
	46	#include "AliEMCALRecPoint.h"
	47	#include "AliEMCALPID.h"
	48	#include "AliEMCALTrigger.h"
	49	#include "AliRawReader.h"
	50	#include "AliCDBEntry.h"
	51	#include "AliCDBManager.h"
	52	#include "AliEMCALRecParam.h"
	53	#include "AliEMCALGeometry.h"
	54	#include "AliEMCAL.h"
	55	#include "AliEMCALHistoUtilities.h"
	56	#include "AliESDVZERO.h"
	57
	58	#include "AliRunLoader.h"
	59	#include "AliRun.h"
	60
	61	ClassImp(AliEMCALReconstructor)
	62
	63	AliEMCALRecParam* AliEMCALReconstructor::fgkRecParam = 0; // EMCAL rec. parameters
	64	AliEMCALRawUtils* AliEMCALReconstructor::fgRawUtils = 0; // EMCAL raw utilities class
	65	AliEMCALClusterizer* AliEMCALReconstructor::fgClusterizer = 0; // EMCAL clusterizer class
	66	TClonesArray* AliEMCALReconstructor::fgDigitsArr = 0; // shoud read just once at event
	67	//____________________________________________________________________________
	68	AliEMCALReconstructor::AliEMCALReconstructor()
	69	: fDebug(kFALSE), fList(0), fGeom(0)
	70	{
	71	// ctor
	72	InitRecParam();
	73
	74	fgRawUtils = new AliEMCALRawUtils;
	75	fgClusterizer = new AliEMCALClusterizerv1;
	76
	77	//To make sure we match with the geometry in a simulation file,
	78	//let's try to get it first. If not, take the default geometry
	79	AliRunLoader *rl = AliRunLoader::GetRunLoader();
	80	if (rl->GetAliRun() && rl->GetAliRun()->GetDetector("EMCAL")) {
	81	fGeom = dynamic_cast<AliEMCAL*>(rl->GetAliRun()->GetDetector("EMCAL"))->GetGeometry();
	82	} else {
	83	AliInfo(Form("Using default geometry in reconstruction"));
	84	fGeom = AliEMCALGeometry::GetInstance(AliEMCALGeometry::GetDefaultGeometryName());
	85	}
	86
	87	if(!fGeom) AliFatal(Form("Could not get geometry!"));
	88
	89	}
	90
	91	//____________________________________________________________________________
	92	AliEMCALReconstructor::AliEMCALReconstructor(const AliEMCALReconstructor & rec)
	93	: AliReconstructor(rec),
	94	fDebug(rec.fDebug),
	95	fList(rec.fList),
	96	fGeom(rec.fGeom)
	97	{
	98	//copy ctor
	99	}
	100
	101	//____________________________________________________________________________
	102	AliEMCALReconstructor::~AliEMCALReconstructor()
	103	{
	104	// dtor
	105	delete fGeom;
	106	AliCodeTimer::Instance()->Print();
	107	}
	108
	109	//____________________________________________________________________________
	110	void AliEMCALReconstructor::Init()
	111	{
	112	// Trigger hists - Oct 24, 2007
	113	fList = AliEMCALHistoUtilities::GetTriggersListOfHists(kTRUE);
	114	}
	115
	116	//____________________________________________________________________________
	117	void AliEMCALReconstructor::InitRecParam() const
	118	{
	119	// Check if the instance of AliEMCALRecParam exists,
	120	// if not, get it from OCDB if available, otherwise create a default one
	121
	122	if (!fgkRecParam && (AliCDBManager::Instance()->IsDefaultStorageSet())) {
	123	AliCDBEntry entry = (AliCDBEntry)
	124	AliCDBManager::Instance()->Get("EMCAL/Config/RecParam");
	125	if (entry) fgkRecParam = (AliEMCALRecParam*) entry->GetObject();
	126	}
	127
	128	if(!fgkRecParam){
	129	AliWarning("The Reconstruction parameters for EMCAL nonitialized - Used default one");
	130	fgkRecParam = new AliEMCALRecParam;
	131	}
	132	}
	133
	134	//____________________________________________________________________________
	135	void AliEMCALReconstructor::Reconstruct(TTree* digitsTree, TTree* clustersTree) const
	136	{
	137	// method called by AliReconstruction;
	138	// Only the clusterization is performed,; the rest of the reconstruction is done in FillESD because the track
	139	// segment maker needs access to the AliESD object to retrieve the tracks reconstructed by
	140	// the global tracking.
	141	// Works on the current event.
	142
	143	AliCodeTimerAuto("")
	144
	145	ReadDigitsArrayFromTree(digitsTree);
	146
	147	fgClusterizer->SetOutput(clustersTree);
	148
	149	if(fgDigitsArr && fgDigitsArr->GetEntries()) {
	150
	151	fgClusterizer->SetInput(digitsTree);
	152
	153	if(Debug())
	154	fgClusterizer->Digits2Clusters("deb all") ;
	155	else
	156	fgClusterizer->Digits2Clusters("");
	157
	158	fgClusterizer->Clear();
	159
	160	}
	161
	162	}
	163
	164	//____________________________________________________________________________
	165	void AliEMCALReconstructor::ConvertDigits(AliRawReader* rawReader, TTree* digitsTree) const
	166
	167	{
	168	// Conversion from raw data to
	169	// EMCAL digits.
	170	// Works on a single-event basis
	171
	172	rawReader->Reset() ;
	173
	174	TClonesArray *digitsArr = new TClonesArray("AliEMCALDigit",100);
	175	Int_t bufsize = 32000;
	176	digitsTree->Branch("EMCAL", &digitsArr, bufsize);
	177
	178	//must be done here because, in constructor, option is not yet known
	179	fgRawUtils->SetOption(GetOption());
	180
	181	fgRawUtils->SetRawFormatHighLowGainFactor(fgkRecParam->GetHighLowGainFactor());
	182	fgRawUtils->SetRawFormatOrder(fgkRecParam->GetOrderParameter());
	183	fgRawUtils->SetRawFormatTau(fgkRecParam->GetTau());
	184	fgRawUtils->SetNoiseThreshold(fgkRecParam->GetNoiseThreshold());
	185	fgRawUtils->SetNPedSamples(fgkRecParam->GetNPedSamples());
	186
	187	fgRawUtils->Raw2Digits(rawReader,digitsArr);
	188
	189	digitsTree->Fill();
	190	digitsArr->Delete();
	191	delete digitsArr;
	192
	193	}
	194
	195
	196	//____________________________________________________________________________
	197	void AliEMCALReconstructor::FillESD(TTree* digitsTree, TTree* clustersTree,
	198	AliESDEvent* esd) const
	199	{
	200	// Called by AliReconstruct after Reconstruct() and global tracking and vertexing
	201	// and V0
	202	// Works on the current event
	203	// printf(" ## AliEMCALReconstructor::FillESD() is started ### \n ");
	204	//return;
	205
	206	//######################################################
	207	//#########Calculate trigger and set trigger info###########
	208	//######################################################
	209
	210	AliEMCALTrigger tr;
	211	// tr.SetPatchSize(1); // create 4x4 patches
	212	tr.SetSimulation(kFALSE); // Reconstruction mode
	213	tr.SetDigitsList(fgDigitsArr);
	214	// Get VZERO total multiplicity for jet trigger simulation
	215	// The simulation of jey trigger will be incorrect if no VZERO data
	216	// at ESD
	217	AliESDVZERO* vZero = esd->GetVZEROData();
	218	if(vZero) {
	219	tr.SetVZER0Multiplicity(vZero->GetMTotV0A() + vZero->GetMTotV0C());
	220	}
	221	//
	222	tr.Trigger();
	223
	224	Float_t maxAmp2x2 = tr.Get2x2MaxAmplitude();
	225	Float_t maxAmpnxn = tr.GetnxnMaxAmplitude();
	226	Float_t ampOutOfPatch2x2 = tr.Get2x2AmpOutOfPatch() ;
	227	Float_t ampOutOfPatchnxn = tr.GetnxnAmpOutOfPatch() ;
	228
	229	Int_t iSM2x2 = tr.Get2x2SuperModule();
	230	Int_t iSMnxn = tr.GetnxnSuperModule();
	231	Int_t iModulePhi2x2 = tr.Get2x2ModulePhi();
	232	Int_t iModulePhinxn = tr.GetnxnModulePhi();
	233	Int_t iModuleEta2x2 = tr.Get2x2ModuleEta();
	234	Int_t iModuleEtanxn = tr.GetnxnModuleEta();
	235
	236	AliDebug(2, Form("Trigger 2x2 max amp %f, out amp %f, SM %d, iphi %d ieta %d", maxAmp2x2, ampOutOfPatch2x2, iSM2x2,iModulePhi2x2, iModuleEta2x2));
	237	AliDebug(2, Form("Trigger 4x4 max amp %f , out amp %f, SM %d, iphi %d, ieta %d", maxAmpnxn, ampOutOfPatchnxn, iSMnxn,iModulePhinxn, iModuleEtanxn));
	238
	239	TVector3 pos2x2(-1,-1,-1);
	240	TVector3 posnxn(-1,-1,-1);
	241
	242	Int_t iAbsId2x2 = fGeom->GetAbsCellIdFromCellIndexes( iSM2x2, iModulePhi2x2, iModuleEta2x2) ; // should be changed to Module
	243	Int_t iAbsIdnxn = fGeom->GetAbsCellIdFromCellIndexes( iSMnxn, iModulePhinxn, iModuleEtanxn) ;
	244	fGeom->GetGlobal(iAbsId2x2, pos2x2);
	245	fGeom->GetGlobal(iAbsIdnxn, posnxn);
	246	//printf(" iAbsId2x2 %i iAbsIdnxn %i \n", iAbsId2x2, iAbsIdnxn);
	247
	248	TArrayF triggerPosition(6);
	249	triggerPosition[0] = pos2x2(0) ;
	250	triggerPosition[1] = pos2x2(1) ;
	251	triggerPosition[2] = pos2x2(2) ;
	252	triggerPosition[3] = posnxn(0) ;
	253	triggerPosition[4] = posnxn(1) ;
	254	triggerPosition[5] = posnxn(2) ;
	255	//printf(" triggerPosition ");
	256	//for(int i=0; i<6; i++) printf(" %i %f : ", i, triggerPosition[i]);
	257
	258	TArrayF triggerAmplitudes(4);
	259	triggerAmplitudes[0] = maxAmp2x2 ;
	260	triggerAmplitudes[1] = ampOutOfPatch2x2 ;
	261	triggerAmplitudes[2] = maxAmpnxn ;
	262	triggerAmplitudes[3] = ampOutOfPatchnxn ;
	263	//printf("\n triggerAmplitudes ");
	264	//for(int i=0; i<4; i++) printf(" %i %f : ", i, triggerAmplitudes[i]);
	265	//printf("\n");
	266	tr.Print("");
	267	//
	268	// Trigger jet staff
	269	//
	270	if(tr.GetNJetThreshold()>0) {
	271	// Jet phi/eta
	272	Int_t n0 = triggerPosition.GetSize();
	273	const TH2F *hpatch = tr.GetJetMatrixE();
	274	triggerPosition.Set(n0 + 2);
	275	for(Int_t i=0; i<2; i++) triggerPosition[n0+i] = hpatch->GetMean(i+1);
	276	// Add jet ampitudes
	277	n0 = triggerAmplitudes.GetSize();
	278	triggerAmplitudes.Set(n0 + tr.GetNJetThreshold());
	279	Double_t *ampJet = tr.GetL1JetThresholds();
	280	for(Int_t i=0; i<tr.GetNJetThreshold(); i++){
	281	triggerAmplitudes[n0 + i] = Float_t(ampJet[i]);
	282	}
	283	}
	284	esd->AddEMCALTriggerPosition(triggerPosition);
	285	esd->AddEMCALTriggerAmplitudes(triggerAmplitudes);
	286	// Fill trigger hists
	287	AliEMCALHistoUtilities::FillTriggersListOfHists(fList,&triggerPosition,&triggerAmplitudes);
	288
	289	//########################################
	290	//##############Fill CaloCells###############
	291	//########################################
	292
	293	TClonesArray *digits = new TClonesArray("AliEMCALDigit",1000);
	294	TBranch *branchdig = digitsTree->GetBranch("EMCAL");
	295	if (!branchdig) {
	296	AliError("can't get the branch with the PHOS digits !");
	297	return;
	298	}
	299	branchdig->SetAddress(&digits);
	300	digitsTree->GetEvent(0);
	301	Int_t nDigits = digits->GetEntries(), idignew = 0 ;
	302	AliDebug(1,Form("%d digits",nDigits));
	303
	304	AliESDCaloCells &emcCells = *(esd->GetEMCALCells());
	305	emcCells.CreateContainer(nDigits);
	306	emcCells.SetType(AliESDCaloCells::kEMCALCell);
	307	for (Int_t idig = 0 ; idig < nDigits ; idig++) {
	308	const AliEMCALDigit * dig = (const AliEMCALDigit*)digits->At(idig);
	309	if(dig->GetAmp() > 0 ){
	310	emcCells.SetCell(idignew,dig->GetId(),dig->GetAmp(), dig->GetTime());
	311	idignew++;
	312	}
	313	}
	314	emcCells.SetNumberOfCells(idignew);
	315	emcCells.Sort();
	316
	317	//------------------------------------------------------------
	318	//-----------------CLUSTERS-----------------------------
	319	//------------------------------------------------------------
	320	TObjArray *clusters = new TObjArray(100);
	321	TBranch *branch = clustersTree->GetBranch("EMCALECARP");
	322	branch->SetAddress(&clusters);
	323	clustersTree->GetEvent(0);
	324
	325	Int_t nClusters = clusters->GetEntries(), nClustersNew=0;
	326	AliDebug(1,Form("%d clusters",nClusters));
	327	esd->SetFirstEMCALCluster(esd->GetNumberOfCaloClusters()); // Put after Phos clusters
	328
	329
	330	//######################################################
	331	//#######################TRACK MATCHING###############
	332	//######################################################
	333	//Fill list of integers, each one is index of track to which the cluster belongs.
	334
	335	// step 1 - initialize array of matched track indexes
	336	Int_t *matchedTrack = new Int_t[nClusters];
	337	for (Int_t iclus = 0; iclus < nClusters; iclus++)
	338	matchedTrack[iclus] = -1; // neg. index --> no matched track
	339
	340	// step 2, change the flag for all matched clusters found in tracks
	341	Int_t iemcalMatch = -1;
	342	Int_t endtpc = esd->GetNumberOfTracks();
	343	for (Int_t itrack = 0; itrack < endtpc; itrack++) {
	344	AliESDtrack * track = esd->GetTrack(itrack) ; // retrieve track
	345	iemcalMatch = track->GetEMCALcluster();
	346	if(iemcalMatch >= 0) matchedTrack[iemcalMatch] = itrack;
	347	}
	348
	349	//########################################
	350	//##############Fill CaloClusters#############
	351	//########################################
	352	esd->SetNumberOfEMCALClusters(nClusters);
	353	for (Int_t iClust = 0 ; iClust < nClusters ; iClust++) {
	354	const AliEMCALRecPoint * clust = (const AliEMCALRecPoint*)clusters->At(iClust);
	355	//if(clust->GetClusterType()== AliESDCaloCluster::kEMCALClusterv1) nRP++; else nPC++;
	356	if (Debug()) clust->Print();
	357	// Get information from EMCAL reconstruction points
	358	Float_t xyz[3];
	359	TVector3 gpos;
	360	clust->GetGlobalPosition(gpos);
	361	for (Int_t ixyz=0; ixyz<3; ixyz++)
	362	xyz[ixyz] = gpos[ixyz];
	363	Float_t elipAxis[2];
	364	clust->GetElipsAxis(elipAxis);
	365	//Create digits lists
	366	Int_t cellMult = clust->GetMultiplicity();
	367	//TArrayS digiList(digitMult);
	368	Float_t *amplFloat = clust->GetEnergiesList();
	369	Int_t *digitInts = clust->GetAbsId();
	370	TArrayS absIdList(cellMult);
	371	//Uncomment when unfolding is done
	372	//TArrayD fracList(cellMult);
	373
	374	Int_t newCellMult = 0;
	375	for (Int_t iCell=0; iCell<cellMult; iCell++) {
	376	if (amplFloat[iCell] > 0) {
	377	absIdList[newCellMult] = (UShort_t)(digitInts[iCell]);
	378	//Uncomment when unfolding is done
	379	//fracList[newCellMult] = amplFloat[iCell]/emcCells.GetCellAmplitude(digitInts[iCell]);
	380	newCellMult++;
	381	}
	382	}
	383	absIdList.Set(newCellMult);
	384	//Uncomment when unfolding is done
	385	//fracList.Set(newCellMult);
	386
	387	if(newCellMult > 0) { // accept cluster if it has some digit
	388	nClustersNew++;
	389	//Primaries
	390	Int_t parentMult = 0;
	391	Int_t *parentList = clust->GetParents(parentMult);
	392	// fills the ESDCaloCluster
	393	AliESDCaloCluster * ec = new AliESDCaloCluster() ;
	394	ec->SetClusterType(AliESDCaloCluster::kEMCALClusterv1);
	395	ec->SetPosition(xyz);
	396	ec->SetE(clust->GetEnergy());
	397	ec->SetNCells(newCellMult);
	398	//Change type of list from short to ushort
	399	UShort_t *newAbsIdList = new UShort_t[newCellMult];
	400	//Uncomment when unfolding is done
	401	//Double_t *newFracList = new Double_t[newCellMult];
	402	for(Int_t i = 0; i < newCellMult ; i++) {
	403	newAbsIdList[i]=absIdList[i];
	404	//Uncomment when unfolding is done
	405	//newFracList[i]=fracList[i];
	406	}
	407	ec->SetCellsAbsId(newAbsIdList);
	408	//Uncomment when unfolding is done
	409	//ec->SetCellsAmplitudeFraction(newFracList);
	410	ec->SetClusterDisp(clust->GetDispersion());
	411	ec->SetClusterChi2(-1); //not yet implemented
	412	ec->SetM02(elipAxis[0]*elipAxis[0]) ;
	413	ec->SetM20(elipAxis[1]*elipAxis[1]) ;
	414	ec->SetTOF(clust->GetTime()) ; //time-of-fligh
	415
	416	TArrayI arrayTrackMatched(1);// Only one track, temporal solution.
	417	arrayTrackMatched[0]= matchedTrack[iClust];
	418	ec->AddTracksMatched(arrayTrackMatched);
	419
	420	TArrayI arrayParents(parentMult,parentList);
	421	ec->AddLabels(arrayParents);
	422
	423	// add the cluster to the esd object
	424	esd->AddCaloCluster(ec);
	425	delete ec;
	426	//delete [] newAbsIdList ;
	427	//delete [] newFracList ;
	428	}
	429	} // cycle on clusters
	430
	431	delete [] matchedTrack;
	432
	433	esd->SetNumberOfEMCALClusters(nClustersNew);
	434	//if(nClustersNew != nClusters)
	435	//printf(" ##### nClusters %i -> new %i ##### \n", nClusters, nClustersNew );
	436
	437	//Fill ESDCaloCluster with PID weights
	438	AliEMCALPID *pid = new AliEMCALPID;
	439	//pid->SetPrintInfo(kTRUE);
	440	pid->SetReconstructor(kTRUE);
	441	pid->RunPID(esd);
	442	delete pid;
	443
	444	delete digits;
	445	delete clusters;
	446
	447	// printf(" ## AliEMCALReconstructor::FillESD() is ended : ncl %i -> %i ### \n ",nClusters, nClustersNew);
	448	}
	449
	450	//__________________________________________________________________________
	451	void AliEMCALReconstructor::ReadDigitsArrayFromTree(TTree *digitsTree) const
	452	{
	453	// See AliEMCALClusterizer::SetInput(TTree *digitsTree);
	454	if(fgDigitsArr) {
	455	// Clear previous digits
	456	fgDigitsArr->Delete();
	457	delete fgDigitsArr;
	458	}
	459	// Read the digits from the input tree
	460	TBranch *branch = digitsTree->GetBranch("EMCAL");
	461	if (!branch) {
	462	AliError("can't get the branch with the EMCAL digits !");
	463	return;
	464	}
	465	fgDigitsArr = new TClonesArray("AliEMCALDigit",100);
	466	branch->SetAddress(&fgDigitsArr);
	467	branch->GetEntry(0);
	468	}
	469