edf44e1d6df6428337791ad3f87e8dd4c189f7bf
[u/mrichter/AliRoot.git] / 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 Bool_t      kFilterAOD = kTRUE;
36 Int_t       kSaveAOD = 8;        // Bit switch 1 = Full AOD 2 = Jet AOD , 4 = PartCorr, 8 = JCORRAN 
37 //== general input and output variables
38
39 Int_t       iAODanalysis       = 1;      // Analysis on input AOD's
40 Int_t       iAODhandler        = 1;      // Analysis produces an AOD or dAOD's
41 Int_t       iCentralitySelection  = 0;      // Use the centrality
42 Int_t       iESDfilter         = 0;      // ESD to AOD filter (barrel + muon tracks)
43 Int_t       iPhysicsSelection  = 1;      // ESD to AOD filter (barrel + muon tracks)
44 UInt_t      iPhysicsSelectionFlag = 1; // set by pyshics selection and passed to the task, kMB, kUserDefined etc
45 Bool_t      useTender           = kFALSE; // use tender wagon 
46 Bool_t      kUseKinefilter     = kFALSE; // use Kinematics filter
47 Bool_t      kUseMuonfilter     = kFALSE; // use Kinematics filter
48 TString     kCommonOutputFileName = "PWG4_JetTasksOutput.root";
49 TString     kCaloQAOutputFileName = "PWG4_CaloQAOutput.root";
50
51
52 //== general process variables
53
54 // ### Other flags to steer the analysis
55 //==============================================================================
56 Bool_t      kSkipTerminate      = kTRUE; // Do not call Teminate
57 Bool_t      kUseDate            = kFALSE; // use date in train name
58 Bool_t      kUseDebug           = kTRUE; // activate debugging
59 Int_t         kErrorIgnoreLevel = -1; // takes the errror print level from .rootrc 
60 // From TError.h:
61 // const Int_t kUnset    =  -1;
62 // const Int_t kPrint    =   0;
63 // const Int_t kInfo     =   1000;
64 // const Int_t kWarning  =   2000;
65 // const Int_t kError    =   3000;
66 // const Int_t kBreak    =   4000;
67 // const Int_t kSysError =   5000;
68 // const Int_t kFatal    =   6000; 
69 Int_t         kUseSysInfo         = 0; // activate debugging
70 Long64_t    kNumberOfEvents     = 1234567890; // number of events to process from the chain
71 Bool_t      kUseMC              = kTRUE;  // use MC info
72 Bool_t      kIsMC               = kTRUE;  // is MC info, if false it overwrites Use(AOD)MC
73 Bool_t      kUseAODMC           = kTRUE;  // use MC infA
74 Bool_t      kUseESDTags         = kFALSE; // use ESD tags for selection
75 Bool_t      kUseTR              = kFALSE;  // use track references
76 Bool_t      kUseAODTags         = kFALSE;  // use AOD tags
77 Bool_t      kSaveTrain          = kFALSE;  // save train configuration as: 
78 Bool_t      kIsPbPb             = kFALSE;  // Pb+Pb
79
80
81 // ### Analysis modules to be included. Some may not be yet fully implemented.
82 //==============================================================================
83 Int_t       iJETAN             = 1;      // Jet analysis (PWG4) // 1 write standard 2 write non-standard jets, 3 wrtie both
84 Int_t       iJETSUBTRACT        = 1;      // Jet background subtration
85 TString     kDefaultJetBranch     = "";      // is currently set when filled (iJETAN or clusters) or from config macro 
86 TString     kDefaultJetBackgroundBranch     = "";      // is currently set when filled (jet clsuters  
87 TString     kDefaultJetBackgroundBranch_extra     = "";      // is currently set when filled (jet clsuters  
88 TString     kJetSubtractBranches     = "";      // is currently set when filled (jet clsuters  
89 TString     kJetSubtractBranches_extra     = "";      // is currently set when filled (jet clsuters  
90
91 TString     kDefaultJetBranchMC     = "";      // is currently set when filled (iJETAN or clusters) or from config macro 
92 TString     kDefaultJetBackgroundBranchMC     = "";      // is currently set when filled (jet clsuters  
93 TString     kDefaultJetBranchMC2     = "";      // is currently set when filled (iJETAN or clusters) or from config macro 
94 TString     kDefaultJetBackgroundBranchMC2     = "";      // is currently set when filled (jet clsuters  
95 TString     kJetSubtractMask1 = "B0";
96 TString     kJetSubtractMask2 = "B%d";
97 Int_t       iDIJETAN           = 1;
98 Int_t       iJETANLib          = 1;
99 Int_t       iPWG1QASym         = 0;      // Eva's QA task compiled on the fly...
100 Int_t       iPWG4FastEmbedding = 0;      // Generate non-standard AOD for embedding
101 Int_t       iPWG4JetTasks      = 0;      // all jet tasks flag for lib laoding
102 Int_t       iPWG4JetServices   = 0;      // jet spectrum analysis
103 Int_t       iPWG4JetSpectrum   = 0;      // jet spectrum analysis
104 Int_t       iPWG4JetResponse   = 0;      // jet response matrix
105 Int_t       iPWG4JCORRAN       = 0;      // JCORRAN module
106 Int_t       iPWG4UE            = 0;      // Underlying Event analysis
107 Int_t       iPWG4LeadingUE     = 0;      // Underlying Event analysis
108 Int_t       iPWG4CorrectionsUE = 0;      // Underlying Event analysis
109 Int_t       iPWG4TmpSourceSara = 0;      // Underlying Event analysis not in svn
110 Int_t       iPWG4Fragmentation = 0;      // Official Fragmentation
111 Int_t       iPWG4JetChem       = 0;      // Jet chemistry 
112 Int_t       iPWG4PtQAMC        = 0;      // Marta's QA tasks 
113 Int_t       iPWG4PtSpectra     = 0;      // Marta's QA tasks 
114 Int_t       iPWG4PtQATPC       = 0;      // Marta's QA tasks 
115 Int_t       iPWG4Cosmics     = 0;      // Marta's Cosmics Taks 
116 Int_t       iPWG4ThreeJets     = 0;      // Sona's thrust task
117 Int_t       iPWG4QGSep     = 0;          // Sona's QG Separation task
118 Int_t       iPWG4Minijet       = 0;      // Eva's Mini Jet Task cluster task 
119 Int_t       iPWG4KMeans        = 0;      // Andreas' KMeans task 
120 Int_t       iPWG4Cluster       = 0;      // CKB cluster task 
121 Int_t       iEMCUtilLibs       = 0;      // Flag to satisfy dependence on EMC utils
122 Int_t       iPWG4PartCorrLibs  = 0;      // Gustavo's part corr analysis
123 Int_t       iPWG4PartCorr      = 0;      // Gustavo's part corr analysis
124 Int_t       iPWG4CaloQA        = 0;      // Gustavo's part corr analysis
125 Int_t       iPWG4JetCorr       = 0;     // Paul's jet corr analysis
126 Int_t       iPWG4Tagged        = 0;      // Gustavo's part corr analysis
127 Int_t       iPWG4omega3pi      = 0;      // Omega to 3 pi analysis (PWG4) 
128 Int_t       iPWG4GammaConvLib     = 0;      // Gamma Conversio
129 Int_t       iPWG4GammaConv     = 0;      // Gamma Conversio
130 Int_t       iPWG4CaloConv     = 0;      // Gamma Conversio
131 Int_t       kHighPtFilterMask  = 32;     // change depending on the used AOD Filter
132 TString     kDeltaAODJetName   = "AliAOD.Jets.root";     
133 TString     kDeltaAODJCORRANName   = "AliAOD.JCORRAN.root";     
134 TString     kDeltaAODPartCorrName   = "AliAOD.PartCorr.root";     
135 TString     kFastEmbeddingAOD  = "emb/AliAOD.root";
136 TString     kFastEmbAODList    = "";
137
138 //==============================================================================
139 // ### PROOF Steering varibales
140 //==============================================================================
141 //== proof setup variables
142 TString     kProofCluster      = "alicecaf.cern.ch";
143 Bool_t      kProofUseAFPAR     = kFALSE;  // use AF special par file
144 TString     kProofAFversion          = "AF-v4-17";
145 //== proof input and output variables
146 TString     kProofDataSet      = "/COMMON/COMMON/LHC09a4_run8100X#/esdTree";
147 Bool_t      kProofSaveToAlien   = kFALSE; // save proof outputs in AliEn train_[trainName]_ddMonthyyyy_time.C
148 TString     kProofOutdir       = "";
149 Bool_t      kProofClearPackages = kFALSE;
150 Int_t       kProofEvents = 10000;
151 Int_t       kProofOffset = 0;
152 //== proof process variables
153
154
155 //==============================================================================
156 // ### Grid plugin Steering varibiables
157 //==============================================================================
158 //== grid plugin setup variables
159 Bool_t      kPluginUse         = kTRUE;   // do not change
160 Bool_t      kPluginUseProductionMode  = kFALSE;   // use the plugin in production mode
161 TString     kPluginRootVersion       = "v5-27-06b";  // *CHANGE ME IF MORE RECENT IN GRID*
162 TString     kPluginAliRootVersion    = "v4-19-15-AN";  // *CHANGE ME IF MORE RECENT IN GRID*                                          
163 Bool_t      kPluginMergeViaJDL       = kTRUE;  // merge via JDL
164 Bool_t      kPluginFastReadOption   = kFALSE;  // use xrootd tweaks
165 Bool_t      kPluginOverwriteMode    = kTRUE;  // overwrite existing collections
166 Int_t       kPluginOutputToRunNumber = 1;     // write the output to subdirs named after run number
167 // TString kPluginExecutableCommand = "root -b -q";
168 TString     kPluginExecutableCommand = "source /Users/kleinb/setup_32bit_aliroot_trunk_clean_root_trunk.sh; alienroot -b -q ";
169
170 // == grid plugin input and output variables
171 TString     kGridDatadir      = "/alice/sim/PDC_08b/LHC09a1/AOD/";
172 Int_t         kGridMaxRunsFromList = 999999999;
173 Int_t         kGridOffsetRunFromList = 0; // skip the first n runs from the list
174 TString     kGridLocalRunList = "";
175 TString     kGridOutdir       = ""; // AliEn output directory. If blank will become output_<kTrainName>
176 TString     kGridDataSet      = ""; // sub working directory not to confuse different run xmls 
177 Int_t         kGridRunRange[2]       =  {0, -1}; // Set the run range
178 TString     kGridRunPattern        = "%03d"; // important for leading zeroes!!
179 TString     kGridPassPattern       = "";
180 TString     kGridExtraFiles        = ""; // files that will be added to the input list in the JDL...
181 Int_t         kGridMaxMergeFiles      = 25; // Number of files merged in a chunk grid run range
182 TString     kGridMergeExclude       = "AliAOD.root"; // Files that should not be merged
183 TString     kGridOutputStorages      = "disk=2"; // Make replicas on the storages
184 // == grid process variables
185 Int_t       kGridRunsPerMaster     = 100; // Number of runs per master job
186 Int_t       kGridFilesPerJob       = 100; // Maximum number of files per job (gives size of AOD)
187
188 //==============================================================================
189 // ### Local Steering variables
190 //==============================================================================
191 //== local setup variables
192 //== local input and output variables
193 TString     kLocalXMLDataset   = ""; // Change local xml dataset for local interactive analysis
194 TString     kLocalDataList   = "local_deltaaod.txt"; // Change local xml dataset for local interactive analysis
195 // == local process variables
196
197 TString kPluginMode = "";
198 TString kAnalysisMode = "";
199
200
201 // Temporaries.
202 TString anaPars = "";
203 TString anaLibs = "";
204 TString anaLibsExtra = "";
205 TString anaSources = "";
206 // Function signatures
207 class AliAnalysisAlien;
208
209 //______________________________________________________________________________
210 void AnalysisTrainPWG4Jets(const char *analysis_mode="local", 
211                            const char *plugin_mode="",
212                            const char *config_file="",Int_t iOffset = 0,Int_t iTotal = 0)
213 {
214 // Main analysis train macro. If a configuration file is provided, all parameters
215 // are taken from there but may be altered by CheckModuleFlags.
216
217   // these flag may be needed by the config file
218   kPluginMode   = plugin_mode;
219   kAnalysisMode = analysis_mode;
220   
221   if (strlen(config_file) && !LoadConfig(config_file)) return;
222   if(iTotal>0)kGridMaxRunsFromList = iTotal; // overwrites the settings from config file
223   if(iOffset)kGridOffsetRunFromList = iOffset;
224   if(iOffset)kProofOffset = iOffset;
225
226
227    TString smode(analysis_mode);
228    smode.ToUpper();
229    if (kSaveTrain)WriteConfig();
230    // Check compatibility of selected modules 
231    CheckModuleFlags(smode);
232    //     gROOT->ProcessLine(".trace");
233
234    printf("==================================================================\n");
235    printf("===========    RUNNING ANALYSIS TRAIN %s IN %s MODE   ==========\n", kTrainName.Data(),smode.Data());
236    printf("==================================================================\n");
237                               printf("=  Configuring analysis train for:                               =\n");
238    if (iAODanalysis) printf("=  AOD analysis                                                  =\n");
239    else                     printf("=  ESD analysis                                                  =\n");
240    if (iPhysicsSelection)   printf("=  Physics selection                                                =\n");
241    if(iCentralitySelection)printf("=  Centrality selection                                                =\n");
242    if (useTender)   printf("=  Using tender                                                =\n");
243    if (iESDfilter)   printf("=  ESD filter                                                    =\n");
244    if (iJETAN)       printf("=  Jet analysis                                                  =\n");
245    printf("==================================================================\n");
246
247    char *printMask = ":: %20s  %10d\n";
248    printf(printMask,"Fill AOD",(UInt_t)kFillAOD);
249    printf(printMask,"Save AOD", (UInt_t)kSaveAOD);
250    printf(printMask,"MC truth", (UInt_t)kUseMC);
251    printf(printMask,"KINE filter", (UInt_t)kUseKinefilter);
252    printf(printMask,"track refs", (UInt_t)kUseTR);
253    printf(printMask,"tags", (UInt_t)kUseESDTags);
254    printf(printMask,"AOD tags", (UInt_t)kUseAODTags);
255    printf(printMask,"debugging", (UInt_t)kUseDebug);
256    printf(printMask,"PAR files", (UInt_t)kUsePAR);
257    printf(printMask,"AliEn plugin", (UInt_t)kPluginUse);
258    printf(printMask,"JETAN subtract", (UInt_t)iJETSUBTRACT);
259    printf(printMask,"PWG1 QA sym", iPWG1QASym);
260    printf(printMask,"PWG4 Source Sara",iPWG4TmpSourceSara);
261    printf(printMask,"PWG4 Fragmentation",iPWG4Fragmentation);
262    printf(printMask,"PWG4 Jet Chem",iPWG4JetChem);
263    printf(printMask,"PWG4 Jet tasks",iPWG4JetTasks);
264    printf(printMask,"PWG4 Jet Services",iPWG4JetServices);     
265    printf(printMask,"PWG4 Jet Spectrum",iPWG4JetSpectrum);
266    printf(printMask,"PWG4 JCORRAN",iPWG4JCORRAN);
267    printf(printMask,"PWG4 UE",iPWG4UE); 
268    printf(printMask,"PWG4 Leading UE",iPWG4LeadingUE); 
269    printf(printMask,"PWG4 Corrections UE",iPWG4CorrectionsUE); 
270    printf(printMask,"PWG4 Pt QA MC",iPWG4PtQAMC);
271    printf(printMask,"PWG4 Pt Spectra",iPWG4PtSpectra);
272    printf(printMask,"PWG4 Pt QA TPC",iPWG4PtQATPC);     
273    printf(printMask,"PWG4 Cosmics",iPWG4Cosmics);     
274    printf(printMask,"PWG4 Three Jets",iPWG4ThreeJets);
275    printf(printMask,"PWG4 QGSep",iPWG4QGSep);
276    printf(printMask,"PWG4 Minijet",iPWG4Minijet);
277    printf(printMask,"PWG4 KMeans",iPWG4KMeans);
278    printf(printMask,"PWG4 Cluster",iPWG4Cluster);
279    printf(printMask,"PWG4 Part Corr",iPWG4PartCorr);
280    printf(printMask,"PWG4 Calo QA",iPWG4CaloQA);
281    printf(printMask,"PWG4 Jet Corr",iPWG4JetCorr);
282    printf(printMask,"PWG4 JCORRAN",iPWG4JCORRAN);
283    printf(printMask,"PWG4 Tagged",iPWG4Tagged);
284    printf(printMask,"PWG4 omega to 3 pi ",iPWG4omega3pi);
285    printf(printMask,"PWG4 Gamma Conv",iPWG4GammaConv);
286    printf(printMask,"PWG4 Calo Conv",iPWG4CaloConv);
287    printf(printMask,"HighPt FilterMask",kHighPtFilterMask);    
288    
289    //==========================================================================
290    // Connect to back-end system
291    if (!Connect(smode)) {
292       ::Error("AnalysisTrain", "Could not connect to %s back-end", analysis_mode);
293       return;
294    }   
295
296    // Load common libraries and set include path
297    if (!LoadCommonLibraries(smode)) {
298       ::Error("AnalysisTrain", "Could not load common libraries");
299       return;
300    }
301
302
303     
304    // Make the analysis manager and connect event handlers
305    AliAnalysisManager *mgr  = new AliAnalysisManager("PWG4Train", "pwg4 mini train");
306    if (kCommonOutputFileName.Length()>0)mgr->SetCommonFileName(kCommonOutputFileName.Data());
307    if (kProofSaveToAlien) mgr->SetSpecialOutputLocation(kProofOutdir);
308    mgr->SetNSysInfo(0);
309    if (!strcmp(plugin_mode, "test")) mgr->SetNSysInfo(1);
310    if (kUseSysInfo)mgr->SetNSysInfo(kUseSysInfo);
311    mgr->SetSkipTerminate(kSkipTerminate);
312
313    // Load analysis specific libraries
314    if (!LoadAnalysisLibraries(smode)) {
315       ::Error("AnalysisTrain", "Could not load analysis libraries");
316      return;
317    }   
318
319    // Create input handler (input container created automatically)
320    if (iAODanalysis) {
321    // AOD input handler
322       AliAODInputHandler *aodH = new AliAODInputHandler();
323       mgr->SetInputEventHandler(aodH);
324       //      if (iPWG4JetTasks) aodH->AddFriend(Form("deltas/%s",kDeltaAODJetName.Data()));
325       //      if (iPWG4PartCorr) aodH->AddFriend(Form("deltas/%s"kDeltaAODJetName.Data()));
326    } else {   
327    // ESD input handler
328       AliESDInputHandler *esdHandler = new AliESDInputHandler();
329       if (kUseESDTags) esdHandler->SetReadTags();
330       esdHandler->SetReadFriends(kFALSE);
331       mgr->SetInputEventHandler(esdHandler);       
332       //      if(iPWG4PtQATPC&& !kTrainName.Contains("pass5"))esdHandler->SetActiveBranches("ESDfriend");
333
334    }
335
336    // Monte Carlo handler
337    if (kUseMC && !iAODanalysis) {
338       AliMCEventHandler* mcHandler = new AliMCEventHandler();
339       mgr->SetMCtruthEventHandler(mcHandler);
340       mcHandler->SetReadTR(kUseTR); 
341    }   
342    // AOD output container, created automatically when setting an AOD handler
343    if (iAODhandler) {
344       // AOD output handler
345       AliAODHandler* aodHandler   = new AliAODHandler();
346       aodHandler->SetOutputFileName("AliAOD.root");
347       aodHandler->SetFillAODforRun(kFillAOD);
348       //
349       mgr->SetOutputEventHandler(aodHandler);
350       AliAnalysisDataContainer * cout_aod = mgr->GetCommonOutputContainer();
351       cout_aod->SetSpecialOutput();
352    }
353    // Debugging if needed
354
355    if (kUseDebug){
356      mgr->SetDebugLevel(3);
357    }
358    if(kUseSysInfo>0){
359      mgr->RegisterExtraFile("syswatch.root");
360      if(kGridMergeExclude.Length())kGridMergeExclude += " ";
361      kGridMergeExclude += "syswatch.root";
362    }
363    else{
364      AliLog::SetGlobalLogLevel(AliLog::kError);
365    }
366
367
368    //==========================================================================
369    // Create the chain. In this example it is created only from ALIEN files but
370    // can be done to work in batch or grid mode as well.
371    TChain *chain = CreateChain(smode, plugin_mode);
372         
373    //==========================================================================
374    // Load the tasks configuration macros for all wagons. These files are supposed now to be
375    // in the current workdir, but in AliEn they will be in the file catalog, 
376    // mapped from AliRoot and pecified in the jdl input list.
377     
378    // For now connection to top input container and common AOD output container
379    // is done in this macro, but in future these containers will be connected
380    // from each task configuration macro.
381    
382    //                                                                                                                              
383    // Tender and supplies. Needs to be called for every event.                                                                     
384    //                                                                                                                              
385
386    if (useTender) {
387       gROOT->LoadMacro("$ALICE_ROOT_SRC/ANALYSIS/TenderSupplies/AddTaskTender.C");
388       AliAnalysisTaskSE *tender = AddTaskTender(kTRUE);
389       //      tender->SelectCollisionCandidates();                                                                                      
390       tender->SetDebugLevel(2);
391    }
392
393
394
395    if(iPhysicsSelection && !iAODanalysis){
396      gROOT->LoadMacro("$ALICE_ROOT_SRC/ANALYSIS/macros/AddTaskPhysicsSelection.C");
397      Int_t iTriggerHIC = 0;
398      Bool_t rejectBkg = true;
399      if(kIsPbPb){
400        iTriggerHIC = 2;
401        rejectBkg = false; // for the moment...
402      }
403      AliPhysicsSelectionTask* physSelTask = AddTaskPhysicsSelection(kIsMC,rejectBkg);  
404      iPhysicsSelectionFlag = AliVEvent::kMB;
405      mgr->RegisterExtraFile("EventStat_temp.root");
406      mgr->AddStatisticsTask();
407    }
408
409    if(iCentralitySelection){
410
411      // has to run before AOD filter
412      gROOT->LoadMacro("$ALICE_ROOT_SRC/ANALYSIS/macros/AddTaskCentrality.C");
413      //     const char* file1="$ALICE_ROOT/ANALYSIS/macros/AliCentralityBy1D_137161.root";
414      //     const char* file2="$ALICE_ROOT/ANALYSIS/macros/AliCentralityByFunction_137161.root";
415      AliCentralitySelectionTask *taskC = AddTaskCentrality();
416       if (!taskC) ::Warning("AnalysisTrainPWG4Jets", "AliCentralitySelectionTask cannot run for this train conditions - EXCLUDED");
417    }
418
419    if (iESDfilter && !iAODanalysis) {
420       //  ESD filter task configuration.
421       gROOT->LoadMacro("$ALICE_ROOT_SRC/PWG4/macros/AddTaskESDFilterPWG4Train.C");
422       AliAnalysisTaskESDfilter *taskesdfilter = AddTaskESDFilter(kUseKinefilter,kUseMuonfilter);
423       taskesdfilter->SetEnableFillAOD(!kFilterAOD);
424
425       if(kIsMC){
426         mgr->RegisterExtraFile("pyxsec_hists.root");
427         if(kGridMergeExclude.Length())kGridMergeExclude += " ";
428         kGridMergeExclude += "pyxsec_hists.root";
429
430       }
431    }   
432
433    // AOD tags
434    if (kUseAODTags) {
435       AliAnalysisTaskTagCreator* tagTask = new AliAnalysisTaskTagCreator("AOD Tag Creator");
436       mgr->AddTask(tagTask);
437       AliAnalysisDataContainer *coutTags = mgr->CreateContainer("cTag",  TTree::Class(), 
438                                            AliAnalysisManager::kOutputContainer, "AOD.tag.root");
439       mgr->ConnectInput (tagTask, 0, mgr->GetCommonInputContainer());
440       mgr->ConnectOutput(tagTask, 1, coutTags);
441    }   
442
443    if (iPWG4FastEmbedding) {
444      gROOT->LoadMacro("$ALICE_ROOT_SRC/PWG4/macros/AddTaskFastEmbedding.C");
445      AliAnalysisTaskFastEmbedding *taskEmbedding = 0;
446      if(kFastEmbAODList.Length()) taskEmbedding = AddTaskFastEmbedding(kFastEmbAODList, 1);
447      else                         taskEmbedding = AddTaskFastEmbedding(kFastEmbeddingAOD, 0);
448      //taskEmbedding->SetJetBranch("jets");
449    }
450
451     // Jet analysis
452    if (iJETAN) {
453       gROOT->LoadMacro("$ALICE_ROOT_SRC/PWG4/macros/AddTaskJets.C");
454       AliAnalysisTaskJets *taskjets = 0;
455       if(iJETAN&1){
456         /*
457         taskjets = AddTaskJets(kHighPtFilterMask); 
458         taskjets->SetName("StandardJets");
459         taskjets->SetNonStdBranch("");
460         */
461       }
462       if(iJETAN&2){
463         // Set only few jet finders  backgroudn subtraction w an wo 
464         
465         taskjets = AddTaskJets("AOD","UA1",0.4,kHighPtFilterMask,1.,0); // no background subtraction
466         if(kDeltaAODJetName.Length()>0)taskjets->SetNonStdOutputFile(kDeltaAODJetName.Data());
467
468         // STANDARD UA jet finders pT cut 1 GeV background mode 2 R = 0.4
469         if(kIsPbPb){
470           taskjets = AddTaskJets("AOD","UA1",0.4,kHighPtFilterMask,1.,2); // background subtraction
471           if(kDeltaAODJetName.Length()>0)taskjets->SetNonStdOutputFile(kDeltaAODJetName.Data());
472         }
473
474         TString cTmp("");
475
476         // SICONE 
477         taskjets = AddTaskJets("AOD","SISCONE",0.4,kHighPtFilterMask,0.15,0); //no background subtraction to be done later....
478         if(kDeltaAODJetName.Length()>0)taskjets->SetNonStdOutputFile(kDeltaAODJetName.Data());
479         cTmp = taskjets->GetNonStdBranch();
480         if(cTmp.Length()>0)kJetSubtractBranches += Form("%s ",cTmp.Data());
481
482         if(kUseAODMC){
483           // STANDARD UA jet finders pT cut 1 GeV background mode 2 R = 0.4
484           if(kIsPbPb){
485             taskjets = AddTaskJets("AODMC","UA1",0.4,kHighPtFilterMask,1.,2); // background subtraction
486             taskjets = AddTaskJets("AODMC2","UA1",0.4,kHighPtFilterMask,1.,2); // background subtraction
487           }
488           else{
489             taskjets = AddTaskJets("AODMC","UA1",0.4,kHighPtFilterMask,1.,0); // no background subtraction
490             taskjets = AddTaskJets("AODMC2","UA1",0.4,kHighPtFilterMask,1.,0); // no background subtraction
491           }
492         }
493         if(kDeltaAODJetName.Length()>0)mgr->RegisterExtraFile(kDeltaAODJetName.Data()); 
494       }
495       if (!taskjets) ::Warning("AnalysisTrainPWG4Jets", "AliAnalysisTaskJets cannot run for this train conditions - EXCLUDED");
496    }
497
498
499    if (iPWG4FastEmbedding && iJETAN) {
500      AliAnalysisTaskJets *taskEmbJets = AddTaskJets("AODextra", "FASTJET", 0.4, kHighPtFilterMask);
501      taskEmbJets->ReadAODFromOutput();
502      kJetSubtractBranches_extra += Form("%s ", taskEmbJets->GetNonStdBranch());
503
504      taskEmbJets = AddTaskJets("AODextraonly", "FASTJET", 0.4, kHighPtFilterMask);
505      taskEmbJets->ReadAODFromOutput();
506     
507      taskEmbJets = AddTaskJets("AODextra", "UA1", 0.4, kHighPtFilterMask,1.,0);
508      taskEmbJets->ReadAODFromOutput();
509      taskEmbJets = AddTaskJets("AODextraonly", "UA1", 0.4, kHighPtFilterMask,1.,0);
510      taskEmbJets->ReadAODFromOutput();
511      taskEmbJets = AddTaskJets("AODextra", "UA1", 0.4, kHighPtFilterMask,1.,2);
512      taskEmbJets->ReadAODFromOutput();
513    }
514
515    if(iPWG4Cluster){
516      gROOT->LoadMacro("$ALICE_ROOT_SRC/PWG4/macros/AddTaskJetCluster.C");
517      AliAnalysisTaskJetCluster *taskCl = 0;
518      Float_t fCenUp = 0;
519      Float_t fCenLo = 0;
520      if(kIsPbPb&&!kIsMC){
521        fCenLo = 0;
522        fCenUp = 80;
523      }
524      if(iPWG4Cluster&1){
525
526        if(kIsPbPb){
527          taskCl = AddTaskJetCluster("AOD","",kHighPtFilterMask,iPhysicsSelectionFlag,"KT",0.4,0,1, kDeltaAODJetName.Data(),0.15); // this one is for the background and random jets
528          taskCl->SetBackgroundCalc(kTRUE);
529          taskCl->SetCentralityCut(fCenLo,fCenUp);
530          taskCl->SetGhostEtamax(0.9);
531          kDefaultJetBackgroundBranch = Form("%s_%s",AliAODJetEventBackground::StdBranchName(),taskCl->GetJetOutputBranch());
532          
533          if (iPWG4FastEmbedding) {
534            AliAnalysisTaskJetCluster *taskClEmb = 0;
535            taskClEmb = AddTaskJetCluster("AODextra","",kHighPtFilterMask,iPhysicsSelectionFlag,"KT",0.4,0,1, kDeltaAODJetName.Data(),0.15); // this one is for the background and random jets
536            taskClEmb->SetBackgroundCalc(kTRUE);
537            taskClEmb->SetCentralityCut(fCenLo,fCenUp);
538            taskClEmb->SetGhostEtamax(0.9);
539            kDefaultJetBackgroundBranch_extra = Form("%s_%s",AliAODJetEventBackground::StdBranchName(),taskClEmb->GetJetOutputBranch());
540
541            taskClEmb = AddTaskJetCluster("AODextraonly","",kHighPtFilterMask,iPhysicsSelectionFlag,"KT",0.4,0,1, kDeltaAODJetName.Data(),0.15); // this one is for the background and random jets
542            taskClEmb->SetBackgroundCalc(kFALSE);
543            taskClEmb->SetCentralityCut(fCenLo,fCenUp);
544            taskClEmb->SetGhostEtamax(0.9);
545
546            taskClEmb = AddTaskJetCluster("AODextra","",kHighPtFilterMask,iPhysicsSelectionFlag,"ANTIKT",0.4,0,1,kDeltaAODJetName.Data(),0.15);
547            taskClEmb->SetCentralityCut(fCenLo,fCenUp);
548            taskClEmb->SetBackgroundBranch(kDefaultJetBackgroundBranch_extra.Data());
549            kJetSubtractBranches_extra += Form("%s ",taskClEmb->GetJetOutputBranch());
550
551            taskClEmb = AddTaskJetCluster("AODextraonly","",kHighPtFilterMask,iPhysicsSelectionFlag,"ANTIKT",0.4,0,1,kDeltaAODJetName.Data(),0.15);
552            taskClEmb->SetCentralityCut(fCenLo,fCenUp);
553          }
554
555          taskCl = AddTaskJetCluster("AOD","",kHighPtFilterMask,iPhysicsSelectionFlag,"KT",0.2,0,1, kDeltaAODJetName.Data(),0.15); // this one is for the background and random jets
556          taskCl->SetBackgroundCalc(kTRUE);
557          taskCl->SetCentralityCut(fCenLo,fCenUp);
558          taskCl->SetGhostEtamax(0.9);
559        }
560        else{
561          taskCl = AddTaskJetCluster("AOD","",kHighPtFilterMask,iPhysicsSelectionFlag,"KT",0.6,0,1,kDeltaAODJetName.Data(),0.15); // this one is for the background jets
562          taskCl->SetBackgroundCalc(kTRUE);
563          kDefaultJetBackgroundBranch = Form("%s_%s",AliAODJetEventBackground::StdBranchName(),taskCl->GetJetOutputBranch());
564          taskCl->SetGhostEtamax(0.9);
565
566          taskCl = AddTaskJetCluster("AOD","",kHighPtFilterMask,iPhysicsSelectionFlag,"KT",0.4,0,1,kDeltaAODJetName.Data(),0.15); 
567          taskCl->SetBackgroundCalc(kTRUE);
568          taskCl->SetGhostEtamax(0.9);
569        } 
570
571        taskCl = AddTaskJetCluster("AOD","",kHighPtFilterMask,iPhysicsSelectionFlag,"ANTIKT",0.4,0,1,kDeltaAODJetName.Data(),0.15);
572        taskCl->SetCentralityCut(fCenLo,fCenUp);
573        if(kIsPbPb)taskCl->SetBackgroundBranch(kDefaultJetBackgroundBranch.Data());
574        taskCl->SetNRandomCones(10);
575        taskCl->SetNSkipLeadingRan(2);
576        kDefaultJetBranch = taskCl->GetJetOutputBranch();
577        if(kDeltaAODJetName.Length()==0&&kFilterAOD){
578          if(kIsPbPb)taskCl->SetJetTriggerPtCut(40.);
579          else taskCl->SetJetTriggerPtCut(20.);
580        }
581
582        kJetSubtractBranches += Form("%s ",taskCl->GetJetOutputBranch());
583   
584        taskCl = AddTaskJetCluster("AOD","",kHighPtFilterMask,iPhysicsSelectionFlag,"ANTIKT",0.2,0,1,kDeltaAODJetName.Data(),0.15);
585        taskCl->SetCentralityCut(fCenLo,fCenUp);
586        if(kIsPbPb)taskCl->SetBackgroundBranch(kDefaultJetBackgroundBranch.Data());
587        kJetSubtractBranches += Form("%s ",taskCl->GetJetOutputBranch());
588
589        if(kUseAODMC){
590          if(kIsPbPb){
591            taskCl = AddTaskJetCluster("AODMC","",kHighPtFilterMask,iPhysicsSelectionFlag,"KT",0.4,0,1, kDeltaAODJetName.Data(),0.15); // this one is for the background and random jets
592            taskCl->SetBackgroundCalc(kTRUE);
593            taskCl->SetGhostEtamax(0.9);
594            kDefaultJetBackgroundBranchMC = Form("%s_%s",AliAODJetEventBackground::StdBranchName(),taskCl->GetJetOutputBranch());
595            
596            taskCl = AddTaskJetCluster("AODMC2","",kHighPtFilterMask,iPhysicsSelectionFlag,"KT",0.4,0,1, kDeltaAODJetName.Data(),0.15); // this one is for the background and random jets
597            taskCl->SetBackgroundCalc(kTRUE);
598            taskCl->SetGhostEtamax(0.9);
599            kDefaultJetBackgroundBranchMC2 = Form("%s_%s",AliAODJetEventBackground::StdBranchName(),taskCl->GetJetOutputBranch()); 
600          }
601          else{
602            taskCl = AddTaskJetCluster("AODMC","",kHighPtFilterMask,iPhysicsSelectionFlag,"KT",0.6,0,1, kDeltaAODJetName.Data(),0.15); // this one is for the background and random jets
603            taskCl->SetBackgroundCalc(kTRUE);
604            taskCl->SetGhostEtamax(0.9);
605            kDefaultJetBackgroundBranchMC = Form("%s_%s",AliAODJetEventBackground::StdBranchName(),taskCl->GetJetOutputBranch());
606            
607            taskCl = AddTaskJetCluster("AODMC2","",kHighPtFilterMask,iPhysicsSelectionFlag,"KT",0.6,0,1, kDeltaAODJetName.Data(),0.15); // this one is for the background and random jets
608            taskCl->SetBackgroundCalc(kTRUE);
609            taskCl->SetGhostEtamax(0.9);
610            kDefaultJetBackgroundBranchMC2 = Form("%s_%s",AliAODJetEventBackground::StdBranchName(),taskCl->GetJetOutputBranch()); 
611            // pp background calcs...
612          }
613          
614          taskCl = AddTaskJetCluster("AODMC","",kHighPtFilterMask,iPhysicsSelectionFlag,"ANTIKT",0.4,0,1, kDeltaAODJetName.Data(),0.15); // this one is for the background and random jets
615          taskCl->SetGhostEtamax(0.9);
616          if(kIsPbPb)taskCl->SetBackgroundBranch(kDefaultJetBackgroundBranchMC.Data());   
617          kDefaultJetBranchMC = taskCl->GetJetOutputBranch();
618
619          taskCl = AddTaskJetCluster("AODMC2","",kHighPtFilterMask,iPhysicsSelectionFlag,"ANTIKT",0.4,0,1, kDeltaAODJetName.Data(),0.15); // this one is for the background and random jets
620          if(kIsPbPb)taskCl->SetBackgroundBranch(kDefaultJetBackgroundBranchMC2.Data());  
621          kDefaultJetBranchMC2 = taskCl->GetJetOutputBranch();
622
623        }
624        
625        
626        if (!taskCl) ::Warning("AnalysisTrainPWG4Jets", "AliAnalysisTaskCluster cannot run for this train conditions - EXCLUDED");
627      }
628    }
629
630    if(iJETSUBTRACT){
631       gROOT->LoadMacro("$ALICE_ROOT_SRC/PWG4/macros/AddTaskJetBackgroundSubtract.C");
632       AliAnalysisTaskJetBackgroundSubtract *taskSubtract = 0;
633       if(kJetSubtractBranches.Length()){
634
635         taskSubtract = AddTaskJetBackgroundSubtract(kJetSubtractBranches,3,kJetSubtractMask1.Data(),kJetSubtractMask2.Data());
636         taskSubtract->SetBackgroundBranch(kDefaultJetBackgroundBranch.Data()); 
637         if(kDeltaAODJetName.Length()>0)taskSubtract->SetNonStdOutputFile(kDeltaAODJetName.Data());
638
639         taskSubtract = AddTaskJetBackgroundSubtract(kJetSubtractBranches,2,kJetSubtractMask1.Data(),kJetSubtractMask2.Data());
640         taskSubtract->SetBackgroundBranch(kDefaultJetBackgroundBranch.Data());          taskSubtract->SelectCollisionCandidates(iPhysicsSelectionFlag);
641         if(kDeltaAODJetName.Length()>0)taskSubtract->SetNonStdOutputFile(kDeltaAODJetName.Data());
642
643         //      taskSubtract->SetDebugLevel(3);
644
645         taskSubtract = AddTaskJetBackgroundSubtract(kJetSubtractBranches,1,kJetSubtractMask1.Data(),kJetSubtractMask2.Data());
646         taskSubtract->SetBackgroundBranch(kDefaultJetBackgroundBranch.Data());          taskSubtract->SelectCollisionCandidates(iPhysicsSelectionFlag);
647         if(kDeltaAODJetName.Length()>0)taskSubtract->SetNonStdOutputFile(kDeltaAODJetName.Data());
648
649         if(kJetSubtractBranches.Contains(kDefaultJetBranch.Data())&&kIsPbPb){
650           kDefaultJetBranch.ReplaceAll(taskSubtract->GetToReplace(),Form(taskSubtract->GetReplacementMask(),taskSubtract->GetSubtractionMethod()));
651         }
652       }
653       if(kJetSubtractBranches_extra.Length()){
654         taskSubtract = AddTaskJetBackgroundSubtract(kJetSubtractBranches_extra,1,kJetSubtractMask1.Data(),kJetSubtractMask2.Data(),"extra");
655         taskSubtract->SetBackgroundBranch(kDefaultJetBackgroundBranch_extra.Data());
656         taskSubtract->SelectCollisionCandidates(iPhysicsSelectionFlag);
657         //taskSubtract->SetDebugLevel(3);
658         if(kDeltaAODJetName.Length()>0)taskSubtract->SetNonStdOutputFile(kDeltaAODJetName.Data());
659         if(kJetSubtractBranches_extra.Contains(kDefaultJetBranch.Data())){
660           kDefaultJetBranch.ReplaceAll(taskSubtract->GetToReplace(),Form(taskSubtract->GetReplacementMask(),taskSubtract->GetSubtractionMethod()));
661         }
662       }
663       if (!taskSubtract) ::Warning("AnalysisTrainPWG4Jets", "AliAnalysisTaskJetBackgroundSubtrac cannot run for this train conditions - EXCLUDED");     
664    }
665
666    if (iDIJETAN) {
667       gROOT->LoadMacro("$ALICE_ROOT_SRC/PWG4/macros/AddTaskDiJets.C");
668       AliAnalysisTaskDiJets *taskdijets = 0;
669       if(iDIJETAN&1)taskdijets = AddTaskDiJets(); 
670       if (!taskdijets) ::Warning("AnalysisTrainPWG4Jets", "AliAnalysisTaskJets cannot run for this train conditions - EXCLUDED");
671       if(iDIJETAN&2){
672         taskdijets = AddTaskDiJets("jetsAOD_CDF07"); 
673         taskdijets = AddTaskDiJets("jetsAOD_DA07"); 
674         taskdijets = AddTaskDiJets("jetsAOD_FASTJET07"); 
675         taskdijets = AddTaskDiJets("jetsAOD_FASTKT07"); 
676         taskdijets = AddTaskDiJets("jetsAOD_SISCONE07"); 
677         taskdijets = AddTaskDiJets("jetsAOD_UA107");
678       }
679    }
680
681    if(iPWG1QASym){
682      gROOT->LoadMacro("$ALICE_ROOT_SRC/PWG1/PilotTrain/AddTaskQAsym.C");
683      AliAnalysisTaskQASym *taskQASym = AddTaskQAsym(-1);
684      if (!taskQASym) ::Warning("AnalysisTrainPWG4Jets", "AliAnalysisTaskQASym cannot run for this train conditions - EXCLUDED");
685    }
686
687
688
689    if(iPWG4TmpSourceSara){
690      gROOT->LoadMacro("$ALICE_ROOT_SRC/PWG4/macros/AddTaskEta.C");
691      AliAnalysisTaskEta *taskEta = AddTaskEta();
692      if (!taskEta) ::Warning("AnalysisTrainPWG4Jets", "AliAnalysisTaskEta cannot run for this train conditions - EXCLUDED");
693    }
694
695
696    if(iPWG4JetServices){
697      gROOT->LoadMacro("$ALICE_ROOT_SRC/PWG4/macros/AddTaskJetServices.C");
698      AliAnalysisTaskJetServices *taskjetServ = 0;
699      taskjetServ = AddTaskJetServices();
700      if (!taskjetServ) ::Warning("AnalysisTrainPWG4Jets", "AliAnalysisTaskJetServices cannot run for this train conditions - EXCLUDED");
701      if(kGridRunRange[0]>0)taskjetServ->SetRunRange(kGridRunRange[0],kGridRunRange[1]);
702      else taskjetServ->SetRunRange(110000,160000);
703      taskjetServ->SetMCData(kIsMC);
704      taskjetServ->SetUsePhysicsSelection((Bool_t)iPhysicsSelection);
705      taskjetServ->SetPhysicsSelectionFlag(iPhysicsSelectionFlag); // 
706      taskjetServ->SetNonStdFile(kDeltaAODJetName.Data());
707      if(kIsPbPb){
708        if(kDeltaAODJetName.Length()>0&&kFilterAOD)taskjetServ->SetFilterAODCollisions(kTRUE);
709        //       else if(iAODanalysis)taskjetServ->SetFilterAODCollisions(kTRUE);
710
711        taskjetServ->SetZVertexCut(8.);
712      }
713      if(iAODanalysis){
714        //       taskjetServ->SetDebugLevel(3);
715        taskjetServ->SetAODInput(kTRUE);
716      }
717    }
718
719    if(iPWG4JetSpectrum){
720      gROOT->LoadMacro("$ALICE_ROOT_SRC/PWG4/macros/AddTaskJetSpectrum2.C");
721      AliAnalysisTaskJetSpectrum2 *taskjetSpectrum = 0;
722      if(iPWG4JetSpectrum&1){
723        if(kIsPbPb){
724          for(int i = 0;i<5;i++){
725            TString tmp(kDefaultJetBranch.Data());
726            //      tmp.ReplaceAll(Form(kJetSubtractMask2.Data(),1),kJetSubtractMask1.Data());
727            //      tmp.ReplaceAll(Form(kJetSubtractMask2.Data(),1),kJetSubtractMask1.Data());
728            tmp.ReplaceAll(Form(kJetSubtractMask2.Data(),1),Form(kJetSubtractMask1.Data(),0));
729            taskjetSpectrum = AddTaskJetSpectrum2(kDefaultJetBranch.Data(),tmp.Data(),"",kHighPtFilterMask,AliVEvent::kMB,0,kFALSE,0,i);
730            //      taskjetSpectrum->SetDebugLevel(3);
731            //      taskjetSpectrum->SetMinJetPt(10);
732            taskjetSpectrum->SetTrackEtaWindow(0.8);
733            taskjetSpectrum->SetJetEtaWindow(0.4);
734            if(iAODanalysis)SetAODInput(taskjetSpectrum);
735
736            
737            // check the old subtracted vs. the new subtracted
738            TString tmp2(kDefaultJetBranch.Data());
739            tmp2.ReplaceAll(Form(kJetSubtractMask2.Data(),1),Form(kJetSubtractMask2.Data(),2));
740            taskjetSpectrum = AddTaskJetSpectrum2(tmp2.Data(),kDefaultJetBranch.Data(),"",kHighPtFilterMask,AliVEvent::kMB,0,kFALSE,0,i);
741            //      taskjetSpectrum->SetDebugLevel(3);
742            //      taskjetSpectrum->SetMinJetPt(10);
743            taskjetSpectrum->SetTrackEtaWindow(0.8);
744            taskjetSpectrum->SetJetEtaWindow(0.4);
745            if(iAODanalysis)SetAODInput(taskjetSpectrum);
746
747            // check the old subtracted vs. the new subtracted
748            TString tmp3(kDefaultJetBranch.Data());
749            tmp3.ReplaceAll(Form(kJetSubtractMask2.Data(),1),Form(kJetSubtractMask2.Data(),3));
750
751            taskjetSpectrum = AddTaskJetSpectrum2(tmp3.Data(),kDefaultJetBranch.Data(),"",kHighPtFilterMask,AliVEvent::kMB,0,kFALSE,0,i);
752            //      taskjetSpectrum->SetDebugLevel(3);
753            //      taskjetSpectrum->SetMinJetPt(10);
754            taskjetSpectrum->SetTrackEtaWindow(0.8);
755            taskjetSpectrum->SetJetEtaWindow(0.4);
756            if(iAODanalysis)SetAODInput(taskjetSpectrum);
757
758
759            taskjetSpectrum = AddTaskJetSpectrum2(Form("jetsAOD_UA104_B2_Filter%05d_Cut01000",kHighPtFilterMask),kDefaultJetBranch.Data(),"",kHighPtFilterMask,AliVEvent::kMB,0,kFALSE,0,i);
760            //      taskjetSpectrum->SetDebugLevel(3);
761            //      taskjetSpectrum->SetMinJetPt(10);
762            taskjetSpectrum->SetTrackEtaWindow(0.8);
763            taskjetSpectrum->SetJetEtaWindow(0.4);
764            if(iAODanalysis)SetAODInput(taskjetSpectrum);
765
766          }
767        }
768        else{ // ! PbPb
769          Int_t i = 0;
770          TString tmp(kDefaultJetBranch.Data());
771          //        tmp.ReplaceAll(Form(kJetSubtractMask2.Data(),1),kJetSubtractMask1.Data());
772          //        tmp.ReplaceAll(Form(kJetSubtractMask2.Data(),1),kJetSubtractMask1.Data());
773          tmp.ReplaceAll(Form(kJetSubtractMask2.Data(),0),Form(kJetSubtractMask1.Data(),1));
774          taskjetSpectrum = AddTaskJetSpectrum2(kDefaultJetBranch.Data(),tmp.Data(),"",kHighPtFilterMask,AliVEvent::kMB,0,kFALSE,0,i);
775          taskjetSpectrum->SetDebugLevel(3);
776          //        taskjetSpectrum->SetMinJetPt(10);
777          taskjetSpectrum->SetTrackEtaWindow(0.8);
778          taskjetSpectrum->SetJetEtaWindow(0.4);
779          if(iAODanalysis)SetAODInput(taskjetSpectrum);
780          
781
782          TString tmp2(kDefaultJetBranch.Data());
783          tmp2.ReplaceAll(Form(kJetSubtractMask2.Data(),0),Form(kJetSubtractMask2.Data(),2));
784          taskjetSpectrum = AddTaskJetSpectrum2(tmp2.Data(),kDefaultJetBranch.Data(),"",kHighPtFilterMask,AliVEvent::kMB,0,kFALSE,0,i);
785          //      taskjetSpectrum->SetDebugLevel(3);
786          //        taskjetSpectrum->SetMinJetPt(10);
787          taskjetSpectrum->SetTrackEtaWindow(0.8);
788          taskjetSpectrum->SetJetEtaWindow(0.4);
789
790          // check the old subtracted vs. the new subtracted
791          TString tmp3(kDefaultJetBranch.Data());
792          tmp3.ReplaceAll(Form(kJetSubtractMask2.Data(),0),Form(kJetSubtractMask2.Data(),3));
793          taskjetSpectrum = AddTaskJetSpectrum2(tmp3.Data(),kDefaultJetBranch.Data(),"",kHighPtFilterMask,AliVEvent::kMB,0,kFALSE,0,i);
794          //      taskjetSpectrum->SetDebugLevel(3);
795          //        taskjetSpectrum->SetMinJetPt(10);
796          taskjetSpectrum->SetTrackEtaWindow(0.8);
797          taskjetSpectrum->SetJetEtaWindow(0.4);
798          if(iAODanalysis)SetAODInput(taskjetSpectrum);
799        }
800        if (!taskjetSpectrum) ::Warning("AnalysisTrainPWG4Jets", "AliAnalysisTaskJetSpectrum2 cannot run for this train conditions - EXCLUDED");
801      }
802    }
803
804    if(iPWG4Fragmentation){
805      gROOT->LoadMacro("$ALICE_ROOT_SRC/PWG4/macros/AddTaskFragmentationFunction.C");
806        AliAnalysisTaskFragmentationFunction *taskFrag = 0;
807      if(kUseAODMC){
808
809      }
810      else{
811        taskFrag = AddTaskFragmentationFunction(kDefaultJetBranch.Data(),"","","",kHighPtFilterMask);
812      }
813      if (!taskFrag) ::Warning("AnalysisTrainPWG4Jets", "AliAnalysisTaskFragmentationFunction cannot run for this train conditions - EXCLUDED");
814    }
815
816    if(iPWG4JetChem){
817      gROOT->LoadMacro("$ALICE_ROOT_SRC/PWG4/macros/AddTaskJetChem.C");
818      AliAnalysisTask *taskChem = AddTaskJetChem(kHighPtFilterMask);
819      if (!taskChem) ::Warning("AnalysisTrainPWG4Jets", "AliAnalysisTaskJetChem cannot run for this train conditions - EXCLUDED");
820    }
821
822    if (iPWG4JetResponse) {
823      gROOT->LoadMacro("$ALICE_ROOT_SRC/PWG4/macros/AddTaskJetResponse.C");
824      AliAnalysisTask *taskJetResponse = 0;
825
826      if(iJETAN){
827         taskJetResponse = AddTaskJetResponse("jets", "FASTJET", 0.4, kHighPtFilterMask, 0.15, 0);
828         taskJetResponse = AddTaskJetResponse("jets", "FASTJET", 0.4, kHighPtFilterMask, 0.15, 1);
829
830         taskJetResponse = AddTaskJetResponse("jets", "UA1", 0.4, kHighPtFilterMask, 1., 0);
831         taskJetResponse = AddTaskJetResponse("jets", "UA1", 0.4, kHighPtFilterMask, 1., 2);
832      }
833      if(iPWG4Cluster){
834         taskJetResponse = AddTaskJetResponse("clusters", "ANTIKT", 0.4, kHighPtFilterMask, 0.15, 0);
835         taskJetResponse = AddTaskJetResponse("clusters", "ANTIKT", 0.4, kHighPtFilterMask, 0.15, 1);
836      }
837      if (!taskJetResponse) ::Warning("AnalysisTrainPWG4Jets", "AliAnalysisTaskJetResponse cannot run for this train conditions - EXCLUDED");
838
839    }
840
841    if(iPWG4JCORRAN){
842      gROOT->LoadMacro("$ALICE_ROOT_SRC/PWG4/macros/AddTaskJCORRANTask.C");
843      AliJCORRANTask* corran = AddTaskJCORRAN(kDeltaAODJCORRANName.Data(),0);
844      if(!corran)::Warning("AnalysisTrainPWG4Jets", "AliJCORRANTask cannot run for this train conditions - EXCLUDED");
845      else{
846        if(kDeltaAODJCORRANName.Length()>0)mgr->RegisterExtraFile(kDeltaAODJCORRANName.Data()); 
847      }
848    }
849
850    if(iPWG4UE){
851      gROOT->LoadMacro("$ALICE_ROOT_SRC/PWG4/macros/AddTaskUE.C");
852      AliAnalysisTaskUE *taskUE = 0;
853      if(iPWG4UE&1)taskUE = AddTaskUE(); 
854      if(iPWG4UE&2){
855        taskUE  =AddTaskUE("jetsAOD_CDF04","CDF", "LJ", "TRANSV","MSP"); //finder not yet in train
856        //       taskUE  =AddTaskUE("jetsAOD_CDF07","CDF", "LJ", "TRANSV","MSP");
857        taskUE  =AddTaskUE("jetsAOD_SISCONE04","CDF", "LJ", "TRANSV","MSP");
858        //       taskUE  =AddTaskUE("jetsAOD_SISCONE07","CDF", "LJ", "TRANSV","MSP"); //finder not yet in train
859        taskUE  =AddTaskUE("jetsAOD_ICDF","CDF","LJ","TRANSV","MSP");
860        taskUE  =AddTaskUE("jetsAOD_FASTKT04","CDF", "LJ", "TRANSV","MSP");
861        //       taskUE  =AddTaskUE("jetsAOD_FASTKT07","CDF", "LJ", "TRANSV","MSP"); //finder not yet in train
862        taskUE  =AddTaskUE("jetsAOD_NONE","CDF", "MP_eta05", "TRANSV","MSP");
863        taskUE  =AddTaskUE("jetsAOD_NONE","CDF", "MP_eta09", "TRANSV","MSP");
864      }
865
866      if (!taskUE) ::Warning("AnalysisTrainPWG4Jets", "AliAnalysisTaskUE cannot run for this train conditions - EXCLUDED");
867    }
868
869    if(iPWG4LeadingUE){
870      gROOT->LoadMacro("$ALICE_ROOT_SRC/PWG4/macros/AddTaskLeadingTrackUE.C");
871      AliAnalysisTaskLeadingTrackUE *taskLeadingUE = AddTaskLeadingTrackUE(kUseMC);
872      if (!taskLeadingUE) ::Warning("AnalysisTrainPWG4Jets", "AliAnalysisTasLeadingTrackkUE cannot run for this train conditions - EXCLUDED");
873      //     taskLeadingUE->SetFilterBit(64);
874    }
875
876
877    if(iPWG4CorrectionsUE){
878      gROOT->LoadMacro("$ALICE_ROOT_SRC/PWG4/macros/AddTaskCorrectionsUE.C");
879      AliAnalysisTaskCorrectionsUE *taskCorrectionsUE = 0;
880      if(iPWG4CorrectionsUE&1)taskCorrectionsUE = AddTaskCorrectionsUE("jetsAOD_NONE","CDF","MP_eta05","TRANSV","MSP",kFALSE);
881      if (!taskCorrectionsUE) ::Warning("AnalysisTrainPWG4Jets", "AliAnalysisTaskCorrectionsUE cannot run for this train conditions - EXCLUDED");
882    }
883
884    if(iPWG4ThreeJets){
885      gROOT->LoadMacro("$ALICE_ROOT_SRC/PWG4/macros/AddTaskThreeJets.C");
886      AliAnalysisTaskThreeJets *taskThree = AddTaskThreeJets();
887      if(!taskThree)::Warning("AnalysisTrainPWG4Jets", "AliAnalysisTaskThreets cannot run for this train conditions - EXCLUDED");
888    }
889    if(iPWG4QGSep){
890      gROOT->LoadMacro("$ALICE_ROOT_SRC/PWG4/macros/AddTaskQGSep.C");
891      AliAnalysisTaskQGSep *taskQGSep = AddTaskQGSep(kUseMC,iAODanalysis);
892      if(!taskQGSep)::Warning("AnalysisTrainPWG4Jets", "AliAnalysisTaskQGSep cannot run for this train conditions - EXCLUDED");
893    }
894   
895
896    if(iPWG4Minijet){
897      gROOT->LoadMacro("$ALICE_ROOT_SRC/PWG4/macros/AddTaskMinijet.C");
898      AliAnalysisTaskMinijet *taskMini = AddTaskMinijet(-1,"esd",kUseMC,kGridDataSet);
899      // if we ha highmult trigger add another task
900      if(!taskMini)::Warning("AnalysisTrainPWG4Jets", "AliAnalysisTaskMinjet cannot run for this train conditions - EXCLUDED");
901    }
902
903
904    if(iPWG4PtQAMC){
905      gROOT->LoadMacro("$ALICE_ROOT_SRC/PWG4/macros/AddTaskPWG4HighPtQAMC.C");
906      AliPWG4HighPtQAMC *taskQAMC = 0;
907      if(kUseMC){
908        if(iPWG4PtQAMC&1){
909          taskQAMC = AddTaskPWG4HighPtQAMC(kGridDataSet.Data(),0);
910          taskQAMC = AddTaskPWG4HighPtQAMC(kGridDataSet.Data(),1);
911          taskQAMC = AddTaskPWG4HighPtQAMC(kGridDataSet.Data(),2);
912        }
913      }
914      if (!taskQAMC) ::Warning("AnalysisTrainPWG4Jets", "AliAnalysisTaskQAMC cannot run for this train conditions - EXCLUDED");
915    }
916
917    if(iPWG4PtQATPC){
918      gROOT->LoadMacro("$ALICE_ROOT_SRC/PWG4/macros/AddTaskPWG4HighPtQATPConly.C");
919      AliPWG4HighPtQATPConly *taskQATPC = 0;
920      if(iPWG4PtQATPC&1)taskQATPC = AddTaskPWG4HighPtQATPConly(kGridDataSet.Data(),1);
921      if(iPWG4PtQATPC&2)taskQATPC = AddTaskPWG4HighPtQATPConly(kGridDataSet.Data(),2);
922
923  if (!taskQATPC) ::Warning("AnalysisTrainPWG4Jets", "AliAnalysisTaskQATPC cannot run for this train conditions - EXCLUDED");
924    }
925
926    if(iPWG4Cosmics){
927      gROOT->LoadMacro("$ALICE_ROOT_SRC/PWG4/macros/AddTaskPWG4CosmicCandidates.C");
928
929      AliPWG4CosmicCandidates *taskPWG4CosmicCandidates = AddTaskPWG4CosmicCandidates(0);
930      taskPWG4CosmicCandidates = AddTaskPWG4CosmicCandidates(1);
931
932      if (!taskPWG4CosmicCandidates) ::Warning("AnalysisTrainPWG4Jets", "AddTaskPWG4CosmicCandidates cannot run for this train conditions - EXCLUDED");
933    }
934
935
936    if(iPWG4PtSpectra){
937      gROOT->LoadMacro("$ALICE_ROOT_SRC/PWG4/macros/AddTaskPWG4HighPtSpectra.C");
938      AliPWG4HighPtSpectra *taskPtSpectra = AddTaskPWG4HighPtSpectra(kGridDataSet.Data());
939      if (!taskPtSpectra) ::Warning("AnalysisTrainPWG4Jets", "AliAnalysisTaskPtSpectra cannot run for this train conditions - EXCLUDED");
940    }
941    if(iPWG4KMeans){
942      gROOT->LoadMacro("$ALICE_ROOT_SRC/PWG4/macros/AddTaskKMeans.C");
943      AliAnalysisTaskKMeans *taskKMeans = AddTaskKMeans();
944      if (!taskKMeans) ::Warning("AnalysisTrainPWG4Jets", "AliAnalysisTaskKMenans cannot run for this train conditions - EXCLUDED");
945    }
946
947    if(iPWG4PartCorr){
948      gROOT->LoadMacro("$ALICE_ROOT_SRC/PWG4/macros/AddTaskPartCorr.C");
949      AliAnalysisTaskParticleCorrelation *taskpartcorrPHOS = AddTaskPartCorr("AOD", "PHOS",kFALSE,kIsMC);
950      if (!taskpartcorrPHOS) ::Warning("AnalysisTrainNew", "AliAnalysisTaskParticleCorrelation PHOS cannot run for this train conditions - EXCLUDED");
951      AliAnalysisTaskParticleCorrelation *taskpartcorrEMCAL = AddTaskPartCorr("AOD", "EMCAL",kFALSE,kIsMC);
952      if (!taskpartcorrEMCAL) ::Warning("AnalysisTrainNew", "AliAnalysisTaskParticleCorrelation EMCAL cannot run for this train conditions - EXCLUDED");
953      if(kDeltaAODPartCorrName.Length()>0)mgr->RegisterExtraFile(kDeltaAODPartCorrName.Data());
954    } 
955
956    if(iPWG4CaloQA){
957      gROOT->LoadMacro("$ALICE_ROOT_SRC/PWG4/macros/QA/AddTaskCalorimeterQA.C");
958      AliAnalysisTaskParticleCorrelation *taskcaloQA =  AddTaskCalorimeterQA("ESD",kFALSE,kIsMC,kCaloQAOutputFileName.Data());
959      if(!taskcaloQA)::Warning("AnalysisTrainNew", "AliAnalysisTaskParticleCorrelation QA cannot run - EXCLUDED");
960      //  if(kCaloQAOutputFileName.Length()>0)mgr->RegisterExtraFile(kCaloQAOutputFileName.Data());
961    } 
962
963    if(iPWG4JetCorr){
964      //     using namespace JetCorrelHD;
965      TString cdir = gSystem->WorkingDirectory();
966      gSystem->ChangeDirectory(gSystem->ExpandPathName("$ALICE_ROOT_SRC/PWG4/macros/"));
967      gROOT->LoadMacro("$ALICE_ROOT_SRC/PWG4/macros/AddTaskJetCorrel.C");
968      AliAnalysisTaskJetCorrel *taskjetcorr = AddTaskJetCorrel();
969      gSystem->ChangeDirectory(cdir);
970      if (!taskjetcorr) ::Warning("AnalysisTrainNew", "AliAnalysisTaskJetCorrel  cannot run for this train conditions - EXCLUDED");
971    } 
972
973    if(iPWG4Tagged){
974      gROOT->LoadMacro("$ALICE_ROOT_SRC/PWG4/macros/AddTaskTaggedPhotons.C");
975      AliAnalysisTaskTaggedPhotons * taskTagged = AddTaskTaggedPhotons(kFALSE); // EMCAL
976      taskTagged = AddTaskTaggedPhotons(kTRUE); // PHOS 
977      if (!taskTagged) ::Warning("AnalysisTrainNew", "AliAnalysisTaskTaggedPhotons  cannot run for this train conditions - EXCLUDED");     
978    }
979    if (iPWG4omega3pi) {
980      gROOT->LoadMacro("$ALICE_ROOT_SRC/PWG4/macros/AddTaskomega3pi.C");
981      AliAnalysisTaskOmegaPi0PiPi *taskomega3pi = AddTaskomega3pi();
982      if (!taskomega3pi) ::Warning("AnalysisTrainNew", "AliAnalysisTaskomega3pi cannot run\
983  for these train conditions - EXCLUDED");
984    }
985
986    // PWG4 gamma conversion analysis
987    if (iPWG4GammaConv) {
988       gROOT->LoadMacro("$ALICE_ROOT_SRC/PWG4/macros/AddTaskGammaConversion.C");
989       TString cdir = gSystem->WorkingDirectory();
990       gSystem->ChangeDirectory(gSystem->ExpandPathName("$ALICE_ROOT_SRC/PWG4/macros/"));
991       //      TString gcArguments = "-run-on-train -run-jet -run-chic -run-neutralmeson -run-cf";
992       //      TString gcArguments = "-run-on-train -run-jet -run-neutralmeson -run-cf -use-own-xyz";
993       //      TString gcArguments = "-run-on-train -run-jet -run-neutralmeson -run-cf -use-own-xyz";
994       TString gcArguments = "-run-on-train -run-jet -run-omega-meson -use-own-xyz -run-neutralmeson -no-aod";
995       //      TString kGCAnalysisCutSelectionId="9003562000100310";
996       //      TString kGCAnalysisCutSelectionId="9003562000100312";
997       //      gcArguments.Append(Form(" -set-cut-selection %s ",kGCAnalysisCutSelectionId.Data()));
998       if(!kIsMC)gcArguments += " -mc-off";
999       AliAnalysisTaskGammaConversion * taskGammaConversion = AddTaskGammaConversion(gcArguments,mgr->GetCommonInputContainer());
1000       gSystem->ChangeDirectory(cdir);
1001       taskGammaConversion->SelectCollisionCandidates();
1002       if (!taskGammaConversion) ::Warning("AnalysisTrainNew", "AliAnalysisTaskGammaConversion cannot run for these train conditions - EXCLUDED");
1003    }   
1004
1005    if (iPWG4CaloConv) {
1006       gROOT->LoadMacro("$ALICE_ROOT_SRC/PWG4/macros/AddTaskCaloConv.C");
1007       AliAnalysisTaskCaloConv * taskCaloConv = AddTaskCaloConv();
1008       if (!taskCaloConv) ::Warning("AnalysisTrainNew", "AliAnalysisTaskCaloConv cannot run for these train conditions - EXCLUDED");
1009    }   
1010
1011
1012
1013    //==========================================================================
1014    // FOR THE REST OF THE TASKS THE MACRO AddTaskXXX() is not yet implemented/
1015    // Run the analysis
1016    //    
1017    if (kPluginUse) {
1018       AliAnalysisGrid *alienHandler = CreateAlienHandler(plugin_mode);
1019       AliAnalysisManager::GetAnalysisManager()->SetGridHandler(alienHandler);
1020    }
1021    
1022    if (mgr->InitAnalysis()) {
1023      mgr->PrintStatus();
1024      // if (kSaveTrain || strlen(config_file)) gSystem->ChangeDirectory(kTrainName);
1025      if (!strcmp(plugin_mode,"submit")&&smode=="GRID"){
1026        TString alien_workdir = gGrid->GetHomeDirectory();
1027        if (iAODanalysis) alien_workdir += "analysisAOD";
1028        else              alien_workdir += "analysisESD";
1029        if(kGridDataSet.Length()>0)alien_workdir += Form("/%s",kGridDataSet.Data());
1030        AliAnalysisAlien *gridhandler = (AliAnalysisAlien*)mgr->GetGridHandler();
1031        printf("=== AnalysisTrainPWG4Jets:: Registering jdl in the work directory alien://%s/%s, should be done by the manager! ===\n",
1032               alien_workdir.Data(),gridhandler->GetGridOutputDir());
1033
1034        TString dest;
1035        dest = Form("%s/%s/%s.jdl",alien_workdir.Data(),gridhandler->GetGridOutputDir(),kTrainName.Data());
1036        if(AliAnalysisAlien::FileExists(dest.Data())){
1037          Printf("%s exist on grid removing...",dest.Data());
1038          gGrid->Rm(dest.Data());
1039        }
1040        Printf("%s copy ...",dest.Data());
1041        TFile::Cp(Form("file:%s.jdl",kTrainName.Data()),Form("alien://%s",dest.Data()));
1042
1043
1044        TString dest;
1045        dest = Form("%s/%s/%s_merge.jdl",alien_workdir.Data(),gridhandler->GetGridOutputDir(),kTrainName.Data());
1046        if(AliAnalysisAlien::FileExists(dest.Data())){
1047          Printf("%s exist on grid removing...",dest.Data());
1048          gGrid->Rm(dest.Data());
1049        }
1050        Printf("%s copy ...",dest.Data());
1051        TFile::Cp(Form("file:%s_merge.jdl",kTrainName.Data()),Form("alien://%s",dest.Data()));
1052        
1053        dest = Form("%s/%s/%s_merge_final.jdl",alien_workdir.Data(),gridhandler->GetGridOutputDir(),kTrainName.Data());
1054        if(AliAnalysisAlien::FileExists(dest.Data())){
1055          Printf("%s exist on grid removing...",dest.Data());
1056          gGrid->Rm(dest.Data());
1057        }
1058        Printf("%s copy ...",dest.Data());
1059        TFile::Cp(Form("file:%s_merge.jdl",kTrainName.Data()),Form("alien://%s",dest.Data()));
1060
1061
1062        /*
1063        dest = Form("%s/rootfiles/STEER/LQ1dRef_v1.root",gGrid->GetHomeDirectory());
1064        if(AliAnalysisAlien::FileExists(dest.Data())){
1065          Printf("%s exist on grid removing...",dest.Data());
1066          gGrid->Rm(dest.Data());
1067        }
1068        TFile::Cp(Form("file:%s/STEER/LQ1dRef_v1.root",
1069                       gSystem->ExpandPathName("$ALICE_ROOT")),Form("alien://%s",dest.Data()));
1070        */
1071      }
1072      AliLog::SetGlobalLogLevel(AliLog::kError);
1073      if((kUseSysInfo>0&&smode=="LOCAL")||!strcmp(plugin_mode, "test")){
1074        TFile * fM = TFile::Open("manager_local.root","RECREATE");
1075        mgr->Write();
1076        fM->Close();
1077      }
1078      
1079      // grmpf, aliroot error handler overwrites root
1080      gErrorIgnoreLevel = kErrorIgnoreLevel;
1081      if(gErrorIgnoreLevel>3000) AliLog::SetGlobalLogLevel(AliLog::kFatal);
1082      StartAnalysis(smode, chain);
1083      if((kUseSysInfo>0&&smode=="LOCAL")||!strcmp(plugin_mode, "test")){
1084        for(int i = 0;i < mgr->GetTopTasks()->GetEntries();i++){
1085          mgr->ProfileTask(i);
1086        }
1087      }
1088      if (!strcmp(plugin_mode, "offline")&&smode=="GRID"){
1089        // Offline mode path files
1090        //       PatchJDL();
1091        //       PatchAnalysisMacro();
1092      }
1093
1094      if (kSaveTrain && smode=="GRID") {
1095        AliAnalysisAlien *gridhandler = (AliAnalysisAlien*)mgr->GetGridHandler();
1096        TString alien_workdir = gGrid->GetHomeDirectory();
1097        if (iAODanalysis) alien_workdir += "analysisAOD";
1098        else              alien_workdir += "analysisESD";
1099        if(kGridDataSet.Length()>0)alien_workdir += Form("/%s",kGridDataSet.Data());
1100        //     kGridOutdir = gridhandler->GetGridOutputDir();
1101        printf("=== Registering ConfigTrain.C in the work directory <%s> ===\n",
1102                 alien_workdir.Data());
1103        if (AliAnalysisAlien::FileExists(Form("%s/%sConfig.C", alien_workdir.Data(), kTrainName.Data())))
1104          gGrid->Rm(Form("%s/%sConfig.C", alien_workdir.Data(), kTrainName.Data()));
1105        if (strcmp(plugin_mode, "test"))
1106          TFile::Cp(Form("file:%sConfig.C",kTrainName.Data()), Form("alien://%s/%sConfig.C", alien_workdir.Data(), kTrainName.Data()));
1107      }
1108    }
1109 }
1110
1111 //______________________________________________________________________________
1112 void StartAnalysis(const char *mode, TChain *chain) {
1113 // Start analysis.
1114    Int_t imode = -1;
1115    AliAnalysisManager *mgr = AliAnalysisManager::GetAnalysisManager();
1116    if (!strcmp(mode, "LOCAL")) imode = 0;
1117    if (!strcmp(mode, "PROOF")) imode = 1;
1118    if (!strcmp(mode, "GRID"))  imode = 2;
1119    switch (imode) {
1120       case 0:
1121          if (!chain) {
1122             ::Error("AnalysisTrainPWG4Jets.C::StartAnalysis", "Cannot create the chain");
1123             return;
1124          }   
1125          mgr->StartAnalysis(mode, chain,kNumberOfEvents);
1126          return;
1127       case 1:
1128          if (!kProofDataSet.Length()) {
1129             ::Error("AnalysisTrainPWG4Jets.C::StartAnalysis", "kProofDataSet is empty");
1130             return;
1131          }   
1132          mgr->StartAnalysis(mode, kProofDataSet, kProofEvents,kProofOffset);
1133          return;
1134       case 2:
1135          if (kPluginUse) {
1136             if (!mgr->GetGridHandler()) {
1137                ::Error("AnalysisTrainPWG4Jets.C::StartAnalysis", "Grid plugin not initialized");
1138                return;
1139             }   
1140             mgr->StartAnalysis("grid",chain,kNumberOfEvents);
1141          } else {
1142             if (!chain) {
1143                ::Error("AnalysisTrainPWG4Jets.C::StartAnalysis", "Cannot create the chain");
1144                return;
1145             }   
1146             mgr->StartAnalysis(mode, chain);
1147             mgr->StartAnalysis(mode, chain,kNumberOfEvents);
1148          }   
1149          return;
1150    }      
1151 }          
1152     
1153 //______________________________________________________________________________
1154 void CheckModuleFlags(const char *mode) {
1155 // Checks selected modules and insure compatibility
1156    Int_t imode = -1;
1157    if (!strcmp(mode, "LOCAL")) imode = 0;
1158    if (!strcmp(mode, "PROOF")) imode = 1;
1159    if (!strcmp(mode, "GRID"))  imode = 2;
1160
1161
1162    if (kUseCPAR) {
1163      kPluginAliRootVersion    = ""; // NO aliroot if we use CPAR
1164    }
1165
1166    if (imode==1) {
1167       if (!kUsePAR) {
1168          ::Info("AnalysisTrainPWG4Jets.C::CheckModuleFlags", "PAR files enabled due to PROOF analysis");
1169          kUsePAR = kTRUE;
1170       }   
1171    }  
1172    if (imode != 2) {
1173       ::Info("AnalysisTrainPWG4Jets.C::CheckModuleFlags", "AliEn plugin disabled since not in GRID mode");
1174       kPluginUse = kFALSE; 
1175    }   
1176
1177
1178    if(!kIsMC){
1179      // switch off anthin related to MC
1180      kUseMC = 0;
1181      kUseAODMC = 0;
1182      kUseTR = kFALSE;
1183    }
1184
1185    // Decide if we have PbPb
1186    if(kGridDataSet.CompareTo("LHC10h")==0||kGridDataSet.Contains("LHC10h")) {
1187      Printf("Using settings for Pb+Pb");
1188      kIsPbPb = true;
1189    }
1190
1191    
1192
1193    if (iAODanalysis) {
1194    // AOD analysis
1195       if (kUseMC)
1196          ::Info("AnalysisTrainPWG4Jets.C::CheckModuleFlags", "MC usage disabled in analysis on AOD's");
1197       if (kUseAODTags)
1198          ::Info("AnalysisTrainPWG4Jets.C::CheckModuleFlags", "AOD tags usage disabled in analysis on AOD's");
1199       kUseMC = kFALSE;
1200       kUseTR = kFALSE;
1201       kUseAODTags = kFALSE;
1202       if (iESDfilter)
1203          ::Info("AnalysisTrainPWG4Jets.C::CheckModuleFlags", "ESD filter disabled in analysis on AOD's");
1204       iESDfilter   = 0;
1205       if (iPhysicsSelection)
1206          ::Info("AnalysisTrainPWG4Jets.C::CheckModuleFlags", "Physics Selection disabled in analysis on AOD's");
1207       iPhysicsSelection   = 0;
1208       if (!iAODhandler) {
1209          if (iJETAN) 
1210             ::Info("AnalysisTrainPWG4Jets.C::CheckModuleFlags", "JETAN disabled in analysis on AOD's without AOD handler");
1211          iJETAN = 0;
1212          iDIJETAN = 0;
1213       }
1214       // Disable tasks that do not work yet on AOD data
1215       if(iPWG4JCORRAN)::Info("AnalysisTrainPWG4Jets.C::CheckModuleFlags", "PWG4 JCORRAN disabled in analysis on AOD's");
1216       iPWG4JCORRAN = 0;
1217       if( iPWG4PtQAMC)::Info("AnalysisTrainPWG4Jets.C::CheckModuleFlags", "PWG4 PtQAMC disabled in analysis on AOD's");
1218       iPWG4PtQAMC        = 0;
1219       if( iPWG4PtQATPC)::Info("AnalysisTrainPWG4Jets.C::CheckModuleFlags", "PWG4 PtTPC disabled in analysis on AOD's");
1220       iPWG4PtQATPC        = 0;
1221       if( iPWG4Cosmics)::Info("AnalysisTrainPWG4Jets.C::CheckModuleFlags", "PWG4 Comics disabled in analysis on AOD's");
1222       iPWG4Cosmics        = 0;
1223
1224       if( iPWG4PtSpectra)::Info("AnalysisTrainPWG4Jets.C::CheckModuleFlags", "PWG4 PtQAMC disabled in analysis on AOD's");
1225       iPWG4PtSpectra     = 0;
1226       if(iPWG4KMeans)::Info("AnalysisTrainPWG4Jets.C::CheckModuleFlags", "PWG4KMeans disabled on AOD's");
1227       iPWG4KMeans       = 0;
1228       if (iPWG4JetCorr)::Info("AnalysisTrainPWG4Jets.C::CheckModuleFlags", "PWG4Jetcorr disabled on AOD's");
1229       iPWG4JetCorr = 0;
1230       if (iPWG4PartCorr)::Info("AnalysisTrainPWG4Jets.C::CheckModuleFlags", "PWG4partcorr disabled on AOD's");
1231       iPWG4PartCorr = 0;
1232       if (iPWG4CaloQA)::Info("AnalysisTrainPWG4Jets.C::CheckModuleFlags", "PWG4CaloQA disabled on AOD's");
1233       iPWG4CaloQA = 0;
1234       if (iPWG4Tagged)::Info("AnalysisTrainPWG4Jets.C::CheckModuleFlags", "PWG4tagged disabled on AOD's");
1235       iPWG4Tagged = 0;
1236       if (iPWG4omega3pi)
1237         ::Info("AnalysisTrainNew.C::CheckModuleFlags", "PWG4omega3pi disabled on AOD's");
1238       iPWG4omega3pi = 0;
1239       if(iPWG1QASym)::Info("AnalysisTrainPWG4Jets.C::CheckModuleFlags", "PWG1 QA Sym disabled in analysis on AOD's");
1240       if (iPWG4GammaConv)::Info("AnalysisPWG4Jets.C::CheckModuleFlags", "PWG4gammaconv disabled on AOD's");
1241       iPWG4GammaConv = 0;   
1242       iPWG1QASym     = 0;
1243       iCentralitySelection = 0;
1244    } else {   
1245    // ESD analysis
1246
1247      if(kIsPbPb){
1248        iCentralitySelection = 1;
1249      }
1250
1251      if (!kUseMC){
1252        kUseTR = kFALSE;
1253        
1254        if(kUseKinefilter)::Info("AnalysisTrainPWG4Jets.C::CheckModuleFlags", "PWG4 Kine Filter disabled in analysis without MC");
1255        kUseKinefilter = kFALSE;
1256        if( iPWG4PtQAMC)::Info("AnalysisTrainPWG4Jets.C::CheckModuleFlags", "PWG4 PtQAMC disabled in analysis without MC");
1257        iPWG4PtQAMC        = 0;
1258        if( iPWG4CorrectionsUE)::Info("AnalysisTrainPWG4Jets.C::CheckModuleFlags", "PWG4 CorrectionsUE disabled in analysis without MC");
1259        iPWG4CorrectionsUE = 0;
1260      }
1261      if (!kUseTR) {
1262        if(iPWG4PtQAMC)::Info("AnalysisTrainPWG4Jets.C::CheckModuleFlags", "iPWG4QATPCMC disabled if not reading track references");
1263        iPWG4PtQAMC        = 0;
1264      }   
1265      if (iJETAN){
1266        iESDfilter=1;
1267      }
1268       if (!iESDfilter){
1269         kUseKinefilter = kFALSE;
1270         kUseMuonfilter = kFALSE;
1271       }
1272       if(!iJETAN){
1273         iPWG4JetSpectrum = iPWG4UE =  iPWG4CorrectionsUE = iPWG4ThreeJets = iPWG4QGSep = iDIJETAN = 0;
1274       }
1275    }
1276    iPWG4JetTasks = iPWG4JetServices||iPWG4JetSpectrum||iPWG4UE||iPWG4LeadingUE||iPWG4PtQAMC||iPWG4PtSpectra||iPWG4PtQATPC||iPWG4Cosmics||iPWG4ThreeJets||iPWG4QGSep||iPWG4JetChem||iPWG4Minijet||iPWG4Fragmentation;
1277    iPWG4PartCorrLibs = iPWG4PartCorr||iPWG4Tagged||iPWG4CaloQA;
1278    iPWG4GammaConvLib = iPWG4GammaConv||iPWG4CaloConv;
1279
1280
1281    iEMCUtilLibs = iPWG4PartCorrLibs||iPWG4JCORRAN||iPWG4GammaConvLib;
1282    iJETANLib = iPWG4JetTasks||iJETAN||iDIJETAN;
1283
1284    if (iESDfilter) {iAODhandler=1;}
1285    if (kUseKinefilter && !kUseMC) kUseKinefilter = kFALSE;
1286    if (kUseAODTags && !iAODhandler) kUseAODTags = kFALSE;
1287
1288
1289    
1290 }
1291
1292 //______________________________________________________________________________
1293 Bool_t Connect(const char *mode) {
1294 // Connect <username> to the back-end system.
1295    Int_t imode = -1;
1296    if (!strcmp(mode, "LOCAL")) imode = 0;
1297    if (!strcmp(mode, "PROOF")) imode = 1;
1298    if (!strcmp(mode, "GRID"))  imode = 2;
1299    TString username = gSystem->Getenv("alien_API_USER");
1300    switch (imode) {
1301       case 0:
1302          break;
1303       case 1:
1304          if  (!username.Length()) {
1305             ::Error(Form("AnalysisTrainPWG4Jets.C::Connect <%s>", mode), "Make sure you:\n \
1306                            1. Have called: alien-token-init <username>\n \
1307                            2. Have called: >source /tmp/gclient_env_$UID");
1308             return kFALSE;
1309          }
1310          ::Info("AnalysisTrainPWG4Jets.C::Connect", "Connecting user <%s> to PROOF cluster <%s>", 
1311                 username.Data(), kProofCluster.Data());
1312          gEnv->SetValue("XSec.GSI.DelegProxy", "2");
1313 //         TProof::Open(Form("%s@%s:31093", username.Data(), kProofCluster.Data()));       
1314          TProof::Open(Form("%s@%s", username.Data(), kProofCluster.Data()));       
1315          if (!gProof) {
1316             if (strcmp(gSystem->Getenv("XrdSecGSISRVNAMES"), "lxfsrd0506.cern.ch"))
1317                ::Error(Form("AnalysisTrainPWG4Jets.C::Connect <%s>", mode), "Environment XrdSecGSISRVNAMES different from lxfsrd0506.cern.ch");
1318             return kFALSE;
1319          }
1320          if(kProofClearPackages)gProof->ClearPackages();
1321
1322          if(kProofSaveToAlien){
1323            TGrid::Connect("alien://");
1324            if (gGrid) {
1325              TString homedir = gGrid->GetHomeDirectory();
1326              TString workdir = homedir + kTrainName;
1327              if (!gGrid->Cd(workdir)) {
1328                gGrid->Cd(homedir);
1329                if (gGrid->Mkdir(workdir)) {
1330                  gGrid->Cd(kTrainName);
1331                  ::Info("AnalysisTrainPWG4Jets::Connect()", "Directory %s created", gGrid->Pwd());
1332                }
1333              }
1334              gGrid->Mkdir("proof_output");
1335              gGrid->Cd("proof_output");
1336              kProofOutdir = Form("alien://%s", gGrid->Pwd());
1337            }   
1338          }
1339          break;
1340       case 2:      
1341          if  (!username.Length()) {
1342             ::Error(Form("AnalysisTrainPWG4Jets.C::Connect <%s>", mode), "Make sure you:\n \
1343                            1. Have called: alien-token-init <username>\n \
1344                            2. Have called: >source /tmp/gclient_env_$UID");
1345             return kFALSE;
1346          }
1347          if (kPluginUse && !gSystem->Getenv("alien_CLOSE_SE")) {
1348             ::Error(Form("AnalysisTrainPWG4Jets.C::Connect <%s>", mode), 
1349                            "When using the AliEn plugin it is preferable to define the \
1350                            variable alien_CLOSE_SE in your environment.");
1351             return kFALSE;
1352          }
1353          ::Info("AnalysisTrainPWG4Jets.C::Connect", "Connecting user <%s> to AliEn ...", 
1354                 username.Data());
1355          TGrid::Connect("alien://");
1356          if (!gGrid || !gGrid->IsConnected()) return kFALSE;
1357          break;
1358       default:
1359          ::Error("AnalysisTrainPWG4Jets.C::Connect", "Unknown run mode: %s", mode);
1360          return kFALSE;
1361    }
1362    ::Info("AnalysisTrainPWG4Jets.C::Connect","Connected in %s mode", mode);
1363    return kTRUE;
1364 }
1365
1366 //______________________________________________________________________________
1367 Bool_t LoadCommonLibraries(const char *mode)
1368 {
1369    if (!gSystem->Getenv("ALICE_ROOT_SRC")) {
1370       ::Error("AnalysisTrainPWG4Jets.C", "Analysis train requires that ALICE_ROOT_SRC is set to pick up Configurations"); 
1371       return kFALSE;
1372    }   
1373    
1374    // Load common analysis libraries.
1375    Int_t imode = -1;
1376    if (!strcmp(mode, "LOCAL")) imode = 0;
1377    if (!strcmp(mode, "PROOF")) imode = 1;
1378    if (!strcmp(mode, "GRID"))  imode = 2;
1379    Bool_t success = kTRUE;
1380    // ROOT libraries
1381    gSystem->Load("libTree.so");
1382    gSystem->Load("libGeom.so");
1383    gSystem->Load("libVMC.so");
1384    gSystem->Load("libPhysics.so");
1385    
1386    // Load framework classes. Par option ignored here.
1387    switch (imode) {
1388       case 0:
1389       case 2:
1390          if (kUseCPAR) {
1391             success &= LoadLibrary("STEERBase", mode, kTRUE);
1392             success &= LoadLibrary("ESD", mode, kTRUE);
1393             success &= LoadLibrary("AOD", mode, kTRUE);
1394             success &= LoadLibrary("ANALYSIS", mode, kTRUE);
1395             success &= LoadLibrary("ANALYSISalice", mode, kTRUE);
1396             success &= LoadLibrary("ROOTFILES", mode, kTRUE);
1397             // success &= LoadLibrary("EventMixing", mode,kTRUE);
1398             success &= LoadLibrary("CORRFW", mode, kTRUE);
1399          } else {   
1400             success &= LoadLibrary("libSTEERBase.so", mode);
1401             success &= LoadLibrary("libESD.so", mode);
1402             success &= LoadLibrary("libAOD.so", mode);
1403             success &= LoadLibrary("libANALYSIS.so", mode);
1404             success &= LoadLibrary("libANALYSISalice.so", mode);
1405             // success &= LoadLibrary("libEventMixing.so", mode);
1406             success &= LoadLibrary("libCORRFW.so", mode);
1407             gROOT->ProcessLine(".include $ALICE_ROOT/include");
1408          }   
1409          break;
1410       case 1:
1411          Int_t ires = -1;
1412          if (kProofUseAFPAR && !gSystem->AccessPathName(kProofAFversion)) ires = gProof->UploadPackage(kProofAFversion);
1413          if (ires < 0) {
1414             success &= LoadLibrary("STEERBase", mode);
1415             success &= LoadLibrary("ESD", mode);
1416             success &= LoadLibrary("AOD", mode);
1417             success &= LoadLibrary("ANALYSIS", mode);
1418             success &= LoadLibrary("ANALYSISalice", mode);
1419             success &= LoadLibrary("EventMixing", mode);
1420             success &= LoadLibrary("CORRFW", mode);
1421          } else { 
1422             ires = gProof->EnablePackage(kProofAFversion);
1423             if (ires<0) success = kFALSE;
1424             success &= LoadLibrary("CORRFW", mode);
1425          }
1426          break;         
1427       default:
1428          ::Error("AnalysisTrainPWG4Jets.C::LoadCommonLibraries", "Unknown run mode: %s", mode);
1429          return kFALSE;
1430    }
1431    if (success) {
1432       ::Info("AnalysisTrainPWG4Jets.C::LoadCommodLibraries", "Load common libraries:    SUCCESS");
1433       ::Info("AnalysisTrainPWG4Jets.C::LoadCommodLibraries", "Include path for Aclic compilation:\n%s",
1434               gSystem->GetIncludePath());
1435    } else {           
1436       ::Info("AnalysisTrainPWG4Jets.C::LoadCommodLibraries", "Load common libraries:    FAILED");
1437    }   
1438       
1439    return success;
1440 }
1441
1442 //______________________________________________________________________________
1443 Bool_t LoadAnalysisLibraries(const char *mode)
1444 {
1445 // Load common analysis libraries.
1446   Bool_t success = kTRUE;
1447   if (useTender) {
1448       if (!LoadLibrary("TENDER", mode, kTRUE) ||
1449           !LoadLibrary("TENDERSupplies", mode, kTRUE)) return kFALSE;
1450    }
1451    if (iESDfilter) {
1452      /*
1453       if (!LoadLibrary("PWG3base", mode, kTRUE) ||
1454           !LoadLibrary("PWG3muon", mode, kTRUE)) return kFALSE;
1455      */
1456    }   
1457    // JETAN
1458    if (iJETANLib) {
1459      // this part needs some rework in case we do not need the fastjed finders for processing
1460      if (!LoadLibrary("JETAN", mode, kTRUE)) return kFALSE;
1461      if (!strcmp(mode, "PROOF")){
1462        gProof->Exec("gSystem->Load\(\"/afs/cern.ch/user/d/dperrino/public/libCGAL.so\"\)", kTRUE); 
1463        gProof->Exec("gSystem->Load\(\"/afs/cern.ch/user/d/dperrino/public/libfastjet.so\"\)", kTRUE); 
1464        // problem when loading siscone copiled with different gcc version??
1465        // gProof->Exec("gSystem->Load\(\"/afs/cern.ch/user/d/dperrino/public/libsiscone.so\"\)", kTRUE); 
1466        gProof->Exec("gSystem->Load\(\"/afs/cern.ch/user/d/dperrino/public/libSISConePlugin.so\"\)", kTRUE);      
1467      }
1468      if(!kUsePAR){ 
1469        if (!LoadLibrary("CGAL", mode, kTRUE)) return kFALSE;
1470        if (!LoadLibrary("fastjet", mode, kTRUE)) return kFALSE;
1471        if (!LoadLibrary("siscone", mode, kTRUE)) return kFALSE;
1472        if (!LoadLibrary("SISConePlugin", mode, kTRUE)) return kFALSE;
1473      }
1474      else{
1475        // par files plus FASTJET needs some extra work... need to change
1476        // the loading sequence in the auto generated .C file
1477        if (!LoadLibrary("libCGAL.so", mode, kTRUE)) return kFALSE;
1478        if (!LoadLibrary("libfastjet.so", mode, kTRUE)) return kFALSE;
1479        if (!LoadLibrary("libsiscone.so", mode, kTRUE)) return kFALSE;
1480        if (!LoadLibrary("libSISConePlugin.so", mode, kTRUE)) return kFALSE;
1481      }
1482      if (!LoadLibrary("FASTJETAN", mode, kTRUE)) return kFALSE;
1483    }
1484    if(iPWG4JetTasks){
1485      if (!LoadLibrary("PWG4JetTasks", mode, kTRUE)) return kFALSE;
1486    }
1487
1488    if(iPWG1QASym){
1489      if (!LoadSource(Form("%s/PWG1/AliAnalysisTaskQASym.cxx",gSystem->ExpandPathName("$ALICE_ROOT_SRC")), mode, kTRUE))return kFALSE;
1490    }
1491    if(iPWG4TmpSourceSara){
1492      if(!kUsePAR)gSystem->AddIncludePath("-I$ALICE_ROOT/include/JetTasks"); // ugly hack!!
1493      if(!LoadSource(Form("%s/PWG4/JetTasks/AliAnalysisTaskEta.cxx",gSystem->ExpandPathName("$ALICE_ROOT_SRC")), mode, kTRUE))return kFALSE;
1494    }
1495
1496    /*
1497    if(iPWG4JetChem){
1498      if(!kUsePAR)gSystem->AddIncludePath("-I$ALICE_ROOT/include/JetTasks"); // ugly hack!!
1499      if(!LoadSource(Form("%s/PWG4/JetTasks/AliAnalysisTaskJetChem.cxx",gSystem->ExpandPathName("$ALICE_ROOT")), mode, kTRUE))return kFALSE;
1500    }
1501    */
1502
1503    if(iEMCUtilLibs){
1504      if (!LoadLibrary("EMCALUtils", mode, kTRUE) ||
1505          !LoadLibrary("PHOSUtils", mode, kTRUE)) return kFALSE;
1506    }
1507
1508    if (iPWG4PartCorrLibs) {   
1509       if (!LoadLibrary("PWG4PartCorrBase", mode, kTRUE) ||
1510           !LoadLibrary("PWG4PartCorrDep", mode, kTRUE)) return kFALSE;
1511    }
1512    if(iPWG4JCORRAN){
1513      // PWG4 particle correlations
1514      if(!LoadLibrary("PWG4JCORRAN",mode,kTRUE))return kFALSE;
1515    }
1516    if (iPWG4JetCorr) { 
1517      if (!LoadLibrary("PWG4JetCorrel", mode, kTRUE)) return kFALSE;
1518    }  
1519    if (iPWG4omega3pi) {
1520      if (!LoadLibrary("PWG4omega3pi", mode, kTRUE)) return kFALSE;
1521    }
1522    if (iPWG4GammaConvLib) {
1523       if (!LoadLibrary("PWG4GammaConv", mode, kTRUE)) return kFALSE;
1524    }      
1525
1526    ::Info("AnalysisTrainPWG4Jets.C::LoadAnalysisLibraries", "Load other libraries:   SUCCESS");
1527    return kTRUE;
1528 }
1529
1530 //______________________________________________________________________________
1531 Bool_t LoadLibrary(const char *module, const char *mode, Bool_t rec=kFALSE)
1532 {
1533 // Load a module library in a given mode. Reports success.
1534    Int_t imode = -1;
1535    Int_t result;
1536    TString smodule(module);
1537    if (!strcmp(mode, "LOCAL")) imode = 0;
1538    if (!strcmp(mode, "PROOF")) imode = 1;
1539    if (!strcmp(mode, "GRID"))  imode = 2;
1540    TString mod(module);
1541    if (!mod.Length()) {
1542       ::Error("AnalysisTrainPWG4Jets.C::LoadLibrary", "Empty module name");
1543       return kFALSE;
1544    }   
1545    // If a library is specified, just load it
1546    if (smodule.EndsWith(".so")) {
1547       mod.Remove(mod.Index(".so"));
1548       result = gSystem->Load(mod);
1549       if (result < 0) {
1550          ::Error("AnalysisTrainPWG4Jets.C::LoadLibrary", "Could not load library %s", module);
1551          return kFALSE;
1552       }
1553       if (rec) anaLibs += Form("%s.so ",mod.Data()); 
1554       if (rec) anaLibsExtra += Form("%s.so ",mod.Data()); 
1555       return kTRUE;
1556    } 
1557    // Check if the library is already loaded
1558    if (strlen(gSystem->GetLibraries(Form("%s.so", module), "", kFALSE)) > 0)
1559       return kTRUE;    
1560    switch (imode) {
1561       case 0:
1562       case 2:
1563          if (kUsePAR) {
1564             result = SetupPar(module);
1565             if (rec) anaPars += Form("%s.par ", module);
1566          } else {
1567             result = gSystem->Load(Form("lib%s.so", module));
1568             if (rec) anaLibs += Form("lib%s.so ", module);
1569          }   
1570          break;
1571       case 1:
1572         if(!gSystem->AccessPathName(module)){
1573           ::Info("AnalysisTrainPWG4Jets.C::LoadLibrary", "Removing directory %s",module);
1574           gSystem->Exec(Form("rm -rf %s",module));
1575         }
1576          result = gProof->UploadPackage(module);
1577          if (result<0) {
1578             result = gProof->UploadPackage(gSystem->ExpandPathName(Form("$ALICE_ROOT/%s.par", module)));
1579             if (result<0) {
1580                ::Error("AnalysisTrainPWG4Jets.C::LoadLibrary", "Could not find module %s.par in current directory nor in $ALICE_ROOT", module);
1581                return kFALSE;
1582             }
1583          }   
1584          result = gProof->EnablePackage(module);
1585          break;
1586       default:
1587          return kFALSE;
1588    }         
1589    if (result < 0) {
1590       ::Error("AnalysisTrainPWG4Jets.C::LoadLibrary", "Could not load module %s", module);
1591       return kFALSE;
1592    }
1593    return kTRUE;
1594 }           
1595
1596
1597
1598 //______________________________________________________________________________
1599 Bool_t LoadSource(const char *source, const char *mode, Bool_t rec=kFALSE)
1600 {
1601 // Load a module library in a given mode. Reports success.
1602    Int_t imode = -1;
1603    Int_t result = -1;
1604    if (!strcmp(mode, "LOCAL")) imode = 0;
1605    if (!strcmp(mode, "PROOF")) imode = 1;
1606    if (!strcmp(mode, "GRID"))  imode = 2;
1607    TString ssource(source);
1608    TString basename = gSystem->BaseName(ssource.Data());
1609    if (!ssource.Length()) {
1610       ::Error("AnalysisTrainPWG4Jets.C::LoadSource", "Empty task name");
1611       return kFALSE;
1612    }   
1613    // we have a source code so compile it
1614    if (ssource.EndsWith(".cxx")) {
1615      // need to copy it here other wise the path is also used on grid...
1616      ssource.Remove(ssource.Index(".cxx"));
1617      basename.Remove(basename.Index(".cxx"));
1618      Printf("LoadSources:: Copying...  path %s{cxx,h}",ssource.Data());
1619      gSystem->Exec(Form("cp %s.cxx . ",ssource.Data()));
1620      gSystem->Exec(Form("cp %s.h . ",ssource.Data()));
1621      // Path to code
1622      // only needed for local compilation, in grid and proof mode 
1623      // the task headers are uploaded 
1624      //     path.Remove(path.Index(gSystem->BaseName(path.Data())));
1625      // Printf("LoadSources:: Including path %s",path.Data());
1626      //  if(path.Length()>0)gROOT->ProcessLine(Form(".include %s",path.Data()));
1627      Printf("LoadSources:: Loading...  path %s",basename.Data());
1628      switch (imode) {
1629      case 0:
1630        result = gROOT->LoadMacro(Form("%s.cxx++g",basename.Data()));
1631        break;
1632      case 1:
1633        result = gProof->LoadMacro(Form("%s.cxx++g",basename.Data()));
1634        break;
1635      case 2:
1636        result = gROOT->LoadMacro(Form("%s.cxx++g",basename.Data()));
1637        if (rec){
1638          // what we want to compile
1639          anaSources += Form("%s.cxx ",basename.Data()); 
1640          // what we need as input...
1641          anaLibs += Form("%s.cxx %s.h ",basename.Data(),basename.Data()); 
1642        }
1643        break;
1644      default:
1645        return kFALSE;
1646      }
1647    } 
1648    if (result < 0) {
1649       ::Error("AnalysisTrainPWG4Jets.C::LoadSources", "Could not load source %s", source);
1650       return kFALSE;
1651    }
1652    return kTRUE;
1653 }           
1654
1655
1656 //______________________________________________________________________________
1657 TChain *CreateChain(const char *mode, const char *plugin_mode)
1658 {
1659 // Create the input chain
1660    Int_t imode = -1;
1661    if (!strcmp(mode, "LOCAL")) imode = 0;
1662    if (!strcmp(mode, "PROOF")) imode = 1;
1663    if (!strcmp(mode, "GRID"))  imode = 2;
1664    TChain *chain = NULL;
1665    // Local chain
1666    switch (imode) {
1667       case 0:
1668          if (iAODanalysis) {
1669             if (!kLocalXMLDataset.Length()) {
1670                // Local AOD
1671                chain = new TChain("aodTree");
1672                TString line;
1673                ifstream in;
1674                in.open(kLocalDataList.Data());
1675                while (in.good()) {
1676                  in >> line;
1677                  if (line.Length() == 0) continue;
1678                  // cout << " line = " << line << endl;
1679                  chain->Add(line.Data());
1680                }       
1681             } else {
1682                // Interactive AOD
1683                chain = CreateChainSingle(kLocalXMLDataset, "aodTree");
1684             }
1685          } else {      
1686            if (!kLocalXMLDataset.Length()) {
1687              // Local ESD
1688              chain = new TChain("esdTree");
1689              TString line;
1690              ifstream in;
1691              in.open(kLocalDataList.Data());
1692              while (in.good()) {
1693                in >> line;
1694                if (line.Length() == 0) continue;
1695                cout << " line = " << line << endl;
1696                chain->Add(line.Data());
1697              }       
1698            } else {
1699              // Interactive ESD
1700                chain = CreateChainSingle(kLocalXMLDataset, "esdTree");
1701            }   
1702          }
1703          break;
1704       case 1:
1705          break;
1706       case 2:
1707          if (kPluginUse) {
1708 //            AliAnalysisGrid *alienHandler = CreateAlienHandler(plugin_mode);
1709 //            AliAnalysisManager::GetAnalysisManager()->SetGridHandler(alienHandler);
1710          } else {
1711             TString           treeName = "esdTree";
1712             if (iAODanalysis) treeName = "aodTree";
1713             chain = CreateChainSingle("wn.xml", treeName);
1714          }
1715          break;      
1716       default:   
1717    }
1718    if (chain && chain->GetNtrees()) return chain;
1719    return NULL;
1720 }   
1721
1722 //______________________________________________________________________________
1723 TChain* CreateChainSingle(const char* xmlfile, const char *treeName)
1724 {
1725    printf("*******************************\n");
1726    printf("*** Getting the ESD Chain   ***\n");
1727    printf("*******************************\n");
1728    TAlienCollection * myCollection  = TAlienCollection::Open(xmlfile);
1729
1730    if (!myCollection) {
1731       ::Error("AnalysisTrainPWG4Jets.C::CreateChainSingle", "Cannot create an AliEn collection from %s", xmlfile) ;
1732       return NULL ;
1733    }
1734
1735    TChain* chain = new TChain(treeName);
1736    myCollection->Reset() ;
1737    while ( myCollection->Next() ) chain->Add(myCollection->GetTURL("")) ;
1738    chain->ls();
1739    return chain;
1740 }
1741
1742 //______________________________________________________________________________
1743 Int_t SetupPar(char* pararchivename)
1744 {
1745    if (!pararchivename || !strlen(pararchivename)) return -1;
1746    char processline[1024];
1747    if (gSystem->AccessPathName(Form("%s.par", pararchivename))) {
1748       if (!gSystem->AccessPathName(Form("%s/%s.par", gSystem->Getenv("ALICE_ROOT"),pararchivename))) {
1749          ::Info("AnalysisTrainPWG4Jets.C::SetupPar", "Getting %s.par from $ALICE_ROOT", pararchivename);
1750         TFile::Cp(gSystem->ExpandPathName(Form("$ALICE_ROOT/%s.par", pararchivename)), 
1751                   Form("%s.par",pararchivename));
1752       } else {
1753          ::Error("AnalysisTrainPWG4Jets.C::SetupPar", "Cannot find %s.par", pararchivename);
1754          return -1;
1755       }   
1756    }
1757    if (kPluginUse && kSaveTrain) gSystem->Exec(Form("ln -s ../%s.par %s",pararchivename, kTrainName.Data()));
1758    gSystem->Exec(Form("tar xvzf %s.par", pararchivename));
1759
1760    TString ocwd = gSystem->WorkingDirectory();
1761    if (!gSystem->ChangeDirectory(pararchivename)) return -1;
1762         
1763    // check for BUILD.sh and execute
1764    if (!gSystem->AccessPathName("PROOF-INF/BUILD.sh")) {
1765       printf("*******************************\n");
1766       printf("*** Building PAR archive    ***\n");
1767       printf("*******************************\n");          
1768       if (gSystem->Exec("PROOF-INF/BUILD.sh")) {
1769          Error("runProcess","Cannot Build the PAR Archive! - Abort!");
1770          return -1;
1771       }
1772    }
1773
1774         // check for SETUP.C and execute
1775         if (!gSystem->AccessPathName("PROOF-INF/SETUP.C")) {
1776             printf("*******************************\n");
1777             printf("*** Setup PAR archive       ***\n");
1778             printf("*******************************\n");
1779             gROOT->Macro("PROOF-INF/SETUP.C");
1780         }       
1781         if (!gSystem->ChangeDirectory(ocwd.Data())){
1782           Error("Change back directory",Form("Cannot change to %s",ocwd.Data()));
1783           return -1;
1784         }
1785    return 0;
1786 }
1787
1788 //______________________________________________________________________________
1789 AliAnalysisAlien* CreateAlienHandler(const char *plugin_mode)
1790 {
1791 // Check if user has a valid token, otherwise make one. This has limitations.
1792 // One can always follow the standard procedure of calling alien-token-init then
1793 //   source /tmp/gclient_env_$UID in the current shell.
1794 //   if (!AliAnalysisGrid::CreateToken()) return NULL;
1795    AliAnalysisAlien *plugin = new AliAnalysisAlien();
1796 // Set the run mode (can be "full", "test", "offline", "submit" or "terminate")
1797    plugin->SetRunMode(plugin_mode);
1798    if (kPluginUseProductionMode) plugin->SetProductionMode();
1799    plugin->SetJobTag(kJobTag);
1800    plugin->SetNtestFiles(1);
1801 //   plugin->SetPreferedSE("ALICE::NIHAM::File");
1802 // Set versions of used packages
1803    plugin->SetAPIVersion("V1.1x");
1804    //   plugin->SetAPIVersion("V1.0x");
1805 //   plugin->SetAPIVersion("V2.4");
1806    plugin->SetROOTVersion(kPluginRootVersion);
1807    plugin->SetAliROOTVersion(kPluginAliRootVersion);
1808 // Declare input data to be processed.
1809 // Method 1: Create automatically XML collections using alien 'find' command.
1810 // Define production directory LFN
1811    plugin->SetGridDataDir(kGridDatadir.Data());
1812 // Set data search pattern
1813    if (iAODanalysis) plugin->SetDataPattern(" *AliAOD.Jets.root");
1814    //   else              plugin->SetDataPattern(Form(" %s/*/*ESD.tag.root",kGridPassPattern.Data()));
1815    else              plugin->SetDataPattern(Form(" %s/*/*AliESDs.root",kGridPassPattern.Data()));
1816 // ...then add run numbers to be considered
1817 //   plugin->SetRunRange(kGridRunRange[0], kGridRunRange[1]);
1818    for (Int_t i=kGridRunRange[0]; i<=kGridRunRange[1]; i++) {
1819      Printf("AnalysisTrainPWG4Jets Adding run number %s", Form(kGridRunPattern.Data(),i));
1820      plugin->AddRunNumber(Form(kGridRunPattern.Data(),i));
1821    }   
1822
1823    if(kGridLocalRunList.Length()>0){
1824      ifstream in1;
1825      in1.open(kGridLocalRunList.Data());
1826      int iRun;
1827      int icount = 0;
1828      /*
1829      char c;
1830      char cLine[250];
1831      while(!in1.eof()){
1832        c = in1.get();
1833        if ( (c >= '0') && (c <= '9') )
1834          {
1835            in1.putback (c)s;
1836            in1>>iRun;
1837            Printf("AnalysisTrainPWG4Jets Adding run number from File %s", Form(kGridRunPattern.Data(),iRun));
1838            plugin->AddRunNumber(Form(kGridRunPattern.Data(),iRun));
1839        }
1840      else
1841        {
1842          in1.putback (c);
1843          in1.getline(cLine,250);
1844
1845        }
1846      }
1847      */
1848      
1849      Int_t nRun = 0;
1850
1851      // just use run numbers, negatives will be excluded
1852      while(in1>>iRun){
1853        if(iRun>=0){
1854          if(iRun>=0&&nRun>=kGridOffsetRunFromList&&(nRun<kGridMaxRunsFromList)){
1855            Printf("AnalysisTrainPWG4Jets Adding run number from File %d: %s",nRun,Form(kGridRunPattern.Data(),iRun));
1856            plugin->AddRunNumber(Form(kGridRunPattern.Data(),iRun));
1857
1858          }
1859          else{
1860            Printf("AnalysisTrainPWG4Jets Skipping run number from File %d: %d",nRun, iRun);
1861          }
1862          nRun++;
1863        }
1864        else{
1865          Printf("AnalysisTrainPWG4Jets Skipping run number from File %d: %d",nRun, iRun);
1866        }
1867      }
1868    }
1869
1870 // Method 2: Declare existing data files (raw collections, xml collections, root file)
1871 // If no path mentioned data is supposed to be in the work directory (see SetGridWorkingDir())
1872 // XML collections added via this method can be combined with the first method if
1873 // the content is compatible (using or not tags)
1874 //   plugin->AddDataFile("tag.xml");
1875 //   plugin->AddDataFile("/alice/data/2008/LHC08c/000057657/raw/Run57657.Merged.RAW.tag.root");
1876 // Define alien work directory where all files will be copied. Relative to alien $HOME.
1877    TString alien_workdir = "";
1878    
1879    if (iAODanalysis)  alien_workdir += "analysisAOD";
1880    else               alien_workdir += "analysisESD";    
1881    if(kGridDataSet.Length()>0)alien_workdir += Form("/%s",kGridDataSet.Data());
1882    plugin->SetGridWorkingDir(alien_workdir.Data());
1883
1884    // Declare alien output directory. Relative to working directory.
1885    if (!kGridOutdir.Length()) kGridOutdir = Form("output_%s",kTrainName.Data());
1886    plugin->SetGridOutputDir(kGridOutdir);
1887
1888    // Add external packages
1889    if (iJETAN||iDIJETAN) {
1890       plugin->AddExternalPackage("boost::v1_43_0");
1891       plugin->AddExternalPackage("cgal::v3.6");
1892       plugin->AddExternalPackage("fastjet::v2.4.2");
1893    }   
1894
1895
1896    // set extra libs before par file compilation
1897    anaLibs += kGridExtraFiles;
1898    anaLibs     = anaLibs.Strip();   
1899    Printf("anaLibs %s",anaLibs.Data());
1900    Printf("anaLibsExtra %s",anaLibsExtra.Data());
1901
1902    if (anaLibs.Length())          plugin->SetAdditionalLibs(anaLibs.Data());
1903    if (anaLibsExtra.Length())     plugin->SetAdditionalRootLibs(anaLibsExtra.Data());
1904
1905    TString ana_sources = "";
1906    TString ana_add = "";
1907    if (kUsePAR && anaPars.Length()) {
1908       printf("%s\n", anaPars.Data());
1909       TObjArray *arr;
1910       TObjString *objstr;
1911       arr = anaPars.Tokenize(" ");
1912       TIter next(arr);
1913       while ((objstr=(TObjString*)next())) plugin->EnablePackage(objstr->GetString());
1914       delete arr;
1915    } 
1916    
1917 // Declare the analysis source files names separated by blancs. To be compiled runtime
1918 // using ACLiC on the worker nodes.
1919    ana_sources = anaSources.Strip();
1920 // Declare all libraries (other than the default ones for the framework. These will be
1921 // loaded by the generated analysis macro. Add all extra files (task .cxx/.h) here.
1922
1923    if (ana_sources.Length()) plugin->SetAnalysisSource(ana_sources);
1924    plugin->SetExecutableCommand(kPluginExecutableCommand.Data());  
1925    // Declare the output file names separated by blancs.
1926    // (can be like: file.root or file.root@ALICE::Niham::File)
1927    plugin->SetMergeExcludes(kGridMergeExclude);
1928    plugin->SetMaxMergeFiles(kGridMaxMergeFiles);
1929    plugin->SetNrunsPerMaster(kGridRunsPerMaster);
1930    plugin->SetMergeViaJDL(kPluginMergeViaJDL);
1931    // Use fastread option
1932    plugin->SetFastReadOption(kPluginFastReadOption);
1933    // UseOverwrite mode
1934    plugin->SetOverwriteMode(kPluginOverwriteMode); 
1935    // Optionally define the files to be archived.
1936    //   plugin->SetOutputArchive("log_archive.zip:stdout,stderr@ALICE::NIHAM::File root_archive.zip:AliAOD.root,AOD.tag.root@ALICE::NIHAM::File");
1937    plugin->SetOutputToRunNo(kPluginOutputToRunNumber);     // write the output to subdirs named after run number
1938    
1939    // Put default output files to archive
1940    TString listhists = "";
1941    TString listaods  = "";
1942    AliAnalysisManager *mgr = AliAnalysisManager::GetAnalysisManager();
1943    TIter next(mgr->GetOutputs());
1944    AliAnalysisDataContainer *output;
1945    while ((output=(AliAnalysisDataContainer*)next())) {
1946       const char *filename = output->GetFileName();
1947       if (!(strcmp(filename, "default"))) {
1948         if (!mgr->GetOutputEventHandler()) continue;
1949          filename = mgr->GetOutputEventHandler()->GetOutputFileName();
1950          if (listaods.Length()) listaods += " ";
1951          listaods += filename;
1952       } else {
1953         if(!listhists.Contains(filename)){
1954           if (listhists.Length()) listhists += " ";
1955           listhists += filename;
1956         }
1957       }
1958    }
1959
1960    if (mgr->GetExtraFiles().Length()) {
1961      if (listaods.Length()) listaods += " ";
1962      listaods += mgr->GetExtraFiles();
1963    }
1964
1965    // if we do not fill the aod we do not need to store it
1966    //   kGridMergeExclude = listaods;
1967    
1968    if(kSaveAOD>=0){
1969      TString outputFiles =  "";
1970      outputFiles += mgr->GetExtraFiles();
1971      if (listhists.Length()) outputFiles += " ";
1972      outputFiles += listhists;
1973      plugin->SetDefaultOutputs(kFALSE);
1974      Printf("%s:%d Starting with the files %s",(char*)__FILE__,__LINE__,outputFiles.Data());
1975      // remove
1976      // no harm done when we try to remove something that is not there :)
1977      if(!(kSaveAOD&(1<<0))){
1978        outputFiles.ReplaceAll("AliAOD.root ","");
1979        listaods.ReplaceAll("AliAOD.root ","");
1980      }
1981      if(!(kSaveAOD&(1<<1))){
1982        if(kDeltaAODJetName.Length())outputFiles.ReplaceAll(kDeltaAODJetName.Data(),"");
1983        if(kDeltaAODJetName.Length())listaods.ReplaceAll(kDeltaAODJetName.Data(),"");
1984        
1985      }
1986      if(!(kSaveAOD&(1<<2))){
1987        if(kDeltaAODPartCorrName.Length())outputFiles.ReplaceAll(kDeltaAODPartCorrName.Data(),"");
1988        if(kDeltaAODPartCorrName.Length())listaods.ReplaceAll(kDeltaAODPartCorrName.Data(),"");
1989      }
1990      if(!(kSaveAOD&(1<<3))){
1991        if(kDeltaAODJCORRANName.Length())outputFiles.ReplaceAll(kDeltaAODJCORRANName.Data(),"");
1992        if(kDeltaAODJCORRANName.Length())listaods.ReplaceAll(kDeltaAODJCORRANName.Data(),"");
1993      }
1994      
1995      // 
1996      plugin->SetDefaultOutputs(kFALSE);
1997      Printf("%s:%d Saving the files %s",(char*)__FILE__,__LINE__,outputFiles.Data());
1998      plugin->SetOutputFiles(outputFiles.Data());
1999    }
2000
2001    TString outputArchive;
2002    outputArchive = Form("log_archive.zip:std*@%s","disk=1");
2003    listaods.ReplaceAll(" ", ",");
2004    listhists.ReplaceAll(" ", ",");
2005    if (listhists.Length()){
2006      outputArchive += " ";
2007      outputArchive += "root_archive.zip:";
2008      outputArchive += listhists;
2009      if (listaods.Length()){
2010        outputArchive += ",";
2011        outputArchive += listaods;
2012      }
2013      outputArchive += Form("@%s", kGridOutputStorages.Data());
2014    }
2015    else{
2016      
2017      if (listaods.Length()){
2018        // we have only aod'ish output
2019        outputArchive += " ";
2020        outputArchive += "root_archive.zip:";
2021        outputArchive += listaods;
2022        outputArchive += Form("@%s", kGridOutputStorages.Data());
2023      }
2024      else{
2025        // no other outputs than std..
2026       ::Fatal("AnalysisTrainPWG4Jets", "No task output !");
2027      }
2028    }
2029
2030    plugin->SetDefaultOutputs(kFALSE);
2031    plugin->SetOutputArchive(outputArchive);
2032
2033
2034    // Optionally set a name for the generated analysis macro (default MyAnalysis.C)
2035    plugin->SetAnalysisMacro(Form("%s.C", kTrainName.Data()));
2036    // Optionally set maximum number of input files/subjob (default 100, put 0 to ignore)
2037    plugin->SetSplitMaxInputFileNumber(kGridFilesPerJob);
2038    // Optionally set number of failed jobs that will trigger killing waiting sub-jobs.
2039    //   plugin->SetMaxInitFailed(5);
2040    // Optionally resubmit threshold.
2041    // plugin->SetMasterResubmitThreshold(90);
2042    // Optionally set time to live (default 30000 sec)
2043    plugin->SetTTL(54000); // 15h...
2044    // Optionally set input format (default xml-single)
2045    plugin->SetInputFormat("xml-single");
2046    // Optionally modify the name of the generated JDL (default analysis.jdl)
2047    plugin->SetJDLName(Form("%s.jdl", kTrainName.Data()));
2048    // Optionally modify the executable name (default analysis.sh)
2049    plugin->SetExecutable(Form("%s.sh", kTrainName.Data()));
2050    // Optionally modify job price (default 1)
2051    plugin->SetPrice(1);      
2052    // Optionally modify split mode (default 'se')    
2053    plugin->SetSplitMode("se");
2054    return plugin;
2055 }
2056
2057 //______________________________________________________________________________
2058 void WriteConfig()
2059 {
2060 // Write train configuration in a file. The file name has the format:
2061 // train_[trainName]_ddMonthyyyy_time.C
2062    if (kUseDate) {
2063       gSystem->Exec("date +%d%b%Y_%Hh%M > date.tmp");
2064       ifstream fdate("date.tmp");
2065       if (!fdate.is_open()) {
2066          ::Error("AnalysisTrainPWG4Jets.C::Export","Could not generate file name");
2067          return;
2068       }
2069       const char date[64];
2070       fdate.getline(date,64);
2071       fdate.close();
2072       gSystem->Exec("rm date.tmp");
2073       kTrainName = Form("train_%s_%s", kTrainName.Data(), date);
2074    } else {
2075       kTrainName = Form("train_%s", kTrainName.Data());
2076    }   
2077    TString cdir = gSystem->WorkingDirectory();
2078    gSystem->MakeDirectory(kTrainName);
2079    gSystem->ChangeDirectory(kTrainName);
2080    ofstream out;
2081    out.open(Form("%sConfig.C",kTrainName.Data()), ios::out); 
2082    if (out.bad()) {
2083       ::Error("AnalysisTrainPWG4Jets.C::Export", "Cannot open ConfigTrain.C for writing");
2084       return;
2085    }
2086    out << "{" << endl;
2087    out << "   kTrainName      = " << "\"" << kTrainName.Data() << "\";" << endl;
2088    out << "   kProofCluster   = " << "\"" << kProofCluster.Data() << "\";" << endl;
2089    out << "   kProofUseAFPAR        = " << kProofUseAFPAR << ";" << endl;
2090    if (kProofUseAFPAR) 
2091       out << "   kProofAFversion       = " << kProofAFversion.Data() << ";" << endl;
2092    out << "   kProofDataSet   = " << "\"" << kProofDataSet.Data() << "\";" << endl;
2093    out << "   kPluginUse       = " << kPluginUse << ";" << endl;
2094    out << "   kUsePAR          = " << kUsePAR << ";" << endl;
2095    out << "   kUseCPAR         = " << kUseCPAR << ";" << endl;
2096    out << "   kPluginRootVersion    = " << "\"" << kPluginRootVersion.Data() << "\";" << endl;
2097    out << "   kPluginAliRootVersion = " << "\"" << kPluginAliRootVersion.Data() << "\";" << endl;
2098    out << "   kGridDatadir   = " << "\"" << kGridDatadir.Data() << "\";" << endl;
2099    if (!kGridOutdir.Length()) kGridOutdir = Form("output_%s",kTrainName.Data());
2100    out << "   kGridOutdir    = " << "\"" << kGridOutdir.Data() << "\";" << endl;
2101    out << "   kGridMaxMergeFiles   = " << kGridMaxMergeFiles << ";" << endl;
2102    out << "   kGridMergeExclude    = " << "\"" << kGridMergeExclude.Data() << "\";" << endl;
2103    out << "   kGridRunsPerMaster  = " << kGridRunsPerMaster << ";" << endl;
2104    out << "   kGridFilesPerJob    = " << kGridFilesPerJob << ";" << endl;
2105    out << "   kGridRunRange[0]    = " << kGridRunRange[0] << ";" << endl;
2106    out << "   kGridRunRange[1]    = " << kGridRunRange[1] << ";" << endl;
2107    out << "   kUseDebug          = " << kUseDebug << ";" << endl;
2108    out << "   kUseMC           = " << kUseMC << ";" << endl;
2109    out << "   kUseESDTags         = " << kUseESDTags << ";" << endl;
2110    out << "   kUseKinefilter      = " << kUseKinefilter << ";" << endl;
2111    out << "   kUseTR           = " << kUseTR << ";" << endl;
2112    out << "   kUseAODTags      = " << kUseAODTags << ";" << endl;
2113    out << "   kSaveTrain       = " << "kFALSE;" << endl << endl;
2114    out << "   // Analysis modules" << endl;
2115    out << "   iAODanalysis    = " << iAODanalysis << ";" << endl;
2116    out << "   iAODhandler     = " << iAODhandler << ";" << endl;
2117    out << "   iESDfilter      = " << iESDfilter << ";" << endl;
2118    out << "   iJETAN          = " << iJETAN << ";" << endl;
2119    out << "// Configuration fot the wagons" << endl;
2120    out << "}" << endl;
2121    ::Info("AnalysisTrainPWG4Jets.C::WriteConfig", "Train configuration wrote to file %s", Form("config_%s.C", kTrainName.Data()));
2122    gSystem->ChangeDirectory(cdir);
2123 }   
2124
2125 //______________________________________________________________________________
2126 Bool_t LoadConfig(const char *filename)
2127 {
2128 // Read train configuration from file
2129    if (gSystem->AccessPathName(filename)) {
2130       ::Error("AnalysisTrainPWG4Jets.C::LoadConfig", "Config file name not found");
2131       return kFALSE;
2132    }   
2133    gROOT->ProcessLine(Form(".x %s", filename));
2134    ::Info("AnalysisTrainPWG4Jets.C::LoadConfig", "Train configuration loaded from file %s", filename);
2135    return kTRUE;
2136 }
2137
2138 Bool_t PatchJDL(){
2139   Printf(">>> Patching JDL");
2140   AliAnalysisManager *mgr = AliAnalysisManager::GetAnalysisManager();
2141   AliAnalysisAlien*    gridHandler = (AliAnalysisAlien*)mgr->GetGridHandler();
2142   TGridJDL *jdl = gridHandler->GetGridJDL();
2143   if(iJETAN)jdl->AddToPackages("fastjet","v2.4.0");
2144   gridHandler->WriteJDL(kFALSE);
2145   Printf("<<<  Patching JDL");
2146   return kTRUE;
2147 }
2148
2149 Bool_t PatchAnalysisMacro(){
2150   Printf(">>> Patching AnalysisMacro");
2151   gSystem->Exec(Form("mv %s.C %s.C_tmp",kTrainName.Data(),kTrainName.Data()));
2152
2153   ifstream in1; 
2154   in1.open(Form("%s.C_tmp", kTrainName.Data()));
2155   char cLine[250];
2156   TString st;
2157   while(in1.getline(cLine,250)){
2158     st += cLine;
2159     st += "\n";
2160   }
2161   Int_t index= -1;
2162   index = st.Index("gSystem->Load(\"libPhysics\");");
2163   index += strlen("gSystem->Load(\"libPhysics\");");
2164   /*
2165     TObjArray *arr;
2166     TObjString *objstr;
2167     arr = anaLibs.Tokenize(" ");
2168     TIter next(arr);
2169
2170     add += "\n\n // added by CKB \n";
2171     while ((objstr=(TObjString*)next())){
2172       if(objstr->GetString().Contains("PWG3"))continue;
2173       if(objstr->GetString().EndsWith(".so"))add += Form("gSystem->Load(\"%s\");\n",objstr->GetString().Data());
2174     }
2175     delete arr; 
2176     */
2177     //    add += Form("AliLog::SetGlobalLogLevel(%d);\n",AliLog::GetGlobalLogLevel());
2178   TString add = "";
2179
2180   if(index<0)Printf("%s:%d index out of bounds",(char*)__FILE__,__LINE__);
2181   add += "\n\n // added by CKB \n";
2182   if(kErrorIgnoreLevel>0)add += Form("gErrorIgnoreLevel = %d;\n",kErrorIgnoreLevel);
2183   add += "\n gSystem->AddIncludePath(\"./\"); \n";
2184   add += "\n gSystem->SetFPEMask(); \n";
2185
2186
2187   if(gGrid&&kPluginAliRootVersion.Length()==0){
2188     /*
2189     add += "\n // Dirty hack for TRD reference data \n";
2190     add += "\n gSystem->Setenv(\"ALICE_ROOT\",\"";
2191     add += Form("alien://%s/rootfiles/",gGrid->GetHomeDirectory());
2192     add += "\"); \n";
2193     */
2194   }
2195
2196   add += "// BKC \n\n";
2197   st.Insert(index,add.Data());
2198
2199   if(kUseDebug){
2200     //    st.Insert(index,"\n gROOT->ProcessLine(\".trace\"); // CKB \n");
2201   }
2202
2203   if(kUseCPAR&&kPluginAliRootVersion.Length()==0){
2204     index = st.Index("gSystem->AddIncludePath(\"-I$"); // uncommen $ALICE_ROOT include for par files
2205     if(index<0)Printf("%s:%d index out of bounds",(char*)__FILE__,__LINE__);
2206     st.Insert(index,"// CKB comment out whehn no aliroot is provided \n //");
2207   }
2208
2209   if(AliLog::GetGlobalLogLevel()==AliLog::kFatal){
2210     index = st.Index("AliLog::SetGlobal"); // ncomment setting of log level, do my own
2211     if(index<0)Printf("%s:%d index out of bounds",(char*)__FILE__,__LINE__);
2212     st.Insert(index,"AliLog::SetGlobalLogLevel(AliLog::kFatal);// CKB \n  // CKB comment out for own setting \n  //");
2213   }
2214
2215   ofstream out;
2216   out.open(Form("%s.C", kTrainName.Data()));
2217   if (out.bad()) {
2218     return kFALSE;
2219   }
2220   out << st << endl;
2221   Printf("<<< Patching AnalysisMacro");
2222
2223
2224
2225
2226
2227   Printf(">>> Patching Merge Macro");
2228   gSystem->Exec(Form("mv %s_merge.C %s_merge.C_tmp",kTrainName.Data(),kTrainName.Data()));
2229
2230   ifstream in2; 
2231   in2.open(Form("%s_merge.C_tmp", kTrainName.Data()));
2232   TString st2;
2233   while(in2.getline(cLine,250)){
2234     st2 += cLine;
2235     st2 += "\n";
2236   }
2237   index = st2.Index("gSystem->Load(\"libPhysics\");");
2238   index += strlen("gSystem->Load(\"libPhysics\");");
2239   TString add2 = "";
2240   add2 += "\n gSystem->AddIncludePath(\"./\"); \n";
2241   if(gGrid&&kPluginAliRootVersion.Length()==0){
2242     /*
2243     add2 += "\n // Dirty hack for TRD reference data \n";
2244     add2 += "\n gSystem->Setenv(\"ALICE_ROOT\",\"";
2245     add2 += Form("alien://%s/rootfiles/",gGrid->GetHomeDirectory());
2246     add2 += "\"); \n";
2247     */
2248   }
2249   add2 += "// BKC \n\n";
2250   if(index<0)Printf("%s:%d index out of bounds",(char*)__FILE__,__LINE__);
2251   st2.Insert(index,add.Data());
2252
2253
2254   if(kUseDebug){
2255     //    st2.Insert(index,"\n gROOT->ProcessLine(\".trace\"); // CKB \n");
2256   }
2257
2258   if(kUseCPAR&&kPluginAliRootVersion.Length()==0){
2259     index = st2.Index("gSystem->AddIncludePath(\"-I$"); // uncomment $ALICE_ROOT include for par files
2260     if(index<0)Printf("%s:%d index out of bounds",(char*)__FILE__,__LINE__);
2261     st2.Insert(index,"// CKB comment out whehn no aliroot is provided \n //");
2262   }
2263
2264   // do not exclude the extra files from merign, this is done explicitly in this train script
2265   //  index = st2.Index("mergeExcludes +="); // uncommen $ALICE_ROOT include for par files
2266   //  if(index<0)Printf("%s:%d index out of bounds",(char*)__FILE__,__LINE__);
2267   // st2.Insert(index,"// CKB comment out, handled explicitly by the train macro \n //");
2268
2269
2270   ofstream out2;
2271   out2.open(Form("%s_merge.C", kTrainName.Data()));
2272   if (out2.bad()) {
2273     return kFALSE;
2274   }
2275   out2 << st2 << endl;
2276   Printf("<<< Patching Merging Macro");
2277
2278
2279
2280   return kTRUE;
2281
2282 }