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("$ALICE_ROOT/PWG4/macros/AddTaskFragmentationFunction.C");
 456        AliAnalysisTaskFragmentationFunction *taskFrag = 0;
 457      if(kUseAODMC){
 458        taskFrag = AddTaskFragmentationFunction(1<<1,kHighPtFilterMask);
 459        taskFrag = AddTaskFragmentationFunction(1<<2,kHighPtFilterMask);
 460        taskFrag = AddTaskFragmentationFunction(1<<3,kHighPtFilterMask);
 461        taskFrag = AddTaskFragmentationFunction(1<<11);  // w/o acceptance cuts
 462        taskFrag =  AddTaskFragmentationFunction(1<<12);  // with acceptance cuts
 463        // anti-kt
 464        taskFrag = AddTaskFragmentationFunction(1<<21);  // w/o acceptance cuts
 465        taskFrag = AddTaskFragmentationFunction(1<<22);  // with acceptance cuts
 466
 467      }
 468      else{
 469        taskFrag = AddTaskFragmentationFunction(1<<0,kHighPtFilterMask);
 470        taskFrag = AddTaskFragmentationFunction(1<<10,kHighPtFilterMask);
 471        taskFrag = AddTaskFragmentationFunction(1<<20,kHighPtFilterMask);
 472      }
 473
 474      if (!taskFrag) ::Warning("AnalysisTrainPWG4Jets", "AliAnalysisTaskFragmentationFunction cannot run for this train conditions - EXCLUDED");
 475    }
 476
 477
 478    if(iPWG4JetChem){
 479      gROOT->LoadMacro("$ALICE_ROOT/PWG4/macros/AddTaskJetChem.C");
 480      AliAnalysisTask *taskChem = AddTaskJetChem();
 481      if (!taskChem) ::Warning("AnalysisTrainPWG4Jets", "AliAnalysisTaskJetChem cannot run for this train conditions - EXCLUDED");
 482    }
 483
 484
 485    if(iPWG4JetServices){
 486      gROOT->LoadMacro("$ALICE_ROOT/PWG4/macros/AddTaskJetServices.C");
 487      AliAnalysisTaskJetServices *taskjetServ = 0;
 488      taskjetServ = AddTaskJetServices();
 489      if (!taskjetServ) ::Warning("AnalysisTrainPWG4Jets", "AliAnalysisTaskJetServices cannot run for this train conditions - EXCLUDED");
 490      if(kGridRunRange[0]>0)taskjetServ->SetRunRange(kGridRunRange[0],kGridRunRange[1]);
 491      else taskjetServ->SetRunRange(100000,150000);
 492      if(!kIsMC) taskjetServ->SetRealData(kTRUE);
 493      taskjetServ->SetUsePhysicsSelection((Bool_t)iPhysicsSelection);
 494      taskjetServ->SetDebugLevel(0);
 495    }
 496
 497    if(iPWG4JetSpectrum){
 498      gROOT->LoadMacro("$ALICE_ROOT/PWG4/macros/AddTaskJetSpectrum2.C");
 499      AliAnalysisTaskJetSpectrum2 *taskjetSpectrum = 0;
 500      if(iPWG4JetSpectrum&1){
 501        taskjetSpectrum = AddTaskJetSpectrum2("jets","","",kHighPtFilterMask,iPhysicsSelection);
 502        if(!iAODanalysis){
 503          //      taskjetSpectrum = AddTaskJetSpectrum2("jets","tracks32",32,iPhysicsSelection);       // tmp hack to give it a different name
 504          //      taskjetSpectrum = AddTaskJetSpectrum2("jets","64",64,iPhysicsSelection);
 505
 506          taskjetSpectrum = AddTaskJetSpectrum2("jetsAOD_FASTJET04","clustersAOD_ANTIKT04","",kHighPtFilterMask,iPhysicsSelection);
 507
 508          if(kIsMC){
 509
 510            UInt_t eventSelection =  AliAnalysisHelperJetTasks::kIsPileUp|AliAnalysisHelperJetTasks::kVertexIn;
 511            if(iPhysicsSelection)eventSelection |=  AliAnalysisHelperJetTasks::kPhysicsSelection;
 512            taskjetSpectrum = AddTaskJetSpectrum2("jetsAOD_FASTJET04","jetsAODMC_FASTJET04","",kHighPtFilterMask,iPhysicsSelection,eventSelection);
 513            taskjetSpectrum = AddTaskJetSpectrum2("jetsAOD_FASTJET04","jetsAODMC2_FASTJET04","",kHighPtFilterMask,iPhysicsSelection,eventSelection);
 514
 515            eventSelection =  AliAnalysisHelperJetTasks::kIsCosmic|AliAnalysisHelperJetTasks::kVertexIn;
 516            if(iPhysicsSelection)eventSelection |= AliAnalysisHelperJetTasks::kPhysicsSelection;
 517            taskjetSpectrum = AddTaskJetSpectrum2("jetsAOD_FASTJET04","jetsAODMC_FASTJET04","",kHighPtFilterMask,iPhysicsSelection,eventSelection);
 518
 519            eventSelection =  AliAnalysisHelperJetTasks::kNone;
 520            taskjetSpectrum = AddTaskJetSpectrum2("jetsAOD_FASTJET04","jetsAODMC2_FASTJET04","",kHighPtFilterMask,iPhysicsSelection,eventSelection);
 521            taskjetSpectrum = AddTaskJetSpectrum2("jetsAOD_FASTJET04","jetsAODMC_FASTJET04","",kHighPtFilterMask,iPhysicsSelection,eventSelection);
 522
 523          }
 524          else{
 525            UInt_t eventSelection =  AliAnalysisHelperJetTasks::kIsPileUp|AliAnalysisHelperJetTasks::kVertexIn;
 526            if(iPhysicsSelection)eventSelection |= AliAnalysisHelperJetTasks::kPhysicsSelection;
 527            taskjetSpectrum = AddTaskJetSpectrum2("jetsAOD_FASTJET04","","",kHighPtFilterMask,iPhysicsSelection,eventSelection);
 528
 529            eventSelection =  AliAnalysisHelperJetTasks::kIsCosmic|AliAnalysisHelperJetTasks::kVertexIn;
 530            if(iPhysicsSelection)eventSelection |= AliAnalysisHelperJetTasks::kPhysicsSelection;
 531            taskjetSpectrum = AddTaskJetSpectrum2("jetsAOD_FASTJET04","","",kHighPtFilterMask,iPhysicsSelection,eventSelection);
 532          }
 533        }
 534        if (!taskjetSpectrum) ::Warning("AnalysisTrainPWG4Jets", "AliAnalysisTaskJetSpectrum2 cannot run for this train conditions - EXCLUDED");
 535        //       taskjetSpectrum->SetDebugLevel(1);
 536      }
 537
 538      if(iPWG4JetSpectrum&2){
 539        UInt_t selection = 0;
 540        if(!iAODanalysis){
 541          selection = 0xffffff;
 542          // switch off 07 radii
 543          selection &= ~(1<<6)&~(1<<11)&~(1<<12)&~(1<<13)&~(1<<14);
 544        }
 545        else selection = 1<<0|1<<1|1<<2|1<<3|1<<4|1<<5|1<<7|1<<8|1<<9;
 546        AddTaskJetSpectrum2Delta(kHighPtFilterMask,kUseAODMC,iPhysicsSelection,selection,0,kTRUE);
 547      }
 548    }
 549    if(iPWG4JCORRAN){
 550      gROOT->LoadMacro("$ALICE_ROOT/PWG4/macros/AddTaskJCORRANTask.C");
 551      AliJCORRANTask* corran = AddTaskJCORRAN(kDeltaAODJCORRANName.Data(),0);
 552      if(!corran)::Warning("AnalysisTrainPWG4Jets", "AliJCORRANTask cannot run for this train conditions - EXCLUDED");
 553      else{
 554        if(kDeltaAODJCORRANName.Length()>0)mgr->RegisterExtraFile(kDeltaAODJCORRANName.Data());
 555      }
 556    }
 557
 558    if(iPWG4UE){
 559      gROOT->LoadMacro("$ALICE_ROOT/PWG4/macros/AddTaskUE.C");
 560      AliAnalysisTaskUE *taskUE = 0;
 561      if(iPWG4UE&1)taskUE = AddTaskUE();
 562      if(iPWG4UE&2){
 563        taskUE  =AddTaskUE("jetsAOD_CDF04","CDF", "LJ", "TRANSV","MSP"); //finder not yet in train
 564        //       taskUE  =AddTaskUE("jetsAOD_CDF07","CDF", "LJ", "TRANSV","MSP");
 565        taskUE  =AddTaskUE("jetsAOD_SISCONE04","CDF", "LJ", "TRANSV","MSP");
 566        //       taskUE  =AddTaskUE("jetsAOD_SISCONE07","CDF", "LJ", "TRANSV","MSP"); //finder not yet in train
 567        taskUE  =AddTaskUE("jetsAOD_ICDF","CDF","LJ","TRANSV","MSP");
 568        taskUE  =AddTaskUE("jetsAOD_FASTKT04","CDF", "LJ", "TRANSV","MSP");
 569        //       taskUE  =AddTaskUE("jetsAOD_FASTKT07","CDF", "LJ", "TRANSV","MSP"); //finder not yet in train
 570        taskUE  =AddTaskUE("jetsAOD_NONE","CDF", "MP_eta05", "TRANSV","MSP");
 571        taskUE  =AddTaskUE("jetsAOD_NONE","CDF", "MP_eta09", "TRANSV","MSP");
 572      }
 573
 574      if (!taskUE) ::Warning("AnalysisTrainPWG4Jets", "AliAnalysisTaskUE cannot run for this train conditions - EXCLUDED");
 575    }
 576
 577    if(iPWG4LeadingUE){
 578      gROOT->LoadMacro("$ALICE_ROOT/PWG4/macros/AddTaskLeadingTrackUE.C");
 579      AliAnalysisTaskLeadingTrackUE *taskLeadingUE = AddTaskLeadingTrackUE(kUseMC);
 580      if (!taskLeadingUE) ::Warning("AnalysisTrainPWG4Jets", "AliAnalysisTasLeadingTrackkUE cannot run for this train conditions - EXCLUDED");
 581      taskLeadingUE->SetFilterBit(64);
 582    }
 583
 584
 585    if(iPWG4CorrectionsUE){
 586      gROOT->LoadMacro("$ALICE_ROOT/PWG4/macros/AddTaskCorrectionsUE.C");
 587      AliAnalysisTaskCorrectionsUE *taskCorrectionsUE = 0;
 588      if(iPWG4CorrectionsUE&1)taskCorrectionsUE = AddTaskCorrectionsUE("jetsAOD_NONE","CDF","MP_eta05","TRANSV","MSP",kFALSE);
 589      if (!taskCorrectionsUE) ::Warning("AnalysisTrainPWG4Jets", "AliAnalysisTaskCorrectionsUE cannot run for this train conditions - EXCLUDED");
 590    }
 591
 592    if(iPWG4ThreeJets){
 593      gROOT->LoadMacro("$ALICE_ROOT/PWG4/macros/AddTaskThreeJets.C");
 594      AliAnalysisTaskThreeJets *taskThree = AddTaskThreeJets();
 595      if(!taskThree)::Warning("AnalysisTrainPWG4Jets", "AliAnalysisTaskThreets cannot run for this train conditions - EXCLUDED");
 596    }
 597    if(iPWG4PtQAMC){
 598      gROOT->LoadMacro("$ALICE_ROOT/PWG4/macros/AddTaskPWG4HighPtQAMC.C");
 599      AliPWG4HighPtQAMC *taskQAMC = AddTaskPWG4HighPtQAMC(kGridDataSet.Data());
 600      if (!taskQAMC) ::Warning("AnalysisTrainPWG4Jets", "AliAnalysisTaskQAMC cannot run for this train conditions - EXCLUDED");
 601    }
 602
 603    if(iPWG4PtQATPC){
 604      gROOT->LoadMacro("$ALICE_ROOT/PWG4/macros/AddTaskPWG4HighPtQATPConly.C");
 605      AliPWG4HighPtQATPConly *taskQATPC = 0;
 606      if(iPWG4PtQATPC&1)taskQATPC = AddTaskPWG4HighPtQATPConly(kGridDataSet.Data(),1);
 607      if(iPWG4PtQATPC&2)taskQATPC = AddTaskPWG4HighPtQATPConly(kGridDataSet.Data(),2);
 608
 609  if (!taskQATPC) ::Warning("AnalysisTrainPWG4Jets", "AliAnalysisTaskQATPC cannot run for this train conditions - EXCLUDED");
 610    }
 611
 612    if(iPWG4Cosmics){
 613      gROOT->LoadMacro("$ALICE_ROOT/PWG4/macros/AddTaskPWG4CosmicCandidates.C");
 614
 615      AliPWG4CosmicCandidates *taskPWG4CosmicCandidates = AddTaskPWG4CosmicCandidates(0);
 616      taskPWG4CosmicCandidates = AddTaskPWG4CosmicCandidates(1);
 617
 618      if (!taskPWG4CosmicCandidates) ::Warning("AnalysisTrainPWG4Jets", "AddTaskPWG4CosmicCandidates cannot run for this train conditions - EXCLUDED");
 619    }
 620
 621
 622    if(iPWG4PtSpectra){
 623      gROOT->LoadMacro("$ALICE_ROOT/PWG4/macros/AddTaskPWG4HighPtSpectra.C");
 624      AliPWG4HighPtSpectra *taskPtSpectra = AddTaskPWG4HighPtSpectra(kGridDataSet.Data());
 625      if (!taskPtSpectra) ::Warning("AnalysisTrainPWG4Jets", "AliAnalysisTaskPtSpectra cannot run for this train conditions - EXCLUDED");
 626    }
 627    if(iPWG4KMeans){
 628      gROOT->LoadMacro("$ALICE_ROOT/PWG4/macros/AddTaskKMeans.C");
 629      AliAnalysisTaskKMeans *taskKMeans = AddTaskKMeans();
 630      if (!taskKMeans) ::Warning("AnalysisTrainPWG4Jets", "AliAnalysisTaskKMenans cannot run for this train conditions - EXCLUDED");
 631    }
 632
 633    if(iPWG4PartCorr){
 634      gROOT->LoadMacro("$ALICE_ROOT/PWG4/macros/AddTaskPartCorr.C");
 635      AliAnalysisTaskParticleCorrelation *taskpartcorrPHOS = AddTaskPartCorr("AOD", "PHOS",kFALSE,kIsMC);
 636      if (!taskpartcorrPHOS) ::Warning("AnalysisTrainNew", "AliAnalysisTaskParticleCorrelation PHOS cannot run for this train conditions - EXCLUDED");
 637      AliAnalysisTaskParticleCorrelation *taskpartcorrEMCAL = AddTaskPartCorr("AOD", "EMCAL",kFALSE,kIsMC);
 638      if (!taskpartcorrEMCAL) ::Warning("AnalysisTrainNew", "AliAnalysisTaskParticleCorrelation EMCAL cannot run for this train conditions - EXCLUDED");
 639      if(kDeltaAODPartCorrName.Length()>0)mgr->RegisterExtraFile(kDeltaAODPartCorrName.Data());
 640    }
 641
 642    if(iPWG4CaloQA){
 643      gROOT->LoadMacro("$ALICE_ROOT/PWG4/macros/QA/AddTaskCalorimeterQA.C");
 644      AliAnalysisTaskParticleCorrelation *taskcaloQA =  AddTaskCalorimeterQA("ESD",kFALSE,kIsMC,kCaloQAOutputFileName.Data());
 645      if(!taskcaloQA)::Warning("AnalysisTrainNew", "AliAnalysisTaskParticleCorrelation QA cannot run - EXCLUDED");
 646      //  if(kCaloQAOutputFileName.Length()>0)mgr->RegisterExtraFile(kCaloQAOutputFileName.Data());
 647    }
 648
 649    if(iPWG4JetCorr){
 650      //     using namespace JetCorrelHD;
 651      TString cdir = gSystem->WorkingDirectory();
 652      gSystem->ChangeDirectory(gSystem->ExpandPathName("$ALICE_ROOT/PWG4/macros/"));
 653      gROOT->LoadMacro("$ALICE_ROOT/PWG4/macros/AddTaskJetCorrel.C");
 654      AliAnalysisTaskJetCorrel *taskjetcorr = AddTaskJetCorrel();
 655      gSystem->ChangeDirectory(cdir);
 656      if (!taskjetcorr) ::Warning("AnalysisTrainNew", "AliAnalysisTaskJetCorrel  cannot run for this train conditions - EXCLUDED");
 657    }
 658
 659    if(iPWG4Tagged){
 660      gROOT->LoadMacro("$ALICE_ROOT/PWG4/macros/AddTaskTaggedPhotons.C");
 661      AliAnalysisTaskTaggedPhotons * taskTagged = AddTaskTaggedPhotons(kFALSE); // EMCAL
 662      taskTagged = AddTaskTaggedPhotons(kTRUE); // PHOS
 663      if (!taskTagged) ::Warning("AnalysisTrainNew", "AliAnalysisTaskTaggedPhotons  cannot run for this train conditions - EXCLUDED");
 664    }
 665    if (iPWG4omega3pi) {
 666      gROOT->LoadMacro("$ALICE_ROOT/PWG4/macros/AddTaskomega3pi.C");
 667      AliAnalysisTaskOmegaPi0PiPi *taskomega3pi = AddTaskomega3pi();
 668      if (!taskomega3pi) ::Warning("AnalysisTrainNew", "AliAnalysisTaskomega3pi cannot run\
 669  for these train conditions - EXCLUDED");
 670    }
 671
 672    // PWG4 gamma conversion analysis
 673    if (iPWG4GammaConv) {
 674       gROOT->LoadMacro("$ALICE_ROOT/PWG4/macros/AddTaskGammaConversion.C");
 675       TString cdir = gSystem->WorkingDirectory();
 676       gSystem->ChangeDirectory(gSystem->ExpandPathName("$ALICE_ROOT/PWG4/macros/"));
 677       //      TString gcArguments = "-run-on-train -run-jet -run-chic -run-neutralmeson -run-cf";
 678       //      TString gcArguments = "-run-on-train -run-jet -run-neutralmeson -run-cf -use-own-xyz";
 679       //      TString gcArguments = "-run-on-train -run-jet -run-neutralmeson -run-cf -use-own-xyz";
 680       TString gcArguments = "-run-on-train -run-jet -run-omega-meson -run-neutralmeson -no-aod";
 681       TString kGCAnalysisCutSelectionId="900356200010031";
 682       gcArguments.Append(Form(" -set-cut-selection %s ",kGCAnalysisCutSelectionId.Data()));
 683       if(!kIsMC)gcArguments += " -mc-off";
 684       AliAnalysisTaskGammaConversion * taskGammaConversion = AddTaskGammaConversion(gcArguments,mgr->GetCommonInputContainer());
 685       gSystem->ChangeDirectory(cdir);
 686       taskGammaConversion->SelectCollisionCandidates();
 687       if (!taskGammaConversion) ::Warning("AnalysisTrainNew", "AliAnalysisTaskGammaConversion cannot run for these train conditions - EXCLUDED");
 688    }
 689
 690    if (iPWG4CaloConv) {
 691       gROOT->LoadMacro("$ALICE_ROOT/PWG4/macros/AddTaskCaloConv.C");
 692       AliAnalysisTaskCaloConv * taskCaloConv = AddTaskCaloConv();
 693       if (!taskCaloConv) ::Warning("AnalysisTrainNew", "AliAnalysisTaskCaloConv cannot run for these train conditions - EXCLUDED");
 694    }
 695
 696
 697
 698    //==========================================================================
 699    // FOR THE REST OF THE TASKS THE MACRO AddTaskXXX() is not yet implemented/
 700    // Run the analysis
 701    //
 702    if (kPluginUse) {
 703       AliAnalysisGrid *alienHandler = CreateAlienHandler(plugin_mode);
 704       AliAnalysisManager::GetAnalysisManager()->SetGridHandler(alienHandler);
 705    }
 706
 707    if (mgr->InitAnalysis()) {
 708      mgr->PrintStatus();
 709      // if (kSaveTrain || strlen(config_file)) gSystem->ChangeDirectory(kTrainName);
 710      if (!strcmp(plugin_mode,"submit")&&smode=="GRID"){
 711        TString alien_workdir = gGrid->GetHomeDirectory();
 712        if (iAODanalysis) alien_workdir += "analysisAOD";
 713        else              alien_workdir += "analysisESD";
 714        if(kGridDataSet.Length()>0)alien_workdir += Form("/%s",kGridDataSet.Data());
 715        AliAnalysisAlien *gridhandler = (AliAnalysisAlien*)mgr->GetGridHandler();
 716        printf("=== AnalysisTrainPWG4Jets:: Registering jdl in the work directory alien://%s/%s, should be done by the manager! ===\n",
 717               alien_workdir.Data(),gridhandler->GetGridOutputDir());
 718
 719        TString dest;
 720        dest = Form("%s/%s/%s.jdl",alien_workdir.Data(),gridhandler->GetGridOutputDir(),kTrainName.Data());
 721        if(AliAnalysisAlien::FileExists(dest.Data())){
 722          //      Printf("%s exist on grid removing...",dest.Data());
 723          //      gGrid->Rm(dest.Data());
 724        }
 725        TFile::Cp(Form("file:%s.jdl",kTrainName.Data()),Form("alien://%s",dest.Data()));
 726
 727
 728        TString dest;
 729        dest = Form("%s/%s/%s_merge.jdl",alien_workdir.Data(),gridhandler->GetGridOutputDir(),kTrainName.Data());
 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_merge.jdl",kTrainName.Data()),Form("alien://%s",dest.Data()));
 735
 736
 737        dest = Form("%s/rootfiles/STEER/LQ1dRef_v1.root",gGrid->GetHomeDirectory());
 738        if(AliAnalysisAlien::FileExists(dest.Data())){
 739          Printf("%s exist on grid removing...",dest.Data());
 740          gGrid->Rm(dest.Data());
 741        }
 742        TFile::Cp(Form("file:%s/STEER/LQ1dRef_v1.root",
 743                       gSystem->ExpandPathName("$ALICE_ROOT")),Form("alien://%s",dest.Data()));
 744      }
 745      AliLog::SetGlobalLogLevel(AliLog::kError);
 746      if((kUseSysInfo>0&&smode=="LOCAL")||!strcmp(plugin_mode, "test")){
 747        TFile * fM = TFile::Open("manager_local.root","RECREATE");
 748        mgr->Write();
 749        fM->Close();
 750      }
 751
 752      // grmpf, aliroot error handler overwrites root
 753      gErrorIgnoreLevel = kErrorIgnoreLevel;
 754      if(gErrorIgnoreLevel>3000) AliLog::SetGlobalLogLevel(AliLog::kFatal);
 755      StartAnalysis(smode, chain);
 756      if((kUseSysInfo>0&&smode=="LOCAL")||!strcmp(plugin_mode, "test")){
 757        for(int i = 0;i < mgr->GetTopTasks()->GetEntries();i++){
 758          mgr->ProfileTask(i);
 759        }
 760      }
 761      if (!strcmp(plugin_mode, "offline")&&smode=="GRID"){
 762        // Offline mode path files
 763        //       PatchJDL();
 764        PatchAnalysisMacro();
 765      }
 766
 767      if (kSaveTrain && smode=="GRID") {
 768        AliAnalysisAlien *gridhandler = (AliAnalysisAlien*)mgr->GetGridHandler();
 769        TString alien_workdir = gGrid->GetHomeDirectory();
 770        if (iAODanalysis) alien_workdir += "analysisAOD";
 771        else              alien_workdir += "analysisESD";
 772        if(kGridDataSet.Length()>0)alien_workdir += Form("/%s",kGridDataSet.Data());
 773        //     kGridOutdir = gridhandler->GetGridOutputDir();
 774        printf("=== Registering ConfigTrain.C in the work directory <%s> ===\n",
 775                 alien_workdir.Data());
 776        if (AliAnalysisAlien::FileExists(Form("%s/%sConfig.C", alien_workdir.Data(), kTrainName.Data())))
 777          gGrid->Rm(Form("%s/%sConfig.C", alien_workdir.Data(), kTrainName.Data()));
 778        if (strcmp(plugin_mode, "test"))
 779          TFile::Cp(Form("file:%sConfig.C",kTrainName.Data()), Form("alien://%s/%sConfig.C", alien_workdir.Data(), kTrainName.Data()));
 780      }
 781    }
 782 }
 783
 784 //______________________________________________________________________________
 785 void StartAnalysis(const char *mode, TChain *chain) {
 786 // Start analysis.
 787    Int_t imode = -1;
 788    AliAnalysisManager *mgr = AliAnalysisManager::GetAnalysisManager();
 789    if (!strcmp(mode, "LOCAL")) imode = 0;
 790    if (!strcmp(mode, "PROOF")) imode = 1;
 791    if (!strcmp(mode, "GRID"))  imode = 2;
 792    switch (imode) {
 793       case 0:
 794          if (!chain) {
 795             ::Error("AnalysisTrainPWG4Jets.C::StartAnalysis", "Cannot create the chain");
 796             return;
 797          }
 798          mgr->StartAnalysis(mode, chain,kNumberOfEvents);
 799          return;
 800       case 1:
 801          if (!kProofDataSet.Length()) {
 802             ::Error("AnalysisTrainPWG4Jets.C::StartAnalysis", "kProofDataSet is empty");
 803             return;
 804          }
 805          mgr->StartAnalysis(mode, kProofDataSet, kProofEvents,kProofOffset);
 806          return;
 807       case 2:
 808          if (kPluginUse) {
 809             if (!mgr->GetGridHandler()) {
 810                ::Error("AnalysisTrainPWG4Jets.C::StartAnalysis", "Grid plugin not initialized");
 811                return;
 812             }
 813             mgr->StartAnalysis("grid",chain,kNumberOfEvents);
 814          } else {
 815             if (!chain) {
 816                ::Error("AnalysisTrainPWG4Jets.C::StartAnalysis", "Cannot create the chain");
 817                return;
 818             }
 819             mgr->StartAnalysis(mode, chain);
 820             mgr->StartAnalysis(mode, chain,kNumberOfEvents);
 821          }
 822          return;
 823    }
 824 }
 825
 826 //______________________________________________________________________________
 827 void CheckModuleFlags(const char *mode) {
 828 // Checks selected modules and insure compatibility
 829    Int_t imode = -1;
 830    if (!strcmp(mode, "LOCAL")) imode = 0;
 831    if (!strcmp(mode, "PROOF")) imode = 1;
 832    if (!strcmp(mode, "GRID"))  imode = 2;
 833
 834
 835    if (kUseCPAR) {
 836      kPluginAliRootVersion    = ""; // NO aliroot if we use CPAR
 837    }
 838
 839    if (imode==1) {
 840       if (!kUsePAR) {
 841          ::Info("AnalysisTrainPWG4Jets.C::CheckModuleFlags", "PAR files enabled due to PROOF analysis");
 842          kUsePAR = kTRUE;
 843       }
 844    }
 845    if (imode != 2) {
 846       ::Info("AnalysisTrainPWG4Jets.C::CheckModuleFlags", "AliEn plugin disabled since not in GRID mode");
 847       kPluginUse = kFALSE;
 848    }
 849
 850
 851    if(!kIsMC){
 852      // switch off anthin related to MC
 853      kUseMC = 0;
 854      kUseAODMC = 0;
 855      kUseTR = kFALSE;
 856    }
 857
 858    if (iAODanalysis) {
 859    // AOD analysis
 860       if (kUseMC)
 861          ::Info("AnalysisTrainPWG4Jets.C::CheckModuleFlags", "MC usage disabled in analysis on AOD's");
 862       if (kUseAODTags)
 863          ::Info("AnalysisTrainPWG4Jets.C::CheckModuleFlags", "AOD tags usage disabled in analysis on AOD's");
 864       kUseMC = kFALSE;
 865       kUseTR = kFALSE;
 866       kUseAODTags = kFALSE;
 867       if (iESDfilter)
 868          ::Info("AnalysisTrainPWG4Jets.C::CheckModuleFlags", "ESD filter disabled in analysis on AOD's");
 869       iESDfilter   = 0;
 870       if (iPhysicsSelection)
 871          ::Info("AnalysisTrainPWG4Jets.C::CheckModuleFlags", "Physics Selection disabled in analysis on AOD's");
 872       iPhysicsSelection   = 0;
 873       if (!iAODhandler) {
 874          if (iJETAN)
 875             ::Info("AnalysisTrainPWG4Jets.C::CheckModuleFlags", "JETAN disabled in analysis on AOD's without AOD handler");
 876          iJETAN = 0;
 877          iDIJETAN = 0;
 878       }
 879       // Disable tasks that do not work yet on AOD data
 880       if(iPWG4JCORRAN)::Info("AnalysisTrainPWG4Jets.C::CheckModuleFlags", "PWG4 JCORRAN disabled in analysis on AOD's");
 881       iPWG4JCORRAN = 0;
 882       if( iPWG4PtQAMC)::Info("AnalysisTrainPWG4Jets.C::CheckModuleFlags", "PWG4 PtQAMC disabled in analysis on AOD's");
 883       iPWG4PtQAMC        = 0;
 884       if( iPWG4PtQATPC)::Info("AnalysisTrainPWG4Jets.C::CheckModuleFlags", "PWG4 PtTPC disabled in analysis on AOD's");
 885       iPWG4PtQATPC        = 0;
 886       if( iPWG4Cosmics)::Info("AnalysisTrainPWG4Jets.C::CheckModuleFlags", "PWG4 Comics disabled in analysis on AOD's");
 887       iPWG4Cosmics        = 0;
 888
 889       if( iPWG4PtSpectra)::Info("AnalysisTrainPWG4Jets.C::CheckModuleFlags", "PWG4 PtQAMC disabled in analysis on AOD's");
 890       iPWG4PtSpectra     = 0;
 891       if(iPWG4KMeans)::Info("AnalysisTrainPWG4Jets.C::CheckModuleFlags", "PWG4KMeans disabled on AOD's");
 892       iPWG4KMeans       = 0;
 893       if (iPWG4JetCorr)::Info("AnalysisTrainPWG4Jets.C::CheckModuleFlags", "PWG4Jetcorr disabled on AOD's");
 894       iPWG4JetCorr = 0;
 895       if (iPWG4PartCorr)::Info("AnalysisTrainPWG4Jets.C::CheckModuleFlags", "PWG4partcorr disabled on AOD's");
 896       iPWG4PartCorr = 0;
 897       if (iPWG4CaloQA)::Info("AnalysisTrainPWG4Jets.C::CheckModuleFlags", "PWG4CaloQA disabled on AOD's");
 898       iPWG4CaloQA = 0;
 899       if (iPWG4Tagged)::Info("AnalysisTrainPWG4Jets.C::CheckModuleFlags", "PWG4tagged disabled on AOD's");
 900       iPWG4Tagged = 0;
 901       if (iPWG4omega3pi)
 902         ::Info("AnalysisTrainNew.C::CheckModuleFlags", "PWG4omega3pi disabled on AOD's");
 903       iPWG4omega3pi = 0;
 904       if(iPWG1QASym)::Info("AnalysisTrainPWG4Jets.C::CheckModuleFlags", "PWG1 QA Sym disabled in analysis on AOD's");
 905       if (iPWG4GammaConv)::Info("AnalysisPWG4Jets.C::CheckModuleFlags", "PWG4gammaconv disabled on AOD's");
 906       iPWG4GammaConv = 0;
 907       iPWG1QASym     = 0;
 908    } else {
 909    // ESD analysis
 910      if (!kUseMC){
 911        kUseTR = kFALSE;
 912
 913        if(kUseKinefilter)::Info("AnalysisTrainPWG4Jets.C::CheckModuleFlags", "PWG4 Kine Filter disabled in analysis without MC");
 914        kUseKinefilter = kFALSE;
 915        if( iPWG4PtQAMC)::Info("AnalysisTrainPWG4Jets.C::CheckModuleFlags", "PWG4 PtQAMC disabled in analysis without MC");
 916        iPWG4PtQAMC        = 0;
 917        if( iPWG4CorrectionsUE)::Info("AnalysisTrainPWG4Jets.C::CheckModuleFlags", "PWG4 CorrectionsUE disabled in analysis without MC");
 918        iPWG4CorrectionsUE = 0;
 919      }
 920      if (!kUseTR) {
 921        if(iPWG4PtQAMC)::Info("AnalysisTrainPWG4Jets.C::CheckModuleFlags", "iPWG4QATPCMC disabled if not reading track references");
 922        iPWG4PtQAMC        = 0;
 923      }
 924      if (iJETAN){
 925        iESDfilter=1;
 926      }
 927       if (!iESDfilter){
 928         kUseKinefilter = kFALSE;
 929         kUseMuonfilter = kFALSE;
 930       }
 931       if(!iJETAN){
 932         iPWG4JetSpectrum = iPWG4UE =  iPWG4CorrectionsUE = iPWG4ThreeJets = iDIJETAN = 0;
 933       }
 934    }
 935    iPWG4JetTasks = iPWG4JetServices||iPWG4JetSpectrum||iPWG4UE||iPWG4LeadingUE||iPWG4PtQAMC||iPWG4PtSpectra||iPWG4PtQATPC||iPWG4Cosmics||iPWG4ThreeJets||iPWG4JetChem||iPWG4Fragmentation;
 936    iPWG4PartCorrLibs = iPWG4PartCorr||iPWG4Tagged||iPWG4CaloQA;
 937    iPWG4GammaConvLib = iPWG4GammaConv||iPWG4CaloConv;
 938
 939
 940    iEMCUtilLibs = iPWG4PartCorrLibs||iPWG4JCORRAN||iPWG4GammaConvLib;
 941    iJETANLib = iPWG4JetTasks||iJETAN||iDIJETAN;
 942
 943    if (iESDfilter) {iAODhandler=1;}
 944    if (kUseKinefilter && !kUseMC) kUseKinefilter = kFALSE;
 945    if (kUseAODTags && !iAODhandler) kUseAODTags = kFALSE;
 946
 947
 948
 949 }
 950
 951 //______________________________________________________________________________
 952 Bool_t Connect(const char *mode) {
 953 // Connect <username> to the back-end system.
 954    Int_t imode = -1;
 955    if (!strcmp(mode, "LOCAL")) imode = 0;
 956    if (!strcmp(mode, "PROOF")) imode = 1;
 957    if (!strcmp(mode, "GRID"))  imode = 2;
 958    TString username = gSystem->Getenv("alien_API_USER");
 959    switch (imode) {
 960       case 0:
 961          break;
 962       case 1:
 963          if  (!username.Length()) {
 964             ::Error(Form("AnalysisTrainPWG4Jets.C::Connect <%s>", mode), "Make sure you:\n \
 965                            1. Have called: alien-token-init <username>\n \
 966                            2. Have called: >source /tmp/gclient_env_$UID");
 967             return kFALSE;
 968          }
 969          ::Info("AnalysisTrainPWG4Jets.C::Connect", "Connecting user <%s> to PROOF cluster <%s>",
 970                 username.Data(), kProofCluster.Data());
 971          gEnv->SetValue("XSec.GSI.DelegProxy", "2");
 972 //         TProof::Open(Form("%s@%s:31093", username.Data(), kProofCluster.Data()));
 973          TProof::Open(Form("%s@%s", username.Data(), kProofCluster.Data()));
 974          if (!gProof) {
 975             if (strcmp(gSystem->Getenv("XrdSecGSISRVNAMES"), "lxfsrd0506.cern.ch"))
 976                ::Error(Form("AnalysisTrainPWG4Jets.C::Connect <%s>", mode), "Environment XrdSecGSISRVNAMES different from lxfsrd0506.cern.ch");
 977             return kFALSE;
 978          }
 979          if(kProofClearPackages)gProof->ClearPackages();
 980
 981          if(kProofSaveToAlien){
 982            TGrid::Connect("alien://");
 983            if (gGrid) {
 984              TString homedir = gGrid->GetHomeDirectory();
 985              TString workdir = homedir + kTrainName;
 986              if (!gGrid->Cd(workdir)) {
 987                gGrid->Cd(homedir);
 988                if (gGrid->Mkdir(workdir)) {
 989                  gGrid->Cd(kTrainName);
 990                  ::Info("AnalysisTrainPWG4Jets::Connect()", "Directory %s created", gGrid->Pwd());
 991                }
 992              }
 993              gGrid->Mkdir("proof_output");
 994              gGrid->Cd("proof_output");
 995              kProofOutdir = Form("alien://%s", gGrid->Pwd());
 996            }
 997          }
 998          break;
 999       case 2:
1000          if  (!username.Length()) {
1001             ::Error(Form("AnalysisTrainPWG4Jets.C::Connect <%s>", mode), "Make sure you:\n \
1002                            1. Have called: alien-token-init <username>\n \
1003                            2. Have called: >source /tmp/gclient_env_$UID");
1004             return kFALSE;
1005          }
1006          if (kPluginUse && !gSystem->Getenv("alien_CLOSE_SE")) {
1007             ::Error(Form("AnalysisTrainPWG4Jets.C::Connect <%s>", mode),
1008                            "When using the AliEn plugin it is preferable to define the \
1009                            variable alien_CLOSE_SE in your environment.");
1010             return kFALSE;
1011          }
1012          ::Info("AnalysisTrainPWG4Jets.C::Connect", "Connecting user <%s> to AliEn ...",
1013                 username.Data());
1014          TGrid::Connect("alien://");
1015          if (!gGrid || !gGrid->IsConnected()) return kFALSE;
1016          break;
1017       default:
1018          ::Error("AnalysisTrainPWG4Jets.C::Connect", "Unknown run mode: %s", mode);
1019          return kFALSE;
1020    }
1021    ::Info("AnalysisTrainPWG4Jets.C::Connect","Connected in %s mode", mode);
1022    return kTRUE;
1023 }
1024
1025 //______________________________________________________________________________
1026 Bool_t LoadCommonLibraries(const char *mode)
1027 {
1028 // Load common analysis libraries.
1029    Int_t imode = -1;
1030    if (!strcmp(mode, "LOCAL")) imode = 0;
1031    if (!strcmp(mode, "PROOF")) imode = 1;
1032    if (!strcmp(mode, "GRID"))  imode = 2;
1033    if (!gSystem->Getenv("ALICE_ROOT")) {
1034       ::Error("AnalysisTrainPWG4Jets.C::LoadCommonLibraries", "Analysis train requires that ALICE_ROOT is set to pick up Configurations");
1035       return kFALSE;
1036    }
1037    Bool_t success = kTRUE;
1038    // ROOT libraries
1039    gSystem->Load("libTree.so");
1040    gSystem->Load("libGeom.so");
1041    gSystem->Load("libVMC.so");
1042    gSystem->Load("libPhysics.so");
1043
1044    // Load framework classes. Par option ignored here.
1045    switch (imode) {
1046       case 0:
1047       case 2:
1048          if (kUseCPAR) {
1049             success &= LoadLibrary("STEERBase", mode, kTRUE);
1050             success &= LoadLibrary("ESD", mode, kTRUE);
1051             success &= LoadLibrary("AOD", mode, kTRUE);
1052             success &= LoadLibrary("ANALYSIS", mode, kTRUE);
1053             success &= LoadLibrary("ANALYSISalice", mode, kTRUE);
1054             success &= LoadLibrary("CORRFW", mode, kTRUE);
1055          } else {
1056             success &= LoadLibrary("libSTEERBase.so", mode);
1057             success &= LoadLibrary("libESD.so", mode);
1058             success &= LoadLibrary("libAOD.so", mode);
1059             success &= LoadLibrary("libANALYSIS.so", mode);
1060             success &= LoadLibrary("libANALYSISalice.so", mode);
1061             success &= LoadLibrary("libCORRFW.so", mode);
1062             gROOT->ProcessLine(".include $ALICE_ROOT/include");
1063          }
1064          break;
1065       case 1:
1066          Int_t ires = -1;
1067          if (kProofUseAFPAR && !gSystem->AccessPathName(kProofAFversion)) ires = gProof->UploadPackage(kProofAFversion);
1068          if (ires < 0) {
1069             success &= LoadLibrary("STEERBase", mode);
1070             success &= LoadLibrary("ESD", mode);
1071             success &= LoadLibrary("AOD", mode);
1072             success &= LoadLibrary("ANALYSIS", mode);
1073             success &= LoadLibrary("ANALYSISalice", mode);
1074             success &= LoadLibrary("CORRFW", mode);
1075          } else {
1076             ires = gProof->EnablePackage(kProofAFversion);
1077             if (ires<0) success = kFALSE;
1078             success &= LoadLibrary("CORRFW", mode);
1079          }
1080          break;
1081       default:
1082          ::Error("AnalysisTrainPWG4Jets.C::LoadCommonLibraries", "Unknown run mode: %s", mode);
1083          return kFALSE;
1084    }
1085    if (success) {
1086       ::Info("AnalysisTrainPWG4Jets.C::LoadCommodLibraries", "Load common libraries:    SUCCESS");
1087       ::Info("AnalysisTrainPWG4Jets.C::LoadCommodLibraries", "Include path for Aclic compilation:\n%s",
1088               gSystem->GetIncludePath());
1089    } else {
1090       ::Info("AnalysisTrainPWG4Jets.C::LoadCommodLibraries", "Load common libraries:    FAILED");
1091    }
1092
1093    return success;
1094 }
1095
1096 //______________________________________________________________________________
1097 Bool_t LoadAnalysisLibraries(const char *mode)
1098 {
1099 // Load common analysis libraries.
1100   Bool_t success = kTRUE;
1101    if (iESDfilter) {
1102       if (!LoadLibrary("PWG3base", mode, kTRUE) ||
1103           !LoadLibrary("PWG3muon", mode, kTRUE)) return kFALSE;
1104    }
1105    // JETAN
1106    if (iJETANLib) {
1107      // this part needs some rework in case we do not need the fastjed finders for processing
1108      if (!LoadLibrary("JETAN", mode, kTRUE)) return kFALSE;
1109      if (!strcmp(mode, "PROOF")){
1110        gProof->Exec("gSystem->Load\(\"/afs/cern.ch/user/d/dperrino/public/libCGAL.so\"\)", kTRUE);
1111        gProof->Exec("gSystem->Load\(\"/afs/cern.ch/user/d/dperrino/public/libfastjet.so\"\)", kTRUE);
1112        // problem when loading siscone copiled with different gcc version??
1113        // gProof->Exec("gSystem->Load\(\"/afs/cern.ch/user/d/dperrino/public/libsiscone.so\"\)", kTRUE);
1114        gProof->Exec("gSystem->Load\(\"/afs/cern.ch/user/d/dperrino/public/libSISConePlugin.so\"\)", kTRUE);
1115      }
1116      if(!kUsePAR){
1117        if (!LoadLibrary("CGAL", mode, kTRUE)) return kFALSE;
1118        if (!LoadLibrary("fastjet", mode, kTRUE)) return kFALSE;
1119        if (!LoadLibrary("siscone", mode, kTRUE)) return kFALSE;
1120        if (!LoadLibrary("SISConePlugin", mode, kTRUE)) return kFALSE;
1121      }
1122      else{
1123        // par files plus FASTJET needs some extra work... need to change
1124        // the loading sequence in the auto generated .C file
1125        if (!LoadLibrary("libCGAL.so", mode, kTRUE)) return kFALSE;
1126        if (!LoadLibrary("libfastjet.so", mode, kTRUE)) return kFALSE;
1127        if (!LoadLibrary("libsiscone.so", mode, kTRUE)) return kFALSE;
1128        if (!LoadLibrary("libSISConePlugin.so", mode, kTRUE)) return kFALSE;
1129      }
1130      if (!LoadLibrary("FASTJETAN", mode, kTRUE)) return kFALSE;
1131    }
1132    if(iPWG4JetTasks){
1133      if (!LoadLibrary("PWG4JetTasks", mode, kTRUE)) return kFALSE;
1134    }
1135
1136    if(iPWG1QASym){
1137      if (!LoadSource(Form("%s/PWG1/AliAnalysisTaskQASym.cxx",gSystem->ExpandPathName("$ALICE_ROOT")), mode, kTRUE))return kFALSE;
1138    }
1139    if(iPWG4TmpSourceSara){
1140      if(!kUsePAR)gSystem->AddIncludePath("-I$ALICE_ROOT/include/JetTasks"); // ugly hack!!
1141      if(!LoadSource(Form("%s/PWG4/JetTasks/AliAnalysisTaskEta.cxx",gSystem->ExpandPathName("$ALICE_ROOT")), mode, kTRUE))return kFALSE;
1142    }
1143
1144    /*
1145    if(iPWG4JetChem){
1146      if(!kUsePAR)gSystem->AddIncludePath("-I$ALICE_ROOT/include/JetTasks"); // ugly hack!!
1147      if(!LoadSource(Form("%s/PWG4/JetTasks/AliAnalysisTaskJetChem.cxx",gSystem->ExpandPathName("$ALICE_ROOT")), mode, kTRUE))return kFALSE;
1148    }
1149    */
1150
1151    if(iEMCUtilLibs){
1152      if (!LoadLibrary("EMCALUtils", mode, kTRUE) ||
1153          !LoadLibrary("PHOSUtils", mode, kTRUE)) return kFALSE;
1154    }
1155
1156    if (iPWG4PartCorrLibs) {
1157       if (!LoadLibrary("PWG4PartCorrBase", mode, kTRUE) ||
1158           !LoadLibrary("PWG4PartCorrDep", mode, kTRUE)) return kFALSE;
1159    }
1160    if(iPWG4JCORRAN){
1161      // PWG4 particle correlations
1162      if(!LoadLibrary("PWG4JCORRAN",mode,kTRUE))return kFALSE;
1163    }
1164    if (iPWG4JetCorr) {
1165      if (!LoadLibrary("PWG4JetCorrel", mode, kTRUE)) return kFALSE;
1166    }
1167    if (iPWG4omega3pi) {
1168      if (!LoadLibrary("PWG4omega3pi", mode, kTRUE)) return kFALSE;
1169    }
1170    if (iPWG4GammaConvLib) {
1171       if (!LoadLibrary("PWG4GammaConv", mode, kTRUE)) return kFALSE;
1172    }
1173
1174    ::Info("AnalysisTrainPWG4Jets.C::LoadAnalysisLibraries", "Load other libraries:   SUCCESS");
1175    return kTRUE;
1176 }
1177
1178 //______________________________________________________________________________
1179 Bool_t LoadLibrary(const char *module, const char *mode, Bool_t rec=kFALSE)
1180 {
1181 // Load a module library in a given mode. Reports success.
1182    Int_t imode = -1;
1183    Int_t result;
1184    TString smodule(module);
1185    if (!strcmp(mode, "LOCAL")) imode = 0;
1186    if (!strcmp(mode, "PROOF")) imode = 1;
1187    if (!strcmp(mode, "GRID"))  imode = 2;
1188    TString mod(module);
1189    if (!mod.Length()) {
1190       ::Error("AnalysisTrainPWG4Jets.C::LoadLibrary", "Empty module name");
1191       return kFALSE;
1192    }
1193    // If a library is specified, just load it
1194    if (smodule.EndsWith(".so")) {
1195       mod.Remove(mod.Index(".so"));
1196       result = gSystem->Load(mod);
1197       if (result < 0) {
1198          ::Error("AnalysisTrainPWG4Jets.C::LoadLibrary", "Could not load library %s", module);
1199          return kFALSE;
1200       }
1201       if (rec) anaLibs += Form("%s.so ",mod.Data());
1202       if (rec) anaLibsExtra += Form("%s.so ",mod.Data());
1203       return kTRUE;
1204    }
1205    // Check if the library is already loaded
1206    if (strlen(gSystem->GetLibraries(Form("%s.so", module), "", kFALSE)) > 0)
1207       return kTRUE;
1208    switch (imode) {
1209       case 0:
1210       case 2:
1211          if (kUsePAR) {
1212             result = SetupPar(module);
1213             if (rec) anaPars += Form("%s.par ", module);
1214          } else {
1215             result = gSystem->Load(Form("lib%s.so", module));
1216             if (rec) anaLibs += Form("lib%s.so ", module);
1217          }
1218          break;
1219       case 1:
1220         if(!gSystem->AccessPathName(module)){
1221           ::Info("AnalysisTrainPWG4Jets.C::LoadLibrary", "Removing directory %s",module);
1222           gSystem->Exec(Form("rm -rf %s",module));
1223         }
1224          result = gProof->UploadPackage(module);
1225          if (result<0) {
1226             result = gProof->UploadPackage(gSystem->ExpandPathName(Form("$ALICE_ROOT/%s.par", module)));
1227             if (result<0) {
1228                ::Error("AnalysisTrainPWG4Jets.C::LoadLibrary", "Could not find module %s.par in current directory nor in $ALICE_ROOT", module);
1229                return kFALSE;
1230             }
1231          }
1232          result = gProof->EnablePackage(module);
1233          break;
1234       default:
1235          return kFALSE;
1236    }
1237    if (result < 0) {
1238       ::Error("AnalysisTrainPWG4Jets.C::LoadLibrary", "Could not load module %s", module);
1239       return kFALSE;
1240    }
1241    return kTRUE;
1242 }
1243
1244
1245
1246 //______________________________________________________________________________
1247 Bool_t LoadSource(const char *source, const char *mode, Bool_t rec=kFALSE)
1248 {
1249 // Load a module library in a given mode. Reports success.
1250    Int_t imode = -1;
1251    Int_t result = -1;
1252    if (!strcmp(mode, "LOCAL")) imode = 0;
1253    if (!strcmp(mode, "PROOF")) imode = 1;
1254    if (!strcmp(mode, "GRID"))  imode = 2;
1255    TString ssource(source);
1256    TString basename = gSystem->BaseName(ssource.Data());
1257    if (!ssource.Length()) {
1258       ::Error("AnalysisTrainPWG4Jets.C::LoadSource", "Empty task name");
1259       return kFALSE;
1260    }
1261    // we have a source code so compile it
1262    if (ssource.EndsWith(".cxx")) {
1263      // need to copy it here other wise the path is also used on grid...
1264      ssource.Remove(ssource.Index(".cxx"));
1265      basename.Remove(basename.Index(".cxx"));
1266      Printf("LoadSources:: Copying...  path %s{cxx,h}",ssource.Data());
1267      gSystem->Exec(Form("cp %s.cxx . ",ssource.Data()));
1268      gSystem->Exec(Form("cp %s.h . ",ssource.Data()));
1269      // Path to code
1270      // only needed for local compilation, in grid and proof mode
1271      // the task headers are uploaded
1272      //     path.Remove(path.Index(gSystem->BaseName(path.Data())));
1273      // Printf("LoadSources:: Including path %s",path.Data());
1274      //  if(path.Length()>0)gROOT->ProcessLine(Form(".include %s",path.Data()));
1275      Printf("LoadSources:: Loading...  path %s",basename.Data());
1276      switch (imode) {
1277      case 0:
1278        result = gROOT->LoadMacro(Form("%s.cxx++g",basename.Data()));
1279        break;
1280      case 1:
1281        result = gProof->LoadMacro(Form("%s.cxx++g",basename.Data()));
1282        break;
1283      case 2:
1284        result = gROOT->LoadMacro(Form("%s.cxx++g",basename.Data()));
1285        if (rec){
1286          // what we want to compile
1287          anaSources += Form("%s.cxx ",basename.Data());
1288          // what we need as input...
1289          anaLibs += Form("%s.cxx %s.h ",basename.Data(),basename.Data());
1290        }
1291        break;
1292      default:
1293        return kFALSE;
1294      }
1295    }
1296    if (result < 0) {
1297       ::Error("AnalysisTrainPWG4Jets.C::LoadSources", "Could not load source %s", source);
1298       return kFALSE;
1299    }
1300    return kTRUE;
1301 }
1302
1303
1304 //______________________________________________________________________________
1305 TChain *CreateChain(const char *mode, const char *plugin_mode)
1306 {
1307 // Create the input chain
1308    Int_t imode = -1;
1309    if (!strcmp(mode, "LOCAL")) imode = 0;
1310    if (!strcmp(mode, "PROOF")) imode = 1;
1311    if (!strcmp(mode, "GRID"))  imode = 2;
1312    TChain *chain = NULL;
1313    // Local chain
1314    switch (imode) {
1315       case 0:
1316          if (iAODanalysis) {
1317             if (!kLocalXMLDataset.Length()) {
1318                // Local AOD
1319                chain = new TChain("aodTree");
1320                TString line;
1321                ifstream in;
1322                in.open(kLocalDataList.Data());
1323                while (in.good()) {
1324                  in >> line;
1325                  if (line.Length() == 0) continue;
1326                  // cout << " line = " << line << endl;
1327                  chain->Add(line.Data());
1328                }
1329             } else {
1330                // Interactive AOD
1331                chain = CreateChainSingle(kLocalXMLDataset, "aodTree");
1332             }
1333          } else {
1334            if (!kLocalXMLDataset.Length()) {
1335              // Local ESD
1336              chain = new TChain("esdTree");
1337              TString line;
1338              ifstream in;
1339              in.open(kLocalDataList.Data());
1340              while (in.good()) {
1341                in >> line;
1342                if (line.Length() == 0) continue;
1343                cout << " line = " << line << endl;
1344                chain->Add(line.Data());
1345              }
1346            } else {
1347              // Interactive ESD
1348                chain = CreateChainSingle(kLocalXMLDataset, "esdTree");
1349            }
1350          }
1351          break;
1352       case 1:
1353          break;
1354       case 2:
1355          if (kPluginUse) {
1356 //            AliAnalysisGrid *alienHandler = CreateAlienHandler(plugin_mode);
1357 //            AliAnalysisManager::GetAnalysisManager()->SetGridHandler(alienHandler);
1358          } else {
1359             TString           treeName = "esdTree";
1360             if (iAODanalysis) treeName = "aodTree";
1361             chain = CreateChainSingle("wn.xml", treeName);
1362          }
1363          break;
1364       default:
1365    }
1366    if (chain && chain->GetNtrees()) return chain;
1367    return NULL;
1368 }
1369
1370 //______________________________________________________________________________
1371 TChain* CreateChainSingle(const char* xmlfile, const char *treeName)
1372 {
1373    printf("*******************************\n");
1374    printf("*** Getting the ESD Chain   ***\n");
1375    printf("*******************************\n");
1376    TAlienCollection * myCollection  = TAlienCollection::Open(xmlfile);
1377
1378    if (!myCollection) {
1379       ::Error("AnalysisTrainPWG4Jets.C::CreateChainSingle", "Cannot create an AliEn collection from %s", xmlfile) ;
1380       return NULL ;
1381    }
1382
1383    TChain* chain = new TChain(treeName);
1384    myCollection->Reset() ;
1385    while ( myCollection->Next() ) chain->Add(myCollection->GetTURL("")) ;
1386    chain->ls();
1387    return chain;
1388 }
1389
1390 //______________________________________________________________________________
1391 Int_t SetupPar(char* pararchivename)
1392 {
1393    if (!pararchivename || !strlen(pararchivename)) return -1;
1394    char processline[1024];
1395    if (gSystem->AccessPathName(Form("%s.par", pararchivename))) {
1396       if (!gSystem->AccessPathName(Form("%s/%s.par", gSystem->Getenv("ALICE_ROOT"),pararchivename))) {
1397          ::Info("AnalysisTrainPWG4Jets.C::SetupPar", "Getting %s.par from $ALICE_ROOT", pararchivename);
1398         TFile::Cp(gSystem->ExpandPathName(Form("$ALICE_ROOT/%s.par", pararchivename)),
1399                   Form("%s.par",pararchivename));
1400       } else {
1401          ::Error("AnalysisTrainPWG4Jets.C::SetupPar", "Cannot find %s.par", pararchivename);
1402          return -1;
1403       }
1404    }
1405    if (kPluginUse && kSaveTrain) gSystem->Exec(Form("ln -s ../%s.par %s",pararchivename, kTrainName.Data()));
1406    gSystem->Exec(Form("tar xvzf %s.par", pararchivename));
1407
1408    TString ocwd = gSystem->WorkingDirectory();
1409    if (!gSystem->ChangeDirectory(pararchivename)) return -1;
1410
1411    // check for BUILD.sh and execute
1412    if (!gSystem->AccessPathName("PROOF-INF/BUILD.sh")) {
1413       printf("*******************************\n");
1414       printf("*** Building PAR archive    ***\n");
1415       printf("*******************************\n");
1416       if (gSystem->Exec("PROOF-INF/BUILD.sh")) {
1417          Error("runProcess","Cannot Build the PAR Archive! - Abort!");
1418          return -1;
1419       }
1420    }
1421
1422         // check for SETUP.C and execute
1423         if (!gSystem->AccessPathName("PROOF-INF/SETUP.C")) {
1424             printf("*******************************\n");
1425             printf("*** Setup PAR archive       ***\n");
1426             printf("*******************************\n");
1427             gROOT->Macro("PROOF-INF/SETUP.C");
1428         }
1429         if (!gSystem->ChangeDirectory(ocwd.Data())) return -1;
1430    return 0;
1431 }
1432
1433 //______________________________________________________________________________
1434 AliAnalysisAlien* CreateAlienHandler(const char *plugin_mode)
1435 {
1436 // Check if user has a valid token, otherwise make one. This has limitations.
1437 // One can always follow the standard procedure of calling alien-token-init then
1438 //   source /tmp/gclient_env_$UID in the current shell.
1439    if (!AliAnalysisGrid::CreateToken()) return NULL;
1440    AliAnalysisAlien *plugin = new AliAnalysisAlien();
1441 // Set the run mode (can be "full", "test", "offline", "submit" or "terminate")
1442    plugin->SetRunMode(plugin_mode);
1443    if (kPluginUseProductionMode) plugin->SetProductionMode();
1444    plugin->SetJobTag(kJobTag);
1445    plugin->SetNtestFiles(1);
1446 //   plugin->SetPreferedSE("ALICE::NIHAM::File");
1447 // Set versions of used packages
1448    plugin->SetAPIVersion("V1.1x");
1449    //   plugin->SetAPIVersion("V1.0x");
1450 //   plugin->SetAPIVersion("V2.4");
1451    plugin->SetROOTVersion(kPluginRootVersion);
1452    plugin->SetAliROOTVersion(kPluginAliRootVersion);
1453 // Declare input data to be processed.
1454 // Method 1: Create automatically XML collections using alien 'find' command.
1455 // Define production directory LFN
1456    plugin->SetGridDataDir(kGridDatadir.Data());
1457 // Set data search pattern
1458    if (iAODanalysis) plugin->SetDataPattern(" *AliAOD.root");
1459    else              plugin->SetDataPattern(Form(" %s/*/*ESD.tag.root",kGridPassPattern.Data()));
1460 // ...then add run numbers to be considered
1461 //   plugin->SetRunRange(kGridRunRange[0], kGridRunRange[1]);
1462    for (Int_t i=kGridRunRange[0]; i<=kGridRunRange[1]; i++) {
1463      Printf("AnalysisTrainPWG4Jets Adding run number %s", Form(kGridRunPattern.Data(),i));
1464      plugin->AddRunNumber(Form(kGridRunPattern.Data(),i));
1465    }
1466
1467    if(kGridLocalRunList.Length()>0){
1468      ifstream in1;
1469      in1.open(kGridLocalRunList.Data());
1470      int iRun;
1471
1472      /*
1473      char c;
1474      char cLine[250];
1475      while(!in1.eof()){
1476        c = in1.get();
1477        if ( (c >= '0') && (c <= '9') )
1478          {
1479            in1.putback (c);
1480            in1>>iRun;
1481            Printf("AnalysisTrainPWG4Jets Adding run number from File %s", Form(kGridRunPattern.Data(),iRun));
1482            plugin->AddRunNumber(Form(kGridRunPattern.Data(),iRun));
1483        }
1484      else
1485        {
1486          in1.putback (c);
1487          in1.getline(cLine,250);
1488
1489        }
1490      }
1491      */
1492
1493      Int_t nRun = 0;
1494
1495      // just use run numbers, negatives will be excluded
1496      while(in1>>iRun){
1497
1498        if(iRun>=0&&(nRun<kGridMaxRunsFromList)){
1499            Printf("AnalysisTrainPWG4Jets Adding run number from File %s", Form(kGridRunPattern.Data(),iRun));
1500            plugin->AddRunNumber(Form(kGridRunPattern.Data(),iRun));
1501            nRun++;
1502        }
1503        else{
1504          Printf("AnalysisTrainPWG4Jets Skipping run number from File %d", iRun);
1505        }
1506      }
1507    }
1508
1509 // Method 2: Declare existing data files (raw collections, xml collections, root file)
1510 // If no path mentioned data is supposed to be in the work directory (see SetGridWorkingDir())
1511 // XML collections added via this method can be combined with the first method if
1512 // the content is compatible (using or not tags)
1513 //   plugin->AddDataFile("tag.xml");
1514 //   plugin->AddDataFile("/alice/data/2008/LHC08c/000057657/raw/Run57657.Merged.RAW.tag.root");
1515 // Define alien work directory where all files will be copied. Relative to alien $HOME.
1516    TString alien_workdir = "";
1517
1518    if (iAODanalysis)  alien_workdir += "analysisAOD";
1519    else               alien_workdir += "analysisESD";
1520    if(kGridDataSet.Length()>0)alien_workdir += Form("/%s",kGridDataSet.Data());
1521    plugin->SetGridWorkingDir(alien_workdir.Data());
1522
1523    // Declare alien output directory. Relative to working directory.
1524    if (!kGridOutdir.Length()) kGridOutdir = Form("output_%s",kTrainName.Data());
1525    plugin->SetGridOutputDir(kGridOutdir);
1526
1527    // Add external packages
1528    if (iJETAN||iDIJETAN) {
1529       plugin->AddExternalPackage("boost::v1_43_0");
1530       plugin->AddExternalPackage("cgal::v3.6");
1531       plugin->AddExternalPackage("fastjet::v2.4.2");
1532    }
1533
1534
1535    // set extra libs before par file compilation
1536    anaLibs += kGridExtraFiles;
1537    anaLibs     = anaLibs.Strip();
1538    Printf("anaLibs %s",anaLibs.Data());
1539    Printf("anaLibsExtra %s",anaLibsExtra.Data());
1540
1541    if (anaLibs.Length())          plugin->SetAdditionalLibs(anaLibs.Data());
1542    if (anaLibsExtra.Length())     plugin->SetAdditionalRootLibs(anaLibsExtra.Data());
1543
1544    TString ana_sources = "";
1545    TString ana_add = "";
1546    if (kUsePAR && anaPars.Length()) {
1547       printf("%s\n", anaPars.Data());
1548       TObjArray *arr;
1549       TObjString *objstr;
1550       arr = anaPars.Tokenize(" ");
1551       TIter next(arr);
1552       while ((objstr=(TObjString*)next())) plugin->EnablePackage(objstr->GetString());
1553       delete arr;
1554    }
1555
1556 // Declare the analysis source files names separated by blancs. To be compiled runtime
1557 // using ACLiC on the worker nodes.
1558    ana_sources = anaSources.Strip();
1559 // Declare all libraries (other than the default ones for the framework. These will be
1560 // loaded by the generated analysis macro. Add all extra files (task .cxx/.h) here.
1561
1562    if (ana_sources.Length()) plugin->SetAnalysisSource(ana_sources);
1563    plugin->SetExecutableCommand(kPluginExecutableCommand.Data());
1564    // Declare the output file names separated by blancs.
1565    // (can be like: file.root or file.root@ALICE::Niham::File)
1566    plugin->SetMergeExcludes(kGridMergeExclude);
1567    plugin->SetMaxMergeFiles(kGridMaxMergeFiles);
1568    plugin->SetNrunsPerMaster(kGridRunsPerMaster);
1569    plugin->SetMergeViaJDL(kPluginMergeViaJDL);
1570    // Use fastread option
1571    plugin->SetFastReadOption(kPluginFastReadOption);
1572    // UseOverwrite mode
1573    plugin->SetOverwriteMode(kPluginOverwriteMode);
1574    // Optionally define the files to be archived.
1575    //   plugin->SetOutputArchive("log_archive.zip:stdout,stderr@ALICE::NIHAM::File root_archive.zip:AliAOD.root,AOD.tag.root@ALICE::NIHAM::File");
1576    plugin->SetOutputToRunNo(kPluginOutputToRunNumber);     // write the output to subdirs named after run number
1577
1578    // Put default output files to archive
1579    TString listhists = "";
1580    TString listaods  = "";
1581    AliAnalysisManager *mgr = AliAnalysisManager::GetAnalysisManager();
1582    TIter next(mgr->GetOutputs());
1583    AliAnalysisDataContainer *output;
1584    while ((output=(AliAnalysisDataContainer*)next())) {
1585       const char *filename = output->GetFileName();
1586       if (!(strcmp(filename, "default"))) {
1587         if (!mgr->GetOutputEventHandler()) continue;
1588          filename = mgr->GetOutputEventHandler()->GetOutputFileName();
1589          if (listaods.Length()) listaods += " ";
1590          listaods += filename;
1591       } else {
1592         if(!listhists.Contains(filename)){
1593           if (listhists.Length()) listhists += " ";
1594           listhists += filename;
1595         }
1596       }
1597    }
1598
1599    if (mgr->GetExtraFiles().Length()) {
1600      if (listaods.Length()) listaods += " ";
1601      listaods += mgr->GetExtraFiles();
1602    }
1603
1604    // if we do not fill the aod we do not need to store it
1605    //   kGridMergeExclude = listaods;
1606
1607    if(kSaveAOD!=0){
1608      TString outputFiles =  "";
1609      outputFiles += mgr->GetExtraFiles();
1610      if (listhists.Length()) outputFiles += " ";
1611      outputFiles += listhists;
1612      plugin->SetDefaultOutputs(kFALSE);
1613      Printf("%s:%d Starting with the files %s",(char*)__FILE__,__LINE__,outputFiles.Data());
1614      // remove
1615      // no harm done when we try to remove something that is not there :)
1616      if(!(kSaveAOD&(1<<0))){
1617        outputFiles.ReplaceAll("AliAOD.root ","");
1618        listaods.ReplaceAll("AliAOD.root ","");
1619      }
1620      if(!(kSaveAOD&(1<<1))){
1621        if(kDeltaAODJetName.Length())outputFiles.ReplaceAll(kDeltaAODJetName.Data(),"");
1622        if(kDeltaAODJetName.Length())listaods.ReplaceAll(kDeltaAODJetName.Data(),"");
1623
1624      }
1625      if(!(kSaveAOD&(1<<2))){
1626        if(kDeltaAODPartCorrName.Length())outputFiles.ReplaceAll(kDeltaAODPartCorrName.Data(),"");
1627        if(kDeltaAODPartCorrName.Length())listaods.ReplaceAll(kDeltaAODPartCorrName.Data(),"");
1628      }
1629      if(!(kSaveAOD&(1<<3))){
1630        if(kDeltaAODJCORRANName.Length())outputFiles.ReplaceAll(kDeltaAODJCORRANName.Data(),"");
1631        if(kDeltaAODJCORRANName.Length())listaods.ReplaceAll(kDeltaAODJCORRANName.Data(),"");
1632      }
1633
1634      //
1635      Printf("%s:%d Saving the files %s",(char*)__FILE__,__LINE__,outputFiles.Data());
1636      plugin->SetOutputFiles(outputFiles.Data());
1637    }
1638
1639    TString outputArchive;
1640    outputArchive = Form("log_archive.zip:std*@%s","disk=1");
1641    listaods.ReplaceAll(" ", ",");
1642    listhists.ReplaceAll(" ", ",");
1643    if (listhists.Length()){
1644      outputArchive += " ";
1645      outputArchive += "root_archive.zip:";
1646      outputArchive += listhists;
1647      if (listaods.Length()){
1648        outputArchive += ",";
1649        outputArchive += listaods;
1650      }
1651      outputArchive += Form("@%s", kGridOutputStorages.Data());
1652    }
1653    else{
1654
1655      if (listaods.Length()){
1656        // we have only aod'ish output
1657        outputArchive += " ";
1658        outputArchive += "root_archive.zip:";
1659        outputArchive += listaods;
1660        outputArchive += Form("@%s", kGridOutputStorages.Data());
1661      }
1662      else{
1663        // no other outputs than std..
1664       ::Fatal("AnalysisTrainPWG4Jets", "No task output !");
1665      }
1666    }
1667
1668    plugin->SetDefaultOutputs(kFALSE);
1669    plugin->SetOutputArchive(outputArchive);
1670
1671
1672    // Optionally set a name for the generated analysis macro (default MyAnalysis.C)
1673    plugin->SetAnalysisMacro(Form("%s.C", kTrainName.Data()));
1674    // Optionally set maximum number of input files/subjob (default 100, put 0 to ignore)
1675    plugin->SetSplitMaxInputFileNumber(kGridFilesPerJob);
1676    // Optionally set number of failed jobs that will trigger killing waiting sub-jobs.
1677    plugin->SetMaxInitFailed(5);
1678    // Optionally resubmit threshold.
1679    //   plugin->SetMasterResubmitThreshold(90);
1680    // Optionally set time to live (default 30000 sec)
1681    plugin->SetTTL(50400); // 14h...
1682    // Optionally set input format (default xml-single)
1683    plugin->SetInputFormat("xml-single");
1684    // Optionally modify the name of the generated JDL (default analysis.jdl)
1685    plugin->SetJDLName(Form("%s.jdl", kTrainName.Data()));
1686    // Optionally modify the executable name (default analysis.sh)
1687    plugin->SetExecutable(Form("%s.sh", kTrainName.Data()));
1688    // Optionally modify job price (default 1)
1689    plugin->SetPrice(1);
1690    // Optionally modify split mode (default 'se')
1691    plugin->SetSplitMode("se");
1692    return plugin;
1693 }
1694
1695 //______________________________________________________________________________
1696 void WriteConfig()
1697 {
1698 // Write train configuration in a file. The file name has the format:
1699 // train_[trainName]_ddMonthyyyy_time.C
1700    if (kUseDate) {
1701       gSystem->Exec("date +%d%b%Y_%Hh%M > date.tmp");
1702       ifstream fdate("date.tmp");
1703       if (!fdate.is_open()) {
1704          ::Error("AnalysisTrainPWG4Jets.C::Export","Could not generate file name");
1705          return;
1706       }
1707       const char date[64];
1708       fdate.getline(date,64);
1709       fdate.close();
1710       gSystem->Exec("rm date.tmp");
1711       kTrainName = Form("train_%s_%s", kTrainName.Data(), date);
1712    } else {
1713       kTrainName = Form("train_%s", kTrainName.Data());
1714    }
1715    TString cdir = gSystem->WorkingDirectory();
1716    gSystem->MakeDirectory(kTrainName);
1717    gSystem->ChangeDirectory(kTrainName);
1718    ofstream out;
1719    out.open(Form("%sConfig.C",kTrainName.Data()), ios::out);
1720    if (out.bad()) {
1721       ::Error("AnalysisTrainPWG4Jets.C::Export", "Cannot open ConfigTrain.C for writing");
1722       return;
1723    }
1724    out << "{" << endl;
1725    out << "   kTrainName      = " << "\"" << kTrainName.Data() << "\";" << endl;
1726    out << "   kProofCluster   = " << "\"" << kProofCluster.Data() << "\";" << endl;
1727    out << "   kProofUseAFPAR        = " << kProofUseAFPAR << ";" << endl;
1728    if (kProofUseAFPAR)
1729       out << "   kProofAFversion       = " << kProofAFversion.Data() << ";" << endl;
1730    out << "   kProofDataSet   = " << "\"" << kProofDataSet.Data() << "\";" << endl;
1731    out << "   kPluginUse       = " << kPluginUse << ";" << endl;
1732    out << "   kUsePAR          = " << kUsePAR << ";" << endl;
1733    out << "   kUseCPAR         = " << kUseCPAR << ";" << endl;
1734    out << "   kPluginRootVersion    = " << "\"" << kPluginRootVersion.Data() << "\";" << endl;
1735    out << "   kPluginAliRootVersion = " << "\"" << kPluginAliRootVersion.Data() << "\";" << endl;
1736    out << "   kGridDatadir   = " << "\"" << kGridDatadir.Data() << "\";" << endl;
1737    if (!kGridOutdir.Length()) kGridOutdir = Form("output_%s",kTrainName.Data());
1738    out << "   kGridOutdir    = " << "\"" << kGridOutdir.Data() << "\";" << endl;
1739    out << "   kGridMaxMergeFiles   = " << kGridMaxMergeFiles << ";" << endl;
1740    out << "   kGridMergeExclude    = " << "\"" << kGridMergeExclude.Data() << "\";" << endl;
1741    out << "   kGridRunsPerMaster  = " << kGridRunsPerMaster << ";" << endl;
1742    out << "   kGridFilesPerJob    = " << kGridFilesPerJob << ";" << endl;
1743    out << "   kGridRunRange[0]    = " << kGridRunRange[0] << ";" << endl;
1744    out << "   kGridRunRange[1]    = " << kGridRunRange[1] << ";" << endl;
1745    out << "   kUseDebug          = " << kUseDebug << ";" << endl;
1746    out << "   kUseMC           = " << kUseMC << ";" << endl;
1747    out << "   kUseESDTags         = " << kUseESDTags << ";" << endl;
1748    out << "   kUseKinefilter      = " << kUseKinefilter << ";" << endl;
1749    out << "   kUseTR           = " << kUseTR << ";" << endl;
1750    out << "   kUseAODTags      = " << kUseAODTags << ";" << endl;
1751    out << "   kSaveTrain       = " << "kFALSE;" << endl << endl;
1752    out << "   // Analysis modules" << endl;
1753    out << "   iAODanalysis    = " << iAODanalysis << ";" << endl;
1754    out << "   iAODhandler     = " << iAODhandler << ";" << endl;
1755    out << "   iESDfilter      = " << iESDfilter << ";" << endl;
1756    out << "   iJETAN          = " << iJETAN << ";" << endl;
1757    out << "// Configuration fot the wagons" << endl;
1758    out << "}" << endl;
1759    ::Info("AnalysisTrainPWG4Jets.C::WriteConfig", "Train configuration wrote to file %s", Form("config_%s.C", kTrainName.Data()));
1760    gSystem->ChangeDirectory(cdir);
1761 }
1762
1763 //______________________________________________________________________________
1764 Bool_t LoadConfig(const char *filename)
1765 {
1766 // Read train configuration from file
1767    if (gSystem->AccessPathName(filename)) {
1768       ::Error("AnalysisTrainPWG4Jets.C::LoadConfig", "Config file name not found");
1769       return kFALSE;
1770    }
1771    gROOT->ProcessLine(Form(".x %s", filename));
1772    ::Info("AnalysisTrainPWG4Jets.C::LoadConfig", "Train configuration loaded from file %s", filename);
1773    return kTRUE;
1774 }
1775
1776 Bool_t PatchJDL(){
1777   Printf(">>> Patching JDL");
1778   AliAnalysisManager *mgr = AliAnalysisManager::GetAnalysisManager();
1779   AliAnalysisAlien*    gridHandler = (AliAnalysisAlien*)mgr->GetGridHandler();
1780   TGridJDL *jdl = gridHandler->GetGridJDL();
1781   if(iJETAN)jdl->AddToPackages("fastjet","v2.4.0");
1782   gridHandler->WriteJDL(kFALSE);
1783   Printf("<<<  Patching JDL");
1784   return kTRUE;
1785 }
1786
1787 Bool_t PatchAnalysisMacro(){
1788   Printf(">>> Patching AnalysisMacro");
1789   gSystem->Exec(Form("mv %s.C %s.C_tmp",kTrainName.Data(),kTrainName.Data()));
1790
1791   ifstream in1;
1792   in1.open(Form("%s.C_tmp", kTrainName.Data()));
1793   char cLine[250];
1794   TString st;
1795   while(in1.getline(cLine,250)){
1796     st += cLine;
1797     st += "\n";
1798   }
1799   Int_t index= -1;
1800   index = st.Index("gSystem->Load(\"libPhysics\");");
1801   index += strlen("gSystem->Load(\"libPhysics\");");
1802   /*
1803     TObjArray *arr;
1804     TObjString *objstr;
1805     arr = anaLibs.Tokenize(" ");
1806     TIter next(arr);
1807
1808     add += "\n\n // added by CKB \n";
1809     while ((objstr=(TObjString*)next())){
1810       if(objstr->GetString().Contains("PWG3"))continue;
1811       if(objstr->GetString().EndsWith(".so"))add += Form("gSystem->Load(\"%s\");\n",objstr->GetString().Data());
1812     }
1813     delete arr;
1814     */
1815     //    add += Form("AliLog::SetGlobalLogLevel(%d);\n",AliLog::GetGlobalLogLevel());
1816   TString add = "";
1817
1818   if(index<0)Printf("%s:%d index out of bounds",(char*)__FILE__,__LINE__);
1819   add += "\n\n // added by CKB \n";
1820   if(kErrorIgnoreLevel>0)add += Form("gErrorIgnoreLevel = %d;\n",kErrorIgnoreLevel);
1821   add += "\n gSystem->AddIncludePath(\"./\"); \n";
1822   if(gGrid&&kPluginAliRootVersion.Length()==0){
1823     add += "\n // Dirty hack for TRD reference data \n";
1824     add += "\n gSystem->Setenv(\"ALICE_ROOT\",\"";
1825     add += Form("alien://%s/rootfiles/",gGrid->GetHomeDirectory());
1826     add += "\"); \n";
1827   }
1828   add += "// BKC \n\n";
1829   st.Insert(index,add.Data());
1830
1831   if(kUseDebug){
1832     //    st.Insert(index,"\n gROOT->ProcessLine(\".trace\"); // CKB \n");
1833   }
1834
1835   if(kUseCPAR&&kPluginAliRootVersion.Length()==0){
1836     index = st.Index("gSystem->AddIncludePath(\"-I$"); // uncommen $ALICE_ROOT include for par files
1837     if(index<0)Printf("%s:%d index out of bounds",(char*)__FILE__,__LINE__);
1838     st.Insert(index,"// CKB comment out whehn no aliroot is provided \n //");
1839   }
1840
1841   if(AliLog::GetGlobalLogLevel()==AliLog::kFatal){
1842     index = st.Index("AliLog::SetGlobal"); // ncomment setting of log level, do my own
1843     if(index<0)Printf("%s:%d index out of bounds",(char*)__FILE__,__LINE__);
1844     st.Insert(index,"AliLog::SetGlobalLogLevel(AliLog::kFatal);// CKB \n  // CKB comment out for own setting \n  //");
1845   }
1846
1847   ofstream out;
1848   out.open(Form("%s.C", kTrainName.Data()));
1849   if (out.bad()) {
1850     return kFALSE;
1851   }
1852   out << st << endl;
1853   Printf("<<< Patching AnalysisMacro");
1854
1855
1856
1857
1858
1859   Printf(">>> Patching Merge Macro");
1860   gSystem->Exec(Form("mv %s_merge.C %s_merge.C_tmp",kTrainName.Data(),kTrainName.Data()));
1861
1862   ifstream in2;
1863   in2.open(Form("%s_merge.C_tmp", kTrainName.Data()));
1864   TString st2;
1865   while(in2.getline(cLine,250)){
1866     st2 += cLine;
1867     st2 += "\n";
1868   }
1869   index = st2.Index("gSystem->Load(\"libPhysics\");");
1870   index += strlen("gSystem->Load(\"libPhysics\");");
1871   TString add2 = "";
1872   add2 += "\n gSystem->AddIncludePath(\"./\"); \n";
1873   if(gGrid&&kPluginAliRootVersion.Length()==0){
1874     add2 += "\n // Dirty hack for TRD reference data \n";
1875     add2 += "\n gSystem->Setenv(\"ALICE_ROOT\",\"";
1876     add2 += Form("alien://%s/rootfiles/",gGrid->GetHomeDirectory());
1877     add2 += "\"); \n";
1878   }
1879   add2 += "// BKC \n\n";
1880   if(index<0)Printf("%s:%d index out of bounds",(char*)__FILE__,__LINE__);
1881   st2.Insert(index,add.Data());
1882
1883
1884   if(kUseDebug){
1885     //    st2.Insert(index,"\n gROOT->ProcessLine(\".trace\"); // CKB \n");
1886   }
1887
1888   if(kUseCPAR&&kPluginAliRootVersion.Length()==0){
1889     index = st2.Index("gSystem->AddIncludePath(\"-I$"); // uncomment $ALICE_ROOT include for par files
1890     if(index<0)Printf("%s:%d index out of bounds",(char*)__FILE__,__LINE__);
1891     st2.Insert(index,"// CKB comment out whehn no aliroot is provided \n //");
1892   }
1893
1894   // do not exclude the extra files from merign, this is done explicitly in this train script
1895   index = st2.Index("mergeExcludes +="); // uncommen $ALICE_ROOT include for par files
1896   if(index<0)Printf("%s:%d index out of bounds",(char*)__FILE__,__LINE__);
1897   st2.Insert(index,"// CKB comment out, handled explicitly by the train macro \n //");
1898
1899
1900   ofstream out2;
1901   out2.open(Form("%s_merge.C", kTrainName.Data()));
1902   if (out2.bad()) {
1903     return kFALSE;
1904   }
1905   out2 << st2 << endl;
1906   Printf("<<< Patching Merging Macro");
1907
1908
1909
1910   return kTRUE;
1911
1912 }