[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 "AliCDBManager.h"
#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 = 20*2; // 20 SM for EMCal + DCal 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",0,39); // 39 = 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
	
  //AliCDBManager* man = AliCDBManager::Instance();
  //Int_t runNumber = man->GetRun();
	
 Int_t runNumber = reader->GetRunNumber();

  if ((runNumber >130850 ) && (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
168c7b3c	1	// -- mode: c++ --
ee299369	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	/* $Id$ */
ee299369	18
de39a0ff	19
e5bbbc4e	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.
ee299369	29	//*-- Author: Marco van Leeuwen (LBL)
77eac271	30	//*-- Major refactoring by Per Thomas Hille
92d9f317	31
2d45a08f	32	//#include "AliCDBManager.h"
ee299369	33	#include "AliEMCALRawUtils.h"
72c58de0	34	#include "AliRun.h"
ee299369	35	#include "AliRunLoader.h"
ee299369	36	#include "AliAltroBuffer.h"
ee299369	37	#include "AliRawReader.h"
32cd4c24	38	#include "AliCaloRawStreamV3.h"
ee299369	39	#include "AliDAQ.h"
feedcab9	40	#include "AliEMCALRecParam.h"
ee299369	41	#include "AliEMCALLoader.h"
ee299369	42	#include "AliEMCALGeometry.h"
ee299369	43	#include "AliEMCALDigit.h"
916f1e76	44	#include "AliEMCALRawDigit.h"
20b636fc	45	#include "AliEMCAL.h"
5e3106bc	46	#include "AliCaloCalibPedestal.h"
16605c06	47	#include "AliCaloBunchInfo.h"
16605c06	48	#include "AliCaloFitResults.h"
de39a0ff	49	#include "AliEMCALTriggerRawDigitMaker.h"
	50	#include "AliEMCALTriggerSTURawStream.h"
	51	#include "AliEMCALTriggerData.h"
92d9f317	52	#include "AliCaloConstants.h"
	53	#include "AliCaloRawAnalyzer.h"
	54	#include "AliCaloRawAnalyzerFactory.h"
1f847d9f	55	#include "AliEMCALRawResponse.h"
9f467289	56
92d9f317	57	using namespace CALO;
92d9f317	58	using namespace EMCAL;
ee299369	59
0267cfa6	60	using std::vector;
92d9f317	61	ClassImp(AliEMCALRawUtils)
92d9f317	62
b4133f05	63
92d9f317	64	AliEMCALRawUtils::AliEMCALRawUtils( Algo::fitAlgorithm fitAlgo) : fNoiseThreshold(3),
	65	fNPedSamples(4),
	66	fGeom(0),
	67	fOption(""),
	68	fRemoveBadChannels(kFALSE),
77eac271	69	fFittingAlgorithm(fitAlgo),
92d9f317	70	fTimeMin(-1.),
	71	fTimeMax(1.),
	72	fUseFALTRO(kTRUE),
	73	fRawAnalyzer(0),
	74	fTriggerRawDigitMaker(0x0)
dab4328c	75	{ // ctor; set up fit algo etc
4fe71e02	76	SetFittingAlgorithm(fitAlgo);
65bdc82f	77	const TObjArray* maps = AliEMCALRecParam::GetMappings();
65bdc82f	78	if(!maps) AliFatal("Cannot retrieve ALTRO mappings!!");
77eac271	79	for(Int_t i = 0; i < 4; i++)
	80	{
	81	fMapping[i] = (AliAltroMapping*)maps->At(i);
	82	}
	83
33c3c91a	84	AliRunLoader *rl = AliRunLoader::Instance();
77eac271	85	if (rl && rl->GetAliRun())
77eac271	86	{
a2339fea	87	AliEMCAL * emcal = dynamic_cast<AliEMCAL*>(rl->GetAliRun()->GetDetector("EMCAL"));
77eac271	88	if(emcal)
	89	{
	90	fGeom = emcal->GetGeometry();
	91	}
	92	else
	93	{
	94	AliDebug(1, Form("Using default geometry in raw reco"));
	95	fGeom = AliEMCALGeometry::GetInstance(AliEMCALGeometry::GetDefaultGeometryName());
	96	}
	97	}
	98	else
	99	{
a2339fea	100	AliDebug(1, Form("Using default geometry in raw reco"));
	101	fGeom = AliEMCALGeometry::GetInstance(AliEMCALGeometry::GetDefaultGeometryName());
	102	}
92d9f317	103
5544799a	104	if(!fGeom) AliFatal(Form("Could not get geometry!"));
77eac271	105	fTriggerRawDigitMaker = new AliEMCALTriggerRawDigitMaker();
5544799a	106	}
5544799a	107
65bdc82f	108
92d9f317	109	AliEMCALRawUtils::~AliEMCALRawUtils()
65bdc82f	110	{
e5bbbc4e	111	//dtor
48b634ff	112	delete fRawAnalyzer;
48b634ff	113	delete fTriggerRawDigitMaker;
ee299369	114	}
65bdc82f	115
92d9f317	116
65bdc82f	117	void AliEMCALRawUtils::Digits2Raw()
ee299369	118	{
ee299369	119	// convert digits of the current event to raw data
33c3c91a	120	AliRunLoader *rl = AliRunLoader::Instance();
ee299369	121	AliEMCALLoader loader = dynamic_cast<AliEMCALLoader>(rl->GetDetectorLoader("EMCAL"));
ee299369	122	loader->LoadDigits("EMCAL");
	123	loader->GetEvent();
	124	TClonesArray* digits = loader->Digits() ;
	125
	126	if (!digits) {
	127	Warning("Digits2Raw", "no digits found !");
	128	return;
	129	}
a2339fea	130
2d512377	131	static const Int_t nDDL = 20*2; // 20 SM for EMCal + DCal hardcoded for now. Buffers allocated dynamically, when needed, so just need an upper limit here
ee299369	132	AliAltroBuffer* buffers[nDDL];
	133	for (Int_t i=0; i < nDDL; i++)
	134	buffers[i] = 0;
a2339fea	135
92d9f317	136	TArrayI adcValuesLow( TIMEBINS );
92d9f317	137	TArrayI adcValuesHigh( TIMEBINS );
de39a0ff	138
ee299369	139	// loop over digits (assume ordered digits)
8cc543cb	140	for (Int_t iDigit = 0; iDigit < digits->GetEntries(); iDigit++) {
	141	AliEMCALDigit* digit = dynamic_cast<AliEMCALDigit *>(digits->At(iDigit)) ;
	142	if(!digit) {
	143	AliFatal("NULL Digit");
	144	} else {
	145	if (digit->GetAmplitude() < AliEMCALRawResponse::GetRawFormatThreshold() ) {
	146	continue;
	147	}
	148	//get cell indices
	149	Int_t nSM = 0;
	150	Int_t nIphi = 0;
	151	Int_t nIeta = 0;
	152	Int_t iphi = 0;
	153	Int_t ieta = 0;
	154	Int_t nModule = 0;
	155	fGeom->GetCellIndex(digit->GetId(), nSM, nModule, nIphi, nIeta);
	156	fGeom->GetCellPhiEtaIndexInSModule(nSM, nModule, nIphi, nIeta,iphi, ieta) ;
	157
	158	//Check which is the RCU, 0 or 1, of the cell.
	159	Int_t iRCU = -111;
	160	if (0<=iphi&&iphi<8) iRCU=0; // first cable row
	161	else if (8<=iphi&&iphi<16 && 0<=ieta&&ieta<24) iRCU=0; // first half;
	162	else if(8<=iphi&&iphi<16 && 24<=ieta&&ieta<48) iRCU=1; // second half;
	163	//second cable row
	164	else if(16<=iphi&&iphi<24) iRCU=1; // third cable row
de39a0ff	165
8cc543cb	166	if (nSM%2==1) iRCU = 1 - iRCU; // swap for odd=C side, to allow us to cable both sides the same
de39a0ff	167
8cc543cb	168	if (iRCU<0)
	169	Fatal("Digits2Raw()","Non-existent RCU number: %d", iRCU);
	170
	171	//Which DDL?
	172	Int_t iDDL = NRCUSPERMODULE*nSM + iRCU;
	173	if (iDDL < 0 \|\| iDDL >= nDDL){
	174	Fatal("Digits2Raw()","Non-existent DDL board number: %d", iDDL);
	175	} else {
	176	if (buffers[iDDL] == 0) {
	177	// open new file and write dummy header
	178	TString fileName = AliDAQ::DdlFileName("EMCAL",iDDL);
	179	//Select mapping file RCU0A, RCU0C, RCU1A, RCU1C
a2339fea	180	Int_t iRCUside=iRCU+(nSM%2)*2;
	181	//iRCU=0 and even (0) SM -> RCU0A.data 0
	182	//iRCU=1 and even (0) SM -> RCU1A.data 1
	183	//iRCU=0 and odd (1) SM -> RCU0C.data 2
	184	//iRCU=1 and odd (1) SM -> RCU1C.data 3
8cc543cb	185	buffers[iDDL] = new AliAltroBuffer(fileName.Data(),fMapping[iRCUside]);
a2339fea	186	buffers[iDDL]->WriteDataHeader(kTRUE, kFALSE); //Dummy;
	187	}
	188
	189	// out of time range signal (?)
92d9f317	190	if (digit->GetTimeR() > TIMEBINMAX ) {
a2339fea	191	AliInfo("Signal is out of time range.\n");
a2339fea	192	buffers[iDDL]->FillBuffer((Int_t)digit->GetAmplitude());
92d9f317	193	buffers[iDDL]->FillBuffer( TIMEBINS ); // time bin
a2339fea	194	buffers[iDDL]->FillBuffer(3); // bunch length
	195	buffers[iDDL]->WriteTrailer(3, ieta, iphi, nSM); // trailer
	196	// calculate the time response function
	197	} else {
8cc543cb	198	Bool_t lowgain = AliEMCALRawResponse::RawSampledResponse(digit->GetTimeR(), digit->GetAmplitude(),
	199	adcValuesHigh.GetArray(), adcValuesLow.GetArray()) ;
	200
	201	if (lowgain)
1f847d9f	202	buffers[iDDL]->WriteChannel(ieta, iphi, 0, TIMEBINS, adcValuesLow.GetArray(), AliEMCALRawResponse::GetRawFormatThreshold() );
a2339fea	203	else
1f847d9f	204	buffers[iDDL]->WriteChannel(ieta,iphi, 1, TIMEBINS, adcValuesHigh.GetArray(), AliEMCALRawResponse::GetRawFormatThreshold() );
a2339fea	205	}
a2339fea	206	}// iDDL under the limits
de39a0ff	207	}//digit exists
de39a0ff	208	}//Digit loop
a2339fea	209
ee299369	210	// write headers and close files
	211	for (Int_t i=0; i < nDDL; i++) {
	212	if (buffers[i]) {
	213	buffers[i]->Flush();
	214	buffers[i]->WriteDataHeader(kFALSE, kFALSE);
	215	delete buffers[i];
	216	}
	217	}
de39a0ff	218
ee299369	219	loader->UnloadDigits();
	220	}
	221
92d9f317	222
77eac271	223
92d9f317	224	void AliEMCALRawUtils::AddDigit(TClonesArray *digitsArr, Int_t id, Int_t lowGain, Float_t amp, Float_t time, Float_t chi2, Int_t ndf)
92d9f317	225	{
77eac271	226	// comment
92d9f317	227	AliEMCALDigit digit = 0, tmpdigit = 0;
	228	TIter nextdigit(digitsArr);
	229
	230	while (digit == 0 && (tmpdigit = (AliEMCALDigit*) nextdigit()))
	231	{
	232	if (tmpdigit->GetId() == id) digit = tmpdigit;
	233	}
	234
	235	if (!digit) { // no digit existed for this tower; create one
	236	Int_t type = AliEMCALDigit::kHG; // use enum in AliEMCALDigit
	237	if (lowGain)
	238	{
	239	amp *= HGLGFACTOR;
	240	type = AliEMCALDigit::kLGnoHG;
	241	}
	242
	243	Int_t idigit = digitsArr->GetEntries();
	244	new((*digitsArr)[idigit]) AliEMCALDigit( -1, -1, id, amp, time, type, idigit, chi2, ndf);
	245	AliDebug(2,Form("Add digit Id %d for the first time, type %d", id, type));
	246	}//digit added first time
	247	else
	248	{ // a digit already exists, check range
	249	// (use high gain if signal < cut value, otherwise low gain)
	250	if (lowGain)
	251	{ // new digit is low gain
	252	if (digit->GetAmplitude() > OVERFLOWCUT )
	253	{ // use if previously stored (HG) digit is out of range
	254	digit->SetAmplitude( HGLGFACTOR * amp);
	255	digit->SetTime(time);
	256	digit->SetType(AliEMCALDigit::kLG);
	257	AliDebug(2,Form("Add LG digit ID %d for the second time, type %d", digit->GetId(), digit->GetType()));
	258	}
	259	}//new low gain digit
	260	else { // new digit is high gain
	261
	262	if (amp < OVERFLOWCUT )
	263	{ // new digit is high gain; use if not out of range
	264	digit->SetAmplitude(amp);
	265	digit->SetTime(time);
	266	digit->SetType(AliEMCALDigit::kHG);
	267	AliDebug(2,Form("Add HG digit ID %d for the second time, type %d", digit->GetId(), digit->GetType()));
	268	}
	269	else
	270	{ // HG out of range, just change flag value to show that HG did exist
	271	digit->SetType(AliEMCALDigit::kLG);
	272	AliDebug(2,Form("Change LG digit to HG, ID %d, type %d", digit->GetId(), digit->GetType()));
	273	}
	274	}//new high gain digit
	275	}//digit existed replace it
	276	}
	277
	278
de39a0ff	279	void AliEMCALRawUtils::Raw2Digits(AliRawReader* reader,TClonesArray digitsArr, const AliCaloCalibPedestal pedbadmap, TClonesArray digitsTRG, AliEMCALTriggerData trgData)
ee299369	280	{
77eac271	281	//conversion of raw data to digits
de39a0ff	282	if(digitsArr) digitsArr->Clear("C");
92d9f317	283	if (!digitsArr) { Error("Raw2Digits", "no digits found !");return;}
92d9f317	284	if (!reader) {Error("Raw2Digits", "no raw reader found !");return;}
de39a0ff	285	AliEMCALTriggerSTURawStream inSTU(reader);
de39a0ff	286	AliCaloRawStreamV3 in(reader,"EMCAL",fMapping);
2d512377	287	reader->Select("EMCAL",0,39); // 39 = AliEMCALGeoParams::fgkLastAltroDDL
de39a0ff	288	fTriggerRawDigitMaker->Reset();
de39a0ff	289	fTriggerRawDigitMaker->SetIO(reader, in, inSTU, digitsTRG, trgData);
16605c06	290	fRawAnalyzer->SetIsZeroSuppressed(true); // TMP - should use stream->IsZeroSuppressed(), or altro cfg registers later
92d9f317	291
829ba234	292	Int_t lowGain = 0;
e5bbbc4e	293	Int_t caloFlag = 0; // low, high gain, or TRU, or LED ref.
a2339fea	294
74867dce	295	Float_t bcTimePhaseCorr = 0; // for BC-based L1 phase correction
74867dce	296	Int_t bcMod4 = (reader->GetBCID() % 4); // LHC uses 40 MHz, EMCal uses 10 MHz clock
2d45a08f	297
	298	//AliCDBManager* man = AliCDBManager::Instance();
	299	//Int_t runNumber = man->GetRun();
	300
	301	Int_t runNumber = reader->GetRunNumber();
	302
	303	if ((runNumber >130850 ) && (bcMod4==0 \|\| bcMod4==1))
74867dce	304	bcTimePhaseCorr = -1e-7; // subtract 100 ns for certain BC values
74867dce	305
92d9f317	306	while (in.NextDDL())
92d9f317	307	{
92d9f317	308	while (in.NextChannel())
92d9f317	309	{
92d9f317	310	caloFlag = in.GetCaloFlag();
	311	if (caloFlag > 2) continue; // Work with ALTRO and FALTRO
	312	if(caloFlag < 2 && fRemoveBadChannels && pedbadmap->IsBadChannel(in.GetModule(),in.GetColumn(),in.GetRow()))
	313	{
	314	continue;
	315	}
	316	vector<AliCaloBunchInfo> bunchlist;
	317	while (in.NextBunch())
	318	{
	319	bunchlist.push_back( AliCaloBunchInfo(in.GetStartTimeBin(), in.GetBunchLength(), in.GetSignals() ) );
	320	}
	321	if (bunchlist.size() == 0) continue;
	322	if ( caloFlag < 2 )
	323	{ // ALTRO
	324	Int_t id = fGeom->GetAbsCellIdFromCellIndexes(in.GetModule(), in.GetRow(), in.GetColumn()) ;
	325	lowGain = in.IsLowGain();
	326	fRawAnalyzer->SetL1Phase( in.GetL1Phase() );
	327	AliCaloFitResults res = fRawAnalyzer->Evaluate( bunchlist, in.GetAltroCFG1(), in.GetAltroCFG2());
	328	if(res.GetAmp() >= fNoiseThreshold )
	329	{
74867dce	330	AddDigit(digitsArr, id, lowGain, res.GetAmp(), res.GetTime()+bcTimePhaseCorr, res.GetChi2(), res.GetNdf() );
92d9f317	331	}
	332	}//ALTRO
	333	else if(fUseFALTRO)
	334	{// Fake ALTRO
	335	fTriggerRawDigitMaker->Add( bunchlist );
	336	}//Fake ALTRO
	337	} // end while over channel
	338	} //end while over DDL's, of input stream
de39a0ff	339	fTriggerRawDigitMaker->PostProcess();
f4a4dc82	340	TrimDigits(digitsArr);
ee299369	341	}
ee299369	342
f4a4dc82	343
f4a4dc82	344	void AliEMCALRawUtils::TrimDigits(TClonesArray *digitsArr)
dab4328c	345	{ // rm entries with LGnoHG (unphysical), out of time window, and too bad chi2
f4a4dc82	346	AliEMCALDigit *digit = 0;
	347	Int_t n = 0;
	348	Int_t nDigits = digitsArr->GetEntriesFast();
	349	TIter nextdigit(digitsArr);
	350	while ((digit = (AliEMCALDigit*) nextdigit())) {
f4a4dc82	351	if (digit->GetType() == AliEMCALDigit::kLGnoHG) {
92d9f317	352	AliDebug(1,Form("Remove digit with id %d, LGnoHG",digit->GetId()));
f4a4dc82	353	digitsArr->Remove(digit);
82cbdfca	354	}
f4a4dc82	355	else if(fTimeMin > digit->GetTime() \|\| fTimeMax < digit->GetTime()) {
f4a4dc82	356	digitsArr->Remove(digit);
92d9f317	357	AliDebug(1,Form("Remove digit with id %d, Bad Time %e",digit->GetId(), digit->GetTime()));
82cbdfca	358	}
2cd0ffda	359	else if (0 > digit->GetChi2()) {
2cd0ffda	360	digitsArr->Remove(digit);
92d9f317	361	AliDebug(1,Form("Remove digit with id %d, Bad Chi2 %e",digit->GetId(), digit->GetChi2()));
2cd0ffda	362	}
f4a4dc82	363	else {
	364	digit->SetIndexInList(n);
	365	n++;
	366	}
	367	}//while
	368
	369	digitsArr->Compress();
	370	AliDebug(1,Form("N Digits before trimming : %d; after array compression %d",nDigits,digitsArr->GetEntriesFast()));
16605c06	371	}
8cb998bd	372
16605c06	373
4fe71e02	374	void AliEMCALRawUtils::SetFittingAlgorithm(Int_t fitAlgo)
dab4328c	375	{ // select which fitting algo should be used
48b634ff	376	delete fRawAnalyzer; // delete doesn't do anything if the pointer is 0x0
92d9f317	377	fRawAnalyzer = AliCaloRawAnalyzerFactory::CreateAnalyzer( fitAlgo );
	378	fRawAnalyzer->SetNsampleCut(5); // requirement for fits to be done, for the new methods
	379	fRawAnalyzer->SetOverflowCut ( OVERFLOWCUT );
	380	fRawAnalyzer->SetAmpCut(fNoiseThreshold);
	381	fRawAnalyzer->SetFitArrayCut(fNoiseThreshold);
4fe71e02	382	}
	383
	384
92d9f317	385