fc830c6297dc38fbdb18cf0f86d0ef993bd1b6da
[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("jetsAOD_UA104_B0_Filter00256_Cut01000");
449      // taskEmbedding->SetEvtSelecMode(AliAnalysisTaskFastEmbedding::kEventsAll);
450      // taskEmbedding->SetDebugLevel(10);
451    }
452
453     // Jet analysis
454    if (iJETAN) {
455       gROOT->LoadMacro("$ALICE_ROOT_SRC/PWG4/macros/AddTaskJets.C");
456       AliAnalysisTaskJets *taskjets = 0;
457       if(iJETAN&1){
458         /*
459         taskjets = AddTaskJets(kHighPtFilterMask); 
460         taskjets->SetName("StandardJets");
461         taskjets->SetNonStdBranch("");
462         */
463       }
464       if(iJETAN&2){
465         // Set only few jet finders  backgroudn subtraction w an wo 
466         
467         taskjets = AddTaskJets("AOD","UA1",0.4,kHighPtFilterMask,1.,0); // no background subtraction
468         if(kDeltaAODJetName.Length()>0)taskjets->SetNonStdOutputFile(kDeltaAODJetName.Data());
469
470         // STANDARD UA jet finders pT cut 1 GeV background mode 2 R = 0.4
471         if(kIsPbPb){
472           taskjets = AddTaskJets("AOD","UA1",0.4,kHighPtFilterMask,1.,2); // background subtraction
473           if(kDeltaAODJetName.Length()>0)taskjets->SetNonStdOutputFile(kDeltaAODJetName.Data());
474         }
475
476         TString cTmp("");
477
478         // SICONE 
479         taskjets = AddTaskJets("AOD","SISCONE",0.4,kHighPtFilterMask,0.15,0); //no background subtraction to be done later....
480         if(kDeltaAODJetName.Length()>0)taskjets->SetNonStdOutputFile(kDeltaAODJetName.Data());
481         cTmp = taskjets->GetNonStdBranch();
482         if(cTmp.Length()>0)kJetSubtractBranches += Form("%s ",cTmp.Data());
483
484         if(kUseAODMC){
485           // STANDARD UA jet finders pT cut 1 GeV background mode 2 R = 0.4
486           if(kIsPbPb){
487             taskjets = AddTaskJets("AODMC","UA1",0.4,kHighPtFilterMask,1.,2); // background subtraction
488             taskjets = AddTaskJets("AODMC2","UA1",0.4,kHighPtFilterMask,1.,2); // background subtraction
489           }
490           else{
491             taskjets = AddTaskJets("AODMC","UA1",0.4,kHighPtFilterMask,1.,0); // no background subtraction
492             taskjets = AddTaskJets("AODMC2","UA1",0.4,kHighPtFilterMask,1.,0); // no background subtraction
493           }
494         }
495         if(kDeltaAODJetName.Length()>0)mgr->RegisterExtraFile(kDeltaAODJetName.Data()); 
496       }
497       if (!taskjets) ::Warning("AnalysisTrainPWG4Jets", "AliAnalysisTaskJets cannot run for this train conditions - EXCLUDED");
498    }
499
500
501    if (iPWG4FastEmbedding && iJETAN) {
502      AliAnalysisTaskJets *taskEmbJets = AddTaskJets("AODextra", "FASTJET", 0.4, kHighPtFilterMask);
503      taskEmbJets->ReadAODFromOutput();
504      kJetSubtractBranches_extra += Form("%s ", taskEmbJets->GetNonStdBranch());
505
506      taskEmbJets = AddTaskJets("AODextraonly", "FASTJET", 0.4, kHighPtFilterMask);
507      taskEmbJets->ReadAODFromOutput();
508     
509      taskEmbJets = AddTaskJets("AODextra", "UA1", 0.4, kHighPtFilterMask,1.,0);
510      taskEmbJets->ReadAODFromOutput();
511      taskEmbJets = AddTaskJets("AODextraonly", "UA1", 0.4, kHighPtFilterMask,1.,0);
512      taskEmbJets->ReadAODFromOutput();
513      taskEmbJets = AddTaskJets("AODextra", "UA1", 0.4, kHighPtFilterMask,1.,2);
514      taskEmbJets->ReadAODFromOutput();
515    }
516
517    if(iPWG4Cluster){
518      gROOT->LoadMacro("$ALICE_ROOT_SRC/PWG4/macros/AddTaskJetCluster.C");
519      AliAnalysisTaskJetCluster *taskCl = 0;
520      Float_t fCenUp = 0;
521      Float_t fCenLo = 0;
522      if(kIsPbPb&&!kIsMC){
523        fCenLo = 0;
524        fCenUp = 80;
525      }
526      if(iPWG4Cluster&1){
527
528        if(kIsPbPb){
529          taskCl = AddTaskJetCluster("AOD","",kHighPtFilterMask,iPhysicsSelectionFlag,"KT",0.4,0,1, kDeltaAODJetName.Data(),0.15); // this one is for the background and random jets
530          taskCl->SetBackgroundCalc(kTRUE);
531          taskCl->SetCentralityCut(fCenLo,fCenUp);
532          taskCl->SetGhostEtamax(0.9);
533          kDefaultJetBackgroundBranch = Form("%s_%s",AliAODJetEventBackground::StdBranchName(),taskCl->GetJetOutputBranch());
534          
535          if (iPWG4FastEmbedding) {
536            AliAnalysisTaskJetCluster *taskClEmb = 0;
537            taskClEmb = AddTaskJetCluster("AODextra","",kHighPtFilterMask,iPhysicsSelectionFlag,"KT",0.4,0,1, kDeltaAODJetName.Data(),0.15); // this one is for the background and random jets
538            taskClEmb->SetBackgroundCalc(kTRUE);
539            taskClEmb->SetCentralityCut(fCenLo,fCenUp);
540            taskClEmb->SetGhostEtamax(0.9);
541            kDefaultJetBackgroundBranch_extra = Form("%s_%s",AliAODJetEventBackground::StdBranchName(),taskClEmb->GetJetOutputBranch());
542
543            taskClEmb = AddTaskJetCluster("AODextraonly","",kHighPtFilterMask,iPhysicsSelectionFlag,"KT",0.4,0,1, kDeltaAODJetName.Data(),0.15); // this one is for the background and random jets
544            taskClEmb->SetBackgroundCalc(kFALSE);
545            taskClEmb->SetCentralityCut(fCenLo,fCenUp);
546            taskClEmb->SetGhostEtamax(0.9);
547
548            taskClEmb = AddTaskJetCluster("AODextra","",kHighPtFilterMask,iPhysicsSelectionFlag,"ANTIKT",0.4,0,1,kDeltaAODJetName.Data(),0.15);
549            taskClEmb->SetCentralityCut(fCenLo,fCenUp);
550            taskClEmb->SetBackgroundBranch(kDefaultJetBackgroundBranch_extra.Data());
551            kJetSubtractBranches_extra += Form("%s ",taskClEmb->GetJetOutputBranch());
552
553            taskClEmb = AddTaskJetCluster("AODextraonly","",kHighPtFilterMask,iPhysicsSelectionFlag,"ANTIKT",0.4,0,1,kDeltaAODJetName.Data(),0.15);
554            taskClEmb->SetCentralityCut(fCenLo,fCenUp);
555          }
556
557          taskCl = AddTaskJetCluster("AOD","",kHighPtFilterMask,iPhysicsSelectionFlag,"KT",0.2,0,1, kDeltaAODJetName.Data(),0.15); // this one is for the background and random jets
558          taskCl->SetBackgroundCalc(kTRUE);
559          taskCl->SetCentralityCut(fCenLo,fCenUp);
560          taskCl->SetGhostEtamax(0.9);
561        }
562        else{
563          taskCl = AddTaskJetCluster("AOD","",kHighPtFilterMask,iPhysicsSelectionFlag,"KT",0.6,0,1,kDeltaAODJetName.Data(),0.15); // this one is for the background jets
564          taskCl->SetBackgroundCalc(kTRUE);
565          kDefaultJetBackgroundBranch = Form("%s_%s",AliAODJetEventBackground::StdBranchName(),taskCl->GetJetOutputBranch());
566          taskCl->SetGhostEtamax(0.9);
567
568          taskCl = AddTaskJetCluster("AOD","",kHighPtFilterMask,iPhysicsSelectionFlag,"KT",0.4,0,1,kDeltaAODJetName.Data(),0.15); 
569          taskCl->SetBackgroundCalc(kTRUE);
570          taskCl->SetGhostEtamax(0.9);
571        } 
572
573        taskCl = AddTaskJetCluster("AOD","",kHighPtFilterMask,iPhysicsSelectionFlag,"ANTIKT",0.4,2,1,kDeltaAODJetName.Data(),0.15);
574        taskCl->SetCentralityCut(fCenLo,fCenUp);
575        if(kIsPbPb)taskCl->SetBackgroundBranch(kDefaultJetBackgroundBranch.Data());
576        taskCl->SetNRandomCones(10);
577        kDefaultJetBranch = taskCl->GetJetOutputBranch();
578        if(kDeltaAODJetName.Length()==0&&kFilterAOD){
579          if(kIsPbPb)taskCl->SetJetTriggerPtCut(40.);
580          else taskCl->SetJetTriggerPtCut(20.);
581        }
582
583        kJetSubtractBranches += Form("%s ",taskCl->GetJetOutputBranch());
584   
585        taskCl = AddTaskJetCluster("AOD","",kHighPtFilterMask,iPhysicsSelectionFlag,"ANTIKT",0.2,0,1,kDeltaAODJetName.Data(),0.15);
586        taskCl->SetCentralityCut(fCenLo,fCenUp);
587        if(kIsPbPb)taskCl->SetBackgroundBranch(kDefaultJetBackgroundBranch.Data());
588        kJetSubtractBranches += Form("%s ",taskCl->GetJetOutputBranch());
589
590        if(kUseAODMC){
591          if(kIsPbPb){
592            taskCl = AddTaskJetCluster("AODMC","",kHighPtFilterMask,iPhysicsSelectionFlag,"KT",0.4,0,1, kDeltaAODJetName.Data(),0.15); // this one is for the background and random jets
593            taskCl->SetBackgroundCalc(kTRUE);
594            taskCl->SetGhostEtamax(0.9);
595            kDefaultJetBackgroundBranchMC = Form("%s_%s",AliAODJetEventBackground::StdBranchName(),taskCl->GetJetOutputBranch());
596            
597            taskCl = AddTaskJetCluster("AODMC2","",kHighPtFilterMask,iPhysicsSelectionFlag,"KT",0.4,0,1, kDeltaAODJetName.Data(),0.15); // this one is for the background and random jets
598            taskCl->SetBackgroundCalc(kTRUE);
599            taskCl->SetGhostEtamax(0.9);
600            kDefaultJetBackgroundBranchMC2 = Form("%s_%s",AliAODJetEventBackground::StdBranchName(),taskCl->GetJetOutputBranch()); 
601          }
602          else{
603            taskCl = AddTaskJetCluster("AODMC","",kHighPtFilterMask,iPhysicsSelectionFlag,"KT",0.6,0,1, kDeltaAODJetName.Data(),0.15); // this one is for the background and random jets
604            taskCl->SetBackgroundCalc(kTRUE);
605            taskCl->SetGhostEtamax(0.9);
606            kDefaultJetBackgroundBranchMC = Form("%s_%s",AliAODJetEventBackground::StdBranchName(),taskCl->GetJetOutputBranch());
607            
608            taskCl = AddTaskJetCluster("AODMC2","",kHighPtFilterMask,iPhysicsSelectionFlag,"KT",0.6,0,1, kDeltaAODJetName.Data(),0.15); // this one is for the background and random jets
609            taskCl->SetBackgroundCalc(kTRUE);
610            taskCl->SetGhostEtamax(0.9);
611            kDefaultJetBackgroundBranchMC2 = Form("%s_%s",AliAODJetEventBackground::StdBranchName(),taskCl->GetJetOutputBranch()); 
612            // pp background calcs...
613          }
614          
615          taskCl = AddTaskJetCluster("AODMC","",kHighPtFilterMask,iPhysicsSelectionFlag,"ANTIKT",0.4,0,1, kDeltaAODJetName.Data(),0.15); // this one is for the background and random jets
616          taskCl->SetGhostEtamax(0.9);
617          if(kIsPbPb)taskCl->SetBackgroundBranch(kDefaultJetBackgroundBranchMC.Data());   
618          kDefaultJetBranchMC = taskCl->GetJetOutputBranch();
619
620          taskCl = AddTaskJetCluster("AODMC2","",kHighPtFilterMask,iPhysicsSelectionFlag,"ANTIKT",0.4,0,1, kDeltaAODJetName.Data(),0.15); // this one is for the background and random jets
621          if(kIsPbPb)taskCl->SetBackgroundBranch(kDefaultJetBackgroundBranchMC2.Data());  
622          kDefaultJetBranchMC2 = taskCl->GetJetOutputBranch();
623
624        }
625        
626        
627        if (!taskCl) ::Warning("AnalysisTrainPWG4Jets", "AliAnalysisTaskCluster cannot run for this train conditions - EXCLUDED");
628      }
629    }
630
631
632    if(iJETSUBTRACT){
633      gROOT->LoadMacro("$ALICE_ROOT_SRC/PWG4/macros/AddTaskJetBackgroundSubtract.C");
634      AliAnalysisTaskJetBackgroundSubtract *taskSubtract = 0;
635      if(kJetSubtractBranches.Length()){
636
637        taskSubtract = AddTaskJetBackgroundSubtract(kJetSubtractBranches,3,kJetSubtractMask1.Data(),kJetSubtractMask2.Data());
638        taskSubtract->SetBackgroundBranch(kDefaultJetBackgroundBranch.Data()); 
639        if(kDeltaAODJetName.Length()>0)taskSubtract->SetNonStdOutputFile(kDeltaAODJetName.Data());
640
641        taskSubtract = AddTaskJetBackgroundSubtract(kJetSubtractBranches,2,kJetSubtractMask1.Data(),kJetSubtractMask2.Data());
642        taskSubtract->SetBackgroundBranch(kDefaultJetBackgroundBranch.Data());           taskSubtract->SelectCollisionCandidates(iPhysicsSelectionFlag);
643        if(kDeltaAODJetName.Length()>0)taskSubtract->SetNonStdOutputFile(kDeltaAODJetName.Data());
644        
645        //       taskSubtract->SetDebugLevel(3);
646        
647        taskSubtract = AddTaskJetBackgroundSubtract(kJetSubtractBranches,1,kJetSubtractMask1.Data(),kJetSubtractMask2.Data());
648        taskSubtract->SetBackgroundBranch(kDefaultJetBackgroundBranch.Data());           taskSubtract->SelectCollisionCandidates(iPhysicsSelectionFlag);
649        if(kDeltaAODJetName.Length()>0)taskSubtract->SetNonStdOutputFile(kDeltaAODJetName.Data());
650        
651        if(kJetSubtractBranches.Contains(kDefaultJetBranch.Data())&&kIsPbPb){
652          kDefaultJetBranch.ReplaceAll(taskSubtract->GetToReplace(),Form(taskSubtract->GetReplacementMask(),taskSubtract->GetSubtractionMethod()));
653        }
654      }
655      if(kJetSubtractBranches_extra.Length()){
656        taskSubtract = AddTaskJetBackgroundSubtract(kJetSubtractBranches_extra,1,kJetSubtractMask1.Data(),kJetSubtractMask2.Data(),"extra");
657        taskSubtract->SetBackgroundBranch(kDefaultJetBackgroundBranch_extra.Data());
658        taskSubtract->SelectCollisionCandidates(iPhysicsSelectionFlag);
659        //taskSubtract->SetDebugLevel(3);
660        if(kDeltaAODJetName.Length()>0)taskSubtract->SetNonStdOutputFile(kDeltaAODJetName.Data());
661        if(kJetSubtractBranches_extra.Contains(kDefaultJetBranch.Data())){
662          kDefaultJetBranch.ReplaceAll(taskSubtract->GetToReplace(),Form(taskSubtract->GetReplacementMask(),taskSubtract->GetSubtractionMethod()));
663        }
664      }
665      if (!taskSubtract) ::Warning("AnalysisTrainPWG4Jets", "AliAnalysisTaskJetBackgroundSubtrac cannot run for this train conditions - EXCLUDED");     
666    }
667
668    if (iDIJETAN) {
669       gROOT->LoadMacro("$ALICE_ROOT_SRC/PWG4/macros/AddTaskDiJets.C");
670       AliAnalysisTaskDiJets *taskdijets = 0;
671       if(iDIJETAN&1)taskdijets = AddTaskDiJets(); 
672       if (!taskdijets) ::Warning("AnalysisTrainPWG4Jets", "AliAnalysisTaskJets cannot run for this train conditions - EXCLUDED");
673       if(iDIJETAN&2){
674         taskdijets = AddTaskDiJets("jetsAOD_CDF07"); 
675         taskdijets = AddTaskDiJets("jetsAOD_DA07"); 
676         taskdijets = AddTaskDiJets("jetsAOD_FASTJET07"); 
677         taskdijets = AddTaskDiJets("jetsAOD_FASTKT07"); 
678         taskdijets = AddTaskDiJets("jetsAOD_SISCONE07"); 
679         taskdijets = AddTaskDiJets("jetsAOD_UA107");
680       }
681    }
682
683    if(iPWG1QASym){
684      gROOT->LoadMacro("$ALICE_ROOT_SRC/PWG1/PilotTrain/AddTaskQAsym.C");
685      AliAnalysisTaskQASym *taskQASym = AddTaskQAsym(-1);
686      if (!taskQASym) ::Warning("AnalysisTrainPWG4Jets", "AliAnalysisTaskQASym cannot run for this train conditions - EXCLUDED");
687    }
688
689
690
691    if(iPWG4TmpSourceSara){
692      gROOT->LoadMacro("$ALICE_ROOT_SRC/PWG4/macros/AddTaskEta.C");
693      AliAnalysisTaskEta *taskEta = AddTaskEta();
694      if (!taskEta) ::Warning("AnalysisTrainPWG4Jets", "AliAnalysisTaskEta cannot run for this train conditions - EXCLUDED");
695    }
696
697
698    if(iPWG4JetServices){
699      gROOT->LoadMacro("$ALICE_ROOT_SRC/PWG4/macros/AddTaskJetServices.C");
700      AliAnalysisTaskJetServices *taskjetServ = 0;
701      taskjetServ = AddTaskJetServices();
702      if (!taskjetServ) ::Warning("AnalysisTrainPWG4Jets", "AliAnalysisTaskJetServices cannot run for this train conditions - EXCLUDED");
703      if(kGridRunRange[0]>0)taskjetServ->SetRunRange(kGridRunRange[0],kGridRunRange[1]);
704      else taskjetServ->SetRunRange(110000,160000);
705      taskjetServ->SetMCData(kIsMC);
706      taskjetServ->SetUsePhysicsSelection((Bool_t)iPhysicsSelection);
707      taskjetServ->SetPhysicsSelectionFlag(iPhysicsSelectionFlag); // 
708      taskjetServ->SetNonStdFile(kDeltaAODJetName.Data());
709      if(kIsPbPb){
710        if(kDeltaAODJetName.Length()>0&&kFilterAOD)taskjetServ->SetFilterAODCollisions(kTRUE);
711        //       else if(iAODanalysis)taskjetServ->SetFilterAODCollisions(kTRUE);
712
713        taskjetServ->SetZVertexCut(8.);
714      }
715      if(iAODanalysis){
716        //       taskjetServ->SetDebugLevel(3);
717        taskjetServ->SetAODInput(kTRUE);
718      }
719    }
720
721 if(iPWG4JetSpectrum){
722      gROOT->LoadMacro("$ALICE_ROOT_SRC/PWG4/macros/AddTaskJetSpectrum2.C");
723      AliAnalysisTaskJetSpectrum2 *taskjetSpectrum = 0;
724      TString bkgClusters = kDefaultJetBackgroundBranch.Data(); 
725      bkgClusters.ReplaceAll(Form("%s_",AliAODJetEventBackground::StdBranchName()),"");
726
727      if(iPWG4JetSpectrum&1){
728        if(kIsPbPb){
729          for(int i = 0;i<5;i++){
730            TString tmp(kDefaultJetBranch.Data());
731            //      tmp.ReplaceAll(Form(kJetSubtractMask2.Data(),1),kJetSubtractMask1.Data());
732            //      tmp.ReplaceAll(Form(kJetSubtractMask2.Data(),1),kJetSubtractMask1.Data());
733            tmp.ReplaceAll(Form(kJetSubtractMask2.Data(),1),Form(kJetSubtractMask1.Data(),0));
734
735            taskjetSpectrum = AddTaskJetSpectrum2(kDefaultJetBranch.Data(),tmp.Data(),"",kHighPtFilterMask,AliVEvent::kMB,0,i);
736            taskjetSpectrum->SetBranchBkgRec(bkgClusters.Data());
737            taskjetSpectrum->SetBranchBkgGen(bkgClusters.Data());
738
739            //      taskjetSpectrum->SetDebugLevel(3);
740            //      taskjetSpectrum->SetMinJetPt(10);
741            taskjetSpectrum->SetTrackEtaWindow(0.8);
742            taskjetSpectrum->SetJetEtaWindow(0.4);
743            if(iAODanalysis)SetAODInput(taskjetSpectrum);
744
745            
746            // check the old subtracted vs. the new subtracted
747            TString tmp2(kDefaultJetBranch.Data());
748            tmp2.ReplaceAll(Form(kJetSubtractMask2.Data(),1),Form(kJetSubtractMask2.Data(),2));
749            taskjetSpectrum = AddTaskJetSpectrum2(tmp2.Data(),kDefaultJetBranch.Data(),"",kHighPtFilterMask,AliVEvent::kMB,0,i);
750            taskjetSpectrum->SetBranchBkgRec(bkgClusters.Data());
751            taskjetSpectrum->SetBranchBkgGen(bkgClusters.Data());
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            // check the old subtracted vs. the new subtracted
759            TString tmp3(kDefaultJetBranch.Data());
760            tmp3.ReplaceAll(Form(kJetSubtractMask2.Data(),1),Form(kJetSubtractMask2.Data(),3));
761
762            taskjetSpectrum = AddTaskJetSpectrum2(tmp3.Data(),kDefaultJetBranch.Data(),"",kHighPtFilterMask,AliVEvent::kMB,0,i);
763            //      taskjetSpectrum->SetDebugLevel(3);
764            //      taskjetSpectrum->SetMinJetPt(10);
765            taskjetSpectrum->SetBranchBkgRec(bkgClusters.Data());
766            taskjetSpectrum->SetBranchBkgGen(bkgClusters.Data());
767            taskjetSpectrum->SetTrackEtaWindow(0.8);
768            taskjetSpectrum->SetJetEtaWindow(0.4);
769            if(iAODanalysis)SetAODInput(taskjetSpectrum);
770
771
772            taskjetSpectrum = AddTaskJetSpectrum2(Form("jetsAOD_UA104_B2_Filter%05d_Cut01000",kHighPtFilterMask),kDefaultJetBranch.Data(),"",kHighPtFilterMask,AliVEvent::kMB,0,i);
773            //      taskjetSpectrum->SetDebugLevel(3);
774            //      taskjetSpectrum->SetMinJetPt(10);
775            taskjetSpectrum->SetTrackEtaWindow(0.8);
776            taskjetSpectrum->SetJetEtaWindow(0.4);
777            taskjetSpectrum->SetBranchBkgRec(bkgClusters.Data());
778            taskjetSpectrum->SetBranchBkgGen(bkgClusters.Data());
779            if(iAODanalysis)SetAODInput(taskjetSpectrum);
780
781          }
782        }
783        else{ // ! PbPb
784          Int_t i = 0;
785          TString tmp(kDefaultJetBranch.Data());
786          //        tmp.ReplaceAll(Form(kJetSubtractMask2.Data(),1),kJetSubtractMask1.Data());
787          //        tmp.ReplaceAll(Form(kJetSubtractMask2.Data(),1),kJetSubtractMask1.Data());
788          tmp.ReplaceAll(Form(kJetSubtractMask2.Data(),0),Form(kJetSubtractMask1.Data(),1));
789          taskjetSpectrum = AddTaskJetSpectrum2(kDefaultJetBranch.Data(),tmp.Data(),"",kHighPtFilterMask,AliVEvent::kMB,0,i);
790          taskjetSpectrum->SetDebugLevel(3);
791          //        taskjetSpectrum->SetMinJetPt(10);
792          taskjetSpectrum->SetTrackEtaWindow(0.8);
793          taskjetSpectrum->SetJetEtaWindow(0.4);
794          taskjetSpectrum->SetBranchBkgRec(bkgClusters.Data());
795          taskjetSpectrum->SetBranchBkgGen(bkgClusters.Data());
796          if(iAODanalysis)SetAODInput(taskjetSpectrum);
797          
798
799          /*
800          TString tmp2(kDefaultJetBranch.Data());
801          tmp2.ReplaceAll(Form(kJetSubtractMask2.Data(),0),Form(kJetSubtractMask2.Data(),2));
802          taskjetSpectrum = AddTaskJetSpectrum2(tmp2.Data(),kDefaultJetBranch.Data(),"",kHighPtFilterMask,AliVEvent::kMB,0,i);
803          //      taskjetSpectrum->SetDebugLevel(3);
804          //        taskjetSpectrum->SetMinJetPt(10);
805          taskjetSpectrum->SetBranchBkgRec(bkgClusters.Data());
806          taskjetSpectrum->SetBranchBkgGen(bkgClusters.Data());
807          taskjetSpectrum->SetTrackEtaWindow(0.8);
808          taskjetSpectrum->SetJetEtaWindow(0.4);
809
810          // check the old subtracted vs. the new subtracted
811          TString tmp3(kDefaultJetBranch.Data());
812          tmp3.ReplaceAll(Form(kJetSubtractMask2.Data(),0),Form(kJetSubtractMask2.Data(),3));
813          taskjetSpectrum = AddTaskJetSpectrum2(tmp3.Data(),kDefaultJetBranch.Data(),"",kHighPtFilterMask,AliVEvent::kMB,0,i);
814          //      taskjetSpectrum->SetDebugLevel(3);
815          //        taskjetSpectrum->SetMinJetPt(10);
816          taskjetSpectrum->SetBranchBkgRec(bkgClusters.Data());
817          taskjetSpectrum->SetBranchBkgGen(bkgClusters.Data());
818          taskjetSpectrum->SetTrackEtaWindow(0.8);
819          taskjetSpectrum->SetJetEtaWindow(0.4);
820          if(iAODanalysis)SetAODInput(taskjetSpectrum);
821          */
822        }
823        if (!taskjetSpectrum) ::Warning("AnalysisTrainPWG4Jets", "AliAnalysisTaskJetSpectrum2 cannot run for this train conditions - EXCLUDED");
824      }
825    }
826
827    if(iPWG4Fragmentation){
828      gROOT->LoadMacro("$ALICE_ROOT_SRC/PWG4/macros/AddTaskFragmentationFunction.C");
829        AliAnalysisTaskFragmentationFunction *taskFrag = 0;
830      if(kUseAODMC){
831
832      }
833      else{
834        taskFrag = AddTaskFragmentationFunction(kDefaultJetBranch.Data(),"","","",kHighPtFilterMask);
835      }
836      if (!taskFrag) ::Warning("AnalysisTrainPWG4Jets", "AliAnalysisTaskFragmentationFunction cannot run for this train conditions - EXCLUDED");
837    }
838
839    if(iPWG4JetChem){
840      gROOT->LoadMacro("$ALICE_ROOT_SRC/PWG4/macros/AddTaskJetChem.C");
841      AliAnalysisTask *taskChem = AddTaskJetChem(kHighPtFilterMask);
842      if (!taskChem) ::Warning("AnalysisTrainPWG4Jets", "AliAnalysisTaskJetChem cannot run for this train conditions - EXCLUDED");
843    }
844
845    if (iPWG4JetResponse) {
846      gROOT->LoadMacro("$ALICE_ROOT_SRC/PWG4/macros/AddTaskJetResponse.C");
847      AliAnalysisTask *taskJetResponse = 0;
848
849      if(iJETAN){
850         taskJetResponse = AddTaskJetResponse("jets", "FASTJET", 0.4, kHighPtFilterMask, 0.15, 0);
851         taskJetResponse = AddTaskJetResponse("jets", "FASTJET", 0.4, kHighPtFilterMask, 0.15, 1);
852
853         taskJetResponse = AddTaskJetResponse("jets", "UA1", 0.4, kHighPtFilterMask, 1., 0);
854         taskJetResponse = AddTaskJetResponse("jets", "UA1", 0.4, kHighPtFilterMask, 1., 2);
855      }
856      if(iPWG4Cluster){
857         taskJetResponse = AddTaskJetResponse("clusters", "ANTIKT", 0.4, kHighPtFilterMask, 0.15, 0);
858         taskJetResponse = AddTaskJetResponse("clusters", "ANTIKT", 0.4, kHighPtFilterMask, 0.15, 1);
859      }
860      if (!taskJetResponse) ::Warning("AnalysisTrainPWG4Jets", "AliAnalysisTaskJetResponse cannot run for this train conditions - EXCLUDED");
861
862    }
863
864    if(iPWG4JCORRAN){
865      gROOT->LoadMacro("$ALICE_ROOT_SRC/PWG4/macros/AddTaskJCORRANTask.C");
866      AliJCORRANTask* corran = AddTaskJCORRAN(kDeltaAODJCORRANName.Data(),0);
867      if(!corran)::Warning("AnalysisTrainPWG4Jets", "AliJCORRANTask cannot run for this train conditions - EXCLUDED");
868      else{
869        if(kDeltaAODJCORRANName.Length()>0)mgr->RegisterExtraFile(kDeltaAODJCORRANName.Data()); 
870      }
871    }
872
873    if(iPWG4UE){
874      gROOT->LoadMacro("$ALICE_ROOT_SRC/PWG4/macros/AddTaskUE.C");
875      AliAnalysisTaskUE *taskUE = 0;
876      if(iPWG4UE&1)taskUE = AddTaskUE(); 
877      if(iPWG4UE&2){
878        taskUE  =AddTaskUE("jetsAOD_CDF04","CDF", "LJ", "TRANSV","MSP"); //finder not yet in train
879        //       taskUE  =AddTaskUE("jetsAOD_CDF07","CDF", "LJ", "TRANSV","MSP");
880        taskUE  =AddTaskUE("jetsAOD_SISCONE04","CDF", "LJ", "TRANSV","MSP");
881        //       taskUE  =AddTaskUE("jetsAOD_SISCONE07","CDF", "LJ", "TRANSV","MSP"); //finder not yet in train
882        taskUE  =AddTaskUE("jetsAOD_ICDF","CDF","LJ","TRANSV","MSP");
883        taskUE  =AddTaskUE("jetsAOD_FASTKT04","CDF", "LJ", "TRANSV","MSP");
884        //       taskUE  =AddTaskUE("jetsAOD_FASTKT07","CDF", "LJ", "TRANSV","MSP"); //finder not yet in train
885        taskUE  =AddTaskUE("jetsAOD_NONE","CDF", "MP_eta05", "TRANSV","MSP");
886        taskUE  =AddTaskUE("jetsAOD_NONE","CDF", "MP_eta09", "TRANSV","MSP");
887      }
888
889      if (!taskUE) ::Warning("AnalysisTrainPWG4Jets", "AliAnalysisTaskUE cannot run for this train conditions - EXCLUDED");
890    }
891
892    if(iPWG4LeadingUE){
893      gROOT->LoadMacro("$ALICE_ROOT_SRC/PWG4/macros/AddTaskLeadingTrackUE.C");
894      AliAnalysisTaskLeadingTrackUE *taskLeadingUE = AddTaskLeadingTrackUE(kUseMC);
895      if (!taskLeadingUE) ::Warning("AnalysisTrainPWG4Jets", "AliAnalysisTasLeadingTrackkUE cannot run for this train conditions - EXCLUDED");
896      //     taskLeadingUE->SetFilterBit(64);
897    }
898
899
900    if(iPWG4CorrectionsUE){
901      gROOT->LoadMacro("$ALICE_ROOT_SRC/PWG4/macros/AddTaskCorrectionsUE.C");
902      AliAnalysisTaskCorrectionsUE *taskCorrectionsUE = 0;
903      if(iPWG4CorrectionsUE&1)taskCorrectionsUE = AddTaskCorrectionsUE("jetsAOD_NONE","CDF","MP_eta05","TRANSV","MSP",kFALSE);
904      if (!taskCorrectionsUE) ::Warning("AnalysisTrainPWG4Jets", "AliAnalysisTaskCorrectionsUE cannot run for this train conditions - EXCLUDED");
905    }
906
907    if(iPWG4ThreeJets){
908      gROOT->LoadMacro("$ALICE_ROOT_SRC/PWG4/macros/AddTaskThreeJets.C");
909      AliAnalysisTaskThreeJets *taskThree = AddTaskThreeJets();
910      if(!taskThree)::Warning("AnalysisTrainPWG4Jets", "AliAnalysisTaskThreets cannot run for this train conditions - EXCLUDED");
911    }
912    if(iPWG4QGSep){
913      gROOT->LoadMacro("$ALICE_ROOT_SRC/PWG4/macros/AddTaskQGSep.C");
914      AliAnalysisTaskQGSep *taskQGSep = AddTaskQGSep(kUseMC,iAODanalysis);
915      if(!taskQGSep)::Warning("AnalysisTrainPWG4Jets", "AliAnalysisTaskQGSep cannot run for this train conditions - EXCLUDED");
916    }
917   
918
919    if(iPWG4Minijet){
920      gROOT->LoadMacro("$ALICE_ROOT_SRC/PWG4/macros/AddTaskMinijet.C");
921      AliAnalysisTaskMinijet *taskMini = AddTaskMinijet(-1,"esd",kUseMC,kGridDataSet);
922      // if we ha highmult trigger add another task
923      if(!taskMini)::Warning("AnalysisTrainPWG4Jets", "AliAnalysisTaskMinjet cannot run for this train conditions - EXCLUDED");
924    }
925
926
927    if(iPWG4PtQAMC){
928      gROOT->LoadMacro("$ALICE_ROOT_SRC/PWG4/macros/AddTaskPWG4HighPtQAMC.C");
929      AliPWG4HighPtQAMC *taskQAMC = 0;
930      if(kUseMC){
931        if(iPWG4PtQAMC&1){
932          taskQAMC = AddTaskPWG4HighPtQAMC(kGridDataSet.Data(),0);
933          taskQAMC = AddTaskPWG4HighPtQAMC(kGridDataSet.Data(),1);
934          taskQAMC = AddTaskPWG4HighPtQAMC(kGridDataSet.Data(),2);
935        }
936      }
937      if (!taskQAMC) ::Warning("AnalysisTrainPWG4Jets", "AliAnalysisTaskQAMC cannot run for this train conditions - EXCLUDED");
938    }
939
940    if(iPWG4PtQATPC){
941      gROOT->LoadMacro("$ALICE_ROOT_SRC/PWG4/macros/AddTaskPWG4HighPtQATPConly.C");
942      AliPWG4HighPtQATPConly *taskQATPC = 0;
943      if(iPWG4PtQATPC&1)taskQATPC = AddTaskPWG4HighPtQATPConly(kGridDataSet.Data(),1);
944      if(iPWG4PtQATPC&2)taskQATPC = AddTaskPWG4HighPtQATPConly(kGridDataSet.Data(),2);
945
946  if (!taskQATPC) ::Warning("AnalysisTrainPWG4Jets", "AliAnalysisTaskQATPC cannot run for this train conditions - EXCLUDED");
947    }
948
949    if(iPWG4Cosmics){
950      gROOT->LoadMacro("$ALICE_ROOT_SRC/PWG4/macros/AddTaskPWG4CosmicCandidates.C");
951
952      AliPWG4CosmicCandidates *taskPWG4CosmicCandidates = AddTaskPWG4CosmicCandidates(0);
953      taskPWG4CosmicCandidates = AddTaskPWG4CosmicCandidates(1);
954
955      if (!taskPWG4CosmicCandidates) ::Warning("AnalysisTrainPWG4Jets", "AddTaskPWG4CosmicCandidates cannot run for this train conditions - EXCLUDED");
956    }
957
958
959    if(iPWG4PtSpectra){
960      gROOT->LoadMacro("$ALICE_ROOT_SRC/PWG4/macros/AddTaskPWG4HighPtSpectra.C");
961      AliPWG4HighPtSpectra *taskPtSpectra = AddTaskPWG4HighPtSpectra(kGridDataSet.Data());
962      if (!taskPtSpectra) ::Warning("AnalysisTrainPWG4Jets", "AliAnalysisTaskPtSpectra cannot run for this train conditions - EXCLUDED");
963    }
964    if(iPWG4KMeans){
965      gROOT->LoadMacro("$ALICE_ROOT_SRC/PWG4/macros/AddTaskKMeans.C");
966      AliAnalysisTaskKMeans *taskKMeans = AddTaskKMeans();
967      if (!taskKMeans) ::Warning("AnalysisTrainPWG4Jets", "AliAnalysisTaskKMenans cannot run for this train conditions - EXCLUDED");
968    }
969
970    if(iPWG4PartCorr){
971      gROOT->LoadMacro("$ALICE_ROOT_SRC/PWG4/macros/AddTaskPartCorr.C");
972      AliAnalysisTaskParticleCorrelation *taskpartcorrPHOS = AddTaskPartCorr("AOD", "PHOS",kFALSE,kIsMC);
973      if (!taskpartcorrPHOS) ::Warning("AnalysisTrainNew", "AliAnalysisTaskParticleCorrelation PHOS cannot run for this train conditions - EXCLUDED");
974      AliAnalysisTaskParticleCorrelation *taskpartcorrEMCAL = AddTaskPartCorr("AOD", "EMCAL",kFALSE,kIsMC);
975      if (!taskpartcorrEMCAL) ::Warning("AnalysisTrainNew", "AliAnalysisTaskParticleCorrelation EMCAL cannot run for this train conditions - EXCLUDED");
976      if(kDeltaAODPartCorrName.Length()>0)mgr->RegisterExtraFile(kDeltaAODPartCorrName.Data());
977    } 
978
979    if(iPWG4CaloQA){
980      gROOT->LoadMacro("$ALICE_ROOT_SRC/PWG4/macros/QA/AddTaskCalorimeterQA.C");
981      AliAnalysisTaskParticleCorrelation *taskcaloQA =  AddTaskCalorimeterQA("ESD",kFALSE,kIsMC,kCaloQAOutputFileName.Data());
982      if(!taskcaloQA)::Warning("AnalysisTrainNew", "AliAnalysisTaskParticleCorrelation QA cannot run - EXCLUDED");
983      //  if(kCaloQAOutputFileName.Length()>0)mgr->RegisterExtraFile(kCaloQAOutputFileName.Data());
984    } 
985
986    if(iPWG4JetCorr){
987      //     using namespace JetCorrelHD;
988      TString cdir = gSystem->WorkingDirectory();
989      gSystem->ChangeDirectory(gSystem->ExpandPathName("$ALICE_ROOT_SRC/PWG4/macros/"));
990      gROOT->LoadMacro("$ALICE_ROOT_SRC/PWG4/macros/AddTaskJetCorrel.C");
991      AliAnalysisTaskJetCorrel *taskjetcorr = AddTaskJetCorrel();
992      gSystem->ChangeDirectory(cdir);
993      if (!taskjetcorr) ::Warning("AnalysisTrainNew", "AliAnalysisTaskJetCorrel  cannot run for this train conditions - EXCLUDED");
994    } 
995
996    if(iPWG4Tagged){
997      gROOT->LoadMacro("$ALICE_ROOT_SRC/PWG4/macros/AddTaskTaggedPhotons.C");
998      AliAnalysisTaskTaggedPhotons * taskTagged = AddTaskTaggedPhotons(kFALSE); // EMCAL
999      taskTagged = AddTaskTaggedPhotons(kTRUE); // PHOS 
1000      if (!taskTagged) ::Warning("AnalysisTrainNew", "AliAnalysisTaskTaggedPhotons  cannot run for this train conditions - EXCLUDED");     
1001    }
1002    if (iPWG4omega3pi) {
1003      gROOT->LoadMacro("$ALICE_ROOT_SRC/PWG4/macros/AddTaskomega3pi.C");
1004      AliAnalysisTaskOmegaPi0PiPi *taskomega3pi = AddTaskomega3pi();
1005      if (!taskomega3pi) ::Warning("AnalysisTrainNew", "AliAnalysisTaskomega3pi cannot run\
1006  for these train conditions - EXCLUDED");
1007    }
1008
1009    // PWG4 gamma conversion analysis
1010    if (iPWG4GammaConv) {
1011       gROOT->LoadMacro("$ALICE_ROOT_SRC/PWG4/macros/AddTaskGammaConversion.C");
1012       TString cdir = gSystem->WorkingDirectory();
1013       gSystem->ChangeDirectory(gSystem->ExpandPathName("$ALICE_ROOT_SRC/PWG4/macros/"));
1014       //      TString gcArguments = "-run-on-train -run-jet -run-chic -run-neutralmeson -run-cf";
1015       //      TString gcArguments = "-run-on-train -run-jet -run-neutralmeson -run-cf -use-own-xyz";
1016       //      TString gcArguments = "-run-on-train -run-jet -run-neutralmeson -run-cf -use-own-xyz";
1017       TString gcArguments = "-run-on-train -run-jet -run-omega-meson -use-own-xyz -run-neutralmeson -no-aod";
1018       //      TString kGCAnalysisCutSelectionId="9003562000100310";
1019       //      TString kGCAnalysisCutSelectionId="9003562000100312";
1020       //      gcArguments.Append(Form(" -set-cut-selection %s ",kGCAnalysisCutSelectionId.Data()));
1021       if(!kIsMC)gcArguments += " -mc-off";
1022       AliAnalysisTaskGammaConversion * taskGammaConversion = AddTaskGammaConversion(gcArguments,mgr->GetCommonInputContainer());
1023       gSystem->ChangeDirectory(cdir);
1024       taskGammaConversion->SelectCollisionCandidates();
1025       if (!taskGammaConversion) ::Warning("AnalysisTrainNew", "AliAnalysisTaskGammaConversion cannot run for these train conditions - EXCLUDED");
1026    }   
1027
1028    if (iPWG4CaloConv) {
1029       gROOT->LoadMacro("$ALICE_ROOT_SRC/PWG4/macros/AddTaskCaloConv.C");
1030       AliAnalysisTaskCaloConv * taskCaloConv = AddTaskCaloConv();
1031       if (!taskCaloConv) ::Warning("AnalysisTrainNew", "AliAnalysisTaskCaloConv cannot run for these train conditions - EXCLUDED");
1032    }   
1033
1034
1035
1036    //==========================================================================
1037    // FOR THE REST OF THE TASKS THE MACRO AddTaskXXX() is not yet implemented/
1038    // Run the analysis
1039    //    
1040    if (kPluginUse) {
1041       AliAnalysisGrid *alienHandler = CreateAlienHandler(plugin_mode);
1042       AliAnalysisManager::GetAnalysisManager()->SetGridHandler(alienHandler);
1043    }
1044    
1045    if (mgr->InitAnalysis()) {
1046      mgr->PrintStatus();
1047      // if (kSaveTrain || strlen(config_file)) gSystem->ChangeDirectory(kTrainName);
1048      if (!strcmp(plugin_mode,"submit")&&smode=="GRID"){
1049        TString alien_workdir = gGrid->GetHomeDirectory();
1050        if (iAODanalysis) alien_workdir += "analysisAOD";
1051        else              alien_workdir += "analysisESD";
1052        if(kGridDataSet.Length()>0)alien_workdir += Form("/%s",kGridDataSet.Data());
1053        AliAnalysisAlien *gridhandler = (AliAnalysisAlien*)mgr->GetGridHandler();
1054        printf("=== AnalysisTrainPWG4Jets:: Registering jdl in the work directory alien://%s/%s, should be done by the manager! ===\n",
1055               alien_workdir.Data(),gridhandler->GetGridOutputDir());
1056
1057        TString dest;
1058        dest = Form("%s/%s/%s.jdl",alien_workdir.Data(),gridhandler->GetGridOutputDir(),kTrainName.Data());
1059        if(AliAnalysisAlien::FileExists(dest.Data())){
1060          Printf("%s exist on grid removing...",dest.Data());
1061          gGrid->Rm(dest.Data());
1062        }
1063        Printf("%s copy ...",dest.Data());
1064        TFile::Cp(Form("file:%s.jdl",kTrainName.Data()),Form("alien://%s",dest.Data()));
1065
1066
1067        TString dest;
1068        dest = Form("%s/%s/%s_merge.jdl",alien_workdir.Data(),gridhandler->GetGridOutputDir(),kTrainName.Data());
1069        if(AliAnalysisAlien::FileExists(dest.Data())){
1070          Printf("%s exist on grid removing...",dest.Data());
1071          gGrid->Rm(dest.Data());
1072        }
1073        Printf("%s copy ...",dest.Data());
1074        TFile::Cp(Form("file:%s_merge.jdl",kTrainName.Data()),Form("alien://%s",dest.Data()));
1075        
1076        dest = Form("%s/%s/%s_merge_final.jdl",alien_workdir.Data(),gridhandler->GetGridOutputDir(),kTrainName.Data());
1077        if(AliAnalysisAlien::FileExists(dest.Data())){
1078          Printf("%s exist on grid removing...",dest.Data());
1079          gGrid->Rm(dest.Data());
1080        }
1081        Printf("%s copy ...",dest.Data());
1082        TFile::Cp(Form("file:%s_merge.jdl",kTrainName.Data()),Form("alien://%s",dest.Data()));
1083
1084
1085        /*
1086        dest = Form("%s/rootfiles/STEER/LQ1dRef_v1.root",gGrid->GetHomeDirectory());
1087        if(AliAnalysisAlien::FileExists(dest.Data())){
1088          Printf("%s exist on grid removing...",dest.Data());
1089          gGrid->Rm(dest.Data());
1090        }
1091        TFile::Cp(Form("file:%s/STEER/LQ1dRef_v1.root",
1092                       gSystem->ExpandPathName("$ALICE_ROOT")),Form("alien://%s",dest.Data()));
1093        */
1094      }
1095      AliLog::SetGlobalLogLevel(AliLog::kError);
1096      if((kUseSysInfo>0&&smode=="LOCAL")||!strcmp(plugin_mode, "test")){
1097        TFile * fM = TFile::Open("manager_local.root","RECREATE");
1098        mgr->Write();
1099        fM->Close();
1100      }
1101      
1102      // grmpf, aliroot error handler overwrites root
1103      gErrorIgnoreLevel = kErrorIgnoreLevel;
1104      if(gErrorIgnoreLevel>3000) AliLog::SetGlobalLogLevel(AliLog::kFatal);
1105      StartAnalysis(smode, chain);
1106      if((kUseSysInfo>0&&smode=="LOCAL")||!strcmp(plugin_mode, "test")){
1107        for(int i = 0;i < mgr->GetTopTasks()->GetEntries();i++){
1108          mgr->ProfileTask(i);
1109        }
1110      }
1111      if (!strcmp(plugin_mode, "offline")&&smode=="GRID"){
1112        // Offline mode path files
1113        //       PatchJDL();
1114        //       PatchAnalysisMacro();
1115      }
1116
1117      if (kSaveTrain && smode=="GRID") {
1118        AliAnalysisAlien *gridhandler = (AliAnalysisAlien*)mgr->GetGridHandler();
1119        TString alien_workdir = gGrid->GetHomeDirectory();
1120        if (iAODanalysis) alien_workdir += "analysisAOD";
1121        else              alien_workdir += "analysisESD";
1122        if(kGridDataSet.Length()>0)alien_workdir += Form("/%s",kGridDataSet.Data());
1123        //     kGridOutdir = gridhandler->GetGridOutputDir();
1124        printf("=== Registering ConfigTrain.C in the work directory <%s> ===\n",
1125                 alien_workdir.Data());
1126        if (AliAnalysisAlien::FileExists(Form("%s/%sConfig.C", alien_workdir.Data(), kTrainName.Data())))
1127          gGrid->Rm(Form("%s/%sConfig.C", alien_workdir.Data(), kTrainName.Data()));
1128        if (strcmp(plugin_mode, "test"))
1129          TFile::Cp(Form("file:%sConfig.C",kTrainName.Data()), Form("alien://%s/%sConfig.C", alien_workdir.Data(), kTrainName.Data()));
1130      }
1131    }
1132 }
1133
1134 //______________________________________________________________________________
1135 void StartAnalysis(const char *mode, TChain *chain) {
1136 // Start analysis.
1137    Int_t imode = -1;
1138    AliAnalysisManager *mgr = AliAnalysisManager::GetAnalysisManager();
1139    if (!strcmp(mode, "LOCAL")) imode = 0;
1140    if (!strcmp(mode, "PROOF")) imode = 1;
1141    if (!strcmp(mode, "GRID"))  imode = 2;
1142    switch (imode) {
1143       case 0:
1144          if (!chain) {
1145             ::Error("AnalysisTrainPWG4Jets.C::StartAnalysis", "Cannot create the chain");
1146             return;
1147          }   
1148          mgr->StartAnalysis(mode, chain,kNumberOfEvents);
1149          return;
1150       case 1:
1151          if (!kProofDataSet.Length()) {
1152             ::Error("AnalysisTrainPWG4Jets.C::StartAnalysis", "kProofDataSet is empty");
1153             return;
1154          }   
1155          mgr->StartAnalysis(mode, kProofDataSet, kProofEvents,kProofOffset);
1156          return;
1157       case 2:
1158          if (kPluginUse) {
1159             if (!mgr->GetGridHandler()) {
1160                ::Error("AnalysisTrainPWG4Jets.C::StartAnalysis", "Grid plugin not initialized");
1161                return;
1162             }   
1163             mgr->StartAnalysis("grid",chain,kNumberOfEvents);
1164          } else {
1165             if (!chain) {
1166                ::Error("AnalysisTrainPWG4Jets.C::StartAnalysis", "Cannot create the chain");
1167                return;
1168             }   
1169             mgr->StartAnalysis(mode, chain);
1170             mgr->StartAnalysis(mode, chain,kNumberOfEvents);
1171          }   
1172          return;
1173    }      
1174 }          
1175     
1176 //______________________________________________________________________________
1177 void CheckModuleFlags(const char *mode) {
1178 // Checks selected modules and insure compatibility
1179    Int_t imode = -1;
1180    if (!strcmp(mode, "LOCAL")) imode = 0;
1181    if (!strcmp(mode, "PROOF")) imode = 1;
1182    if (!strcmp(mode, "GRID"))  imode = 2;
1183
1184
1185    if (kUseCPAR) {
1186      kPluginAliRootVersion    = ""; // NO aliroot if we use CPAR
1187    }
1188
1189    if (imode==1) {
1190       if (!kUsePAR) {
1191          ::Info("AnalysisTrainPWG4Jets.C::CheckModuleFlags", "PAR files enabled due to PROOF analysis");
1192          kUsePAR = kTRUE;
1193       }   
1194    }  
1195    if (imode != 2) {
1196       ::Info("AnalysisTrainPWG4Jets.C::CheckModuleFlags", "AliEn plugin disabled since not in GRID mode");
1197       kPluginUse = kFALSE; 
1198    }   
1199
1200
1201    if(!kIsMC){
1202      // switch off anthin related to MC
1203      kUseMC = 0;
1204      kUseAODMC = 0;
1205      kUseTR = kFALSE;
1206    }
1207
1208    // Decide if we have PbPb
1209    if(kGridDataSet.CompareTo("LHC10h")==0||kGridDataSet.Contains("LHC10h")) {
1210      Printf("Using settings for Pb+Pb");
1211      kIsPbPb = true;
1212    }
1213
1214    
1215
1216    if (iAODanalysis) {
1217    // AOD analysis
1218       if (kUseMC)
1219          ::Info("AnalysisTrainPWG4Jets.C::CheckModuleFlags", "MC usage disabled in analysis on AOD's");
1220       if (kUseAODTags)
1221          ::Info("AnalysisTrainPWG4Jets.C::CheckModuleFlags", "AOD tags usage disabled in analysis on AOD's");
1222       kUseMC = kFALSE;
1223       kUseTR = kFALSE;
1224       kUseAODTags = kFALSE;
1225       if (iESDfilter)
1226          ::Info("AnalysisTrainPWG4Jets.C::CheckModuleFlags", "ESD filter disabled in analysis on AOD's");
1227       iESDfilter   = 0;
1228       if (iPhysicsSelection)
1229          ::Info("AnalysisTrainPWG4Jets.C::CheckModuleFlags", "Physics Selection disabled in analysis on AOD's");
1230       iPhysicsSelection   = 0;
1231       if (!iAODhandler) {
1232          if (iJETAN) 
1233             ::Info("AnalysisTrainPWG4Jets.C::CheckModuleFlags", "JETAN disabled in analysis on AOD's without AOD handler");
1234          iJETAN = 0;
1235          iDIJETAN = 0;
1236       }
1237       // Disable tasks that do not work yet on AOD data
1238       if(iPWG4JCORRAN)::Info("AnalysisTrainPWG4Jets.C::CheckModuleFlags", "PWG4 JCORRAN disabled in analysis on AOD's");
1239       iPWG4JCORRAN = 0;
1240       if( iPWG4PtQAMC)::Info("AnalysisTrainPWG4Jets.C::CheckModuleFlags", "PWG4 PtQAMC disabled in analysis on AOD's");
1241       iPWG4PtQAMC        = 0;
1242       if( iPWG4PtQATPC)::Info("AnalysisTrainPWG4Jets.C::CheckModuleFlags", "PWG4 PtTPC disabled in analysis on AOD's");
1243       iPWG4PtQATPC        = 0;
1244       if( iPWG4Cosmics)::Info("AnalysisTrainPWG4Jets.C::CheckModuleFlags", "PWG4 Comics disabled in analysis on AOD's");
1245       iPWG4Cosmics        = 0;
1246
1247       if( iPWG4PtSpectra)::Info("AnalysisTrainPWG4Jets.C::CheckModuleFlags", "PWG4 PtQAMC disabled in analysis on AOD's");
1248       iPWG4PtSpectra     = 0;
1249       if(iPWG4KMeans)::Info("AnalysisTrainPWG4Jets.C::CheckModuleFlags", "PWG4KMeans disabled on AOD's");
1250       iPWG4KMeans       = 0;
1251       if (iPWG4JetCorr)::Info("AnalysisTrainPWG4Jets.C::CheckModuleFlags", "PWG4Jetcorr disabled on AOD's");
1252       iPWG4JetCorr = 0;
1253       if (iPWG4PartCorr)::Info("AnalysisTrainPWG4Jets.C::CheckModuleFlags", "PWG4partcorr disabled on AOD's");
1254       iPWG4PartCorr = 0;
1255       if (iPWG4CaloQA)::Info("AnalysisTrainPWG4Jets.C::CheckModuleFlags", "PWG4CaloQA disabled on AOD's");
1256       iPWG4CaloQA = 0;
1257       if (iPWG4Tagged)::Info("AnalysisTrainPWG4Jets.C::CheckModuleFlags", "PWG4tagged disabled on AOD's");
1258       iPWG4Tagged = 0;
1259       if (iPWG4omega3pi)
1260         ::Info("AnalysisTrainNew.C::CheckModuleFlags", "PWG4omega3pi disabled on AOD's");
1261       iPWG4omega3pi = 0;
1262       if(iPWG1QASym)::Info("AnalysisTrainPWG4Jets.C::CheckModuleFlags", "PWG1 QA Sym disabled in analysis on AOD's");
1263       if (iPWG4GammaConv)::Info("AnalysisPWG4Jets.C::CheckModuleFlags", "PWG4gammaconv disabled on AOD's");
1264       iPWG4GammaConv = 0;   
1265       iPWG1QASym     = 0;
1266       iCentralitySelection = 0;
1267    } else {   
1268    // ESD analysis
1269
1270      if(kIsPbPb){
1271        iCentralitySelection = 1;
1272      }
1273
1274      if (!kUseMC){
1275        kUseTR = kFALSE;
1276        
1277        if(kUseKinefilter)::Info("AnalysisTrainPWG4Jets.C::CheckModuleFlags", "PWG4 Kine Filter disabled in analysis without MC");
1278        kUseKinefilter = kFALSE;
1279        if( iPWG4PtQAMC)::Info("AnalysisTrainPWG4Jets.C::CheckModuleFlags", "PWG4 PtQAMC disabled in analysis without MC");
1280        iPWG4PtQAMC        = 0;
1281        if( iPWG4CorrectionsUE)::Info("AnalysisTrainPWG4Jets.C::CheckModuleFlags", "PWG4 CorrectionsUE disabled in analysis without MC");
1282        iPWG4CorrectionsUE = 0;
1283      }
1284      if (!kUseTR) {
1285        if(iPWG4PtQAMC)::Info("AnalysisTrainPWG4Jets.C::CheckModuleFlags", "iPWG4QATPCMC disabled if not reading track references");
1286        iPWG4PtQAMC        = 0;
1287      }   
1288      if (iJETAN){
1289        iESDfilter=1;
1290      }
1291       if (!iESDfilter){
1292         kUseKinefilter = kFALSE;
1293         kUseMuonfilter = kFALSE;
1294       }
1295       if(!iJETAN){
1296         iPWG4JetSpectrum = iPWG4UE =  iPWG4CorrectionsUE = iPWG4ThreeJets = iPWG4QGSep = iDIJETAN = 0;
1297       }
1298    }
1299    iPWG4JetTasks = iPWG4JetServices||iPWG4JetSpectrum||iPWG4UE||iPWG4LeadingUE||iPWG4PtQAMC||iPWG4PtSpectra||iPWG4PtQATPC||iPWG4Cosmics||iPWG4ThreeJets||iPWG4QGSep||iPWG4JetChem||iPWG4Minijet||iPWG4Fragmentation;
1300    iPWG4PartCorrLibs = iPWG4PartCorr||iPWG4Tagged||iPWG4CaloQA;
1301    iPWG4GammaConvLib = iPWG4GammaConv||iPWG4CaloConv;
1302
1303
1304    iEMCUtilLibs = iPWG4PartCorrLibs||iPWG4JCORRAN||iPWG4GammaConvLib;
1305    iJETANLib = iPWG4JetTasks||iJETAN||iDIJETAN;
1306
1307    if (iESDfilter) {iAODhandler=1;}
1308    if (kUseKinefilter && !kUseMC) kUseKinefilter = kFALSE;
1309    if (kUseAODTags && !iAODhandler) kUseAODTags = kFALSE;
1310
1311
1312    
1313 }
1314
1315 //______________________________________________________________________________
1316 Bool_t Connect(const char *mode) {
1317 // Connect <username> to the back-end system.
1318    Int_t imode = -1;
1319    if (!strcmp(mode, "LOCAL")) imode = 0;
1320    if (!strcmp(mode, "PROOF")) imode = 1;
1321    if (!strcmp(mode, "GRID"))  imode = 2;
1322    TString username = gSystem->Getenv("alien_API_USER");
1323    switch (imode) {
1324       case 0:
1325          break;
1326       case 1:
1327          if  (!username.Length()) {
1328             ::Error(Form("AnalysisTrainPWG4Jets.C::Connect <%s>", mode), "Make sure you:\n \
1329                            1. Have called: alien-token-init <username>\n \
1330                            2. Have called: >source /tmp/gclient_env_$UID");
1331             return kFALSE;
1332          }
1333          ::Info("AnalysisTrainPWG4Jets.C::Connect", "Connecting user <%s> to PROOF cluster <%s>", 
1334                 username.Data(), kProofCluster.Data());
1335          gEnv->SetValue("XSec.GSI.DelegProxy", "2");
1336 //         TProof::Open(Form("%s@%s:31093", username.Data(), kProofCluster.Data()));       
1337          TProof::Open(Form("%s@%s", username.Data(), kProofCluster.Data()));       
1338          if (!gProof) {
1339             if (strcmp(gSystem->Getenv("XrdSecGSISRVNAMES"), "lxfsrd0506.cern.ch"))
1340                ::Error(Form("AnalysisTrainPWG4Jets.C::Connect <%s>", mode), "Environment XrdSecGSISRVNAMES different from lxfsrd0506.cern.ch");
1341             return kFALSE;
1342          }
1343          if(kProofClearPackages)gProof->ClearPackages();
1344
1345          if(kProofSaveToAlien){
1346            TGrid::Connect("alien://");
1347            if (gGrid) {
1348              TString homedir = gGrid->GetHomeDirectory();
1349              TString workdir = homedir + kTrainName;
1350              if (!gGrid->Cd(workdir)) {
1351                gGrid->Cd(homedir);
1352                if (gGrid->Mkdir(workdir)) {
1353                  gGrid->Cd(kTrainName);
1354                  ::Info("AnalysisTrainPWG4Jets::Connect()", "Directory %s created", gGrid->Pwd());
1355                }
1356              }
1357              gGrid->Mkdir("proof_output");
1358              gGrid->Cd("proof_output");
1359              kProofOutdir = Form("alien://%s", gGrid->Pwd());
1360            }   
1361          }
1362          break;
1363       case 2:      
1364          if  (!username.Length()) {
1365             ::Error(Form("AnalysisTrainPWG4Jets.C::Connect <%s>", mode), "Make sure you:\n \
1366                            1. Have called: alien-token-init <username>\n \
1367                            2. Have called: >source /tmp/gclient_env_$UID");
1368             return kFALSE;
1369          }
1370          if (kPluginUse && !gSystem->Getenv("alien_CLOSE_SE")) {
1371             ::Error(Form("AnalysisTrainPWG4Jets.C::Connect <%s>", mode), 
1372                            "When using the AliEn plugin it is preferable to define the \
1373                            variable alien_CLOSE_SE in your environment.");
1374             return kFALSE;
1375          }
1376          ::Info("AnalysisTrainPWG4Jets.C::Connect", "Connecting user <%s> to AliEn ...", 
1377                 username.Data());
1378          TGrid::Connect("alien://");
1379          if (!gGrid || !gGrid->IsConnected()) return kFALSE;
1380          break;
1381       default:
1382          ::Error("AnalysisTrainPWG4Jets.C::Connect", "Unknown run mode: %s", mode);
1383          return kFALSE;
1384    }
1385    ::Info("AnalysisTrainPWG4Jets.C::Connect","Connected in %s mode", mode);
1386    return kTRUE;
1387 }
1388
1389 //______________________________________________________________________________
1390 Bool_t LoadCommonLibraries(const char *mode)
1391 {
1392    if (!gSystem->Getenv("ALICE_ROOT_SRC")) {
1393       ::Error("AnalysisTrainPWG4Jets.C", "Analysis train requires that ALICE_ROOT_SRC is set to pick up Configurations"); 
1394       return kFALSE;
1395    }   
1396    
1397    // Load common analysis libraries.
1398    Int_t imode = -1;
1399    if (!strcmp(mode, "LOCAL")) imode = 0;
1400    if (!strcmp(mode, "PROOF")) imode = 1;
1401    if (!strcmp(mode, "GRID"))  imode = 2;
1402    Bool_t success = kTRUE;
1403    // ROOT libraries
1404    gSystem->Load("libTree.so");
1405    gSystem->Load("libGeom.so");
1406    gSystem->Load("libVMC.so");
1407    gSystem->Load("libPhysics.so");
1408    
1409    // Load framework classes. Par option ignored here.
1410    switch (imode) {
1411       case 0:
1412       case 2:
1413          if (kUseCPAR) {
1414             success &= LoadLibrary("STEERBase", mode, kTRUE);
1415             success &= LoadLibrary("ESD", mode, kTRUE);
1416             success &= LoadLibrary("AOD", mode, kTRUE);
1417             success &= LoadLibrary("ANALYSIS", mode, kTRUE);
1418             success &= LoadLibrary("ANALYSISalice", mode, kTRUE);
1419             success &= LoadLibrary("ROOTFILES", mode, kTRUE);
1420             // success &= LoadLibrary("EventMixing", mode,kTRUE);
1421             success &= LoadLibrary("CORRFW", mode, kTRUE);
1422          } else {   
1423             success &= LoadLibrary("libSTEERBase.so", mode);
1424             success &= LoadLibrary("libESD.so", mode);
1425             success &= LoadLibrary("libAOD.so", mode);
1426             success &= LoadLibrary("libANALYSIS.so", mode);
1427             success &= LoadLibrary("libANALYSISalice.so", mode);
1428             // success &= LoadLibrary("libEventMixing.so", mode);
1429             success &= LoadLibrary("libCORRFW.so", mode);
1430             gROOT->ProcessLine(".include $ALICE_ROOT/include");
1431          }   
1432          break;
1433       case 1:
1434          Int_t ires = -1;
1435          if (kProofUseAFPAR && !gSystem->AccessPathName(kProofAFversion)) ires = gProof->UploadPackage(kProofAFversion);
1436          if (ires < 0) {
1437             success &= LoadLibrary("STEERBase", mode);
1438             success &= LoadLibrary("ESD", mode);
1439             success &= LoadLibrary("AOD", mode);
1440             success &= LoadLibrary("ANALYSIS", mode);
1441             success &= LoadLibrary("ANALYSISalice", mode);
1442             success &= LoadLibrary("EventMixing", mode);
1443             success &= LoadLibrary("CORRFW", mode);
1444          } else { 
1445             ires = gProof->EnablePackage(kProofAFversion);
1446             if (ires<0) success = kFALSE;
1447             success &= LoadLibrary("CORRFW", mode);
1448          }
1449          break;         
1450       default:
1451          ::Error("AnalysisTrainPWG4Jets.C::LoadCommonLibraries", "Unknown run mode: %s", mode);
1452          return kFALSE;
1453    }
1454    if (success) {
1455       ::Info("AnalysisTrainPWG4Jets.C::LoadCommodLibraries", "Load common libraries:    SUCCESS");
1456       ::Info("AnalysisTrainPWG4Jets.C::LoadCommodLibraries", "Include path for Aclic compilation:\n%s",
1457               gSystem->GetIncludePath());
1458    } else {           
1459       ::Info("AnalysisTrainPWG4Jets.C::LoadCommodLibraries", "Load common libraries:    FAILED");
1460    }   
1461       
1462    return success;
1463 }
1464
1465 //______________________________________________________________________________
1466 Bool_t LoadAnalysisLibraries(const char *mode)
1467 {
1468 // Load common analysis libraries.
1469   Bool_t success = kTRUE;
1470   if (useTender) {
1471       if (!LoadLibrary("TENDER", mode, kTRUE) ||
1472           !LoadLibrary("TENDERSupplies", mode, kTRUE)) return kFALSE;
1473    }
1474    if (iESDfilter) {
1475      /*
1476       if (!LoadLibrary("PWG3base", mode, kTRUE) ||
1477           !LoadLibrary("PWG3muon", mode, kTRUE)) return kFALSE;
1478      */
1479    }   
1480    // JETAN
1481    if (iJETANLib) {
1482      // this part needs some rework in case we do not need the fastjed finders for processing
1483      if (!LoadLibrary("JETAN", mode, kTRUE)) return kFALSE;
1484      if (!strcmp(mode, "PROOF")){
1485        gProof->Exec("gSystem->Load\(\"/afs/cern.ch/user/d/dperrino/public/libCGAL.so\"\)", kTRUE); 
1486        gProof->Exec("gSystem->Load\(\"/afs/cern.ch/user/d/dperrino/public/libfastjet.so\"\)", kTRUE); 
1487        // problem when loading siscone copiled with different gcc version??
1488        // gProof->Exec("gSystem->Load\(\"/afs/cern.ch/user/d/dperrino/public/libsiscone.so\"\)", kTRUE); 
1489        gProof->Exec("gSystem->Load\(\"/afs/cern.ch/user/d/dperrino/public/libSISConePlugin.so\"\)", kTRUE);      
1490      }
1491      if(!kUsePAR){ 
1492        if (!LoadLibrary("CGAL", mode, kTRUE)) return kFALSE;
1493        if (!LoadLibrary("fastjet", mode, kTRUE)) return kFALSE;
1494        if (!LoadLibrary("siscone", mode, kTRUE)) return kFALSE;
1495        if (!LoadLibrary("SISConePlugin", mode, kTRUE)) return kFALSE;
1496      }
1497      else{
1498        // par files plus FASTJET needs some extra work... need to change
1499        // the loading sequence in the auto generated .C file
1500        if (!LoadLibrary("libCGAL.so", mode, kTRUE)) return kFALSE;
1501        if (!LoadLibrary("libfastjet.so", mode, kTRUE)) return kFALSE;
1502        if (!LoadLibrary("libsiscone.so", mode, kTRUE)) return kFALSE;
1503        if (!LoadLibrary("libSISConePlugin.so", mode, kTRUE)) return kFALSE;
1504      }
1505      if (!LoadLibrary("FASTJETAN", mode, kTRUE)) return kFALSE;
1506    }
1507    if(iPWG4JetTasks){
1508      if (!LoadLibrary("PWG4JetTasks", mode, kTRUE)) return kFALSE;
1509    }
1510
1511    if(iPWG1QASym){
1512      if (!LoadSource(Form("%s/PWG1/AliAnalysisTaskQASym.cxx",gSystem->ExpandPathName("$ALICE_ROOT_SRC")), mode, kTRUE))return kFALSE;
1513    }
1514    if(iPWG4TmpSourceSara){
1515      if(!kUsePAR)gSystem->AddIncludePath("-I$ALICE_ROOT/include/JetTasks"); // ugly hack!!
1516      if(!LoadSource(Form("%s/PWG4/JetTasks/AliAnalysisTaskEta.cxx",gSystem->ExpandPathName("$ALICE_ROOT_SRC")), mode, kTRUE))return kFALSE;
1517    }
1518
1519    /*
1520    if(iPWG4JetChem){
1521      if(!kUsePAR)gSystem->AddIncludePath("-I$ALICE_ROOT/include/JetTasks"); // ugly hack!!
1522      if(!LoadSource(Form("%s/PWG4/JetTasks/AliAnalysisTaskJetChem.cxx",gSystem->ExpandPathName("$ALICE_ROOT")), mode, kTRUE))return kFALSE;
1523    }
1524    */
1525
1526    if(iEMCUtilLibs){
1527      if (!LoadLibrary("EMCALUtils", mode, kTRUE) ||
1528          !LoadLibrary("PHOSUtils", mode, kTRUE)) return kFALSE;
1529    }
1530
1531    if (iPWG4PartCorrLibs) {   
1532       if (!LoadLibrary("PWG4PartCorrBase", mode, kTRUE) ||
1533           !LoadLibrary("PWG4PartCorrDep", mode, kTRUE)) return kFALSE;
1534    }
1535    if(iPWG4JCORRAN){
1536      // PWG4 particle correlations
1537      if(!LoadLibrary("PWG4JCORRAN",mode,kTRUE))return kFALSE;
1538    }
1539    if (iPWG4JetCorr) { 
1540      if (!LoadLibrary("PWG4JetCorrel", mode, kTRUE)) return kFALSE;
1541    }  
1542    if (iPWG4omega3pi) {
1543      if (!LoadLibrary("PWG4omega3pi", mode, kTRUE)) return kFALSE;
1544    }
1545    if (iPWG4GammaConvLib) {
1546       if (!LoadLibrary("PWG4GammaConv", mode, kTRUE)) return kFALSE;
1547    }      
1548
1549    ::Info("AnalysisTrainPWG4Jets.C::LoadAnalysisLibraries", "Load other libraries:   SUCCESS");
1550    return kTRUE;
1551 }
1552
1553 //______________________________________________________________________________
1554 Bool_t LoadLibrary(const char *module, const char *mode, Bool_t rec=kFALSE)
1555 {
1556 // Load a module library in a given mode. Reports success.
1557    Int_t imode = -1;
1558    Int_t result;
1559    TString smodule(module);
1560    if (!strcmp(mode, "LOCAL")) imode = 0;
1561    if (!strcmp(mode, "PROOF")) imode = 1;
1562    if (!strcmp(mode, "GRID"))  imode = 2;
1563    TString mod(module);
1564    if (!mod.Length()) {
1565       ::Error("AnalysisTrainPWG4Jets.C::LoadLibrary", "Empty module name");
1566       return kFALSE;
1567    }   
1568    // If a library is specified, just load it
1569    if (smodule.EndsWith(".so")) {
1570       mod.Remove(mod.Index(".so"));
1571       result = gSystem->Load(mod);
1572       if (result < 0) {
1573          ::Error("AnalysisTrainPWG4Jets.C::LoadLibrary", "Could not load library %s", module);
1574          return kFALSE;
1575       }
1576       if (rec) anaLibs += Form("%s.so ",mod.Data()); 
1577       if (rec) anaLibsExtra += Form("%s.so ",mod.Data()); 
1578       return kTRUE;
1579    } 
1580    // Check if the library is already loaded
1581    if (strlen(gSystem->GetLibraries(Form("%s.so", module), "", kFALSE)) > 0)
1582       return kTRUE;    
1583    switch (imode) {
1584       case 0:
1585       case 2:
1586          if (kUsePAR) {
1587             result = SetupPar(module);
1588             if (rec) anaPars += Form("%s.par ", module);
1589          } else {
1590             result = gSystem->Load(Form("lib%s.so", module));
1591             if (rec) anaLibs += Form("lib%s.so ", module);
1592          }   
1593          break;
1594       case 1:
1595         if(!gSystem->AccessPathName(module)){
1596           ::Info("AnalysisTrainPWG4Jets.C::LoadLibrary", "Removing directory %s",module);
1597           gSystem->Exec(Form("rm -rf %s",module));
1598         }
1599          result = gProof->UploadPackage(module);
1600          if (result<0) {
1601             result = gProof->UploadPackage(gSystem->ExpandPathName(Form("$ALICE_ROOT/%s.par", module)));
1602             if (result<0) {
1603                ::Error("AnalysisTrainPWG4Jets.C::LoadLibrary", "Could not find module %s.par in current directory nor in $ALICE_ROOT", module);
1604                return kFALSE;
1605             }
1606          }   
1607          result = gProof->EnablePackage(module);
1608          break;
1609       default:
1610          return kFALSE;
1611    }         
1612    if (result < 0) {
1613       ::Error("AnalysisTrainPWG4Jets.C::LoadLibrary", "Could not load module %s", module);
1614       return kFALSE;
1615    }
1616    return kTRUE;
1617 }           
1618
1619
1620
1621 //______________________________________________________________________________
1622 Bool_t LoadSource(const char *source, const char *mode, Bool_t rec=kFALSE)
1623 {
1624 // Load a module library in a given mode. Reports success.
1625    Int_t imode = -1;
1626    Int_t result = -1;
1627    if (!strcmp(mode, "LOCAL")) imode = 0;
1628    if (!strcmp(mode, "PROOF")) imode = 1;
1629    if (!strcmp(mode, "GRID"))  imode = 2;
1630    TString ssource(source);
1631    TString basename = gSystem->BaseName(ssource.Data());
1632    if (!ssource.Length()) {
1633       ::Error("AnalysisTrainPWG4Jets.C::LoadSource", "Empty task name");
1634       return kFALSE;
1635    }   
1636    // we have a source code so compile it
1637    if (ssource.EndsWith(".cxx")) {
1638      // need to copy it here other wise the path is also used on grid...
1639      ssource.Remove(ssource.Index(".cxx"));
1640      basename.Remove(basename.Index(".cxx"));
1641      Printf("LoadSources:: Copying...  path %s{cxx,h}",ssource.Data());
1642      gSystem->Exec(Form("cp %s.cxx . ",ssource.Data()));
1643      gSystem->Exec(Form("cp %s.h . ",ssource.Data()));
1644      // Path to code
1645      // only needed for local compilation, in grid and proof mode 
1646      // the task headers are uploaded 
1647      //     path.Remove(path.Index(gSystem->BaseName(path.Data())));
1648      // Printf("LoadSources:: Including path %s",path.Data());
1649      //  if(path.Length()>0)gROOT->ProcessLine(Form(".include %s",path.Data()));
1650      Printf("LoadSources:: Loading...  path %s",basename.Data());
1651      switch (imode) {
1652      case 0:
1653        result = gROOT->LoadMacro(Form("%s.cxx++g",basename.Data()));
1654        break;
1655      case 1:
1656        result = gProof->LoadMacro(Form("%s.cxx++g",basename.Data()));
1657        break;
1658      case 2:
1659        result = gROOT->LoadMacro(Form("%s.cxx++g",basename.Data()));
1660        if (rec){
1661          // what we want to compile
1662          anaSources += Form("%s.cxx ",basename.Data()); 
1663          // what we need as input...
1664          anaLibs += Form("%s.cxx %s.h ",basename.Data(),basename.Data()); 
1665        }
1666        break;
1667      default:
1668        return kFALSE;
1669      }
1670    } 
1671    if (result < 0) {
1672       ::Error("AnalysisTrainPWG4Jets.C::LoadSources", "Could not load source %s", source);
1673       return kFALSE;
1674    }
1675    return kTRUE;
1676 }           
1677
1678
1679 //______________________________________________________________________________
1680 TChain *CreateChain(const char *mode, const char *plugin_mode)
1681 {
1682 // Create the input chain
1683    Int_t imode = -1;
1684    if (!strcmp(mode, "LOCAL")) imode = 0;
1685    if (!strcmp(mode, "PROOF")) imode = 1;
1686    if (!strcmp(mode, "GRID"))  imode = 2;
1687    TChain *chain = NULL;
1688    // Local chain
1689    switch (imode) {
1690       case 0:
1691          if (iAODanalysis) {
1692             if (!kLocalXMLDataset.Length()) {
1693                // Local AOD
1694                chain = new TChain("aodTree");
1695                TString line;
1696                ifstream in;
1697                in.open(kLocalDataList.Data());
1698                Int_t ic = 0;
1699                while (in.good()) {
1700                  in >> line;
1701                  if (line.Length() == 0) continue;
1702                  Printf("%d adding %s",ic,line.Data());
1703                  chain->Add(line.Data());
1704                  ic++;
1705                }       
1706             } else {
1707                // Interactive AOD
1708                chain = CreateChainSingle(kLocalXMLDataset, "aodTree");
1709             }
1710          } else {      
1711            if (!kLocalXMLDataset.Length()) {
1712              // Local ESD
1713              chain = new TChain("esdTree");
1714              TString line;
1715              ifstream in;
1716              in.open(kLocalDataList.Data());
1717              while (in.good()) {
1718                in >> line;
1719                if (line.Length() == 0) continue;
1720                cout << " line = " << line << endl;
1721                chain->Add(line.Data());
1722              }       
1723            } else {
1724              // Interactive ESD
1725                chain = CreateChainSingle(kLocalXMLDataset, "esdTree");
1726            }   
1727          }
1728          break;
1729       case 1:
1730          break;
1731       case 2:
1732          if (kPluginUse) {
1733 //            AliAnalysisGrid *alienHandler = CreateAlienHandler(plugin_mode);
1734 //            AliAnalysisManager::GetAnalysisManager()->SetGridHandler(alienHandler);
1735          } else {
1736             TString           treeName = "esdTree";
1737             if (iAODanalysis) treeName = "aodTree";
1738             chain = CreateChainSingle("wn.xml", treeName);
1739          }
1740          break;      
1741       default:   
1742    }
1743    if (chain && chain->GetNtrees()) return chain;
1744    return NULL;
1745 }   
1746
1747 //______________________________________________________________________________
1748 TChain* CreateChainSingle(const char* xmlfile, const char *treeName)
1749 {
1750    printf("*******************************\n");
1751    printf("*** Getting the ESD Chain   ***\n");
1752    printf("*******************************\n");
1753    TAlienCollection * myCollection  = TAlienCollection::Open(xmlfile);
1754
1755    if (!myCollection) {
1756       ::Error("AnalysisTrainPWG4Jets.C::CreateChainSingle", "Cannot create an AliEn collection from %s", xmlfile) ;
1757       return NULL ;
1758    }
1759
1760    TChain* chain = new TChain(treeName);
1761    myCollection->Reset() ;
1762    while ( myCollection->Next() ) chain->Add(myCollection->GetTURL("")) ;
1763    chain->ls();
1764    return chain;
1765 }
1766
1767 //______________________________________________________________________________
1768 Int_t SetupPar(char* pararchivename)
1769 {
1770    if (!pararchivename || !strlen(pararchivename)) return -1;
1771    char processline[1024];
1772    if (gSystem->AccessPathName(Form("%s.par", pararchivename))) {
1773       if (!gSystem->AccessPathName(Form("%s/%s.par", gSystem->Getenv("ALICE_ROOT"),pararchivename))) {
1774          ::Info("AnalysisTrainPWG4Jets.C::SetupPar", "Getting %s.par from $ALICE_ROOT", pararchivename);
1775         TFile::Cp(gSystem->ExpandPathName(Form("$ALICE_ROOT/%s.par", pararchivename)), 
1776                   Form("%s.par",pararchivename));
1777       } else {
1778          ::Error("AnalysisTrainPWG4Jets.C::SetupPar", "Cannot find %s.par", pararchivename);
1779          return -1;
1780       }   
1781    }
1782    if (kPluginUse && kSaveTrain) gSystem->Exec(Form("ln -s ../%s.par %s",pararchivename, kTrainName.Data()));
1783    gSystem->Exec(Form("tar xvzf %s.par", pararchivename));
1784
1785    TString ocwd = gSystem->WorkingDirectory();
1786    if (!gSystem->ChangeDirectory(pararchivename)) return -1;
1787         
1788    // check for BUILD.sh and execute
1789    if (!gSystem->AccessPathName("PROOF-INF/BUILD.sh")) {
1790       printf("*******************************\n");
1791       printf("*** Building PAR archive    ***\n");
1792       printf("*******************************\n");          
1793       if (gSystem->Exec("PROOF-INF/BUILD.sh")) {
1794          Error("runProcess","Cannot Build the PAR Archive! - Abort!");
1795          return -1;
1796       }
1797    }
1798
1799         // check for SETUP.C and execute
1800         if (!gSystem->AccessPathName("PROOF-INF/SETUP.C")) {
1801             printf("*******************************\n");
1802             printf("*** Setup PAR archive       ***\n");
1803             printf("*******************************\n");
1804             gROOT->Macro("PROOF-INF/SETUP.C");
1805         }       
1806         if (!gSystem->ChangeDirectory(ocwd.Data())){
1807           Error("Change back directory",Form("Cannot change to %s",ocwd.Data()));
1808           return -1;
1809         }
1810    return 0;
1811 }
1812
1813 //______________________________________________________________________________
1814 AliAnalysisAlien* CreateAlienHandler(const char *plugin_mode)
1815 {
1816 // Check if user has a valid token, otherwise make one. This has limitations.
1817 // One can always follow the standard procedure of calling alien-token-init then
1818 //   source /tmp/gclient_env_$UID in the current shell.
1819 //   if (!AliAnalysisGrid::CreateToken()) return NULL;
1820    AliAnalysisAlien *plugin = new AliAnalysisAlien();
1821 // Set the run mode (can be "full", "test", "offline", "submit" or "terminate")
1822    plugin->SetRunMode(plugin_mode);
1823    if (kPluginUseProductionMode) plugin->SetProductionMode();
1824    plugin->SetJobTag(kJobTag);
1825    plugin->SetNtestFiles(1);
1826 //   plugin->SetPreferedSE("ALICE::NIHAM::File");
1827 // Set versions of used packages
1828    plugin->SetAPIVersion("V1.1x");
1829    //   plugin->SetAPIVersion("V1.0x");
1830 //   plugin->SetAPIVersion("V2.4");
1831    plugin->SetROOTVersion(kPluginRootVersion);
1832    plugin->SetAliROOTVersion(kPluginAliRootVersion);
1833 // Declare input data to be processed.
1834 // Method 1: Create automatically XML collections using alien 'find' command.
1835 // Define production directory LFN
1836    plugin->SetGridDataDir(kGridDatadir.Data());
1837 // Set data search pattern
1838    if (iAODanalysis) plugin->SetDataPattern(" *AliAOD.Jets.root");
1839    //   else              plugin->SetDataPattern(Form(" %s/*/*ESD.tag.root",kGridPassPattern.Data()));
1840    else              plugin->SetDataPattern(Form(" %s/*/*AliESDs.root",kGridPassPattern.Data()));
1841 // ...then add run numbers to be considered
1842 //   plugin->SetRunRange(kGridRunRange[0], kGridRunRange[1]);
1843    for (Int_t i=kGridRunRange[0]; i<=kGridRunRange[1]; i++) {
1844      Printf("AnalysisTrainPWG4Jets Adding run number %s", Form(kGridRunPattern.Data(),i));
1845      plugin->AddRunNumber(Form(kGridRunPattern.Data(),i));
1846    }   
1847
1848    if(kGridLocalRunList.Length()>0){
1849      ifstream in1;
1850      in1.open(kGridLocalRunList.Data());
1851      int iRun;
1852      int icount = 0;
1853      /*
1854      char c;
1855      char cLine[250];
1856      while(!in1.eof()){
1857        c = in1.get();
1858        if ( (c >= '0') && (c <= '9') )
1859          {
1860            in1.putback (c)s;
1861            in1>>iRun;
1862            Printf("AnalysisTrainPWG4Jets Adding run number from File %s", Form(kGridRunPattern.Data(),iRun));
1863            plugin->AddRunNumber(Form(kGridRunPattern.Data(),iRun));
1864        }
1865      else
1866        {
1867          in1.putback (c);
1868          in1.getline(cLine,250);
1869
1870        }
1871      }
1872      */
1873      
1874      Int_t nRun = 0;
1875
1876      // just use run numbers, negatives will be excluded
1877      while(in1>>iRun){
1878        if(iRun>=0){
1879          if(iRun>=0&&nRun>=kGridOffsetRunFromList&&(nRun<kGridMaxRunsFromList)){
1880            Printf("AnalysisTrainPWG4Jets Adding run number from File %d: %s",nRun,Form(kGridRunPattern.Data(),iRun));
1881            plugin->AddRunNumber(Form(kGridRunPattern.Data(),iRun));
1882
1883          }
1884          else{
1885            Printf("AnalysisTrainPWG4Jets Skipping run number from File %d: %d",nRun, iRun);
1886          }
1887          nRun++;
1888        }
1889        else{
1890          Printf("AnalysisTrainPWG4Jets Skipping run number from File %d: %d",nRun, iRun);
1891        }
1892      }
1893    }
1894
1895 // Method 2: Declare existing data files (raw collections, xml collections, root file)
1896 // If no path mentioned data is supposed to be in the work directory (see SetGridWorkingDir())
1897 // XML collections added via this method can be combined with the first method if
1898 // the content is compatible (using or not tags)
1899 //   plugin->AddDataFile("tag.xml");
1900 //   plugin->AddDataFile("/alice/data/2008/LHC08c/000057657/raw/Run57657.Merged.RAW.tag.root");
1901 // Define alien work directory where all files will be copied. Relative to alien $HOME.
1902    TString alien_workdir = "";
1903    
1904    if (iAODanalysis)  alien_workdir += "analysisAOD";
1905    else               alien_workdir += "analysisESD";    
1906    if(kGridDataSet.Length()>0)alien_workdir += Form("/%s",kGridDataSet.Data());
1907    plugin->SetGridWorkingDir(alien_workdir.Data());
1908
1909    // Declare alien output directory. Relative to working directory.
1910    if (!kGridOutdir.Length()) kGridOutdir = Form("output_%s",kTrainName.Data());
1911    plugin->SetGridOutputDir(kGridOutdir);
1912
1913    // Add external packages
1914    if (iJETAN||iDIJETAN) {
1915       plugin->AddExternalPackage("boost::v1_43_0");
1916       plugin->AddExternalPackage("cgal::v3.6");
1917       plugin->AddExternalPackage("fastjet::v2.4.2");
1918    }   
1919
1920
1921    // set extra libs before par file compilation
1922    anaLibs += kGridExtraFiles;
1923    anaLibs     = anaLibs.Strip();   
1924    Printf("anaLibs %s",anaLibs.Data());
1925    Printf("anaLibsExtra %s",anaLibsExtra.Data());
1926
1927    if (anaLibs.Length())          plugin->SetAdditionalLibs(anaLibs.Data());
1928    if (anaLibsExtra.Length())     plugin->SetAdditionalRootLibs(anaLibsExtra.Data());
1929
1930    TString ana_sources = "";
1931    TString ana_add = "";
1932    if (kUsePAR && anaPars.Length()) {
1933       printf("%s\n", anaPars.Data());
1934       TObjArray *arr;
1935       TObjString *objstr;
1936       arr = anaPars.Tokenize(" ");
1937       TIter next(arr);
1938       while ((objstr=(TObjString*)next())) plugin->EnablePackage(objstr->GetString());
1939       delete arr;
1940    } 
1941    
1942 // Declare the analysis source files names separated by blancs. To be compiled runtime
1943 // using ACLiC on the worker nodes.
1944    ana_sources = anaSources.Strip();
1945 // Declare all libraries (other than the default ones for the framework. These will be
1946 // loaded by the generated analysis macro. Add all extra files (task .cxx/.h) here.
1947
1948    if (ana_sources.Length()) plugin->SetAnalysisSource(ana_sources);
1949    plugin->SetExecutableCommand(kPluginExecutableCommand.Data());  
1950    // Declare the output file names separated by blancs.
1951    // (can be like: file.root or file.root@ALICE::Niham::File)
1952    plugin->SetMergeExcludes(kGridMergeExclude);
1953    plugin->SetMaxMergeFiles(kGridMaxMergeFiles);
1954    plugin->SetNrunsPerMaster(kGridRunsPerMaster);
1955    plugin->SetMergeViaJDL(kPluginMergeViaJDL);
1956    // Use fastread option
1957    plugin->SetFastReadOption(kPluginFastReadOption);
1958    // UseOverwrite mode
1959    plugin->SetOverwriteMode(kPluginOverwriteMode); 
1960    // Optionally define the files to be archived.
1961    //   plugin->SetOutputArchive("log_archive.zip:stdout,stderr@ALICE::NIHAM::File root_archive.zip:AliAOD.root,AOD.tag.root@ALICE::NIHAM::File");
1962    plugin->SetOutputToRunNo(kPluginOutputToRunNumber);     // write the output to subdirs named after run number
1963    
1964    // Put default output files to archive
1965    TString listhists = "";
1966    TString listaods  = "";
1967    AliAnalysisManager *mgr = AliAnalysisManager::GetAnalysisManager();
1968    TIter next(mgr->GetOutputs());
1969    AliAnalysisDataContainer *output;
1970    while ((output=(AliAnalysisDataContainer*)next())) {
1971       const char *filename = output->GetFileName();
1972       if (!(strcmp(filename, "default"))) {
1973         if (!mgr->GetOutputEventHandler()) continue;
1974          filename = mgr->GetOutputEventHandler()->GetOutputFileName();
1975          if (listaods.Length()) listaods += " ";
1976          listaods += filename;
1977       } else {
1978         if(!listhists.Contains(filename)){
1979           if (listhists.Length()) listhists += " ";
1980           listhists += filename;
1981         }
1982       }
1983    }
1984
1985    if (mgr->GetExtraFiles().Length()) {
1986      if (listaods.Length()) listaods += " ";
1987      listaods += mgr->GetExtraFiles();
1988    }
1989
1990    // if we do not fill the aod we do not need to store it
1991    //   kGridMergeExclude = listaods;
1992    
1993    if(kSaveAOD>=0){
1994      TString outputFiles =  "";
1995      outputFiles += mgr->GetExtraFiles();
1996      if (listhists.Length()) outputFiles += " ";
1997      outputFiles += listhists;
1998      plugin->SetDefaultOutputs(kFALSE);
1999      Printf("%s:%d Starting with the files %s",(char*)__FILE__,__LINE__,outputFiles.Data());
2000      // remove
2001      // no harm done when we try to remove something that is not there :)
2002      if(!(kSaveAOD&(1<<0))){
2003        outputFiles.ReplaceAll("AliAOD.root ","");
2004        listaods.ReplaceAll("AliAOD.root ","");
2005      }
2006      if(!(kSaveAOD&(1<<1))){
2007        if(kDeltaAODJetName.Length())outputFiles.ReplaceAll(kDeltaAODJetName.Data(),"");
2008        if(kDeltaAODJetName.Length())listaods.ReplaceAll(kDeltaAODJetName.Data(),"");
2009        
2010      }
2011      if(!(kSaveAOD&(1<<2))){
2012        if(kDeltaAODPartCorrName.Length())outputFiles.ReplaceAll(kDeltaAODPartCorrName.Data(),"");
2013        if(kDeltaAODPartCorrName.Length())listaods.ReplaceAll(kDeltaAODPartCorrName.Data(),"");
2014      }
2015      if(!(kSaveAOD&(1<<3))){
2016        if(kDeltaAODJCORRANName.Length())outputFiles.ReplaceAll(kDeltaAODJCORRANName.Data(),"");
2017        if(kDeltaAODJCORRANName.Length())listaods.ReplaceAll(kDeltaAODJCORRANName.Data(),"");
2018      }
2019      
2020      // 
2021      plugin->SetDefaultOutputs(kFALSE);
2022      Printf("%s:%d Saving the files %s",(char*)__FILE__,__LINE__,outputFiles.Data());
2023      plugin->SetOutputFiles(outputFiles.Data());
2024    }
2025
2026    TString outputArchive;
2027    outputArchive = Form("log_archive.zip:std*@%s","disk=1");
2028    listaods.ReplaceAll(" ", ",");
2029    listhists.ReplaceAll(" ", ",");
2030    if (listhists.Length()){
2031      outputArchive += " ";
2032      outputArchive += "root_archive.zip:";
2033      outputArchive += listhists;
2034      if (listaods.Length()){
2035        outputArchive += ",";
2036        outputArchive += listaods;
2037      }
2038      outputArchive += Form("@%s", kGridOutputStorages.Data());
2039    }
2040    else{
2041      
2042      if (listaods.Length()){
2043        // we have only aod'ish output
2044        outputArchive += " ";
2045        outputArchive += "root_archive.zip:";
2046        outputArchive += listaods;
2047        outputArchive += Form("@%s", kGridOutputStorages.Data());
2048      }
2049      else{
2050        // no other outputs than std..
2051       ::Fatal("AnalysisTrainPWG4Jets", "No task output !");
2052      }
2053    }
2054
2055    plugin->SetDefaultOutputs(kFALSE);
2056    plugin->SetOutputArchive(outputArchive);
2057
2058
2059    // Optionally set a name for the generated analysis macro (default MyAnalysis.C)
2060    plugin->SetAnalysisMacro(Form("%s.C", kTrainName.Data()));
2061    // Optionally set maximum number of input files/subjob (default 100, put 0 to ignore)
2062    plugin->SetSplitMaxInputFileNumber(kGridFilesPerJob);
2063    // Optionally set number of failed jobs that will trigger killing waiting sub-jobs.
2064    //   plugin->SetMaxInitFailed(5);
2065    // Optionally resubmit threshold.
2066    // plugin->SetMasterResubmitThreshold(90);
2067    // Optionally set time to live (default 30000 sec)
2068    plugin->SetTTL(54000); // 15h...
2069    // Optionally set input format (default xml-single)
2070    plugin->SetInputFormat("xml-single");
2071    // Optionally modify the name of the generated JDL (default analysis.jdl)
2072    plugin->SetJDLName(Form("%s.jdl", kTrainName.Data()));
2073    // Optionally modify the executable name (default analysis.sh)
2074    plugin->SetExecutable(Form("%s.sh", kTrainName.Data()));
2075    // Optionally modify job price (default 1)
2076    plugin->SetPrice(1);      
2077    // Optionally modify split mode (default 'se')    
2078    plugin->SetSplitMode("se");
2079    return plugin;
2080 }
2081
2082 //______________________________________________________________________________
2083 void WriteConfig()
2084 {
2085 // Write train configuration in a file. The file name has the format:
2086 // train_[trainName]_ddMonthyyyy_time.C
2087    if (kUseDate) {
2088       gSystem->Exec("date +%d%b%Y_%Hh%M > date.tmp");
2089       ifstream fdate("date.tmp");
2090       if (!fdate.is_open()) {
2091          ::Error("AnalysisTrainPWG4Jets.C::Export","Could not generate file name");
2092          return;
2093       }
2094       const char date[64];
2095       fdate.getline(date,64);
2096       fdate.close();
2097       gSystem->Exec("rm date.tmp");
2098       kTrainName = Form("train_%s_%s", kTrainName.Data(), date);
2099    } else {
2100       kTrainName = Form("train_%s", kTrainName.Data());
2101    }   
2102    TString cdir = gSystem->WorkingDirectory();
2103    gSystem->MakeDirectory(kTrainName);
2104    gSystem->ChangeDirectory(kTrainName);
2105    ofstream out;
2106    out.open(Form("%sConfig.C",kTrainName.Data()), ios::out); 
2107    if (out.bad()) {
2108       ::Error("AnalysisTrainPWG4Jets.C::Export", "Cannot open ConfigTrain.C for writing");
2109       return;
2110    }
2111    out << "{" << endl;
2112    out << "   kTrainName      = " << "\"" << kTrainName.Data() << "\";" << endl;
2113    out << "   kProofCluster   = " << "\"" << kProofCluster.Data() << "\";" << endl;
2114    out << "   kProofUseAFPAR        = " << kProofUseAFPAR << ";" << endl;
2115    if (kProofUseAFPAR) 
2116       out << "   kProofAFversion       = " << kProofAFversion.Data() << ";" << endl;
2117    out << "   kProofDataSet   = " << "\"" << kProofDataSet.Data() << "\";" << endl;
2118    out << "   kPluginUse       = " << kPluginUse << ";" << endl;
2119    out << "   kUsePAR          = " << kUsePAR << ";" << endl;
2120    out << "   kUseCPAR         = " << kUseCPAR << ";" << endl;
2121    out << "   kPluginRootVersion    = " << "\"" << kPluginRootVersion.Data() << "\";" << endl;
2122    out << "   kPluginAliRootVersion = " << "\"" << kPluginAliRootVersion.Data() << "\";" << endl;
2123    out << "   kGridDatadir   = " << "\"" << kGridDatadir.Data() << "\";" << endl;
2124    if (!kGridOutdir.Length()) kGridOutdir = Form("output_%s",kTrainName.Data());
2125    out << "   kGridOutdir    = " << "\"" << kGridOutdir.Data() << "\";" << endl;
2126    out << "   kGridMaxMergeFiles   = " << kGridMaxMergeFiles << ";" << endl;
2127    out << "   kGridMergeExclude    = " << "\"" << kGridMergeExclude.Data() << "\";" << endl;
2128    out << "   kGridRunsPerMaster  = " << kGridRunsPerMaster << ";" << endl;
2129    out << "   kGridFilesPerJob    = " << kGridFilesPerJob << ";" << endl;
2130    out << "   kGridRunRange[0]    = " << kGridRunRange[0] << ";" << endl;
2131    out << "   kGridRunRange[1]    = " << kGridRunRange[1] << ";" << endl;
2132    out << "   kUseDebug          = " << kUseDebug << ";" << endl;
2133    out << "   kUseMC           = " << kUseMC << ";" << endl;
2134    out << "   kUseESDTags         = " << kUseESDTags << ";" << endl;
2135    out << "   kUseKinefilter      = " << kUseKinefilter << ";" << endl;
2136    out << "   kUseTR           = " << kUseTR << ";" << endl;
2137    out << "   kUseAODTags      = " << kUseAODTags << ";" << endl;
2138    out << "   kSaveTrain       = " << "kFALSE;" << endl << endl;
2139    out << "   // Analysis modules" << endl;
2140    out << "   iAODanalysis    = " << iAODanalysis << ";" << endl;
2141    out << "   iAODhandler     = " << iAODhandler << ";" << endl;
2142    out << "   iESDfilter      = " << iESDfilter << ";" << endl;
2143    out << "   iJETAN          = " << iJETAN << ";" << endl;
2144    out << "// Configuration fot the wagons" << endl;
2145    out << "}" << endl;
2146    ::Info("AnalysisTrainPWG4Jets.C::WriteConfig", "Train configuration wrote to file %s", Form("config_%s.C", kTrainName.Data()));
2147    gSystem->ChangeDirectory(cdir);
2148 }   
2149
2150 //______________________________________________________________________________
2151 Bool_t LoadConfig(const char *filename)
2152 {
2153 // Read train configuration from file
2154    if (gSystem->AccessPathName(filename)) {
2155       ::Error("AnalysisTrainPWG4Jets.C::LoadConfig", "Config file name not found");
2156       return kFALSE;
2157    }   
2158    gROOT->ProcessLine(Form(".x %s", filename));
2159    ::Info("AnalysisTrainPWG4Jets.C::LoadConfig", "Train configuration loaded from file %s", filename);
2160    return kTRUE;
2161 }
2162
2163 Bool_t PatchJDL(){
2164   Printf(">>> Patching JDL");
2165   AliAnalysisManager *mgr = AliAnalysisManager::GetAnalysisManager();
2166   AliAnalysisAlien*    gridHandler = (AliAnalysisAlien*)mgr->GetGridHandler();
2167   TGridJDL *jdl = gridHandler->GetGridJDL();
2168   if(iJETAN)jdl->AddToPackages("fastjet","v2.4.0");
2169   gridHandler->WriteJDL(kFALSE);
2170   Printf("<<<  Patching JDL");
2171   return kTRUE;
2172 }
2173
2174 Bool_t PatchAnalysisMacro(){
2175   Printf(">>> Patching AnalysisMacro");
2176   gSystem->Exec(Form("mv %s.C %s.C_tmp",kTrainName.Data(),kTrainName.Data()));
2177
2178   ifstream in1; 
2179   in1.open(Form("%s.C_tmp", kTrainName.Data()));
2180   char cLine[250];
2181   TString st;
2182   while(in1.getline(cLine,250)){
2183     st += cLine;
2184     st += "\n";
2185   }
2186   Int_t index= -1;
2187   index = st.Index("gSystem->Load(\"libPhysics\");");
2188   index += strlen("gSystem->Load(\"libPhysics\");");
2189   /*
2190     TObjArray *arr;
2191     TObjString *objstr;
2192     arr = anaLibs.Tokenize(" ");
2193     TIter next(arr);
2194
2195     add += "\n\n // added by CKB \n";
2196     while ((objstr=(TObjString*)next())){
2197       if(objstr->GetString().Contains("PWG3"))continue;
2198       if(objstr->GetString().EndsWith(".so"))add += Form("gSystem->Load(\"%s\");\n",objstr->GetString().Data());
2199     }
2200     delete arr; 
2201     */
2202     //    add += Form("AliLog::SetGlobalLogLevel(%d);\n",AliLog::GetGlobalLogLevel());
2203   TString add = "";
2204
2205   if(index<0)Printf("%s:%d index out of bounds",(char*)__FILE__,__LINE__);
2206   add += "\n\n // added by CKB \n";
2207   if(kErrorIgnoreLevel>0)add += Form("gErrorIgnoreLevel = %d;\n",kErrorIgnoreLevel);
2208   add += "\n gSystem->AddIncludePath(\"./\"); \n";
2209   add += "\n gSystem->SetFPEMask(); \n";
2210
2211
2212   if(gGrid&&kPluginAliRootVersion.Length()==0){
2213     /*
2214     add += "\n // Dirty hack for TRD reference data \n";
2215     add += "\n gSystem->Setenv(\"ALICE_ROOT\",\"";
2216     add += Form("alien://%s/rootfiles/",gGrid->GetHomeDirectory());
2217     add += "\"); \n";
2218     */
2219   }
2220
2221   add += "// BKC \n\n";
2222   st.Insert(index,add.Data());
2223
2224   if(kUseDebug){
2225     //    st.Insert(index,"\n gROOT->ProcessLine(\".trace\"); // CKB \n");
2226   }
2227
2228   if(kUseCPAR&&kPluginAliRootVersion.Length()==0){
2229     index = st.Index("gSystem->AddIncludePath(\"-I$"); // uncommen $ALICE_ROOT include for par files
2230     if(index<0)Printf("%s:%d index out of bounds",(char*)__FILE__,__LINE__);
2231     st.Insert(index,"// CKB comment out whehn no aliroot is provided \n //");
2232   }
2233
2234   if(AliLog::GetGlobalLogLevel()==AliLog::kFatal){
2235     index = st.Index("AliLog::SetGlobal"); // ncomment setting of log level, do my own
2236     if(index<0)Printf("%s:%d index out of bounds",(char*)__FILE__,__LINE__);
2237     st.Insert(index,"AliLog::SetGlobalLogLevel(AliLog::kFatal);// CKB \n  // CKB comment out for own setting \n  //");
2238   }
2239
2240   ofstream out;
2241   out.open(Form("%s.C", kTrainName.Data()));
2242   if (out.bad()) {
2243     return kFALSE;
2244   }
2245   out << st << endl;
2246   Printf("<<< Patching AnalysisMacro");
2247
2248
2249
2250
2251
2252   Printf(">>> Patching Merge Macro");
2253   gSystem->Exec(Form("mv %s_merge.C %s_merge.C_tmp",kTrainName.Data(),kTrainName.Data()));
2254
2255   ifstream in2; 
2256   in2.open(Form("%s_merge.C_tmp", kTrainName.Data()));
2257   TString st2;
2258   while(in2.getline(cLine,250)){
2259     st2 += cLine;
2260     st2 += "\n";
2261   }
2262   index = st2.Index("gSystem->Load(\"libPhysics\");");
2263   index += strlen("gSystem->Load(\"libPhysics\");");
2264   TString add2 = "";
2265   add2 += "\n gSystem->AddIncludePath(\"./\"); \n";
2266   if(gGrid&&kPluginAliRootVersion.Length()==0){
2267     /*
2268     add2 += "\n // Dirty hack for TRD reference data \n";
2269     add2 += "\n gSystem->Setenv(\"ALICE_ROOT\",\"";
2270     add2 += Form("alien://%s/rootfiles/",gGrid->GetHomeDirectory());
2271     add2 += "\"); \n";
2272     */
2273   }
2274   add2 += "// BKC \n\n";
2275   if(index<0)Printf("%s:%d index out of bounds",(char*)__FILE__,__LINE__);
2276   st2.Insert(index,add.Data());
2277
2278
2279   if(kUseDebug){
2280     //    st2.Insert(index,"\n gROOT->ProcessLine(\".trace\"); // CKB \n");
2281   }
2282
2283   if(kUseCPAR&&kPluginAliRootVersion.Length()==0){
2284     index = st2.Index("gSystem->AddIncludePath(\"-I$"); // uncomment $ALICE_ROOT include for par files
2285     if(index<0)Printf("%s:%d index out of bounds",(char*)__FILE__,__LINE__);
2286     st2.Insert(index,"// CKB comment out whehn no aliroot is provided \n //");
2287   }
2288
2289   // do not exclude the extra files from merign, this is done explicitly in this train script
2290   //  index = st2.Index("mergeExcludes +="); // uncommen $ALICE_ROOT include for par files
2291   //  if(index<0)Printf("%s:%d index out of bounds",(char*)__FILE__,__LINE__);
2292   // st2.Insert(index,"// CKB comment out, handled explicitly by the train macro \n //");
2293
2294
2295   ofstream out2;
2296   out2.open(Form("%s_merge.C", kTrainName.Data()));
2297   if (out2.bad()) {
2298     return kFALSE;
2299   }
2300   out2 << st2 << endl;
2301   Printf("<<< Patching Merging Macro");
2302
2303
2304
2305   return kTRUE;
2306
2307 }