[u/mrichter/AliRoot.git] / EMCAL / AliEMCALRawUtils.cxx

// -*- mode: c++ -*-
/**************************************************************************
 * 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.                  *
 **************************************************************************/

/* $Id$ */


//_________________________________________________________________________
//  Utility Class for handling Raw data
//  Does all transitions from Digits to Raw and vice versa, 
//  for simu and reconstruction
//
//  Note: the current version is still simplified. Only 
//    one raw signal per digit is generated; either high-gain or low-gain
//    Need to add concurrent high and low-gain info in the future
//    No pedestal is added to the raw signal.
//*-- Author: Marco van Leeuwen (LBL)
//*-- Major refactoring by Per Thomas Hille

#include "AliEMCALRawUtils.h"
#include "AliRun.h"
#include "AliRunLoader.h"
#include "AliAltroBuffer.h"
#include "AliRawReader.h"
#include "AliCaloRawStreamV3.h"
#include "AliDAQ.h"
#include "AliEMCALRecParam.h"
#include "AliEMCALLoader.h"
#include "AliEMCALGeometry.h"
#include "AliEMCALDigit.h"
#include "AliEMCALRawDigit.h"
#include "AliEMCAL.h"
#include "AliCaloCalibPedestal.h"  
#include "AliCaloBunchInfo.h"
#include "AliCaloFitResults.h"
#include "AliEMCALTriggerRawDigitMaker.h"
#include "AliEMCALTriggerSTURawStream.h"
#include "AliEMCALTriggerData.h"
#include "AliCaloConstants.h"
#include "AliCaloRawAnalyzer.h"
#include "AliCaloRawAnalyzerFactory.h"
#include "AliEMCALRawResponse.h"

using namespace CALO;
using namespace EMCAL;

using std::vector;
ClassImp(AliEMCALRawUtils)


AliEMCALRawUtils::AliEMCALRawUtils( Algo::fitAlgorithm fitAlgo) : fNoiseThreshold(3),
								  fNPedSamples(4), 
								  fGeom(0), 
								  fOption(""),
								  fRemoveBadChannels(kFALSE),
								  fFittingAlgorithm(fitAlgo),  
								  fTimeMin(-1.),
								  fTimeMax(1.),
								  fUseFALTRO(kTRUE),
								  fRawAnalyzer(0),
								  fTriggerRawDigitMaker(0x0)
{ // ctor; set up fit algo etc
  SetFittingAlgorithm(fitAlgo);
  const TObjArray* maps = AliEMCALRecParam::GetMappings();
  if(!maps) AliFatal("Cannot retrieve ALTRO mappings!!");
  for(Int_t i = 0; i < 4; i++) 
    {
      fMapping[i] = (AliAltroMapping*)maps->At(i);
    }
  
  AliRunLoader *rl = AliRunLoader::Instance();
  if (rl && rl->GetAliRun()) 
    {
    AliEMCAL * emcal = dynamic_cast<AliEMCAL*>(rl->GetAliRun()->GetDetector("EMCAL"));
    if(emcal)
      {
	fGeom = emcal->GetGeometry();
      }
    else 
      {
	AliDebug(1, Form("Using default geometry in raw reco"));
	fGeom =  AliEMCALGeometry::GetInstance(AliEMCALGeometry::GetDefaultGeometryName());
      }
    } 
  else 
    {
      AliDebug(1, Form("Using default geometry in raw reco"));
      fGeom =  AliEMCALGeometry::GetInstance(AliEMCALGeometry::GetDefaultGeometryName());
    }
  
  if(!fGeom) AliFatal(Form("Could not get geometry!"));
  fTriggerRawDigitMaker = new AliEMCALTriggerRawDigitMaker();
}


AliEMCALRawUtils::~AliEMCALRawUtils() 
{
  //dtor
  delete fRawAnalyzer;
  delete fTriggerRawDigitMaker;
}


void AliEMCALRawUtils::Digits2Raw()
{
  // convert digits of the current event to raw data
  AliRunLoader *rl = AliRunLoader::Instance();
  AliEMCALLoader *loader = dynamic_cast<AliEMCALLoader*>(rl->GetDetectorLoader("EMCAL"));
  loader->LoadDigits("EMCAL");
  loader->GetEvent();
  TClonesArray* digits = loader->Digits() ;
  
  if (!digits) {
    Warning("Digits2Raw", "no digits found !");
    return;
  }
  
  static const Int_t nDDL = 12*2; // 12 SM hardcoded for now. Buffers allocated dynamically, when needed, so just need an upper limit here
  AliAltroBuffer* buffers[nDDL];
  for (Int_t i=0; i < nDDL; i++)
    buffers[i] = 0;
  
  TArrayI adcValuesLow( TIMEBINS );
  TArrayI adcValuesHigh( TIMEBINS );
  
  // loop over digits (assume ordered digits)
  for (Int_t iDigit = 0; iDigit < digits->GetEntries(); iDigit++) 
    {
      AliEMCALDigit* digit = dynamic_cast<AliEMCALDigit *>(digits->At(iDigit)) ;
      if(!digit)
	{
	  AliFatal("NULL Digit");
	}
      else
	{
	  if (digit->GetAmplitude() <  AliEMCALRawResponse::GetRawFormatThreshold() ) 
	    {
	      continue;
	    }
	  //get cell indices
	  Int_t nSM = 0;
	  Int_t nIphi = 0;
	  Int_t nIeta = 0;
	  Int_t iphi = 0;
	  Int_t ieta = 0;
	  Int_t nModule = 0;
	  fGeom->GetCellIndex(digit->GetId(), nSM, nModule, nIphi, nIeta);
	  fGeom->GetCellPhiEtaIndexInSModule(nSM, nModule, nIphi, nIeta,iphi, ieta) ;
      
	  //Check which is the RCU, 0 or 1, of the cell.
	  Int_t iRCU = -111;
	  if (0<=iphi&&iphi<8) iRCU=0; // first cable row
	  else if (8<=iphi&&iphi<16 && 0<=ieta&&ieta<24) iRCU=0; // first half; 
	  else if(8<=iphi&&iphi<16 && 24<=ieta&&ieta<48) iRCU=1; // second half; 
	  //second cable row
	  else if(16<=iphi&&iphi<24) iRCU=1; // third cable row
	  
	  if (nSM%2==1) iRCU = 1 - iRCU; // swap for odd=C side, to allow us to cable both sides the same
	  
	  if (iRCU<0) 
	    Fatal("Digits2Raw()","Non-existent RCU number: %d", iRCU);
      
	  //Which DDL?
	  Int_t iDDL = NRCUSPERMODULE*nSM + iRCU;
	  if (iDDL < 0 || iDDL >= nDDL){
	    Fatal("Digits2Raw()","Non-existent DDL board number: %d", iDDL);
	  }
	  else{
	    if (buffers[iDDL] == 0) 
	      {      
		// open new file and write dummy header
		TString fileName = AliDAQ::DdlFileName("EMCAL",iDDL);
		//Select mapping file RCU0A, RCU0C, RCU1A, RCU1C
          Int_t iRCUside=iRCU+(nSM%2)*2;
          //iRCU=0 and even (0) SM -> RCU0A.data   0
          //iRCU=1 and even (0) SM -> RCU1A.data   1
          //iRCU=0 and odd  (1) SM -> RCU0C.data   2
          //iRCU=1 and odd  (1) SM -> RCU1C.data   3
	  buffers[iDDL] = new AliAltroBuffer(fileName.Data(),fMapping[iRCUside]);
          buffers[iDDL]->WriteDataHeader(kTRUE, kFALSE);  //Dummy;
        }
        
        // out of time range signal (?)
        if (digit->GetTimeR() >  TIMEBINMAX  ) {
          AliInfo("Signal is out of time range.\n");
          buffers[iDDL]->FillBuffer((Int_t)digit->GetAmplitude());
          buffers[iDDL]->FillBuffer( TIMEBINS );  // time bin
          buffers[iDDL]->FillBuffer(3);          // bunch length      
          buffers[iDDL]->WriteTrailer(3, ieta, iphi, nSM);  // trailer
          // calculate the time response function
        } else {
          Bool_t lowgain = AliEMCALRawResponse::RawSampledResponse(digit->GetTimeR(), digit->GetAmplitude(), 
								   adcValuesHigh.GetArray(), adcValuesLow.GetArray()) ; 
	  
	  if (lowgain) 
            buffers[iDDL]->WriteChannel(ieta, iphi, 0, TIMEBINS, adcValuesLow.GetArray(),  AliEMCALRawResponse::GetRawFormatThreshold()  );
          else 
            buffers[iDDL]->WriteChannel(ieta,iphi, 1, TIMEBINS, adcValuesHigh.GetArray(),  AliEMCALRawResponse::GetRawFormatThreshold()  );
        }
      }// iDDL under the limits
    }//digit exists
  }//Digit loop
  
  // write headers and close files
  for (Int_t i=0; i < nDDL; i++) {
    if (buffers[i]) {
      buffers[i]->Flush();
      buffers[i]->WriteDataHeader(kFALSE, kFALSE);
      delete buffers[i];
    }
  }
  
  loader->UnloadDigits();
}


void AliEMCALRawUtils::AddDigit(TClonesArray *digitsArr, Int_t id, Int_t lowGain, Float_t amp, Float_t time, Float_t chi2, Int_t ndf) 
{
  // comment
  AliEMCALDigit *digit = 0, *tmpdigit = 0;
  TIter nextdigit(digitsArr);
 
  while (digit == 0 && (tmpdigit = (AliEMCALDigit*) nextdigit())) 
    {
      if (tmpdigit->GetId() == id) digit = tmpdigit;
    }
  
  if (!digit) { // no digit existed for this tower; create one
    Int_t type = AliEMCALDigit::kHG; // use enum in AliEMCALDigit
    if (lowGain) 
      { 
	amp *= HGLGFACTOR;
	type = AliEMCALDigit::kLGnoHG;
      } 
    
    Int_t idigit = digitsArr->GetEntries();
    new((*digitsArr)[idigit]) AliEMCALDigit( -1, -1, id, amp, time, type, idigit, chi2, ndf); 
    AliDebug(2,Form("Add digit Id %d for the first time, type %d", id, type));
  }//digit added first time
  else 
    { // a digit already exists, check range 
		// (use high gain if signal < cut value, otherwise low gain)
      if (lowGain) 
	{ // new digit is low gain
	  if (digit->GetAmplitude() >  OVERFLOWCUT ) 
	    {  // use if previously stored (HG) digit is out of range
	      digit->SetAmplitude( HGLGFACTOR * amp);
	      digit->SetTime(time);
	      digit->SetType(AliEMCALDigit::kLG);
	      AliDebug(2,Form("Add LG digit ID %d for the second time, type %d", digit->GetId(), digit->GetType()));
	    }
	}//new low gain digit
      else { // new digit is high gain 
	
	if (amp <  OVERFLOWCUT  ) 
	  { // new digit is high gain; use if not out of range
	    digit->SetAmplitude(amp);
	    digit->SetTime(time);
	    digit->SetType(AliEMCALDigit::kHG);
	    AliDebug(2,Form("Add HG digit ID %d for the second time, type %d", digit->GetId(), digit->GetType()));
	  }
	else 
	  { // HG out of range, just change flag value to show that HG did exist
	    digit->SetType(AliEMCALDigit::kLG);
	    AliDebug(2,Form("Change LG digit to HG, ID %d, type %d", digit->GetId(), digit->GetType()));
	  }
      }//new high gain digit
    }//digit existed replace it
}


void AliEMCALRawUtils::Raw2Digits(AliRawReader* reader,TClonesArray *digitsArr, const AliCaloCalibPedestal* pedbadmap, TClonesArray *digitsTRG, AliEMCALTriggerData* trgData)
{
  //conversion of raw data to digits
  if(digitsArr) digitsArr->Clear("C"); 
  if (!digitsArr) { Error("Raw2Digits", "no digits found !");return;}
  if (!reader) {Error("Raw2Digits", "no raw reader found !");return;}
  AliEMCALTriggerSTURawStream inSTU(reader);
  AliCaloRawStreamV3 in(reader,"EMCAL",fMapping);	
  reader->Select("EMCAL",0,43); // 43 = AliEMCALGeoParams::fgkLastAltroDDL
  fTriggerRawDigitMaker->Reset();	
  fTriggerRawDigitMaker->SetIO(reader, in, inSTU, digitsTRG, trgData);
  fRawAnalyzer->SetIsZeroSuppressed(true); // TMP - should use stream->IsZeroSuppressed(), or altro cfg registers later
    
  Int_t lowGain  = 0;
  Int_t caloFlag = 0; // low, high gain, or TRU, or LED ref.
  
  Float_t bcTimePhaseCorr = 0; // for BC-based L1 phase correction
  Int_t bcMod4 = (reader->GetBCID() % 4); // LHC uses 40 MHz, EMCal uses 10 MHz clock
  if (bcMod4==0 || bcMod4==1) { 
    bcTimePhaseCorr = -1e-7; // subtract 100 ns for certain BC values
  } 

  while (in.NextDDL()) 
    {
      while (in.NextChannel()) 
	{
    	  caloFlag = in.GetCaloFlag();
	  if (caloFlag > 2) continue; // Work with ALTRO and FALTRO 
    	  if(caloFlag < 2 && fRemoveBadChannels && pedbadmap->IsBadChannel(in.GetModule(),in.GetColumn(),in.GetRow()))
	    {
	      continue;
	    }  
      	  vector<AliCaloBunchInfo> bunchlist; 
	  while (in.NextBunch()) 
	    {
	      bunchlist.push_back( AliCaloBunchInfo(in.GetStartTimeBin(), in.GetBunchLength(), in.GetSignals() ) );
	    } 
	  if (bunchlist.size() == 0) continue;
      	  if ( caloFlag < 2 )
	    { // ALTRO
	      Int_t id = fGeom->GetAbsCellIdFromCellIndexes(in.GetModule(), in.GetRow(), in.GetColumn()) ;
	      lowGain  = in.IsLowGain();
	      fRawAnalyzer->SetL1Phase( in.GetL1Phase() );
	      AliCaloFitResults res =  fRawAnalyzer->Evaluate( bunchlist, in.GetAltroCFG1(), in.GetAltroCFG2());  
	      if(res.GetAmp() >= fNoiseThreshold )
		{
		  AddDigit(digitsArr, id, lowGain, res.GetAmp(),  res.GetTime()+bcTimePhaseCorr, res.GetChi2(),  res.GetNdf() ); 
		}
	    }//ALTRO
	  else if(fUseFALTRO)
	    {// Fake ALTRO
	      fTriggerRawDigitMaker->Add( bunchlist );
	    }//Fake ALTRO
	} // end while over channel   
    } //end while over DDL's, of input stream 
  fTriggerRawDigitMaker->PostProcess();	
  TrimDigits(digitsArr);
}


void AliEMCALRawUtils::TrimDigits(TClonesArray *digitsArr) 
{ // rm entries with LGnoHG (unphysical), out of time window, and too bad chi2
  AliEMCALDigit *digit = 0;
  Int_t n = 0;
  Int_t nDigits = digitsArr->GetEntriesFast();
  TIter nextdigit(digitsArr);
  while ((digit = (AliEMCALDigit*) nextdigit())) {
    if (digit->GetType() == AliEMCALDigit::kLGnoHG) {
      AliDebug(1,Form("Remove digit with id %d, LGnoHG",digit->GetId()));
      digitsArr->Remove(digit);
    }
    else if(fTimeMin > digit->GetTime() || fTimeMax < digit->GetTime()) {
      digitsArr->Remove(digit);
      AliDebug(1,Form("Remove digit with id %d, Bad Time %e",digit->GetId(), digit->GetTime()));
    }
    else if (0 > digit->GetChi2()) {
      digitsArr->Remove(digit);
      AliDebug(1,Form("Remove digit with id %d, Bad Chi2 %e",digit->GetId(), digit->GetChi2()));
    }
    else {
      digit->SetIndexInList(n);	
      n++;
    }    
  }//while
  
  digitsArr->Compress();
  AliDebug(1,Form("N Digits before trimming : %d; after array compression %d",nDigits,digitsArr->GetEntriesFast()));
}


void AliEMCALRawUtils::SetFittingAlgorithm(Int_t fitAlgo)              
{ // select which fitting algo should be used
  delete fRawAnalyzer; // delete doesn't do anything if the pointer is 0x0
  fRawAnalyzer = AliCaloRawAnalyzerFactory::CreateAnalyzer( fitAlgo );
  fRawAnalyzer->SetNsampleCut(5); // requirement for fits to be done, for the new methods
  fRawAnalyzer->SetOverflowCut ( OVERFLOWCUT );
  fRawAnalyzer->SetAmpCut(fNoiseThreshold);
  fRawAnalyzer->SetFitArrayCut(fNoiseThreshold);
}
Commit	Line	Data
	1	// -- mode: c++ --
	2	/**************************************************************************
	3	* Copyright(c) 1998-1999, ALICE Experiment at CERN, All rights reserved. *
	4	* *
	5	* Author: The ALICE Off-line Project. *
	6	* Contributors are mentioned in the code where appropriate. *
	7	* *
	8	* Permission to use, copy, modify and distribute this software and its *
	9	* documentation strictly for non-commercial purposes is hereby granted *
	10	* without fee, provided that the above copyright notice appears in all *
	11	* copies and that both the copyright notice and this permission notice *
	12	* appear in the supporting documentation. The authors make no claims *
	13	* about the suitability of this software for any purpose. It is *
	14	* provided "as is" without express or implied warranty. *
	15	**************************************************************************/
	16
	17	/* $Id$ */
	18
	19
	20	//_________________________________________________________________________
	21	// Utility Class for handling Raw data
	22	// Does all transitions from Digits to Raw and vice versa,
	23	// for simu and reconstruction
	24	//
	25	// Note: the current version is still simplified. Only
	26	// one raw signal per digit is generated; either high-gain or low-gain
	27	// Need to add concurrent high and low-gain info in the future
	28	// No pedestal is added to the raw signal.
	29	//*-- Author: Marco van Leeuwen (LBL)
	30	//*-- Major refactoring by Per Thomas Hille
	31
	32	#include "AliEMCALRawUtils.h"
	33	#include "AliRun.h"
	34	#include "AliRunLoader.h"
	35	#include "AliAltroBuffer.h"
	36	#include "AliRawReader.h"
	37	#include "AliCaloRawStreamV3.h"
	38	#include "AliDAQ.h"
	39	#include "AliEMCALRecParam.h"
	40	#include "AliEMCALLoader.h"
	41	#include "AliEMCALGeometry.h"
	42	#include "AliEMCALDigit.h"
	43	#include "AliEMCALRawDigit.h"
	44	#include "AliEMCAL.h"
	45	#include "AliCaloCalibPedestal.h"
	46	#include "AliCaloBunchInfo.h"
	47	#include "AliCaloFitResults.h"
	48	#include "AliEMCALTriggerRawDigitMaker.h"
	49	#include "AliEMCALTriggerSTURawStream.h"
	50	#include "AliEMCALTriggerData.h"
	51	#include "AliCaloConstants.h"
	52	#include "AliCaloRawAnalyzer.h"
	53	#include "AliCaloRawAnalyzerFactory.h"
	54	#include "AliEMCALRawResponse.h"
	55
	56	using namespace CALO;
	57	using namespace EMCAL;
	58
	59	using std::vector;
	60	ClassImp(AliEMCALRawUtils)
	61
	62
	63	AliEMCALRawUtils::AliEMCALRawUtils( Algo::fitAlgorithm fitAlgo) : fNoiseThreshold(3),
	64	fNPedSamples(4),
	65	fGeom(0),
	66	fOption(""),
	67	fRemoveBadChannels(kFALSE),
	68	fFittingAlgorithm(fitAlgo),
	69	fTimeMin(-1.),
	70	fTimeMax(1.),
	71	fUseFALTRO(kTRUE),
	72	fRawAnalyzer(0),
	73	fTriggerRawDigitMaker(0x0)
	74	{ // ctor; set up fit algo etc
	75	SetFittingAlgorithm(fitAlgo);
	76	const TObjArray* maps = AliEMCALRecParam::GetMappings();
	77	if(!maps) AliFatal("Cannot retrieve ALTRO mappings!!");
	78	for(Int_t i = 0; i < 4; i++)
	79	{
	80	fMapping[i] = (AliAltroMapping*)maps->At(i);
	81	}
	82
	83	AliRunLoader *rl = AliRunLoader::Instance();
	84	if (rl && rl->GetAliRun())
	85	{
	86	AliEMCAL * emcal = dynamic_cast<AliEMCAL*>(rl->GetAliRun()->GetDetector("EMCAL"));
	87	if(emcal)
	88	{
	89	fGeom = emcal->GetGeometry();
	90	}
	91	else
	92	{
	93	AliDebug(1, Form("Using default geometry in raw reco"));
	94	fGeom = AliEMCALGeometry::GetInstance(AliEMCALGeometry::GetDefaultGeometryName());
	95	}
	96	}
	97	else
	98	{
	99	AliDebug(1, Form("Using default geometry in raw reco"));
	100	fGeom = AliEMCALGeometry::GetInstance(AliEMCALGeometry::GetDefaultGeometryName());
	101	}
	102
	103	if(!fGeom) AliFatal(Form("Could not get geometry!"));
	104	fTriggerRawDigitMaker = new AliEMCALTriggerRawDigitMaker();
	105	}
	106
	107
	108	AliEMCALRawUtils::~AliEMCALRawUtils()
	109	{
	110	//dtor
	111	delete fRawAnalyzer;
	112	delete fTriggerRawDigitMaker;
	113	}
	114
	115
	116	void AliEMCALRawUtils::Digits2Raw()
	117	{
	118	// convert digits of the current event to raw data
	119	AliRunLoader *rl = AliRunLoader::Instance();
	120	AliEMCALLoader loader = dynamic_cast<AliEMCALLoader>(rl->GetDetectorLoader("EMCAL"));
	121	loader->LoadDigits("EMCAL");
	122	loader->GetEvent();
	123	TClonesArray* digits = loader->Digits() ;
	124
	125	if (!digits) {
	126	Warning("Digits2Raw", "no digits found !");
	127	return;
	128	}
	129
	130	static const Int_t nDDL = 12*2; // 12 SM hardcoded for now. Buffers allocated dynamically, when needed, so just need an upper limit here
	131	AliAltroBuffer* buffers[nDDL];
	132	for (Int_t i=0; i < nDDL; i++)
	133	buffers[i] = 0;
	134
	135	TArrayI adcValuesLow( TIMEBINS );
	136	TArrayI adcValuesHigh( TIMEBINS );
	137
	138	// loop over digits (assume ordered digits)
	139	for (Int_t iDigit = 0; iDigit < digits->GetEntries(); iDigit++)
	140	{
	141	AliEMCALDigit* digit = dynamic_cast<AliEMCALDigit *>(digits->At(iDigit)) ;
	142	if(!digit)
	143	{
	144	AliFatal("NULL Digit");
	145	}
	146	else
	147	{
	148	if (digit->GetAmplitude() < AliEMCALRawResponse::GetRawFormatThreshold() )
	149	{
	150	continue;
	151	}
	152	//get cell indices
	153	Int_t nSM = 0;
	154	Int_t nIphi = 0;
	155	Int_t nIeta = 0;
	156	Int_t iphi = 0;
	157	Int_t ieta = 0;
	158	Int_t nModule = 0;
	159	fGeom->GetCellIndex(digit->GetId(), nSM, nModule, nIphi, nIeta);
	160	fGeom->GetCellPhiEtaIndexInSModule(nSM, nModule, nIphi, nIeta,iphi, ieta) ;
	161
	162	//Check which is the RCU, 0 or 1, of the cell.
	163	Int_t iRCU = -111;
	164	if (0<=iphi&&iphi<8) iRCU=0; // first cable row
	165	else if (8<=iphi&&iphi<16 && 0<=ieta&&ieta<24) iRCU=0; // first half;
	166	else if(8<=iphi&&iphi<16 && 24<=ieta&&ieta<48) iRCU=1; // second half;
	167	//second cable row
	168	else if(16<=iphi&&iphi<24) iRCU=1; // third cable row
	169
	170	if (nSM%2==1) iRCU = 1 - iRCU; // swap for odd=C side, to allow us to cable both sides the same
	171
	172	if (iRCU<0)
	173	Fatal("Digits2Raw()","Non-existent RCU number: %d", iRCU);
	174
	175	//Which DDL?
	176	Int_t iDDL = NRCUSPERMODULE*nSM + iRCU;
	177	if (iDDL < 0 \|\| iDDL >= nDDL){
	178	Fatal("Digits2Raw()","Non-existent DDL board number: %d", iDDL);
	179	}
	180	else{
	181	if (buffers[iDDL] == 0)
	182	{
	183	// open new file and write dummy header
	184	TString fileName = AliDAQ::DdlFileName("EMCAL",iDDL);
	185	//Select mapping file RCU0A, RCU0C, RCU1A, RCU1C
	186	Int_t iRCUside=iRCU+(nSM%2)*2;
	187	//iRCU=0 and even (0) SM -> RCU0A.data 0
	188	//iRCU=1 and even (0) SM -> RCU1A.data 1
	189	//iRCU=0 and odd (1) SM -> RCU0C.data 2
	190	//iRCU=1 and odd (1) SM -> RCU1C.data 3
	191	buffers[iDDL] = new AliAltroBuffer(fileName.Data(),fMapping[iRCUside]);
	192	buffers[iDDL]->WriteDataHeader(kTRUE, kFALSE); //Dummy;
	193	}
	194
	195	// out of time range signal (?)
	196	if (digit->GetTimeR() > TIMEBINMAX ) {
	197	AliInfo("Signal is out of time range.\n");
	198	buffers[iDDL]->FillBuffer((Int_t)digit->GetAmplitude());
	199	buffers[iDDL]->FillBuffer( TIMEBINS ); // time bin
	200	buffers[iDDL]->FillBuffer(3); // bunch length
	201	buffers[iDDL]->WriteTrailer(3, ieta, iphi, nSM); // trailer
	202	// calculate the time response function
	203	} else {
	204	Bool_t lowgain = AliEMCALRawResponse::RawSampledResponse(digit->GetTimeR(), digit->GetAmplitude(),
	205	adcValuesHigh.GetArray(), adcValuesLow.GetArray()) ;
	206
	207	if (lowgain)
	208	buffers[iDDL]->WriteChannel(ieta, iphi, 0, TIMEBINS, adcValuesLow.GetArray(), AliEMCALRawResponse::GetRawFormatThreshold() );
	209	else
	210	buffers[iDDL]->WriteChannel(ieta,iphi, 1, TIMEBINS, adcValuesHigh.GetArray(), AliEMCALRawResponse::GetRawFormatThreshold() );
	211	}
	212	}// iDDL under the limits
	213	}//digit exists
	214	}//Digit loop
	215
	216	// write headers and close files
	217	for (Int_t i=0; i < nDDL; i++) {
	218	if (buffers[i]) {
	219	buffers[i]->Flush();
	220	buffers[i]->WriteDataHeader(kFALSE, kFALSE);
	221	delete buffers[i];
	222	}
	223	}
	224
	225	loader->UnloadDigits();
	226	}
	227
	228
	229
	230	void AliEMCALRawUtils::AddDigit(TClonesArray *digitsArr, Int_t id, Int_t lowGain, Float_t amp, Float_t time, Float_t chi2, Int_t ndf)
	231	{
	232	// comment
	233	AliEMCALDigit digit = 0, tmpdigit = 0;
	234	TIter nextdigit(digitsArr);
	235
	236	while (digit == 0 && (tmpdigit = (AliEMCALDigit*) nextdigit()))
	237	{
	238	if (tmpdigit->GetId() == id) digit = tmpdigit;
	239	}
	240
	241	if (!digit) { // no digit existed for this tower; create one
	242	Int_t type = AliEMCALDigit::kHG; // use enum in AliEMCALDigit
	243	if (lowGain)
	244	{
	245	amp *= HGLGFACTOR;
	246	type = AliEMCALDigit::kLGnoHG;
	247	}
	248
	249	Int_t idigit = digitsArr->GetEntries();
	250	new((*digitsArr)[idigit]) AliEMCALDigit( -1, -1, id, amp, time, type, idigit, chi2, ndf);
	251	AliDebug(2,Form("Add digit Id %d for the first time, type %d", id, type));
	252	}//digit added first time
	253	else
	254	{ // a digit already exists, check range
	255	// (use high gain if signal < cut value, otherwise low gain)
	256	if (lowGain)
	257	{ // new digit is low gain
	258	if (digit->GetAmplitude() > OVERFLOWCUT )
	259	{ // use if previously stored (HG) digit is out of range
	260	digit->SetAmplitude( HGLGFACTOR * amp);
	261	digit->SetTime(time);
	262	digit->SetType(AliEMCALDigit::kLG);
	263	AliDebug(2,Form("Add LG digit ID %d for the second time, type %d", digit->GetId(), digit->GetType()));
	264	}
	265	}//new low gain digit
	266	else { // new digit is high gain
	267
	268	if (amp < OVERFLOWCUT )
	269	{ // new digit is high gain; use if not out of range
	270	digit->SetAmplitude(amp);
	271	digit->SetTime(time);
	272	digit->SetType(AliEMCALDigit::kHG);
	273	AliDebug(2,Form("Add HG digit ID %d for the second time, type %d", digit->GetId(), digit->GetType()));
	274	}
	275	else
	276	{ // HG out of range, just change flag value to show that HG did exist
	277	digit->SetType(AliEMCALDigit::kLG);
	278	AliDebug(2,Form("Change LG digit to HG, ID %d, type %d", digit->GetId(), digit->GetType()));
	279	}
	280	}//new high gain digit
	281	}//digit existed replace it
	282	}
	283
	284
	285	void AliEMCALRawUtils::Raw2Digits(AliRawReader* reader,TClonesArray digitsArr, const AliCaloCalibPedestal pedbadmap, TClonesArray digitsTRG, AliEMCALTriggerData trgData)
	286	{
	287	//conversion of raw data to digits
	288	if(digitsArr) digitsArr->Clear("C");
	289	if (!digitsArr) { Error("Raw2Digits", "no digits found !");return;}
	290	if (!reader) {Error("Raw2Digits", "no raw reader found !");return;}
	291	AliEMCALTriggerSTURawStream inSTU(reader);
	292	AliCaloRawStreamV3 in(reader,"EMCAL",fMapping);
	293	reader->Select("EMCAL",0,43); // 43 = AliEMCALGeoParams::fgkLastAltroDDL
	294	fTriggerRawDigitMaker->Reset();
	295	fTriggerRawDigitMaker->SetIO(reader, in, inSTU, digitsTRG, trgData);
	296	fRawAnalyzer->SetIsZeroSuppressed(true); // TMP - should use stream->IsZeroSuppressed(), or altro cfg registers later
	297
	298	Int_t lowGain = 0;
	299	Int_t caloFlag = 0; // low, high gain, or TRU, or LED ref.
	300
	301	Float_t bcTimePhaseCorr = 0; // for BC-based L1 phase correction
	302	Int_t bcMod4 = (reader->GetBCID() % 4); // LHC uses 40 MHz, EMCal uses 10 MHz clock
	303	if (bcMod4==0 \|\| bcMod4==1) {
	304	bcTimePhaseCorr = -1e-7; // subtract 100 ns for certain BC values
	305	}
	306
	307	while (in.NextDDL())
	308	{
	309	while (in.NextChannel())
	310	{
	311	caloFlag = in.GetCaloFlag();
	312	if (caloFlag > 2) continue; // Work with ALTRO and FALTRO
	313	if(caloFlag < 2 && fRemoveBadChannels && pedbadmap->IsBadChannel(in.GetModule(),in.GetColumn(),in.GetRow()))
	314	{
	315	continue;
	316	}
	317	vector<AliCaloBunchInfo> bunchlist;
	318	while (in.NextBunch())
	319	{
	320	bunchlist.push_back( AliCaloBunchInfo(in.GetStartTimeBin(), in.GetBunchLength(), in.GetSignals() ) );
	321	}
	322	if (bunchlist.size() == 0) continue;
	323	if ( caloFlag < 2 )
	324	{ // ALTRO
	325	Int_t id = fGeom->GetAbsCellIdFromCellIndexes(in.GetModule(), in.GetRow(), in.GetColumn()) ;
	326	lowGain = in.IsLowGain();
	327	fRawAnalyzer->SetL1Phase( in.GetL1Phase() );
	328	AliCaloFitResults res = fRawAnalyzer->Evaluate( bunchlist, in.GetAltroCFG1(), in.GetAltroCFG2());
	329	if(res.GetAmp() >= fNoiseThreshold )
	330	{
	331	AddDigit(digitsArr, id, lowGain, res.GetAmp(), res.GetTime()+bcTimePhaseCorr, res.GetChi2(), res.GetNdf() );
	332	}
	333	}//ALTRO
	334	else if(fUseFALTRO)
	335	{// Fake ALTRO
	336	fTriggerRawDigitMaker->Add( bunchlist );
	337	}//Fake ALTRO
	338	} // end while over channel
	339	} //end while over DDL's, of input stream
	340	fTriggerRawDigitMaker->PostProcess();
	341	TrimDigits(digitsArr);
	342	}
	343
	344
	345	void AliEMCALRawUtils::TrimDigits(TClonesArray *digitsArr)
	346	{ // rm entries with LGnoHG (unphysical), out of time window, and too bad chi2
	347	AliEMCALDigit *digit = 0;
	348	Int_t n = 0;
	349	Int_t nDigits = digitsArr->GetEntriesFast();
	350	TIter nextdigit(digitsArr);
	351	while ((digit = (AliEMCALDigit*) nextdigit())) {
	352	if (digit->GetType() == AliEMCALDigit::kLGnoHG) {
	353	AliDebug(1,Form("Remove digit with id %d, LGnoHG",digit->GetId()));
	354	digitsArr->Remove(digit);
	355	}
	356	else if(fTimeMin > digit->GetTime() \|\| fTimeMax < digit->GetTime()) {
	357	digitsArr->Remove(digit);
	358	AliDebug(1,Form("Remove digit with id %d, Bad Time %e",digit->GetId(), digit->GetTime()));
	359	}
	360	else if (0 > digit->GetChi2()) {
	361	digitsArr->Remove(digit);
	362	AliDebug(1,Form("Remove digit with id %d, Bad Chi2 %e",digit->GetId(), digit->GetChi2()));
	363	}
	364	else {
	365	digit->SetIndexInList(n);
	366	n++;
	367	}
	368	}//while
	369
	370	digitsArr->Compress();
	371	AliDebug(1,Form("N Digits before trimming : %d; after array compression %d",nDigits,digitsArr->GetEntriesFast()));
	372	}
	373
	374
	375	void AliEMCALRawUtils::SetFittingAlgorithm(Int_t fitAlgo)
	376	{ // select which fitting algo should be used
	377	delete fRawAnalyzer; // delete doesn't do anything if the pointer is 0x0
	378	fRawAnalyzer = AliCaloRawAnalyzerFactory::CreateAnalyzer( fitAlgo );
	379	fRawAnalyzer->SetNsampleCut(5); // requirement for fits to be done, for the new methods
	380	fRawAnalyzer->SetOverflowCut ( OVERFLOWCUT );
	381	fRawAnalyzer->SetAmpCut(fNoiseThreshold);
	382	fRawAnalyzer->SetFitArrayCut(fNoiseThreshold);
	383	}
	384
	385
	386