[u/mrichter/AliRoot.git] / PWG4 / CaloCalib / AliAnalysisTaskEMCALClusterize.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: $ */

//_________________________________________________________________________
// This analysis provides a new list of clusters to be used in other analysis
//
// Author: Gustavo Conesa Balbastre,
//         Adapted from analysis class from Deepa Thomas
//
//
//_________________________________________________________________________

// --- Root ---
#include "TString.h"
#include "TRefArray.h"
#include "TClonesArray.h"
#include "TTree.h"
#include "TGeoManager.h"

// --- AliRoot Analysis Steering
#include "AliAnalysisTask.h"
#include "AliAnalysisManager.h"
#include "AliESDEvent.h"
#include "AliGeomManager.h"
#include "AliVCaloCells.h"
#include "AliAODCaloCluster.h"
#include "AliCDBManager.h"
#include "AliCDBStorage.h"
#include "AliCDBEntry.h"
#include "AliLog.h"
#include "AliVEventHandler.h"

// --- EMCAL
#include "AliEMCALRecParam.h"
#include "AliEMCALAfterBurnerUF.h"
#include "AliEMCALGeometry.h"
#include "AliEMCALClusterizerNxN.h"
#include "AliEMCALClusterizerv1.h"
#include "AliEMCALRecPoint.h"
#include "AliEMCALDigit.h"
#include "AliCaloCalibPedestal.h"
#include "AliEMCALCalibData.h"

#include "AliAnalysisTaskEMCALClusterize.h"

ClassImp(AliAnalysisTaskEMCALClusterize)

//________________________________________________________________________
AliAnalysisTaskEMCALClusterize::AliAnalysisTaskEMCALClusterize(const char *name) 
  : AliAnalysisTaskSE(name)
  , fGeom(0), fGeomName("EMCAL_FIRSTYEARV1"),  fGeomMatrixSet(kFALSE), fLoadGeomMatrices(kFALSE)
  , fCalibData(0),       fPedestalData(0),     fOCDBpath("raw://")
  , fDigitsArr(0),       fClusterArr(0),       fCaloClusterArr(0)
  , fRecParam(0),        fClusterizer(0),      fUnfolder(0),           fJustUnfold(kFALSE) 
  , fOutputAODBranch(0), fOutputAODBranchName("newEMCALClusters"),     fFillAODFile(kTRUE)
  
  {
  //ctor
  for(Int_t i = 0; i < 10; i++) fGeomMatrix[i] = 0 ;
  fDigitsArr       = new TClonesArray("AliEMCALDigit",200);
  fClusterArr      = new TObjArray(100);
  fCaloClusterArr  = new TObjArray(100);
  fRecParam        = new AliEMCALRecParam;
  fBranchNames="ESD:EMCALCells.";
}

//________________________________________________________________________
AliAnalysisTaskEMCALClusterize::AliAnalysisTaskEMCALClusterize() 
  : AliAnalysisTaskSE("DefaultAnalysis_AliAnalysisTaskEMCALClusterize")
  , fGeom(0), fGeomName("EMCAL_FIRSTYEARV1"),  fGeomMatrixSet(kFALSE), fLoadGeomMatrices(kFALSE)
  , fCalibData(0),       fPedestalData(0),     fOCDBpath("raw://")
  , fDigitsArr(0),       fClusterArr(0),       fCaloClusterArr(0)
  , fRecParam(0),        fClusterizer(0),      fUnfolder(0),           fJustUnfold(kFALSE)
  , fOutputAODBranch(0), fOutputAODBranchName("newEMCALClusters"),     fFillAODFile(kFALSE)
{
  // Constructor
  for(Int_t i = 0; i < 10; i++) fGeomMatrix[i] = 0 ;
  fDigitsArr       = new TClonesArray("AliEMCALDigit",200);
  fClusterArr      = new TObjArray(100);
  fCaloClusterArr  = new TObjArray(100);
  fRecParam        = new AliEMCALRecParam;
  fBranchNames="ESD:EMCALCells.";
}

//________________________________________________________________________
AliAnalysisTaskEMCALClusterize::~AliAnalysisTaskEMCALClusterize()
{
  //dtor 
  
  if (fDigitsArr){
    fDigitsArr->Clear("C");
    delete fDigitsArr; 
  }
  
  if (fClusterArr){
    fClusterArr->Delete();
    delete fClusterArr;
  }
  
  if (fCaloClusterArr){
    fCaloClusterArr->Delete();
    delete fCaloClusterArr; 
  }

  if(fClusterizer) {delete fClusterizer;}
  if(fGeom)        {delete fGeom;       }
  if(fUnfolder)    {delete fUnfolder;   }

}

//-------------------------------------------------------------------
void AliAnalysisTaskEMCALClusterize::UserCreateOutputObjects()
{
  // Init geometry, create list of output clusters
  
  fGeom =  AliEMCALGeometry::GetInstance(fGeomName) ;	

  fOutputAODBranch = new TClonesArray("AliAODCaloCluster", 0);
  fOutputAODBranch->SetName(fOutputAODBranchName);
  AddAODBranch("TClonesArray", &fOutputAODBranch);
  Info("UserCreateOutputObjects","Create Branch: %s",fOutputAODBranchName.Data());
}

//________________________________________________________________________
void AliAnalysisTaskEMCALClusterize::UserExec(Option_t *) 
{
  // Main loop
  // Called for each event
  
  //Remove the contents of output list set in the previous event 
  fOutputAODBranch->Clear("C");
  
  AliVEvent * event = InputEvent();
  if (!event) {
    Error("UserExec","Event not available");
    return;
  }
  
  //Magic line to write events to AOD file
  AliAnalysisManager::GetAnalysisManager()->GetOutputEventHandler()->SetFillAOD(fFillAODFile);
  LoadBranches();

  //-------------------------------------------------------------------------------------
  //Set the geometry matrix, for the first event, skip the rest
  //-------------------------------------------------------------------------------------
  if(!fGeomMatrixSet){
    if(fLoadGeomMatrices){
      for(Int_t mod=0; mod < (fGeom->GetEMCGeometry())->GetNumberOfSuperModules(); mod++){
        if(fGeomMatrix[mod]){
          if(DebugLevel() > 1) 
            fGeomMatrix[mod]->Print();
          fGeom->SetMisalMatrix(fGeomMatrix[mod],mod) ;  
        }
        fGeomMatrixSet=kTRUE;
      }//SM loop
    }//Load matrices
    else if(!gGeoManager){
      Info("UserExec","Get geo matrices from data");
      //Still not implemented in AOD, just a workaround to be able to work at least with ESDs	
      if(!strcmp(event->GetName(),"AliAODEvent")) {
        if(DebugLevel() > 1) 
          Warning("UserExec","Use ideal geometry, values geometry matrix not kept in AODs.");
      }//AOD
      else {	
        if(DebugLevel() > 1) 
          Info("UserExec","AliAnalysisTaskEMCALClusterize Load Misaligned matrices.");
        AliESDEvent* esd = dynamic_cast<AliESDEvent*>(event) ;
        if(!esd) {
          Error("UserExec","This event does not contain ESDs?");
          return;
        }
        for(Int_t mod=0; mod < (fGeom->GetEMCGeometry())->GetNumberOfSuperModules(); mod++){
          if(DebugLevel() > 1) 
            esd->GetEMCALMatrix(mod)->Print();
          if(esd->GetEMCALMatrix(mod)) fGeom->SetMisalMatrix(esd->GetEMCALMatrix(mod),mod) ;
        } 
        fGeomMatrixSet=kTRUE;
      }//ESD
    }//Load matrices from Data 
  }//first event

  //Get the list of cells needed for unfolding and reclustering
  AliVCaloCells *cells= event->GetEMCALCells();
  Int_t nClustersOrg = 0;
  //-------------------------------------------
  //---------Unfolding clusters----------------
  //-------------------------------------------
  if (fJustUnfold) {
    
    //Fill the array with the EMCAL clusters, copy them
    for (Int_t i = 0; i < event->GetNumberOfCaloClusters(); i++)
    {
      AliVCluster *clus = event->GetCaloCluster(i);
      if(clus->IsEMCAL()){        
        //printf("Org Cluster %d, E %f\n",i, clus->E());
        AliESDCaloCluster * esdCluster = dynamic_cast<AliESDCaloCluster*> (clus);
        AliAODCaloCluster * aodCluster = dynamic_cast<AliAODCaloCluster*> (clus);
        if     (esdCluster){
          fCaloClusterArr->Add( new AliESDCaloCluster(*esdCluster) );   
        }//ESD
        else if(aodCluster){
          fCaloClusterArr->Add( new AliAODCaloCluster(*aodCluster) );   
        }//AOD
        else 
          Warning("UserExec()"," - Wrong CaloCluster type?");
        nClustersOrg++;
      }
    }
    
    //Do the unfolding
    fUnfolder->UnfoldClusters(fCaloClusterArr, cells);
    
    //CLEAN-UP
    fUnfolder->Clear();
    
    //printf("nClustersOrg %d\n",nClustersOrg);
  }
  //-------------------------------------------
  //---------- Recluster cells ----------------
  //-------------------------------------------
  
  else{
    //-------------------------------------------------------------------------------------
    //Transform CaloCells into Digits
    //-------------------------------------------------------------------------------------
    Int_t idigit =  0;
    Int_t id     = -1;
    Float_t amp  = -1; 
    Float_t time = -1; 
    
    Double_t cellAmplitude = 0;
    Double_t cellTime      = 0;
    Short_t  cellNumber    = 0;
        
    TTree *digitsTree = new TTree("digitstree","digitstree");
    digitsTree->Branch("EMCAL","TClonesArray", &fDigitsArr, 32000);
    
    for (Int_t icell = 0; icell < cells->GetNumberOfCells(); icell++)
    {
      if (cells->GetCell(icell, cellNumber, cellAmplitude, cellTime) != kTRUE)
        break;
      
      time = cellTime;
      amp  = cellAmplitude;
      id   = cellNumber;
      
      AliEMCALDigit *digit = (AliEMCALDigit*) fDigitsArr->New(idigit);
      digit->SetId(id);
      digit->SetAmplitude(amp);
      digit->SetTime(time);
      digit->SetTimeR(time);
      digit->SetIndexInList(idigit);
      digit->SetType(AliEMCALDigit::kHG);
      //if(Entry()==0) printf("Digit: Id %d, amp %f, time %e, index %d\n",id, amp,time,idigit);
      idigit++;
    }
    
    //Fill the tree with digits
    digitsTree->Fill();
    
    //-------------------------------------------------------------------------------------
    //Do the clusterization
    //-------------------------------------------------------------------------------------        
    TTree *clustersTree = new TTree("clustertree","clustertree");

    fClusterizer->SetInput(digitsTree);
    fClusterizer->SetOutput(clustersTree);
    fClusterizer->Digits2Clusters("");
    
    //-------------------------------------------------------------------------------------
    //Transform the recpoints into AliVClusters
    //-------------------------------------------------------------------------------------
    
    clustersTree->SetBranchStatus("*",0); //disable all branches
    clustersTree->SetBranchStatus("EMCALECARP",1); //Enable only the branch we need
    
    TBranch *branch = clustersTree->GetBranch("EMCALECARP");
    branch->SetAddress(&fClusterArr);
    branch->GetEntry(0);
    
    RecPoints2Clusters(fDigitsArr, fClusterArr, fCaloClusterArr);
    
    //---CLEAN UP-----
    fClusterizer->Clear();
    fDigitsArr  ->Clear("C");
    fClusterArr ->Delete(); // Do not Clear(), it leaks, why?

    clustersTree->Delete("all");
    digitsTree  ->Delete("all");
  }
  
  //-------------------------------------------------------------------------------------
  //Put the new clusters in the AOD list
  //-------------------------------------------------------------------------------------
  
  Int_t kNumberOfCaloClusters   = fCaloClusterArr->GetEntries();
  //Info("UserExec","New clusters %d",kNumberOfCaloClusters);
  //if(nClustersOrg!=kNumberOfCaloClusters) Info("UserExec","Different number: Org %d, New %d\n",nClustersOrg,kNumberOfCaloClusters);
  for(Int_t i = 0; i < kNumberOfCaloClusters; i++){
    AliAODCaloCluster *newCluster = (AliAODCaloCluster *) fCaloClusterArr->At(i);
    //if(Entry()==0) Info("UserExec","newCluster E %f\n", newCluster->E());
    new((*fOutputAODBranch)[i])  AliAODCaloCluster(*newCluster);
  }
  
  //---CLEAN UP-----
  fCaloClusterArr->Delete(); // Do not Clear(), it leaks, why?
}      

//_____________________________________________________________________
Bool_t AliAnalysisTaskEMCALClusterize::UserNotify()
{
  //Access to OCDB stuff
  if(DebugLevel() > 1 )
    Info("UserNotify()"," Begin");
  AliVEvent * event = InputEvent();
  if (event)
  {
    fGeom = AliEMCALGeometry::GetInstance(fGeomName);
    AliCDBManager *cdb = AliCDBManager::Instance();
    cdb->SetDefaultStorage(fOCDBpath.Data());
    cdb->SetRun(event->GetRunNumber());
    //
    // EMCAL from RAW OCDB
    if (fOCDBpath.Contains("alien:"))
    {
      cdb->SetSpecificStorage("EMCAL/Calib/Data","alien://Folder=/alice/data/2010/OCDB");
      cdb->SetSpecificStorage("EMCAL/Calib/Pedestals","alien://Folder=/alice/data/2010/OCDB");
    }
    TString path = cdb->GetDefaultStorage()->GetBaseFolder();
    
    // init parameters:
    //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!");
    
    //      cout << "[i] Change of run number: " << fAOD->GetRunNumber() << endl;
    InitClusterization();
  }
  else
  {
    Warning("UserNotify","Event not available!!!");
  }

  return kTRUE;
}

//________________________________________________________________________________________
void AliAnalysisTaskEMCALClusterize::InitClusterization()
{
  //Select clusterization/unfolding algorithm and set all the needed parameters
  
  if(!fJustUnfold){
    
    //First init the clusterizer
    if     (fRecParam->GetClusterizerFlag() == AliEMCALRecParam::kClusterizerv1)
      fClusterizer = new AliEMCALClusterizerv1 (fGeom, fCalibData, fPedestalData);
    else if(fRecParam->GetClusterizerFlag() == AliEMCALRecParam::kClusterizerNxN)
      fClusterizer = new AliEMCALClusterizerNxN(fGeom, fCalibData, fPedestalData);
    else{
      AliFatal(Form("Clusterizer < %d > not available", fRecParam->GetClusterizerFlag()));
    }
    
    //Now set the parameters
    fClusterizer->SetECAClusteringThreshold( fRecParam->GetClusteringThreshold() );
    fClusterizer->SetECALogWeight          ( fRecParam->GetW0()                  );
    fClusterizer->SetMinECut               ( fRecParam->GetMinECut()             );    
    fClusterizer->SetUnfolding             ( fRecParam->GetUnfold()              );
    fClusterizer->SetECALocalMaxCut        ( fRecParam->GetLocMaxCut()           );
    fClusterizer->SetTimeCut               ( fRecParam->GetTimeCut()             );
    fClusterizer->SetTimeMin               ( fRecParam->GetTimeMin()             );
    fClusterizer->SetTimeMax               ( fRecParam->GetTimeMax()             );
    fClusterizer->SetInputCalibrated       ( kTRUE                               );
    
    //In case of unfolding after clusterization is requested, set the corresponding parameters
    if(fRecParam->GetUnfold()){
      
      Int_t i=0;
      for (i = 0; i < 8; i++) {
        fClusterizer->SetSSPars(i, fRecParam->GetSSPars(i));
      }//end of loop over parameters
      for (i = 0; i < 3; i++) {
        fClusterizer->SetPar5  (i, fRecParam->GetPar5(i));
        fClusterizer->SetPar6  (i, fRecParam->GetPar6(i));
      }//end of loop over parameters
      
      fClusterizer->InitClusterUnfolding();
            
    }// to unfold
    
  }else{
    //Now init the unfolding afterburner 
    fUnfolder =  new AliEMCALAfterBurnerUF(fRecParam->GetW0(),fRecParam->GetLocMaxCut());
 }
}

//________________________________________________________________________________________
void AliAnalysisTaskEMCALClusterize::RecPoints2Clusters(TClonesArray *digitsArr, TObjArray *recPoints, TObjArray *clusArray)
{
  // Restore clusters from recPoints
  // Cluster energy, global position, cells and their amplitude fractions are restored
  
  for(Int_t i = 0; i < recPoints->GetEntriesFast(); i++)
  {
    AliEMCALRecPoint *recPoint = (AliEMCALRecPoint*) recPoints->At(i);
    
    const Int_t ncells = recPoint->GetMultiplicity();
    Int_t ncells_true = 0;
    
    // cells and their amplitude fractions
    UShort_t   absIds[ncells];  
    Double32_t ratios[ncells];
    
    for (Int_t c = 0; c < ncells; c++) {
      AliEMCALDigit *digit = (AliEMCALDigit*) digitsArr->At(recPoint->GetDigitsList()[c]);
      
      absIds[ncells_true] = digit->GetId();
      ratios[ncells_true] = recPoint->GetEnergiesList()[c]/digit->GetAmplitude();
      
      if (ratios[ncells_true] > 0.001) ncells_true++;
    }
    
    if (ncells_true < 1) {
      Warning("AliAnalysisTaskEMCALClusterize::RecPoints2Clusters", "skipping cluster with no cells");
      continue;
    }
    
    TVector3 gpos;
    Float_t g[3];
    
    // calculate new cluster position
    recPoint->EvalGlobalPosition(fRecParam->GetW0(), digitsArr);
    recPoint->GetGlobalPosition(gpos);
    gpos.GetXYZ(g);
    
    // create a new cluster
    AliAODCaloCluster *clus = new AliAODCaloCluster();
    clus->SetType(AliVCluster::kEMCALClusterv1);
    clus->SetE(recPoint->GetEnergy());
    clus->SetPosition(g);
    clus->SetNCells(ncells_true);
    clus->SetCellsAbsId(absIds);
    clus->SetCellsAmplitudeFraction(ratios);
    clus->SetDispersion(recPoint->GetDispersion());
    clus->SetChi2(-1); //not yet implemented
    clus->SetTOF(recPoint->GetTime()) ; //time-of-fligh
    clus->SetNExMax(recPoint->GetNExMax()); //number of local maxima
    Float_t elipAxis[2];
    recPoint->GetElipsAxis(elipAxis);
    clus->SetM02(elipAxis[0]*elipAxis[0]) ;
    clus->SetM20(elipAxis[1]*elipAxis[1]) ;

    clusArray->Add(clus);
  } // recPoints loop
}
Commit	Line	Data
6fdd30c4	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	/* $Id: $ */
	16
	17	//_________________________________________________________________________
	18	// This analysis provides a new list of clusters to be used in other analysis
	19	//
	20	// Author: Gustavo Conesa Balbastre,
	21	// Adapted from analysis class from Deepa Thomas
	22	//
	23	//
	24	//_________________________________________________________________________
	25
	26	// --- Root ---
	27	#include "TString.h"
	28	#include "TRefArray.h"
	29	#include "TClonesArray.h"
	30	#include "TTree.h"
	31	#include "TGeoManager.h"
	32
	33	// --- AliRoot Analysis Steering
	34	#include "AliAnalysisTask.h"
	35	#include "AliAnalysisManager.h"
	36	#include "AliESDEvent.h"
	37	#include "AliGeomManager.h"
	38	#include "AliVCaloCells.h"
	39	#include "AliAODCaloCluster.h"
	40	#include "AliCDBManager.h"
	41	#include "AliCDBStorage.h"
	42	#include "AliCDBEntry.h"
	43	#include "AliLog.h"
	44	#include "AliVEventHandler.h"
	45
	46	// --- EMCAL
	47	#include "AliEMCALRecParam.h"
	48	#include "AliEMCALAfterBurnerUF.h"
	49	#include "AliEMCALGeometry.h"
	50	#include "AliEMCALClusterizerNxN.h"
	51	#include "AliEMCALClusterizerv1.h"
	52	#include "AliEMCALRecPoint.h"
	53	#include "AliEMCALDigit.h"
	54	#include "AliCaloCalibPedestal.h"
	55	#include "AliEMCALCalibData.h"
	56
	57	#include "AliAnalysisTaskEMCALClusterize.h"
	58
	59	ClassImp(AliAnalysisTaskEMCALClusterize)
	60
	61	//________________________________________________________________________
	62	AliAnalysisTaskEMCALClusterize::AliAnalysisTaskEMCALClusterize(const char *name)
	63	: AliAnalysisTaskSE(name)
	64	, fGeom(0), fGeomName("EMCAL_FIRSTYEARV1"), fGeomMatrixSet(kFALSE), fLoadGeomMatrices(kFALSE)
65	, fCalibData(0), fPedestalData(0), fOCDBpath("raw://")
66	, fDigitsArr(0), fClusterArr(0), fCaloClusterArr(0)
67	, fRecParam(0), fClusterizer(0), fUnfolder(0), fJustUnfold(kFALSE)
68	, fOutputAODBranch(0), fOutputAODBranchName("newEMCALClusters"), fFillAODFile(kTRUE)
69
70	{
71	//ctor
72	for(Int_t i = 0; i < 10; i++) fGeomMatrix[i] = 0 ;
73	fDigitsArr = new TClonesArray("AliEMCALDigit",200);
74	fClusterArr = new TObjArray(100);
75	fCaloClusterArr = new TObjArray(100);
76	fRecParam = new AliEMCALRecParam;
3fa4fb85	77	fBranchNames="ESD:EMCALCells.";
6fdd30c4	78	}
	79
	80	//________________________________________________________________________
	81	AliAnalysisTaskEMCALClusterize::AliAnalysisTaskEMCALClusterize()
	82	: AliAnalysisTaskSE("DefaultAnalysis_AliAnalysisTaskEMCALClusterize")
	83	, fGeom(0), fGeomName("EMCAL_FIRSTYEARV1"), fGeomMatrixSet(kFALSE), fLoadGeomMatrices(kFALSE)
	84	, fCalibData(0), fPedestalData(0), fOCDBpath("raw://")
	85	, fDigitsArr(0), fClusterArr(0), fCaloClusterArr(0)
542e1379	86	, fRecParam(0), fClusterizer(0), fUnfolder(0), fJustUnfold(kFALSE)
6fdd30c4	87	, fOutputAODBranch(0), fOutputAODBranchName("newEMCALClusters"), fFillAODFile(kFALSE)
	88	{
	89	// Constructor
	90	for(Int_t i = 0; i < 10; i++) fGeomMatrix[i] = 0 ;
	91	fDigitsArr = new TClonesArray("AliEMCALDigit",200);
	92	fClusterArr = new TObjArray(100);
	93	fCaloClusterArr = new TObjArray(100);
	94	fRecParam = new AliEMCALRecParam;
3fa4fb85	95	fBranchNames="ESD:EMCALCells.";
6fdd30c4	96	}
	97
	98	//________________________________________________________________________
	99	AliAnalysisTaskEMCALClusterize::~AliAnalysisTaskEMCALClusterize()
	100	{
	101	//dtor
	102
	103	if (fDigitsArr){
	104	fDigitsArr->Clear("C");
542e1379	105	delete fDigitsArr;
6fdd30c4	106	}
	107
	108	if (fClusterArr){
	109	fClusterArr->Delete();
542e1379	110	delete fClusterArr;
6fdd30c4	111	}
	112
	113	if (fCaloClusterArr){
	114	fCaloClusterArr->Delete();
542e1379	115	delete fCaloClusterArr;
6fdd30c4	116	}
6fdd30c4	117
542e1379	118	if(fClusterizer) {delete fClusterizer;}
	119	if(fGeom) {delete fGeom; }
	120	if(fUnfolder) {delete fUnfolder; }
6fdd30c4	121
	122	}
	123
	124	//-------------------------------------------------------------------
	125	void AliAnalysisTaskEMCALClusterize::UserCreateOutputObjects()
	126	{
	127	// Init geometry, create list of output clusters
	128
	129	fGeom = AliEMCALGeometry::GetInstance(fGeomName) ;
	130
	131	fOutputAODBranch = new TClonesArray("AliAODCaloCluster", 0);
	132	fOutputAODBranch->SetName(fOutputAODBranchName);
	133	AddAODBranch("TClonesArray", &fOutputAODBranch);
3fa4fb85	134	Info("UserCreateOutputObjects","Create Branch: %s",fOutputAODBranchName.Data());
6fdd30c4	135	}
	136
	137	//________________________________________________________________________
	138	void AliAnalysisTaskEMCALClusterize::UserExec(Option_t *)
	139	{
	140	// Main loop
	141	// Called for each event
	142
6fdd30c4	143	//Remove the contents of output list set in the previous event
	144	fOutputAODBranch->Clear("C");
	145
	146	AliVEvent * event = InputEvent();
	147	if (!event) {
3fa4fb85	148	Error("UserExec","Event not available");
6fdd30c4	149	return;
	150	}
	151
	152	//Magic line to write events to AOD file
	153	AliAnalysisManager::GetAnalysisManager()->GetOutputEventHandler()->SetFillAOD(fFillAODFile);
3fa4fb85	154	LoadBranches();
3fa4fb85	155
6fdd30c4	156	//-------------------------------------------------------------------------------------
	157	//Set the geometry matrix, for the first event, skip the rest
	158	//-------------------------------------------------------------------------------------
	159	if(!fGeomMatrixSet){
	160	if(fLoadGeomMatrices){
	161	for(Int_t mod=0; mod < (fGeom->GetEMCGeometry())->GetNumberOfSuperModules(); mod++){
	162	if(fGeomMatrix[mod]){
	163	if(DebugLevel() > 1)
	164	fGeomMatrix[mod]->Print();
	165	fGeom->SetMisalMatrix(fGeomMatrix[mod],mod) ;
	166	}
	167	fGeomMatrixSet=kTRUE;
	168	}//SM loop
	169	}//Load matrices
	170	else if(!gGeoManager){
3fa4fb85	171	Info("UserExec","Get geo matrices from data");
6fdd30c4	172	//Still not implemented in AOD, just a workaround to be able to work at least with ESDs
	173	if(!strcmp(event->GetName(),"AliAODEvent")) {
	174	if(DebugLevel() > 1)
3fa4fb85	175	Warning("UserExec","Use ideal geometry, values geometry matrix not kept in AODs.");
6fdd30c4	176	}//AOD
6fdd30c4	177	else {
3fa4fb85	178	if(DebugLevel() > 1)
3fa4fb85	179	Info("UserExec","AliAnalysisTaskEMCALClusterize Load Misaligned matrices.");
6fdd30c4	180	AliESDEvent* esd = dynamic_cast<AliESDEvent*>(event) ;
6fdd30c4	181	if(!esd) {
3fa4fb85	182	Error("UserExec","This event does not contain ESDs?");
6fdd30c4	183	return;
	184	}
	185	for(Int_t mod=0; mod < (fGeom->GetEMCGeometry())->GetNumberOfSuperModules(); mod++){
	186	if(DebugLevel() > 1)
	187	esd->GetEMCALMatrix(mod)->Print();
	188	if(esd->GetEMCALMatrix(mod)) fGeom->SetMisalMatrix(esd->GetEMCALMatrix(mod),mod) ;
	189	}
	190	fGeomMatrixSet=kTRUE;
	191	}//ESD
	192	}//Load matrices from Data
	193	}//first event
	194
	195	//Get the list of cells needed for unfolding and reclustering
	196	AliVCaloCells *cells= event->GetEMCALCells();
	197	Int_t nClustersOrg = 0;
	198	//-------------------------------------------
	199	//---------Unfolding clusters----------------
	200	//-------------------------------------------
	201	if (fJustUnfold) {
	202
	203	//Fill the array with the EMCAL clusters, copy them
	204	for (Int_t i = 0; i < event->GetNumberOfCaloClusters(); i++)
	205	{
	206	AliVCluster *clus = event->GetCaloCluster(i);
	207	if(clus->IsEMCAL()){
3fa4fb85	208	//printf("Org Cluster %d, E %f\n",i, clus->E());
e615d952	209	AliESDCaloCluster * esdCluster = dynamic_cast<AliESDCaloCluster*> (clus);
	210	AliAODCaloCluster * aodCluster = dynamic_cast<AliAODCaloCluster*> (clus);
	211	if (esdCluster){
	212	fCaloClusterArr->Add( new AliESDCaloCluster(*esdCluster) );
6fdd30c4	213	}//ESD
e615d952	214	else if(aodCluster){
e615d952	215	fCaloClusterArr->Add( new AliAODCaloCluster(*aodCluster) );
6fdd30c4	216	}//AOD
3fa4fb85	217	else
3fa4fb85	218	Warning("UserExec()"," - Wrong CaloCluster type?");
6fdd30c4	219	nClustersOrg++;
	220	}
	221	}
	222
	223	//Do the unfolding
	224	fUnfolder->UnfoldClusters(fCaloClusterArr, cells);
	225
	226	//CLEAN-UP
	227	fUnfolder->Clear();
	228
	229	//printf("nClustersOrg %d\n",nClustersOrg);
	230	}
	231	//-------------------------------------------
	232	//---------- Recluster cells ----------------
	233	//-------------------------------------------
	234
	235	else{
	236	//-------------------------------------------------------------------------------------
	237	//Transform CaloCells into Digits
	238	//-------------------------------------------------------------------------------------
	239	Int_t idigit = 0;
	240	Int_t id = -1;
	241	Float_t amp = -1;
	242	Float_t time = -1;
	243
	244	Double_t cellAmplitude = 0;
	245	Double_t cellTime = 0;
	246	Short_t cellNumber = 0;
	247
	248	TTree *digitsTree = new TTree("digitstree","digitstree");
	249	digitsTree->Branch("EMCAL","TClonesArray", &fDigitsArr, 32000);
	250
	251	for (Int_t icell = 0; icell < cells->GetNumberOfCells(); icell++)
	252	{
	253	if (cells->GetCell(icell, cellNumber, cellAmplitude, cellTime) != kTRUE)
	254	break;
	255
	256	time = cellTime;
	257	amp = cellAmplitude;
	258	id = cellNumber;
	259
	260	AliEMCALDigit digit = (AliEMCALDigit) fDigitsArr->New(idigit);
	261	digit->SetId(id);
	262	digit->SetAmplitude(amp);
	263	digit->SetTime(time);
	264	digit->SetTimeR(time);
	265	digit->SetIndexInList(idigit);
	266	digit->SetType(AliEMCALDigit::kHG);
	267	//if(Entry()==0) printf("Digit: Id %d, amp %f, time %e, index %d\n",id, amp,time,idigit);
	268	idigit++;
	269	}
	270
	271	//Fill the tree with digits
	272	digitsTree->Fill();
	273
	274	//-------------------------------------------------------------------------------------
	275	//Do the clusterization
	276	//-------------------------------------------------------------------------------------
	277	TTree *clustersTree = new TTree("clustertree","clustertree");
3fa4fb85	278
6fdd30c4	279	fClusterizer->SetInput(digitsTree);
	280	fClusterizer->SetOutput(clustersTree);
	281	fClusterizer->Digits2Clusters("");
	282
	283	//-------------------------------------------------------------------------------------
	284	//Transform the recpoints into AliVClusters
	285	//-------------------------------------------------------------------------------------
	286
	287	clustersTree->SetBranchStatus("*",0); //disable all branches
	288	clustersTree->SetBranchStatus("EMCALECARP",1); //Enable only the branch we need
	289
	290	TBranch *branch = clustersTree->GetBranch("EMCALECARP");
	291	branch->SetAddress(&fClusterArr);
	292	branch->GetEntry(0);
	293
	294	RecPoints2Clusters(fDigitsArr, fClusterArr, fCaloClusterArr);
	295
	296	//---CLEAN UP-----
	297	fClusterizer->Clear();
	298	fDigitsArr ->Clear("C");
	299	fClusterArr ->Delete(); // Do not Clear(), it leaks, why?
	300
	301	clustersTree->Delete("all");
	302	digitsTree ->Delete("all");
6fdd30c4	303	}
	304
	305	//-------------------------------------------------------------------------------------
	306	//Put the new clusters in the AOD list
	307	//-------------------------------------------------------------------------------------
	308
	309	Int_t kNumberOfCaloClusters = fCaloClusterArr->GetEntries();
3fa4fb85	310	//Info("UserExec","New clusters %d",kNumberOfCaloClusters);
3fa4fb85	311	//if(nClustersOrg!=kNumberOfCaloClusters) Info("UserExec","Different number: Org %d, New %d\n",nClustersOrg,kNumberOfCaloClusters);
6fdd30c4	312	for(Int_t i = 0; i < kNumberOfCaloClusters; i++){
6fdd30c4	313	AliAODCaloCluster newCluster = (AliAODCaloCluster ) fCaloClusterArr->At(i);
3fa4fb85	314	//if(Entry()==0) Info("UserExec","newCluster E %f\n", newCluster->E());
6fdd30c4	315	new((fOutputAODBranch)[i]) AliAODCaloCluster(newCluster);
	316	}
	317
	318	//---CLEAN UP-----
	319	fCaloClusterArr->Delete(); // Do not Clear(), it leaks, why?
3fa4fb85	320	}
6fdd30c4	321
	322	//_____________________________________________________________________
	323	Bool_t AliAnalysisTaskEMCALClusterize::UserNotify()
	324	{
	325	//Access to OCDB stuff
3fa4fb85	326	if(DebugLevel() > 1 )
3fa4fb85	327	Info("UserNotify()"," Begin");
6fdd30c4	328	AliVEvent * event = InputEvent();
	329	if (event)
	330	{
	331	fGeom = AliEMCALGeometry::GetInstance(fGeomName);
	332	AliCDBManager *cdb = AliCDBManager::Instance();
	333	cdb->SetDefaultStorage(fOCDBpath.Data());
	334	cdb->SetRun(event->GetRunNumber());
	335	//
	336	// EMCAL from RAW OCDB
	337	if (fOCDBpath.Contains("alien:"))
	338	{
	339	cdb->SetSpecificStorage("EMCAL/Calib/Data","alien://Folder=/alice/data/2010/OCDB");
	340	cdb->SetSpecificStorage("EMCAL/Calib/Pedestals","alien://Folder=/alice/data/2010/OCDB");
	341	}
	342	TString path = cdb->GetDefaultStorage()->GetBaseFolder();
	343
	344	// init parameters:
	345	//Get calibration parameters
	346	if(!fCalibData)
	347	{
	348	AliCDBEntry entry = (AliCDBEntry)
	349	AliCDBManager::Instance()->Get("EMCAL/Calib/Data");
	350	if (entry) fCalibData = (AliEMCALCalibData*) entry->GetObject();
	351	}
	352
	353	if(!fCalibData)
	354	AliFatal("Calibration parameters not found in CDB!");
	355
	356	//Get calibration parameters
	357	if(!fPedestalData)
	358	{
	359	AliCDBEntry entry = (AliCDBEntry)
	360	AliCDBManager::Instance()->Get("EMCAL/Calib/Pedestals");
	361	if (entry) fPedestalData = (AliCaloCalibPedestal*) entry->GetObject();
	362	}
	363
	364	if(!fPedestalData)
	365	AliFatal("Dead map not found in CDB!");
	366
	367	// cout << "[i] Change of run number: " << fAOD->GetRunNumber() << endl;
	368	InitClusterization();
6fdd30c4	369	}
	370	else
	371	{
3fa4fb85	372	Warning("UserNotify","Event not available!!!");
6fdd30c4	373	}
	374
	375	return kTRUE;
6fdd30c4	376	}
	377
	378	//________________________________________________________________________________________
	379	void AliAnalysisTaskEMCALClusterize::InitClusterization()
	380	{
	381	//Select clusterization/unfolding algorithm and set all the needed parameters
	382
	383	if(!fJustUnfold){
	384
	385	//First init the clusterizer
	386	if (fRecParam->GetClusterizerFlag() == AliEMCALRecParam::kClusterizerv1)
	387	fClusterizer = new AliEMCALClusterizerv1 (fGeom, fCalibData, fPedestalData);
	388	else if(fRecParam->GetClusterizerFlag() == AliEMCALRecParam::kClusterizerNxN)
	389	fClusterizer = new AliEMCALClusterizerNxN(fGeom, fCalibData, fPedestalData);
	390	else{
3fa4fb85	391	AliFatal(Form("Clusterizer < %d > not available", fRecParam->GetClusterizerFlag()));
6fdd30c4	392	}
	393
	394	//Now set the parameters
	395	fClusterizer->SetECAClusteringThreshold( fRecParam->GetClusteringThreshold() );
	396	fClusterizer->SetECALogWeight ( fRecParam->GetW0() );
	397	fClusterizer->SetMinECut ( fRecParam->GetMinECut() );
	398	fClusterizer->SetUnfolding ( fRecParam->GetUnfold() );
	399	fClusterizer->SetECALocalMaxCut ( fRecParam->GetLocMaxCut() );
	400	fClusterizer->SetTimeCut ( fRecParam->GetTimeCut() );
	401	fClusterizer->SetTimeMin ( fRecParam->GetTimeMin() );
	402	fClusterizer->SetTimeMax ( fRecParam->GetTimeMax() );
	403	fClusterizer->SetInputCalibrated ( kTRUE );
	404
	405	//In case of unfolding after clusterization is requested, set the corresponding parameters
	406	if(fRecParam->GetUnfold()){
	407
	408	Int_t i=0;
	409	for (i = 0; i < 8; i++) {
	410	fClusterizer->SetSSPars(i, fRecParam->GetSSPars(i));
	411	}//end of loop over parameters
	412	for (i = 0; i < 3; i++) {
	413	fClusterizer->SetPar5 (i, fRecParam->GetPar5(i));
	414	fClusterizer->SetPar6 (i, fRecParam->GetPar6(i));
	415	}//end of loop over parameters
	416
	417	fClusterizer->InitClusterUnfolding();
	418
	419	}// to unfold
	420
6fdd30c4	421	}else{
	422	//Now init the unfolding afterburner
	423	fUnfolder = new AliEMCALAfterBurnerUF(fRecParam->GetW0(),fRecParam->GetLocMaxCut());
	424	}
	425	}
3fa4fb85	426
6fdd30c4	427	//________________________________________________________________________________________
	428	void AliAnalysisTaskEMCALClusterize::RecPoints2Clusters(TClonesArray digitsArr, TObjArray recPoints, TObjArray *clusArray)
	429	{
	430	// Restore clusters from recPoints
	431	// Cluster energy, global position, cells and their amplitude fractions are restored
	432
	433	for(Int_t i = 0; i < recPoints->GetEntriesFast(); i++)
	434	{
	435	AliEMCALRecPoint recPoint = (AliEMCALRecPoint) recPoints->At(i);
	436
	437	const Int_t ncells = recPoint->GetMultiplicity();
	438	Int_t ncells_true = 0;
	439
	440	// cells and their amplitude fractions
	441	UShort_t absIds[ncells];
	442	Double32_t ratios[ncells];
	443
	444	for (Int_t c = 0; c < ncells; c++) {
	445	AliEMCALDigit digit = (AliEMCALDigit) digitsArr->At(recPoint->GetDigitsList()[c]);
	446
	447	absIds[ncells_true] = digit->GetId();
	448	ratios[ncells_true] = recPoint->GetEnergiesList()[c]/digit->GetAmplitude();
	449
	450	if (ratios[ncells_true] > 0.001) ncells_true++;
	451	}
	452
	453	if (ncells_true < 1) {
	454	Warning("AliAnalysisTaskEMCALClusterize::RecPoints2Clusters", "skipping cluster with no cells");
	455	continue;
	456	}
	457
	458	TVector3 gpos;
	459	Float_t g[3];
	460
	461	// calculate new cluster position
	462	recPoint->EvalGlobalPosition(fRecParam->GetW0(), digitsArr);
	463	recPoint->GetGlobalPosition(gpos);
	464	gpos.GetXYZ(g);
	465
	466	// create a new cluster
	467	AliAODCaloCluster *clus = new AliAODCaloCluster();
	468	clus->SetType(AliVCluster::kEMCALClusterv1);
	469	clus->SetE(recPoint->GetEnergy());
	470	clus->SetPosition(g);
	471	clus->SetNCells(ncells_true);
	472	clus->SetCellsAbsId(absIds);
	473	clus->SetCellsAmplitudeFraction(ratios);
	474	clus->SetDispersion(recPoint->GetDispersion());
	475	clus->SetChi2(-1); //not yet implemented
	476	clus->SetTOF(recPoint->GetTime()) ; //time-of-fligh
	477	clus->SetNExMax(recPoint->GetNExMax()); //number of local maxima
	478	Float_t elipAxis[2];
	479	recPoint->GetElipsAxis(elipAxis);
	480	clus->SetM02(elipAxis[0]*elipAxis[0]) ;
	481	clus->SetM20(elipAxis[1]*elipAxis[1]) ;
	482
	483	clusArray->Add(clus);
6fdd30c4	484	} // recPoints loop
6fdd30c4	485	}