[u/mrichter/AliRoot.git] / ITS / AliITSClusterFinderV2SDD.cxx

/**************************************************************************
 * Copyright(c) 1998-2003, 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.                  *
 **************************************************************************/

/* $Id$*/

////////////////////////////////////////////////////////////////////////////
//            Implementation of the ITS clusterer V2 class                //
//                                                                        //
//          Origin: Iouri Belikov, CERN, Jouri.Belikov@cern.ch            //
//                                                                        //
///////////////////////////////////////////////////////////////////////////


#include <TClonesArray.h>
#include "AliITSClusterFinderV2SDD.h"
#include "AliITSRecPoint.h"
#include "AliITSDetTypeRec.h"
#include "AliRawReader.h"
#include "AliITSRawStreamSDD.h"
#include "AliITSCalibrationSDD.h"
#include "AliITSDetTypeRec.h"
#include "AliITSReconstructor.h"
#include "AliITSsegmentationSDD.h"
#include "AliITSdigitSDD.h"
#include "AliITSgeomTGeo.h"

ClassImp(AliITSClusterFinderV2SDD)

AliITSClusterFinderV2SDD::AliITSClusterFinderV2SDD(AliITSDetTypeRec* dettyp):AliITSClusterFinderV2(dettyp)
{

  //Default constructor

}
 

void AliITSClusterFinderV2SDD::FindRawClusters(Int_t mod){

  //Find clusters V2
  SetModule(mod);
  FindClustersSDD(fDigits);

}

void AliITSClusterFinderV2SDD::FindClustersSDD(TClonesArray *digits) {
  //------------------------------------------------------------
  // Actual SDD cluster finder
  //------------------------------------------------------------
  Int_t nAnodes = GetSeg()->NpzHalf();
  Int_t nzBins = nAnodes+2;
  Int_t nTimeBins = GetSeg()->Npx();
  Int_t nxBins = nTimeBins+2;
  const Int_t kMaxBin=nzBins*nxBins;

  AliBin *bins[2];
  bins[0]=new AliBin[kMaxBin];
  bins[1]=new AliBin[kMaxBin];
  AliITSCalibrationSDD* cal = (AliITSCalibrationSDD*)GetResp(fModule);
  if(cal==0){
    AliError(Form("Calibration object not present for SDD module %d\n",fModule));
    return;
  }
  AliITSresponseSDD* res  = (AliITSresponseSDD*)cal->GetResponse();
  const char *option=res->ZeroSuppOption();
  AliITSdigitSDD *d=0;
  Int_t i, ndigits=digits->GetEntriesFast();
  for (i=0; i<ndigits; i++) {
     d=(AliITSdigitSDD*)digits->UncheckedAt(i);
     Int_t ian=d->GetCoord1();
     Int_t itb=d->GetCoord2();
     Int_t iSide=0;
     if (ian >= nAnodes) iSide=1;    
     Float_t gain=cal->GetChannelGain(ian);
     Float_t charge=d->GetSignal();
     if(strstr(option,"ZS")) charge+=(Float_t)cal->GetZSLowThreshold(iSide);
     Float_t baseline = cal->GetBaseline(ian);
     if(charge>baseline) charge-=baseline;
     else charge=0;

     if(gain>0.){ // Bad channels have gain=0.
       charge/=gain;
       if(charge<cal->GetThresholdAnode(ian)) continue;
       Int_t q=(Int_t)(charge+0.5);
       Int_t y=itb+1;   
       Int_t z=ian+1;   
       if (z <= nAnodes){
	 bins[0][y*nzBins+z].SetQ(q);
	 bins[0][y*nzBins+z].SetMask(1);
	 bins[0][y*nzBins+z].SetIndex(i);
       } else {
	 z-=nAnodes;
	 bins[1][y*nzBins+z].SetQ(q);
	 bins[1][y*nzBins+z].SetMask(1);
	 bins[1][y*nzBins+z].SetIndex(i);
       }
     }
  }
  
  FindClustersSDD(bins, kMaxBin, nzBins, digits);

  delete[] bins[0];
  delete[] bins[1];

}

void AliITSClusterFinderV2SDD::
FindClustersSDD(AliBin* bins[2], Int_t nMaxBin, Int_t nzBins, 
		TClonesArray *digits, TClonesArray *clusters) {
  //------------------------------------------------------------
  // Actual SDD cluster finder
  //------------------------------------------------------------

  static AliITSRecoParam *repa = NULL;
  if(!repa){
    repa = (AliITSRecoParam*) AliITSReconstructor::GetRecoParam();
    if(!repa){
      repa = (AliITSRecoParam*) AliITSReconstructor::GetRecoParamDefault();
      AliWarning("Using default AliITSRecoParam class");
    }
  }
  const TGeoHMatrix *mT2L=AliITSgeomTGeo::GetTracking2LocalMatrix(fModule);
  AliITSCalibrationSDD* cal = (AliITSCalibrationSDD*)GetResp(fModule);
  if(cal==0){
    AliError(Form("Calibration object not present for SDD module %d\n",fModule));
    return;
  }
  Int_t ncl=0; 
  TClonesArray &cl=*clusters;
  for (Int_t s=0; s<2; s++)
    for (Int_t i=0; i<nMaxBin; i++) {
      NoiseSuppress(i,s,nzBins,bins[s],cal);
      if (bins[s][i].IsUsed()) continue;
      Int_t idx[32]; UInt_t msk[32]; Int_t npeaks=0;
      FindPeaks(i, nzBins, bins[s], idx, msk, npeaks);

      if (npeaks>30) continue;
      if (npeaks==0) continue;

      Int_t k,l;
      for (k=0; k<npeaks-1; k++){//mark adjacent peaks
        if (idx[k] < 0) continue; //this peak is already removed
        for (l=k+1; l<npeaks; l++) {
	  if (idx[l] < 0) continue; //this peak is already removed
	  Int_t ki=idx[k]/nzBins, kj=idx[k] - ki*nzBins;
	  Int_t li=idx[l]/nzBins, lj=idx[l] - li*nzBins;
	  Int_t di=TMath::Abs(ki - li);
	  Int_t dj=TMath::Abs(kj - lj);
	  if (di>1 || dj>1) continue;
	  if (bins[s][idx[k]].GetQ() > bins[s][idx[l]].GetQ()) {
	    msk[l]=msk[k];
	    idx[l]*=-1;
	  } else {
	    msk[k]=msk[l];
	    idx[k]*=-1;
	    break;
	  } 
        }
      }

      for (k=0; k<npeaks; k++) {
	if(repa->GetUseUnfoldingInClusterFinderSDD()==kFALSE) msk[k]=msk[0];
        MarkPeak(TMath::Abs(idx[k]), nzBins, bins[s], msk[k]);
      }
        
      for (k=0; k<npeaks; k++) {
	if (idx[k] < 0) continue; //removed peak
	AliITSRecPoint c;
	MakeCluster(idx[k], nzBins, bins[s], msk[k], c);
	//mi change
	Int_t milab[10];
	for (Int_t ilab=0;ilab<10;ilab++){
	  milab[ilab]=-2;
	}
	Int_t maxi=0,mini=0,maxj=0,minj=0;
	//AliBin *bmax=&bins[s][idx[k]];
	//Float_t max = TMath::Max(TMath::Abs(bmax->GetQ())/5.,3.);
	
	for (Int_t di=-2; di<=2;di++){
	  for (Int_t dj=-3;dj<=3;dj++){
	    Int_t index = idx[k]+di+dj*nzBins;
	    if (index<0) continue;
	    if (index>=nMaxBin) continue;
	    AliBin *b=&bins[s][index];
	    Int_t nAnode=index%nzBins-1;
	    Int_t adcSignal=b->GetQ();
	    if(adcSignal>cal->GetThresholdAnode(nAnode)){
	      if (di>maxi) maxi=di;
	      if (di<mini) mini=di;
	      if (dj>maxj) maxj=dj;
	      if (dj<minj) minj=dj;
	    }
	    //
	    if(digits) {
	      if (TMath::Abs(di)<2&&TMath::Abs(dj)<2){
		AliITSdigitSDD* d=(AliITSdigitSDD*)digits->UncheckedAt(b->GetIndex());
		for (Int_t itrack=0;itrack<10;itrack++){
		  Int_t track = (d->GetTracks())[itrack];
		  if (track>=0) {
		    AddLabel(milab, track); 
		  }
		}
	      }
	    }
	  }
	}


	Float_t y=c.GetY(),z=c.GetZ(), q=c.GetQ();	 
	y/=q; z/=q;
	Float_t zAnode=z-0.5;  // to have anode in range 0.-255. and centered on the mid of the pitch
	Float_t timebin=y-0.5;  // to have time bin in range 0.-255. amd centered on the mid of the bin
	if(s==1) zAnode += GetSeg()->NpzHalf();  // right side has anodes from 256. to 511.
	Float_t zdet = GetSeg()->GetLocalZFromAnode(zAnode);
	Float_t driftTime = GetSeg()->GetDriftTimeFromTb(timebin) - cal->GetTimeOffset();
	Float_t driftPathMicron = cal->GetDriftPath(driftTime,zAnode);
	const Double_t kMicronTocm = 1.0e-4; 
	Float_t xdet=(driftPathMicron-GetSeg()->Dx())*kMicronTocm; // xdet is negative
	if (s==0) xdet=-xdet; // left side has positive local x
	
	Float_t corrx=0, corrz=0;
	cal->GetCorrections(zdet,xdet,corrz,corrx,GetSeg());
	zdet+=corrz;
	xdet+=corrx;

	Double_t loc[3]={xdet,0.,zdet},trk[3]={0.,0.,0.};
	mT2L->MasterToLocal(loc,trk);
	y=trk[1];
	z=trk[2]; 

	q/=cal->GetADC2keV();  //to have MPV 1 MIP = 86.4 KeV
	Float_t hit[5] = {y, z, 0.0030*0.0030, 0.0020*0.0020, q};
	Int_t  info[3] = {maxj-minj+1, maxi-mini+1, fNlayer[fModule]};
	if (digits) {	  
	  //	   AliBin *b=&bins[s][idx[k]];
	  //	   AliITSdigitSDD* d=(AliITSdigitSDD*)digits->UncheckedAt(b->GetIndex());
	  {
	    //Int_t lab[3];
	    //lab[0]=(d->GetTracks())[0];
	    //lab[1]=(d->GetTracks())[1];
	    //lab[2]=(d->GetTracks())[2];
	    //CheckLabels(lab);
	    CheckLabels2(milab); 
	  }
	}
	milab[3]=fNdet[fModule];

	AliITSRecPoint cc(milab,hit,info);
	cc.SetType(npeaks);
	if(clusters) new (cl[ncl]) AliITSRecPoint(cc); 
	else {
	  fDetTypeRec->AddRecPoint(cc);
	}
	ncl++;
      }
    }
  
}
//______________________________________________________________________
void AliITSClusterFinderV2SDD::RawdataToClusters(AliRawReader* rawReader,TClonesArray** clusters){
    //------------------------------------------------------------
  // This function creates ITS clusters from raw data
  //------------------------------------------------------------
  rawReader->Reset();
  AliITSRawStreamSDD inputSDD(rawReader);
  AliITSDDLModuleMapSDD *ddlmap=(AliITSDDLModuleMapSDD*)fDetTypeRec->GetDDLModuleMapSDD();
  inputSDD.SetDDLModuleMap(ddlmap);
  FindClustersSDD(&inputSDD,clusters);

}

void AliITSClusterFinderV2SDD::FindClustersSDD(AliITSRawStream* input, 
					TClonesArray** clusters) 
{
  //------------------------------------------------------------
  // Actual SDD cluster finder for raw data
  //------------------------------------------------------------
  Int_t nClustersSDD = 0;
  Int_t nAnodes = GetSeg()->NpzHalf();
  Int_t nzBins = nAnodes+2;
  Int_t nTimeBins = GetSeg()->Npx();
  Int_t nxBins = nTimeBins+2;
  const Int_t kMaxBin=nzBins*nxBins;
  AliBin *bins[2];
  AliBin *ddlbins[kHybridsPerDDL]; // 12 modules (=24 hybrids) of 1 DDL read "in parallel"
  for(Int_t iHyb=0;iHyb<kHybridsPerDDL;iHyb++) ddlbins[iHyb]=new AliBin[kMaxBin];
  // read raw data input stream
  while (input->Next()) {
    Int_t iModule = input->GetModuleID();
    if(iModule<0){
      AliWarning(Form("Invalid SDD module number %d\n", iModule));
      continue;
    }

    Int_t iCarlos =((AliITSRawStreamSDD*)input)->GetCarlosId();
    Int_t iSide = ((AliITSRawStreamSDD*)input)->GetChannel();
    Int_t iHybrid=iCarlos*2+iSide;
    if (input->IsCompletedModule()) {
      // when all data from a module was read, search for clusters
      if(iCarlos<0){
	AliWarning(Form("Invalid SDD carlos number %d on module %d\n", iCarlos,iModule));
	continue;
      }
      clusters[iModule] = new TClonesArray("AliITSRecPoint");
      fModule = iModule;
      bins[0]=ddlbins[iCarlos*2];   // first hybrid of the completed module
      bins[1]=ddlbins[iCarlos*2+1]; // second hybrid of the completed module
      FindClustersSDD(bins, kMaxBin, nzBins, NULL, clusters[iModule]);
      Int_t nClusters = clusters[iModule]->GetEntriesFast();
      nClustersSDD += nClusters;
      for(Int_t iBin=0;iBin<kMaxBin; iBin++){
	ddlbins[iCarlos*2][iBin].Reset();
	ddlbins[iCarlos*2+1][iBin].Reset();
      }
    }else{
    // fill the current digit into the bins array
      if(iHybrid<0 || iHybrid>=kHybridsPerDDL){ 
	AliWarning(Form("Invalid SDD hybrid number %d on module %d\n", iHybrid,iModule));
	continue;
      }
      AliITSCalibrationSDD* cal = (AliITSCalibrationSDD*)GetResp(iModule);    
      if(cal==0){
	AliError(Form("Calibration object not present for SDD module %d\n",iModule));
	continue;
      }
      AliITSresponseSDD* res  = (AliITSresponseSDD*)cal->GetResponse();
      const char *option=res->ZeroSuppOption();
      Float_t charge=input->GetSignal();
      Int_t chan=input->GetCoord1()+nAnodes*iSide;
      Float_t gain=cal->GetChannelGain(chan);
      if(strstr(option,"ZS")) charge+=(Float_t)cal->GetZSLowThreshold(iSide);
      Float_t baseline = cal->GetBaseline(chan);
      if(charge>baseline) charge-=baseline;
      else charge=0;
      if(gain>0.){ // Bad channels have gain=0
	charge/=gain;
	if(charge>=cal->GetThresholdAnode(chan)) {
	  Int_t q=(Int_t)(charge+0.5);
	  Int_t iz = input->GetCoord1();
	  Int_t itb = input->GetCoord2();
	  Int_t index = (itb+1) * nzBins + (iz+1);
	  if(index<kMaxBin){
	    ddlbins[iHybrid][index].SetQ(q);
	    ddlbins[iHybrid][index].SetMask(1);
	    ddlbins[iHybrid][index].SetIndex(index);
	  }else{
	    AliWarning(Form("Invalid SDD cell: Anode=%d   TimeBin=%d",iz,itb));	  
	  }
	}
      }
    }
  }
  for(Int_t iHyb=0;iHyb<kHybridsPerDDL;iHyb++) delete [] ddlbins[iHyb];
  Info("FindClustersSDD", "found clusters in ITS SDD: %d", nClustersSDD);
}

//______________________________________________________________________
void AliITSClusterFinderV2SDD::NoiseSuppress(Int_t k, Int_t sid,Int_t nzBins, AliBin* bins, AliITSCalibrationSDD* cal) const {
  // applies zero suppression using the measured noise of each anode
  // threshold values from ALICE-INT-1999-28 V10
  Float_t factL=2.2; 
  Float_t factH=4.0;
  //

  Int_t iAn=(k%nzBins)-1;
  if(iAn<0 || iAn>255) return;
  if(sid==1) iAn+=256;
  Int_t nLow=0, nHigh=0;
  Float_t noise=cal->GetNoiseAfterElectronics(iAn);
  Float_t noisem1=noise;
  if(iAn>1) noisem1=cal->GetNoiseAfterElectronics(iAn-1);
  Float_t noisep1=noise;
  if(iAn<511) noisep1=cal->GetNoiseAfterElectronics(iAn+1);
  Float_t tL=noise*factL;
  Float_t tH=noise*factH;
  Float_t tLp1=noisep1*factL;
  Float_t tHp1=noisep1*factH;
  Float_t tLm1=noisem1*factL;
  Float_t tHm1=noisem1*factH;
  Float_t cC=bins[k].GetQ();
  if(cC<=tL){
    bins[k].SetQ(0);
    bins[k].SetMask(0xFFFFFFFE);
    return;
  }
  nLow++; // cC is greater than tL
  if(cC>tH) nHigh++;
  Int_t sS=bins[k-1].GetQ();
  if(sS>tLm1) nLow++;
  if(sS>tHm1) nHigh++;
  Int_t nN=bins[k+1].GetQ();
  if(nN>tLp1) nLow++;
  if(nN>tHp1) nHigh++;
  Int_t eE=bins[k-nzBins].GetQ();
  if(eE>tL) nLow++;
  if(eE>tH) nHigh++;
  Int_t wW=bins[k+nzBins].GetQ();
  if(wW>tL) nLow++;
  if(wW>tH) nHigh++;
  if(nLow<3 || nHigh<1){
    bins[k].SetQ(0);
    bins[k].SetMask(0xFFFFFFFE);
  }
}
Commit	Line	Data
04366a57	1	/**************************************************************************
	2	* Copyright(c) 1998-2003, 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	**************************************************************************/
d76cb3ad	15
	16	/* $Id$*/
	17
04366a57	18	////////////////////////////////////////////////////////////////////////////
	19	// Implementation of the ITS clusterer V2 class //
	20	// //
	21	// Origin: Iouri Belikov, CERN, Jouri.Belikov@cern.ch //
	22	// //
	23	///////////////////////////////////////////////////////////////////////////
	24
	25
04366a57	26
ae485645	27	#include <TClonesArray.h>
04366a57	28	#include "AliITSClusterFinderV2SDD.h"
00a7cc50	29	#include "AliITSRecPoint.h"
7d62fb64	30	#include "AliITSDetTypeRec.h"
04366a57	31	#include "AliRawReader.h"
0599a018	32	#include "AliITSRawStreamSDD.h"
5bfe44ce	33	#include "AliITSCalibrationSDD.h"
5bfe44ce	34	#include "AliITSDetTypeRec.h"
debf7b78	35	#include "AliITSReconstructor.h"
5bfe44ce	36	#include "AliITSsegmentationSDD.h"
04366a57	37	#include "AliITSdigitSDD.h"
b4704be3	38	#include "AliITSgeomTGeo.h"
debf7b78	39
04366a57	40	ClassImp(AliITSClusterFinderV2SDD)
04366a57	41
4952f440	42	AliITSClusterFinderV2SDD::AliITSClusterFinderV2SDD(AliITSDetTypeRec* dettyp):AliITSClusterFinderV2(dettyp)
a66a0eb6	43	{
04366a57	44
	45	//Default constructor
	46
04366a57	47	}
	48
	49
	50	void AliITSClusterFinderV2SDD::FindRawClusters(Int_t mod){
	51
	52	//Find clusters V2
	53	SetModule(mod);
	54	FindClustersSDD(fDigits);
	55
	56	}
	57
	58	void AliITSClusterFinderV2SDD::FindClustersSDD(TClonesArray *digits) {
	59	//------------------------------------------------------------
	60	// Actual SDD cluster finder
	61	//------------------------------------------------------------
4952f440	62	Int_t nAnodes = GetSeg()->NpzHalf();
	63	Int_t nzBins = nAnodes+2;
	64	Int_t nTimeBins = GetSeg()->Npx();
	65	Int_t nxBins = nTimeBins+2;
f6b6d58e	66	const Int_t kMaxBin=nzBins*nxBins;
04366a57	67
04366a57	68	AliBin *bins[2];
4952f440	69	bins[0]=new AliBin[kMaxBin];
4952f440	70	bins[1]=new AliBin[kMaxBin];
404c1c29	71	AliITSCalibrationSDD* cal = (AliITSCalibrationSDD*)GetResp(fModule);
9c7f5947	72	if(cal==0){
	73	AliError(Form("Calibration object not present for SDD module %d\n",fModule));
	74	return;
	75	}
0599a018	76	AliITSresponseSDD* res = (AliITSresponseSDD*)cal->GetResponse();
0599a018	77	const char *option=res->ZeroSuppOption();
04366a57	78	AliITSdigitSDD *d=0;
	79	Int_t i, ndigits=digits->GetEntriesFast();
	80	for (i=0; i<ndigits; i++) {
	81	d=(AliITSdigitSDD*)digits->UncheckedAt(i);
20f3f947	82	Int_t ian=d->GetCoord1();
	83	Int_t itb=d->GetCoord2();
	84	Int_t iSide=0;
	85	if (ian >= nAnodes) iSide=1;
	86	Float_t gain=cal->GetChannelGain(ian);
5683bd96	87	Float_t charge=d->GetSignal();
20f3f947	88	if(strstr(option,"ZS")) charge+=(Float_t)cal->GetZSLowThreshold(iSide);
	89	Float_t baseline = cal->GetBaseline(ian);
	90	if(charge>baseline) charge-=baseline;
	91	else charge=0;
5683bd96	92
9c7f5947	93	if(gain>0.){ // Bad channels have gain=0.
9c7f5947	94	charge/=gain;
20f3f947	95	if(charge<cal->GetThresholdAnode(ian)) continue;
9c7f5947	96	Int_t q=(Int_t)(charge+0.5);
20f3f947	97	Int_t y=itb+1;
20f3f947	98	Int_t z=ian+1;
9c7f5947	99	if (z <= nAnodes){
	100	bins[0][y*nzBins+z].SetQ(q);
	101	bins[0][y*nzBins+z].SetMask(1);
	102	bins[0][y*nzBins+z].SetIndex(i);
	103	} else {
	104	z-=nAnodes;
	105	bins[1][y*nzBins+z].SetQ(q);
	106	bins[1][y*nzBins+z].SetMask(1);
	107	bins[1][y*nzBins+z].SetIndex(i);
	108	}
04366a57	109	}
	110	}
	111
4952f440	112	FindClustersSDD(bins, kMaxBin, nzBins, digits);
04366a57	113
	114	delete[] bins[0];
	115	delete[] bins[1];
	116
	117	}
	118
	119	void AliITSClusterFinderV2SDD::
	120	FindClustersSDD(AliBin* bins[2], Int_t nMaxBin, Int_t nzBins,
	121	TClonesArray digits, TClonesArray clusters) {
	122	//------------------------------------------------------------
	123	// Actual SDD cluster finder
	124	//------------------------------------------------------------
b4704be3	125
debf7b78	126	static AliITSRecoParam *repa = NULL;
	127	if(!repa){
	128	repa = (AliITSRecoParam*) AliITSReconstructor::GetRecoParam();
	129	if(!repa){
	130	repa = (AliITSRecoParam*) AliITSReconstructor::GetRecoParamDefault();
	131	AliWarning("Using default AliITSRecoParam class");
	132	}
	133	}
b4704be3	134	const TGeoHMatrix *mT2L=AliITSgeomTGeo::GetTracking2LocalMatrix(fModule);
404c1c29	135	AliITSCalibrationSDD* cal = (AliITSCalibrationSDD*)GetResp(fModule);
9c7f5947	136	if(cal==0){
	137	AliError(Form("Calibration object not present for SDD module %d\n",fModule));
	138	return;
	139	}
04366a57	140	Int_t ncl=0;
	141	TClonesArray &cl=*clusters;
	142	for (Int_t s=0; s<2; s++)
	143	for (Int_t i=0; i<nMaxBin; i++) {
e3ee4984	144	NoiseSuppress(i,s,nzBins,bins[s],cal);
04366a57	145	if (bins[s][i].IsUsed()) continue;
	146	Int_t idx[32]; UInt_t msk[32]; Int_t npeaks=0;
	147	FindPeaks(i, nzBins, bins[s], idx, msk, npeaks);
	148
	149	if (npeaks>30) continue;
	150	if (npeaks==0) continue;
	151
	152	Int_t k,l;
	153	for (k=0; k<npeaks-1; k++){//mark adjacent peaks
	154	if (idx[k] < 0) continue; //this peak is already removed
	155	for (l=k+1; l<npeaks; l++) {
f6b6d58e	156	if (idx[l] < 0) continue; //this peak is already removed
	157	Int_t ki=idx[k]/nzBins, kj=idx[k] - ki*nzBins;
	158	Int_t li=idx[l]/nzBins, lj=idx[l] - li*nzBins;
	159	Int_t di=TMath::Abs(ki - li);
	160	Int_t dj=TMath::Abs(kj - lj);
	161	if (di>1 \|\| dj>1) continue;
	162	if (bins[s][idx[k]].GetQ() > bins[s][idx[l]].GetQ()) {
	163	msk[l]=msk[k];
	164	idx[l]*=-1;
	165	} else {
	166	msk[k]=msk[l];
	167	idx[k]*=-1;
	168	break;
	169	}
04366a57	170	}
	171	}
	172
	173	for (k=0; k<npeaks; k++) {
debf7b78	174	if(repa->GetUseUnfoldingInClusterFinderSDD()==kFALSE) msk[k]=msk[0];
04366a57	175	MarkPeak(TMath::Abs(idx[k]), nzBins, bins[s], msk[k]);
	176	}
	177
	178	for (k=0; k<npeaks; k++) {
f6b6d58e	179	if (idx[k] < 0) continue; //removed peak
	180	AliITSRecPoint c;
	181	MakeCluster(idx[k], nzBins, bins[s], msk[k], c);
	182	//mi change
	183	Int_t milab[10];
	184	for (Int_t ilab=0;ilab<10;ilab++){
	185	milab[ilab]=-2;
	186	}
	187	Int_t maxi=0,mini=0,maxj=0,minj=0;
	188	//AliBin *bmax=&bins[s][idx[k]];
	189	//Float_t max = TMath::Max(TMath::Abs(bmax->GetQ())/5.,3.);
	190
	191	for (Int_t di=-2; di<=2;di++){
	192	for (Int_t dj=-3;dj<=3;dj++){
	193	Int_t index = idx[k]+di+dj*nzBins;
	194	if (index<0) continue;
	195	if (index>=nMaxBin) continue;
	196	AliBin *b=&bins[s][index];
	197	Int_t nAnode=index%nzBins-1;
	198	Int_t adcSignal=b->GetQ();
	199	if(adcSignal>cal->GetThresholdAnode(nAnode)){
	200	if (di>maxi) maxi=di;
	201	if (di<mini) mini=di;
	202	if (dj>maxj) maxj=dj;
	203	if (dj<minj) minj=dj;
	204	}
	205	//
	206	if(digits) {
	207	if (TMath::Abs(di)<2&&TMath::Abs(dj)<2){
	208	AliITSdigitSDD* d=(AliITSdigitSDD*)digits->UncheckedAt(b->GetIndex());
	209	for (Int_t itrack=0;itrack<10;itrack++){
	210	Int_t track = (d->GetTracks())[itrack];
	211	if (track>=0) {
	212	AddLabel(milab, track);
	213	}
	214	}
	215	}
	216	}
	217	}
	218	}
	219
	220
	221	Float_t y=c.GetY(),z=c.GetZ(), q=c.GetQ();
	222	y/=q; z/=q;
	223	Float_t zAnode=z-0.5; // to have anode in range 0.-255. and centered on the mid of the pitch
	224	Float_t timebin=y-0.5; // to have time bin in range 0.-255. amd centered on the mid of the bin
	225	if(s==1) zAnode += GetSeg()->NpzHalf(); // right side has anodes from 256. to 511.
	226	Float_t zdet = GetSeg()->GetLocalZFromAnode(zAnode);
	227	Float_t driftTime = GetSeg()->GetDriftTimeFromTb(timebin) - cal->GetTimeOffset();
	228	Float_t driftPathMicron = cal->GetDriftPath(driftTime,zAnode);
	229	const Double_t kMicronTocm = 1.0e-4;
	230	Float_t xdet=(driftPathMicron-GetSeg()->Dx())*kMicronTocm; // xdet is negative
	231	if (s==0) xdet=-xdet; // left side has positive local x
c9a38d3d	232
	233	Float_t corrx=0, corrz=0;
	234	cal->GetCorrections(zdet,xdet,corrz,corrx,GetSeg());
	235	zdet+=corrz;
	236	xdet+=corrx;
f6b6d58e	237
	238	Double_t loc[3]={xdet,0.,zdet},trk[3]={0.,0.,0.};
	239	mT2L->MasterToLocal(loc,trk);
	240	y=trk[1];
	241	z=trk[2];
	242
	243	q/=cal->GetADC2keV(); //to have MPV 1 MIP = 86.4 KeV
	244	Float_t hit[5] = {y, z, 0.00300.0030, 0.00200.0020, q};
	245	Int_t info[3] = {maxj-minj+1, maxi-mini+1, fNlayer[fModule]};
	246	if (digits) {
	247	// AliBin *b=&bins[s][idx[k]];
	248	// AliITSdigitSDD* d=(AliITSdigitSDD*)digits->UncheckedAt(b->GetIndex());
	249	{
	250	//Int_t lab[3];
	251	//lab[0]=(d->GetTracks())[0];
	252	//lab[1]=(d->GetTracks())[1];
	253	//lab[2]=(d->GetTracks())[2];
	254	//CheckLabels(lab);
	255	CheckLabels2(milab);
	256	}
	257	}
	258	milab[3]=fNdet[fModule];
	259
	260	AliITSRecPoint cc(milab,hit,info);
	261	cc.SetType(npeaks);
	262	if(clusters) new (cl[ncl]) AliITSRecPoint(cc);
	263	else {
	264	fDetTypeRec->AddRecPoint(cc);
	265	}
	266	ncl++;
04366a57	267	}
04366a57	268	}
24c98369	269
04366a57	270	}
f6b6d58e	271	//______________________________________________________________________
04366a57	272	void AliITSClusterFinderV2SDD::RawdataToClusters(AliRawReader* rawReader,TClonesArray** clusters){
	273	//------------------------------------------------------------
	274	// This function creates ITS clusters from raw data
	275	//------------------------------------------------------------
	276	rawReader->Reset();
0599a018	277	AliITSRawStreamSDD inputSDD(rawReader);
979b5a5f	278	AliITSDDLModuleMapSDD ddlmap=(AliITSDDLModuleMapSDD)fDetTypeRec->GetDDLModuleMapSDD();
979b5a5f	279	inputSDD.SetDDLModuleMap(ddlmap);
04366a57	280	FindClustersSDD(&inputSDD,clusters);
	281
	282	}
	283
	284	void AliITSClusterFinderV2SDD::FindClustersSDD(AliITSRawStream* input,
	285	TClonesArray** clusters)
	286	{
	287	//------------------------------------------------------------
	288	// Actual SDD cluster finder for raw data
	289	//------------------------------------------------------------
	290	Int_t nClustersSDD = 0;
4952f440	291	Int_t nAnodes = GetSeg()->NpzHalf();
	292	Int_t nzBins = nAnodes+2;
	293	Int_t nTimeBins = GetSeg()->Npx();
	294	Int_t nxBins = nTimeBins+2;
f6b6d58e	295	const Int_t kMaxBin=nzBins*nxBins;
ae485645	296	AliBin *bins[2];
93a93288	297	AliBin *ddlbins[kHybridsPerDDL]; // 12 modules (=24 hybrids) of 1 DDL read "in parallel"
93a93288	298	for(Int_t iHyb=0;iHyb<kHybridsPerDDL;iHyb++) ddlbins[iHyb]=new AliBin[kMaxBin];
04366a57	299	// read raw data input stream
14dceddf	300	while (input->Next()) {
e4da2288	301	Int_t iModule = input->GetModuleID();
93a93288	302	if(iModule<0){
	303	AliWarning(Form("Invalid SDD module number %d\n", iModule));
	304	continue;
	305	}
44c5b268	306
14dceddf	307	Int_t iCarlos =((AliITSRawStreamSDD*)input)->GetCarlosId();
	308	Int_t iSide = ((AliITSRawStreamSDD*)input)->GetChannel();
	309	Int_t iHybrid=iCarlos*2+iSide;
	310	if (input->IsCompletedModule()) {
04366a57	311	// when all data from a module was read, search for clusters
44c5b268	312	if(iCarlos<0){
	313	AliWarning(Form("Invalid SDD carlos number %d on module %d\n", iCarlos,iModule));
	314	continue;
	315	}
	316	clusters[iModule] = new TClonesArray("AliITSRecPoint");
	317	fModule = iModule;
	318	bins[0]=ddlbins[iCarlos*2]; // first hybrid of the completed module
	319	bins[1]=ddlbins[iCarlos*2+1]; // second hybrid of the completed module
	320	FindClustersSDD(bins, kMaxBin, nzBins, NULL, clusters[iModule]);
	321	Int_t nClusters = clusters[iModule]->GetEntriesFast();
	322	nClustersSDD += nClusters;
	323	for(Int_t iBin=0;iBin<kMaxBin; iBin++){
	324	ddlbins[iCarlos*2][iBin].Reset();
	325	ddlbins[iCarlos*2+1][iBin].Reset();
	326	}
5dfa68c5	327	}else{
04366a57	328	// fill the current digit into the bins array
44c5b268	329	if(iHybrid<0 \|\| iHybrid>=kHybridsPerDDL){
	330	AliWarning(Form("Invalid SDD hybrid number %d on module %d\n", iHybrid,iModule));
	331	continue;
	332	}
e4da2288	333	AliITSCalibrationSDD* cal = (AliITSCalibrationSDD*)GetResp(iModule);
9c7f5947	334	if(cal==0){
	335	AliError(Form("Calibration object not present for SDD module %d\n",iModule));
	336	continue;
	337	}
5dfa68c5	338	AliITSresponseSDD* res = (AliITSresponseSDD*)cal->GetResponse();
5dfa68c5	339	const char *option=res->ZeroSuppOption();
5683bd96	340	Float_t charge=input->GetSignal();
14dceddf	341	Int_t chan=input->GetCoord1()+nAnodes*iSide;
14dceddf	342	Float_t gain=cal->GetChannelGain(chan);
20f3f947	343	if(strstr(option,"ZS")) charge+=(Float_t)cal->GetZSLowThreshold(iSide);
	344	Float_t baseline = cal->GetBaseline(chan);
	345	if(charge>baseline) charge-=baseline;
	346	else charge=0;
9c7f5947	347	if(gain>0.){ // Bad channels have gain=0
	348	charge/=gain;
	349	if(charge>=cal->GetThresholdAnode(chan)) {
	350	Int_t q=(Int_t)(charge+0.5);
	351	Int_t iz = input->GetCoord1();
	352	Int_t itb = input->GetCoord2();
	353	Int_t index = (itb+1) * nzBins + (iz+1);
	354	if(index<kMaxBin){
	355	ddlbins[iHybrid][index].SetQ(q);
	356	ddlbins[iHybrid][index].SetMask(1);
	357	ddlbins[iHybrid][index].SetIndex(index);
	358	}else{
	359	AliWarning(Form("Invalid SDD cell: Anode=%d TimeBin=%d",iz,itb));
	360	}
93a93288	361	}
5dfa68c5	362	}
04366a57	363	}
04366a57	364	}
93a93288	365	for(Int_t iHyb=0;iHyb<kHybridsPerDDL;iHyb++) delete [] ddlbins[iHyb];
04366a57	366	Info("FindClustersSDD", "found clusters in ITS SDD: %d", nClustersSDD);
04366a57	367	}
04366a57	368
e3ee4984	369	//______________________________________________________________________
	370	void AliITSClusterFinderV2SDD::NoiseSuppress(Int_t k, Int_t sid,Int_t nzBins, AliBin* bins, AliITSCalibrationSDD* cal) const {
	371	// applies zero suppression using the measured noise of each anode
	372	// threshold values from ALICE-INT-1999-28 V10
	373	Float_t factL=2.2;
	374	Float_t factH=4.0;
	375	//
	376
	377	Int_t iAn=(k%nzBins)-1;
	378	if(iAn<0 \|\| iAn>255) return;
	379	if(sid==1) iAn+=256;
	380	Int_t nLow=0, nHigh=0;
	381	Float_t noise=cal->GetNoiseAfterElectronics(iAn);
	382	Float_t noisem1=noise;
	383	if(iAn>1) noisem1=cal->GetNoiseAfterElectronics(iAn-1);
	384	Float_t noisep1=noise;
	385	if(iAn<511) noisep1=cal->GetNoiseAfterElectronics(iAn+1);
	386	Float_t tL=noise*factL;
	387	Float_t tH=noise*factH;
	388	Float_t tLp1=noisep1*factL;
	389	Float_t tHp1=noisep1*factH;
	390	Float_t tLm1=noisem1*factL;
	391	Float_t tHm1=noisem1*factH;
	392	Float_t cC=bins[k].GetQ();
	393	if(cC<=tL){
	394	bins[k].SetQ(0);
	395	bins[k].SetMask(0xFFFFFFFE);
	396	return;
	397	}
	398	nLow++; // cC is greater than tL
	399	if(cC>tH) nHigh++;
	400	Int_t sS=bins[k-1].GetQ();
	401	if(sS>tLm1) nLow++;
	402	if(sS>tHm1) nHigh++;
	403	Int_t nN=bins[k+1].GetQ();
	404	if(nN>tLp1) nLow++;
	405	if(nN>tHp1) nHigh++;
	406	Int_t eE=bins[k-nzBins].GetQ();
	407	if(eE>tL) nLow++;
	408	if(eE>tH) nHigh++;
	409	Int_t wW=bins[k+nzBins].GetQ();
	410	if(wW>tL) nLow++;
	411	if(wW>tH) nHigh++;
	412	if(nLow<3 \|\| nHigh<1){
	413	bins[k].SetQ(0);
	414	bins[k].SetMask(0xFFFFFFFE);
	415	}
	416	}
	417
04366a57	418
d97eb3fe	419