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       iESDfilter         = 0;      // ESD to AOD filter (barrel + muon tracks)
  41 Int_t       iPhysicsSelection  = 1;      // ESD to AOD filter (barrel + muon tracks)
  42 Bool_t      kUseKinefilter     = kFALSE; // use Kinematics filter
  43 Bool_t      kUseMuonfilter     = kFALSE; // use Kinematics filter
  44 TString     kCommonOutputFileName = "PWG4_JetTasksOutput.root";
  45 TString     kCaloQAOutputFileName = "PWG4_CaloQAOutput.root";
  46
  47
  48 //== general process variables
  49
  50 // ### Other flags to steer the analysis
  51 //==============================================================================
  52 Bool_t      kSkipTerminate      = kTRUE; // Do not call Teminate
  53 Bool_t      kUseDate            = kFALSE; // use date in train name
  54 Bool_t      kUseDebug           = kTRUE; // activate debugging
  55 Int_t         kErrorIgnoreLevel = -1; // takes the errror print level from .rootrc
  56 // From TError.h:
  57 // const Int_t kUnset    =  -1;
  58 // const Int_t kPrint    =   0;
  59 // const Int_t kInfo     =   1000;
  60 // const Int_t kWarning  =   2000;
  61 // const Int_t kError    =   3000;
  62 // const Int_t kBreak    =   4000;
  63 // const Int_t kSysError =   5000;
  64 // const Int_t kFatal    =   6000;
  65 Int_t         kUseSysInfo         = 0; // activate debugging
  66 Long64_t kNumberOfEvents     = 1234567890; // number of events to process from the chain
  67 Bool_t      kUseMC              = kTRUE;  // use MC info
  68 Bool_t      kIsMC               = kTRUE;  // is MC info, if false it overwrites Use(AOD)MC
  69 Bool_t      kUseAODMC           = kTRUE;  // use MC infA
  70 Bool_t      kUseESDTags         = kFALSE; // use ESD tags for selection
  71 Bool_t      kUseTR              = kFALSE;  // use track references
  72 Bool_t      kUseAODTags         = kFALSE;  // use AOD tags
  73 Bool_t      kSaveTrain          = kFALSE;  // save train configuration as:
  74
  75
  76 // ### Analysis modules to be included. Some may not be yet fully implemented.
  77 //==============================================================================
  78 Int_t       iJETAN             = 1;      // Jet analysis (PWG4) // 1 write standard 2 write non-standard jets, 3 wrtie both
  79 Int_t       iDIJETAN           = 1;
  80 Int_t       iJETANLib          = 1;
  81 Int_t       iPWG1QASym         = 0;      // Eva's QA task compiled on the fly...
  82 Int_t       iPWG4JetTasks      = 0;      // all jet tasks flag for lib laoding
  83 Int_t       iPWG4JetServices   = 0;      // jet spectrum analysis
  84 Int_t       iPWG4JetSpectrum   = 0;      // jet spectrum analysis
  85 Int_t       iPWG4JCORRAN       = 0;      // JCORRAN module
  86 Int_t       iPWG4UE            = 0;      // Underlying Event analysis
  87 Int_t       iPWG4LeadingUE     = 0;      // Underlying Event analysis
  88 Int_t       iPWG4CorrectionsUE = 0;      // Underlying Event analysis
  89 Int_t       iPWG4TmpSourceSara = 0;      // Underlying Event analysis not in svn
  90 Int_t       iPWG4Fragmentation = 0;      // Official Fragmentation
  91 Int_t       iPWG4JetChem       = 0;      // Jet chemistry
  92 Int_t       iPWG4PtQAMC        = 0;      // Marta's QA tasks
  93 Int_t       iPWG4PtSpectra     = 0;      // Marta's QA tasks
  94 Int_t       iPWG4PtQATPC       = 0;      // Marta's QA tasks
  95 Int_t       iPWG4Cosmics     = 0;      // Marta's Cosmics Taks
  96 Int_t       iPWG4ThreeJets     = 0;      // Sona's thrust task
  97 Int_t       iPWG4KMeans        = 0;      // Andreas' KMeans task
  98 Int_t       iPWG4Cluster       = 0;      // CKB cluster task
  99 Int_t       iEMCUtilLibs       = 0;      // Flag to satisfy dependence on EMC utils
 100 Int_t       iPWG4PartCorrLibs  = 0;      // Gustavo's part corr analysis
 101 Int_t       iPWG4PartCorr      = 0;      // Gustavo's part corr analysis
 102 Int_t       iPWG4CaloQA        = 0;      // Gustavo's part corr analysis
 103 Int_t       iPWG4JetCorr       = 0;     // Paul's jet corr analysis
 104 Int_t       iPWG4Tagged        = 0;      // Gustavo's part corr analysis
 105 Int_t       iPWG4omega3pi      = 0;      // Omega to 3 pi analysis (PWG4)
 106 Int_t       iPWG4GammaConvLib     = 0;      // Gamma Conversio
 107 Int_t       iPWG4GammaConv     = 0;      // Gamma Conversio
 108 Int_t       iPWG4CaloConv     = 0;      // Gamma Conversio
 109 Int_t       kHighPtFilterMask  = 16;     // change depending on the used AOD Filter
 110 TString     kDeltaAODJetName   = "AliAOD.Jets.root";
 111 TString     kDeltaAODJCORRANName   = "AliAOD.JCORRAN.root";
 112 TString     kDeltaAODPartCorrName   = "deltaAODPartCorr.root";
 113
 114
 115 //==============================================================================
 116 // ### PROOF Steering varibales
 117 //==============================================================================
 118 //== proof setup variables
 119 TString     kProofCluster      = "alicecaf.cern.ch";
 120 Bool_t      kProofUseAFPAR     = kFALSE;  // use AF special par file
 121 TString     kProofAFversion          = "AF-v4-17";
 122 //== proof input and output variables
 123 TString     kProofDataSet      = "/COMMON/COMMON/LHC09a4_run8100X#/esdTree";
 124 Bool_t      kProofSaveToAlien   = kFALSE; // save proof outputs in AliEn train_[trainName]_ddMonthyyyy_time.C
 125 TString     kProofOutdir       = "";
 126 Bool_t      kProofClearPackages = kFALSE;
 127 Int_t       kProofEvents = 10000;
 128 Int_t       kProofOffset = 0;
 129 //== proof process variables
 130
 131
 132 //==============================================================================
 133 // ### Grid plugin Steering varibiables
 134 //==============================================================================
 135 //== grid plugin setup variables
 136 Bool_t      kPluginUse         = kTRUE;   // do not change
 137 Bool_t      kPluginUseProductionMode  = kFALSE;   // use the plugin in production mode
 138 TString     kPluginRootVersion       = "v5-26-00b-6";  // *CHANGE ME IF MORE RECENT IN GRID*
 139 TString     kPluginAliRootVersion    = "v4-19-15-AN";  // *CHANGE ME IF MORE RECENT IN GRID*
 140 Bool_t      kPluginMergeViaJDL       = kTRUE;  // merge via JDL
 141 Bool_t      kPluginFastReadOption   = kFALSE;  // use xrootd tweaks
 142 Bool_t      kPluginOverwriteMode    = kTRUE;  // overwrite existing collections
 143 Int_t       kPluginOutputToRunNumber = 1;     // write the output to subdirs named after run number
 144 // TString kPluginExecutableCommand = "root -b -q";
 145 TString     kPluginExecutableCommand = "source /Users/kleinb/setup_32bit_aliroot_trunk_clean_root_trunk.sh; alienroot -b -q ";
 146
 147 // == grid plugin input and output variables
 148 TString     kGridDatadir      = "/alice/sim/PDC_08b/LHC09a1/AOD/";
 149 Int_t         kGridMaxRunsFromList = 999999999;
 150 TString     kGridLocalRunList = "";
 151 TString     kGridOutdir       = ""; // AliEn output directory. If blank will become output_<kTrainName>
 152 TString     kGridDataSet      = ""; // sub working directory not to confuse different run xmls
 153 Int_t         kGridRunRange[2]       =  {0, -1}; // Set the run range
 154 TString     kGridRunPattern        = "%03d"; // important for leading zeroes!!
 155 TString     kGridPassPattern       = "";
 156 TString     kGridExtraFiles        = ""; // files that will be added to the input list in the JDL...
 157 Int_t         kGridMaxMergeFiles      = 12; // Number of files merged in a chunk grid run range
 158 TString     kGridMergeExclude       = "AliAOD.root"; // Files that should not be merged
 159 TString     kGridOutputStorages      = "disk=2"; // Make replicas on the storages
 160 // == grid process variables
 161 Int_t       kGridRunsPerMaster     = 100; // Number of runs per master job
 162 Int_t       kGridFilesPerJob       = 100; // Maximum number of files per job (gives size of AOD)
 163
 164 //==============================================================================
 165 // ### Local Steering variables
 166 //==============================================================================
 167 //== local setup variables
 168 //== local input and output variables
 169 TString     kLocalXMLDataset   = ""; // Change local xml dataset for local interactive analysis
 170 TString     kLocalDataList   = "local_deltaaod.txt"; // Change local xml dataset for local interactive analysis
 171 // == local process variables
 172
 173
 174
 175 // Temporaries.
 176 TString anaPars = "";
 177 TString anaLibs = "";
 178 TString anaLibsExtra = "";
 179 TString anaSources = "";
 180 // Function signatures
 181 class AliAnalysisAlien;
 182
 183 //______________________________________________________________________________
 184 void AnalysisTrainPWG4Jets(const char *analysis_mode="local",
 185                            const char *plugin_mode="",
 186                            const char *config_file="",Int_t iOffset = 0)
 187 {
 188 // Main analysis train macro. If a configuration file is provided, all parameters
 189 // are taken from there but may be altered by CheckModuleFlags.
 190
 191    if (strlen(config_file) && !LoadConfig(config_file)) return;
 192
 193    if(iOffset)kProofOffset = iOffset;
 194    TString smode(analysis_mode);
 195    smode.ToUpper();
 196    if (kSaveTrain)WriteConfig();
 197    // Check compatibility of selected modules
 198    CheckModuleFlags(smode);
 199    //     gROOT->ProcessLine(".trace");
 200
 201    printf("==================================================================\n");
 202    printf("===========    RUNNING ANALYSIS TRAIN %s IN %s MODE   ==========\n", kTrainName.Data(),smode.Data());
 203    printf("==================================================================\n");
 204                               printf("=  Configuring analysis train for:                               =\n");
 205    if (iAODanalysis) printf("=  AOD analysis                                                  =\n");
 206    else                     printf("=  ESD analysis                                                  =\n");
 207    if (iPhysicsSelection)   printf("=  Physics selection                                                =\n");
 208    if (iESDfilter)   printf("=  ESD filter                                                    =\n");
 209    if (iJETAN)       printf("=  Jet analysis                                                  =\n");
 210    printf("==================================================================\n");
 211
 212    char *printMask = ":: %20s  %10d\n";
 213    printf(printMask,"Fill AOD",(UInt_t)kFillAOD);
 214    printf(printMask,"Save AOD", (UInt_t)kSaveAOD);
 215    printf(printMask,"MC truth", (UInt_t)kUseMC);
 216    printf(printMask,"KINE filter", (UInt_t)kUseKinefilter);
 217    printf(printMask,"track refs", (UInt_t)kUseTR);
 218    printf(printMask,"tags", (UInt_t)kUseESDTags);
 219    printf(printMask,"AOD tags", (UInt_t)kUseAODTags);
 220    printf(printMask,"debugging", (UInt_t)kUseDebug);
 221    printf(printMask,"PAR files", (UInt_t)kUsePAR);
 222    printf(printMask,"AliEn plugin", (UInt_t)kPluginUse);
 223    printf(printMask,"PWG1 QA sym", iPWG1QASym);
 224    printf(printMask,"PWG4 Source Sara",iPWG4TmpSourceSara);
 225    printf(printMask,"PWG4 Fragmentation",iPWG4Fragmentation);
 226    printf(printMask,"PWG4 Jet Chem",iPWG4JetChem);
 227    printf(printMask,"PWG4 Jet tasks",iPWG4JetTasks);
 228    printf(printMask,"PWG4 Jet Services",iPWG4JetServices);
 229    printf(printMask,"PWG4 Jet Spectrum",iPWG4JetSpectrum);
 230    printf(printMask,"PWG4 JCORRAN",iPWG4JCORRAN);
 231    printf(printMask,"PWG4 UE",iPWG4UE);
 232    printf(printMask,"PWG4 Leading UE",iPWG4LeadingUE);
 233    printf(printMask,"PWG4 Corrections UE",iPWG4CorrectionsUE);
 234    printf(printMask,"PWG4 Pt QA MC",iPWG4PtQAMC);
 235    printf(printMask,"PWG4 Pt Spectra",iPWG4PtSpectra);
 236    printf(printMask,"PWG4 Pt QA TPC",iPWG4PtQATPC);
 237    printf(printMask,"PWG4 Cosmics",iPWG4Cosmics);
 238    printf(printMask,"PWG4 Three Jets",iPWG4ThreeJets);
 239    printf(printMask,"PWG4 KMeans",iPWG4KMeans);
 240    printf(printMask,"PWG4 Cluster",iPWG4Cluster);
 241    printf(printMask,"PWG4 Part Corr",iPWG4PartCorr);
 242    printf(printMask,"PWG4 Calo QA",iPWG4CaloQA);
 243    printf(printMask,"PWG4 Jet Corr",iPWG4JetCorr);
 244    printf(printMask,"PWG4 JCORRAN",iPWG4JCORRAN);
 245    printf(printMask,"PWG4 Tagged",iPWG4Tagged);
 246    printf(printMask,"PWG4 omega to 3 pi ",iPWG4omega3pi);
 247    printf(printMask,"PWG4 Gamma Conv",iPWG4GammaConv);
 248    printf(printMask,"PWG4 Calo Conv",iPWG4CaloConv);
 249    printf(printMask,"HighPt FilterMask",kHighPtFilterMask);
 250
 251    //==========================================================================
 252    // Connect to back-end system
 253    if (!Connect(smode)) {
 254       ::Error("AnalysisTrain", "Could not connect to %s back-end", analysis_mode);
 255       return;
 256    }
 257
 258    // Load common libraries and set include path
 259    if (!LoadCommonLibraries(smode)) {
 260       ::Error("AnalysisTrain", "Could not load common libraries");
 261       return;
 262    }
 263
 264
 265
 266    // Make the analysis manager and connect event handlers
 267    AliAnalysisManager *mgr  = new AliAnalysisManager("PWG4Train", "pwg4 mini train");
 268    if (kCommonOutputFileName.Length()>0)mgr->SetCommonFileName(kCommonOutputFileName.Data());
 269    if (kProofSaveToAlien) mgr->SetSpecialOutputLocation(kProofOutdir);
 270    mgr->SetNSysInfo(0);
 271    if (!strcmp(plugin_mode, "test")) mgr->SetNSysInfo(1);
 272    if (kUseSysInfo)mgr->SetNSysInfo(kUseSysInfo);
 273    mgr->SetSkipTerminate(kSkipTerminate);
 274
 275    // Load analysis specific libraries
 276    if (!LoadAnalysisLibraries(smode)) {
 277       ::Error("AnalysisTrain", "Could not load analysis libraries");
 278      return;
 279    }
 280
 281    // Create input handler (input container created automatically)
 282    if (iAODanalysis) {
 283    // AOD input handler
 284       AliAODInputHandler *aodH = new AliAODInputHandler();
 285       mgr->SetInputEventHandler(aodH);
 286       if (iPWG4JetTasks) aodH->AddFriend(Form("deltas/%s",kDeltaAODJetName.Data()));
 287       if (iPWG4PartCorr) aodH->AddFriend(Form("deltas/%s"kDeltaAODJetName.Data()));
 288    } else {
 289    // ESD input handler
 290       AliESDInputHandler *esdHandler = new AliESDInputHandler();
 291       if (kUseESDTags) esdHandler->SetReadTags();
 292       esdHandler->SetReadFriends(kFALSE);
 293       mgr->SetInputEventHandler(esdHandler);
 294       //      if(iPWG4PtQATPC&& !kTrainName.Contains("pass5"))esdHandler->SetActiveBranches("ESDfriend");
 295
 296    }
 297
 298    // Monte Carlo handler
 299    if (kUseMC && !iAODanalysis) {
 300       AliMCEventHandler* mcHandler = new AliMCEventHandler();
 301       mgr->SetMCtruthEventHandler(mcHandler);
 302       mcHandler->SetReadTR(kUseTR);
 303    }
 304    // AOD output container, created automatically when setting an AOD handler
 305    if (iAODhandler) {
 306       // AOD output handler
 307       AliAODHandler* aodHandler   = new AliAODHandler();
 308       aodHandler->SetOutputFileName("AliAOD.root");
 309       aodHandler->SetFillAODforRun(kFillAOD);
 310
 311       mgr->SetOutputEventHandler(aodHandler);
 312       //
 313       if (iAODanalysis) {
 314
 315         //         aodHandler->SetCreateNonStandardAOD();
 316         //      if (iJETAN)aodHandler->SetOutputFileName(kDeltaAODJetName.Data());
 317       }
 318       AliAnalysisDataContainer * cout_aod = mgr->GetCommonOutputContainer();
 319       cout_aod->SetSpecialOutput();
 320    }
 321    // Debugging if needed
 322
 323    if (kUseDebug){
 324      mgr->SetDebugLevel(3);
 325    }
 326    if(kUseSysInfo>0){
 327      mgr->RegisterExtraFile("syswatch.root");
 328      if(kGridMergeExclude.Length())kGridMergeExclude += " ";
 329      kGridMergeExclude += "syswatch.root";
 330    }
 331    else{
 332      AliLog::SetGlobalLogLevel(AliLog::kError);
 333    }
 334
 335
 336    //==========================================================================
 337    // Create the chain. In this example it is created only from ALIEN files but
 338    // can be done to work in batch or grid mode as well.
 339    TChain *chain = CreateChain(smode, plugin_mode);
 340
 341    //==========================================================================
 342    // Load the tasks configuration macros for all wagons. These files are supposed now to be
 343    // in the current workdir, but in AliEn they will be in the file catalog,
 344    // mapped from AliRoot and pecified in the jdl input list.
 345
 346    // For now connection to top input container and common AOD output container
 347    // is done in this macro, but in future these containers will be connected
 348    // from each task configuration macro.
 349    if(iPhysicsSelection && !iAODanalysis){
 350      gROOT->LoadMacro("$ALICE_ROOT/ANALYSIS/macros/AddTaskPhysicsSelection.C");
 351      AliPhysicsSelectionTask* physSelTask = AddTaskPhysicsSelection(kIsMC,kTRUE,kTRUE); // last flag also adds information on
 352    }
 353
 354    if (iESDfilter && !iAODanalysis) {
 355       //  ESD filter task configuration.
 356       gROOT->LoadMacro("$ALICE_ROOT/PWG4/macros/AddTaskESDFilterPWG4Train.C");
 357       AliAnalysisTaskESDfilter *taskesdfilter = AddTaskESDFilter(kUseKinefilter,kUseMuonfilter);
 358       taskesdfilter->SetEnableFillAOD(kFALSE);
 359       if(kIsMC){
 360         mgr->RegisterExtraFile("pyxsec_hists.root");
 361         if(kGridMergeExclude.Length())kGridMergeExclude += " ";
 362         kGridMergeExclude += "pyxsec_hists.root";
 363
 364       }
 365    }
 366
 367    // AOD tags
 368    if (kUseAODTags) {
 369       AliAnalysisTaskTagCreator* tagTask = new AliAnalysisTaskTagCreator("AOD Tag Creator");
 370       mgr->AddTask(tagTask);
 371       AliAnalysisDataContainer *coutTags = mgr->CreateContainer("cTag",  TTree::Class(),
 372                                            AliAnalysisManager::kOutputContainer, "AOD.tag.root");
 373       mgr->ConnectInput (tagTask, 0, mgr->GetCommonInputContainer());
 374       mgr->ConnectOutput(tagTask, 1, coutTags);
 375    }
 376
 377     // Jet analysis
 378    if (iJETAN) {
 379       gROOT->LoadMacro("$ALICE_ROOT/PWG4/macros/AddTaskJets.C");
 380       AliAnalysisTaskJets *taskjets = 0;
 381       if(iJETAN&1)taskjets = AddTaskJets(kHighPtFilterMask);
 382       if(iJETAN&2){
 383         UInt_t selection = 0;
 384         if(!kFillAOD){
 385           selection = 0xffffff&~(1<<13)&~(1<<5)&~(1<<6); // switch OFF DA and all R = 0.7 to save processing time
 386           selection &= ~(1<<1)&~(1<<2)&~(1<<4)&~(1<<6)&~(1<<8)&~(1<<10)&~(1<<12);
 387         }
 388         else {
 389           selection = 0xffffff&~(1<<13)&~(1<<5)&~(1<<6); // switch OFF DA and all R = 0.7 to save processing time;
 390           selection &= ~(1<<1)&~(1<<2)&~(1<<4)&~(1<<6)&~(1<<8)&~(1<<10)&~(1<<12);
 391         }
 392         AddTaskJetsDelta(kDeltaAODJetName.Data(),kHighPtFilterMask,kUseAODMC,selection);
 393         AddTaskJets("AOD","FASTKT",0.2,kHighPtFilterMask);
 394       }
 395       if (!taskjets) ::Warning("AnalysisTrainPWG4Jets", "AliAnalysisTaskJets cannot run for this train conditions - EXCLUDED");
 396    }
 397
 398    if(iPWG4Cluster){
 399      gROOT->LoadMacro("$ALICE_ROOT/PWG4/macros/AddTaskJetCluster.C");
 400      AliAnalysisTaskJetCluster *taskCl = 0;
 401      if(iPWG4Cluster&1){
 402        taskCl = AddTaskJetCluster("AOD","",kHighPtFilterMask,iPhysicsSelection,"KT");
 403        if (!taskCl) ::Warning("AnalysisTrainPWG4Jets", "AliAnalysisTaskCluster cannot run for this train conditions - EXCLUDED");
 404      }
 405      if(iPWG4Cluster&2){
 406        UInt_t selection = 0;
 407        if(!iAODanalysis) selection = 0xffffff;
 408        else selection = 1<<0|1<<1|1<<2|1<<3|1<<4|1<<5|1<<7|1<<8|1<<9;
 409        selection&=~(1<<4); // exluded R = .04 already the dafault
 410        AddTaskJetClusterDelta(kHighPtFilterMask,kUseAODMC,iPhysicsSelection,"KT",selection);
 411      }
 412      if(iPWG4Cluster&4){
 413        UInt_t selection = 0;
 414        if(!iAODanalysis){
 415          selection = 0xffffff;
 416          selection &= ~(1<<1)&~(1<<3)&~(1<<5)&~(1<<7)&~(1<<9);
 417        }
 418        else selection = 1<<0|1<<1|1<<2|1<<3|1<<4|1<<5|1<<7|1<<8|1<<9;
 419        AddTaskJetClusterDelta(kHighPtFilterMask,kUseAODMC,iPhysicsSelection,"ANTIKT",selection);
 420        AddTaskJetCluster("AOD","",kHighPtFilterMask,iPhysicsSelection,"ANTIKT",0.4,1);
 421
 422      }
 423    }
 424
 425    if (iDIJETAN) {
 426       gROOT->LoadMacro("$ALICE_ROOT/PWG4/macros/AddTaskDiJets.C");
 427       AliAnalysisTaskDiJets *taskdijets = 0;
 428       if(iDIJETAN&1)taskdijets = AddTaskDiJets();
 429       if (!taskdijets) ::Warning("AnalysisTrainPWG4Jets", "AliAnalysisTaskJets cannot run for this train conditions - EXCLUDED");
 430       if(iDIJETAN&2){
 431         taskdijets = AddTaskDiJets("jetsAOD_CDF07");
 432         taskdijets = AddTaskDiJets("jetsAOD_DA07");
 433         taskdijets = AddTaskDiJets("jetsAOD_FASTJET07");
 434         taskdijets = AddTaskDiJets("jetsAOD_FASTKT07");
 435         taskdijets = AddTaskDiJets("jetsAOD_SISCONE07");
 436         taskdijets = AddTaskDiJets("jetsAOD_UA107");
 437       }
 438    }
 439
 440    if(iPWG1QASym){
 441      gROOT->LoadMacro("$ALICE_ROOT/PWG1/PilotTrain/AddTaskQAsym.C");
 442      AliAnalysisTaskQASym *taskQASym = AddTaskQAsym(-1);
 443      if (!taskQASym) ::Warning("AnalysisTrainPWG4Jets", "AliAnalysisTaskQASym cannot run for this train conditions - EXCLUDED");
 444    }
 445
 446
 447
 448    if(iPWG4TmpSourceSara){
 449      gROOT->LoadMacro("$ALICE_ROOT/PWG4/macros/AddTaskEta.C");
 450      AliAnalysisTaskEta *taskEta = AddTaskEta();
 451      if (!taskEta) ::Warning("AnalysisTrainPWG4Jets", "AliAnalysisTaskEta cannot run for this train conditions - EXCLUDED");
 452    }
 453
 454    if(iPWG4Fragmentation){
 455      gROOT->LoadMacro("$ALICE_ROOT/PWG4/macros/AddTaskFragmentationFunction.C");
 456        AliAnalysisTaskFragmentationFunction *taskFrag = 0;
 457      if(kUseAODMC){
 458        taskFrag = AddTaskFragmentationFunction(1<<1,kHighPtFilterMask);
 459        taskFrag = AddTaskFragmentationFunction(1<<2,kHighPtFilterMask);
 460        taskFrag = AddTaskFragmentationFunction(1<<3,kHighPtFilterMask);
 461      }
 462      else{
 463        taskFrag = AddTaskFragmentationFunction(1<<0,kHighPtFilterMask);
 464      }
 465
 466      if (!taskFrag) ::Warning("AnalysisTrainPWG4Jets", "AliAnalysisTaskFragmentationFunction cannot run for this train conditions - EXCLUDED");
 467    }
 468
 469
 470    if(iPWG4JetChem){
 471      gROOT->LoadMacro("$ALICE_ROOT/PWG4/macros/AddTaskJetChem.C");
 472      AliAnalysisTask *taskChem = AddTaskJetChem();
 473      if (!taskChem) ::Warning("AnalysisTrainPWG4Jets", "AliAnalysisTaskJetChem cannot run for this train conditions - EXCLUDED");
 474    }
 475
 476
 477    if(iPWG4JetServices){
 478      gROOT->LoadMacro("$ALICE_ROOT/PWG4/macros/AddTaskJetServices.C");
 479      AliAnalysisTaskJetServices *taskjetServ = 0;
 480      taskjetServ = AddTaskJetServices();
 481      if (!taskjetServ) ::Warning("AnalysisTrainPWG4Jets", "AliAnalysisTaskJetServices cannot run for this train conditions - EXCLUDED");
 482      if(kGridRunRange[0]>0)taskjetServ->SetRunRange(kGridRunRange[0],kGridRunRange[1]);
 483      else taskjetServ->SetRunRange(100000,150000);
 484      if(!kIsMC) taskjetServ->SetRealData(kTRUE);
 485      taskjetServ->SetUsePhysicsSelection((Bool_t)iPhysicsSelection);
 486      taskjetServ->SetDebugLevel(0);
 487    }
 488
 489    if(iPWG4JetSpectrum){
 490      gROOT->LoadMacro("$ALICE_ROOT/PWG4/macros/AddTaskJetSpectrum2.C");
 491      AliAnalysisTaskJetSpectrum2 *taskjetSpectrum = 0;
 492      if(iPWG4JetSpectrum&1){
 493        taskjetSpectrum = AddTaskJetSpectrum2("jets","","",kHighPtFilterMask,iPhysicsSelection);
 494        if(!iAODanalysis){
 495          //      taskjetSpectrum = AddTaskJetSpectrum2("jets","tracks32",32,iPhysicsSelection);       // tmp hack to give it a different name
 496          //      taskjetSpectrum = AddTaskJetSpectrum2("jets","64",64,iPhysicsSelection);
 497
 498          taskjetSpectrum = AddTaskJetSpectrum2("jetsAOD_FASTJET04","clustersAOD_ANTIKT04","",kHighPtFilterMask,iPhysicsSelection);
 499
 500          if(kIsMC){
 501
 502            UInt_t eventSelection =  AliAnalysisHelperJetTasks::kIsPileUp|AliAnalysisHelperJetTasks::kVertexIn;
 503            if(iPhysicsSelection)eventSelection |=  AliAnalysisHelperJetTasks::kPhysicsSelection;
 504            taskjetSpectrum = AddTaskJetSpectrum2("jetsAOD_FASTJET04","jetsAODMC_FASTJET04","",kHighPtFilterMask,iPhysicsSelection,eventSelection);
 505            taskjetSpectrum = AddTaskJetSpectrum2("jetsAOD_FASTJET04","jetsAODMC2_FASTJET04","",kHighPtFilterMask,iPhysicsSelection,eventSelection);
 506
 507            eventSelection =  AliAnalysisHelperJetTasks::kIsCosmic|AliAnalysisHelperJetTasks::kVertexIn;
 508            if(iPhysicsSelection)eventSelection |= AliAnalysisHelperJetTasks::kPhysicsSelection;
 509            taskjetSpectrum = AddTaskJetSpectrum2("jetsAOD_FASTJET04","jetsAODMC_FASTJET04","",kHighPtFilterMask,iPhysicsSelection,eventSelection);
 510
 511            eventSelection =  AliAnalysisHelperJetTasks::kNone;
 512            taskjetSpectrum = AddTaskJetSpectrum2("jetsAOD_FASTJET04","jetsAODMC2_FASTJET04","",kHighPtFilterMask,iPhysicsSelection,eventSelection);
 513            taskjetSpectrum = AddTaskJetSpectrum2("jetsAOD_FASTJET04","jetsAODMC_FASTJET04","",kHighPtFilterMask,iPhysicsSelection,eventSelection);
 514
 515          }
 516          else{
 517            UInt_t eventSelection =  AliAnalysisHelperJetTasks::kIsPileUp|AliAnalysisHelperJetTasks::kVertexIn;
 518            if(iPhysicsSelection)eventSelection |= AliAnalysisHelperJetTasks::kPhysicsSelection;
 519            taskjetSpectrum = AddTaskJetSpectrum2("jetsAOD_FASTJET04","","",kHighPtFilterMask,iPhysicsSelection,eventSelection);
 520
 521            eventSelection =  AliAnalysisHelperJetTasks::kIsCosmic|AliAnalysisHelperJetTasks::kVertexIn;
 522            if(iPhysicsSelection)eventSelection |= AliAnalysisHelperJetTasks::kPhysicsSelection;
 523            taskjetSpectrum = AddTaskJetSpectrum2("jetsAOD_FASTJET04","","",kHighPtFilterMask,iPhysicsSelection,eventSelection);
 524          }
 525        }
 526        if (!taskjetSpectrum) ::Warning("AnalysisTrainPWG4Jets", "AliAnalysisTaskJetSpectrum2 cannot run for this train conditions - EXCLUDED");
 527        //       taskjetSpectrum->SetDebugLevel(1);
 528      }
 529
 530      if(iPWG4JetSpectrum&2){
 531        UInt_t selection = 0;
 532        if(!iAODanalysis){
 533          selection = 0xffffff;
 534          // switch off 07 radii
 535          selection &= ~(1<<6)&~(1<<11)&~(1<<12)&~(1<<13)&~(1<<14);
 536        }
 537        else selection = 1<<0|1<<1|1<<2|1<<3|1<<4|1<<5|1<<7|1<<8|1<<9;
 538        AddTaskJetSpectrum2Delta(kHighPtFilterMask,kUseAODMC,iPhysicsSelection,selection,0,kTRUE);
 539      }
 540    }
 541    if(iPWG4JCORRAN){
 542      gROOT->LoadMacro("$ALICE_ROOT/PWG4/macros/AddTaskJCORRANTask.C");
 543      AliJCORRANTask* corran = AddTaskJCORRAN(kDeltaAODJCORRANName.Data(),0);
 544      if(!corran)::Warning("AnalysisTrainPWG4Jets", "AliJCORRANTask cannot run for this train conditions - EXCLUDED");
 545      else{
 546        if(kDeltaAODJCORRANName.Length()>0)mgr->RegisterExtraFile(kDeltaAODJCORRANName.Data());
 547      }
 548    }
 549
 550    if(iPWG4UE){
 551      gROOT->LoadMacro("$ALICE_ROOT/PWG4/macros/AddTaskUE.C");
 552      AliAnalysisTaskUE *taskUE = 0;
 553      if(iPWG4UE&1)taskUE = AddTaskUE();
 554      if(iPWG4UE&2){
 555        taskUE  =AddTaskUE("jetsAOD_CDF04","CDF", "LJ", "TRANSV","MSP"); //finder not yet in train
 556        //       taskUE  =AddTaskUE("jetsAOD_CDF07","CDF", "LJ", "TRANSV","MSP");
 557        taskUE  =AddTaskUE("jetsAOD_SISCONE04","CDF", "LJ", "TRANSV","MSP");
 558        //       taskUE  =AddTaskUE("jetsAOD_SISCONE07","CDF", "LJ", "TRANSV","MSP"); //finder not yet in train
 559        taskUE  =AddTaskUE("jetsAOD_ICDF","CDF","LJ","TRANSV","MSP");
 560        taskUE  =AddTaskUE("jetsAOD_FASTKT04","CDF", "LJ", "TRANSV","MSP");
 561        //       taskUE  =AddTaskUE("jetsAOD_FASTKT07","CDF", "LJ", "TRANSV","MSP"); //finder not yet in train
 562        taskUE  =AddTaskUE("jetsAOD_NONE","CDF", "MP_eta05", "TRANSV","MSP");
 563        taskUE  =AddTaskUE("jetsAOD_NONE","CDF", "MP_eta09", "TRANSV","MSP");
 564      }
 565
 566      if (!taskUE) ::Warning("AnalysisTrainPWG4Jets", "AliAnalysisTaskUE cannot run for this train conditions - EXCLUDED");
 567    }
 568
 569    if(iPWG4LeadingUE){
 570      gROOT->LoadMacro("$ALICE_ROOT/PWG4/macros/AddTaskLeadingTrackUE.C");
 571      AliAnalysisTaskLeadingTrackUE *taskLeadingUE = AddTaskLeadingTrackUE(kUseMC);
 572      if (!taskLeadingUE) ::Warning("AnalysisTrainPWG4Jets", "AliAnalysisTasLeadingTrackkUE cannot run for this train conditions - EXCLUDED");
 573      taskLeadingUE->SetFilterBit(64);
 574    }
 575
 576
 577    if(iPWG4CorrectionsUE){
 578      gROOT->LoadMacro("$ALICE_ROOT/PWG4/macros/AddTaskCorrectionsUE.C");
 579      AliAnalysisTaskCorrectionsUE *taskCorrectionsUE = 0;
 580      if(iPWG4CorrectionsUE&1)taskCorrectionsUE = AddTaskCorrectionsUE("jetsAOD_NONE","CDF","MP_eta05","TRANSV","MSP",kFALSE);
 581      if (!taskCorrectionsUE) ::Warning("AnalysisTrainPWG4Jets", "AliAnalysisTaskCorrectionsUE cannot run for this train conditions - EXCLUDED");
 582    }
 583
 584    if(iPWG4ThreeJets){
 585      gROOT->LoadMacro("$ALICE_ROOT/PWG4/macros/AddTaskThreeJets.C");
 586      AliAnalysisTaskThreeJets *taskThree = AddTaskThreeJets();
 587      if(!taskThree)::Warning("AnalysisTrainPWG4Jets", "AliAnalysisTaskThreets cannot run for this train conditions - EXCLUDED");
 588    }
 589    if(iPWG4PtQAMC){
 590      gROOT->LoadMacro("$ALICE_ROOT/PWG4/macros/AddTaskPWG4HighPtQAMC.C");
 591      AliPWG4HighPtQAMC *taskQAMC = AddTaskPWG4HighPtQAMC(kGridDataSet.Data());
 592      if (!taskQAMC) ::Warning("AnalysisTrainPWG4Jets", "AliAnalysisTaskQAMC cannot run for this train conditions - EXCLUDED");
 593    }
 594
 595    if(iPWG4PtQATPC){
 596      gROOT->LoadMacro("$ALICE_ROOT/PWG4/macros/AddTaskPWG4HighPtQATPConly.C");
 597      AliPWG4HighPtQATPConly *taskQATPC = 0;
 598      if(iPWG4PtQATPC&1)taskQATPC = AddTaskPWG4HighPtQATPConly(kGridDataSet.Data(),1);
 599      if(iPWG4PtQATPC&2)taskQATPC = AddTaskPWG4HighPtQATPConly(kGridDataSet.Data(),2);
 600
 601  if (!taskQATPC) ::Warning("AnalysisTrainPWG4Jets", "AliAnalysisTaskQATPC cannot run for this train conditions - EXCLUDED");
 602    }
 603
 604    if(iPWG4Cosmics){
 605      gROOT->LoadMacro("$ALICE_ROOT/PWG4/macros/AddTaskPWG4CosmicCandidates.C");
 606
 607      AliPWG4CosmicCandidates *taskPWG4CosmicCandidates = AddTaskPWG4CosmicCandidates(0);
 608      taskPWG4CosmicCandidates = AddTaskPWG4CosmicCandidates(1);
 609
 610      if (!taskPWG4CosmicCandidates) ::Warning("AnalysisTrainPWG4Jets", "AddTaskPWG4CosmicCandidates cannot run for this train conditions - EXCLUDED");
 611    }
 612
 613
 614    if(iPWG4PtSpectra){
 615      gROOT->LoadMacro("$ALICE_ROOT/PWG4/macros/AddTaskPWG4HighPtSpectra.C");
 616      AliPWG4HighPtSpectra *taskPtSpectra = AddTaskPWG4HighPtSpectra(kGridDataSet.Data());
 617      if (!taskPtSpectra) ::Warning("AnalysisTrainPWG4Jets", "AliAnalysisTaskPtSpectra cannot run for this train conditions - EXCLUDED");
 618    }
 619    if(iPWG4KMeans){
 620      gROOT->LoadMacro("$ALICE_ROOT/PWG4/macros/AddTaskKMeans.C");
 621      AliAnalysisTaskKMeans *taskKMeans = AddTaskKMeans();
 622      if (!taskKMeans) ::Warning("AnalysisTrainPWG4Jets", "AliAnalysisTaskKMenans cannot run for this train conditions - EXCLUDED");
 623    }
 624
 625    if(iPWG4PartCorr){
 626      gROOT->LoadMacro("$ALICE_ROOT/PWG4/macros/AddTaskPartCorr.C");
 627      AliAnalysisTaskParticleCorrelation *taskpartcorrPHOS = AddTaskPartCorr("AOD", "PHOS",kFALSE,kIsMC);
 628      if (!taskpartcorrPHOS) ::Warning("AnalysisTrainNew", "AliAnalysisTaskParticleCorrelation PHOS cannot run for this train conditions - EXCLUDED");
 629      AliAnalysisTaskParticleCorrelation *taskpartcorrEMCAL = AddTaskPartCorr("AOD", "EMCAL",kFALSE,kIsMC);
 630      if (!taskpartcorrEMCAL) ::Warning("AnalysisTrainNew", "AliAnalysisTaskParticleCorrelation EMCAL cannot run for this train conditions - EXCLUDED");
 631      if(kDeltaAODPartCorrName.Length()>0)mgr->RegisterExtraFile(kDeltaAODPartCorrName.Data());
 632    }
 633
 634    if(iPWG4CaloQA){
 635      gROOT->LoadMacro("$ALICE_ROOT/PWG4/macros/QA/AddTaskCalorimeterQA.C");
 636      AliAnalysisTaskParticleCorrelation *taskcaloQA =  AddTaskCalorimeterQA("ESD",kFALSE,kIsMC,kCaloQAOutputFileName.Data());
 637      if(!taskcaloQA)::Warning("AnalysisTrainNew", "AliAnalysisTaskParticleCorrelation QA cannot run - EXCLUDED");
 638      //  if(kCaloQAOutputFileName.Length()>0)mgr->RegisterExtraFile(kCaloQAOutputFileName.Data());
 639    }
 640
 641    if(iPWG4JetCorr){
 642      //     using namespace JetCorrelHD;
 643      TString cdir = gSystem->WorkingDirectory();
 644      gSystem->ChangeDirectory(gSystem->ExpandPathName("$ALICE_ROOT/PWG4/macros/"));
 645      gROOT->LoadMacro("$ALICE_ROOT/PWG4/macros/AddTaskJetCorrel.C");
 646      AliAnalysisTaskJetCorrel *taskjetcorr = AddTaskJetCorrel();
 647      gSystem->ChangeDirectory(cdir);
 648      if (!taskjetcorr) ::Warning("AnalysisTrainNew", "AliAnalysisTaskJetCorrel  cannot run for this train conditions - EXCLUDED");
 649    }
 650
 651    if(iPWG4Tagged){
 652      gROOT->LoadMacro("$ALICE_ROOT/PWG4/macros/AddTaskTaggedPhotons.C");
 653      AliAnalysisTaskTaggedPhotons * taskTagged = AddTaskTaggedPhotons(kFALSE); // EMCAL
 654      taskTagged = AddTaskTaggedPhotons(kTRUE); // PHOS
 655      if (!taskTagged) ::Warning("AnalysisTrainNew", "AliAnalysisTaskTaggedPhotons  cannot run for this train conditions - EXCLUDED");
 656    }
 657    if (iPWG4omega3pi) {
 658      gROOT->LoadMacro("$ALICE_ROOT/PWG4/macros/AddTaskomega3pi.C");
 659      AliAnalysisTaskOmegaPi0PiPi *taskomega3pi = AddTaskomega3pi();
 660      if (!taskomega3pi) ::Warning("AnalysisTrainNew", "AliAnalysisTaskomega3pi cannot run\
 661  for these train conditions - EXCLUDED");
 662    }
 663
 664    // PWG4 gamma conversion analysis
 665    if (iPWG4GammaConv) {
 666       gROOT->LoadMacro("$ALICE_ROOT/PWG4/macros/AddTaskGammaConversion.C");
 667       TString cdir = gSystem->WorkingDirectory();
 668       gSystem->ChangeDirectory(gSystem->ExpandPathName("$ALICE_ROOT/PWG4/macros/"));
 669       //      TString gcArguments = "-run-on-train -run-jet -run-chic -run-neutralmeson -run-cf";
 670       //      TString gcArguments = "-run-on-train -run-jet -run-neutralmeson -run-cf -use-own-xyz";
 671       //      TString gcArguments = "-run-on-train -run-jet -run-neutralmeson -run-cf -use-own-xyz";
 672       TString gcArguments = "-run-on-train -run-jet -run-omega-meson -run-neutralmeson -no-aod";
 673       TString kGCAnalysisCutSelectionId="900356200010031";
 674       gcArguments.Append(Form(" -set-cut-selection %s ",kGCAnalysisCutSelectionId.Data()));
 675       if(!kIsMC)gcArguments += " -mc-off";
 676       AliAnalysisTaskGammaConversion * taskGammaConversion = AddTaskGammaConversion(gcArguments,mgr->GetCommonInputContainer());
 677       gSystem->ChangeDirectory(cdir);
 678       taskGammaConversion->SelectCollisionCandidates();
 679       if (!taskGammaConversion) ::Warning("AnalysisTrainNew", "AliAnalysisTaskGammaConversion cannot run for these train conditions - EXCLUDED");
 680    }
 681
 682    if (iPWG4CaloConv) {
 683       gROOT->LoadMacro("$ALICE_ROOT/PWG4/macros/AddTaskCaloConv.C");
 684       AliAnalysisTaskCaloConv * taskCaloConv = AddTaskCaloConv();
 685       if (!taskCaloConv) ::Warning("AnalysisTrainNew", "AliAnalysisTaskCaloConv cannot run for these train conditions - EXCLUDED");
 686    }
 687
 688
 689
 690    //==========================================================================
 691    // FOR THE REST OF THE TASKS THE MACRO AddTaskXXX() is not yet implemented/
 692    // Run the analysis
 693    //
 694    if (kPluginUse) {
 695       AliAnalysisGrid *alienHandler = CreateAlienHandler(plugin_mode);
 696       AliAnalysisManager::GetAnalysisManager()->SetGridHandler(alienHandler);
 697    }
 698
 699    if (mgr->InitAnalysis()) {
 700      mgr->PrintStatus();
 701      // if (kSaveTrain || strlen(config_file)) gSystem->ChangeDirectory(kTrainName);
 702      if (!strcmp(plugin_mode,"submit")&&smode=="GRID"){
 703        TString alien_workdir = gGrid->GetHomeDirectory();
 704        if (iAODanalysis) alien_workdir += "analysisAOD";
 705        else              alien_workdir += "analysisESD";
 706        if(kGridDataSet.Length()>0)alien_workdir += Form("/%s",kGridDataSet.Data());
 707        AliAnalysisAlien *gridhandler = (AliAnalysisAlien*)mgr->GetGridHandler();
 708        printf("=== AnalysisTrainPWG4Jets:: Registering jdl in the work directory alien://%s/%s, should be done by the manager! ===\n",
 709               alien_workdir.Data(),gridhandler->GetGridOutputDir());
 710
 711        TString dest;
 712        dest = Form("%s/%s/%s.jdl",alien_workdir.Data(),gridhandler->GetGridOutputDir(),kTrainName.Data());
 713        if(AliAnalysisAlien::FileExists(dest.Data())){
 714          //      Printf("%s exist on grid removing...",dest.Data());
 715          //      gGrid->Rm(dest.Data());
 716        }
 717        TFile::Cp(Form("file:%s.jdl",kTrainName.Data()),Form("alien://%s",dest.Data()));
 718
 719
 720        TString dest;
 721        dest = Form("%s/%s/%s_merge.jdl",alien_workdir.Data(),gridhandler->GetGridOutputDir(),kTrainName.Data());
 722        if(AliAnalysisAlien::FileExists(dest.Data())){
 723          //      Printf("%s exist on grid removing...",dest.Data());
 724          //      gGrid->Rm(dest.Data());
 725        }
 726        TFile::Cp(Form("file:%s_merge.jdl",kTrainName.Data()),Form("alien://%s",dest.Data()));
 727
 728
 729        dest = Form("%s/rootfiles/STEER/LQ1dRef_v1.root",gGrid->GetHomeDirectory());
 730        if(AliAnalysisAlien::FileExists(dest.Data())){
 731          Printf("%s exist on grid removing...",dest.Data());
 732          gGrid->Rm(dest.Data());
 733        }
 734        TFile::Cp(Form("file:%s/STEER/LQ1dRef_v1.root",
 735                       gSystem->ExpandPathName("$ALICE_ROOT")),Form("alien://%s",dest.Data()));
 736      }
 737      AliLog::SetGlobalLogLevel(AliLog::kError);
 738      if((kUseSysInfo>0&&smode=="LOCAL")||!strcmp(plugin_mode, "test")){
 739        TFile * fM = TFile::Open("manager_local.root","RECREATE");
 740        mgr->Write();
 741        fM->Close();
 742      }
 743
 744      // grmpf, aliroot error handler overwrites root
 745      gErrorIgnoreLevel = kErrorIgnoreLevel;
 746      if(gErrorIgnoreLevel>3000) AliLog::SetGlobalLogLevel(AliLog::kFatal);
 747      StartAnalysis(smode, chain);
 748      if((kUseSysInfo>0&&smode=="LOCAL")||!strcmp(plugin_mode, "test")){
 749        for(int i = 0;i < mgr->GetTopTasks()->GetEntries();i++){
 750          mgr->ProfileTask(i);
 751        }
 752      }
 753      if (!strcmp(plugin_mode, "offline")&&smode=="GRID"){
 754        // Offline mode path files
 755        //       PatchJDL();
 756        PatchAnalysisMacro();
 757      }
 758
 759      if (kSaveTrain && smode=="GRID") {
 760        AliAnalysisAlien *gridhandler = (AliAnalysisAlien*)mgr->GetGridHandler();
 761        TString alien_workdir = gGrid->GetHomeDirectory();
 762        if (iAODanalysis) alien_workdir += "analysisAOD";
 763        else              alien_workdir += "analysisESD";
 764        if(kGridDataSet.Length()>0)alien_workdir += Form("/%s",kGridDataSet.Data());
 765        //     kGridOutdir = gridhandler->GetGridOutputDir();
 766        printf("=== Registering ConfigTrain.C in the work directory <%s> ===\n",
 767                 alien_workdir.Data());
 768        if (AliAnalysisAlien::FileExists(Form("%s/%sConfig.C", alien_workdir.Data(), kTrainName.Data())))
 769          gGrid->Rm(Form("%s/%sConfig.C", alien_workdir.Data(), kTrainName.Data()));
 770        if (strcmp(plugin_mode, "test"))
 771          TFile::Cp(Form("file:%sConfig.C",kTrainName.Data()), Form("alien://%s/%sConfig.C", alien_workdir.Data(), kTrainName.Data()));
 772      }
 773    }
 774 }
 775
 776 //______________________________________________________________________________
 777 void StartAnalysis(const char *mode, TChain *chain) {
 778 // Start analysis.
 779    Int_t imode = -1;
 780    AliAnalysisManager *mgr = AliAnalysisManager::GetAnalysisManager();
 781    if (!strcmp(mode, "LOCAL")) imode = 0;
 782    if (!strcmp(mode, "PROOF")) imode = 1;
 783    if (!strcmp(mode, "GRID"))  imode = 2;
 784    switch (imode) {
 785       case 0:
 786          if (!chain) {
 787             ::Error("AnalysisTrainPWG4Jets.C::StartAnalysis", "Cannot create the chain");
 788             return;
 789          }
 790          mgr->StartAnalysis(mode, chain,kNumberOfEvents);
 791          return;
 792       case 1:
 793          if (!kProofDataSet.Length()) {
 794             ::Error("AnalysisTrainPWG4Jets.C::StartAnalysis", "kProofDataSet is empty");
 795             return;
 796          }
 797          mgr->StartAnalysis(mode, kProofDataSet, kProofEvents,kProofOffset);
 798          return;
 799       case 2:
 800          if (kPluginUse) {
 801             if (!mgr->GetGridHandler()) {
 802                ::Error("AnalysisTrainPWG4Jets.C::StartAnalysis", "Grid plugin not initialized");
 803                return;
 804             }
 805             mgr->StartAnalysis("grid",chain,kNumberOfEvents);
 806          } else {
 807             if (!chain) {
 808                ::Error("AnalysisTrainPWG4Jets.C::StartAnalysis", "Cannot create the chain");
 809                return;
 810             }
 811             mgr->StartAnalysis(mode, chain);
 812             mgr->StartAnalysis(mode, chain,kNumberOfEvents);
 813          }
 814          return;
 815    }
 816 }
 817
 818 //______________________________________________________________________________
 819 void CheckModuleFlags(const char *mode) {
 820 // Checks selected modules and insure compatibility
 821    Int_t imode = -1;
 822    if (!strcmp(mode, "LOCAL")) imode = 0;
 823    if (!strcmp(mode, "PROOF")) imode = 1;
 824    if (!strcmp(mode, "GRID"))  imode = 2;
 825
 826
 827    if (kUseCPAR) {
 828      kPluginAliRootVersion    = ""; // NO aliroot if we use CPAR
 829    }
 830
 831    if (imode==1) {
 832       if (!kUsePAR) {
 833          ::Info("AnalysisTrainPWG4Jets.C::CheckModuleFlags", "PAR files enabled due to PROOF analysis");
 834          kUsePAR = kTRUE;
 835       }
 836    }
 837    if (imode != 2) {
 838       ::Info("AnalysisTrainPWG4Jets.C::CheckModuleFlags", "AliEn plugin disabled since not in GRID mode");
 839       kPluginUse = kFALSE;
 840    }
 841
 842
 843    if(!kIsMC){
 844      // switch off anthin related to MC
 845      kUseMC = 0;
 846      kUseAODMC = 0;
 847      kUseTR = kFALSE;
 848    }
 849
 850    if (iAODanalysis) {
 851    // AOD analysis
 852       if (kUseMC)
 853          ::Info("AnalysisTrainPWG4Jets.C::CheckModuleFlags", "MC usage disabled in analysis on AOD's");
 854       if (kUseAODTags)
 855          ::Info("AnalysisTrainPWG4Jets.C::CheckModuleFlags", "AOD tags usage disabled in analysis on AOD's");
 856       kUseMC = kFALSE;
 857       kUseTR = kFALSE;
 858       kUseAODTags = kFALSE;
 859       if (iESDfilter)
 860          ::Info("AnalysisTrainPWG4Jets.C::CheckModuleFlags", "ESD filter disabled in analysis on AOD's");
 861       iESDfilter   = 0;
 862       if (iPhysicsSelection)
 863          ::Info("AnalysisTrainPWG4Jets.C::CheckModuleFlags", "Physics Selection disabled in analysis on AOD's");
 864       iPhysicsSelection   = 0;
 865       if (!iAODhandler) {
 866          if (iJETAN)
 867             ::Info("AnalysisTrainPWG4Jets.C::CheckModuleFlags", "JETAN disabled in analysis on AOD's without AOD handler");
 868          iJETAN = 0;
 869          iDIJETAN = 0;
 870       }
 871       // Disable tasks that do not work yet on AOD data
 872       if(iPWG4JCORRAN)::Info("AnalysisTrainPWG4Jets.C::CheckModuleFlags", "PWG4 JCORRAN disabled in analysis on AOD's");
 873       iPWG4JCORRAN = 0;
 874       if( iPWG4PtQAMC)::Info("AnalysisTrainPWG4Jets.C::CheckModuleFlags", "PWG4 PtQAMC disabled in analysis on AOD's");
 875       iPWG4PtQAMC        = 0;
 876       if( iPWG4PtQATPC)::Info("AnalysisTrainPWG4Jets.C::CheckModuleFlags", "PWG4 PtTPC disabled in analysis on AOD's");
 877       iPWG4PtQATPC        = 0;
 878       if( iPWG4Cosmics)::Info("AnalysisTrainPWG4Jets.C::CheckModuleFlags", "PWG4 Comics disabled in analysis on AOD's");
 879       iPWG4Cosmics        = 0;
 880
 881       if( iPWG4PtSpectra)::Info("AnalysisTrainPWG4Jets.C::CheckModuleFlags", "PWG4 PtQAMC disabled in analysis on AOD's");
 882       iPWG4PtSpectra     = 0;
 883       if(iPWG4KMeans)::Info("AnalysisTrainPWG4Jets.C::CheckModuleFlags", "PWG4KMeans disabled on AOD's");
 884       iPWG4KMeans       = 0;
 885       if (iPWG4JetCorr)::Info("AnalysisTrainPWG4Jets.C::CheckModuleFlags", "PWG4Jetcorr disabled on AOD's");
 886       iPWG4JetCorr = 0;
 887       if (iPWG4PartCorr)::Info("AnalysisTrainPWG4Jets.C::CheckModuleFlags", "PWG4partcorr disabled on AOD's");
 888       iPWG4PartCorr = 0;
 889       if (iPWG4CaloQA)::Info("AnalysisTrainPWG4Jets.C::CheckModuleFlags", "PWG4CaloQA disabled on AOD's");
 890       iPWG4CaloQA = 0;
 891       if (iPWG4Tagged)::Info("AnalysisTrainPWG4Jets.C::CheckModuleFlags", "PWG4tagged disabled on AOD's");
 892       iPWG4Tagged = 0;
 893       if (iPWG4omega3pi)
 894         ::Info("AnalysisTrainNew.C::CheckModuleFlags", "PWG4omega3pi disabled on AOD's");
 895       iPWG4omega3pi = 0;
 896       if(iPWG1QASym)::Info("AnalysisTrainPWG4Jets.C::CheckModuleFlags", "PWG1 QA Sym disabled in analysis on AOD's");
 897       if (iPWG4GammaConv)::Info("AnalysisPWG4Jets.C::CheckModuleFlags", "PWG4gammaconv disabled on AOD's");
 898       iPWG4GammaConv = 0;
 899       iPWG1QASym     = 0;
 900    } else {
 901    // ESD analysis
 902      if (!kUseMC){
 903        kUseTR = kFALSE;
 904
 905        if(kUseKinefilter)::Info("AnalysisTrainPWG4Jets.C::CheckModuleFlags", "PWG4 Kine Filter disabled in analysis without MC");
 906        kUseKinefilter = kFALSE;
 907        if( iPWG4PtQAMC)::Info("AnalysisTrainPWG4Jets.C::CheckModuleFlags", "PWG4 PtQAMC disabled in analysis without MC");
 908        iPWG4PtQAMC        = 0;
 909        if( iPWG4CorrectionsUE)::Info("AnalysisTrainPWG4Jets.C::CheckModuleFlags", "PWG4 CorrectionsUE disabled in analysis without MC");
 910        iPWG4CorrectionsUE = 0;
 911      }
 912      if (!kUseTR) {
 913        if(iPWG4PtQAMC)::Info("AnalysisTrainPWG4Jets.C::CheckModuleFlags", "iPWG4QATPCMC disabled if not reading track references");
 914        iPWG4PtQAMC        = 0;
 915      }
 916      if (iJETAN){
 917        iESDfilter=1;
 918      }
 919       if (!iESDfilter){
 920         kUseKinefilter = kFALSE;
 921         kUseMuonfilter = kFALSE;
 922       }
 923       if(!iJETAN){
 924         iPWG4JetSpectrum = iPWG4UE =  iPWG4CorrectionsUE = iPWG4ThreeJets = iDIJETAN = 0;
 925       }
 926    }
 927    iPWG4JetTasks = iPWG4JetServices||iPWG4JetSpectrum||iPWG4UE||iPWG4LeadingUE||iPWG4PtQAMC||iPWG4PtSpectra||iPWG4PtQATPC||iPWG4Cosmics||iPWG4ThreeJets||iPWG4JetChem||iPWG4Fragmentation;
 928    iPWG4PartCorrLibs = iPWG4PartCorr||iPWG4Tagged||iPWG4CaloQA;
 929    iPWG4GammaConvLib = iPWG4GammaConv||iPWG4CaloConv;
 930
 931
 932    iEMCUtilLibs = iPWG4PartCorrLibs||iPWG4JCORRAN||iPWG4GammaConvLib;
 933    iJETANLib = iPWG4JetTasks||iJETAN||iDIJETAN;
 934
 935    if (iESDfilter) {iAODhandler=1;}
 936    if (kUseKinefilter && !kUseMC) kUseKinefilter = kFALSE;
 937    if (kUseAODTags && !iAODhandler) kUseAODTags = kFALSE;
 938
 939
 940
 941 }
 942
 943 //______________________________________________________________________________
 944 Bool_t Connect(const char *mode) {
 945 // Connect <username> to the back-end system.
 946    Int_t imode = -1;
 947    if (!strcmp(mode, "LOCAL")) imode = 0;
 948    if (!strcmp(mode, "PROOF")) imode = 1;
 949    if (!strcmp(mode, "GRID"))  imode = 2;
 950    TString username = gSystem->Getenv("alien_API_USER");
 951    switch (imode) {
 952       case 0:
 953          break;
 954       case 1:
 955          if  (!username.Length()) {
 956             ::Error(Form("AnalysisTrainPWG4Jets.C::Connect <%s>", mode), "Make sure you:\n \
 957                            1. Have called: alien-token-init <username>\n \
 958                            2. Have called: >source /tmp/gclient_env_$UID");
 959             return kFALSE;
 960          }
 961          ::Info("AnalysisTrainPWG4Jets.C::Connect", "Connecting user <%s> to PROOF cluster <%s>",
 962                 username.Data(), kProofCluster.Data());
 963          gEnv->SetValue("XSec.GSI.DelegProxy", "2");
 964 //         TProof::Open(Form("%s@%s:31093", username.Data(), kProofCluster.Data()));
 965          TProof::Open(Form("%s@%s", username.Data(), kProofCluster.Data()));
 966          if (!gProof) {
 967             if (strcmp(gSystem->Getenv("XrdSecGSISRVNAMES"), "lxfsrd0506.cern.ch"))
 968                ::Error(Form("AnalysisTrainPWG4Jets.C::Connect <%s>", mode), "Environment XrdSecGSISRVNAMES different from lxfsrd0506.cern.ch");
 969             return kFALSE;
 970          }
 971          if(kProofClearPackages)gProof->ClearPackages();
 972
 973          if(kProofSaveToAlien){
 974            TGrid::Connect("alien://");
 975            if (gGrid) {
 976              TString homedir = gGrid->GetHomeDirectory();
 977              TString workdir = homedir + kTrainName;
 978              if (!gGrid->Cd(workdir)) {
 979                gGrid->Cd(homedir);
 980                if (gGrid->Mkdir(workdir)) {
 981                  gGrid->Cd(kTrainName);
 982                  ::Info("AnalysisTrainPWG4Jets::Connect()", "Directory %s created", gGrid->Pwd());
 983                }
 984              }
 985              gGrid->Mkdir("proof_output");
 986              gGrid->Cd("proof_output");
 987              kProofOutdir = Form("alien://%s", gGrid->Pwd());
 988            }
 989          }
 990          break;
 991       case 2:
 992          if  (!username.Length()) {
 993             ::Error(Form("AnalysisTrainPWG4Jets.C::Connect <%s>", mode), "Make sure you:\n \
 994                            1. Have called: alien-token-init <username>\n \
 995                            2. Have called: >source /tmp/gclient_env_$UID");
 996             return kFALSE;
 997          }
 998          if (kPluginUse && !gSystem->Getenv("alien_CLOSE_SE")) {
 999             ::Error(Form("AnalysisTrainPWG4Jets.C::Connect <%s>", mode),
1000                            "When using the AliEn plugin it is preferable to define the \
1001                            variable alien_CLOSE_SE in your environment.");
1002             return kFALSE;
1003          }
1004          ::Info("AnalysisTrainPWG4Jets.C::Connect", "Connecting user <%s> to AliEn ...",
1005                 username.Data());
1006          TGrid::Connect("alien://");
1007          if (!gGrid || !gGrid->IsConnected()) return kFALSE;
1008          break;
1009       default:
1010          ::Error("AnalysisTrainPWG4Jets.C::Connect", "Unknown run mode: %s", mode);
1011          return kFALSE;
1012    }
1013    ::Info("AnalysisTrainPWG4Jets.C::Connect","Connected in %s mode", mode);
1014    return kTRUE;
1015 }
1016
1017 //______________________________________________________________________________
1018 Bool_t LoadCommonLibraries(const char *mode)
1019 {
1020 // Load common analysis libraries.
1021    Int_t imode = -1;
1022    if (!strcmp(mode, "LOCAL")) imode = 0;
1023    if (!strcmp(mode, "PROOF")) imode = 1;
1024    if (!strcmp(mode, "GRID"))  imode = 2;
1025    if (!gSystem->Getenv("ALICE_ROOT")) {
1026       ::Error("AnalysisTrainPWG4Jets.C::LoadCommonLibraries", "Analysis train requires that ALICE_ROOT is set to pick up Configurations");
1027       return kFALSE;
1028    }
1029    Bool_t success = kTRUE;
1030    // ROOT libraries
1031    gSystem->Load("libTree.so");
1032    gSystem->Load("libGeom.so");
1033    gSystem->Load("libVMC.so");
1034    gSystem->Load("libPhysics.so");
1035
1036    // Load framework classes. Par option ignored here.
1037    switch (imode) {
1038       case 0:
1039       case 2:
1040          if (kUseCPAR) {
1041             success &= LoadLibrary("STEERBase", mode, kTRUE);
1042             success &= LoadLibrary("ESD", mode, kTRUE);
1043             success &= LoadLibrary("AOD", mode, kTRUE);
1044             success &= LoadLibrary("ANALYSIS", mode, kTRUE);
1045             success &= LoadLibrary("ANALYSISalice", mode, kTRUE);
1046             success &= LoadLibrary("CORRFW", mode, kTRUE);
1047          } else {
1048             success &= LoadLibrary("libSTEERBase.so", mode);
1049             success &= LoadLibrary("libESD.so", mode);
1050             success &= LoadLibrary("libAOD.so", mode);
1051             success &= LoadLibrary("libANALYSIS.so", mode);
1052             success &= LoadLibrary("libANALYSISalice.so", mode);
1053             success &= LoadLibrary("libCORRFW.so", mode);
1054             gROOT->ProcessLine(".include $ALICE_ROOT/include");
1055          }
1056          break;
1057       case 1:
1058          Int_t ires = -1;
1059          if (kProofUseAFPAR && !gSystem->AccessPathName(kProofAFversion)) ires = gProof->UploadPackage(kProofAFversion);
1060          if (ires < 0) {
1061             success &= LoadLibrary("STEERBase", mode);
1062             success &= LoadLibrary("ESD", mode);
1063             success &= LoadLibrary("AOD", mode);
1064             success &= LoadLibrary("ANALYSIS", mode);
1065             success &= LoadLibrary("ANALYSISalice", mode);
1066             success &= LoadLibrary("CORRFW", mode);
1067          } else {
1068             ires = gProof->EnablePackage(kProofAFversion);
1069             if (ires<0) success = kFALSE;
1070             success &= LoadLibrary("CORRFW", mode);
1071          }
1072          break;
1073       default:
1074          ::Error("AnalysisTrainPWG4Jets.C::LoadCommonLibraries", "Unknown run mode: %s", mode);
1075          return kFALSE;
1076    }
1077    if (success) {
1078       ::Info("AnalysisTrainPWG4Jets.C::LoadCommodLibraries", "Load common libraries:    SUCCESS");
1079       ::Info("AnalysisTrainPWG4Jets.C::LoadCommodLibraries", "Include path for Aclic compilation:\n%s",
1080               gSystem->GetIncludePath());
1081    } else {
1082       ::Info("AnalysisTrainPWG4Jets.C::LoadCommodLibraries", "Load common libraries:    FAILED");
1083    }
1084
1085    return success;
1086 }
1087
1088 //______________________________________________________________________________
1089 Bool_t LoadAnalysisLibraries(const char *mode)
1090 {
1091 // Load common analysis libraries.
1092   Bool_t success = kTRUE;
1093    if (iESDfilter) {
1094       if (!LoadLibrary("PWG3base", mode, kTRUE) ||
1095           !LoadLibrary("PWG3muon", mode, kTRUE)) return kFALSE;
1096    }
1097    // JETAN
1098    if (iJETANLib) {
1099      // this part needs some rework in case we do not need the fastjed finders for processing
1100      if (!LoadLibrary("JETAN", mode, kTRUE)) return kFALSE;
1101      if (!strcmp(mode, "PROOF")){
1102        gProof->Exec("gSystem->Load\(\"/afs/cern.ch/user/d/dperrino/public/libCGAL.so\"\)", kTRUE);
1103        gProof->Exec("gSystem->Load\(\"/afs/cern.ch/user/d/dperrino/public/libfastjet.so\"\)", kTRUE);
1104        // problem when loading siscone copiled with different gcc version??
1105        // gProof->Exec("gSystem->Load\(\"/afs/cern.ch/user/d/dperrino/public/libsiscone.so\"\)", kTRUE);
1106        gProof->Exec("gSystem->Load\(\"/afs/cern.ch/user/d/dperrino/public/libSISConePlugin.so\"\)", kTRUE);
1107      }
1108      if(!kUsePAR){
1109        if (!LoadLibrary("CGAL", mode, kTRUE)) return kFALSE;
1110        if (!LoadLibrary("fastjet", mode, kTRUE)) return kFALSE;
1111        if (!LoadLibrary("siscone", mode, kTRUE)) return kFALSE;
1112        if (!LoadLibrary("SISConePlugin", mode, kTRUE)) return kFALSE;
1113      }
1114      else{
1115        // par files plus FASTJET needs some extra work... need to change
1116        // the loading sequence in the auto generated .C file
1117        if (!LoadLibrary("libCGAL.so", mode, kTRUE)) return kFALSE;
1118        if (!LoadLibrary("libfastjet.so", mode, kTRUE)) return kFALSE;
1119        if (!LoadLibrary("libsiscone.so", mode, kTRUE)) return kFALSE;
1120        if (!LoadLibrary("libSISConePlugin.so", mode, kTRUE)) return kFALSE;
1121      }
1122      if (!LoadLibrary("FASTJETAN", mode, kTRUE)) return kFALSE;
1123    }
1124    if(iPWG4JetTasks){
1125      if (!LoadLibrary("PWG4JetTasks", mode, kTRUE)) return kFALSE;
1126    }
1127
1128    if(iPWG1QASym){
1129      if (!LoadSource(Form("%s/PWG1/AliAnalysisTaskQASym.cxx",gSystem->ExpandPathName("$ALICE_ROOT")), mode, kTRUE))return kFALSE;
1130    }
1131    if(iPWG4TmpSourceSara){
1132      if(!kUsePAR)gSystem->AddIncludePath("-I$ALICE_ROOT/include/JetTasks"); // ugly hack!!
1133      if(!LoadSource(Form("%s/PWG4/JetTasks/AliAnalysisTaskEta.cxx",gSystem->ExpandPathName("$ALICE_ROOT")), mode, kTRUE))return kFALSE;
1134    }
1135
1136    /*
1137    if(iPWG4JetChem){
1138      if(!kUsePAR)gSystem->AddIncludePath("-I$ALICE_ROOT/include/JetTasks"); // ugly hack!!
1139      if(!LoadSource(Form("%s/PWG4/JetTasks/AliAnalysisTaskJetChem.cxx",gSystem->ExpandPathName("$ALICE_ROOT")), mode, kTRUE))return kFALSE;
1140    }
1141    */
1142
1143    if(iEMCUtilLibs){
1144      if (!LoadLibrary("EMCALUtils", mode, kTRUE) ||
1145          !LoadLibrary("PHOSUtils", mode, kTRUE)) return kFALSE;
1146    }
1147
1148    if (iPWG4PartCorrLibs) {
1149       if (!LoadLibrary("PWG4PartCorrBase", mode, kTRUE) ||
1150           !LoadLibrary("PWG4PartCorrDep", mode, kTRUE)) return kFALSE;
1151    }
1152    if(iPWG4JCORRAN){
1153      // PWG4 particle correlations
1154      if(!LoadLibrary("PWG4JCORRAN",mode,kTRUE))return kFALSE;
1155    }
1156    if (iPWG4JetCorr) {
1157      if (!LoadLibrary("PWG4JetCorrel", mode, kTRUE)) return kFALSE;
1158    }
1159    if (iPWG4omega3pi) {
1160      if (!LoadLibrary("PWG4omega3pi", mode, kTRUE)) return kFALSE;
1161    }
1162    if (iPWG4GammaConvLib) {
1163       if (!LoadLibrary("PWG4GammaConv", mode, kTRUE)) return kFALSE;
1164    }
1165
1166    ::Info("AnalysisTrainPWG4Jets.C::LoadAnalysisLibraries", "Load other libraries:   SUCCESS");
1167    return kTRUE;
1168 }
1169
1170 //______________________________________________________________________________
1171 Bool_t LoadLibrary(const char *module, const char *mode, Bool_t rec=kFALSE)
1172 {
1173 // Load a module library in a given mode. Reports success.
1174    Int_t imode = -1;
1175    Int_t result;
1176    TString smodule(module);
1177    if (!strcmp(mode, "LOCAL")) imode = 0;
1178    if (!strcmp(mode, "PROOF")) imode = 1;
1179    if (!strcmp(mode, "GRID"))  imode = 2;
1180    TString mod(module);
1181    if (!mod.Length()) {
1182       ::Error("AnalysisTrainPWG4Jets.C::LoadLibrary", "Empty module name");
1183       return kFALSE;
1184    }
1185    // If a library is specified, just load it
1186    if (smodule.EndsWith(".so")) {
1187       mod.Remove(mod.Index(".so"));
1188       result = gSystem->Load(mod);
1189       if (result < 0) {
1190          ::Error("AnalysisTrainPWG4Jets.C::LoadLibrary", "Could not load library %s", module);
1191          return kFALSE;
1192       }
1193       if (rec) anaLibs += Form("%s.so ",mod.Data());
1194       if (rec) anaLibsExtra += Form("%s.so ",mod.Data());
1195       return kTRUE;
1196    }
1197    // Check if the library is already loaded
1198    if (strlen(gSystem->GetLibraries(Form("%s.so", module), "", kFALSE)) > 0)
1199       return kTRUE;
1200    switch (imode) {
1201       case 0:
1202       case 2:
1203          if (kUsePAR) {
1204             result = SetupPar(module);
1205             if (rec) anaPars += Form("%s.par ", module);
1206          } else {
1207             result = gSystem->Load(Form("lib%s.so", module));
1208             if (rec) anaLibs += Form("lib%s.so ", module);
1209          }
1210          break;
1211       case 1:
1212         if(!gSystem->AccessPathName(module)){
1213           ::Info("AnalysisTrainPWG4Jets.C::LoadLibrary", "Removing directory %s",module);
1214           gSystem->Exec(Form("rm -rf %s",module));
1215         }
1216          result = gProof->UploadPackage(module);
1217          if (result<0) {
1218             result = gProof->UploadPackage(gSystem->ExpandPathName(Form("$ALICE_ROOT/%s.par", module)));
1219             if (result<0) {
1220                ::Error("AnalysisTrainPWG4Jets.C::LoadLibrary", "Could not find module %s.par in current directory nor in $ALICE_ROOT", module);
1221                return kFALSE;
1222             }
1223          }
1224          result = gProof->EnablePackage(module);
1225          break;
1226       default:
1227          return kFALSE;
1228    }
1229    if (result < 0) {
1230       ::Error("AnalysisTrainPWG4Jets.C::LoadLibrary", "Could not load module %s", module);
1231       return kFALSE;
1232    }
1233    return kTRUE;
1234 }
1235
1236
1237
1238 //______________________________________________________________________________
1239 Bool_t LoadSource(const char *source, const char *mode, Bool_t rec=kFALSE)
1240 {
1241 // Load a module library in a given mode. Reports success.
1242    Int_t imode = -1;
1243    Int_t result = -1;
1244    if (!strcmp(mode, "LOCAL")) imode = 0;
1245    if (!strcmp(mode, "PROOF")) imode = 1;
1246    if (!strcmp(mode, "GRID"))  imode = 2;
1247    TString ssource(source);
1248    TString basename = gSystem->BaseName(ssource.Data());
1249    if (!ssource.Length()) {
1250       ::Error("AnalysisTrainPWG4Jets.C::LoadSource", "Empty task name");
1251       return kFALSE;
1252    }
1253    // we have a source code so compile it
1254    if (ssource.EndsWith(".cxx")) {
1255      // need to copy it here other wise the path is also used on grid...
1256      ssource.Remove(ssource.Index(".cxx"));
1257      basename.Remove(basename.Index(".cxx"));
1258      Printf("LoadSources:: Copying...  path %s{cxx,h}",ssource.Data());
1259      gSystem->Exec(Form("cp %s.cxx . ",ssource.Data()));
1260      gSystem->Exec(Form("cp %s.h . ",ssource.Data()));
1261      // Path to code
1262      // only needed for local compilation, in grid and proof mode
1263      // the task headers are uploaded
1264      //     path.Remove(path.Index(gSystem->BaseName(path.Data())));
1265      // Printf("LoadSources:: Including path %s",path.Data());
1266      //  if(path.Length()>0)gROOT->ProcessLine(Form(".include %s",path.Data()));
1267      Printf("LoadSources:: Loading...  path %s",basename.Data());
1268      switch (imode) {
1269      case 0:
1270        result = gROOT->LoadMacro(Form("%s.cxx++g",basename.Data()));
1271        break;
1272      case 1:
1273        result = gProof->LoadMacro(Form("%s.cxx++g",basename.Data()));
1274        break;
1275      case 2:
1276        result = gROOT->LoadMacro(Form("%s.cxx++g",basename.Data()));
1277        if (rec){
1278          // what we want to compile
1279          anaSources += Form("%s.cxx ",basename.Data());
1280          // what we need as input...
1281          anaLibs += Form("%s.cxx %s.h ",basename.Data(),basename.Data());
1282        }
1283        break;
1284      default:
1285        return kFALSE;
1286      }
1287    }
1288    if (result < 0) {
1289       ::Error("AnalysisTrainPWG4Jets.C::LoadSources", "Could not load source %s", source);
1290       return kFALSE;
1291    }
1292    return kTRUE;
1293 }
1294
1295
1296 //______________________________________________________________________________
1297 TChain *CreateChain(const char *mode, const char *plugin_mode)
1298 {
1299 // Create the input chain
1300    Int_t imode = -1;
1301    if (!strcmp(mode, "LOCAL")) imode = 0;
1302    if (!strcmp(mode, "PROOF")) imode = 1;
1303    if (!strcmp(mode, "GRID"))  imode = 2;
1304    TChain *chain = NULL;
1305    // Local chain
1306    switch (imode) {
1307       case 0:
1308          if (iAODanalysis) {
1309             if (!kLocalXMLDataset.Length()) {
1310                // Local AOD
1311                chain = new TChain("aodTree");
1312                TString line;
1313                ifstream in;
1314                in.open(kLocalDataList.Data());
1315                while (in.good()) {
1316                  in >> line;
1317                  if (line.Length() == 0) continue;
1318                  // cout << " line = " << line << endl;
1319                  chain->Add(line.Data());
1320                }
1321             } else {
1322                // Interactive AOD
1323                chain = CreateChainSingle(kLocalXMLDataset, "aodTree");
1324             }
1325          } else {
1326            if (!kLocalXMLDataset.Length()) {
1327              // Local ESD
1328              chain = new TChain("esdTree");
1329              TString line;
1330              ifstream in;
1331              in.open(kLocalDataList.Data());
1332              while (in.good()) {
1333                in >> line;
1334                if (line.Length() == 0) continue;
1335                cout << " line = " << line << endl;
1336                chain->Add(line.Data());
1337              }
1338            } else {
1339              // Interactive ESD
1340                chain = CreateChainSingle(kLocalXMLDataset, "esdTree");
1341            }
1342          }
1343          break;
1344       case 1:
1345          break;
1346       case 2:
1347          if (kPluginUse) {
1348 //            AliAnalysisGrid *alienHandler = CreateAlienHandler(plugin_mode);
1349 //            AliAnalysisManager::GetAnalysisManager()->SetGridHandler(alienHandler);
1350          } else {
1351             TString           treeName = "esdTree";
1352             if (iAODanalysis) treeName = "aodTree";
1353             chain = CreateChainSingle("wn.xml", treeName);
1354          }
1355          break;
1356       default:
1357    }
1358    if (chain && chain->GetNtrees()) return chain;
1359    return NULL;
1360 }
1361
1362 //______________________________________________________________________________
1363 TChain* CreateChainSingle(const char* xmlfile, const char *treeName)
1364 {
1365    printf("*******************************\n");
1366    printf("*** Getting the ESD Chain   ***\n");
1367    printf("*******************************\n");
1368    TAlienCollection * myCollection  = TAlienCollection::Open(xmlfile);
1369
1370    if (!myCollection) {
1371       ::Error("AnalysisTrainPWG4Jets.C::CreateChainSingle", "Cannot create an AliEn collection from %s", xmlfile) ;
1372       return NULL ;
1373    }
1374
1375    TChain* chain = new TChain(treeName);
1376    myCollection->Reset() ;
1377    while ( myCollection->Next() ) chain->Add(myCollection->GetTURL("")) ;
1378    chain->ls();
1379    return chain;
1380 }
1381
1382 //______________________________________________________________________________
1383 Int_t SetupPar(char* pararchivename)
1384 {
1385    if (!pararchivename || !strlen(pararchivename)) return -1;
1386    char processline[1024];
1387    if (gSystem->AccessPathName(Form("%s.par", pararchivename))) {
1388       if (!gSystem->AccessPathName(Form("%s/%s.par", gSystem->Getenv("ALICE_ROOT"),pararchivename))) {
1389          ::Info("AnalysisTrainPWG4Jets.C::SetupPar", "Getting %s.par from $ALICE_ROOT", pararchivename);
1390         TFile::Cp(gSystem->ExpandPathName(Form("$ALICE_ROOT/%s.par", pararchivename)),
1391                   Form("%s.par",pararchivename));
1392       } else {
1393          ::Error("AnalysisTrainPWG4Jets.C::SetupPar", "Cannot find %s.par", pararchivename);
1394          return -1;
1395       }
1396    }
1397    if (kPluginUse && kSaveTrain) gSystem->Exec(Form("ln -s ../%s.par %s",pararchivename, kTrainName.Data()));
1398    gSystem->Exec(Form("tar xvzf %s.par", pararchivename));
1399
1400    TString ocwd = gSystem->WorkingDirectory();
1401    if (!gSystem->ChangeDirectory(pararchivename)) return -1;
1402
1403    // check for BUILD.sh and execute
1404    if (!gSystem->AccessPathName("PROOF-INF/BUILD.sh")) {
1405       printf("*******************************\n");
1406       printf("*** Building PAR archive    ***\n");
1407       printf("*******************************\n");
1408       if (gSystem->Exec("PROOF-INF/BUILD.sh")) {
1409          Error("runProcess","Cannot Build the PAR Archive! - Abort!");
1410          return -1;
1411       }
1412    }
1413
1414         // check for SETUP.C and execute
1415         if (!gSystem->AccessPathName("PROOF-INF/SETUP.C")) {
1416             printf("*******************************\n");
1417             printf("*** Setup PAR archive       ***\n");
1418             printf("*******************************\n");
1419             gROOT->Macro("PROOF-INF/SETUP.C");
1420         }
1421         if (!gSystem->ChangeDirectory(ocwd.Data())) return -1;
1422    return 0;
1423 }
1424
1425 //______________________________________________________________________________
1426 AliAnalysisAlien* CreateAlienHandler(const char *plugin_mode)
1427 {
1428 // Check if user has a valid token, otherwise make one. This has limitations.
1429 // One can always follow the standard procedure of calling alien-token-init then
1430 //   source /tmp/gclient_env_$UID in the current shell.
1431    if (!AliAnalysisGrid::CreateToken()) return NULL;
1432    AliAnalysisAlien *plugin = new AliAnalysisAlien();
1433 // Set the run mode (can be "full", "test", "offline", "submit" or "terminate")
1434    plugin->SetRunMode(plugin_mode);
1435    if (kPluginUseProductionMode) plugin->SetProductionMode();
1436    plugin->SetJobTag(kJobTag);
1437    plugin->SetNtestFiles(1);
1438 //   plugin->SetPreferedSE("ALICE::NIHAM::File");
1439 // Set versions of used packages
1440    plugin->SetAPIVersion("V1.1x");
1441    //   plugin->SetAPIVersion("V1.0x");
1442 //   plugin->SetAPIVersion("V2.4");
1443    plugin->SetROOTVersion(kPluginRootVersion);
1444    plugin->SetAliROOTVersion(kPluginAliRootVersion);
1445 // Declare input data to be processed.
1446 // Method 1: Create automatically XML collections using alien 'find' command.
1447 // Define production directory LFN
1448    plugin->SetGridDataDir(kGridDatadir.Data());
1449 // Set data search pattern
1450    if (iAODanalysis) plugin->SetDataPattern(" *AliAOD.root");
1451    else              plugin->SetDataPattern(Form(" %s/*/*ESD.tag.root",kGridPassPattern.Data()));
1452 // ...then add run numbers to be considered
1453 //   plugin->SetRunRange(kGridRunRange[0], kGridRunRange[1]);
1454    for (Int_t i=kGridRunRange[0]; i<=kGridRunRange[1]; i++) {
1455      Printf("AnalysisTrainPWG4Jets Adding run number %s", Form(kGridRunPattern.Data(),i));
1456      plugin->AddRunNumber(Form(kGridRunPattern.Data(),i));
1457    }
1458
1459    if(kGridLocalRunList.Length()>0){
1460      ifstream in1;
1461      in1.open(kGridLocalRunList.Data());
1462      int iRun;
1463
1464      /*
1465      char c;
1466      char cLine[250];
1467      while(!in1.eof()){
1468        c = in1.get();
1469        if ( (c >= '0') && (c <= '9') )
1470          {
1471            in1.putback (c);
1472            in1>>iRun;
1473            Printf("AnalysisTrainPWG4Jets Adding run number from File %s", Form(kGridRunPattern.Data(),iRun));
1474            plugin->AddRunNumber(Form(kGridRunPattern.Data(),iRun));
1475        }
1476      else
1477        {
1478          in1.putback (c);
1479          in1.getline(cLine,250);
1480
1481        }
1482      }
1483      */
1484
1485      Int_t nRun = 0;
1486
1487      // just use run numbers, negatives will be excluded
1488      while(in1>>iRun){
1489
1490        if(iRun>=0&&(nRun<kGridMaxRunsFromList)){
1491            Printf("AnalysisTrainPWG4Jets Adding run number from File %s", Form(kGridRunPattern.Data(),iRun));
1492            plugin->AddRunNumber(Form(kGridRunPattern.Data(),iRun));
1493            nRun++;
1494        }
1495        else{
1496          Printf("AnalysisTrainPWG4Jets Skipping run number from File %d", iRun);
1497        }
1498      }
1499    }
1500
1501 // Method 2: Declare existing data files (raw collections, xml collections, root file)
1502 // If no path mentioned data is supposed to be in the work directory (see SetGridWorkingDir())
1503 // XML collections added via this method can be combined with the first method if
1504 // the content is compatible (using or not tags)
1505 //   plugin->AddDataFile("tag.xml");
1506 //   plugin->AddDataFile("/alice/data/2008/LHC08c/000057657/raw/Run57657.Merged.RAW.tag.root");
1507 // Define alien work directory where all files will be copied. Relative to alien $HOME.
1508    TString alien_workdir = "";
1509
1510    if (iAODanalysis)  alien_workdir += "analysisAOD";
1511    else               alien_workdir += "analysisESD";
1512    if(kGridDataSet.Length()>0)alien_workdir += Form("/%s",kGridDataSet.Data());
1513    plugin->SetGridWorkingDir(alien_workdir.Data());
1514
1515    // Declare alien output directory. Relative to working directory.
1516    if (!kGridOutdir.Length()) kGridOutdir = Form("output_%s",kTrainName.Data());
1517    plugin->SetGridOutputDir(kGridOutdir);
1518
1519    // Add external packages
1520    if (iJETAN||iDIJETAN) {
1521       plugin->AddExternalPackage("boost::v1_43_0");
1522       plugin->AddExternalPackage("cgal::v3.6");
1523       plugin->AddExternalPackage("fastjet::v2.4.2");
1524    }
1525
1526
1527    // set extra libs before par file compilation
1528    anaLibs += kGridExtraFiles;
1529    anaLibs     = anaLibs.Strip();
1530    Printf("anaLibs %s",anaLibs.Data());
1531    Printf("anaLibsExtra %s",anaLibsExtra.Data());
1532
1533    if (anaLibs.Length())          plugin->SetAdditionalLibs(anaLibs.Data());
1534    if (anaLibsExtra.Length())     plugin->SetAdditionalRootLibs(anaLibsExtra.Data());
1535
1536    TString ana_sources = "";
1537    TString ana_add = "";
1538    if (kUsePAR && anaPars.Length()) {
1539       printf("%s\n", anaPars.Data());
1540       TObjArray *arr;
1541       TObjString *objstr;
1542       arr = anaPars.Tokenize(" ");
1543       TIter next(arr);
1544       while ((objstr=(TObjString*)next())) plugin->EnablePackage(objstr->GetString());
1545       delete arr;
1546    }
1547
1548 // Declare the analysis source files names separated by blancs. To be compiled runtime
1549 // using ACLiC on the worker nodes.
1550    ana_sources = anaSources.Strip();
1551 // Declare all libraries (other than the default ones for the framework. These will be
1552 // loaded by the generated analysis macro. Add all extra files (task .cxx/.h) here.
1553
1554    if (ana_sources.Length()) plugin->SetAnalysisSource(ana_sources);
1555    plugin->SetExecutableCommand(kPluginExecutableCommand.Data());
1556    // Declare the output file names separated by blancs.
1557    // (can be like: file.root or file.root@ALICE::Niham::File)
1558    plugin->SetMergeExcludes(kGridMergeExclude);
1559    plugin->SetMaxMergeFiles(kGridMaxMergeFiles);
1560    plugin->SetNrunsPerMaster(kGridRunsPerMaster);
1561    plugin->SetMergeViaJDL(kPluginMergeViaJDL);
1562    // Use fastread option
1563    plugin->SetFastReadOption(kPluginFastReadOption);
1564    // UseOverwrite mode
1565    plugin->SetOverwriteMode(kPluginOverwriteMode);
1566    // Optionally define the files to be archived.
1567    //   plugin->SetOutputArchive("log_archive.zip:stdout,stderr@ALICE::NIHAM::File root_archive.zip:AliAOD.root,AOD.tag.root@ALICE::NIHAM::File");
1568    plugin->SetOutputToRunNo(kPluginOutputToRunNumber);     // write the output to subdirs named after run number
1569
1570    // Put default output files to archive
1571    TString listhists = "";
1572    TString listaods  = "";
1573    AliAnalysisManager *mgr = AliAnalysisManager::GetAnalysisManager();
1574    TIter next(mgr->GetOutputs());
1575    AliAnalysisDataContainer *output;
1576    while ((output=(AliAnalysisDataContainer*)next())) {
1577       const char *filename = output->GetFileName();
1578       if (!(strcmp(filename, "default"))) {
1579         if (!mgr->GetOutputEventHandler()) continue;
1580          filename = mgr->GetOutputEventHandler()->GetOutputFileName();
1581          if (listaods.Length()) listaods += " ";
1582          listaods += filename;
1583       } else {
1584         if(!listhists.Contains(filename)){
1585           if (listhists.Length()) listhists += " ";
1586           listhists += filename;
1587         }
1588       }
1589    }
1590
1591    if (mgr->GetExtraFiles().Length()) {
1592      if (listaods.Length()) listaods += " ";
1593      listaods += mgr->GetExtraFiles();
1594    }
1595
1596    // if we do not fill the aod we do not need to store it
1597    //   kGridMergeExclude = listaods;
1598
1599    if(kSaveAOD!=0){
1600      TString outputFiles =  "";
1601      outputFiles += mgr->GetExtraFiles();
1602      if (listhists.Length()) outputFiles += " ";
1603      outputFiles += listhists;
1604      plugin->SetDefaultOutputs(kFALSE);
1605      Printf("%s:%d Starting with the files %s",(char*)__FILE__,__LINE__,outputFiles.Data());
1606      // remove
1607      // no harm done when we try to remove something that is not there :)
1608      if(!(kSaveAOD&(1<<0))){
1609        outputFiles.ReplaceAll("AliAOD.root ","");
1610        listaods.ReplaceAll("AliAOD.root ","");
1611      }
1612      if(!(kSaveAOD&(1<<1))){
1613        if(kDeltaAODJetName.Length())outputFiles.ReplaceAll(kDeltaAODJetName.Data(),"");
1614        if(kDeltaAODJetName.Length())listaods.ReplaceAll(kDeltaAODJetName.Data(),"");
1615
1616      }
1617      if(!(kSaveAOD&(1<<2))){
1618        if(kDeltaAODPartCorrName.Length())outputFiles.ReplaceAll(kDeltaAODPartCorrName.Data(),"");
1619        if(kDeltaAODPartCorrName.Length())listaods.ReplaceAll(kDeltaAODPartCorrName.Data(),"");
1620      }
1621      if(!(kSaveAOD&(1<<3))){
1622        if(kDeltaAODJCORRANName.Length())outputFiles.ReplaceAll(kDeltaAODJCORRANName.Data(),"");
1623        if(kDeltaAODJCORRANName.Length())listaods.ReplaceAll(kDeltaAODJCORRANName.Data(),"");
1624      }
1625
1626      //
1627      Printf("%s:%d Saving the files %s",(char*)__FILE__,__LINE__,outputFiles.Data());
1628      plugin->SetOutputFiles(outputFiles.Data());
1629    }
1630
1631    TString outputArchive;
1632    outputArchive = Form("log_archive.zip:std*@%s","disk=1");
1633    listaods.ReplaceAll(" ", ",");
1634    listhists.ReplaceAll(" ", ",");
1635    if (listhists.Length()){
1636      outputArchive += " ";
1637      outputArchive += "root_archive.zip:";
1638      outputArchive += listhists;
1639      if (listaods.Length()){
1640        outputArchive += ",";
1641        outputArchive += listaods;
1642      }
1643      outputArchive += Form("@%s", kGridOutputStorages.Data());
1644    }
1645    else{
1646
1647      if (listaods.Length()){
1648        // we have only aod'ish output
1649        outputArchive += " ";
1650        outputArchive += "root_archive.zip:";
1651        outputArchive += listaods;
1652        outputArchive += Form("@%s", kGridOutputStorages.Data());
1653      }
1654      else{
1655        // no other outputs than std..
1656       ::Fatal("AnalysisTrainPWG4Jets", "No task output !");
1657      }
1658    }
1659
1660    plugin->SetDefaultOutputs(kFALSE);
1661    plugin->SetOutputArchive(outputArchive);
1662
1663
1664    // Optionally set a name for the generated analysis macro (default MyAnalysis.C)
1665    plugin->SetAnalysisMacro(Form("%s.C", kTrainName.Data()));
1666    // Optionally set maximum number of input files/subjob (default 100, put 0 to ignore)
1667    plugin->SetSplitMaxInputFileNumber(kGridFilesPerJob);
1668    // Optionally set number of failed jobs that will trigger killing waiting sub-jobs.
1669    plugin->SetMaxInitFailed(5);
1670    // Optionally resubmit threshold.
1671    //   plugin->SetMasterResubmitThreshold(90);
1672    // Optionally set time to live (default 30000 sec)
1673    plugin->SetTTL(50400); // 14h...
1674    // Optionally set input format (default xml-single)
1675    plugin->SetInputFormat("xml-single");
1676    // Optionally modify the name of the generated JDL (default analysis.jdl)
1677    plugin->SetJDLName(Form("%s.jdl", kTrainName.Data()));
1678    // Optionally modify the executable name (default analysis.sh)
1679    plugin->SetExecutable(Form("%s.sh", kTrainName.Data()));
1680    // Optionally modify job price (default 1)
1681    plugin->SetPrice(1);
1682    // Optionally modify split mode (default 'se')
1683    plugin->SetSplitMode("se");
1684    return plugin;
1685 }
1686
1687 //______________________________________________________________________________
1688 void WriteConfig()
1689 {
1690 // Write train configuration in a file. The file name has the format:
1691 // train_[trainName]_ddMonthyyyy_time.C
1692    if (kUseDate) {
1693       gSystem->Exec("date +%d%b%Y_%Hh%M > date.tmp");
1694       ifstream fdate("date.tmp");
1695       if (!fdate.is_open()) {
1696          ::Error("AnalysisTrainPWG4Jets.C::Export","Could not generate file name");
1697          return;
1698       }
1699       const char date[64];
1700       fdate.getline(date,64);
1701       fdate.close();
1702       gSystem->Exec("rm date.tmp");
1703       kTrainName = Form("train_%s_%s", kTrainName.Data(), date);
1704    } else {
1705       kTrainName = Form("train_%s", kTrainName.Data());
1706    }
1707    TString cdir = gSystem->WorkingDirectory();
1708    gSystem->MakeDirectory(kTrainName);
1709    gSystem->ChangeDirectory(kTrainName);
1710    ofstream out;
1711    out.open(Form("%sConfig.C",kTrainName.Data()), ios::out);
1712    if (out.bad()) {
1713       ::Error("AnalysisTrainPWG4Jets.C::Export", "Cannot open ConfigTrain.C for writing");
1714       return;
1715    }
1716    out << "{" << endl;
1717    out << "   kTrainName      = " << "\"" << kTrainName.Data() << "\";" << endl;
1718    out << "   kProofCluster   = " << "\"" << kProofCluster.Data() << "\";" << endl;
1719    out << "   kProofUseAFPAR        = " << kProofUseAFPAR << ";" << endl;
1720    if (kProofUseAFPAR)
1721       out << "   kProofAFversion       = " << kProofAFversion.Data() << ";" << endl;
1722    out << "   kProofDataSet   = " << "\"" << kProofDataSet.Data() << "\";" << endl;
1723    out << "   kPluginUse       = " << kPluginUse << ";" << endl;
1724    out << "   kUsePAR          = " << kUsePAR << ";" << endl;
1725    out << "   kUseCPAR         = " << kUseCPAR << ";" << endl;
1726    out << "   kPluginRootVersion    = " << "\"" << kPluginRootVersion.Data() << "\";" << endl;
1727    out << "   kPluginAliRootVersion = " << "\"" << kPluginAliRootVersion.Data() << "\";" << endl;
1728    out << "   kGridDatadir   = " << "\"" << kGridDatadir.Data() << "\";" << endl;
1729    if (!kGridOutdir.Length()) kGridOutdir = Form("output_%s",kTrainName.Data());
1730    out << "   kGridOutdir    = " << "\"" << kGridOutdir.Data() << "\";" << endl;
1731    out << "   kGridMaxMergeFiles   = " << kGridMaxMergeFiles << ";" << endl;
1732    out << "   kGridMergeExclude    = " << "\"" << kGridMergeExclude.Data() << "\";" << endl;
1733    out << "   kGridRunsPerMaster  = " << kGridRunsPerMaster << ";" << endl;
1734    out << "   kGridFilesPerJob    = " << kGridFilesPerJob << ";" << endl;
1735    out << "   kGridRunRange[0]    = " << kGridRunRange[0] << ";" << endl;
1736    out << "   kGridRunRange[1]    = " << kGridRunRange[1] << ";" << endl;
1737    out << "   kUseDebug          = " << kUseDebug << ";" << endl;
1738    out << "   kUseMC           = " << kUseMC << ";" << endl;
1739    out << "   kUseESDTags         = " << kUseESDTags << ";" << endl;
1740    out << "   kUseKinefilter      = " << kUseKinefilter << ";" << endl;
1741    out << "   kUseTR           = " << kUseTR << ";" << endl;
1742    out << "   kUseAODTags      = " << kUseAODTags << ";" << endl;
1743    out << "   kSaveTrain       = " << "kFALSE;" << endl << endl;
1744    out << "   // Analysis modules" << endl;
1745    out << "   iAODanalysis    = " << iAODanalysis << ";" << endl;
1746    out << "   iAODhandler     = " << iAODhandler << ";" << endl;
1747    out << "   iESDfilter      = " << iESDfilter << ";" << endl;
1748    out << "   iJETAN          = " << iJETAN << ";" << endl;
1749    out << "// Configuration fot the wagons" << endl;
1750    out << "}" << endl;
1751    ::Info("AnalysisTrainPWG4Jets.C::WriteConfig", "Train configuration wrote to file %s", Form("config_%s.C", kTrainName.Data()));
1752    gSystem->ChangeDirectory(cdir);
1753 }
1754
1755 //______________________________________________________________________________
1756 Bool_t LoadConfig(const char *filename)
1757 {
1758 // Read train configuration from file
1759    if (gSystem->AccessPathName(filename)) {
1760       ::Error("AnalysisTrainPWG4Jets.C::LoadConfig", "Config file name not found");
1761       return kFALSE;
1762    }
1763    gROOT->ProcessLine(Form(".x %s", filename));
1764    ::Info("AnalysisTrainPWG4Jets.C::LoadConfig", "Train configuration loaded from file %s", filename);
1765    return kTRUE;
1766 }
1767
1768 Bool_t PatchJDL(){
1769   Printf(">>> Patching JDL");
1770   AliAnalysisManager *mgr = AliAnalysisManager::GetAnalysisManager();
1771   AliAnalysisAlien*    gridHandler = (AliAnalysisAlien*)mgr->GetGridHandler();
1772   TGridJDL *jdl = gridHandler->GetGridJDL();
1773   if(iJETAN)jdl->AddToPackages("fastjet","v2.4.0");
1774   gridHandler->WriteJDL(kFALSE);
1775   Printf("<<<  Patching JDL");
1776   return kTRUE;
1777 }
1778
1779 Bool_t PatchAnalysisMacro(){
1780   Printf(">>> Patching AnalysisMacro");
1781   gSystem->Exec(Form("mv %s.C %s.C_tmp",kTrainName.Data(),kTrainName.Data()));
1782
1783   ifstream in1;
1784   in1.open(Form("%s.C_tmp", kTrainName.Data()));
1785   char cLine[250];
1786   TString st;
1787   while(in1.getline(cLine,250)){
1788     st += cLine;
1789     st += "\n";
1790   }
1791   Int_t index= -1;
1792   index = st.Index("gSystem->Load(\"libPhysics\");");
1793   index += strlen("gSystem->Load(\"libPhysics\");");
1794   /*
1795     TObjArray *arr;
1796     TObjString *objstr;
1797     arr = anaLibs.Tokenize(" ");
1798     TIter next(arr);
1799
1800     add += "\n\n // added by CKB \n";
1801     while ((objstr=(TObjString*)next())){
1802       if(objstr->GetString().Contains("PWG3"))continue;
1803       if(objstr->GetString().EndsWith(".so"))add += Form("gSystem->Load(\"%s\");\n",objstr->GetString().Data());
1804     }
1805     delete arr;
1806     */
1807     //    add += Form("AliLog::SetGlobalLogLevel(%d);\n",AliLog::GetGlobalLogLevel());
1808   TString add = "";
1809
1810   if(index<0)Printf("%s:%d index out of bounds",(char*)__FILE__,__LINE__);
1811   add += "\n\n // added by CKB \n";
1812   if(kErrorIgnoreLevel>0)add += Form("gErrorIgnoreLevel = %d;\n",kErrorIgnoreLevel);
1813   add += "\n gSystem->AddIncludePath(\"./\"); \n";
1814   if(gGrid&&kPluginAliRootVersion.Length()==0){
1815     add += "\n // Dirty hack for TRD reference data \n";
1816     add += "\n gSystem->Setenv(\"ALICE_ROOT\",\"";
1817     add += Form("alien://%s/rootfiles/",gGrid->GetHomeDirectory());
1818     add += "\"); \n";
1819   }
1820   add += "// BKC \n\n";
1821   st.Insert(index,add.Data());
1822
1823   if(kUseDebug){
1824     //    st.Insert(index,"\n gROOT->ProcessLine(\".trace\"); // CKB \n");
1825   }
1826
1827   if(kUseCPAR&&kPluginAliRootVersion.Length()==0){
1828     index = st.Index("gSystem->AddIncludePath(\"-I$"); // uncommen $ALICE_ROOT include for par files
1829     if(index<0)Printf("%s:%d index out of bounds",(char*)__FILE__,__LINE__);
1830     st.Insert(index,"// CKB comment out whehn no aliroot is provided \n //");
1831   }
1832
1833   if(AliLog::GetGlobalLogLevel()==AliLog::kFatal){
1834     index = st.Index("AliLog::SetGlobal"); // ncomment setting of log level, do my own
1835     if(index<0)Printf("%s:%d index out of bounds",(char*)__FILE__,__LINE__);
1836     st.Insert(index,"AliLog::SetGlobalLogLevel(AliLog::kFatal);// CKB \n  // CKB comment out for own setting \n  //");
1837   }
1838
1839   ofstream out;
1840   out.open(Form("%s.C", kTrainName.Data()));
1841   if (out.bad()) {
1842     return kFALSE;
1843   }
1844   out << st << endl;
1845   Printf("<<< Patching AnalysisMacro");
1846
1847
1848
1849
1850
1851   Printf(">>> Patching Merge Macro");
1852   gSystem->Exec(Form("mv %s_merge.C %s_merge.C_tmp",kTrainName.Data(),kTrainName.Data()));
1853
1854   ifstream in2;
1855   in2.open(Form("%s_merge.C_tmp", kTrainName.Data()));
1856   TString st2;
1857   while(in2.getline(cLine,250)){
1858     st2 += cLine;
1859     st2 += "\n";
1860   }
1861   index = st2.Index("gSystem->Load(\"libPhysics\");");
1862   index += strlen("gSystem->Load(\"libPhysics\");");
1863   TString add2 = "";
1864   add2 += "\n gSystem->AddIncludePath(\"./\"); \n";
1865   if(gGrid&&kPluginAliRootVersion.Length()==0){
1866     add2 += "\n // Dirty hack for TRD reference data \n";
1867     add2 += "\n gSystem->Setenv(\"ALICE_ROOT\",\"";
1868     add2 += Form("alien://%s/rootfiles/",gGrid->GetHomeDirectory());
1869     add2 += "\"); \n";
1870   }
1871   add2 += "// BKC \n\n";
1872   if(index<0)Printf("%s:%d index out of bounds",(char*)__FILE__,__LINE__);
1873   st2.Insert(index,add.Data());
1874
1875
1876   if(kUseDebug){
1877     //    st2.Insert(index,"\n gROOT->ProcessLine(\".trace\"); // CKB \n");
1878   }
1879
1880   if(kUseCPAR&&kPluginAliRootVersion.Length()==0){
1881     index = st2.Index("gSystem->AddIncludePath(\"-I$"); // uncomment $ALICE_ROOT include for par files
1882     if(index<0)Printf("%s:%d index out of bounds",(char*)__FILE__,__LINE__);
1883     st2.Insert(index,"// CKB comment out whehn no aliroot is provided \n //");
1884   }
1885
1886   // do not exclude the extra files from merign, this is done explicitly in this train script
1887   index = st2.Index("mergeExcludes +="); // uncommen $ALICE_ROOT include for par files
1888   if(index<0)Printf("%s:%d index out of bounds",(char*)__FILE__,__LINE__);
1889   st2.Insert(index,"// CKB comment out, handled explicitly by the train macro \n //");
1890
1891
1892   ofstream out2;
1893   out2.open(Form("%s_merge.C", kTrainName.Data()));
1894   if (out2.bad()) {
1895     return kFALSE;
1896   }
1897   out2 << st2 << endl;
1898   Printf("<<< Patching Merging Macro");
1899
1900
1901
1902   return kTRUE;
1903
1904 }