[u/mrichter/AliRoot.git] / PWGGA / EMCALTasks / macros / anaEMCALCalib.C

/* $Id:  $ */
//--------------------------------------------------
// Example macro to do analysis with the 
// analysis classes in PWG4PartCorr
// Can be executed with Root and AliRoot
//
// Pay attention to the options and definitions
// set in the lines below
//
//  Author : Gustavo Conesa Balbastre (INFN-LNF)
//
//-------------------------------------------------
enum anaModes {mLocal, mLocalCAF,mPROOF,mGRID};
//mLocal: Analyze locally files in your computer
//mLocalCAF: Analyze locally CAF files
//mPROOF: Analyze CAF files with PROOF

//---------------------------------------------------------------------------
//Settings to read locally several files, only for "mLocal" mode
//The different values are default, they can be set with environmental 
//variables: INDIR, PATTERN, NFILES, respectivelly
char * kInDir = "/user/data/files/"; 
char * kPattern = ""; // Data are in files kInDir/kPattern+i 
Int_t kFile = 1; // Number of files
//---------------------------------------------------------------------------
//Collection file for grid analysis
char * kXML = "collection.xml";
//---------------------------------------------------------------------------

const TString kInputData = "ESD"; //ESD, AOD, MC
TString kTreeName = "esdTree";

void anaEMCALCalib(Int_t mode=mLocal)
{
  // Main
  char cmd[200] ; 
  sprintf(cmd, ".! rm -rf aod.root pi0calib.root") ; 
  gROOT->ProcessLine(cmd) ; 
  //--------------------------------------------------------------------
  // Load analysis libraries
  // Look at the method below, 
  // change whatever you need for your analysis case
  // ------------------------------------------------------------------
  LoadLibraries(mode) ;
  //gSystem->Unload("libPWG4CaloCalib.so");
  //Try to set the new library
  //gSystem->Load("./PWG4CaloCalib/libPWG4CaloCalib.so");
  //gSystem->ListLibraries();

  //-------------------------------------------------------------------------------------------------
  //Create chain from ESD and from cross sections files, look below for options.
  //-------------------------------------------------------------------------------------------------
  if(kInputData == "ESD") kTreeName = "esdTree" ;
  else if(kInputData == "AOD") kTreeName = "aodTree" ;
  else {
    cout<<"Wrong  data type "<<kInputData<<endl;
    break;
  }

  TChain *chain       = new TChain(kTreeName) ;
  CreateChain(mode, chain);  

  if(chain){
    AliLog::SetGlobalLogLevel(AliLog::kError);//Minimum prints on screen
    
    //--------------------------------------
    // Make the analysis manager
    //-------------------------------------
    AliAnalysisManager *mgr  = new AliAnalysisManager("Manager", "Manager");

    //input
    if(kInputData == "ESD")
      {
	// ESD handler
	AliESDInputHandler *esdHandler = new AliESDInputHandler();
	mgr->SetInputEventHandler(esdHandler);
	esdHandler->SetReadFriends(kFALSE);
	cout<<"ESD handler "<<mgr->GetInputEventHandler()<<endl;
      }
    if(kInputData == "AOD")
      {
	// AOD handler
	AliAODInputHandler *aodHandler = new AliAODInputHandler();
	mgr->SetInputEventHandler(aodHandler);
	cout<<"AOD handler "<<mgr->GetInputEventHandler()<<endl;
	
      }
    
    // mgr->SetDebugLevel(1);
    
    //-------------------------------------------------------------------------
    //Define task, put here any other task that you want to use.
    //-------------------------------------------------------------------------
    
    // ESD filter task
    if(kInputData == "ESD"){

      //gROOT->LoadMacro("AddTaskPhysicsSelection.C");
      //AliPhysicsSelectionTask* physSelTask = AddTaskPhysicsSelection();

    }
    
    // Create containers for input/output
    AliAnalysisDataContainer *cinput1  = mgr->GetCommonInputContainer();

    AliAnalysisTaskEMCALPi0CalibSelection * pi0calib = new AliAnalysisTaskEMCALPi0CalibSelection ("EMCALPi0Calibration");
     if(kInputData == "ESD") pi0calib->SelectCollisionCandidates(); 
    //pi0calib->SetDebugLevel(10); 
    //pi0calib->UseFilteredEventAsInput();
    pi0calib->SetClusterMinEnergy(0.5);
    pi0calib->SetClusterMaxEnergy(10.);
    pi0calib->SetAsymmetryCut(0.5);
    pi0calib->SetClusterMinNCells(0);
    pi0calib->SetNCellsGroup(0);
    pi0calib->SwitchOnSameSM();
    //pi0calib->SwitchOnOldAODs();

    TGeoHMatrix *matrix[4];
    
    double rotationMatrix[4][9] = {-0.014585, -0.999892, -0.002031, 0.999892, -0.014589,  0.001950, -0.001979, -0.002003,  0.999996,
				   -0.014585,  0.999892,  0.002031, 0.999892,  0.014589, -0.001950, -0.001979,  0.002003, -0.999996,
				   -0.345861, -0.938280, -0.003412, 0.938281, -0.345869,  0.001950, -0.003010, -0.002527,  0.999992,
				   -0.345861,  0.938280,  0.003412, 0.938281,  0.345869, -0.001950, -0.003010,  0.002527, -0.999992};
    
    double translationMatrix[4][3] = {0.367264,    446.508738,  175.97185+0.3,
				      1.078181,    445.826258, -174.026758+0.3,
				      -153.843916, 418.304256,  175.956905+0.8,
				      -152.649580, 417.621779, -174.040392+0.8};
    for(int j=0; j<4; j++)
      {
	matrix[j] = new TGeoHMatrix();
	matrix[j]->SetRotation(rotationMatrix[j]);
	matrix[j]->SetTranslation(translationMatrix[j]);
	matrix[j]->Print();
	pi0calib->SetGeometryMatrixInSM(matrix[j],j);
      }
    

    pi0calib->SwitchOnLoadOwnGeometryMatrices();

    pi0calib->SwitchOnClusterCorrection();
    AliEMCALRecoUtils * reco = pi0calib->GetEMCALRecoUtils();
        reco->SetParticleType(AliEMCALRecoUtils::kPhoton);
    reco->SetW0(4.5);

    //reco->SetPositionAlgorithm(AliEMCALRecoUtils::kUnchanged);

    reco->SetPositionAlgorithm(AliEMCALRecoUtils::kPosTowerGlobal);
    //reco->SetMisalTransShift(0,1.134);   reco->SetMisalTransShift(1,8.2); reco->SetMisalTransShift(2,1.197);
    //reco->SetMisalTransShift(3,-3.093);  reco->SetMisalTransShift(4,6.82);reco->SetMisalTransShift(5,1.635);

    //reco->SetPositionAlgorithm(AliEMCALRecoUtils::kPosTowerIndex);
    //reco->SetMisalTransShift(0,1.08);   reco->SetMisalTransShift(1,8.35); reco->SetMisalTransShift(2,1.12);
    //reco->SetMisalRotShift(3,-8.05);    reco->SetMisalRotShift(4,8.05);  
    //reco->SetMisalTransShift(3,-0.42);  reco->SetMisalTransShift(5,1.55);

    reco->SetNonLinearityFunction(AliEMCALRecoUtils::kNoCorrection);
    //reco->SetNonLinearityFunction(AliEMCALRecoUtils::kPi0GammaGamma);
    //reco->SetNonLinearityParam(0,1.04);     reco->SetNonLinearityParam(1,-0.1445);
    //reco->SetNonLinearityParam(2,1.046);    

//     reco->SetNonLinearityFunction(AliEMCALRecoUtils::kPi0GammaConversion);
//     reco->SetNonLinearityParam(0,1.033);     reco->SetNonLinearityParam(1,0.0566186);
//     reco->SetNonLinearityParam(2,0.982133);    


//      reco->SetNonLinearityFunction(AliEMCALRecoUtils::kPi0MC);
//      reco->SetNonLinearityParam(0,1.001);     reco->SetNonLinearityParam(1,-0.01264);
//      reco->SetNonLinearityParam(2,-0.03632);    
//      reco->SetNonLinearityParam(3,0.1798);     reco->SetNonLinearityParam(4,-0.522);

//     reco->SwitchOnRecalibration();
//      TFile * f = new TFile("RecalibrationFactors.root","read");
//      TH2F * h0 = (TH2F*)f->Get("EMCALRecalFactors_SM0")->Clone();
//      TH2F * h1 = (TH2F*)f->Get("EMCALRecalFactors_SM1")->Clone();
//      TH2F * h2 = (TH2F*)f->Get("EMCALRecalFactors_SM2")->Clone();
//      TH2F * h3 = (TH2F*)f->Get("EMCALRecalFactors_SM3")->Clone();

//      reco->SetEMCALChannelRecalibrationFactors(0,h0);
//      reco->SetEMCALChannelRecalibrationFactors(1,h1);
//      reco->SetEMCALChannelRecalibrationFactors(2,h2);
//      reco->SetEMCALChannelRecalibrationFactors(3,h3);

    reco->SwitchOnBadChannelsRemoval();
    // SM0
    reco->SetEMCALChannelStatus(0,3,13);  reco->SetEMCALChannelStatus(0,44,1); reco->SetEMCALChannelStatus(0,3,13); 
    reco->SetEMCALChannelStatus(0,20,7);  reco->SetEMCALChannelStatus(0,38,2);   
    // SM1
    reco->SetEMCALChannelStatus(1,4,7);   reco->SetEMCALChannelStatus(1,4,13);  reco->SetEMCALChannelStatus(1,9,20); 
    reco->SetEMCALChannelStatus(1,14,15); reco->SetEMCALChannelStatus(1,23,16); reco->SetEMCALChannelStatus(1,32,23); 
    reco->SetEMCALChannelStatus(1,37,5);  reco->SetEMCALChannelStatus(1,40,1);  reco->SetEMCALChannelStatus(1,40,2);
    reco->SetEMCALChannelStatus(1,40,5);  reco->SetEMCALChannelStatus(1,41,0);  reco->SetEMCALChannelStatus(1,41,1);
    reco->SetEMCALChannelStatus(1,41,2);  reco->SetEMCALChannelStatus(1,41,4);
    // SM2        
    reco->SetEMCALChannelStatus(2,14,15); reco->SetEMCALChannelStatus(2,18,16); reco->SetEMCALChannelStatus(2,18,17); 
    reco->SetEMCALChannelStatus(2,18,18); reco->SetEMCALChannelStatus(2,18,20); reco->SetEMCALChannelStatus(2,18,21); 
    reco->SetEMCALChannelStatus(2,18,23); reco->SetEMCALChannelStatus(2,19,16); reco->SetEMCALChannelStatus(2,19,17); 
    reco->SetEMCALChannelStatus(2,19,19); reco->SetEMCALChannelStatus(2,19,20); reco->SetEMCALChannelStatus(2,19,21); 
    reco->SetEMCALChannelStatus(2,19,22);
    //SM3
    reco->SetEMCALChannelStatus(3,4,7);

    reco->SetNumberOfCellsFromEMCALBorder(1);

    //reco->Print("");

    pi0calib->PrintInfo();
    mgr->AddTask(pi0calib);

    AliAnalysisDataContainer *coutput2 = 
    mgr->CreateContainer("pi0calib", TList::Class(), AliAnalysisManager::kOutputContainer, "pi0calib.root");
    
    AliAnalysisDataContainer *cout_cuts = mgr->CreateContainer("Cuts", TList::Class(), 
    						       AliAnalysisManager::kOutputContainer, "pi0calib.root");
    
    mgr->ConnectInput  (pi0calib,     0, cinput1);
    mgr->ConnectOutput (pi0calib, 1, coutput2 );
    mgr->ConnectOutput (pi0calib, 2, cout_cuts);

    //-----------------------
    // Run the analysis
    //-----------------------    
    TString smode = "";
    if (mode==mLocal || mode == mLocalCAF) 
      smode = "local";
    else if (mode==mPROOF) 
      smode = "proof";
    else if (mode==mGRID) 
      smode = "local";
    
    mgr->InitAnalysis();
    mgr->PrintStatus();
    mgr->StartAnalysis(smode.Data(),chain);

cout <<" Analysis ended sucessfully "<< endl ;

  }
  else cout << "Chain was not produced ! "<<endl;
  
}

void  LoadLibraries(const anaModes mode) {
  
  //--------------------------------------
  // Load the needed libraries most of them already loaded by aliroot
  //--------------------------------------
  gSystem->Load("libTree.so");
  gSystem->Load("libGeom.so");
  gSystem->Load("libVMC.so");
  gSystem->Load("libXMLIO.so");
  
  //----------------------------------------------------------
  // >>>>>>>>>>> Local mode <<<<<<<<<<<<<< 
  //----------------------------------------------------------
  if (mode==mLocal || mode == mLocalCAF || mode == mGRID) {
    //--------------------------------------------------------
    // If you want to use already compiled libraries 
    // in the aliroot distribution
    //--------------------------------------------------------

    gSystem->Load("libSTEERBase.so");
    gSystem->Load("libESD.so");
    gSystem->Load("libAOD.so");
    gSystem->Load("libANALYSIS.so");
    gSystem->Load("libANALYSISalice.so");
    gSystem->Load("libANALYSISalice.so");
    //TGeoManager::Import("geometry.root") ; //need file "geometry.root" in local dir!!!!
    gSystem->Load("libPWG4CaloCalib.so");
    //SetupPar("PWG4CaloCalib");
    /*
      //     gSystem->Load("libPWG4omega3pi.so");
      //     gSystem->Load("libCORRFW.so");
      //     gSystem->Load("libPWGHFbase.so");
      //     gSystem->Load("libPWGmuon.so");
 */
    //--------------------------------------------------------
    //If you want to use root and par files from aliroot
    //--------------------------------------------------------  
    /*     
	   SetupPar("STEERBase");
	   SetupPar("ESD");
	   SetupPar("AOD");
	   SetupPar("ANALYSIS");
	   SetupPar("ANALYSISalice");  
	   SetupPar("PHOSUtils");
	   SetupPar("EMCALUtils");
	   //Create Geometry
	   TGeoManager::Import("geometry.root") ; //need file "geometry.root" in local dir!!!!
	   SetupPar("PWG4CaloCalib");
*/
  }

  //---------------------------------------------------------
  // <<<<<<<<<< PROOF mode >>>>>>>>>>>>
  //---------------------------------------------------------
  else if (mode==mPROOF) {
    //
    // Connect to proof
    // Put appropriate username here
    // TProof::Reset("proof://mgheata@lxb6046.cern.ch"); 
    TProof::Open("proof://mgheata@lxb6046.cern.ch");
    
    //    gProof->ClearPackages();
    //    gProof->ClearPackage("ESD");
    //    gProof->ClearPackage("AOD");
    //    gProof->ClearPackage("ANALYSIS");   
    //    gProof->ClearPackage("PWG4PartCorrBase");
    //    gProof->ClearPackage("PWG4PartCorrDep");
    
    // Enable the STEERBase Package
    gProof->UploadPackage("STEERBase.par");
    gProof->EnablePackage("STEERBase");
    // Enable the ESD Package
    gProof->UploadPackage("ESD.par");
    gProof->EnablePackage("ESD");
    // Enable the AOD Package
    gProof->UploadPackage("AOD.par");
    gProof->EnablePackage("AOD");
    // Enable the Analysis Package
    gProof->UploadPackage("ANALYSIS.par");
    gProof->EnablePackage("ANALYSIS");
    // Enable the PHOS geometry Package
    //gProof->UploadPackage("PHOSUtils.par");
    //gProof->EnablePackage("PHOSUtils");
    // Enable PartCorr analysis
    gProof->UploadPackage("PWG4PartCorrBase.par");
    gProof->EnablePackage("PWG4PartCorrBase");
    gProof->UploadPackage("PWG4PartCorrDep.par");
    gProof->EnablePackage("PWG4PartCorrDep");    
    gProof->ShowEnabledPackages();
  }  
  
}

void SetupPar(char* pararchivename)
{
  //Load par files, create analysis libraries
  //For testing, if par file already decompressed and modified
  //classes then do not decompress.
 
  TString cdir(Form("%s", gSystem->WorkingDirectory() )) ; 
  TString parpar(Form("%s.par", pararchivename)) ; 
  if ( gSystem->AccessPathName(parpar.Data()) ) {
    gSystem->ChangeDirectory(gSystem->Getenv("ALICE_ROOT")) ;
    TString processline(Form(".! make %s", parpar.Data())) ; 
    gROOT->ProcessLine(processline.Data()) ;
    gSystem->ChangeDirectory(cdir) ; 
    processline = Form(".! mv $ALICE_ROOT/%s .", parpar.Data()) ;
    gROOT->ProcessLine(processline.Data()) ;
  } 
  if ( gSystem->AccessPathName(pararchivename) ) {  
    TString processline = Form(".! tar xvzf %s",parpar.Data()) ;
    gROOT->ProcessLine(processline.Data());
  }
  
  TString ocwd = gSystem->WorkingDirectory();
  gSystem->ChangeDirectory(pararchivename);
  
  // check for BUILD.sh and execute
  if (!gSystem->AccessPathName("PROOF-INF/BUILD.sh")) {
    printf("*******************************\n");
    printf("*** Building PAR archive    ***\n");
    cout<<pararchivename<<endl;
    printf("*******************************\n");
    
    if (gSystem->Exec("PROOF-INF/BUILD.sh")) {
      Error("runProcess","Cannot Build the PAR Archive! - Abort!");
      return -1;
    }
  }
  // check for SETUP.C and execute
  if (!gSystem->AccessPathName("PROOF-INF/SETUP.C")) {
    printf("*******************************\n");
    printf("*** Setup PAR archive       ***\n");
    cout<<pararchivename<<endl;
    printf("*******************************\n");
    gROOT->Macro("PROOF-INF/SETUP.C");
  }
  
  gSystem->ChangeDirectory(ocwd.Data());
  printf("Current dir: %s\n", ocwd.Data());
}


void CreateChain(const anaModes mode, TChain * chain){
  //Fills chain with data
  TString ocwd = gSystem->WorkingDirectory();
  
  //-----------------------------------------------------------
  //Analysis of CAF data locally and with PROOF
  //-----------------------------------------------------------
  if(mode ==mPROOF || mode ==mLocalCAF){
    // Chain from CAF
    gROOT->LoadMacro("$ALICE_ROOT/PWG0/CreateESDChain.C");
    // The second parameter is the number of input files in the chain
    chain = CreateESDChain("ESD12001.txt", 5);  
  }
  
  //---------------------------------------
  //Local files analysis
  //---------------------------------------
  else if(mode == mLocal){    
    //If you want to add several ESD files sitting in a common directory INDIR
    //Specify as environmental variables the directory (INDIR), the number of files 
    //to analyze (NFILES) and the pattern name of the directories with files (PATTERN)

    if(gSystem->Getenv("INDIR"))  
      kInDir = gSystem->Getenv("INDIR") ; 
    else cout<<"INDIR not set, use default: "<<kInDir<<endl;	
    
    if(gSystem->Getenv("PATTERN"))   
      kPattern = gSystem->Getenv("PATTERN") ; 
    else  cout<<"PATTERN not set, use default: "<<kPattern<<endl;
    
    if(gSystem->Getenv("NFILES"))
      kFile = atoi(gSystem->Getenv("NFILES")) ;
    else cout<<"NFILES not set, use default: "<<kFile<<endl;
    
    //Check if env variables are set and are correct
    if ( kInDir  && kFile) {
      printf("Get %d files from directory %s\n",kFile,kInDir);
      if ( ! gSystem->cd(kInDir) ) {//check if ESDs directory exist
	printf("%s does not exist\n", kInDir) ;
	return ;
      }

  
      cout<<"INDIR   : "<<kInDir<<endl;
      cout<<"NFILES  : "<<kFile<<endl;
      cout<<"PATTERN : " <<kPattern<<endl;

      TString datafile="";
      if(kInputData == "ESD") datafile = "AliESDs.root" ;
      else if(kInputData == "AOD") datafile = "aod.root" ;
      else if(kInputData == "MC")  datafile = "galice.root" ;
      
      //Loop on ESD files, add them to chain
      Int_t event =0;
      Int_t skipped=0 ; 
      char file[120] ;
      
      for (event = 0 ; event < kFile ; event++) {
	sprintf(file, "%s/%s%d/%s", kInDir,kPattern,event,datafile.Data()) ; 
	TFile * fESD = 0 ; 
	//Check if file exists and add it, if not skip it
	if ( fESD = TFile::Open(file)) {
	  if ( fESD->Get(kTreeName) ) { 
	    printf("++++ Adding %s\n", file) ;
	    chain->AddFile(file);
	  }
	}
	else { 
	  printf("---- Skipping %s\n", file) ;
	  skipped++ ;
	}
      }
      printf("number of entries # %lld, skipped %d\n", chain->GetEntries(), skipped*100) ; 	
    }
    else {
      TString input = "AliESDs.root" ;
      cout<<">>>>>> No list added, take a single file <<<<<<<<< "<<input<<endl;
      chain->AddFile(input);
    }
    
  }// local files analysis
  
  //------------------------------
  //GRID xml files
  //-----------------------------
  else if(mode == mGRID){
    //Get colection file. It is specified by the environmental
    //variable XML

    if(gSystem->Getenv("XML") )
      kXML = gSystem->Getenv("XML");
    else
      sprintf(kXML, "collection.xml") ; 
    
    if (!TFile::Open(kXML)) {
      printf("No collection file with name -- %s -- was found\n",kXML);
      return ;
    }
    else cout<<"XML file "<<kXML<<endl;

    //Load necessary libraries and connect to the GRID
    gSystem->Load("libNetx.so") ; 
    gSystem->Load("libRAliEn.so"); 
    TGrid::Connect("alien://") ;

    //Feed Grid with collection file
    //TGridCollection * collection =  (TGridCollection*)gROOT->ProcessLine(Form("TAlienCollection::Open(\"%s\", 0)", kXML));
    TGridCollection * collection = (TGridCollection*) TAlienCollection::Open(kXML);
    if (! collection) {
      AliError(Form("%s not found", kXML)) ; 
      return kFALSE ; 
    }
    TGridResult* result = collection->GetGridResult("",0 ,0);
   
    // Makes the ESD chain 
    printf("*** Getting the Chain       ***\n");
    for (Int_t index = 0; index < result->GetEntries(); index++) {
      TString alienURL = result->GetKey(index, "turl") ; 
      cout << "================== " << alienURL << endl ; 
      chain->Add(alienURL) ; 
    }
  }// xml analysis
  
  gSystem->ChangeDirectory(ocwd.Data());
}
Commit	Line	Data
6eb2a715	1	/* $Id: $ */
	2	//--------------------------------------------------
	3	// Example macro to do analysis with the
	4	// analysis classes in PWG4PartCorr
	5	// Can be executed with Root and AliRoot
	6	//
	7	// Pay attention to the options and definitions
	8	// set in the lines below
	9	//
	10	// Author : Gustavo Conesa Balbastre (INFN-LNF)
	11	//
	12	//-------------------------------------------------
	13	enum anaModes {mLocal, mLocalCAF,mPROOF,mGRID};
	14	//mLocal: Analyze locally files in your computer
	15	//mLocalCAF: Analyze locally CAF files
	16	//mPROOF: Analyze CAF files with PROOF
	17
	18	//---------------------------------------------------------------------------
	19	//Settings to read locally several files, only for "mLocal" mode
	20	//The different values are default, they can be set with environmental
	21	//variables: INDIR, PATTERN, NFILES, respectivelly
	22	char * kInDir = "/user/data/files/";
	23	char * kPattern = ""; // Data are in files kInDir/kPattern+i
	24	Int_t kFile = 1; // Number of files
	25	//---------------------------------------------------------------------------
	26	//Collection file for grid analysis
	27	char * kXML = "collection.xml";
	28	//---------------------------------------------------------------------------
	29
247abff4	30	const TString kInputData = "ESD"; //ESD, AOD, MC
9584c261	31	TString kTreeName = "esdTree";
247abff4	32
6eb2a715	33	void anaEMCALCalib(Int_t mode=mLocal)
	34	{
	35	// Main
9584c261	36	char cmd[200] ;
	37	sprintf(cmd, ".! rm -rf aod.root pi0calib.root") ;
	38	gROOT->ProcessLine(cmd) ;
6eb2a715	39	//--------------------------------------------------------------------
	40	// Load analysis libraries
	41	// Look at the method below,
	42	// change whatever you need for your analysis case
	43	// ------------------------------------------------------------------
	44	LoadLibraries(mode) ;
	45	//gSystem->Unload("libPWG4CaloCalib.so");
	46	//Try to set the new library
	47	//gSystem->Load("./PWG4CaloCalib/libPWG4CaloCalib.so");
247abff4	48	//gSystem->ListLibraries();
19db8f8c	49
6eb2a715	50	//-------------------------------------------------------------------------------------------------
	51	//Create chain from ESD and from cross sections files, look below for options.
	52	//-------------------------------------------------------------------------------------------------
	53	if(kInputData == "ESD") kTreeName = "esdTree" ;
	54	else if(kInputData == "AOD") kTreeName = "aodTree" ;
	55	else {
	56	cout<<"Wrong data type "<<kInputData<<endl;
	57	break;
	58	}
19db8f8c	59
6eb2a715	60	TChain *chain = new TChain(kTreeName) ;
6eb2a715	61	CreateChain(mode, chain);
19db8f8c	62
6eb2a715	63	if(chain){
	64	AliLog::SetGlobalLogLevel(AliLog::kError);//Minimum prints on screen
	65
	66	//--------------------------------------
	67	// Make the analysis manager
	68	//-------------------------------------
	69	AliAnalysisManager *mgr = new AliAnalysisManager("Manager", "Manager");
19db8f8c	70
6eb2a715	71	//input
6eb2a715	72	if(kInputData == "ESD")
19db8f8c	73	{
	74	// ESD handler
	75	AliESDInputHandler *esdHandler = new AliESDInputHandler();
	76	mgr->SetInputEventHandler(esdHandler);
	77	esdHandler->SetReadFriends(kFALSE);
	78	cout<<"ESD handler "<<mgr->GetInputEventHandler()<<endl;
	79	}
6eb2a715	80	if(kInputData == "AOD")
19db8f8c	81	{
	82	// AOD handler
	83	AliAODInputHandler *aodHandler = new AliAODInputHandler();
	84	mgr->SetInputEventHandler(aodHandler);
	85	cout<<"AOD handler "<<mgr->GetInputEventHandler()<<endl;
	86
	87	}
6eb2a715	88
19db8f8c	89	// mgr->SetDebugLevel(1);
6eb2a715	90
	91	//-------------------------------------------------------------------------
	92	//Define task, put here any other task that you want to use.
	93	//-------------------------------------------------------------------------
6eb2a715	94
6eb2a715	95	// ESD filter task
9584c261	96	if(kInputData == "ESD"){
19db8f8c	97
e2fe2603	98	//gROOT->LoadMacro("AddTaskPhysicsSelection.C");
	99	//AliPhysicsSelectionTask* physSelTask = AddTaskPhysicsSelection();
	100
6eb2a715	101	}
6eb2a715	102
247abff4	103	// Create containers for input/output
247abff4	104	AliAnalysisDataContainer *cinput1 = mgr->GetCommonInputContainer();
19db8f8c	105
e2fe2603	106	AliAnalysisTaskEMCALPi0CalibSelection * pi0calib = new AliAnalysisTaskEMCALPi0CalibSelection ("EMCALPi0Calibration");
	107	if(kInputData == "ESD") pi0calib->SelectCollisionCandidates();
	108	//pi0calib->SetDebugLevel(10);
	109	//pi0calib->UseFilteredEventAsInput();
	110	pi0calib->SetClusterMinEnergy(0.5);
	111	pi0calib->SetClusterMaxEnergy(10.);
	112	pi0calib->SetAsymmetryCut(0.5);
	113	pi0calib->SetClusterMinNCells(0);
	114	pi0calib->SetNCellsGroup(0);
	115	pi0calib->SwitchOnSameSM();
	116	//pi0calib->SwitchOnOldAODs();
	117
4f7f37d3	118	TGeoHMatrix *matrix[4];
	119
	120	double rotationMatrix[4][9] = {-0.014585, -0.999892, -0.002031, 0.999892, -0.014589, 0.001950, -0.001979, -0.002003, 0.999996,
	121	-0.014585, 0.999892, 0.002031, 0.999892, 0.014589, -0.001950, -0.001979, 0.002003, -0.999996,
	122	-0.345861, -0.938280, -0.003412, 0.938281, -0.345869, 0.001950, -0.003010, -0.002527, 0.999992,
	123	-0.345861, 0.938280, 0.003412, 0.938281, 0.345869, -0.001950, -0.003010, 0.002527, -0.999992};
	124
	125	double translationMatrix[4][3] = {0.367264, 446.508738, 175.97185+0.3,
	126	1.078181, 445.826258, -174.026758+0.3,
	127	-153.843916, 418.304256, 175.956905+0.8,
	128	-152.649580, 417.621779, -174.040392+0.8};
	129	for(int j=0; j<4; j++)
	130	{
	131	matrix[j] = new TGeoHMatrix();
	132	matrix[j]->SetRotation(rotationMatrix[j]);
	133	matrix[j]->SetTranslation(translationMatrix[j]);
	134	matrix[j]->Print();
	135	pi0calib->SetGeometryMatrixInSM(matrix[j],j);
	136	}
	137
	138
	139	pi0calib->SwitchOnLoadOwnGeometryMatrices();
	140
e2fe2603	141	pi0calib->SwitchOnClusterCorrection();
e2fe2603	142	AliEMCALRecoUtils * reco = pi0calib->GetEMCALRecoUtils();
4f7f37d3	143	reco->SetParticleType(AliEMCALRecoUtils::kPhoton);
	144	reco->SetW0(4.5);
	145
	146	//reco->SetPositionAlgorithm(AliEMCALRecoUtils::kUnchanged);
	147
	148	reco->SetPositionAlgorithm(AliEMCALRecoUtils::kPosTowerGlobal);
	149	//reco->SetMisalTransShift(0,1.134); reco->SetMisalTransShift(1,8.2); reco->SetMisalTransShift(2,1.197);
	150	//reco->SetMisalTransShift(3,-3.093); reco->SetMisalTransShift(4,6.82);reco->SetMisalTransShift(5,1.635);
	151
	152	//reco->SetPositionAlgorithm(AliEMCALRecoUtils::kPosTowerIndex);
	153	//reco->SetMisalTransShift(0,1.08); reco->SetMisalTransShift(1,8.35); reco->SetMisalTransShift(2,1.12);
	154	//reco->SetMisalRotShift(3,-8.05); reco->SetMisalRotShift(4,8.05);
	155	//reco->SetMisalTransShift(3,-0.42); reco->SetMisalTransShift(5,1.55);
	156
	157	reco->SetNonLinearityFunction(AliEMCALRecoUtils::kNoCorrection);
	158	//reco->SetNonLinearityFunction(AliEMCALRecoUtils::kPi0GammaGamma);
	159	//reco->SetNonLinearityParam(0,1.04); reco->SetNonLinearityParam(1,-0.1445);
	160	//reco->SetNonLinearityParam(2,1.046);
	161
	162	// reco->SetNonLinearityFunction(AliEMCALRecoUtils::kPi0GammaConversion);
	163	// reco->SetNonLinearityParam(0,1.033); reco->SetNonLinearityParam(1,0.0566186);
	164	// reco->SetNonLinearityParam(2,0.982133);
	165
	166
	167	// reco->SetNonLinearityFunction(AliEMCALRecoUtils::kPi0MC);
	168	// reco->SetNonLinearityParam(0,1.001); reco->SetNonLinearityParam(1,-0.01264);
	169	// reco->SetNonLinearityParam(2,-0.03632);
	170	// reco->SetNonLinearityParam(3,0.1798); reco->SetNonLinearityParam(4,-0.522);
	171
	172	// reco->SwitchOnRecalibration();
	173	// TFile * f = new TFile("RecalibrationFactors.root","read");
	174	// TH2F * h0 = (TH2F*)f->Get("EMCALRecalFactors_SM0")->Clone();
	175	// TH2F * h1 = (TH2F*)f->Get("EMCALRecalFactors_SM1")->Clone();
	176	// TH2F * h2 = (TH2F*)f->Get("EMCALRecalFactors_SM2")->Clone();
	177	// TH2F * h3 = (TH2F*)f->Get("EMCALRecalFactors_SM3")->Clone();
	178
	179	// reco->SetEMCALChannelRecalibrationFactors(0,h0);
	180	// reco->SetEMCALChannelRecalibrationFactors(1,h1);
	181	// reco->SetEMCALChannelRecalibrationFactors(2,h2);
	182	// reco->SetEMCALChannelRecalibrationFactors(3,h3);
	183
	184	reco->SwitchOnBadChannelsRemoval();
	185	// SM0
	186	reco->SetEMCALChannelStatus(0,3,13); reco->SetEMCALChannelStatus(0,44,1); reco->SetEMCALChannelStatus(0,3,13);
	187	reco->SetEMCALChannelStatus(0,20,7); reco->SetEMCALChannelStatus(0,38,2);
	188	// SM1
	189	reco->SetEMCALChannelStatus(1,4,7); reco->SetEMCALChannelStatus(1,4,13); reco->SetEMCALChannelStatus(1,9,20);
	190	reco->SetEMCALChannelStatus(1,14,15); reco->SetEMCALChannelStatus(1,23,16); reco->SetEMCALChannelStatus(1,32,23);
	191	reco->SetEMCALChannelStatus(1,37,5); reco->SetEMCALChannelStatus(1,40,1); reco->SetEMCALChannelStatus(1,40,2);
	192	reco->SetEMCALChannelStatus(1,40,5); reco->SetEMCALChannelStatus(1,41,0); reco->SetEMCALChannelStatus(1,41,1);
	193	reco->SetEMCALChannelStatus(1,41,2); reco->SetEMCALChannelStatus(1,41,4);
	194	// SM2
	195	reco->SetEMCALChannelStatus(2,14,15); reco->SetEMCALChannelStatus(2,18,16); reco->SetEMCALChannelStatus(2,18,17);
	196	reco->SetEMCALChannelStatus(2,18,18); reco->SetEMCALChannelStatus(2,18,20); reco->SetEMCALChannelStatus(2,18,21);
	197	reco->SetEMCALChannelStatus(2,18,23); reco->SetEMCALChannelStatus(2,19,16); reco->SetEMCALChannelStatus(2,19,17);
	198	reco->SetEMCALChannelStatus(2,19,19); reco->SetEMCALChannelStatus(2,19,20); reco->SetEMCALChannelStatus(2,19,21);
	199	reco->SetEMCALChannelStatus(2,19,22);
	200	//SM3
	201	reco->SetEMCALChannelStatus(3,4,7);
	202
	203	reco->SetNumberOfCellsFromEMCALBorder(1);
	204
e2fe2603	205	//reco->Print("");
4f7f37d3	206
e2fe2603	207	pi0calib->PrintInfo();
e2fe2603	208	mgr->AddTask(pi0calib);
247abff4	209
6eb2a715	210	AliAnalysisDataContainer *coutput2 =
247abff4	211	mgr->CreateContainer("pi0calib", TList::Class(), AliAnalysisManager::kOutputContainer, "pi0calib.root");
6eb2a715	212
6eb2a715	213	AliAnalysisDataContainer *cout_cuts = mgr->CreateContainer("Cuts", TList::Class(),
247abff4	214	AliAnalysisManager::kOutputContainer, "pi0calib.root");
6eb2a715	215
6eb2a715	216	mgr->ConnectInput (pi0calib, 0, cinput1);
6eb2a715	217	mgr->ConnectOutput (pi0calib, 1, coutput2 );
6eb2a715	218	mgr->ConnectOutput (pi0calib, 2, cout_cuts);
19db8f8c	219
6eb2a715	220	//-----------------------
	221	// Run the analysis
	222	//-----------------------
	223	TString smode = "";
	224	if (mode==mLocal \|\| mode == mLocalCAF)
	225	smode = "local";
	226	else if (mode==mPROOF)
	227	smode = "proof";
	228	else if (mode==mGRID)
	229	smode = "local";
	230
	231	mgr->InitAnalysis();
	232	mgr->PrintStatus();
	233	mgr->StartAnalysis(smode.Data(),chain);
19db8f8c	234
	235	cout <<" Analysis ended sucessfully "<< endl ;
	236
6eb2a715	237	}
	238	else cout << "Chain was not produced ! "<<endl;
	239
	240	}
	241
	242	void LoadLibraries(const anaModes mode) {
	243
	244	//--------------------------------------
	245	// Load the needed libraries most of them already loaded by aliroot
	246	//--------------------------------------
	247	gSystem->Load("libTree.so");
	248	gSystem->Load("libGeom.so");
	249	gSystem->Load("libVMC.so");
	250	gSystem->Load("libXMLIO.so");
	251
	252	//----------------------------------------------------------
	253	// >>>>>>>>>>> Local mode <<<<<<<<<<<<<<
	254	//----------------------------------------------------------
	255	if (mode==mLocal \|\| mode == mLocalCAF \|\| mode == mGRID) {
	256	//--------------------------------------------------------
	257	// If you want to use already compiled libraries
	258	// in the aliroot distribution
	259	//--------------------------------------------------------
	260
	261	gSystem->Load("libSTEERBase.so");
	262	gSystem->Load("libESD.so");
	263	gSystem->Load("libAOD.so");
	264	gSystem->Load("libANALYSIS.so");
	265	gSystem->Load("libANALYSISalice.so");
	266	gSystem->Load("libANALYSISalice.so");
4f7f37d3	267	//TGeoManager::Import("geometry.root") ; //need file "geometry.root" in local dir!!!!
6eb2a715	268	gSystem->Load("libPWG4CaloCalib.so");
19db8f8c	269	//SetupPar("PWG4CaloCalib");
6eb2a715	270	/*
	271	// gSystem->Load("libPWG4omega3pi.so");
	272	// gSystem->Load("libCORRFW.so");
40a0a69c	273	// gSystem->Load("libPWGHFbase.so");
40a0a69c	274	// gSystem->Load("libPWGmuon.so");
6eb2a715	275	*/
	276	//--------------------------------------------------------
	277	//If you want to use root and par files from aliroot
	278	//--------------------------------------------------------
	279	/*
	280	SetupPar("STEERBase");
	281	SetupPar("ESD");
	282	SetupPar("AOD");
	283	SetupPar("ANALYSIS");
	284	SetupPar("ANALYSISalice");
	285	SetupPar("PHOSUtils");
	286	SetupPar("EMCALUtils");
	287	//Create Geometry
	288	TGeoManager::Import("geometry.root") ; //need file "geometry.root" in local dir!!!!
	289	SetupPar("PWG4CaloCalib");
	290	*/
	291	}
	292
	293	//---------------------------------------------------------
	294	// <<<<<<<<<< PROOF mode >>>>>>>>>>>>
	295	//---------------------------------------------------------
	296	else if (mode==mPROOF) {
	297	//
	298	// Connect to proof
	299	// Put appropriate username here
	300	// TProof::Reset("proof://mgheata@lxb6046.cern.ch");
	301	TProof::Open("proof://mgheata@lxb6046.cern.ch");
	302
	303	// gProof->ClearPackages();
	304	// gProof->ClearPackage("ESD");
	305	// gProof->ClearPackage("AOD");
	306	// gProof->ClearPackage("ANALYSIS");
	307	// gProof->ClearPackage("PWG4PartCorrBase");
	308	// gProof->ClearPackage("PWG4PartCorrDep");
	309
	310	// Enable the STEERBase Package
	311	gProof->UploadPackage("STEERBase.par");
	312	gProof->EnablePackage("STEERBase");
	313	// Enable the ESD Package
	314	gProof->UploadPackage("ESD.par");
	315	gProof->EnablePackage("ESD");
	316	// Enable the AOD Package
	317	gProof->UploadPackage("AOD.par");
	318	gProof->EnablePackage("AOD");
	319	// Enable the Analysis Package
	320	gProof->UploadPackage("ANALYSIS.par");
	321	gProof->EnablePackage("ANALYSIS");
	322	// Enable the PHOS geometry Package
	323	//gProof->UploadPackage("PHOSUtils.par");
	324	//gProof->EnablePackage("PHOSUtils");
	325	// Enable PartCorr analysis
	326	gProof->UploadPackage("PWG4PartCorrBase.par");
	327	gProof->EnablePackage("PWG4PartCorrBase");
	328	gProof->UploadPackage("PWG4PartCorrDep.par");
	329	gProof->EnablePackage("PWG4PartCorrDep");
	330	gProof->ShowEnabledPackages();
	331	}
	332
	333	}
	334
	335	void SetupPar(char* pararchivename)
	336	{
	337	//Load par files, create analysis libraries
	338	//For testing, if par file already decompressed and modified
339	//classes then do not decompress.
340
341	TString cdir(Form("%s", gSystem->WorkingDirectory() )) ;
342	TString parpar(Form("%s.par", pararchivename)) ;
343	if ( gSystem->AccessPathName(parpar.Data()) ) {
344	gSystem->ChangeDirectory(gSystem->Getenv("ALICE_ROOT")) ;
345	TString processline(Form(".! make %s", parpar.Data())) ;
346	gROOT->ProcessLine(processline.Data()) ;
347	gSystem->ChangeDirectory(cdir) ;
348	processline = Form(".! mv $ALICE_ROOT/%s .", parpar.Data()) ;
349	gROOT->ProcessLine(processline.Data()) ;
350	}
351	if ( gSystem->AccessPathName(pararchivename) ) {
352	TString processline = Form(".! tar xvzf %s",parpar.Data()) ;
353	gROOT->ProcessLine(processline.Data());
354	}
355
356	TString ocwd = gSystem->WorkingDirectory();
357	gSystem->ChangeDirectory(pararchivename);
358
359	// check for BUILD.sh and execute
360	if (!gSystem->AccessPathName("PROOF-INF/BUILD.sh")) {
361	printf("*******************************\n");
362	printf("* Building PAR archive *\n");
363	cout<<pararchivename<<endl;
364	printf("*******************************\n");
365
366	if (gSystem->Exec("PROOF-INF/BUILD.sh")) {
367	Error("runProcess","Cannot Build the PAR Archive! - Abort!");
368	return -1;
369	}
370	}
371	// check for SETUP.C and execute
372	if (!gSystem->AccessPathName("PROOF-INF/SETUP.C")) {
373	printf("*******************************\n");
374	printf("* Setup PAR archive *\n");
375	cout<<pararchivename<<endl;
376	printf("*******************************\n");
377	gROOT->Macro("PROOF-INF/SETUP.C");
378	}
379
380	gSystem->ChangeDirectory(ocwd.Data());
381	printf("Current dir: %s\n", ocwd.Data());
382	}
383
384
385
386	void CreateChain(const anaModes mode, TChain * chain){
387	//Fills chain with data
388	TString ocwd = gSystem->WorkingDirectory();
389
390	//-----------------------------------------------------------
391	//Analysis of CAF data locally and with PROOF
392	//-----------------------------------------------------------
393	if(mode ==mPROOF \|\| mode ==mLocalCAF){
394	// Chain from CAF
395	gROOT->LoadMacro("$ALICE_ROOT/PWG0/CreateESDChain.C");
396	// The second parameter is the number of input files in the chain
397	chain = CreateESDChain("ESD12001.txt", 5);
398	}
399
400	//---------------------------------------
401	//Local files analysis
402	//---------------------------------------
403	else if(mode == mLocal){
404	//If you want to add several ESD files sitting in a common directory INDIR
405	//Specify as environmental variables the directory (INDIR), the number of files
406	//to analyze (NFILES) and the pattern name of the directories with files (PATTERN)
407
408	if(gSystem->Getenv("INDIR"))
409	kInDir = gSystem->Getenv("INDIR") ;
410	else cout<<"INDIR not set, use default: "<<kInDir<<endl;
411
412	if(gSystem->Getenv("PATTERN"))
413	kPattern = gSystem->Getenv("PATTERN") ;
414	else cout<<"PATTERN not set, use default: "<<kPattern<<endl;
415
416	if(gSystem->Getenv("NFILES"))
417	kFile = atoi(gSystem->Getenv("NFILES")) ;
418	else cout<<"NFILES not set, use default: "<<kFile<<endl;
419
420	//Check if env variables are set and are correct
421	if ( kInDir && kFile) {
422	printf("Get %d files from directory %s\n",kFile,kInDir);
423	if ( ! gSystem->cd(kInDir) ) {//check if ESDs directory exist
424	printf("%s does not exist\n", kInDir) ;
425	return ;
426	}
427
428
429	cout<<"INDIR : "<<kInDir<<endl;
430	cout<<"NFILES : "<<kFile<<endl;
431	cout<<"PATTERN : " <<kPattern<<endl;
432
433	TString datafile="";
434	if(kInputData == "ESD") datafile = "AliESDs.root" ;
435	else if(kInputData == "AOD") datafile = "aod.root" ;
436	else if(kInputData == "MC") datafile = "galice.root" ;
437
438	//Loop on ESD files, add them to chain
439	Int_t event =0;
440	Int_t skipped=0 ;
441	char file[120] ;
442
443	for (event = 0 ; event < kFile ; event++) {
444	sprintf(file, "%s/%s%d/%s", kInDir,kPattern,event,datafile.Data()) ;
445	TFile * fESD = 0 ;
446	//Check if file exists and add it, if not skip it
447	if ( fESD = TFile::Open(file)) {
448	if ( fESD->Get(kTreeName) ) {
449	printf("++++ Adding %s\n", file) ;
450	chain->AddFile(file);
451	}
452	}
453	else {
454	printf("---- Skipping %s\n", file) ;
455	skipped++ ;
456	}
457	}
458	printf("number of entries # %lld, skipped %d\n", chain->GetEntries(), skipped*100) ;
459	}
460	else {
461	TString input = "AliESDs.root" ;
462	cout<<">>>>>> No list added, take a single file <<<<<<<<< "<<input<<endl;
463	chain->AddFile(input);
464	}
465
466	}// local files analysis
467
468	//------------------------------
469	//GRID xml files
470	//-----------------------------
471	else if(mode == mGRID){
472	//Get colection file. It is specified by the environmental
473	//variable XML
474
475	if(gSystem->Getenv("XML") )
476	kXML = gSystem->Getenv("XML");
477	else
478	sprintf(kXML, "collection.xml") ;
479
480	if (!TFile::Open(kXML)) {
481	printf("No collection file with name -- %s -- was found\n",kXML);
482	return ;
483	}
484	else cout<<"XML file "<<kXML<<endl;
485
486	//Load necessary libraries and connect to the GRID
487	gSystem->Load("libNetx.so") ;
488	gSystem->Load("libRAliEn.so");
489	TGrid::Connect("alien://") ;
490
491	//Feed Grid with collection file
492	//TGridCollection * collection = (TGridCollection*)gROOT->ProcessLine(Form("TAlienCollection::Open(\"%s\", 0)", kXML));
493	TGridCollection * collection = (TGridCollection*) TAlienCollection::Open(kXML);
494	if (! collection) {
495	AliError(Form("%s not found", kXML)) ;
496	return kFALSE ;
497	}
498	TGridResult* result = collection->GetGridResult("",0 ,0);
499
500	// Makes the ESD chain
501	printf("* Getting the Chain *\n");
502	for (Int_t index = 0; index < result->GetEntries(); index++) {
503	TString alienURL = result->GetKey(index, "turl") ;
504	cout << "================== " << alienURL << endl ;
505	chain->Add(alienURL) ;
506	}
507	}// xml analysis
508
509	gSystem->ChangeDirectory(ocwd.Data());
510	}
511