[u/mrichter/AliRoot.git] / PHOS / AliPHOSRawDigiProducer.cxx

/**************************************************************************
 * Copyright(c) 2007, 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 class produces PHOS digits of one event
//using AliPHOSRawFitter. 
//
//   For example:
//   TClonesArray *digits = new TClonesArray("AliPHOSDigit",100);
//   AliRawReader* rawReader = new AliRawReaderDate("2006run2211.raw");
//   AliPHOSRawDecoder dc(rawReader);
//   while (rawReader->NextEvent()) {
//     AliPHOSRawDigiProducer producer;
//     producer.MakeDigits(digits,&dc);
//   }

// Author: Boris Polichtchouk

// --- ROOT system ---
#include "TClonesArray.h"

// --- AliRoot header files ---
#include "AliPHOSRawDigiProducer.h"
#include "AliPHOSRawFitterv0.h"
#include "AliPHOSGeometry.h"
#include "AliPHOSDigit.h"
#include "AliPHOSCalibData.h"
#include "AliPHOSPulseGenerator.h"
#include "AliCaloRawStreamV3.h"
#include "AliLog.h"

ClassImp(AliPHOSRawDigiProducer)

AliPHOSCalibData * AliPHOSRawDigiProducer::fgCalibData  = 0 ; 

//--------------------------------------------------------------------------------------
AliPHOSRawDigiProducer::AliPHOSRawDigiProducer():
  TObject(),
  fEmcMinE(0.),
  fCpvMinE(0.),
  fSampleQualityCut(1.),
  fSampleToSec(0.),
  fEmcCrystals(0),
  fGeom(0),
  fPulseGenerator(0),
  fRawReader(0),
  fRawStream(0),
  fADCValuesLG(0),
  fADCValuesHG(0)
{
  // Default constructor

  fGeom=AliPHOSGeometry::GetInstance() ;
  if(!fGeom) fGeom = AliPHOSGeometry::GetInstance("IHEP");

  fEmcCrystals=fGeom->GetNCristalsInModule()*fGeom->GetNModules() ;
  fPulseGenerator = new AliPHOSPulseGenerator();
  GetCalibrationParameters() ; 

}
//--------------------------------------------------------------------------------------
AliPHOSRawDigiProducer::AliPHOSRawDigiProducer(AliRawReader *rawReader,
					       AliAltroMapping **mapping):
  TObject(),
  fEmcMinE(0.),
  fCpvMinE(0.),
  fSampleQualityCut(1.),
  fSampleToSec(0.),
  fEmcCrystals(0),
  fGeom(0),
  fPulseGenerator(0),
  fRawReader(rawReader),
  fRawStream(0),
  fADCValuesLG(0),
  fADCValuesHG(0)
{
  // Default constructor

  fGeom=AliPHOSGeometry::GetInstance() ;
  if(!fGeom) fGeom = AliPHOSGeometry::GetInstance("IHEP");

  fEmcCrystals=fGeom->GetNCristalsInModule()*fGeom->GetNModules() ;
  fPulseGenerator = new AliPHOSPulseGenerator();
  GetCalibrationParameters() ; 

  fRawStream = new AliCaloRawStreamV3(rawReader,"PHOS",mapping);

}
//--------------------------------------------------------------------------------------
AliPHOSRawDigiProducer::AliPHOSRawDigiProducer(const AliPHOSRawDigiProducer &dp):
  TObject(),
  fEmcMinE(0.),
  fCpvMinE(0.),
  fSampleQualityCut(1.),
  fSampleToSec(0.),
  fEmcCrystals(0),
  fGeom(0),
  fPulseGenerator(0),
  fRawReader(0),
  fRawStream(0),
  fADCValuesLG(0),
  fADCValuesHG(0)

{                                                          
  // Copy constructor

  fEmcMinE = dp.fEmcMinE ;
  fCpvMinE = dp.fCpvMinE ;
  fSampleQualityCut = dp.fSampleQualityCut;
  fSampleToSec = dp.fSampleToSec ;
  fEmcCrystals = dp.fEmcCrystals ;
  fPulseGenerator = new AliPHOSPulseGenerator();
  fGeom = dp.fGeom ;
}
//--------------------------------------------------------------------------------------
AliPHOSRawDigiProducer& AliPHOSRawDigiProducer::operator= (const AliPHOSRawDigiProducer &dp)
{
  // Assign operator

  if(&dp == this) return *this;

  fEmcMinE = dp.fEmcMinE ;
  fCpvMinE = dp.fCpvMinE ;
  fSampleQualityCut = dp.fSampleQualityCut ;
  fSampleToSec = dp.fSampleToSec ;
  fEmcCrystals = dp.fEmcCrystals ;
  fGeom = dp.fGeom ;
  if(fPulseGenerator) delete fPulseGenerator ;
  fPulseGenerator = new AliPHOSPulseGenerator();
  return  *this;
} 
//--------------------------------------------------------------------------------------
AliPHOSRawDigiProducer::~AliPHOSRawDigiProducer()
{
  // Destructor
  if(fPulseGenerator) delete fPulseGenerator ;
  fPulseGenerator=0 ;
  delete fRawStream;
  delete [] fADCValuesLG;
  delete [] fADCValuesHG;
}
//--------------------------------------------------------------------------------------
void AliPHOSRawDigiProducer::MakeDigits(TClonesArray *digits, AliPHOSRawFitterv0* fitter) 
{
  //Makes the job.
  //TClonesArray *digits and raw data fitter should be provided by calling function.

  digits->Clear();
 
  Int_t iDigit=0 ;
  Int_t relId[4], absId=-1, caloFlag=-1;
  
  const Double_t baseLine=1. ; //Minimal energy of digit in ADC ch. 

  //Calculate conversion coeff. from Sample time step to seconds
  //If OCDB contains negative or zero value - use one from RCU trailer
  //Negative value in OCDB is used only for simulation of raw digits
  if(fgCalibData->GetSampleTimeStep()>0.)
    fSampleToSec=fgCalibData->GetSampleTimeStep() ;
  else
    fSampleToSec=fRawStream->GetTSample() ;
  
  //Temporary array for LowGain digits
  TClonesArray tmpLG("AliPHOSDigit",10000) ;
  Int_t ilgDigit=0 ;

  //Let fitter subtract pedestals in case of ZS
  fitter->SetCalibData(fgCalibData) ;
  
  while (fRawStream->NextDDL()) {
    while (fRawStream->NextChannel()) {
      relId[0] = 5 - fRawStream->GetModule() ; // counts from 1 to 5
      relId[1] = 0;
      relId[2] = fRawStream->GetCellX()  + 1; // counts from 1 to 64
      relId[3] = fRawStream->GetCellZ()  + 1; // counts from 1 to 56
      caloFlag = fRawStream->GetCaloFlag();   // 0=LG, 1=HG, 2=TRU
      
      if(caloFlag!=0 && caloFlag!=1) continue; //TRU data!
      
      fitter->SetChannelGeo(relId[0],relId[2],relId[3],caloFlag);

      if(fitter->GetAmpOffset()==0 && fitter->GetAmpThreshold()==0) {
	short value = fRawStream->GetAltroCFG1();
	bool ZeroSuppressionEnabled = (value >> 15) & 0x1;
	if(ZeroSuppressionEnabled) {
	  short offset = (value >> 10) & 0xf;
	  short threshold = value & 0x3ff;
	  fitter->SubtractPedestals(kFALSE);
	  fitter->SetAmpOffset(offset);
	  fitter->SetAmpThreshold(threshold);
	}
      }
      
      fGeom->RelToAbsNumbering(relId, absId);
      
      fitter->SetNBunches(0);
      Int_t sigStart =0 ;
      Int_t sigLength=0 ;
      while (fRawStream->NextBunch()) { //Take the first in time bunch
	const UShort_t *sig = fRawStream->GetSignals();
	sigStart  = fRawStream->GetStartTimeBin();
	sigLength = fRawStream->GetBunchLength();
	fitter->Eval(sig,sigStart,sigLength);
	if      (caloFlag == AliCaloRawStreamV3::kLowGain) {
	  delete [] fADCValuesLG;
	  fADCValuesLG = new Int_t[sigLength];
	  for (Int_t i=0; i<sigLength; i++)
	    fADCValuesLG[sigLength-i-1] = sig[i];
	}
	else if (caloFlag == AliCaloRawStreamV3::kHighGain) {
	  delete [] fADCValuesHG;
	  fADCValuesHG = new Int_t[sigLength];
	  for (Int_t i=0; i<sigLength; i++)
	    fADCValuesHG[sigLength-i-1] = sig[i];
	}
      } // End of NextBunch()

      
      Double_t energy = fitter->GetEnergy() ; 
      Double_t time   = fitter->GetTime() ;
      if(energy<=baseLine) //in ADC channels
	continue ;

      //remove digits with bad shape. Fitter should calculate quality so that 
      //in default case quality [0,1], while larger values of quality mean somehow 
      //corrupted samples, 999 means obviously corrupted sample.
      //It is difficult to fit samples with overflow (even setting cut on overflow values)
      //because too few points are left to fit. So we do not evaluate samples with overflow

      if(fitter->GetSignalQuality() > fSampleQualityCut && !(fitter->IsOverflow()))
	continue ;
      
      energy = CalibrateE(energy,relId,!caloFlag) ;
//       time   = CalibrateT(time,relId,lowGainFlag) ;

      //convert time from sample bin units to s
      time*=fSampleToSec ;
      
      if(energy <= 0.) 
	continue;
      
      if (caloFlag == AliCaloRawStreamV3::kLowGain) {
	new(tmpLG[ilgDigit]) AliPHOSDigit(-1,absId,(Float_t)energy,(Float_t)time);
	if (sigLength>0 && fADCValuesLG!=0)
	  dynamic_cast<AliPHOSDigit*>(tmpLG.At(ilgDigit))->SetALTROSamplesLG(sigLength,fADCValuesLG);
	ilgDigit++ ; 
      }
      else if (caloFlag == AliCaloRawStreamV3::kHighGain) {
	if(fitter->IsOverflow()) //Keep this digit to replace it by Low Gain later.
	  //If there is no LogGain it wil be removed by cut on Min E
	  new((*digits)[iDigit]) AliPHOSDigit(-1,absId,-1.f,(Float_t)time);
	else
	  new((*digits)[iDigit]) AliPHOSDigit(-1,absId,(Float_t)energy,(Float_t)time);
	if (sigLength>0 && fADCValuesHG!=0)
	  dynamic_cast<AliPHOSDigit*>(digits->At(iDigit))->SetALTROSamplesHG(sigLength,fADCValuesHG);
	iDigit++;
      }
    } // End of NextChannel()

    //Now scan created LG and HG digits and keep only those which appeared in both lists 
    //replace energy of HighGain digits only if there is overflow
    //negative energy (overflow)
    digits->Sort() ;
    tmpLG.Sort() ;
    Int_t iLG = 0;
    Int_t nLG1 = tmpLG.GetEntriesFast()-1 ;
    
    for(Int_t iDig=0 ; iDig < digits->GetEntriesFast() ; iDig++) { 
      AliPHOSDigit * digHG = dynamic_cast<AliPHOSDigit*>(digits->At(iDig)) ;
      if (!digHG) continue;
      AliPHOSDigit * digLG = dynamic_cast<AliPHOSDigit*>(tmpLG.At(iLG)) ;
      while(digLG && iLG<nLG1 && digHG->GetId()> digLG->GetId()){
	iLG++ ;
	digLG = dynamic_cast<AliPHOSDigit*>(tmpLG.At(iLG)) ;
      }
      absId=digHG->GetId() ;
      fGeom->AbsToRelNumbering(absId,relId) ;
 
      if(digLG && digHG->GetId() == digLG->GetId()){ //we found pair
	if(digHG->GetEnergy()<0.){ //This is overflow in HG
	  digHG->SetTime(digLG->GetTime()) ;
	  digHG->SetEnergy(digLG->GetEnergy()) ;
	}
      }
      else{ //no pair - remove
	if(digHG->GetEnergy()<0.) //no pair, in saturation
	  digits->RemoveAt(iDig) ;                                                          
      }
    }
  } // End of NextDDL()

  CleanDigits(digits) ;
  
}
//____________________________________________________________________________
Double_t AliPHOSRawDigiProducer::CalibrateE(Double_t amp, Int_t* relId, Bool_t isLowGain)
{
  // Convert EMC LG amplitude to HG (multipli by ~16)
  // Calibration parameters are taken from calibration data base 
  if(fgCalibData){ 
    Int_t   module = relId[0];  
    Int_t   column = relId[3];
    Int_t   row    = relId[2];
    if(relId[1]==0) { // this is EMC 
      if(isLowGain){
        amp*= fgCalibData->GetHighLowRatioEmc(module,column,row);
      }
      return amp ;         
    }         
  }          
  return 0;        
}
//____________________________________________________________________________
Double_t AliPHOSRawDigiProducer::CalibrateT(Double_t time, Int_t * relId, Bool_t /* isLowGain */)
{
  //Calibrate time
  time*=fPulseGenerator->GetRawFormatTimeTrigger() ;
  if(fgCalibData){
    Int_t   module = relId[0];
    Int_t   column = relId[3];
    Int_t   row    = relId[2];
    if(relId[1]==0) { // this is EMC
      time += fgCalibData->GetTimeShiftEmc(module,column,row);                   
      return time ;             
    }
  }
 
  return -999.;
}
//____________________________________________________________________________
void AliPHOSRawDigiProducer::CleanDigits(TClonesArray * digits)
{
  // remove digits with amplitudes below threshold.
  // remove digits in bad channels
  // sort digits with icreasing AbsId
  
  //remove digits in bad map and below threshold
  Bool_t isBadMap = 0 ;
  if(fgCalibData->GetNumOfEmcBadChannels()){
    isBadMap=1 ;
  }
  
  for(Int_t i=0; i<digits->GetEntriesFast(); i++){
    AliPHOSDigit * digit = static_cast<AliPHOSDigit*>(digits->At(i)) ;
    if(!digit)
      continue  ;
    if ( (IsInEMC(digit) && digit->GetEnergy() < fEmcMinE) ||
	 (IsInCPV(digit) && digit->GetEnergy() < fCpvMinE) ){
      digits->RemoveAt(i) ;
      continue ;
    }
    if(isBadMap){ //check bad map now
      Int_t relid[4] ;
      fGeom->AbsToRelNumbering(digit->GetId(), relid) ; 
      if(fgCalibData->IsBadChannelEmc(relid[0],relid[3],relid[2])){
	digits->RemoveAt(i) ;
      }
    }
  }

  //Compress, sort and set indexes
  digits->Compress() ;
//  digits->Sort(); already sorted earlier
  for (Int_t i = 0 ; i < digits->GetEntriesFast() ; i++) { 
    AliPHOSDigit *digit = static_cast<AliPHOSDigit*>( digits->At(i) ) ; 
    digit->SetIndexInList(i) ;     
  }
}
//____________________________________________________________________________
Bool_t AliPHOSRawDigiProducer::IsInEMC(AliPHOSDigit * digit) const
{
  // Tells if (true) or not (false) the digit is in a PHOS-EMC module
  return digit->GetId() <= fEmcCrystals ;

}

//____________________________________________________________________________
Bool_t AliPHOSRawDigiProducer::IsInCPV(AliPHOSDigit * digit) const
{
  // Tells if (true) or not (false) the digit is in a PHOS-CPV module
  return digit->GetId() > fEmcCrystals ;
}
//____________________________________________________________________________
void AliPHOSRawDigiProducer::GetCalibrationParameters() 
{
  // Set calibration parameters:
  // if calibration database exists, they are read from database,
  // otherwise, reconstruction stops in the constructor of AliPHOSCalibData
  //
  // It is a user responsilibity to open CDB before reconstruction, for example: 
  // AliCDBStorage* storage = AliCDBManager::Instance()->GetStorage("local://CalibDB");

  if (!fgCalibData){
    fgCalibData = new AliPHOSCalibData(-1); //use AliCDBManager's run number
  }
  if (fgCalibData->GetCalibDataEmc() == 0)
    AliFatal("Calibration parameters for PHOS EMC not found. Stop reconstruction.\n");
  if (fgCalibData->GetCalibDataCpv() == 0)
    AliFatal("Calibration parameters for PHOS CPV not found. Stop reconstruction.\n");
}
Commit	Line	Data
	1	/**************************************************************************
	2	* Copyright(c) 2007, 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	//This class produces PHOS digits of one event
	19	//using AliPHOSRawFitter.
	20	//
	21	// For example:
	22	// TClonesArray *digits = new TClonesArray("AliPHOSDigit",100);
	23	// AliRawReader* rawReader = new AliRawReaderDate("2006run2211.raw");
	24	// AliPHOSRawDecoder dc(rawReader);
	25	// while (rawReader->NextEvent()) {
	26	// AliPHOSRawDigiProducer producer;
	27	// producer.MakeDigits(digits,&dc);
	28	// }
	29
	30	// Author: Boris Polichtchouk
	31
	32	// --- ROOT system ---
	33	#include "TClonesArray.h"
	34
	35	// --- AliRoot header files ---
	36	#include "AliPHOSRawDigiProducer.h"
	37	#include "AliPHOSRawFitterv0.h"
	38	#include "AliPHOSGeometry.h"
	39	#include "AliPHOSDigit.h"
	40	#include "AliPHOSCalibData.h"
	41	#include "AliPHOSPulseGenerator.h"
	42	#include "AliCaloRawStreamV3.h"
	43	#include "AliLog.h"
	44
	45	ClassImp(AliPHOSRawDigiProducer)
	46
	47	AliPHOSCalibData * AliPHOSRawDigiProducer::fgCalibData = 0 ;
	48
	49	//--------------------------------------------------------------------------------------
	50	AliPHOSRawDigiProducer::AliPHOSRawDigiProducer():
	51	TObject(),
	52	fEmcMinE(0.),
	53	fCpvMinE(0.),
	54	fSampleQualityCut(1.),
	55	fSampleToSec(0.),
	56	fEmcCrystals(0),
	57	fGeom(0),
	58	fPulseGenerator(0),
	59	fRawReader(0),
	60	fRawStream(0),
	61	fADCValuesLG(0),
	62	fADCValuesHG(0)
	63	{
	64	// Default constructor
	65
	66	fGeom=AliPHOSGeometry::GetInstance() ;
	67	if(!fGeom) fGeom = AliPHOSGeometry::GetInstance("IHEP");
	68
	69	fEmcCrystals=fGeom->GetNCristalsInModule()*fGeom->GetNModules() ;
	70	fPulseGenerator = new AliPHOSPulseGenerator();
	71	GetCalibrationParameters() ;
	72
	73	}
	74	//--------------------------------------------------------------------------------------
	75	AliPHOSRawDigiProducer::AliPHOSRawDigiProducer(AliRawReader *rawReader,
	76	AliAltroMapping **mapping):
	77	TObject(),
	78	fEmcMinE(0.),
	79	fCpvMinE(0.),
	80	fSampleQualityCut(1.),
	81	fSampleToSec(0.),
	82	fEmcCrystals(0),
	83	fGeom(0),
	84	fPulseGenerator(0),
	85	fRawReader(rawReader),
	86	fRawStream(0),
	87	fADCValuesLG(0),
	88	fADCValuesHG(0)
	89	{
	90	// Default constructor
	91
	92	fGeom=AliPHOSGeometry::GetInstance() ;
	93	if(!fGeom) fGeom = AliPHOSGeometry::GetInstance("IHEP");
	94
	95	fEmcCrystals=fGeom->GetNCristalsInModule()*fGeom->GetNModules() ;
	96	fPulseGenerator = new AliPHOSPulseGenerator();
	97	GetCalibrationParameters() ;
	98
	99	fRawStream = new AliCaloRawStreamV3(rawReader,"PHOS",mapping);
	100
	101	}
	102	//--------------------------------------------------------------------------------------
	103	AliPHOSRawDigiProducer::AliPHOSRawDigiProducer(const AliPHOSRawDigiProducer &dp):
	104	TObject(),
	105	fEmcMinE(0.),
	106	fCpvMinE(0.),
	107	fSampleQualityCut(1.),
	108	fSampleToSec(0.),
	109	fEmcCrystals(0),
	110	fGeom(0),
	111	fPulseGenerator(0),
	112	fRawReader(0),
	113	fRawStream(0),
	114	fADCValuesLG(0),
	115	fADCValuesHG(0)
	116
	117	{
	118	// Copy constructor
	119
	120	fEmcMinE = dp.fEmcMinE ;
	121	fCpvMinE = dp.fCpvMinE ;
	122	fSampleQualityCut = dp.fSampleQualityCut;
	123	fSampleToSec = dp.fSampleToSec ;
	124	fEmcCrystals = dp.fEmcCrystals ;
	125	fPulseGenerator = new AliPHOSPulseGenerator();
	126	fGeom = dp.fGeom ;
	127	}
	128	//--------------------------------------------------------------------------------------
	129	AliPHOSRawDigiProducer& AliPHOSRawDigiProducer::operator= (const AliPHOSRawDigiProducer &dp)
	130	{
	131	// Assign operator
	132
	133	if(&dp == this) return *this;
	134
	135	fEmcMinE = dp.fEmcMinE ;
	136	fCpvMinE = dp.fCpvMinE ;
	137	fSampleQualityCut = dp.fSampleQualityCut ;
	138	fSampleToSec = dp.fSampleToSec ;
	139	fEmcCrystals = dp.fEmcCrystals ;
	140	fGeom = dp.fGeom ;
	141	if(fPulseGenerator) delete fPulseGenerator ;
	142	fPulseGenerator = new AliPHOSPulseGenerator();
	143	return *this;
	144	}
	145	//--------------------------------------------------------------------------------------
	146	AliPHOSRawDigiProducer::~AliPHOSRawDigiProducer()
	147	{
	148	// Destructor
	149	if(fPulseGenerator) delete fPulseGenerator ;
	150	fPulseGenerator=0 ;
	151	delete fRawStream;
	152	delete [] fADCValuesLG;
	153	delete [] fADCValuesHG;
	154	}
	155	//--------------------------------------------------------------------------------------
	156	void AliPHOSRawDigiProducer::MakeDigits(TClonesArray digits, AliPHOSRawFitterv0 fitter)
	157	{
	158	//Makes the job.
	159	//TClonesArray *digits and raw data fitter should be provided by calling function.
	160
	161	digits->Clear();
	162
	163	Int_t iDigit=0 ;
	164	Int_t relId[4], absId=-1, caloFlag=-1;
	165
	166	const Double_t baseLine=1. ; //Minimal energy of digit in ADC ch.
	167
	168	//Calculate conversion coeff. from Sample time step to seconds
	169	//If OCDB contains negative or zero value - use one from RCU trailer
	170	//Negative value in OCDB is used only for simulation of raw digits
	171	if(fgCalibData->GetSampleTimeStep()>0.)
	172	fSampleToSec=fgCalibData->GetSampleTimeStep() ;
	173	else
	174	fSampleToSec=fRawStream->GetTSample() ;
	175
	176	//Temporary array for LowGain digits
	177	TClonesArray tmpLG("AliPHOSDigit",10000) ;
	178	Int_t ilgDigit=0 ;
	179
	180	//Let fitter subtract pedestals in case of ZS
	181	fitter->SetCalibData(fgCalibData) ;
	182
	183	while (fRawStream->NextDDL()) {
	184	while (fRawStream->NextChannel()) {
	185	relId[0] = 5 - fRawStream->GetModule() ; // counts from 1 to 5
	186	relId[1] = 0;
	187	relId[2] = fRawStream->GetCellX() + 1; // counts from 1 to 64
	188	relId[3] = fRawStream->GetCellZ() + 1; // counts from 1 to 56
	189	caloFlag = fRawStream->GetCaloFlag(); // 0=LG, 1=HG, 2=TRU
	190
	191	if(caloFlag!=0 && caloFlag!=1) continue; //TRU data!
	192
	193	fitter->SetChannelGeo(relId[0],relId[2],relId[3],caloFlag);
	194
	195	if(fitter->GetAmpOffset()==0 && fitter->GetAmpThreshold()==0) {
	196	short value = fRawStream->GetAltroCFG1();
	197	bool ZeroSuppressionEnabled = (value >> 15) & 0x1;
	198	if(ZeroSuppressionEnabled) {
	199	short offset = (value >> 10) & 0xf;
	200	short threshold = value & 0x3ff;
	201	fitter->SubtractPedestals(kFALSE);
	202	fitter->SetAmpOffset(offset);
	203	fitter->SetAmpThreshold(threshold);
	204	}
	205	}
	206
	207	fGeom->RelToAbsNumbering(relId, absId);
	208
	209	fitter->SetNBunches(0);
	210	Int_t sigStart =0 ;
	211	Int_t sigLength=0 ;
	212	while (fRawStream->NextBunch()) { //Take the first in time bunch
	213	const UShort_t *sig = fRawStream->GetSignals();
	214	sigStart = fRawStream->GetStartTimeBin();
	215	sigLength = fRawStream->GetBunchLength();
	216	fitter->Eval(sig,sigStart,sigLength);
	217	if (caloFlag == AliCaloRawStreamV3::kLowGain) {
	218	delete [] fADCValuesLG;
	219	fADCValuesLG = new Int_t[sigLength];
	220	for (Int_t i=0; i<sigLength; i++)
	221	fADCValuesLG[sigLength-i-1] = sig[i];
	222	}
	223	else if (caloFlag == AliCaloRawStreamV3::kHighGain) {
	224	delete [] fADCValuesHG;
	225	fADCValuesHG = new Int_t[sigLength];
	226	for (Int_t i=0; i<sigLength; i++)
	227	fADCValuesHG[sigLength-i-1] = sig[i];
	228	}
	229	} // End of NextBunch()
	230
	231
	232	Double_t energy = fitter->GetEnergy() ;
	233	Double_t time = fitter->GetTime() ;
	234	if(energy<=baseLine) //in ADC channels
	235	continue ;
	236
	237	//remove digits with bad shape. Fitter should calculate quality so that
	238	//in default case quality [0,1], while larger values of quality mean somehow
	239	//corrupted samples, 999 means obviously corrupted sample.
	240	//It is difficult to fit samples with overflow (even setting cut on overflow values)
	241	//because too few points are left to fit. So we do not evaluate samples with overflow
	242
	243	if(fitter->GetSignalQuality() > fSampleQualityCut && !(fitter->IsOverflow()))
	244	continue ;
	245
	246	energy = CalibrateE(energy,relId,!caloFlag) ;
	247	// time = CalibrateT(time,relId,lowGainFlag) ;
	248
	249	//convert time from sample bin units to s
	250	time*=fSampleToSec ;
	251
	252	if(energy <= 0.)
	253	continue;
	254
	255	if (caloFlag == AliCaloRawStreamV3::kLowGain) {
	256	new(tmpLG[ilgDigit]) AliPHOSDigit(-1,absId,(Float_t)energy,(Float_t)time);
	257	if (sigLength>0 && fADCValuesLG!=0)
	258	dynamic_cast<AliPHOSDigit*>(tmpLG.At(ilgDigit))->SetALTROSamplesLG(sigLength,fADCValuesLG);
	259	ilgDigit++ ;
	260	}
	261	else if (caloFlag == AliCaloRawStreamV3::kHighGain) {
	262	if(fitter->IsOverflow()) //Keep this digit to replace it by Low Gain later.
	263	//If there is no LogGain it wil be removed by cut on Min E
	264	new((*digits)[iDigit]) AliPHOSDigit(-1,absId,-1.f,(Float_t)time);
	265	else
	266	new((*digits)[iDigit]) AliPHOSDigit(-1,absId,(Float_t)energy,(Float_t)time);
	267	if (sigLength>0 && fADCValuesHG!=0)
	268	dynamic_cast<AliPHOSDigit*>(digits->At(iDigit))->SetALTROSamplesHG(sigLength,fADCValuesHG);
	269	iDigit++;
	270	}
	271	} // End of NextChannel()
	272
	273	//Now scan created LG and HG digits and keep only those which appeared in both lists
	274	//replace energy of HighGain digits only if there is overflow
	275	//negative energy (overflow)
	276	digits->Sort() ;
	277	tmpLG.Sort() ;
	278	Int_t iLG = 0;
	279	Int_t nLG1 = tmpLG.GetEntriesFast()-1 ;
	280
	281	for(Int_t iDig=0 ; iDig < digits->GetEntriesFast() ; iDig++) {
	282	AliPHOSDigit * digHG = dynamic_cast<AliPHOSDigit*>(digits->At(iDig)) ;
	283	if (!digHG) continue;
	284	AliPHOSDigit * digLG = dynamic_cast<AliPHOSDigit*>(tmpLG.At(iLG)) ;
	285	while(digLG && iLG<nLG1 && digHG->GetId()> digLG->GetId()){
	286	iLG++ ;
	287	digLG = dynamic_cast<AliPHOSDigit*>(tmpLG.At(iLG)) ;
	288	}
	289	absId=digHG->GetId() ;
	290	fGeom->AbsToRelNumbering(absId,relId) ;
	291
	292	if(digLG && digHG->GetId() == digLG->GetId()){ //we found pair
	293	if(digHG->GetEnergy()<0.){ //This is overflow in HG
	294	digHG->SetTime(digLG->GetTime()) ;
	295	digHG->SetEnergy(digLG->GetEnergy()) ;
	296	}
	297	}
	298	else{ //no pair - remove
	299	if(digHG->GetEnergy()<0.) //no pair, in saturation
	300	digits->RemoveAt(iDig) ;
	301	}
	302	}
	303	} // End of NextDDL()
	304
	305	CleanDigits(digits) ;
	306
	307	}
	308	//____________________________________________________________________________
	309	Double_t AliPHOSRawDigiProducer::CalibrateE(Double_t amp, Int_t* relId, Bool_t isLowGain)
	310	{
	311	// Convert EMC LG amplitude to HG (multipli by ~16)
	312	// Calibration parameters are taken from calibration data base
	313	if(fgCalibData){
	314	Int_t module = relId[0];
	315	Int_t column = relId[3];
	316	Int_t row = relId[2];
	317	if(relId[1]==0) { // this is EMC
	318	if(isLowGain){
	319	amp*= fgCalibData->GetHighLowRatioEmc(module,column,row);
	320	}
	321	return amp ;
	322	}
	323	}
	324	return 0;
	325	}
	326	//____________________________________________________________________________
	327	Double_t AliPHOSRawDigiProducer::CalibrateT(Double_t time, Int_t * relId, Bool_t /* isLowGain */)
	328	{
	329	//Calibrate time
	330	time*=fPulseGenerator->GetRawFormatTimeTrigger() ;
	331	if(fgCalibData){
	332	Int_t module = relId[0];
	333	Int_t column = relId[3];
	334	Int_t row = relId[2];
	335	if(relId[1]==0) { // this is EMC
	336	time += fgCalibData->GetTimeShiftEmc(module,column,row);
	337	return time ;
	338	}
	339	}
	340
	341	return -999.;
	342	}
	343	//____________________________________________________________________________
	344	void AliPHOSRawDigiProducer::CleanDigits(TClonesArray * digits)
	345	{
	346	// remove digits with amplitudes below threshold.
	347	// remove digits in bad channels
	348	// sort digits with icreasing AbsId
	349
	350	//remove digits in bad map and below threshold
	351	Bool_t isBadMap = 0 ;
	352	if(fgCalibData->GetNumOfEmcBadChannels()){
	353	isBadMap=1 ;
	354	}
	355
	356	for(Int_t i=0; i<digits->GetEntriesFast(); i++){
	357	AliPHOSDigit * digit = static_cast<AliPHOSDigit*>(digits->At(i)) ;
	358	if(!digit)
	359	continue ;
	360	if ( (IsInEMC(digit) && digit->GetEnergy() < fEmcMinE) \|\|
	361	(IsInCPV(digit) && digit->GetEnergy() < fCpvMinE) ){
	362	digits->RemoveAt(i) ;
	363	continue ;
	364	}
	365	if(isBadMap){ //check bad map now
	366	Int_t relid[4] ;
	367	fGeom->AbsToRelNumbering(digit->GetId(), relid) ;
	368	if(fgCalibData->IsBadChannelEmc(relid[0],relid[3],relid[2])){
	369	digits->RemoveAt(i) ;
	370	}
	371	}
	372	}
	373
	374	//Compress, sort and set indexes
	375	digits->Compress() ;
	376	// digits->Sort(); already sorted earlier
	377	for (Int_t i = 0 ; i < digits->GetEntriesFast() ; i++) {
	378	AliPHOSDigit digit = static_cast<AliPHOSDigit>( digits->At(i) ) ;
	379	digit->SetIndexInList(i) ;
	380	}
	381	}
	382	//____________________________________________________________________________
	383	Bool_t AliPHOSRawDigiProducer::IsInEMC(AliPHOSDigit * digit) const
	384	{
	385	// Tells if (true) or not (false) the digit is in a PHOS-EMC module
	386	return digit->GetId() <= fEmcCrystals ;
	387
	388	}
	389
	390	//____________________________________________________________________________
	391	Bool_t AliPHOSRawDigiProducer::IsInCPV(AliPHOSDigit * digit) const
	392	{
	393	// Tells if (true) or not (false) the digit is in a PHOS-CPV module
	394	return digit->GetId() > fEmcCrystals ;
	395	}
	396	//____________________________________________________________________________
	397	void AliPHOSRawDigiProducer::GetCalibrationParameters()
	398	{
	399	// Set calibration parameters:
	400	// if calibration database exists, they are read from database,
	401	// otherwise, reconstruction stops in the constructor of AliPHOSCalibData
	402	//
	403	// It is a user responsilibity to open CDB before reconstruction, for example:
	404	// AliCDBStorage* storage = AliCDBManager::Instance()->GetStorage("local://CalibDB");
	405
	406	if (!fgCalibData){
	407	fgCalibData = new AliPHOSCalibData(-1); //use AliCDBManager's run number
	408	}
	409	if (fgCalibData->GetCalibDataEmc() == 0)
	410	AliFatal("Calibration parameters for PHOS EMC not found. Stop reconstruction.\n");
	411	if (fgCalibData->GetCalibDataCpv() == 0)
	412	AliFatal("Calibration parameters for PHOS CPV not found. Stop reconstruction.\n");
	413	}