PWG4/macros/AnalysisTrainPWG4Jets.C

   1 //===================== ANALYSIS TRAIN =========================================
   2 // To use: copy this macro to your work directory, modify the global part to match
   3 // your needs, then run root.
   4 //    root[0] .L AnalysisTrain.C
   5 // Grid full mode as below (other modes: test, offline, submit, terminate)
   6 //    root[1] AnalysisTrainPWG-244Jets("grid", "full")
   7 // CAF mode (requires root v5-23-02 + aliroot v4-16-Rev08)
   8 //    root[2] AnalysisTrainPWG4Jets("proof")
   9 // Local mode requires AliESds.root or AliAOD.root in ./data directory
  10 //    root[3] AnalysisTrainPWG4Jets("local")
  11 // In proof and grid modes, a token is needed and sourcing the produced environment file.
  12 //
  13 // If 'saveTrain' flag is set, the train will generate a directory name and run
  14 // in this directory. A configuration file 'ConfigTrain.C' will be generated.
  15 // One can replay at any time the train via:
  16 //    root[1] AnalysisTrainPWG4Jets(ana_mode, plugin_mode, "train_default_<date>/ConfigTrain.C")
  17
  18 // For Usage with fastjet run in "offline" first and then "submit"
  19 // jdl and analysismacro are automatically patched after "offline" mode
  20
  21 // =============================================================================
  22 // ### General Steering variables
  23 // =============================================================================
  24 //== general setup variables
  25 TString     kTrainName         = "testAnalysis"; // *CHANGE ME* (no blancs or special characters)
  26 TString     kJobTag            = "PWG4 Jet Tasks analysis train configured"; // *CHANGE ME*
  27
  28 // Usage of par files ONLY in grid mode and ONLY if the code is not available
  29 // in the deployed AliRoot versions. Par file search path: local dir, if not there $ALICE_ROOT.
  30 // To refresh par files, remove the ones in the workdir, then do "make <target.par>" in
  31 // AliRoot.
  32 Bool_t      kUsePAR             = kFALSE;  // use par files for extra libs
  33 Bool_t      kUseCPAR            = kFALSE;  // use par files for common libs
  34 Bool_t      kFillAOD = kFALSE;  // switch of AOD filling for on the fly analysis
  35 Int_t       kSaveAOD = 8;        // Bit switch 1 = Full AOD 2 = Jet AOD , 4 = PartCorr, 8 = JCORRAN
  36 //== general input and output variables
  37
  38 Int_t       iAODanalysis       = 1;      // Analysis on input AOD's
  39 Int_t       iAODhandler        = 1;      // Analysis produces an AOD or dAOD's
  40 Int_t       iCentralitySelection  = 0;      // Use the centrality
  41 Int_t       iESDfilter         = 0;      // ESD to AOD filter (barrel + muon tracks)
  42 Int_t       iPhysicsSelection  = 1;      // ESD to AOD filter (barrel + muon tracks)
  43 UInt_t      iPhysicsSelectionFlag = 0; // set by pyshics selection and passed to the task, kMB, kUserDefined etc
  44 Bool_t      useTender           = kFALSE; // use tender wagon
  45 Bool_t      kUseKinefilter     = kFALSE; // use Kinematics filter
  46 Bool_t      kUseMuonfilter     = kFALSE; // use Kinematics filter
  47 TString     kCommonOutputFileName = "PWG4_JetTasksOutput.root";
  48 TString     kCaloQAOutputFileName = "PWG4_CaloQAOutput.root";
  49
  50
  51 //== general process variables
  52
  53 // ### Other flags to steer the analysis
  54 //==============================================================================
  55 Bool_t      kSkipTerminate      = kTRUE; // Do not call Teminate
  56 Bool_t      kUseDate            = kFALSE; // use date in train name
  57 Bool_t      kUseDebug           = kTRUE; // activate debugging
  58 Int_t         kErrorIgnoreLevel = -1; // takes the errror print level from .rootrc
  59 // From TError.h:
  60 // const Int_t kUnset    =  -1;
  61 // const Int_t kPrint    =   0;
  62 // const Int_t kInfo     =   1000;
  63 // const Int_t kWarning  =   2000;
  64 // const Int_t kError    =   3000;
  65 // const Int_t kBreak    =   4000;
  66 // const Int_t kSysError =   5000;
  67 // const Int_t kFatal    =   6000;
  68 Int_t         kUseSysInfo         = 0; // activate debugging
  69 Long64_t kNumberOfEvents     = 1234567890; // number of events to process from the chain
  70 Bool_t      kUseMC              = kTRUE;  // use MC info
  71 Bool_t      kIsMC               = kTRUE;  // is MC info, if false it overwrites Use(AOD)MC
  72 Bool_t      kUseAODMC           = kTRUE;  // use MC infA
  73 Bool_t      kUseESDTags         = kFALSE; // use ESD tags for selection
  74 Bool_t      kUseTR              = kFALSE;  // use track references
  75 Bool_t      kUseAODTags         = kFALSE;  // use AOD tags
  76 Bool_t      kSaveTrain          = kFALSE;  // save train configuration as:
  77 Bool_t      kIsPbPb             = kFALSE;  // Pb+Pb
  78
  79
  80 // ### Analysis modules to be included. Some may not be yet fully implemented.
  81 //==============================================================================
  82 Int_t       iJETAN             = 1;      // Jet analysis (PWG4) // 1 write standard 2 write non-standard jets, 3 wrtie both
  83 Int_t       iDIJETAN           = 1;
  84 Int_t       iJETANLib          = 1;
  85 Int_t       iPWG1QASym         = 0;      // Eva's QA task compiled on the fly...
  86 Int_t       iPWG4JetTasks      = 0;      // all jet tasks flag for lib laoding
  87 Int_t       iPWG4JetServices   = 0;      // jet spectrum analysis
  88 Int_t       iPWG4JetSpectrum   = 0;      // jet spectrum analysis
  89 Int_t       iPWG4JCORRAN       = 0;      // JCORRAN module
  90 Int_t       iPWG4UE            = 0;      // Underlying Event analysis
  91 Int_t       iPWG4LeadingUE     = 0;      // Underlying Event analysis
  92 Int_t       iPWG4CorrectionsUE = 0;      // Underlying Event analysis
  93 Int_t       iPWG4TmpSourceSara = 0;      // Underlying Event analysis not in svn
  94 Int_t       iPWG4Fragmentation = 0;      // Official Fragmentation
  95 Int_t       iPWG4JetChem       = 0;      // Jet chemistry
  96 Int_t       iPWG4PtQAMC        = 0;      // Marta's QA tasks
  97 Int_t       iPWG4PtSpectra     = 0;      // Marta's QA tasks
  98 Int_t       iPWG4PtQATPC       = 0;      // Marta's QA tasks
  99 Int_t       iPWG4Cosmics     = 0;      // Marta's Cosmics Taks
 100 Int_t       iPWG4ThreeJets     = 0;      // Sona's thrust task
 101 Int_t       iPWG4QGSep     = 0;          // Sona's QG Separation task
 102 Int_t       iPWG4Minijet       = 0;      // Eva's Mini Jet Task cluster task
 103 Int_t       iPWG4KMeans        = 0;      // Andreas' KMeans task
 104 Int_t       iPWG4Cluster       = 0;      // CKB cluster task
 105 Int_t       iEMCUtilLibs       = 0;      // Flag to satisfy dependence on EMC utils
 106 Int_t       iPWG4PartCorrLibs  = 0;      // Gustavo's part corr analysis
 107 Int_t       iPWG4PartCorr      = 0;      // Gustavo's part corr analysis
 108 Int_t       iPWG4CaloQA        = 0;      // Gustavo's part corr analysis
 109 Int_t       iPWG4JetCorr       = 0;     // Paul's jet corr analysis
 110 Int_t       iPWG4Tagged        = 0;      // Gustavo's part corr analysis
 111 Int_t       iPWG4omega3pi      = 0;      // Omega to 3 pi analysis (PWG4)
 112 Int_t       iPWG4GammaConvLib     = 0;      // Gamma Conversio
 113 Int_t       iPWG4GammaConv     = 0;      // Gamma Conversio
 114 Int_t       iPWG4CaloConv     = 0;      // Gamma Conversio
 115 Int_t       kHighPtFilterMask  = 32;     // change depending on the used AOD Filter
 116 TString     kDeltaAODJetName   = "AliAOD.Jets.root";
 117 TString     kDeltaAODJCORRANName   = "AliAOD.JCORRAN.root";
 118 TString     kDeltaAODPartCorrName   = "AliAOD.PartCorr.root";
 119
 120
 121 //==============================================================================
 122 // ### PROOF Steering varibales
 123 //==============================================================================
 124 //== proof setup variables
 125 TString     kProofCluster      = "alicecaf.cern.ch";
 126 Bool_t      kProofUseAFPAR     = kFALSE;  // use AF special par file
 127 TString     kProofAFversion          = "AF-v4-17";
 128 //== proof input and output variables
 129 TString     kProofDataSet      = "/COMMON/COMMON/LHC09a4_run8100X#/esdTree";
 130 Bool_t      kProofSaveToAlien   = kFALSE; // save proof outputs in AliEn train_[trainName]_ddMonthyyyy_time.C
 131 TString     kProofOutdir       = "";
 132 Bool_t      kProofClearPackages = kFALSE;
 133 Int_t       kProofEvents = 10000;
 134 Int_t       kProofOffset = 0;
 135 //== proof process variables
 136
 137
 138 //==============================================================================
 139 // ### Grid plugin Steering varibiables
 140 //==============================================================================
 141 //== grid plugin setup variables
 142 Bool_t      kPluginUse         = kTRUE;   // do not change
 143 Bool_t      kPluginUseProductionMode  = kFALSE;   // use the plugin in production mode
 144 TString     kPluginRootVersion       = "v5-27-06b";  // *CHANGE ME IF MORE RECENT IN GRID*
 145 TString     kPluginAliRootVersion    = "v4-19-15-AN";  // *CHANGE ME IF MORE RECENT IN GRID*
 146 Bool_t      kPluginMergeViaJDL       = kTRUE;  // merge via JDL
 147 Bool_t      kPluginFastReadOption   = kFALSE;  // use xrootd tweaks
 148 Bool_t      kPluginOverwriteMode    = kTRUE;  // overwrite existing collections
 149 Int_t       kPluginOutputToRunNumber = 1;     // write the output to subdirs named after run number
 150 // TString kPluginExecutableCommand = "root -b -q";
 151 TString     kPluginExecutableCommand = "source /Users/kleinb/setup_32bit_aliroot_trunk_clean_root_trunk.sh; alienroot -b -q ";
 152
 153 // == grid plugin input and output variables
 154 TString     kGridDatadir      = "/alice/sim/PDC_08b/LHC09a1/AOD/";
 155 Int_t         kGridMaxRunsFromList = 999999999;
 156 Int_t         kGridOffsetRunFromList = 0; // skip the first n runs from the list
 157 TString     kGridLocalRunList = "";
 158 TString     kGridOutdir       = ""; // AliEn output directory. If blank will become output_<kTrainName>
 159 TString     kGridDataSet      = ""; // sub working directory not to confuse different run xmls
 160 Int_t         kGridRunRange[2]       =  {0, -1}; // Set the run range
 161 TString     kGridRunPattern        = "%03d"; // important for leading zeroes!!
 162 TString     kGridPassPattern       = "";
 163 TString     kGridExtraFiles        = ""; // files that will be added to the input list in the JDL...
 164 Int_t         kGridMaxMergeFiles      = 12; // Number of files merged in a chunk grid run range
 165 TString     kGridMergeExclude       = "AliAOD.root"; // Files that should not be merged
 166 TString     kGridOutputStorages      = "disk=2"; // Make replicas on the storages
 167 // == grid process variables
 168 Int_t       kGridRunsPerMaster     = 100; // Number of runs per master job
 169 Int_t       kGridFilesPerJob       = 100; // Maximum number of files per job (gives size of AOD)
 170
 171 //==============================================================================
 172 // ### Local Steering variables
 173 //==============================================================================
 174 //== local setup variables
 175 //== local input and output variables
 176 TString     kLocalXMLDataset   = ""; // Change local xml dataset for local interactive analysis
 177 TString     kLocalDataList   = "local_deltaaod.txt"; // Change local xml dataset for local interactive analysis
 178 // == local process variables
 179
 180 TString kPluginMode;
 181
 182
 183 // Temporaries.
 184 TString anaPars = "";
 185 TString anaLibs = "";
 186 TString anaLibsExtra = "";
 187 TString anaSources = "";
 188 // Function signatures
 189 class AliAnalysisAlien;
 190
 191 //______________________________________________________________________________
 192 void AnalysisTrainPWG4Jets(const char *analysis_mode="local",
 193                            const char *plugin_mode="",
 194                            const char *config_file="",Int_t iOffset = 0,Int_t iTotal = 0)
 195 {
 196 // Main analysis train macro. If a configuration file is provided, all parameters
 197 // are taken from there but may be altered by CheckModuleFlags.
 198
 199   // these flag may be needed by the config file
 200   kPluginMode = plugin_mode;
 201
 202   if (strlen(config_file) && !LoadConfig(config_file)) return;
 203   if(iTotal>0)kGridMaxRunsFromList = iTotal; // overwrites the settings from config file
 204   if(iOffset)kGridOffsetRunFromList = iOffset;
 205   if(iOffset)kProofOffset = iOffset;
 206
 207
 208    TString smode(analysis_mode);
 209    smode.ToUpper();
 210    if (kSaveTrain)WriteConfig();
 211    // Check compatibility of selected modules
 212    CheckModuleFlags(smode);
 213    //     gROOT->ProcessLine(".trace");
 214
 215    printf("==================================================================\n");
 216    printf("===========    RUNNING ANALYSIS TRAIN %s IN %s MODE   ==========\n", kTrainName.Data(),smode.Data());
 217    printf("==================================================================\n");
 218                               printf("=  Configuring analysis train for:                               =\n");
 219    if (iAODanalysis) printf("=  AOD analysis                                                  =\n");
 220    else                     printf("=  ESD analysis                                                  =\n");
 221    if (iPhysicsSelection)   printf("=  Physics selection                                                =\n");
 222    if(iCentralitySelection)printf("=  Centrality selection                                                =\n");
 223    if (useTender)   printf("=  Using tender                                                =\n");
 224    if (iESDfilter)   printf("=  ESD filter                                                    =\n");
 225    if (iJETAN)       printf("=  Jet analysis                                                  =\n");
 226    printf("==================================================================\n");
 227
 228    char *printMask = ":: %20s  %10d\n";
 229    printf(printMask,"Fill AOD",(UInt_t)kFillAOD);
 230    printf(printMask,"Save AOD", (UInt_t)kSaveAOD);
 231    printf(printMask,"MC truth", (UInt_t)kUseMC);
 232    printf(printMask,"KINE filter", (UInt_t)kUseKinefilter);
 233    printf(printMask,"track refs", (UInt_t)kUseTR);
 234    printf(printMask,"tags", (UInt_t)kUseESDTags);
 235    printf(printMask,"AOD tags", (UInt_t)kUseAODTags);
 236    printf(printMask,"debugging", (UInt_t)kUseDebug);
 237    printf(printMask,"PAR files", (UInt_t)kUsePAR);
 238    printf(printMask,"AliEn plugin", (UInt_t)kPluginUse);
 239    printf(printMask,"PWG1 QA sym", iPWG1QASym);
 240    printf(printMask,"PWG4 Source Sara",iPWG4TmpSourceSara);
 241    printf(printMask,"PWG4 Fragmentation",iPWG4Fragmentation);
 242    printf(printMask,"PWG4 Jet Chem",iPWG4JetChem);
 243    printf(printMask,"PWG4 Jet tasks",iPWG4JetTasks);
 244    printf(printMask,"PWG4 Jet Services",iPWG4JetServices);
 245    printf(printMask,"PWG4 Jet Spectrum",iPWG4JetSpectrum);
 246    printf(printMask,"PWG4 JCORRAN",iPWG4JCORRAN);
 247    printf(printMask,"PWG4 UE",iPWG4UE);
 248    printf(printMask,"PWG4 Leading UE",iPWG4LeadingUE);
 249    printf(printMask,"PWG4 Corrections UE",iPWG4CorrectionsUE);
 250    printf(printMask,"PWG4 Pt QA MC",iPWG4PtQAMC);
 251    printf(printMask,"PWG4 Pt Spectra",iPWG4PtSpectra);
 252    printf(printMask,"PWG4 Pt QA TPC",iPWG4PtQATPC);
 253    printf(printMask,"PWG4 Cosmics",iPWG4Cosmics);
 254    printf(printMask,"PWG4 Three Jets",iPWG4ThreeJets);
 255    printf(printMask,"PWG4 QGSep",iPWG4QGSep);
 256    printf(printMask,"PWG4 Minijet",iPWG4Minijet);
 257    printf(printMask,"PWG4 KMeans",iPWG4KMeans);
 258    printf(printMask,"PWG4 Cluster",iPWG4Cluster);
 259    printf(printMask,"PWG4 Part Corr",iPWG4PartCorr);
 260    printf(printMask,"PWG4 Calo QA",iPWG4CaloQA);
 261    printf(printMask,"PWG4 Jet Corr",iPWG4JetCorr);
 262    printf(printMask,"PWG4 JCORRAN",iPWG4JCORRAN);
 263    printf(printMask,"PWG4 Tagged",iPWG4Tagged);
 264    printf(printMask,"PWG4 omega to 3 pi ",iPWG4omega3pi);
 265    printf(printMask,"PWG4 Gamma Conv",iPWG4GammaConv);
 266    printf(printMask,"PWG4 Calo Conv",iPWG4CaloConv);
 267    printf(printMask,"HighPt FilterMask",kHighPtFilterMask);
 268
 269    //==========================================================================
 270    // Connect to back-end system
 271    if (!Connect(smode)) {
 272       ::Error("AnalysisTrain", "Could not connect to %s back-end", analysis_mode);
 273       return;
 274    }
 275
 276    // Load common libraries and set include path
 277    if (!LoadCommonLibraries(smode)) {
 278       ::Error("AnalysisTrain", "Could not load common libraries");
 279       return;
 280    }
 281
 282
 283
 284    // Make the analysis manager and connect event handlers
 285    AliAnalysisManager *mgr  = new AliAnalysisManager("PWG4Train", "pwg4 mini train");
 286    if (kCommonOutputFileName.Length()>0)mgr->SetCommonFileName(kCommonOutputFileName.Data());
 287    if (kProofSaveToAlien) mgr->SetSpecialOutputLocation(kProofOutdir);
 288    mgr->SetNSysInfo(0);
 289    if (!strcmp(plugin_mode, "test")) mgr->SetNSysInfo(1);
 290    if (kUseSysInfo)mgr->SetNSysInfo(kUseSysInfo);
 291    mgr->SetSkipTerminate(kSkipTerminate);
 292
 293    // Load analysis specific libraries
 294    if (!LoadAnalysisLibraries(smode)) {
 295       ::Error("AnalysisTrain", "Could not load analysis libraries");
 296      return;
 297    }
 298
 299    // Create input handler (input container created automatically)
 300    if (iAODanalysis) {
 301    // AOD input handler
 302       AliAODInputHandler *aodH = new AliAODInputHandler();
 303       mgr->SetInputEventHandler(aodH);
 304       //      if (iPWG4JetTasks) aodH->AddFriend(Form("deltas/%s",kDeltaAODJetName.Data()));
 305       //      if (iPWG4PartCorr) aodH->AddFriend(Form("deltas/%s"kDeltaAODJetName.Data()));
 306    } else {
 307    // ESD input handler
 308       AliESDInputHandler *esdHandler = new AliESDInputHandler();
 309       if (kUseESDTags) esdHandler->SetReadTags();
 310       esdHandler->SetReadFriends(kFALSE);
 311       mgr->SetInputEventHandler(esdHandler);
 312       //      if(iPWG4PtQATPC&& !kTrainName.Contains("pass5"))esdHandler->SetActiveBranches("ESDfriend");
 313
 314    }
 315
 316    // Monte Carlo handler
 317    if (kUseMC && !iAODanalysis) {
 318       AliMCEventHandler* mcHandler = new AliMCEventHandler();
 319       mgr->SetMCtruthEventHandler(mcHandler);
 320       mcHandler->SetReadTR(kUseTR);
 321    }
 322    // AOD output container, created automatically when setting an AOD handler
 323    if (iAODhandler) {
 324       // AOD output handler
 325       AliAODHandler* aodHandler   = new AliAODHandler();
 326       aodHandler->SetOutputFileName("AliAOD.root");
 327       aodHandler->SetFillAODforRun(kFillAOD);
 328       //
 329       mgr->SetOutputEventHandler(aodHandler);
 330       AliAnalysisDataContainer * cout_aod = mgr->GetCommonOutputContainer();
 331       cout_aod->SetSpecialOutput();
 332    }
 333    // Debugging if needed
 334
 335    if (kUseDebug){
 336      mgr->SetDebugLevel(3);
 337    }
 338    if(kUseSysInfo>0){
 339      mgr->RegisterExtraFile("syswatch.root");
 340      if(kGridMergeExclude.Length())kGridMergeExclude += " ";
 341      kGridMergeExclude += "syswatch.root";
 342    }
 343    else{
 344      AliLog::SetGlobalLogLevel(AliLog::kError);
 345    }
 346
 347
 348    //==========================================================================
 349    // Create the chain. In this example it is created only from ALIEN files but
 350    // can be done to work in batch or grid mode as well.
 351    TChain *chain = CreateChain(smode, plugin_mode);
 352
 353    //==========================================================================
 354    // Load the tasks configuration macros for all wagons. These files are supposed now to be
 355    // in the current workdir, but in AliEn they will be in the file catalog,
 356    // mapped from AliRoot and pecified in the jdl input list.
 357
 358    // For now connection to top input container and common AOD output container
 359    // is done in this macro, but in future these containers will be connected
 360    // from each task configuration macro.
 361
 362    //
 363    // Tender and supplies. Needs to be called for every event.
 364    //
 365    if (useTender) {
 366       gROOT->LoadMacro("$ALICE_ROOT/ANALYSIS/TenderSupplies/AddTaskTender.C");
 367       AliAnalysisTaskSE *tender = AddTaskTender(kTRUE);
 368       //      tender->SelectCollisionCandidates();
 369       tender->SetDebugLevel(2);
 370    }
 371
 372
 373
 374    if(iPhysicsSelection && !iAODanalysis){
 375      gROOT->LoadMacro("$ALICE_ROOT/ANALYSIS/macros/AddTaskPhysicsSelection.C");
 376      Int_t iTriggerHIC = 0;
 377      Bool_t rejectBkg = true;
 378      if(kIsPbPb){
 379        iTriggerHIC = 2;
 380        rejectBkg = false; // for the moment...
 381      }
 382      AliPhysicsSelectionTask* physSelTask = AddTaskPhysicsSelection(kIsMC,rejectBkg);
 383      iPhysicsSelectionFlag = AliVEvent::kMB;
 384    }
 385
 386    if(iCentralitySelection){
 387
 388      // has to run before AOD filter
 389      gROOT->LoadMacro("$ALICE_ROOT/PWG4/macros/AddTaskCentralitySelection.C");
 390      const char* file1="$ALICE_ROOT/ANALYSIS/macros/AliCentralityBy1D_137161_v5.root";
 391      const char* file2="$ALICE_ROOT/ANALYSIS/macros/AliCentralityBy1D_137366_v3.root";
 392      AliCentralitySelectionTask *taskC = AddTaskCentralitySelection(file1,file2);
 393       if (!taskC) ::Warning("AnalysisTrainPWG4Jets", "AliCentralitySelectionTask cannot run for this train conditions - EXCLUDED");
 394    }
 395
 396    if (iESDfilter && !iAODanalysis) {
 397       //  ESD filter task configuration.
 398       gROOT->LoadMacro("$ALICE_ROOT/PWG4/macros/AddTaskESDFilterPWG4Train.C");
 399       AliAnalysisTaskESDfilter *taskesdfilter = AddTaskESDFilter(kUseKinefilter,kUseMuonfilter);
 400       taskesdfilter->SetEnableFillAOD(kFALSE);
 401
 402       if(kIsMC){
 403         mgr->RegisterExtraFile("pyxsec_hists.root");
 404         if(kGridMergeExclude.Length())kGridMergeExclude += " ";
 405         kGridMergeExclude += "pyxsec_hists.root";
 406
 407       }
 408    }
 409
 410    // AOD tags
 411    if (kUseAODTags) {
 412       AliAnalysisTaskTagCreator* tagTask = new AliAnalysisTaskTagCreator("AOD Tag Creator");
 413       mgr->AddTask(tagTask);
 414       AliAnalysisDataContainer *coutTags = mgr->CreateContainer("cTag",  TTree::Class(),
 415                                            AliAnalysisManager::kOutputContainer, "AOD.tag.root");
 416       mgr->ConnectInput (tagTask, 0, mgr->GetCommonInputContainer());
 417       mgr->ConnectOutput(tagTask, 1, coutTags);
 418    }
 419
 420     // Jet analysis
 421    if (iJETAN) {
 422       gROOT->LoadMacro("$ALICE_ROOT/PWG4/macros/AddTaskJets.C");
 423       AliAnalysisTaskJets *taskjets = 0;
 424       if(iJETAN&1){
 425         /*
 426         taskjets = AddTaskJets(kHighPtFilterMask);
 427         taskjets->SetName("StandardJets");
 428         taskjets->SetNonStdBranch("");
 429         */
 430       }
 431       if(iJETAN&2){
 432         // Set only few jet finders  backgroudn subtraction w an wo
 433
 434         taskjets = AddTaskJets("AOD","UA1",0.4,kHighPtFilterMask,0.15,0); // low p_T no background subtraction
 435         if(kDeltaAODJetName.Length()>0)taskjets->SetNonStdOutputFile(kDeltaAODJetName.Data());
 436         taskjets = AddTaskJets("AOD","UA1",0.4,kHighPtFilterMask,0.15,1); // low p_T background subtraction
 437         if(kDeltaAODJetName.Length()>0)taskjets->SetNonStdOutputFile(kDeltaAODJetName.Data());
 438         taskjets = AddTaskJets("AOD","UA1",0.4,kHighPtFilterMask,1,0);     // high p_T no abackground subtraction
 439         if(kDeltaAODJetName.Length()>0)taskjets->SetNonStdOutputFile(kDeltaAODJetName.Data());
 440         taskjets = AddTaskJets("AOD","UA1",0.4,kHighPtFilterMask,1,1);     // high p_T abackground subtraction
 441         if(kDeltaAODJetName.Length()>0)taskjets->SetNonStdOutputFile(kDeltaAODJetName.Data());
 442         taskjets = AddTaskJets("AOD","UA1",0.2,kHighPtFilterMask,0.15,0); // low p_T no background subtraction
 443         if(kDeltaAODJetName.Length()>0)taskjets->SetNonStdOutputFile(kDeltaAODJetName.Data());
 444         taskjets = AddTaskJets("AOD","UA1",0.2,kHighPtFilterMask,0.15,1); // low p_T background subtraction
 445         if(kDeltaAODJetName.Length()>0)taskjets->SetNonStdOutputFile(kDeltaAODJetName.Data());
 446         taskjets = AddTaskJets("AOD","UA1",0.2,kHighPtFilterMask,1,0);     // high p_T no abackground subtraction
 447         if(kDeltaAODJetName.Length()>0)taskjets->SetNonStdOutputFile(kDeltaAODJetName.Data());
 448         taskjets = AddTaskJets("AOD","UA1",0.2,kHighPtFilterMask,1,1);     // high p_T abackground subtraction
 449         if(kDeltaAODJetName.Length()>0)taskjets->SetNonStdOutputFile(kDeltaAODJetName.Data());
 450
 451         /*
 452           UInt_t selection = 0;
 453           if(!kFillAOD){
 454           selection = 0xffffff&~(1<<13)&~(1<<5)&~(1<<6); // switch OFF DA and all R = 0.7 to save processing time
 455           selection &= ~(1<<1)&~(1<<2)&~(1<<4)&~(1<<6)&~(1<<8)&~(1<<10)&~(1<<12);
 456         }
 457         else {
 458           selection = 0xffffff&~(1<<13)&~(1<<5)&~(1<<6); // switch OFF DA and all R = 0.7 to save processing time;
 459           selection &= ~(1<<1)&~(1<<2)&~(1<<4)&~(1<<6)&~(1<<8)&~(1<<10)&~(1<<12);
 460         }
 461         AddTaskJetsDelta(kDeltaAODJetName.Data(),kHighPtFilterMask,kUseAODMC,selection);
 462         AddTaskJets("AOD","FASTKT",0.2,kHighPtFilterMask);
 463         */
 464       }
 465       if (!taskjets) ::Warning("AnalysisTrainPWG4Jets", "AliAnalysisTaskJets cannot run for this train conditions - EXCLUDED");
 466        if(kDeltaAODJetName.Length()>0)mgr->RegisterExtraFile(kDeltaAODJetName.Data());
 467    }
 468
 469    if(iPWG4Cluster){
 470      gROOT->LoadMacro("$ALICE_ROOT/PWG4/macros/AddTaskJetCluster.C");
 471      AliAnalysisTaskJetCluster *taskCl = 0;
 472      Float_t fCenUp = 0;
 473      Float_t fCenLo = 0;
 474      if(kIsPbPb&&!kIsMC){
 475        fCenLo = 0;
 476        fCenUp = 80;
 477      }
 478      if(iPWG4Cluster&1){
 479
 480        if(kIsPbPb){
 481
 482          /*
 483          taskCl = AddTaskJetCluster("AOD","",kHighPtFilterMask,iPhysicsSelectionFlag,"KT",0.2,0,1, kDeltaAODJetName.Data(),0.15); // this one is for the background and random jets
 484          taskCl->SetBackgroundCalc(kTRUE);
 485          taskCl->SetGhostEtamax(0.9);
 486          taskCl->SetCentralityCut(fCenLo,fCenUp);
 487          */
 488
 489          taskCl = AddTaskJetCluster("AOD","",kHighPtFilterMask,iPhysicsSelectionFlag,"KT",0.4,0,1, kDeltaAODJetName.Data(),0.15); // this one is for the background and random jets
 490          taskCl->SetBackgroundCalc(kTRUE);
 491          taskCl->SetCentralityCut(fCenLo,fCenUp);
 492          taskCl->SetGhostEtamax(0.9);
 493
 494          taskCl = AddTaskJetCluster("AOD","",256,iPhysicsSelectionFlag,"KT",0.4,0,1, kDeltaAODJetName.Data(),0.15); // this one is for the background and random jets
 495          taskCl->SetBackgroundCalc(kTRUE);
 496          taskCl->SetCentralityCut(fCenLo,fCenUp);
 497          taskCl->SetGhostEtamax(0.9);
 498
 499
 500          /*
 501          taskCl = AddTaskJetCluster("AOD","",kHighPtFilterMask,iPhysicsSelectionFlag,"KT",0.2,0,1, kDeltaAODJetName.Data()); // this one is for the background and random jets
 502          taskCl->SetBackgroundCalc(kTRUE);
 503          taskCl->SetGhostEtamax(0.9);
 504          taskCl->SetCentralityCut(fCenLo,fCenUp);
 505          */
 506
 507          taskCl = AddTaskJetCluster("AOD","",kHighPtFilterMask,iPhysicsSelectionFlag,"KT",0.4,0,1, kDeltaAODJetName.Data(),1.); // this one is for the background and random jets
 508          taskCl->SetBackgroundCalc(kTRUE);
 509          taskCl->SetCentralityCut(fCenLo,fCenUp);
 510          taskCl->SetGhostEtamax(0.9);
 511
 512
 513        }
 514        else{
 515          taskCl = AddTaskJetCluster("AOD","",kHighPtFilterMask,iPhysicsSelectionFlag,"KT",0.6,0,1,kDeltaAODJetName.Data()); // this one is for the background jets
 516          taskCl->SetBackgroundCalc(kTRUE);
 517        }
 518
 519        /*
 520        taskCl = AddTaskJetCluster("AOD","",kHighPtFilterMask,iPhysicsSelectionFlag,"ANTIKT",0.2,0,1,kDeltaAODJetName.Data());
 521        taskCl->SetCentralityCut(fCenLo,fCenUp);
 522        taskCl->SetBackgroundBranch("jeteventbackground_clustersAOD_KT04");
 523        */
 524
 525
 526        taskCl = AddTaskJetCluster("AOD","",kHighPtFilterMask,iPhysicsSelectionFlag,"ANTIKT",0.4,0,1,kDeltaAODJetName.Data(),0.15);
 527        taskCl->SetCentralityCut(fCenLo,fCenUp);
 528        if(kDeltaAODJetName.Length()==0)taskCl->SetJetTriggerPtCut(40.);//
 529        taskCl->SetBackgroundBranch("jeteventbackground_clustersAOD_KT04_B1_Filter00144_Cut0150_Skip00");
 530
 531        //       taskCl = AddTaskJetCluster("AOD","",kHighPtFilterMask,iPhysicsSelectionFlag,"ANTIKT",0.2,0,1,kDeltaAODJetName.Data(),0.15);
 532        //       taskCl->SetCentralityCut(fCenLo,fCenUp);
 533        //       taskCl->SetBackgroundBranch("jeteventbackground_clustersAOD_KT04_B1_Filter00144_Cut0150_Skip00");
 534
 535
 536        taskCl = AddTaskJetCluster("AOD","",256,iPhysicsSelectionFlag,"ANTIKT",0.4,0,1,kDeltaAODJetName.Data(),0.15);
 537        taskCl->SetCentralityCut(fCenLo,fCenUp);
 538        taskCl->SetBackgroundBranch("jeteventbackground_clustersAOD_KT04_B1_Filter00256_Cut0150_Skip00");
 539
 540
 541
 542        taskCl = AddTaskJetCluster("AOD","",kHighPtFilterMask,iPhysicsSelectionFlag,"ANTIKT",0.4,0,1,kDeltaAODJetName.Data(),1.0);
 543        taskCl->SetCentralityCut(fCenLo,fCenUp);
 544        taskCl->SetBackgroundBranch("jeteventbackground_clustersAOD_KT04_B1_Filter00144_Cut01000_Skip00");
 545
 546        //       taskCl = AddTaskJetCluster("AOD","",kHighPtFilterMask,iPhysicsSelectionFlag,"ANTIKT",0.2,0,1,kDeltaAODJetName.Data(),1.0);
 547        //       taskCl->SetCentralityCut(fCenLo,fCenUp);
 548        //       taskCl->SetBackgroundBranch("jeteventbackground_clustersAOD_KT04_B1_Filter00144_Cut01000_Skip00");
 549
 550
 551
 552        if(kUseAODMC){
 553          if(kIsPbPb){
 554            // calcluate the backgrounds first, but only R = 0.4
 555            taskCl = AddTaskJetCluster("AODMC","",kHighPtFilterMask,iPhysicsSelectionFlag,"KT",0.4,0,1,kDeltaAODJetName.Data()); // this one is for the background random jets
 556            taskCl = AddTaskJetCluster("AODMC2","",kHighPtFilterMask,iPhysicsSelectionFlag,"KT",0.4,0,1,kDeltaAODJetName.Data()); // this one is for the background random jets
 557
 558
 559
 560            //      taskCl = AddTaskJetCluster("AODMC","",kHighPtFilterMask,iPhysicsSelectionFlag,"ANTIKT",0.2,0,1,kDeltaAODJetName.Data());
 561            //      taskCl->SetBackgroundBranch("jeteventbackground_clustersAODMC_KT04");
 562            taskCl = AddTaskJetCluster("AODMC","",kHighPtFilterMask,iPhysicsSelectionFlag,"ANTIKT",0.4,0,1,kDeltaAODJetName.Data());
 563            taskCl->SetBackgroundBranch("jeteventbackground_clustersAODMC_KT04");
 564            taskCl = AddTaskJetCluster("AODMC2","",kHighPtFilterMask,iPhysicsSelectionFlag,"ANTIKT",0.2,0,1,kDeltaAODJetName.Data());
 565            taskCl->SetBackgroundBranch("jeteventbackground_clustersAODMC2_KT04");
 566            taskCl = AddTaskJetCluster("AODMC2","",kHighPtFilterMask,iPhysicsSelectionFlag,"ANTIKT",0.4,0,1,kDeltaAODJetName.Data());
 567            taskCl->SetBackgroundBranch("jeteventbackground_clustersAODMC2_KT04");
 568          }
 569          else{
 570            taskCl = AddTaskJetCluster("AODMC","",kHighPtFilterMask,iPhysicsSelectionFlag,"KT",0.6,0,1,kDeltaAODJetName.Data()); // this one is for the background jets
 571            taskCl = AddTaskJetCluster("AODMC2","",kHighPtFilterMask,iPhysicsSelectionFlag,"KT",0.6,0,1,kDeltaAODJetName.Data()); // this one is for the background jets
 572
 573
 574            taskCl = AddTaskJetCluster("AODMC","",kHighPtFilterMask,iPhysicsSelectionFlag,"ANTIKT",0.2,0,1,kDeltaAODJetName.Data());
 575            taskCl->SetBackgroundBranch("jeteventbackground_clustersAODMC_KT06");
 576            taskCl = AddTaskJetCluster("AODMC","",kHighPtFilterMask,iPhysicsSelectionFlag,"ANTIKT",0.4,0,1,kDeltaAODJetName.Data());
 577            taskCl->SetBackgroundBranch("jeteventbackground_clustersAODMC_KT06");
 578            taskCl = AddTaskJetCluster("AODMC2","",kHighPtFilterMask,iPhysicsSelectionFlag,"ANTIKT",0.2,0,1,kDeltaAODJetName.Data());
 579            taskCl->SetBackgroundBranch("jeteventbackground_clustersAODMC2_KT06");
 580            taskCl = AddTaskJetCluster("AODMC2","",kHighPtFilterMask,iPhysicsSelectionFlag,"ANTIKT",0.4,0,1,kDeltaAODJetName.Data());
 581            taskCl->SetBackgroundBranch("jeteventbackground_clustersAODMC2_KT06");
 582
 583
 584
 585          }
 586        }
 587
 588        if (!taskCl) ::Warning("AnalysisTrainPWG4Jets", "AliAnalysisTaskCluster cannot run for this train conditions - EXCLUDED");
 589      }
 590      if(iPWG4Cluster&2){
 591        UInt_t selection = 0;
 592        if(!iAODanalysis) selection = 0xffffff;
 593        else selection = 1<<0|1<<1|1<<2|1<<3|1<<4|1<<5|1<<7|1<<8|1<<9;
 594        if(kIsPbPb){
 595          selection&=~(1<<2); // exluded R = .04 already the dafault
 596          selection&=~(1<<4); // exluded R = .04 already the dafault
 597        }
 598        else{
 599          selection&=~(1<<6); // exluded R = .04 already the dafault
 600        }
 601        AddTaskJetClusterDelta(kHighPtFilterMask,kUseAODMC,iPhysicsSelectionFlag,"KT",selection);
 602      }
 603      if(iPWG4Cluster&4){
 604        UInt_t selection = 0;
 605        if(!iAODanalysis){
 606          selection = 0xffffff;
 607          selection &= ~(1<<1)&~(1<<3)&~(1<<5)&~(1<<7)&~(1<<9);
 608        }
 609        else selection = 1<<0|1<<1|1<<2|1<<3|1<<4|1<<5|1<<7|1<<8|1<<9;
 610        selection&=~(1<<2); // exluded R = .04 already the dafault
 611        selection&=~(1<<4); // exluded R = .04 already the dafault
 612        AddTaskJetClusterDelta(kHighPtFilterMask,kUseAODMC,iPhysicsSelectionFlag,"ANTIKT",selection);
 613        //       AddTaskJetCluster("AOD","",kHighPtFilterMask,iPhysicsSelection,"ANTIKT",0.4,0,1);
 614
 615      }
 616    }
 617
 618    if (iDIJETAN) {
 619       gROOT->LoadMacro("$ALICE_ROOT/PWG4/macros/AddTaskDiJets.C");
 620       AliAnalysisTaskDiJets *taskdijets = 0;
 621       if(iDIJETAN&1)taskdijets = AddTaskDiJets();
 622       if (!taskdijets) ::Warning("AnalysisTrainPWG4Jets", "AliAnalysisTaskJets cannot run for this train conditions - EXCLUDED");
 623       if(iDIJETAN&2){
 624         taskdijets = AddTaskDiJets("jetsAOD_CDF07");
 625         taskdijets = AddTaskDiJets("jetsAOD_DA07");
 626         taskdijets = AddTaskDiJets("jetsAOD_FASTJET07");
 627         taskdijets = AddTaskDiJets("jetsAOD_FASTKT07");
 628         taskdijets = AddTaskDiJets("jetsAOD_SISCONE07");
 629         taskdijets = AddTaskDiJets("jetsAOD_UA107");
 630       }
 631    }
 632
 633    if(iPWG1QASym){
 634      gROOT->LoadMacro("$ALICE_ROOT/PWG1/PilotTrain/AddTaskQAsym.C");
 635      AliAnalysisTaskQASym *taskQASym = AddTaskQAsym(-1);
 636      if (!taskQASym) ::Warning("AnalysisTrainPWG4Jets", "AliAnalysisTaskQASym cannot run for this train conditions - EXCLUDED");
 637    }
 638
 639
 640
 641    if(iPWG4TmpSourceSara){
 642      gROOT->LoadMacro("$ALICE_ROOT/PWG4/macros/AddTaskEta.C");
 643      AliAnalysisTaskEta *taskEta = AddTaskEta();
 644      if (!taskEta) ::Warning("AnalysisTrainPWG4Jets", "AliAnalysisTaskEta cannot run for this train conditions - EXCLUDED");
 645    }
 646
 647    if(iPWG4Fragmentation){
 648      gROOT->LoadMacro("$ALICE_ROOT/PWG4/macros/AddTaskFragmentationFunction.C");
 649        AliAnalysisTaskFragmentationFunction *taskFrag = 0;
 650      if(kUseAODMC){
 651        taskFrag = AddTaskFragmentationFunction(1<<1,kHighPtFilterMask);
 652        taskFrag = AddTaskFragmentationFunction(1<<2,kHighPtFilterMask);
 653        //       taskFrag = AddTaskFragmentationFunction(1<<3,kHighPtFilterMask);
 654        taskFrag = AddTaskFragmentationFunction(1<<5,kHighPtFilterMask);
 655        taskFrag = AddTaskFragmentationFunction(1<<11);  // w/o acceptance cuts
 656        taskFrag =  AddTaskFragmentationFunction(1<<12);  // with acceptance cuts
 657        // anti-kt
 658        taskFrag = AddTaskFragmentationFunction(1<<21);  // w/o acceptance cuts
 659        taskFrag = AddTaskFragmentationFunction(1<<22);  // with acceptance cuts
 660
 661      }
 662      else{
 663        taskFrag = AddTaskFragmentationFunction(1<<0,kHighPtFilterMask);
 664        taskFrag = AddTaskFragmentationFunction(1<<10,kHighPtFilterMask);
 665        taskFrag = AddTaskFragmentationFunction(1<<20,kHighPtFilterMask);
 666      }
 667
 668      if (!taskFrag) ::Warning("AnalysisTrainPWG4Jets", "AliAnalysisTaskFragmentationFunction cannot run for this train conditions - EXCLUDED");
 669    }
 670
 671
 672    if(iPWG4JetChem){
 673      gROOT->LoadMacro("$ALICE_ROOT/PWG4/macros/AddTaskJetChem.C");
 674      AliAnalysisTask *taskChem = AddTaskJetChem(kHighPtFilterMask);
 675      if (!taskChem) ::Warning("AnalysisTrainPWG4Jets", "AliAnalysisTaskJetChem cannot run for this train conditions - EXCLUDED");
 676    }
 677
 678
 679    if(iPWG4JetServices){
 680      gROOT->LoadMacro("$ALICE_ROOT/PWG4/macros/AddTaskJetServices.C");
 681      AliAnalysisTaskJetServices *taskjetServ = 0;
 682      taskjetServ = AddTaskJetServices();
 683      if (!taskjetServ) ::Warning("AnalysisTrainPWG4Jets", "AliAnalysisTaskJetServices cannot run for this train conditions - EXCLUDED");
 684      if(kGridRunRange[0]>0)taskjetServ->SetRunRange(kGridRunRange[0],kGridRunRange[1]);
 685      else taskjetServ->SetRunRange(110000,160000);
 686      taskjetServ->SetMCData(kIsMC);
 687      taskjetServ->SetUsePhysicsSelection((Bool_t)iPhysicsSelection);
 688      taskjetServ->SetPhysicsSelectionFlag(iPhysicsSelectionFlag); //
 689      taskjetServ->SetDebugLevel(0);
 690      taskjetServ->SetNonStdFile(kDeltaAODJetName.Data());
 691      if(kIsPbPb){
 692        taskjetServ->SetFilterAODCollisions(kTRUE);
 693        taskjetServ->SetZVertexCut(30.);
 694      }
 695      if(iAODanalysis){
 696        taskjetServ->SetAODInput(kTRUE);
 697      }
 698    }
 699
 700    if(iPWG4JetSpectrum){
 701      gROOT->LoadMacro("$ALICE_ROOT/PWG4/macros/AddTaskJetSpectrum2.C");
 702      AliAnalysisTaskJetSpectrum2 *taskjetSpectrum = 0;
 703
 704      TString cBack;
 705      if(kIsPbPb){
 706        cBack = "jeteventbackground_clustersAOD_KT04";
 707      }
 708      else{
 709        cBack = "jeteventbackground_clustersAOD_KT06";
 710      }
 711
 712      if(iPWG4JetSpectrum&1){
 713        // add the dfault jet finders with R = 0.4
 714        UInt_t iSelection = 0xfffff;
 715
 716        //  taskJetSpectrum = AddTaskJetSpectrum2Delta(kHighPtFilterMask,kUseAODMC,iPhysicsSelectionFlag,iSelection,0,kTRUE,cBack.Data());  // bug fixed 10.11.10
 717        taskJetSpectrum = AddTaskJetSpectrum2("clustersAOD_ANTIKT04","",cBack.Data(),kHighPtFilterMask,iPhysicsSelectionFlag,0,kTRUE,1);
 718        if(iAODanalysis){
 719          taskJetSpectrum->SetDebugLevel(1);
 720          taskJetSpectrum->SetAODJetInput(kTRUE);
 721          taskJetSpectrum->SetAODTrackInput(kTRUE);
 722          taskJetSpectrum->SetUseGlobalSelection(kFALSE);
 723        }
 724      }
 725      if(iPWG4JetSpectrum&2){
 726        if(kIsMC){
 727          UInt_t eventSelection =  AliAnalysisHelperJetTasks::kIsPileUp|AliAnalysisHelperJetTasks::kVertexIn;
 728          if(iPhysicsSelection)eventSelection |=  AliAnalysisHelperJetTasks::kPhysicsSelection;
 729          taskjetSpectrum = AddTaskJetSpectrum2("jetsAOD_FASTJET04","jetsAODMC_FASTJET04","",kHighPtFilterMask,iPhysicsSelectionFlag,eventSelection);
 730          taskjetSpectrum = AddTaskJetSpectrum2("jetsAOD_FASTJET04","jetsAODMC2_FASTJET04","",kHighPtFilterMask,iPhysicsSelectionFlag,eventSelection);
 731
 732          eventSelection =  AliAnalysisHelperJetTasks::kIsCosmic|AliAnalysisHelperJetTasks::kVertexIn;
 733          if(iPhysicsSelection)eventSelection |= AliAnalysisHelperJetTasks::kPhysicsSelection;
 734          taskjetSpectrum = AddTaskJetSpectrum2("jetsAOD_FASTJET04","jetsAODMC_FASTJET04","",kHighPtFilterMask,iPhysicsSelectionFlag,eventSelection);
 735
 736          eventSelection =  AliAnalysisHelperJetTasks::kNone;
 737          taskjetSpectrum = AddTaskJetSpectrum2("jetsAOD_FASTJET04","jetsAODMC2_FASTJET04","",kHighPtFilterMask,iPhysicsSelectionFlag,eventSelection);
 738          taskjetSpectrum = AddTaskJetSpectrum2("jetsAOD_FASTJET04","jetsAODMC_FASTJET04","",kHighPtFilterMask,iPhysicsSelectionFlag,eventSelection);
 739          taskjetSpectrum = AddTaskJetSpectrum2("jetsAOD_FASTJET04","jetsAODMC_FASTJET04","",kHighPtFilterMask,iPhysicsSelectionFlag,eventSelection);
 740        }
 741        else{
 742          UInt_t eventSelection =  AliAnalysisHelperJetTasks::kIsPileUp|AliAnalysisHelperJetTasks::kVertexIn;
 743          if(iPhysicsSelection)eventSelection |= AliAnalysisHelperJetTasks::kPhysicsSelection;
 744          taskjetSpectrum = AddTaskJetSpectrum2("jetsAOD_FASTJET04","","",kHighPtFilterMask,iPhysicsSelectionFlag,eventSelection);
 745          eventSelection =  AliAnalysisHelperJetTasks::kIsCosmic|AliAnalysisHelperJetTasks::kVertexIn;
 746          if(iPhysicsSelection)eventSelection |= AliAnalysisHelperJetTasks::kPhysicsSelection;
 747          taskjetSpectrum = AddTaskJetSpectrum2("jetsAOD_FASTJET04","","",kHighPtFilterMask,iPhysicsSelectionFlag,eventSelection);
 748        }
 749      }
 750      if(iPWG4JetSpectrum&4){
 751        // central events backgrounds... just for testing...
 752        if(kIsPbPb){
 753          taskjetSpectrum = AddTaskJetSpectrum2("jetsAOD_FASTJET04","",cBack.Data(),kHighPtFilterMask,iPhysicsSelectionFlag,0,kTRUE,1,1);
 754          taskjetSpectrum->SetDebugLevel(10);
 755        }
 756      }
 757      if (!taskjetSpectrum) ::Warning("AnalysisTrainPWG4Jets", "AliAnalysisTaskJetSpectrum2 cannot run for this train conditions - EXCLUDED");
 758
 759    }
 760
 761
 762    if(iPWG4JCORRAN){
 763      gROOT->LoadMacro("$ALICE_ROOT/PWG4/macros/AddTaskJCORRANTask.C");
 764      AliJCORRANTask* corran = AddTaskJCORRAN(kDeltaAODJCORRANName.Data(),0);
 765      if(!corran)::Warning("AnalysisTrainPWG4Jets", "AliJCORRANTask cannot run for this train conditions - EXCLUDED");
 766      else{
 767        if(kDeltaAODJCORRANName.Length()>0)mgr->RegisterExtraFile(kDeltaAODJCORRANName.Data());
 768      }
 769    }
 770
 771    if(iPWG4UE){
 772      gROOT->LoadMacro("$ALICE_ROOT/PWG4/macros/AddTaskUE.C");
 773      AliAnalysisTaskUE *taskUE = 0;
 774      if(iPWG4UE&1)taskUE = AddTaskUE();
 775      if(iPWG4UE&2){
 776        taskUE  =AddTaskUE("jetsAOD_CDF04","CDF", "LJ", "TRANSV","MSP"); //finder not yet in train
 777        //       taskUE  =AddTaskUE("jetsAOD_CDF07","CDF", "LJ", "TRANSV","MSP");
 778        taskUE  =AddTaskUE("jetsAOD_SISCONE04","CDF", "LJ", "TRANSV","MSP");
 779        //       taskUE  =AddTaskUE("jetsAOD_SISCONE07","CDF", "LJ", "TRANSV","MSP"); //finder not yet in train
 780        taskUE  =AddTaskUE("jetsAOD_ICDF","CDF","LJ","TRANSV","MSP");
 781        taskUE  =AddTaskUE("jetsAOD_FASTKT04","CDF", "LJ", "TRANSV","MSP");
 782        //       taskUE  =AddTaskUE("jetsAOD_FASTKT07","CDF", "LJ", "TRANSV","MSP"); //finder not yet in train
 783        taskUE  =AddTaskUE("jetsAOD_NONE","CDF", "MP_eta05", "TRANSV","MSP");
 784        taskUE  =AddTaskUE("jetsAOD_NONE","CDF", "MP_eta09", "TRANSV","MSP");
 785      }
 786
 787      if (!taskUE) ::Warning("AnalysisTrainPWG4Jets", "AliAnalysisTaskUE cannot run for this train conditions - EXCLUDED");
 788    }
 789
 790    if(iPWG4LeadingUE){
 791      gROOT->LoadMacro("$ALICE_ROOT/PWG4/macros/AddTaskLeadingTrackUE.C");
 792      AliAnalysisTaskLeadingTrackUE *taskLeadingUE = AddTaskLeadingTrackUE(kUseMC);
 793      if (!taskLeadingUE) ::Warning("AnalysisTrainPWG4Jets", "AliAnalysisTasLeadingTrackkUE cannot run for this train conditions - EXCLUDED");
 794      //     taskLeadingUE->SetFilterBit(64);
 795    }
 796
 797
 798    if(iPWG4CorrectionsUE){
 799      gROOT->LoadMacro("$ALICE_ROOT/PWG4/macros/AddTaskCorrectionsUE.C");
 800      AliAnalysisTaskCorrectionsUE *taskCorrectionsUE = 0;
 801      if(iPWG4CorrectionsUE&1)taskCorrectionsUE = AddTaskCorrectionsUE("jetsAOD_NONE","CDF","MP_eta05","TRANSV","MSP",kFALSE);
 802      if (!taskCorrectionsUE) ::Warning("AnalysisTrainPWG4Jets", "AliAnalysisTaskCorrectionsUE cannot run for this train conditions - EXCLUDED");
 803    }
 804
 805    if(iPWG4ThreeJets){
 806      gROOT->LoadMacro("$ALICE_ROOT/PWG4/macros/AddTaskThreeJets.C");
 807      AliAnalysisTaskThreeJets *taskThree = AddTaskThreeJets();
 808      if(!taskThree)::Warning("AnalysisTrainPWG4Jets", "AliAnalysisTaskThreets cannot run for this train conditions - EXCLUDED");
 809    }
 810    if(iPWG4QGSep){
 811      gROOT->LoadMacro("$ALICE_ROOT/PWG4/macros/AddTaskQGSep.C");
 812      AliAnalysisTaskQGSep *taskQGSep = AddTaskQGSep(kUseMC,iAODanalysis);
 813      if(!taskQGSep)::Warning("AnalysisTrainPWG4Jets", "AliAnalysisTaskQGSep cannot run for this train conditions - EXCLUDED");
 814    }
 815
 816
 817    if(iPWG4Minijet){
 818      gROOT->LoadMacro("$ALICE_ROOT/PWG4/macros/AddTaskMinijet.C");
 819      AliAnalysisTaskMinijet *taskMini = AddTaskMinijet(-1,"esd",kUseMC,kGridDataSet);
 820      // if we ha highmult trigger add another task
 821      if(!taskMini)::Warning("AnalysisTrainPWG4Jets", "AliAnalysisTaskMinjet cannot run for this train conditions - EXCLUDED");
 822    }
 823
 824
 825    if(iPWG4PtQAMC){
 826      gROOT->LoadMacro("$ALICE_ROOT/PWG4/macros/AddTaskPWG4HighPtQAMC.C");
 827      AliPWG4HighPtQAMC *taskQAMC = 0;
 828      if(kUseMC){
 829        if(iPWG4PtQAMC&1)taskQAMC = AddTaskPWG4HighPtQAMC(kGridDataSet.Data(),0);
 830        if(iPWG4PtQAMC&1)taskQAMC = AddTaskPWG4HighPtQAMC(kGridDataSet.Data(),1);
 831      }
 832      if (!taskQAMC) ::Warning("AnalysisTrainPWG4Jets", "AliAnalysisTaskQAMC cannot run for this train conditions - EXCLUDED");
 833    }
 834
 835    if(iPWG4PtQATPC){
 836      gROOT->LoadMacro("$ALICE_ROOT/PWG4/macros/AddTaskPWG4HighPtQATPConly.C");
 837      AliPWG4HighPtQATPConly *taskQATPC = 0;
 838      if(iPWG4PtQATPC&1)taskQATPC = AddTaskPWG4HighPtQATPConly(kGridDataSet.Data(),1);
 839      if(iPWG4PtQATPC&2)taskQATPC = AddTaskPWG4HighPtQATPConly(kGridDataSet.Data(),2);
 840
 841  if (!taskQATPC) ::Warning("AnalysisTrainPWG4Jets", "AliAnalysisTaskQATPC cannot run for this train conditions - EXCLUDED");
 842    }
 843
 844    if(iPWG4Cosmics){
 845      gROOT->LoadMacro("$ALICE_ROOT/PWG4/macros/AddTaskPWG4CosmicCandidates.C");
 846
 847      AliPWG4CosmicCandidates *taskPWG4CosmicCandidates = AddTaskPWG4CosmicCandidates(0);
 848      taskPWG4CosmicCandidates = AddTaskPWG4CosmicCandidates(1);
 849
 850      if (!taskPWG4CosmicCandidates) ::Warning("AnalysisTrainPWG4Jets", "AddTaskPWG4CosmicCandidates cannot run for this train conditions - EXCLUDED");
 851    }
 852
 853
 854    if(iPWG4PtSpectra){
 855      gROOT->LoadMacro("$ALICE_ROOT/PWG4/macros/AddTaskPWG4HighPtSpectra.C");
 856      AliPWG4HighPtSpectra *taskPtSpectra = AddTaskPWG4HighPtSpectra(kGridDataSet.Data());
 857      if (!taskPtSpectra) ::Warning("AnalysisTrainPWG4Jets", "AliAnalysisTaskPtSpectra cannot run for this train conditions - EXCLUDED");
 858    }
 859    if(iPWG4KMeans){
 860      gROOT->LoadMacro("$ALICE_ROOT/PWG4/macros/AddTaskKMeans.C");
 861      AliAnalysisTaskKMeans *taskKMeans = AddTaskKMeans();
 862      if (!taskKMeans) ::Warning("AnalysisTrainPWG4Jets", "AliAnalysisTaskKMenans cannot run for this train conditions - EXCLUDED");
 863    }
 864
 865    if(iPWG4PartCorr){
 866      gROOT->LoadMacro("$ALICE_ROOT/PWG4/macros/AddTaskPartCorr.C");
 867      AliAnalysisTaskParticleCorrelation *taskpartcorrPHOS = AddTaskPartCorr("AOD", "PHOS",kFALSE,kIsMC);
 868      if (!taskpartcorrPHOS) ::Warning("AnalysisTrainNew", "AliAnalysisTaskParticleCorrelation PHOS cannot run for this train conditions - EXCLUDED");
 869      AliAnalysisTaskParticleCorrelation *taskpartcorrEMCAL = AddTaskPartCorr("AOD", "EMCAL",kFALSE,kIsMC);
 870      if (!taskpartcorrEMCAL) ::Warning("AnalysisTrainNew", "AliAnalysisTaskParticleCorrelation EMCAL cannot run for this train conditions - EXCLUDED");
 871      if(kDeltaAODPartCorrName.Length()>0)mgr->RegisterExtraFile(kDeltaAODPartCorrName.Data());
 872    }
 873
 874    if(iPWG4CaloQA){
 875      gROOT->LoadMacro("$ALICE_ROOT/PWG4/macros/QA/AddTaskCalorimeterQA.C");
 876      AliAnalysisTaskParticleCorrelation *taskcaloQA =  AddTaskCalorimeterQA("ESD",kFALSE,kIsMC,kCaloQAOutputFileName.Data());
 877      if(!taskcaloQA)::Warning("AnalysisTrainNew", "AliAnalysisTaskParticleCorrelation QA cannot run - EXCLUDED");
 878      //  if(kCaloQAOutputFileName.Length()>0)mgr->RegisterExtraFile(kCaloQAOutputFileName.Data());
 879    }
 880
 881    if(iPWG4JetCorr){
 882      //     using namespace JetCorrelHD;
 883      TString cdir = gSystem->WorkingDirectory();
 884      gSystem->ChangeDirectory(gSystem->ExpandPathName("$ALICE_ROOT/PWG4/macros/"));
 885      gROOT->LoadMacro("$ALICE_ROOT/PWG4/macros/AddTaskJetCorrel.C");
 886      AliAnalysisTaskJetCorrel *taskjetcorr = AddTaskJetCorrel();
 887      gSystem->ChangeDirectory(cdir);
 888      if (!taskjetcorr) ::Warning("AnalysisTrainNew", "AliAnalysisTaskJetCorrel  cannot run for this train conditions - EXCLUDED");
 889    }
 890
 891    if(iPWG4Tagged){
 892      gROOT->LoadMacro("$ALICE_ROOT/PWG4/macros/AddTaskTaggedPhotons.C");
 893      AliAnalysisTaskTaggedPhotons * taskTagged = AddTaskTaggedPhotons(kFALSE); // EMCAL
 894      taskTagged = AddTaskTaggedPhotons(kTRUE); // PHOS
 895      if (!taskTagged) ::Warning("AnalysisTrainNew", "AliAnalysisTaskTaggedPhotons  cannot run for this train conditions - EXCLUDED");
 896    }
 897    if (iPWG4omega3pi) {
 898      gROOT->LoadMacro("$ALICE_ROOT/PWG4/macros/AddTaskomega3pi.C");
 899      AliAnalysisTaskOmegaPi0PiPi *taskomega3pi = AddTaskomega3pi();
 900      if (!taskomega3pi) ::Warning("AnalysisTrainNew", "AliAnalysisTaskomega3pi cannot run\
 901  for these train conditions - EXCLUDED");
 902    }
 903
 904    // PWG4 gamma conversion analysis
 905    if (iPWG4GammaConv) {
 906       gROOT->LoadMacro("$ALICE_ROOT/PWG4/macros/AddTaskGammaConversion.C");
 907       TString cdir = gSystem->WorkingDirectory();
 908       gSystem->ChangeDirectory(gSystem->ExpandPathName("$ALICE_ROOT/PWG4/macros/"));
 909       //      TString gcArguments = "-run-on-train -run-jet -run-chic -run-neutralmeson -run-cf";
 910       //      TString gcArguments = "-run-on-train -run-jet -run-neutralmeson -run-cf -use-own-xyz";
 911       //      TString gcArguments = "-run-on-train -run-jet -run-neutralmeson -run-cf -use-own-xyz";
 912       TString gcArguments = "-run-on-train -run-jet -run-omega-meson -use-own-xyz -run-neutralmeson -no-aod";
 913       //      TString kGCAnalysisCutSelectionId="9003562000100310";
 914       //      TString kGCAnalysisCutSelectionId="9003562000100312";
 915       //      gcArguments.Append(Form(" -set-cut-selection %s ",kGCAnalysisCutSelectionId.Data()));
 916       if(!kIsMC)gcArguments += " -mc-off";
 917       AliAnalysisTaskGammaConversion * taskGammaConversion = AddTaskGammaConversion(gcArguments,mgr->GetCommonInputContainer());
 918       gSystem->ChangeDirectory(cdir);
 919       taskGammaConversion->SelectCollisionCandidates();
 920       if (!taskGammaConversion) ::Warning("AnalysisTrainNew", "AliAnalysisTaskGammaConversion cannot run for these train conditions - EXCLUDED");
 921    }
 922
 923    if (iPWG4CaloConv) {
 924       gROOT->LoadMacro("$ALICE_ROOT/PWG4/macros/AddTaskCaloConv.C");
 925       AliAnalysisTaskCaloConv * taskCaloConv = AddTaskCaloConv();
 926       if (!taskCaloConv) ::Warning("AnalysisTrainNew", "AliAnalysisTaskCaloConv cannot run for these train conditions - EXCLUDED");
 927    }
 928
 929
 930
 931    //==========================================================================
 932    // FOR THE REST OF THE TASKS THE MACRO AddTaskXXX() is not yet implemented/
 933    // Run the analysis
 934    //
 935    if (kPluginUse) {
 936       AliAnalysisGrid *alienHandler = CreateAlienHandler(plugin_mode);
 937       AliAnalysisManager::GetAnalysisManager()->SetGridHandler(alienHandler);
 938    }
 939
 940    if (mgr->InitAnalysis()) {
 941      mgr->PrintStatus();
 942      // if (kSaveTrain || strlen(config_file)) gSystem->ChangeDirectory(kTrainName);
 943      if (!strcmp(plugin_mode,"submit")&&smode=="GRID"){
 944        TString alien_workdir = gGrid->GetHomeDirectory();
 945        if (iAODanalysis) alien_workdir += "analysisAOD";
 946        else              alien_workdir += "analysisESD";
 947        if(kGridDataSet.Length()>0)alien_workdir += Form("/%s",kGridDataSet.Data());
 948        AliAnalysisAlien *gridhandler = (AliAnalysisAlien*)mgr->GetGridHandler();
 949        printf("=== AnalysisTrainPWG4Jets:: Registering jdl in the work directory alien://%s/%s, should be done by the manager! ===\n",
 950               alien_workdir.Data(),gridhandler->GetGridOutputDir());
 951
 952        TString dest;
 953        dest = Form("%s/%s/%s.jdl",alien_workdir.Data(),gridhandler->GetGridOutputDir(),kTrainName.Data());
 954        if(AliAnalysisAlien::FileExists(dest.Data())){
 955          //      Printf("%s exist on grid removing...",dest.Data());
 956          //      gGrid->Rm(dest.Data());
 957        }
 958        TFile::Cp(Form("file:%s.jdl",kTrainName.Data()),Form("alien://%s",dest.Data()));
 959
 960
 961        TString dest;
 962        dest = Form("%s/%s/%s_merge.jdl",alien_workdir.Data(),gridhandler->GetGridOutputDir(),kTrainName.Data());
 963        if(AliAnalysisAlien::FileExists(dest.Data())){
 964          //      Printf("%s exist on grid removing...",dest.Data());
 965          //      gGrid->Rm(dest.Data());
 966        }
 967        TFile::Cp(Form("file:%s_merge.jdl",kTrainName.Data()),Form("alien://%s",dest.Data()));
 968
 969
 970        dest = Form("%s/rootfiles/STEER/LQ1dRef_v1.root",gGrid->GetHomeDirectory());
 971        if(AliAnalysisAlien::FileExists(dest.Data())){
 972          Printf("%s exist on grid removing...",dest.Data());
 973          gGrid->Rm(dest.Data());
 974        }
 975        TFile::Cp(Form("file:%s/STEER/LQ1dRef_v1.root",
 976                       gSystem->ExpandPathName("$ALICE_ROOT")),Form("alien://%s",dest.Data()));
 977      }
 978      AliLog::SetGlobalLogLevel(AliLog::kError);
 979      if((kUseSysInfo>0&&smode=="LOCAL")||!strcmp(plugin_mode, "test")){
 980        TFile * fM = TFile::Open("manager_local.root","RECREATE");
 981        mgr->Write();
 982        fM->Close();
 983      }
 984
 985      // grmpf, aliroot error handler overwrites root
 986      gErrorIgnoreLevel = kErrorIgnoreLevel;
 987      if(gErrorIgnoreLevel>3000) AliLog::SetGlobalLogLevel(AliLog::kFatal);
 988      StartAnalysis(smode, chain);
 989      if((kUseSysInfo>0&&smode=="LOCAL")||!strcmp(plugin_mode, "test")){
 990        for(int i = 0;i < mgr->GetTopTasks()->GetEntries();i++){
 991          mgr->ProfileTask(i);
 992        }
 993      }
 994      if (!strcmp(plugin_mode, "offline")&&smode=="GRID"){
 995        // Offline mode path files
 996        //       PatchJDL();
 997        PatchAnalysisMacro();
 998      }
 999
1000      if (kSaveTrain && smode=="GRID") {
1001        AliAnalysisAlien *gridhandler = (AliAnalysisAlien*)mgr->GetGridHandler();
1002        TString alien_workdir = gGrid->GetHomeDirectory();
1003        if (iAODanalysis) alien_workdir += "analysisAOD";
1004        else              alien_workdir += "analysisESD";
1005        if(kGridDataSet.Length()>0)alien_workdir += Form("/%s",kGridDataSet.Data());
1006        //     kGridOutdir = gridhandler->GetGridOutputDir();
1007        printf("=== Registering ConfigTrain.C in the work directory <%s> ===\n",
1008                 alien_workdir.Data());
1009        if (AliAnalysisAlien::FileExists(Form("%s/%sConfig.C", alien_workdir.Data(), kTrainName.Data())))
1010          gGrid->Rm(Form("%s/%sConfig.C", alien_workdir.Data(), kTrainName.Data()));
1011        if (strcmp(plugin_mode, "test"))
1012          TFile::Cp(Form("file:%sConfig.C",kTrainName.Data()), Form("alien://%s/%sConfig.C", alien_workdir.Data(), kTrainName.Data()));
1013      }
1014    }
1015 }
1016
1017 //______________________________________________________________________________
1018 void StartAnalysis(const char *mode, TChain *chain) {
1019 // Start analysis.
1020    Int_t imode = -1;
1021    AliAnalysisManager *mgr = AliAnalysisManager::GetAnalysisManager();
1022    if (!strcmp(mode, "LOCAL")) imode = 0;
1023    if (!strcmp(mode, "PROOF")) imode = 1;
1024    if (!strcmp(mode, "GRID"))  imode = 2;
1025    switch (imode) {
1026       case 0:
1027          if (!chain) {
1028             ::Error("AnalysisTrainPWG4Jets.C::StartAnalysis", "Cannot create the chain");
1029             return;
1030          }
1031          mgr->StartAnalysis(mode, chain,kNumberOfEvents);
1032          return;
1033       case 1:
1034          if (!kProofDataSet.Length()) {
1035             ::Error("AnalysisTrainPWG4Jets.C::StartAnalysis", "kProofDataSet is empty");
1036             return;
1037          }
1038          mgr->StartAnalysis(mode, kProofDataSet, kProofEvents,kProofOffset);
1039          return;
1040       case 2:
1041          if (kPluginUse) {
1042             if (!mgr->GetGridHandler()) {
1043                ::Error("AnalysisTrainPWG4Jets.C::StartAnalysis", "Grid plugin not initialized");
1044                return;
1045             }
1046             mgr->StartAnalysis("grid",chain,kNumberOfEvents);
1047          } else {
1048             if (!chain) {
1049                ::Error("AnalysisTrainPWG4Jets.C::StartAnalysis", "Cannot create the chain");
1050                return;
1051             }
1052             mgr->StartAnalysis(mode, chain);
1053             mgr->StartAnalysis(mode, chain,kNumberOfEvents);
1054          }
1055          return;
1056    }
1057 }
1058
1059 //______________________________________________________________________________
1060 void CheckModuleFlags(const char *mode) {
1061 // Checks selected modules and insure compatibility
1062    Int_t imode = -1;
1063    if (!strcmp(mode, "LOCAL")) imode = 0;
1064    if (!strcmp(mode, "PROOF")) imode = 1;
1065    if (!strcmp(mode, "GRID"))  imode = 2;
1066
1067
1068    if (kUseCPAR) {
1069      kPluginAliRootVersion    = ""; // NO aliroot if we use CPAR
1070    }
1071
1072    if (imode==1) {
1073       if (!kUsePAR) {
1074          ::Info("AnalysisTrainPWG4Jets.C::CheckModuleFlags", "PAR files enabled due to PROOF analysis");
1075          kUsePAR = kTRUE;
1076       }
1077    }
1078    if (imode != 2) {
1079       ::Info("AnalysisTrainPWG4Jets.C::CheckModuleFlags", "AliEn plugin disabled since not in GRID mode");
1080       kPluginUse = kFALSE;
1081    }
1082
1083
1084    if(!kIsMC){
1085      // switch off anthin related to MC
1086      kUseMC = 0;
1087      kUseAODMC = 0;
1088      kUseTR = kFALSE;
1089    }
1090
1091    // Decide if we have PbPb
1092    if(kGridDataSet.CompareTo("LHC10h")==0||kGridDataSet.Contains("LHC10h")) {
1093      Printf("Using settings for Pb+Pb");
1094      kIsPbPb = true;
1095    }
1096
1097
1098
1099    if (iAODanalysis) {
1100    // AOD analysis
1101       if (kUseMC)
1102          ::Info("AnalysisTrainPWG4Jets.C::CheckModuleFlags", "MC usage disabled in analysis on AOD's");
1103       if (kUseAODTags)
1104          ::Info("AnalysisTrainPWG4Jets.C::CheckModuleFlags", "AOD tags usage disabled in analysis on AOD's");
1105       kUseMC = kFALSE;
1106       kUseTR = kFALSE;
1107       kUseAODTags = kFALSE;
1108       if (iESDfilter)
1109          ::Info("AnalysisTrainPWG4Jets.C::CheckModuleFlags", "ESD filter disabled in analysis on AOD's");
1110       iESDfilter   = 0;
1111       if (iPhysicsSelection)
1112          ::Info("AnalysisTrainPWG4Jets.C::CheckModuleFlags", "Physics Selection disabled in analysis on AOD's");
1113       iPhysicsSelection   = 0;
1114       if (!iAODhandler) {
1115          if (iJETAN)
1116             ::Info("AnalysisTrainPWG4Jets.C::CheckModuleFlags", "JETAN disabled in analysis on AOD's without AOD handler");
1117          iJETAN = 0;
1118          iDIJETAN = 0;
1119       }
1120       // Disable tasks that do not work yet on AOD data
1121       if(iPWG4JCORRAN)::Info("AnalysisTrainPWG4Jets.C::CheckModuleFlags", "PWG4 JCORRAN disabled in analysis on AOD's");
1122       iPWG4JCORRAN = 0;
1123       if( iPWG4PtQAMC)::Info("AnalysisTrainPWG4Jets.C::CheckModuleFlags", "PWG4 PtQAMC disabled in analysis on AOD's");
1124       iPWG4PtQAMC        = 0;
1125       if( iPWG4PtQATPC)::Info("AnalysisTrainPWG4Jets.C::CheckModuleFlags", "PWG4 PtTPC disabled in analysis on AOD's");
1126       iPWG4PtQATPC        = 0;
1127       if( iPWG4Cosmics)::Info("AnalysisTrainPWG4Jets.C::CheckModuleFlags", "PWG4 Comics disabled in analysis on AOD's");
1128       iPWG4Cosmics        = 0;
1129
1130       if( iPWG4PtSpectra)::Info("AnalysisTrainPWG4Jets.C::CheckModuleFlags", "PWG4 PtQAMC disabled in analysis on AOD's");
1131       iPWG4PtSpectra     = 0;
1132       if(iPWG4KMeans)::Info("AnalysisTrainPWG4Jets.C::CheckModuleFlags", "PWG4KMeans disabled on AOD's");
1133       iPWG4KMeans       = 0;
1134       if (iPWG4JetCorr)::Info("AnalysisTrainPWG4Jets.C::CheckModuleFlags", "PWG4Jetcorr disabled on AOD's");
1135       iPWG4JetCorr = 0;
1136       if (iPWG4PartCorr)::Info("AnalysisTrainPWG4Jets.C::CheckModuleFlags", "PWG4partcorr disabled on AOD's");
1137       iPWG4PartCorr = 0;
1138       if (iPWG4CaloQA)::Info("AnalysisTrainPWG4Jets.C::CheckModuleFlags", "PWG4CaloQA disabled on AOD's");
1139       iPWG4CaloQA = 0;
1140       if (iPWG4Tagged)::Info("AnalysisTrainPWG4Jets.C::CheckModuleFlags", "PWG4tagged disabled on AOD's");
1141       iPWG4Tagged = 0;
1142       if (iPWG4omega3pi)
1143         ::Info("AnalysisTrainNew.C::CheckModuleFlags", "PWG4omega3pi disabled on AOD's");
1144       iPWG4omega3pi = 0;
1145       if(iPWG1QASym)::Info("AnalysisTrainPWG4Jets.C::CheckModuleFlags", "PWG1 QA Sym disabled in analysis on AOD's");
1146       if (iPWG4GammaConv)::Info("AnalysisPWG4Jets.C::CheckModuleFlags", "PWG4gammaconv disabled on AOD's");
1147       iPWG4GammaConv = 0;
1148       iPWG1QASym     = 0;
1149       iCentralitySelection = 0;
1150    } else {
1151    // ESD analysis
1152
1153      if(kIsPbPb){
1154        iCentralitySelection = 1;
1155      }
1156
1157      if (!kUseMC){
1158        kUseTR = kFALSE;
1159
1160        if(kUseKinefilter)::Info("AnalysisTrainPWG4Jets.C::CheckModuleFlags", "PWG4 Kine Filter disabled in analysis without MC");
1161        kUseKinefilter = kFALSE;
1162        if( iPWG4PtQAMC)::Info("AnalysisTrainPWG4Jets.C::CheckModuleFlags", "PWG4 PtQAMC disabled in analysis without MC");
1163        iPWG4PtQAMC        = 0;
1164        if( iPWG4CorrectionsUE)::Info("AnalysisTrainPWG4Jets.C::CheckModuleFlags", "PWG4 CorrectionsUE disabled in analysis without MC");
1165        iPWG4CorrectionsUE = 0;
1166      }
1167      if (!kUseTR) {
1168        if(iPWG4PtQAMC)::Info("AnalysisTrainPWG4Jets.C::CheckModuleFlags", "iPWG4QATPCMC disabled if not reading track references");
1169        iPWG4PtQAMC        = 0;
1170      }
1171      if (iJETAN){
1172        iESDfilter=1;
1173      }
1174       if (!iESDfilter){
1175         kUseKinefilter = kFALSE;
1176         kUseMuonfilter = kFALSE;
1177       }
1178       if(!iJETAN){
1179         iPWG4JetSpectrum = iPWG4UE =  iPWG4CorrectionsUE = iPWG4ThreeJets = iPWG4QGSep = iDIJETAN = 0;
1180       }
1181    }
1182    iPWG4JetTasks = iPWG4JetServices||iPWG4JetSpectrum||iPWG4UE||iPWG4LeadingUE||iPWG4PtQAMC||iPWG4PtSpectra||iPWG4PtQATPC||iPWG4Cosmics||iPWG4ThreeJets||iPWG4QGSep||iPWG4JetChem||iPWG4Minijet||iPWG4Fragmentation;
1183    iPWG4PartCorrLibs = iPWG4PartCorr||iPWG4Tagged||iPWG4CaloQA;
1184    iPWG4GammaConvLib = iPWG4GammaConv||iPWG4CaloConv;
1185
1186
1187    iEMCUtilLibs = iPWG4PartCorrLibs||iPWG4JCORRAN||iPWG4GammaConvLib;
1188    iJETANLib = iPWG4JetTasks||iJETAN||iDIJETAN;
1189
1190    if (iESDfilter) {iAODhandler=1;}
1191    if (kUseKinefilter && !kUseMC) kUseKinefilter = kFALSE;
1192    if (kUseAODTags && !iAODhandler) kUseAODTags = kFALSE;
1193
1194
1195
1196 }
1197
1198 //______________________________________________________________________________
1199 Bool_t Connect(const char *mode) {
1200 // Connect <username> to the back-end system.
1201    Int_t imode = -1;
1202    if (!strcmp(mode, "LOCAL")) imode = 0;
1203    if (!strcmp(mode, "PROOF")) imode = 1;
1204    if (!strcmp(mode, "GRID"))  imode = 2;
1205    TString username = gSystem->Getenv("alien_API_USER");
1206    switch (imode) {
1207       case 0:
1208          break;
1209       case 1:
1210          if  (!username.Length()) {
1211             ::Error(Form("AnalysisTrainPWG4Jets.C::Connect <%s>", mode), "Make sure you:\n \
1212                            1. Have called: alien-token-init <username>\n \
1213                            2. Have called: >source /tmp/gclient_env_$UID");
1214             return kFALSE;
1215          }
1216          ::Info("AnalysisTrainPWG4Jets.C::Connect", "Connecting user <%s> to PROOF cluster <%s>",
1217                 username.Data(), kProofCluster.Data());
1218          gEnv->SetValue("XSec.GSI.DelegProxy", "2");
1219 //         TProof::Open(Form("%s@%s:31093", username.Data(), kProofCluster.Data()));
1220          TProof::Open(Form("%s@%s", username.Data(), kProofCluster.Data()));
1221          if (!gProof) {
1222             if (strcmp(gSystem->Getenv("XrdSecGSISRVNAMES"), "lxfsrd0506.cern.ch"))
1223                ::Error(Form("AnalysisTrainPWG4Jets.C::Connect <%s>", mode), "Environment XrdSecGSISRVNAMES different from lxfsrd0506.cern.ch");
1224             return kFALSE;
1225          }
1226          if(kProofClearPackages)gProof->ClearPackages();
1227
1228          if(kProofSaveToAlien){
1229            TGrid::Connect("alien://");
1230            if (gGrid) {
1231              TString homedir = gGrid->GetHomeDirectory();
1232              TString workdir = homedir + kTrainName;
1233              if (!gGrid->Cd(workdir)) {
1234                gGrid->Cd(homedir);
1235                if (gGrid->Mkdir(workdir)) {
1236                  gGrid->Cd(kTrainName);
1237                  ::Info("AnalysisTrainPWG4Jets::Connect()", "Directory %s created", gGrid->Pwd());
1238                }
1239              }
1240              gGrid->Mkdir("proof_output");
1241              gGrid->Cd("proof_output");
1242              kProofOutdir = Form("alien://%s", gGrid->Pwd());
1243            }
1244          }
1245          break;
1246       case 2:
1247          if  (!username.Length()) {
1248             ::Error(Form("AnalysisTrainPWG4Jets.C::Connect <%s>", mode), "Make sure you:\n \
1249                            1. Have called: alien-token-init <username>\n \
1250                            2. Have called: >source /tmp/gclient_env_$UID");
1251             return kFALSE;
1252          }
1253          if (kPluginUse && !gSystem->Getenv("alien_CLOSE_SE")) {
1254             ::Error(Form("AnalysisTrainPWG4Jets.C::Connect <%s>", mode),
1255                            "When using the AliEn plugin it is preferable to define the \
1256                            variable alien_CLOSE_SE in your environment.");
1257             return kFALSE;
1258          }
1259          ::Info("AnalysisTrainPWG4Jets.C::Connect", "Connecting user <%s> to AliEn ...",
1260                 username.Data());
1261          TGrid::Connect("alien://");
1262          if (!gGrid || !gGrid->IsConnected()) return kFALSE;
1263          break;
1264       default:
1265          ::Error("AnalysisTrainPWG4Jets.C::Connect", "Unknown run mode: %s", mode);
1266          return kFALSE;
1267    }
1268    ::Info("AnalysisTrainPWG4Jets.C::Connect","Connected in %s mode", mode);
1269    return kTRUE;
1270 }
1271
1272 //______________________________________________________________________________
1273 Bool_t LoadCommonLibraries(const char *mode)
1274 {
1275 // Load common analysis libraries.
1276    Int_t imode = -1;
1277    if (!strcmp(mode, "LOCAL")) imode = 0;
1278    if (!strcmp(mode, "PROOF")) imode = 1;
1279    if (!strcmp(mode, "GRID"))  imode = 2;
1280    if (!gSystem->Getenv("ALICE_ROOT")) {
1281       ::Error("AnalysisTrainPWG4Jets.C::LoadCommonLibraries", "Analysis train requires that ALICE_ROOT is set to pick up Configurations");
1282       return kFALSE;
1283    }
1284    Bool_t success = kTRUE;
1285    // ROOT libraries
1286    gSystem->Load("libTree.so");
1287    gSystem->Load("libGeom.so");
1288    gSystem->Load("libVMC.so");
1289    gSystem->Load("libPhysics.so");
1290
1291    // Load framework classes. Par option ignored here.
1292    switch (imode) {
1293       case 0:
1294       case 2:
1295          if (kUseCPAR) {
1296             success &= LoadLibrary("STEERBase", mode, kTRUE);
1297             success &= LoadLibrary("ESD", mode, kTRUE);
1298             success &= LoadLibrary("AOD", mode, kTRUE);
1299             success &= LoadLibrary("ANALYSIS", mode, kTRUE);
1300             success &= LoadLibrary("ANALYSISalice", mode, kTRUE);
1301             success &= LoadLibrary("EventMixing", mode,kTRUE);
1302             success &= LoadLibrary("CORRFW", mode, kTRUE);
1303          } else {
1304             success &= LoadLibrary("libSTEERBase.so", mode);
1305             success &= LoadLibrary("libESD.so", mode);
1306             success &= LoadLibrary("libAOD.so", mode);
1307             success &= LoadLibrary("libANALYSIS.so", mode);
1308             success &= LoadLibrary("libANALYSISalice.so", mode);
1309             success &= LoadLibrary("libEventMixing.so", mode);
1310             success &= LoadLibrary("libCORRFW.so", mode);
1311             gROOT->ProcessLine(".include $ALICE_ROOT/include");
1312          }
1313          break;
1314       case 1:
1315          Int_t ires = -1;
1316          if (kProofUseAFPAR && !gSystem->AccessPathName(kProofAFversion)) ires = gProof->UploadPackage(kProofAFversion);
1317          if (ires < 0) {
1318             success &= LoadLibrary("STEERBase", mode);
1319             success &= LoadLibrary("ESD", mode);
1320             success &= LoadLibrary("AOD", mode);
1321             success &= LoadLibrary("ANALYSIS", mode);
1322             success &= LoadLibrary("ANALYSISalice", mode);
1323             success &= LoadLibrary("EventMixing", mode);
1324             success &= LoadLibrary("CORRFW", mode);
1325          } else {
1326             ires = gProof->EnablePackage(kProofAFversion);
1327             if (ires<0) success = kFALSE;
1328             success &= LoadLibrary("CORRFW", mode);
1329          }
1330          break;
1331       default:
1332          ::Error("AnalysisTrainPWG4Jets.C::LoadCommonLibraries", "Unknown run mode: %s", mode);
1333          return kFALSE;
1334    }
1335    if (success) {
1336       ::Info("AnalysisTrainPWG4Jets.C::LoadCommodLibraries", "Load common libraries:    SUCCESS");
1337       ::Info("AnalysisTrainPWG4Jets.C::LoadCommodLibraries", "Include path for Aclic compilation:\n%s",
1338               gSystem->GetIncludePath());
1339    } else {
1340       ::Info("AnalysisTrainPWG4Jets.C::LoadCommodLibraries", "Load common libraries:    FAILED");
1341    }
1342
1343    return success;
1344 }
1345
1346 //______________________________________________________________________________
1347 Bool_t LoadAnalysisLibraries(const char *mode)
1348 {
1349 // Load common analysis libraries.
1350   Bool_t success = kTRUE;
1351   if (useTender) {
1352       if (!LoadLibrary("TENDER", mode, kTRUE) ||
1353           !LoadLibrary("TENDERSupplies", mode, kTRUE)) return kFALSE;
1354    }
1355    if (iESDfilter) {
1356      /*
1357       if (!LoadLibrary("PWG3base", mode, kTRUE) ||
1358           !LoadLibrary("PWG3muon", mode, kTRUE)) return kFALSE;
1359      */
1360    }
1361    // JETAN
1362    if (iJETANLib) {
1363      // this part needs some rework in case we do not need the fastjed finders for processing
1364      if (!LoadLibrary("JETAN", mode, kTRUE)) return kFALSE;
1365      if (!strcmp(mode, "PROOF")){
1366        gProof->Exec("gSystem->Load\(\"/afs/cern.ch/user/d/dperrino/public/libCGAL.so\"\)", kTRUE);
1367        gProof->Exec("gSystem->Load\(\"/afs/cern.ch/user/d/dperrino/public/libfastjet.so\"\)", kTRUE);
1368        // problem when loading siscone copiled with different gcc version??
1369        // gProof->Exec("gSystem->Load\(\"/afs/cern.ch/user/d/dperrino/public/libsiscone.so\"\)", kTRUE);
1370        gProof->Exec("gSystem->Load\(\"/afs/cern.ch/user/d/dperrino/public/libSISConePlugin.so\"\)", kTRUE);
1371      }
1372      if(!kUsePAR){
1373        if (!LoadLibrary("CGAL", mode, kTRUE)) return kFALSE;
1374        if (!LoadLibrary("fastjet", mode, kTRUE)) return kFALSE;
1375        if (!LoadLibrary("siscone", mode, kTRUE)) return kFALSE;
1376        if (!LoadLibrary("SISConePlugin", mode, kTRUE)) return kFALSE;
1377      }
1378      else{
1379        // par files plus FASTJET needs some extra work... need to change
1380        // the loading sequence in the auto generated .C file
1381        if (!LoadLibrary("libCGAL.so", mode, kTRUE)) return kFALSE;
1382        if (!LoadLibrary("libfastjet.so", mode, kTRUE)) return kFALSE;
1383        if (!LoadLibrary("libsiscone.so", mode, kTRUE)) return kFALSE;
1384        if (!LoadLibrary("libSISConePlugin.so", mode, kTRUE)) return kFALSE;
1385      }
1386      if (!LoadLibrary("FASTJETAN", mode, kTRUE)) return kFALSE;
1387    }
1388    if(iPWG4JetTasks){
1389      if (!LoadLibrary("PWG4JetTasks", mode, kTRUE)) return kFALSE;
1390    }
1391
1392    if(iPWG1QASym){
1393      if (!LoadSource(Form("%s/PWG1/AliAnalysisTaskQASym.cxx",gSystem->ExpandPathName("$ALICE_ROOT")), mode, kTRUE))return kFALSE;
1394    }
1395    if(iPWG4TmpSourceSara){
1396      if(!kUsePAR)gSystem->AddIncludePath("-I$ALICE_ROOT/include/JetTasks"); // ugly hack!!
1397      if(!LoadSource(Form("%s/PWG4/JetTasks/AliAnalysisTaskEta.cxx",gSystem->ExpandPathName("$ALICE_ROOT")), mode, kTRUE))return kFALSE;
1398    }
1399
1400    /*
1401    if(iPWG4JetChem){
1402      if(!kUsePAR)gSystem->AddIncludePath("-I$ALICE_ROOT/include/JetTasks"); // ugly hack!!
1403      if(!LoadSource(Form("%s/PWG4/JetTasks/AliAnalysisTaskJetChem.cxx",gSystem->ExpandPathName("$ALICE_ROOT")), mode, kTRUE))return kFALSE;
1404    }
1405    */
1406
1407    if(iEMCUtilLibs){
1408      if (!LoadLibrary("EMCALUtils", mode, kTRUE) ||
1409          !LoadLibrary("PHOSUtils", mode, kTRUE)) return kFALSE;
1410    }
1411
1412    if (iPWG4PartCorrLibs) {
1413       if (!LoadLibrary("PWG4PartCorrBase", mode, kTRUE) ||
1414           !LoadLibrary("PWG4PartCorrDep", mode, kTRUE)) return kFALSE;
1415    }
1416    if(iPWG4JCORRAN){
1417      // PWG4 particle correlations
1418      if(!LoadLibrary("PWG4JCORRAN",mode,kTRUE))return kFALSE;
1419    }
1420    if (iPWG4JetCorr) {
1421      if (!LoadLibrary("PWG4JetCorrel", mode, kTRUE)) return kFALSE;
1422    }
1423    if (iPWG4omega3pi) {
1424      if (!LoadLibrary("PWG4omega3pi", mode, kTRUE)) return kFALSE;
1425    }
1426    if (iPWG4GammaConvLib) {
1427       if (!LoadLibrary("PWG4GammaConv", mode, kTRUE)) return kFALSE;
1428    }
1429
1430    ::Info("AnalysisTrainPWG4Jets.C::LoadAnalysisLibraries", "Load other libraries:   SUCCESS");
1431    return kTRUE;
1432 }
1433
1434 //______________________________________________________________________________
1435 Bool_t LoadLibrary(const char *module, const char *mode, Bool_t rec=kFALSE)
1436 {
1437 // Load a module library in a given mode. Reports success.
1438    Int_t imode = -1;
1439    Int_t result;
1440    TString smodule(module);
1441    if (!strcmp(mode, "LOCAL")) imode = 0;
1442    if (!strcmp(mode, "PROOF")) imode = 1;
1443    if (!strcmp(mode, "GRID"))  imode = 2;
1444    TString mod(module);
1445    if (!mod.Length()) {
1446       ::Error("AnalysisTrainPWG4Jets.C::LoadLibrary", "Empty module name");
1447       return kFALSE;
1448    }
1449    // If a library is specified, just load it
1450    if (smodule.EndsWith(".so")) {
1451       mod.Remove(mod.Index(".so"));
1452       result = gSystem->Load(mod);
1453       if (result < 0) {
1454          ::Error("AnalysisTrainPWG4Jets.C::LoadLibrary", "Could not load library %s", module);
1455          return kFALSE;
1456       }
1457       if (rec) anaLibs += Form("%s.so ",mod.Data());
1458       if (rec) anaLibsExtra += Form("%s.so ",mod.Data());
1459       return kTRUE;
1460    }
1461    // Check if the library is already loaded
1462    if (strlen(gSystem->GetLibraries(Form("%s.so", module), "", kFALSE)) > 0)
1463       return kTRUE;
1464    switch (imode) {
1465       case 0:
1466       case 2:
1467          if (kUsePAR) {
1468             result = SetupPar(module);
1469             if (rec) anaPars += Form("%s.par ", module);
1470          } else {
1471             result = gSystem->Load(Form("lib%s.so", module));
1472             if (rec) anaLibs += Form("lib%s.so ", module);
1473          }
1474          break;
1475       case 1:
1476         if(!gSystem->AccessPathName(module)){
1477           ::Info("AnalysisTrainPWG4Jets.C::LoadLibrary", "Removing directory %s",module);
1478           gSystem->Exec(Form("rm -rf %s",module));
1479         }
1480          result = gProof->UploadPackage(module);
1481          if (result<0) {
1482             result = gProof->UploadPackage(gSystem->ExpandPathName(Form("$ALICE_ROOT/%s.par", module)));
1483             if (result<0) {
1484                ::Error("AnalysisTrainPWG4Jets.C::LoadLibrary", "Could not find module %s.par in current directory nor in $ALICE_ROOT", module);
1485                return kFALSE;
1486             }
1487          }
1488          result = gProof->EnablePackage(module);
1489          break;
1490       default:
1491          return kFALSE;
1492    }
1493    if (result < 0) {
1494       ::Error("AnalysisTrainPWG4Jets.C::LoadLibrary", "Could not load module %s", module);
1495       return kFALSE;
1496    }
1497    return kTRUE;
1498 }
1499
1500
1501
1502 //______________________________________________________________________________
1503 Bool_t LoadSource(const char *source, const char *mode, Bool_t rec=kFALSE)
1504 {
1505 // Load a module library in a given mode. Reports success.
1506    Int_t imode = -1;
1507    Int_t result = -1;
1508    if (!strcmp(mode, "LOCAL")) imode = 0;
1509    if (!strcmp(mode, "PROOF")) imode = 1;
1510    if (!strcmp(mode, "GRID"))  imode = 2;
1511    TString ssource(source);
1512    TString basename = gSystem->BaseName(ssource.Data());
1513    if (!ssource.Length()) {
1514       ::Error("AnalysisTrainPWG4Jets.C::LoadSource", "Empty task name");
1515       return kFALSE;
1516    }
1517    // we have a source code so compile it
1518    if (ssource.EndsWith(".cxx")) {
1519      // need to copy it here other wise the path is also used on grid...
1520      ssource.Remove(ssource.Index(".cxx"));
1521      basename.Remove(basename.Index(".cxx"));
1522      Printf("LoadSources:: Copying...  path %s{cxx,h}",ssource.Data());
1523      gSystem->Exec(Form("cp %s.cxx . ",ssource.Data()));
1524      gSystem->Exec(Form("cp %s.h . ",ssource.Data()));
1525      // Path to code
1526      // only needed for local compilation, in grid and proof mode
1527      // the task headers are uploaded
1528      //     path.Remove(path.Index(gSystem->BaseName(path.Data())));
1529      // Printf("LoadSources:: Including path %s",path.Data());
1530      //  if(path.Length()>0)gROOT->ProcessLine(Form(".include %s",path.Data()));
1531      Printf("LoadSources:: Loading...  path %s",basename.Data());
1532      switch (imode) {
1533      case 0:
1534        result = gROOT->LoadMacro(Form("%s.cxx++g",basename.Data()));
1535        break;
1536      case 1:
1537        result = gProof->LoadMacro(Form("%s.cxx++g",basename.Data()));
1538        break;
1539      case 2:
1540        result = gROOT->LoadMacro(Form("%s.cxx++g",basename.Data()));
1541        if (rec){
1542          // what we want to compile
1543          anaSources += Form("%s.cxx ",basename.Data());
1544          // what we need as input...
1545          anaLibs += Form("%s.cxx %s.h ",basename.Data(),basename.Data());
1546        }
1547        break;
1548      default:
1549        return kFALSE;
1550      }
1551    }
1552    if (result < 0) {
1553       ::Error("AnalysisTrainPWG4Jets.C::LoadSources", "Could not load source %s", source);
1554       return kFALSE;
1555    }
1556    return kTRUE;
1557 }
1558
1559
1560 //______________________________________________________________________________
1561 TChain *CreateChain(const char *mode, const char *plugin_mode)
1562 {
1563 // Create the input chain
1564    Int_t imode = -1;
1565    if (!strcmp(mode, "LOCAL")) imode = 0;
1566    if (!strcmp(mode, "PROOF")) imode = 1;
1567    if (!strcmp(mode, "GRID"))  imode = 2;
1568    TChain *chain = NULL;
1569    // Local chain
1570    switch (imode) {
1571       case 0:
1572          if (iAODanalysis) {
1573             if (!kLocalXMLDataset.Length()) {
1574                // Local AOD
1575                chain = new TChain("aodTree");
1576                TString line;
1577                ifstream in;
1578                in.open(kLocalDataList.Data());
1579                while (in.good()) {
1580                  in >> line;
1581                  if (line.Length() == 0) continue;
1582                  // cout << " line = " << line << endl;
1583                  chain->Add(line.Data());
1584                }
1585             } else {
1586                // Interactive AOD
1587                chain = CreateChainSingle(kLocalXMLDataset, "aodTree");
1588             }
1589          } else {
1590            if (!kLocalXMLDataset.Length()) {
1591              // Local ESD
1592              chain = new TChain("esdTree");
1593              TString line;
1594              ifstream in;
1595              in.open(kLocalDataList.Data());
1596              while (in.good()) {
1597                in >> line;
1598                if (line.Length() == 0) continue;
1599                cout << " line = " << line << endl;
1600                chain->Add(line.Data());
1601              }
1602            } else {
1603              // Interactive ESD
1604                chain = CreateChainSingle(kLocalXMLDataset, "esdTree");
1605            }
1606          }
1607          break;
1608       case 1:
1609          break;
1610       case 2:
1611          if (kPluginUse) {
1612 //            AliAnalysisGrid *alienHandler = CreateAlienHandler(plugin_mode);
1613 //            AliAnalysisManager::GetAnalysisManager()->SetGridHandler(alienHandler);
1614          } else {
1615             TString           treeName = "esdTree";
1616             if (iAODanalysis) treeName = "aodTree";
1617             chain = CreateChainSingle("wn.xml", treeName);
1618          }
1619          break;
1620       default:
1621    }
1622    if (chain && chain->GetNtrees()) return chain;
1623    return NULL;
1624 }
1625
1626 //______________________________________________________________________________
1627 TChain* CreateChainSingle(const char* xmlfile, const char *treeName)
1628 {
1629    printf("*******************************\n");
1630    printf("*** Getting the ESD Chain   ***\n");
1631    printf("*******************************\n");
1632    TAlienCollection * myCollection  = TAlienCollection::Open(xmlfile);
1633
1634    if (!myCollection) {
1635       ::Error("AnalysisTrainPWG4Jets.C::CreateChainSingle", "Cannot create an AliEn collection from %s", xmlfile) ;
1636       return NULL ;
1637    }
1638
1639    TChain* chain = new TChain(treeName);
1640    myCollection->Reset() ;
1641    while ( myCollection->Next() ) chain->Add(myCollection->GetTURL("")) ;
1642    chain->ls();
1643    return chain;
1644 }
1645
1646 //______________________________________________________________________________
1647 Int_t SetupPar(char* pararchivename)
1648 {
1649    if (!pararchivename || !strlen(pararchivename)) return -1;
1650    char processline[1024];
1651    if (gSystem->AccessPathName(Form("%s.par", pararchivename))) {
1652       if (!gSystem->AccessPathName(Form("%s/%s.par", gSystem->Getenv("ALICE_ROOT"),pararchivename))) {
1653          ::Info("AnalysisTrainPWG4Jets.C::SetupPar", "Getting %s.par from $ALICE_ROOT", pararchivename);
1654         TFile::Cp(gSystem->ExpandPathName(Form("$ALICE_ROOT/%s.par", pararchivename)),
1655                   Form("%s.par",pararchivename));
1656       } else {
1657          ::Error("AnalysisTrainPWG4Jets.C::SetupPar", "Cannot find %s.par", pararchivename);
1658          return -1;
1659       }
1660    }
1661    if (kPluginUse && kSaveTrain) gSystem->Exec(Form("ln -s ../%s.par %s",pararchivename, kTrainName.Data()));
1662    gSystem->Exec(Form("tar xvzf %s.par", pararchivename));
1663
1664    TString ocwd = gSystem->WorkingDirectory();
1665    if (!gSystem->ChangeDirectory(pararchivename)) return -1;
1666
1667    // check for BUILD.sh and execute
1668    if (!gSystem->AccessPathName("PROOF-INF/BUILD.sh")) {
1669       printf("*******************************\n");
1670       printf("*** Building PAR archive    ***\n");
1671       printf("*******************************\n");
1672       if (gSystem->Exec("PROOF-INF/BUILD.sh")) {
1673          Error("runProcess","Cannot Build the PAR Archive! - Abort!");
1674          return -1;
1675       }
1676    }
1677
1678         // check for SETUP.C and execute
1679         if (!gSystem->AccessPathName("PROOF-INF/SETUP.C")) {
1680             printf("*******************************\n");
1681             printf("*** Setup PAR archive       ***\n");
1682             printf("*******************************\n");
1683             gROOT->Macro("PROOF-INF/SETUP.C");
1684         }
1685         if (!gSystem->ChangeDirectory(ocwd.Data())) return -1;
1686    return 0;
1687 }
1688
1689 //______________________________________________________________________________
1690 AliAnalysisAlien* CreateAlienHandler(const char *plugin_mode)
1691 {
1692 // Check if user has a valid token, otherwise make one. This has limitations.
1693 // One can always follow the standard procedure of calling alien-token-init then
1694 //   source /tmp/gclient_env_$UID in the current shell.
1695 //   if (!AliAnalysisGrid::CreateToken()) return NULL;
1696    AliAnalysisAlien *plugin = new AliAnalysisAlien();
1697 // Set the run mode (can be "full", "test", "offline", "submit" or "terminate")
1698    plugin->SetRunMode(plugin_mode);
1699    if (kPluginUseProductionMode) plugin->SetProductionMode();
1700    plugin->SetJobTag(kJobTag);
1701    plugin->SetNtestFiles(2);
1702 //   plugin->SetPreferedSE("ALICE::NIHAM::File");
1703 // Set versions of used packages
1704    plugin->SetAPIVersion("V1.1x");
1705    //   plugin->SetAPIVersion("V1.0x");
1706 //   plugin->SetAPIVersion("V2.4");
1707    plugin->SetROOTVersion(kPluginRootVersion);
1708    plugin->SetAliROOTVersion(kPluginAliRootVersion);
1709 // Declare input data to be processed.
1710 // Method 1: Create automatically XML collections using alien 'find' command.
1711 // Define production directory LFN
1712    plugin->SetGridDataDir(kGridDatadir.Data());
1713 // Set data search pattern
1714    if (iAODanalysis) plugin->SetDataPattern(" *AliAOD.root");
1715    //   else              plugin->SetDataPattern(Form(" %s/*/*ESD.tag.root",kGridPassPattern.Data()));
1716    else              plugin->SetDataPattern(Form(" %s/*/*AliESDs.root",kGridPassPattern.Data()));
1717 // ...then add run numbers to be considered
1718 //   plugin->SetRunRange(kGridRunRange[0], kGridRunRange[1]);
1719    for (Int_t i=kGridRunRange[0]; i<=kGridRunRange[1]; i++) {
1720      Printf("AnalysisTrainPWG4Jets Adding run number %s", Form(kGridRunPattern.Data(),i));
1721      plugin->AddRunNumber(Form(kGridRunPattern.Data(),i));
1722    }
1723
1724    if(kGridLocalRunList.Length()>0){
1725      ifstream in1;
1726      in1.open(kGridLocalRunList.Data());
1727      int iRun;
1728      int icount = 0;
1729      /*
1730      char c;
1731      char cLine[250];
1732      while(!in1.eof()){
1733        c = in1.get();
1734        if ( (c >= '0') && (c <= '9') )
1735          {
1736            in1.putback (c);
1737            in1>>iRun;
1738            Printf("AnalysisTrainPWG4Jets Adding run number from File %s", Form(kGridRunPattern.Data(),iRun));
1739            plugin->AddRunNumber(Form(kGridRunPattern.Data(),iRun));
1740        }
1741      else
1742        {
1743          in1.putback (c);
1744          in1.getline(cLine,250);
1745
1746        }
1747      }
1748      */
1749
1750      Int_t nRun = 0;
1751
1752      // just use run numbers, negatives will be excluded
1753      while(in1>>iRun){
1754        if(iRun>=0){
1755          if(iRun>=0&&nRun>=kGridOffsetRunFromList&&(nRun<kGridMaxRunsFromList)){
1756            Printf("AnalysisTrainPWG4Jets Adding run number from File %s", Form(kGridRunPattern.Data(),iRun));
1757            plugin->AddRunNumber(Form(kGridRunPattern.Data(),iRun));
1758
1759          }
1760          else{
1761            Printf("AnalysisTrainPWG4Jets Skipping run number from File %d", iRun);
1762          }
1763          nRun++;
1764        }
1765        else{
1766          Printf("AnalysisTrainPWG4Jets Skipping run number from File %d", iRun);
1767        }
1768      }
1769    }
1770
1771 // Method 2: Declare existing data files (raw collections, xml collections, root file)
1772 // If no path mentioned data is supposed to be in the work directory (see SetGridWorkingDir())
1773 // XML collections added via this method can be combined with the first method if
1774 // the content is compatible (using or not tags)
1775 //   plugin->AddDataFile("tag.xml");
1776 //   plugin->AddDataFile("/alice/data/2008/LHC08c/000057657/raw/Run57657.Merged.RAW.tag.root");
1777 // Define alien work directory where all files will be copied. Relative to alien $HOME.
1778    TString alien_workdir = "";
1779
1780    if (iAODanalysis)  alien_workdir += "analysisAOD";
1781    else               alien_workdir += "analysisESD";
1782    if(kGridDataSet.Length()>0)alien_workdir += Form("/%s",kGridDataSet.Data());
1783    plugin->SetGridWorkingDir(alien_workdir.Data());
1784
1785    // Declare alien output directory. Relative to working directory.
1786    if (!kGridOutdir.Length()) kGridOutdir = Form("output_%s",kTrainName.Data());
1787    plugin->SetGridOutputDir(kGridOutdir);
1788
1789    // Add external packages
1790    if (iJETAN||iDIJETAN) {
1791       plugin->AddExternalPackage("boost::v1_43_0");
1792       plugin->AddExternalPackage("cgal::v3.6");
1793       plugin->AddExternalPackage("fastjet::v2.4.2");
1794    }
1795
1796
1797    // set extra libs before par file compilation
1798    anaLibs += kGridExtraFiles;
1799    anaLibs     = anaLibs.Strip();
1800    Printf("anaLibs %s",anaLibs.Data());
1801    Printf("anaLibsExtra %s",anaLibsExtra.Data());
1802
1803    if (anaLibs.Length())          plugin->SetAdditionalLibs(anaLibs.Data());
1804    if (anaLibsExtra.Length())     plugin->SetAdditionalRootLibs(anaLibsExtra.Data());
1805
1806    TString ana_sources = "";
1807    TString ana_add = "";
1808    if (kUsePAR && anaPars.Length()) {
1809       printf("%s\n", anaPars.Data());
1810       TObjArray *arr;
1811       TObjString *objstr;
1812       arr = anaPars.Tokenize(" ");
1813       TIter next(arr);
1814       while ((objstr=(TObjString*)next())) plugin->EnablePackage(objstr->GetString());
1815       delete arr;
1816    }
1817
1818 // Declare the analysis source files names separated by blancs. To be compiled runtime
1819 // using ACLiC on the worker nodes.
1820    ana_sources = anaSources.Strip();
1821 // Declare all libraries (other than the default ones for the framework. These will be
1822 // loaded by the generated analysis macro. Add all extra files (task .cxx/.h) here.
1823
1824    if (ana_sources.Length()) plugin->SetAnalysisSource(ana_sources);
1825    plugin->SetExecutableCommand(kPluginExecutableCommand.Data());
1826    // Declare the output file names separated by blancs.
1827    // (can be like: file.root or file.root@ALICE::Niham::File)
1828    plugin->SetMergeExcludes(kGridMergeExclude);
1829    plugin->SetMaxMergeFiles(kGridMaxMergeFiles);
1830    plugin->SetNrunsPerMaster(kGridRunsPerMaster);
1831    plugin->SetMergeViaJDL(kPluginMergeViaJDL);
1832    // Use fastread option
1833    plugin->SetFastReadOption(kPluginFastReadOption);
1834    // UseOverwrite mode
1835    plugin->SetOverwriteMode(kPluginOverwriteMode);
1836    // Optionally define the files to be archived.
1837    //   plugin->SetOutputArchive("log_archive.zip:stdout,stderr@ALICE::NIHAM::File root_archive.zip:AliAOD.root,AOD.tag.root@ALICE::NIHAM::File");
1838    plugin->SetOutputToRunNo(kPluginOutputToRunNumber);     // write the output to subdirs named after run number
1839
1840    // Put default output files to archive
1841    TString listhists = "";
1842    TString listaods  = "";
1843    AliAnalysisManager *mgr = AliAnalysisManager::GetAnalysisManager();
1844    TIter next(mgr->GetOutputs());
1845    AliAnalysisDataContainer *output;
1846    while ((output=(AliAnalysisDataContainer*)next())) {
1847       const char *filename = output->GetFileName();
1848       if (!(strcmp(filename, "default"))) {
1849         if (!mgr->GetOutputEventHandler()) continue;
1850          filename = mgr->GetOutputEventHandler()->GetOutputFileName();
1851          if (listaods.Length()) listaods += " ";
1852          listaods += filename;
1853       } else {
1854         if(!listhists.Contains(filename)){
1855           if (listhists.Length()) listhists += " ";
1856           listhists += filename;
1857         }
1858       }
1859    }
1860
1861    if (mgr->GetExtraFiles().Length()) {
1862      if (listaods.Length()) listaods += " ";
1863      listaods += mgr->GetExtraFiles();
1864    }
1865
1866    // if we do not fill the aod we do not need to store it
1867    //   kGridMergeExclude = listaods;
1868
1869    if(kSaveAOD>=0){
1870      TString outputFiles =  "";
1871      outputFiles += mgr->GetExtraFiles();
1872      if (listhists.Length()) outputFiles += " ";
1873      outputFiles += listhists;
1874      plugin->SetDefaultOutputs(kFALSE);
1875      Printf("%s:%d Starting with the files %s",(char*)__FILE__,__LINE__,outputFiles.Data());
1876      // remove
1877      // no harm done when we try to remove something that is not there :)
1878      if(!(kSaveAOD&(1<<0))){
1879        outputFiles.ReplaceAll("AliAOD.root ","");
1880        listaods.ReplaceAll("AliAOD.root ","");
1881      }
1882      if(!(kSaveAOD&(1<<1))){
1883        if(kDeltaAODJetName.Length())outputFiles.ReplaceAll(kDeltaAODJetName.Data(),"");
1884        if(kDeltaAODJetName.Length())listaods.ReplaceAll(kDeltaAODJetName.Data(),"");
1885
1886      }
1887      if(!(kSaveAOD&(1<<2))){
1888        if(kDeltaAODPartCorrName.Length())outputFiles.ReplaceAll(kDeltaAODPartCorrName.Data(),"");
1889        if(kDeltaAODPartCorrName.Length())listaods.ReplaceAll(kDeltaAODPartCorrName.Data(),"");
1890      }
1891      if(!(kSaveAOD&(1<<3))){
1892        if(kDeltaAODJCORRANName.Length())outputFiles.ReplaceAll(kDeltaAODJCORRANName.Data(),"");
1893        if(kDeltaAODJCORRANName.Length())listaods.ReplaceAll(kDeltaAODJCORRANName.Data(),"");
1894      }
1895
1896      //
1897      plugin->SetDefaultOutputs(kFALSE);
1898      Printf("%s:%d Saving the files %s",(char*)__FILE__,__LINE__,outputFiles.Data());
1899      plugin->SetOutputFiles(outputFiles.Data());
1900    }
1901
1902    TString outputArchive;
1903    outputArchive = Form("log_archive.zip:std*@%s","disk=1");
1904    listaods.ReplaceAll(" ", ",");
1905    listhists.ReplaceAll(" ", ",");
1906    if (listhists.Length()){
1907      outputArchive += " ";
1908      outputArchive += "root_archive.zip:";
1909      outputArchive += listhists;
1910      if (listaods.Length()){
1911        outputArchive += ",";
1912        outputArchive += listaods;
1913      }
1914      outputArchive += Form("@%s", kGridOutputStorages.Data());
1915    }
1916    else{
1917
1918      if (listaods.Length()){
1919        // we have only aod'ish output
1920        outputArchive += " ";
1921        outputArchive += "root_archive.zip:";
1922        outputArchive += listaods;
1923        outputArchive += Form("@%s", kGridOutputStorages.Data());
1924      }
1925      else{
1926        // no other outputs than std..
1927       ::Fatal("AnalysisTrainPWG4Jets", "No task output !");
1928      }
1929    }
1930
1931    plugin->SetDefaultOutputs(kFALSE);
1932    plugin->SetOutputArchive(outputArchive);
1933
1934
1935    // Optionally set a name for the generated analysis macro (default MyAnalysis.C)
1936    plugin->SetAnalysisMacro(Form("%s.C", kTrainName.Data()));
1937    // Optionally set maximum number of input files/subjob (default 100, put 0 to ignore)
1938    plugin->SetSplitMaxInputFileNumber(kGridFilesPerJob);
1939    // Optionally set number of failed jobs that will trigger killing waiting sub-jobs.
1940    //   plugin->SetMaxInitFailed(5);
1941    // Optionally resubmit threshold.
1942    // plugin->SetMasterResubmitThreshold(90);
1943    // Optionally set time to live (default 30000 sec)
1944    plugin->SetTTL(54000); // 15h...
1945    // Optionally set input format (default xml-single)
1946    plugin->SetInputFormat("xml-single");
1947    // Optionally modify the name of the generated JDL (default analysis.jdl)
1948    plugin->SetJDLName(Form("%s.jdl", kTrainName.Data()));
1949    // Optionally modify the executable name (default analysis.sh)
1950    plugin->SetExecutable(Form("%s.sh", kTrainName.Data()));
1951    // Optionally modify job price (default 1)
1952    plugin->SetPrice(1);
1953    // Optionally modify split mode (default 'se')
1954    plugin->SetSplitMode("se");
1955    return plugin;
1956 }
1957
1958 //______________________________________________________________________________
1959 void WriteConfig()
1960 {
1961 // Write train configuration in a file. The file name has the format:
1962 // train_[trainName]_ddMonthyyyy_time.C
1963    if (kUseDate) {
1964       gSystem->Exec("date +%d%b%Y_%Hh%M > date.tmp");
1965       ifstream fdate("date.tmp");
1966       if (!fdate.is_open()) {
1967          ::Error("AnalysisTrainPWG4Jets.C::Export","Could not generate file name");
1968          return;
1969       }
1970       const char date[64];
1971       fdate.getline(date,64);
1972       fdate.close();
1973       gSystem->Exec("rm date.tmp");
1974       kTrainName = Form("train_%s_%s", kTrainName.Data(), date);
1975    } else {
1976       kTrainName = Form("train_%s", kTrainName.Data());
1977    }
1978    TString cdir = gSystem->WorkingDirectory();
1979    gSystem->MakeDirectory(kTrainName);
1980    gSystem->ChangeDirectory(kTrainName);
1981    ofstream out;
1982    out.open(Form("%sConfig.C",kTrainName.Data()), ios::out);
1983    if (out.bad()) {
1984       ::Error("AnalysisTrainPWG4Jets.C::Export", "Cannot open ConfigTrain.C for writing");
1985       return;
1986    }
1987    out << "{" << endl;
1988    out << "   kTrainName      = " << "\"" << kTrainName.Data() << "\";" << endl;
1989    out << "   kProofCluster   = " << "\"" << kProofCluster.Data() << "\";" << endl;
1990    out << "   kProofUseAFPAR        = " << kProofUseAFPAR << ";" << endl;
1991    if (kProofUseAFPAR)
1992       out << "   kProofAFversion       = " << kProofAFversion.Data() << ";" << endl;
1993    out << "   kProofDataSet   = " << "\"" << kProofDataSet.Data() << "\";" << endl;
1994    out << "   kPluginUse       = " << kPluginUse << ";" << endl;
1995    out << "   kUsePAR          = " << kUsePAR << ";" << endl;
1996    out << "   kUseCPAR         = " << kUseCPAR << ";" << endl;
1997    out << "   kPluginRootVersion    = " << "\"" << kPluginRootVersion.Data() << "\";" << endl;
1998    out << "   kPluginAliRootVersion = " << "\"" << kPluginAliRootVersion.Data() << "\";" << endl;
1999    out << "   kGridDatadir   = " << "\"" << kGridDatadir.Data() << "\";" << endl;
2000    if (!kGridOutdir.Length()) kGridOutdir = Form("output_%s",kTrainName.Data());
2001    out << "   kGridOutdir    = " << "\"" << kGridOutdir.Data() << "\";" << endl;
2002    out << "   kGridMaxMergeFiles   = " << kGridMaxMergeFiles << ";" << endl;
2003    out << "   kGridMergeExclude    = " << "\"" << kGridMergeExclude.Data() << "\";" << endl;
2004    out << "   kGridRunsPerMaster  = " << kGridRunsPerMaster << ";" << endl;
2005    out << "   kGridFilesPerJob    = " << kGridFilesPerJob << ";" << endl;
2006    out << "   kGridRunRange[0]    = " << kGridRunRange[0] << ";" << endl;
2007    out << "   kGridRunRange[1]    = " << kGridRunRange[1] << ";" << endl;
2008    out << "   kUseDebug          = " << kUseDebug << ";" << endl;
2009    out << "   kUseMC           = " << kUseMC << ";" << endl;
2010    out << "   kUseESDTags         = " << kUseESDTags << ";" << endl;
2011    out << "   kUseKinefilter      = " << kUseKinefilter << ";" << endl;
2012    out << "   kUseTR           = " << kUseTR << ";" << endl;
2013    out << "   kUseAODTags      = " << kUseAODTags << ";" << endl;
2014    out << "   kSaveTrain       = " << "kFALSE;" << endl << endl;
2015    out << "   // Analysis modules" << endl;
2016    out << "   iAODanalysis    = " << iAODanalysis << ";" << endl;
2017    out << "   iAODhandler     = " << iAODhandler << ";" << endl;
2018    out << "   iESDfilter      = " << iESDfilter << ";" << endl;
2019    out << "   iJETAN          = " << iJETAN << ";" << endl;
2020    out << "// Configuration fot the wagons" << endl;
2021    out << "}" << endl;
2022    ::Info("AnalysisTrainPWG4Jets.C::WriteConfig", "Train configuration wrote to file %s", Form("config_%s.C", kTrainName.Data()));
2023    gSystem->ChangeDirectory(cdir);
2024 }
2025
2026 //______________________________________________________________________________
2027 Bool_t LoadConfig(const char *filename)
2028 {
2029 // Read train configuration from file
2030    if (gSystem->AccessPathName(filename)) {
2031       ::Error("AnalysisTrainPWG4Jets.C::LoadConfig", "Config file name not found");
2032       return kFALSE;
2033    }
2034    gROOT->ProcessLine(Form(".x %s", filename));
2035    ::Info("AnalysisTrainPWG4Jets.C::LoadConfig", "Train configuration loaded from file %s", filename);
2036    return kTRUE;
2037 }
2038
2039 Bool_t PatchJDL(){
2040   Printf(">>> Patching JDL");
2041   AliAnalysisManager *mgr = AliAnalysisManager::GetAnalysisManager();
2042   AliAnalysisAlien*    gridHandler = (AliAnalysisAlien*)mgr->GetGridHandler();
2043   TGridJDL *jdl = gridHandler->GetGridJDL();
2044   if(iJETAN)jdl->AddToPackages("fastjet","v2.4.0");
2045   gridHandler->WriteJDL(kFALSE);
2046   Printf("<<<  Patching JDL");
2047   return kTRUE;
2048 }
2049
2050 Bool_t PatchAnalysisMacro(){
2051   Printf(">>> Patching AnalysisMacro");
2052   gSystem->Exec(Form("mv %s.C %s.C_tmp",kTrainName.Data(),kTrainName.Data()));
2053
2054   ifstream in1;
2055   in1.open(Form("%s.C_tmp", kTrainName.Data()));
2056   char cLine[250];
2057   TString st;
2058   while(in1.getline(cLine,250)){
2059     st += cLine;
2060     st += "\n";
2061   }
2062   Int_t index= -1;
2063   index = st.Index("gSystem->Load(\"libPhysics\");");
2064   index += strlen("gSystem->Load(\"libPhysics\");");
2065   /*
2066     TObjArray *arr;
2067     TObjString *objstr;
2068     arr = anaLibs.Tokenize(" ");
2069     TIter next(arr);
2070
2071     add += "\n\n // added by CKB \n";
2072     while ((objstr=(TObjString*)next())){
2073       if(objstr->GetString().Contains("PWG3"))continue;
2074       if(objstr->GetString().EndsWith(".so"))add += Form("gSystem->Load(\"%s\");\n",objstr->GetString().Data());
2075     }
2076     delete arr;
2077     */
2078     //    add += Form("AliLog::SetGlobalLogLevel(%d);\n",AliLog::GetGlobalLogLevel());
2079   TString add = "";
2080
2081   if(index<0)Printf("%s:%d index out of bounds",(char*)__FILE__,__LINE__);
2082   add += "\n\n // added by CKB \n";
2083   if(kErrorIgnoreLevel>0)add += Form("gErrorIgnoreLevel = %d;\n",kErrorIgnoreLevel);
2084   add += "\n gSystem->AddIncludePath(\"./\"); \n";
2085   add += "\n gSystem->SetFPEMask(); \n";
2086
2087
2088   if(gGrid&&kPluginAliRootVersion.Length()==0){
2089     add += "\n // Dirty hack for TRD reference data \n";
2090     add += "\n gSystem->Setenv(\"ALICE_ROOT\",\"";
2091     add += Form("alien://%s/rootfiles/",gGrid->GetHomeDirectory());
2092     add += "\"); \n";
2093   }
2094   add += "// BKC \n\n";
2095   st.Insert(index,add.Data());
2096
2097   if(kUseDebug){
2098     //    st.Insert(index,"\n gROOT->ProcessLine(\".trace\"); // CKB \n");
2099   }
2100
2101   if(kUseCPAR&&kPluginAliRootVersion.Length()==0){
2102     index = st.Index("gSystem->AddIncludePath(\"-I$"); // uncommen $ALICE_ROOT include for par files
2103     if(index<0)Printf("%s:%d index out of bounds",(char*)__FILE__,__LINE__);
2104     st.Insert(index,"// CKB comment out whehn no aliroot is provided \n //");
2105   }
2106
2107   if(AliLog::GetGlobalLogLevel()==AliLog::kFatal){
2108     index = st.Index("AliLog::SetGlobal"); // ncomment setting of log level, do my own
2109     if(index<0)Printf("%s:%d index out of bounds",(char*)__FILE__,__LINE__);
2110     st.Insert(index,"AliLog::SetGlobalLogLevel(AliLog::kFatal);// CKB \n  // CKB comment out for own setting \n  //");
2111   }
2112
2113   ofstream out;
2114   out.open(Form("%s.C", kTrainName.Data()));
2115   if (out.bad()) {
2116     return kFALSE;
2117   }
2118   out << st << endl;
2119   Printf("<<< Patching AnalysisMacro");
2120
2121
2122
2123
2124
2125   Printf(">>> Patching Merge Macro");
2126   gSystem->Exec(Form("mv %s_merge.C %s_merge.C_tmp",kTrainName.Data(),kTrainName.Data()));
2127
2128   ifstream in2;
2129   in2.open(Form("%s_merge.C_tmp", kTrainName.Data()));
2130   TString st2;
2131   while(in2.getline(cLine,250)){
2132     st2 += cLine;
2133     st2 += "\n";
2134   }
2135   index = st2.Index("gSystem->Load(\"libPhysics\");");
2136   index += strlen("gSystem->Load(\"libPhysics\");");
2137   TString add2 = "";
2138   add2 += "\n gSystem->AddIncludePath(\"./\"); \n";
2139   if(gGrid&&kPluginAliRootVersion.Length()==0){
2140     add2 += "\n // Dirty hack for TRD reference data \n";
2141     add2 += "\n gSystem->Setenv(\"ALICE_ROOT\",\"";
2142     add2 += Form("alien://%s/rootfiles/",gGrid->GetHomeDirectory());
2143     add2 += "\"); \n";
2144   }
2145   add2 += "// BKC \n\n";
2146   if(index<0)Printf("%s:%d index out of bounds",(char*)__FILE__,__LINE__);
2147   st2.Insert(index,add.Data());
2148
2149
2150   if(kUseDebug){
2151     //    st2.Insert(index,"\n gROOT->ProcessLine(\".trace\"); // CKB \n");
2152   }
2153
2154   if(kUseCPAR&&kPluginAliRootVersion.Length()==0){
2155     index = st2.Index("gSystem->AddIncludePath(\"-I$"); // uncomment $ALICE_ROOT include for par files
2156     if(index<0)Printf("%s:%d index out of bounds",(char*)__FILE__,__LINE__);
2157     st2.Insert(index,"// CKB comment out whehn no aliroot is provided \n //");
2158   }
2159
2160   // do not exclude the extra files from merign, this is done explicitly in this train script
2161   //  index = st2.Index("mergeExcludes +="); // uncommen $ALICE_ROOT include for par files
2162   //  if(index<0)Printf("%s:%d index out of bounds",(char*)__FILE__,__LINE__);
2163   // st2.Insert(index,"// CKB comment out, handled explicitly by the train macro \n //");
2164
2165
2166   ofstream out2;
2167   out2.open(Form("%s_merge.C", kTrainName.Data()));
2168   if (out2.bad()) {
2169     return kFALSE;
2170   }
2171   out2 << st2 << endl;
2172   Printf("<<< Patching Merging Macro");
2173
2174
2175
2176   return kTRUE;
2177
2178 }