[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>
#include "TGeoManager.h"
#include "TGeoMatrix.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 "AliEMCALGeometry.h"
#include "AliEMCAL.h"
#include "AliESDVZERO.h"
#include "AliCDBManager.h"
#include "AliRunLoader.h"
#include "AliRun.h"
#include "AliEMCALTriggerData.h"
#include "AliEMCALTriggerElectronics.h"
#include "AliEMCALTriggerDCSConfigDB.h"
#include "AliEMCALTriggerDCSConfig.h"

ClassImp(AliEMCALReconstructor) 

const 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
AliEMCALTriggerElectronics* AliEMCALReconstructor::fgTriggerProcessor = 0x0;
//____________________________________________________________________________
AliEMCALReconstructor::AliEMCALReconstructor() 
  : fDebug(kFALSE), fList(0), fGeom(0),fCalibData(0),fPedestalData(0) 
{
  // ctor

  fgRawUtils = new AliEMCALRawUtils;

  //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::Instance();
  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());
  }

  //Get calibration parameters	
  if(!fCalibData)
    {
		AliCDBEntry *entry = (AliCDBEntry*) 
		AliCDBManager::Instance()->Get("EMCAL/Calib/Data");
		if (entry) fCalibData =  (AliEMCALCalibData*) entry->GetObject();
    }
	
  if(!fCalibData)
		AliFatal("Calibration parameters not found in CDB!");
	
  //Get calibration parameters	
  if(!fPedestalData)
    {
		AliCDBEntry *entry = (AliCDBEntry*) 
		AliCDBManager::Instance()->Get("EMCAL/Calib/Pedestals");
		if (entry) fPedestalData =  (AliCaloCalibPedestal*) entry->GetObject();
    }
	
	if(!fPedestalData)
		AliFatal("Dead map not found in CDB!");
	
	
  //Init the clusterizer with geometry and calibration pointers, avoid doing it twice.
  fgClusterizer = new AliEMCALClusterizerv1(fGeom, fCalibData,fPedestalData); 
	
  if(!fGeom) AliFatal(Form("Could not get geometry!"));

  AliEMCALTriggerDCSConfigDB* dcsConfigDB = AliEMCALTriggerDCSConfigDB::Instance();

  const AliEMCALTriggerDCSConfig* dcsConfig = dcsConfigDB->GetTriggerDCSConfig();

  if (!dcsConfig) AliFatal("No Trigger DCS Configuration from OCDB!");
  fgTriggerProcessor = new AliEMCALTriggerElectronics( dcsConfig );
} 

//____________________________________________________________________________
AliEMCALReconstructor::~AliEMCALReconstructor()
{
  // dtor
  delete fGeom;
  delete fgRawUtils;
  delete fgClusterizer;
  delete fgTriggerProcessor;

  AliCodeTimer::Instance()->Print();
} 

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

//____________________________________________________________________________
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("",0)

  ReadDigitsArrayFromTree(digitsTree);
  fgClusterizer->InitParameters();
  fgClusterizer->SetOutput(clustersTree);
 
  AliEMCALTriggerData* trgData = new AliEMCALTriggerData();
	
  Int_t bufferSize = 32000;

  if (TBranch* triggerBranch = clustersTree->GetBranch("EMTRG"))
		triggerBranch->SetAddress(&trgData);
	else
		clustersTree->Branch("EMTRG","AliEMCALTriggerData",&trgData,bufferSize);

  TClonesArray *trgDigits = new TClonesArray("AliEMCALRawDigit",1000);
  TBranch *branchdig = digitsTree->GetBranch("EMTRG");
  if (!branchdig) 
  { 
	  AliError("Can't get the branch with the EMCAL trigger digits !");
	  return;
  }

  branchdig->SetAddress(&trgDigits);
  branchdig->GetEntry(0);
	
  //Skip clusterization of LED events
  if (GetRecParam()->GetEventSpecie()!=AliRecoParam::kCalib){

	  Int_t v0M[2] = {0,0};
	  fgTriggerProcessor->Digits2Trigger(trgDigits, v0M, trgData);
	
 
	  if(fgDigitsArr && fgDigitsArr->GetEntries()) {

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

	  }//digits array exists and has somethind
  }//not a LED event
	
  clustersTree->Fill();	
  trgDigits->Delete();
  delete trgDigits; trgDigits = 0x0;
  delete trgData;   trgData   = 0x0;

}

//____________________________________________________________________________
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",200);
  TClonesArray *digitsTrg = new TClonesArray("AliEMCALRawDigit", 200);

  Int_t bufsize = 32000;
  digitsTree->Branch("EMCAL", &digitsArr, bufsize);
  digitsTree->Branch("EMTRG", &digitsTrg, bufsize);
	
  //Skip calibration events do the rest
  Bool_t doFit = kTRUE;
  if ( !(GetRecParam()->FitLEDEvents()) && GetRecParam()->GetEventSpecie()==AliRecoParam::kCalib) doFit = kFALSE;
  if (doFit){
	  //must be done here because, in constructor, option is not yet known
	  fgRawUtils->SetOption(GetOption());

	  fgRawUtils->SetRawFormatHighLowGainFactor(GetRecParam()->GetHighLowGainFactor());
	  fgRawUtils->SetRawFormatOrder(GetRecParam()->GetOrderParameter());
	  fgRawUtils->SetRawFormatTau(GetRecParam()->GetTau());
	  fgRawUtils->SetNoiseThreshold(GetRecParam()->GetNoiseThreshold());
	  fgRawUtils->SetNPedSamples(GetRecParam()->GetNPedSamples());
	  fgRawUtils->SetRemoveBadChannels(GetRecParam()->GetRemoveBadChannels());
	  fgRawUtils->SetFittingAlgorithm(GetRecParam()->GetFittingAlgorithm());
	  fgRawUtils->SetFALTROUsage(GetRecParam()->UseFALTRO());
	  fgRawUtils->SetTimeMin(GetRecParam()->GetTimeMin());
	  fgRawUtils->SetTimeMax(GetRecParam()->GetTimeMax());
	
	  fgRawUtils->Raw2Digits(rawReader,digitsArr,fPedestalData,digitsTrg);
  }//skip calibration event
  else{
	AliDebug(1," Calibration Event, skip!");
  }
	
  digitsTree->Fill();
  digitsArr->Delete();
  digitsTrg->Delete();
  delete digitsArr;
  delete digitsTrg;

}


//____________________________________________________________________________
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;

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

  TClonesArray *digits = new TClonesArray("AliEMCALDigit",1000);
  TBranch *branchdig = digitsTree->GetBranch("EMCAL");
  if (!branchdig) { 
    AliError("can't get the branch with the EMCAL 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);
  Float_t energy = 0;
  for (Int_t idig = 0 ; idig < nDigits ; idig++) {
    const AliEMCALDigit * dig = (const AliEMCALDigit*)digits->At(idig);
    if(dig->GetAmplitude() > 0 ){
	  energy = (static_cast<AliEMCALClusterizerv1*> (fgClusterizer))->Calibrate(dig->GetAmplitude(),dig->GetTime(),dig->GetId()); //TimeR or Time?
	  if(energy > 0){ //Digits tagged as bad (dead, hot, not alive) are set to 0 in calibrate, remove them	
		  emcCells.SetCell(idignew,dig->GetId(),energy, dig->GetTime());   
		  idignew++;
	  }
    }
  }
  emcCells.SetNumberOfCells(idignew);
  emcCells.Sort();

  //------------------------------------------------------------
  //-----------------CLUSTERS-----------------------------
  //------------------------------------------------------------
  clustersTree->SetBranchStatus("*",0); //disable all branches
  clustersTree->SetBranchStatus("EMCALECARP",1); //Enable only the branch we need

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

  Int_t nClusters = clusters->GetEntries(),  nClustersNew=0;
  AliDebug(1,Form("%d clusters",nClusters));

  //######################################################
  //#######################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#############
  //########################################
  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);
    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
      //if(emcCells.GetCellAmplitude(digitInts[iCell])>0)
      //fracList[newCellMult] = amplFloat[iCell]/(emcCells.GetCellAmplitude(digitInts[iCell])*calibration);//get cell calibration value 
      //else
      fracList[newCellMult] = 0; 
      newCellMult++;
      }
    }

    absIdList.Set(newCellMult);
    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());
		
	  //Distance to the nearest bad crystal
	  ec->SetDistanceToBadChannel(clust->GetDistanceToBadTower()); 

      ec->SetNCells(newCellMult);
      //Change type of list from short to ushort
      UShort_t *newAbsIdList  = new UShort_t[newCellMult];
      Double_t *newFracList  = new Double_t[newCellMult];
      for(Int_t i = 0; i < newCellMult ; i++) {
        newAbsIdList[i]=absIdList[i];
        newFracList[i]=fracList[i];
      }
      ec->SetCellsAbsId(newAbsIdList);
      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
      ec->SetNExMax(clust->GetNExMax());          //number of local maxima
      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;

 //Fill ESDCaloCluster with PID weights
 AliEMCALPID *pid = new AliEMCALPID;
 //pid->SetPrintInfo(kTRUE);
 pid->SetReconstructor(kTRUE);
 pid->RunPID(esd);
 delete pid;
  
 delete digits;
 delete clusters;
  
 //Store EMCAL misalignment matrixes
 FillMisalMatrixes(esd) ;

}

//==================================================================================
void AliEMCALReconstructor::FillMisalMatrixes(AliESDEvent* esd)const{
	//Store EMCAL matrixes in ESD Header
	
	//Check, if matrixes was already stored
	for(Int_t sm = 0 ; sm < fGeom->GetNumberOfSuperModules(); sm++){
		if(esd->GetEMCALMatrix(sm)!=0)
			return ;
	}
	
	//Create and store matrixes
	if(!gGeoManager){
		AliError("Can not store misal. matrixes: no gGeoManager! \n") ;
		return ;
	}
	//Note, that owner of copied marixes will be header
	char path[255] ;
	TGeoHMatrix * m = 0x0;
	for(Int_t sm = 0; sm < fGeom->GetNumberOfSuperModules(); sm++){
		sprintf(path,"/ALIC_1/XEN1_1/SMOD_%d",sm+1) ; //In Geometry modules numbered 1,2,.,5
		if(sm >= 10) sprintf(path,"/ALIC_1/XEN1_1/SM10_%d",sm-10+1) ;
		
		if (gGeoManager->CheckPath(path)){
			gGeoManager->cd(path);
			m = gGeoManager->GetCurrentMatrix() ;
//			printf("================================================= \n");
//			printf("AliEMCALReconstructor::FixMisalMatrixes(), sm %d, \n",sm);
//			m->Print("");
			esd->SetEMCALMatrix(new TGeoHMatrix(*m),sm) ;
//			printf("================================================= \n");
		}
		else{
			esd->SetEMCALMatrix(NULL,sm) ;
		}
	}
}


//__________________________________________________________________________
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
f6019cda	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	//_________________________________________________________________________
fa42b1f3	19	//--
fa42b1f3	20	//-- Yves Schutz (SUBATECH)
f6019cda	21	// Reconstruction class. Redesigned from the old AliReconstructionner class and
	22	// derived from STEER/AliReconstructor.
	23	//
85c25c2e	24	//-- Aleksei Pavlinov : added staf for EMCAL jet trigger 9Apr 25, 2008)
	25	// : fgDigitsArr should read just once at event
	26
f6019cda	27	// --- ROOT system ---
85c25c2e	28	#include <TList.h>
85c25c2e	29	#include <TClonesArray.h>
60d8ad94	30	#include <TH2.h>
0c5b726e	31	#include "TGeoManager.h"
0c5b726e	32	#include "TGeoMatrix.h"
f6019cda	33
	34	// --- Standard library ---
	35
	36	// --- AliRoot header files ---
f6019cda	37	#include "AliEMCALReconstructor.h"
5dee926e	38
aaa3cb7c	39	#include "AliCodeTimer.h"
af885e0f	40	#include "AliESDEvent.h"
89ffc0b0	41	#include "AliESDCaloCluster.h"
0e7c6655	42	#include "AliESDCaloCells.h"
6a0cf740	43	#include "AliESDtrack.h"
5dee926e	44	#include "AliEMCALLoader.h"
98e9578e	45	#include "AliEMCALRawUtils.h"
0e7c6655	46	#include "AliEMCALDigit.h"
f6019cda	47	#include "AliEMCALClusterizerv1.h"
5dee926e	48	#include "AliEMCALRecPoint.h"
dc293ae9	49	#include "AliEMCALPID.h"
0964c2e9	50	#include "AliEMCALTrigger.h"
1d59832c	51	#include "AliRawReader.h"
fa42b1f3	52	#include "AliCDBEntry.h"
fa42b1f3	53	#include "AliCDBManager.h"
65bdc82f	54	#include "AliEMCALGeometry.h"
ac8ae9fe	55	#include "AliEMCAL.h"
85c25c2e	56	#include "AliESDVZERO.h"
0c5b726e	57	#include "AliCDBManager.h"
72c58de0	58	#include "AliRunLoader.h"
72c58de0	59	#include "AliRun.h"
916f1e76	60	#include "AliEMCALTriggerData.h"
916f1e76	61	#include "AliEMCALTriggerElectronics.h"
fff39dd1	62	#include "AliEMCALTriggerDCSConfigDB.h"
fff39dd1	63	#include "AliEMCALTriggerDCSConfig.h"
1d59832c	64
85c25c2e	65	ClassImp(AliEMCALReconstructor)
f6019cda	66
ba6de5ea	67	const AliEMCALRecParam* AliEMCALReconstructor::fgkRecParam = 0; // EMCAL rec. parameters
65bdc82f	68	AliEMCALRawUtils* AliEMCALReconstructor::fgRawUtils = 0; // EMCAL raw utilities class
9517d886	69	AliEMCALClusterizer* AliEMCALReconstructor::fgClusterizer = 0; // EMCAL clusterizer class
85c25c2e	70	TClonesArray* AliEMCALReconstructor::fgDigitsArr = 0; // shoud read just once at event
916f1e76	71	AliEMCALTriggerElectronics* AliEMCALReconstructor::fgTriggerProcessor = 0x0;
f6019cda	72	//____________________________________________________________________________
18a21c7c	73	AliEMCALReconstructor::AliEMCALReconstructor()
40164976	74	: fDebug(kFALSE), fList(0), fGeom(0),fCalibData(0),fPedestalData(0)
f6019cda	75	{
f6019cda	76	// ctor
65bdc82f	77
65bdc82f	78	fgRawUtils = new AliEMCALRawUtils;
72c58de0	79
	80	//To make sure we match with the geometry in a simulation file,
	81	//let's try to get it first. If not, take the default geometry
33c3c91a	82	AliRunLoader *rl = AliRunLoader::Instance();
72c58de0	83	if (rl->GetAliRun() && rl->GetAliRun()->GetDetector("EMCAL")) {
	84	fGeom = dynamic_cast<AliEMCAL*>(rl->GetAliRun()->GetDetector("EMCAL"))->GetGeometry();
	85	} else {
	86	AliInfo(Form("Using default geometry in reconstruction"));
937d0661	87	fGeom = AliEMCALGeometry::GetInstance(AliEMCALGeometry::GetDefaultGeometryName());
65bdc82f	88	}
0e7c6655	89
0c5b726e	90	//Get calibration parameters
	91	if(!fCalibData)
	92	{
	93	AliCDBEntry entry = (AliCDBEntry)
	94	AliCDBManager::Instance()->Get("EMCAL/Calib/Data");
	95	if (entry) fCalibData = (AliEMCALCalibData*) entry->GetObject();
	96	}
	97
	98	if(!fCalibData)
	99	AliFatal("Calibration parameters not found in CDB!");
	100
40164976	101	//Get calibration parameters
	102	if(!fPedestalData)
	103	{
	104	AliCDBEntry entry = (AliCDBEntry)
	105	AliCDBManager::Instance()->Get("EMCAL/Calib/Pedestals");
	106	if (entry) fPedestalData = (AliCaloCalibPedestal*) entry->GetObject();
	107	}
	108
	109	if(!fPedestalData)
	110	AliFatal("Dead map not found in CDB!");
	111
	112
0c5b726e	113	//Init the clusterizer with geometry and calibration pointers, avoid doing it twice.
40164976	114	fgClusterizer = new AliEMCALClusterizerv1(fGeom, fCalibData,fPedestalData);
0c5b726e	115
72c58de0	116	if(!fGeom) AliFatal(Form("Could not get geometry!"));
72c58de0	117
fff39dd1	118	AliEMCALTriggerDCSConfigDB* dcsConfigDB = AliEMCALTriggerDCSConfigDB::Instance();
	119
	120	const AliEMCALTriggerDCSConfig* dcsConfig = dcsConfigDB->GetTriggerDCSConfig();
	121
	122	if (!dcsConfig) AliFatal("No Trigger DCS Configuration from OCDB!");
	123	fgTriggerProcessor = new AliEMCALTriggerElectronics( dcsConfig );
f6019cda	124	}
f6019cda	125
f6019cda	126	//____________________________________________________________________________
	127	AliEMCALReconstructor::~AliEMCALReconstructor()
	128	{
	129	// dtor
65bdc82f	130	delete fGeom;
5e3106bc	131	delete fgRawUtils;
5e3106bc	132	delete fgClusterizer;
916f1e76	133	delete fgTriggerProcessor;
916f1e76	134
aaa3cb7c	135	AliCodeTimer::Instance()->Print();
f6019cda	136	}
f6019cda	137
40871053	138	// //____________________________________________________________________________
	139	// void AliEMCALReconstructor::Init()
	140	// {
	141	// // Trigger hists - Oct 24, 2007
	142	// fList = AliEMCALHistoUtilities::GetTriggersListOfHists(kTRUE);
	143	// }
85c25c2e	144
f6019cda	145	//____________________________________________________________________________
c47157cd	146	void AliEMCALReconstructor::Reconstruct(TTree* digitsTree, TTree* clustersTree) const
f6019cda	147	{
	148	// method called by AliReconstruction;
	149	// Only the clusterization is performed,; the rest of the reconstruction is done in FillESD because the track
	150	// segment maker needs access to the AliESD object to retrieve the tracks reconstructed by
	151	// the global tracking.
c47157cd	152	// Works on the current event.
fa42b1f3	153
1a429a6b	154	AliCodeTimerAuto("",0)
aaa3cb7c	155
85c25c2e	156	ReadDigitsArrayFromTree(digitsTree);
0832a2bf	157	fgClusterizer->InitParameters();
4601e3a7	158	fgClusterizer->SetOutput(clustersTree);
e853f058	159
916f1e76	160	AliEMCALTriggerData* trgData = new AliEMCALTriggerData();
	161
	162	Int_t bufferSize = 32000;
	163
	164	if (TBranch* triggerBranch = clustersTree->GetBranch("EMTRG"))
e853f058	165	triggerBranch->SetAddress(&trgData);
	166	else
	167	clustersTree->Branch("EMTRG","AliEMCALTriggerData",&trgData,bufferSize);
916f1e76	168
916f1e76	169	TClonesArray *trgDigits = new TClonesArray("AliEMCALRawDigit",1000);
	170	TBranch *branchdig = digitsTree->GetBranch("EMTRG");
	171	if (!branchdig)
	172	{
	173	AliError("Can't get the branch with the EMCAL trigger digits !");
	174	return;
	175	}
	176
	177	branchdig->SetAddress(&trgDigits);
	178	branchdig->GetEntry(0);
916f1e76	179
e853f058	180	//Skip clusterization of LED events
e853f058	181	if (GetRecParam()->GetEventSpecie()!=AliRecoParam::kCalib){
0341167b	182
e853f058	183	Int_t v0M[2] = {0,0};
	184	fgTriggerProcessor->Digits2Trigger(trgDigits, v0M, trgData);
	185
	186
	187	if(fgDigitsArr && fgDigitsArr->GetEntries()) {
85c25c2e	188
e853f058	189	fgClusterizer->SetInput(digitsTree);
9517d886	190
e853f058	191	if(Debug())
	192	fgClusterizer->Digits2Clusters("deb all") ;
	193	else
	194	fgClusterizer->Digits2Clusters("");
9517d886	195
e853f058	196	fgClusterizer->Clear();
9517d886	197
e853f058	198	}//digits array exists and has somethind
	199	}//not a LED event
	200
916f1e76	201	clustersTree->Fill();
e853f058	202	trgDigits->Delete();
	203	delete trgDigits; trgDigits = 0x0;
	204	delete trgData; trgData = 0x0;
916f1e76	205
f6019cda	206	}
f6019cda	207
a68156e6	208	//____________________________________________________________________________
c47157cd	209	void AliEMCALReconstructor::ConvertDigits(AliRawReader* rawReader, TTree* digitsTree) const
98e9578e	210
a68156e6	211	{
c47157cd	212	// Conversion from raw data to
	213	// EMCAL digits.
	214	// Works on a single-event basis
85c60a8e	215
98e9578e	216	rawReader->Reset() ;
98e9578e	217
3e5fa09c	218	TClonesArray *digitsArr = new TClonesArray("AliEMCALDigit",200);
916f1e76	219	TClonesArray *digitsTrg = new TClonesArray("AliEMCALRawDigit", 200);
916f1e76	220
c47157cd	221	Int_t bufsize = 32000;
c47157cd	222	digitsTree->Branch("EMCAL", &digitsArr, bufsize);
916f1e76	223	digitsTree->Branch("EMTRG", &digitsTrg, bufsize);
46f1d25f	224
e853f058	225	//Skip calibration events do the rest
	226	Bool_t doFit = kTRUE;
	227	if ( !(GetRecParam()->FitLEDEvents()) && GetRecParam()->GetEventSpecie()==AliRecoParam::kCalib) doFit = kFALSE;
	228	if (doFit){
	229	//must be done here because, in constructor, option is not yet known
	230	fgRawUtils->SetOption(GetOption());
	231
	232	fgRawUtils->SetRawFormatHighLowGainFactor(GetRecParam()->GetHighLowGainFactor());
	233	fgRawUtils->SetRawFormatOrder(GetRecParam()->GetOrderParameter());
	234	fgRawUtils->SetRawFormatTau(GetRecParam()->GetTau());
	235	fgRawUtils->SetNoiseThreshold(GetRecParam()->GetNoiseThreshold());
	236	fgRawUtils->SetNPedSamples(GetRecParam()->GetNPedSamples());
	237	fgRawUtils->SetRemoveBadChannels(GetRecParam()->GetRemoveBadChannels());
	238	fgRawUtils->SetFittingAlgorithm(GetRecParam()->GetFittingAlgorithm());
	239	fgRawUtils->SetFALTROUsage(GetRecParam()->UseFALTRO());
	240	fgRawUtils->SetTimeMin(GetRecParam()->GetTimeMin());
	241	fgRawUtils->SetTimeMax(GetRecParam()->GetTimeMax());
	242
	243	fgRawUtils->Raw2Digits(rawReader,digitsArr,fPedestalData,digitsTrg);
793176c1	244	}//skip calibration event
e853f058	245	else{
e853f058	246	AliDebug(1," Calibration Event, skip!");
e853f058	247	}
e853f058	248
c615db53	249	digitsTree->Fill();
89d338a6	250	digitsArr->Delete();
916f1e76	251	digitsTrg->Delete();
89d338a6	252	delete digitsArr;
916f1e76	253	delete digitsTrg;
c615db53	254
a68156e6	255	}
a68156e6	256
85c25c2e	257
f6019cda	258	//____________________________________________________________________________
0e7c6655	259	void AliEMCALReconstructor::FillESD(TTree* digitsTree, TTree* clustersTree,
c47157cd	260	AliESDEvent* esd) const
f6019cda	261	{
98e9578e	262	// Called by AliReconstruct after Reconstruct() and global tracking and vertexing
85c25c2e	263	// and V0
c47157cd	264	// Works on the current event
85c25c2e	265	// printf(" ## AliEMCALReconstructor::FillESD() is started ### \n ");
85c25c2e	266	//return;
92da3372	267
0e7c6655	268	//########################################
	269	//##############Fill CaloCells###############
	270	//########################################
aaa3cb7c	271
0e7c6655	272	TClonesArray *digits = new TClonesArray("AliEMCALDigit",1000);
	273	TBranch *branchdig = digitsTree->GetBranch("EMCAL");
	274	if (!branchdig) {
0c5b726e	275	AliError("can't get the branch with the EMCAL digits !");
0e7c6655	276	return;
	277	}
	278	branchdig->SetAddress(&digits);
	279	digitsTree->GetEvent(0);
	280	Int_t nDigits = digits->GetEntries(), idignew = 0 ;
	281	AliDebug(1,Form("%d digits",nDigits));
	282
	283	AliESDCaloCells &emcCells = *(esd->GetEMCALCells());
	284	emcCells.CreateContainer(nDigits);
	285	emcCells.SetType(AliESDCaloCells::kEMCALCell);
0c5b726e	286	Float_t energy = 0;
0e7c6655	287	for (Int_t idig = 0 ; idig < nDigits ; idig++) {
0e7c6655	288	const AliEMCALDigit * dig = (const AliEMCALDigit*)digits->At(idig);
829ba234	289	if(dig->GetAmplitude() > 0 ){
829ba234	290	energy = (static_cast<AliEMCALClusterizerv1*> (fgClusterizer))->Calibrate(dig->GetAmplitude(),dig->GetTime(),dig->GetId()); //TimeR or Time?
40164976	291	if(energy > 0){ //Digits tagged as bad (dead, hot, not alive) are set to 0 in calibrate, remove them
	292	emcCells.SetCell(idignew,dig->GetId(),energy, dig->GetTime());
	293	idignew++;
	294	}
0e7c6655	295	}
	296	}
	297	emcCells.SetNumberOfCells(idignew);
	298	emcCells.Sort();
	299
	300	//------------------------------------------------------------
	301	//-----------------CLUSTERS-----------------------------
	302	//------------------------------------------------------------
9dce5a21	303	clustersTree->SetBranchStatus("*",0); //disable all branches
	304	clustersTree->SetBranchStatus("EMCALECARP",1); //Enable only the branch we need
	305
0e7c6655	306	TObjArray *clusters = new TObjArray(100);
	307	TBranch *branch = clustersTree->GetBranch("EMCALECARP");
	308	branch->SetAddress(&clusters);
9dce5a21	309	branch->GetEntry(0);
9dce5a21	310	//clustersTree->GetEvent(0);
0e7c6655	311
	312	Int_t nClusters = clusters->GetEntries(), nClustersNew=0;
	313	AliDebug(1,Form("%d clusters",nClusters));
85c25c2e	314
6a0cf740	315	//######################################################
	316	//#######################TRACK MATCHING###############
	317	//######################################################
	318	//Fill list of integers, each one is index of track to which the cluster belongs.
	319
	320	// step 1 - initialize array of matched track indexes
	321	Int_t *matchedTrack = new Int_t[nClusters];
	322	for (Int_t iclus = 0; iclus < nClusters; iclus++)
	323	matchedTrack[iclus] = -1; // neg. index --> no matched track
	324
	325	// step 2, change the flag for all matched clusters found in tracks
	326	Int_t iemcalMatch = -1;
	327	Int_t endtpc = esd->GetNumberOfTracks();
	328	for (Int_t itrack = 0; itrack < endtpc; itrack++) {
	329	AliESDtrack * track = esd->GetTrack(itrack) ; // retrieve track
	330	iemcalMatch = track->GetEMCALcluster();
65f4a419	331	if(iemcalMatch >= 0) matchedTrack[iemcalMatch] = itrack;
6a0cf740	332	}
85c25c2e	333
6a0cf740	334	//########################################
85c25c2e	335	//##############Fill CaloClusters#############
6a0cf740	336	//########################################
5dee926e	337	for (Int_t iClust = 0 ; iClust < nClusters ; iClust++) {
c47157cd	338	const AliEMCALRecPoint * clust = (const AliEMCALRecPoint*)clusters->At(iClust);
8ada0ffe	339	//if(clust->GetClusterType()== AliESDCaloCluster::kEMCALClusterv1) nRP++; else nPC++;
85c60a8e	340	if (Debug()) clust->Print();
a7a5421e	341	// Get information from EMCAL reconstruction points
85c60a8e	342	Float_t xyz[3];
5dee926e	343	TVector3 gpos;
5dee926e	344	clust->GetGlobalPosition(gpos);
35397e76	345	for (Int_t ixyz=0; ixyz<3; ixyz++)
5dee926e	346	xyz[ixyz] = gpos[ixyz];
85c25c2e	347	Float_t elipAxis[2];
85c25c2e	348	clust->GetElipsAxis(elipAxis);
35397e76	349	//Create digits lists
	350	Int_t cellMult = clust->GetMultiplicity();
	351	//TArrayS digiList(digitMult);
	352	Float_t *amplFloat = clust->GetEnergiesList();
	353	Int_t *digitInts = clust->GetAbsId();
	354	TArrayS absIdList(cellMult);
eb972628	355	TArrayD fracList(cellMult);
35397e76	356
	357	Int_t newCellMult = 0;
	358	for (Int_t iCell=0; iCell<cellMult; iCell++) {
	359	if (amplFloat[iCell] > 0) {
	360	absIdList[newCellMult] = (UShort_t)(digitInts[iCell]);
eb972628	361	//Uncomment when unfolding is done
	362	//if(emcCells.GetCellAmplitude(digitInts[iCell])>0)
	363	//fracList[newCellMult] = amplFloat[iCell]/(emcCells.GetCellAmplitude(digitInts[iCell])*calibration);//get cell calibration value
	364	//else
	365	fracList[newCellMult] = 0;
35397e76	366	newCellMult++;
92da3372	367	}
92da3372	368	}
85c25c2e	369
eb972628	370	absIdList.Set(newCellMult);
	371	fracList.Set(newCellMult);
	372
35397e76	373	if(newCellMult > 0) { // accept cluster if it has some digit
35397e76	374	nClustersNew++;
65721814	375	//Primaries
7592dfc4	376	Int_t parentMult = 0;
fa42b1f3	377	Int_t *parentList = clust->GetParents(parentMult);
a7a5421e	378	// fills the ESDCaloCluster
35397e76	379	AliESDCaloCluster * ec = new AliESDCaloCluster() ;
35397e76	380	ec->SetClusterType(AliESDCaloCluster::kEMCALClusterv1);
7592dfc4	381	ec->SetPosition(xyz);
7592dfc4	382	ec->SetE(clust->GetEnergy());
40164976	383
	384	//Distance to the nearest bad crystal
	385	ec->SetDistanceToBadChannel(clust->GetDistanceToBadTower());
	386
35397e76	387	ec->SetNCells(newCellMult);
	388	//Change type of list from short to ushort
	389	UShort_t *newAbsIdList = new UShort_t[newCellMult];
eb972628	390	Double_t *newFracList = new Double_t[newCellMult];
35397e76	391	for(Int_t i = 0; i < newCellMult ; i++) {
35397e76	392	newAbsIdList[i]=absIdList[i];
eb972628	393	newFracList[i]=fracList[i];
35397e76	394	}
35397e76	395	ec->SetCellsAbsId(newAbsIdList);
eb972628	396	ec->SetCellsAmplitudeFraction(newFracList);
35397e76	397	ec->SetClusterDisp(clust->GetDispersion());
	398	ec->SetClusterChi2(-1); //not yet implemented
	399	ec->SetM02(elipAxis[0]*elipAxis[0]) ;
	400	ec->SetM20(elipAxis[1]*elipAxis[1]) ;
78902954	401	ec->SetTOF(clust->GetTime()) ; //time-of-fligh
225cd96d	402	ec->SetNExMax(clust->GetNExMax()); //number of local maxima
35397e76	403	TArrayI arrayTrackMatched(1);// Only one track, temporal solution.
	404	arrayTrackMatched[0]= matchedTrack[iClust];
	405	ec->AddTracksMatched(arrayTrackMatched);
	406
	407	TArrayI arrayParents(parentMult,parentList);
	408	ec->AddLabels(arrayParents);
	409
6a0cf740	410	// add the cluster to the esd object
eb972628	411	esd->AddCaloCluster(ec);
a7a5421e	412	delete ec;
85d4cbde	413	delete [] newAbsIdList ;
eb972628	414	delete [] newFracList ;
35397e76	415	}
35397e76	416	} // cycle on clusters
85c25c2e	417
35397e76	418	delete [] matchedTrack;
85c25c2e	419
35397e76	420	//Fill ESDCaloCluster with PID weights
1942834a	421	AliEMCALPID *pid = new AliEMCALPID;
	422	//pid->SetPrintInfo(kTRUE);
	423	pid->SetReconstructor(kTRUE);
	424	pid->RunPID(esd);
	425	delete pid;
eb972628	426
1942834a	427	delete digits;
1942834a	428	delete clusters;
eb972628	429
1942834a	430	//Store EMCAL misalignment matrixes
1942834a	431	FillMisalMatrixes(esd) ;
0c5b726e	432
	433	}
	434
	435	//==================================================================================
	436	void AliEMCALReconstructor::FillMisalMatrixes(AliESDEvent* esd)const{
	437	//Store EMCAL matrixes in ESD Header
	438
	439	//Check, if matrixes was already stored
cb8a44fb	440	for(Int_t sm = 0 ; sm < fGeom->GetNumberOfSuperModules(); sm++){
0c5b726e	441	if(esd->GetEMCALMatrix(sm)!=0)
	442	return ;
	443	}
	444
	445	//Create and store matrixes
	446	if(!gGeoManager){
	447	AliError("Can not store misal. matrixes: no gGeoManager! \n") ;
	448	return ;
	449	}
	450	//Note, that owner of copied marixes will be header
	451	char path[255] ;
5e3106bc	452	TGeoHMatrix * m = 0x0;
cb8a44fb	453	for(Int_t sm = 0; sm < fGeom->GetNumberOfSuperModules(); sm++){
0c5b726e	454	sprintf(path,"/ALIC_1/XEN1_1/SMOD_%d",sm+1) ; //In Geometry modules numbered 1,2,.,5
	455	if(sm >= 10) sprintf(path,"/ALIC_1/XEN1_1/SM10_%d",sm-10+1) ;
	456
9ddc5deb	457	if (gGeoManager->CheckPath(path)){
cb8a44fb	458	gGeoManager->cd(path);
0c5b726e	459	m = gGeoManager->GetCurrentMatrix() ;
cb8a44fb	460	// printf("================================================= \n");
	461	// printf("AliEMCALReconstructor::FixMisalMatrixes(), sm %d, \n",sm);
	462	// m->Print("");
0c5b726e	463	esd->SetEMCALMatrix(new TGeoHMatrix(*m),sm) ;
cb8a44fb	464	// printf("================================================= \n");
0c5b726e	465	}
	466	else{
	467	esd->SetEMCALMatrix(NULL,sm) ;
	468	}
	469	}
f6019cda	470	}
dc293ae9	471
0c5b726e	472
0c5b726e	473
9517d886	474	//__________________________________________________________________________
85c25c2e	475	void AliEMCALReconstructor::ReadDigitsArrayFromTree(TTree *digitsTree) const
	476	{
	477	// See AliEMCALClusterizer::SetInput(TTree *digitsTree);
	478	if(fgDigitsArr) {
	479	// Clear previous digits
	480	fgDigitsArr->Delete();
	481	delete fgDigitsArr;
	482	}
	483	// Read the digits from the input tree
	484	TBranch *branch = digitsTree->GetBranch("EMCAL");
	485	if (!branch) {
	486	AliError("can't get the branch with the EMCAL digits !");
	487	return;
	488	}
	489	fgDigitsArr = new TClonesArray("AliEMCALDigit",100);
	490	branch->SetAddress(&fgDigitsArr);
	491	branch->GetEntry(0);
	492	}
98e9578e	493
916f1e76	494