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c57f56b7 | 1 | /************************************************************************** |
2 | * Copyright(c) 1998-2007, ALICE Experiment at CERN, All rights reserved. * | |
3 | * * | |
4 | * Author: The ALICE Off-line Project. * | |
5 | * Contributors are mentioned in the code where appropriate. * | |
6 | * * | |
7 | * Permission to use, copy, modify and distribute this software and its * | |
8 | * documentation strictly for non-commercial purposes is hereby granted * | |
9 | * without fee, provided that the above copyright notice appears in all * | |
10 | * copies and that both the copyright notice and this permission notice * | |
11 | * appear in the supporting documentation. The authors make no claims * | |
12 | * about the suitability of this software for any purpose. It is * | |
13 | * provided "as is" without express or implied warranty. * | |
14 | **************************************************************************/ | |
15 | ||
16 | // Author: Mihaela Gheata, 01/09/2008 | |
17 | ||
18 | //============================================================================== | |
19 | // AliAnalysisAlien - AliEn utility class. Provides interface for creating | |
20 | // a personalized JDL, finding and creating a dataset. | |
21 | //============================================================================== | |
22 | ||
65eb22f8 | 23 | #include "AliAnalysisAlien.h" |
24 | ||
c57f56b7 | 25 | #include "Riostream.h" |
0f389141 | 26 | #include "TEnv.h" |
105631b5 | 27 | #include "TKey.h" |
7c2cd90a | 28 | #include "TBits.h" |
0f389141 | 29 | #include "TError.h" |
c57f56b7 | 30 | #include "TROOT.h" |
31 | #include "TSystem.h" | |
32 | #include "TFile.h" | |
830acc4c | 33 | #include "TFileCollection.h" |
3bdcb562 | 34 | #include "TChain.h" |
c57f56b7 | 35 | #include "TObjString.h" |
36 | #include "TObjArray.h" | |
77f34eae | 37 | #include "TMacro.h" |
c57f56b7 | 38 | #include "TGrid.h" |
39 | #include "TGridResult.h" | |
40 | #include "TGridCollection.h" | |
41 | #include "TGridJDL.h" | |
d2a409b2 | 42 | #include "TGridJobStatusList.h" |
43 | #include "TGridJobStatus.h" | |
c57f56b7 | 44 | #include "TFileMerger.h" |
45 | #include "AliAnalysisManager.h" | |
77f34eae | 46 | #include "AliAnalysisTaskCfg.h" |
bb885a9e | 47 | #include "AliVEventHandler.h" |
48 | #include "AliAnalysisDataContainer.h" | |
65eb22f8 | 49 | #include "AliMultiInputEventHandler.h" |
c57f56b7 | 50 | |
51 | ClassImp(AliAnalysisAlien) | |
6c395669 | 52 | #if 0 |
53 | ; | |
54 | #endif | |
c57f56b7 | 55 | |
6c395669 | 56 | namespace { |
57 | Bool_t copyLocal2Alien(const char* where, const char* loc, const char* rem) | |
58 | { | |
59 | TString sl(Form("file:%s", loc)); | |
60 | TString sr(Form("alien://%s", rem)); | |
61 | Bool_t ret = TFile::Cp(sl, sr); | |
62 | if (!ret) { | |
63 | Warning(where, "Failed to copy %s to %s", sl.Data(), sr.Data()); | |
64 | } | |
65 | return ret; | |
66 | } | |
67 | } | |
68 | ||
c57f56b7 | 69 | //______________________________________________________________________________ |
70 | AliAnalysisAlien::AliAnalysisAlien() | |
71 | :AliAnalysisGrid(), | |
72 | fGridJDL(NULL), | |
0f389141 | 73 | fMergingJDL(NULL), |
c57f56b7 | 74 | fPrice(0), |
75 | fTTL(0), | |
76 | fSplitMaxInputFileNumber(0), | |
77 | fMaxInitFailed(0), | |
78 | fMasterResubmitThreshold(0), | |
bb885a9e | 79 | fNtestFiles(0), |
319593fb | 80 | fNrunsPerMaster(0), |
16a4353c | 81 | fMaxMergeFiles(0), |
b3e07543 | 82 | fMaxMergeStages(0), |
d2a409b2 | 83 | fNsubmitted(0), |
a3e84053 | 84 | fProductionMode(0), |
cd11251e | 85 | fOutputToRunNo(0), |
0f389141 | 86 | fMergeViaJDL(0), |
87 | fFastReadOption(0), | |
e1c22e21 | 88 | fOverwriteMode(1), |
149d288c | 89 | fNreplicas(2), |
3bdcb562 | 90 | fNproofWorkers(0), |
27734f0e | 91 | fNproofWorkersPerSlave(0), |
3bdcb562 | 92 | fProofReset(0), |
c57f56b7 | 93 | fRunNumbers(), |
94 | fExecutable(), | |
0a1c1f7f | 95 | fExecutableCommand(), |
c57f56b7 | 96 | fArguments(), |
631c0b05 | 97 | fExecutableArgs(), |
c57f56b7 | 98 | fAnalysisMacro(), |
99 | fAnalysisSource(), | |
d3b18c4c | 100 | fValidationScript(), |
d5c6455a | 101 | fAdditionalRootLibs(), |
c57f56b7 | 102 | fAdditionalLibs(), |
103 | fSplitMode(), | |
104 | fAPIVersion(), | |
105 | fROOTVersion(), | |
106 | fAliROOTVersion(), | |
648174cf | 107 | fExternalPackages(), |
c57f56b7 | 108 | fUser(), |
109 | fGridWorkingDir(), | |
110 | fGridDataDir(), | |
111 | fDataPattern(), | |
112 | fGridOutputDir(), | |
113 | fOutputArchive(), | |
114 | fOutputFiles(), | |
115 | fInputFormat(), | |
e7c71df0 | 116 | fDatasetName(), |
c57f56b7 | 117 | fJDLName(), |
d3b18c4c | 118 | fTerminateFiles(), |
bb885a9e | 119 | fMergeExcludes(), |
37d21c01 | 120 | fRegisterExcludes(), |
f965131e | 121 | fIncludePath(), |
bb885a9e | 122 | fCloseSE(), |
0df6ccf2 | 123 | fFriendChainName(), |
c6cb3634 | 124 | fJobTag(), |
648174cf | 125 | fOutputSingle(), |
5fce53f4 | 126 | fRunPrefix(), |
3bdcb562 | 127 | fProofCluster(), |
128 | fProofDataSet(), | |
129 | fFileForTestMode(), | |
130 | fRootVersionForProof(), | |
131 | fAliRootMode(), | |
f47d5cb4 | 132 | fMergeDirName(), |
4e5c5506 | 133 | fInputFiles(0), |
28ce6c9c | 134 | fPackages(0), |
77f34eae | 135 | fModules(0), |
28ce6c9c | 136 | fProofParam() |
c57f56b7 | 137 | { |
138 | // Dummy ctor. | |
139 | SetDefaults(); | |
140 | } | |
141 | ||
142 | //______________________________________________________________________________ | |
143 | AliAnalysisAlien::AliAnalysisAlien(const char *name) | |
144 | :AliAnalysisGrid(name), | |
145 | fGridJDL(NULL), | |
0f389141 | 146 | fMergingJDL(NULL), |
c57f56b7 | 147 | fPrice(0), |
148 | fTTL(0), | |
149 | fSplitMaxInputFileNumber(0), | |
150 | fMaxInitFailed(0), | |
151 | fMasterResubmitThreshold(0), | |
bb885a9e | 152 | fNtestFiles(0), |
319593fb | 153 | fNrunsPerMaster(0), |
16a4353c | 154 | fMaxMergeFiles(0), |
b3e07543 | 155 | fMaxMergeStages(0), |
d2a409b2 | 156 | fNsubmitted(0), |
a3e84053 | 157 | fProductionMode(0), |
cd11251e | 158 | fOutputToRunNo(0), |
0f389141 | 159 | fMergeViaJDL(0), |
160 | fFastReadOption(0), | |
e1c22e21 | 161 | fOverwriteMode(1), |
149d288c | 162 | fNreplicas(2), |
3bdcb562 | 163 | fNproofWorkers(0), |
27734f0e | 164 | fNproofWorkersPerSlave(0), |
3bdcb562 | 165 | fProofReset(0), |
c57f56b7 | 166 | fRunNumbers(), |
167 | fExecutable(), | |
0a1c1f7f | 168 | fExecutableCommand(), |
c57f56b7 | 169 | fArguments(), |
631c0b05 | 170 | fExecutableArgs(), |
c57f56b7 | 171 | fAnalysisMacro(), |
172 | fAnalysisSource(), | |
d3b18c4c | 173 | fValidationScript(), |
d5c6455a | 174 | fAdditionalRootLibs(), |
c57f56b7 | 175 | fAdditionalLibs(), |
176 | fSplitMode(), | |
177 | fAPIVersion(), | |
178 | fROOTVersion(), | |
179 | fAliROOTVersion(), | |
648174cf | 180 | fExternalPackages(), |
c57f56b7 | 181 | fUser(), |
182 | fGridWorkingDir(), | |
183 | fGridDataDir(), | |
184 | fDataPattern(), | |
185 | fGridOutputDir(), | |
186 | fOutputArchive(), | |
187 | fOutputFiles(), | |
188 | fInputFormat(), | |
e7c71df0 | 189 | fDatasetName(), |
c57f56b7 | 190 | fJDLName(), |
d3b18c4c | 191 | fTerminateFiles(), |
bb885a9e | 192 | fMergeExcludes(), |
37d21c01 | 193 | fRegisterExcludes(), |
f965131e | 194 | fIncludePath(), |
bb885a9e | 195 | fCloseSE(), |
0df6ccf2 | 196 | fFriendChainName(), |
c6cb3634 | 197 | fJobTag(), |
648174cf | 198 | fOutputSingle(), |
5fce53f4 | 199 | fRunPrefix(), |
3bdcb562 | 200 | fProofCluster(), |
201 | fProofDataSet(), | |
202 | fFileForTestMode(), | |
203 | fRootVersionForProof(), | |
204 | fAliRootMode(), | |
f47d5cb4 | 205 | fMergeDirName(), |
4e5c5506 | 206 | fInputFiles(0), |
28ce6c9c | 207 | fPackages(0), |
77f34eae | 208 | fModules(0), |
28ce6c9c | 209 | fProofParam() |
c57f56b7 | 210 | { |
211 | // Default ctor. | |
212 | SetDefaults(); | |
213 | } | |
214 | ||
215 | //______________________________________________________________________________ | |
216 | AliAnalysisAlien::AliAnalysisAlien(const AliAnalysisAlien& other) | |
217 | :AliAnalysisGrid(other), | |
218 | fGridJDL(NULL), | |
0f389141 | 219 | fMergingJDL(NULL), |
c57f56b7 | 220 | fPrice(other.fPrice), |
221 | fTTL(other.fTTL), | |
222 | fSplitMaxInputFileNumber(other.fSplitMaxInputFileNumber), | |
223 | fMaxInitFailed(other.fMaxInitFailed), | |
224 | fMasterResubmitThreshold(other.fMasterResubmitThreshold), | |
bb885a9e | 225 | fNtestFiles(other.fNtestFiles), |
319593fb | 226 | fNrunsPerMaster(other.fNrunsPerMaster), |
16a4353c | 227 | fMaxMergeFiles(other.fMaxMergeFiles), |
b3e07543 | 228 | fMaxMergeStages(other.fMaxMergeStages), |
d2a409b2 | 229 | fNsubmitted(other.fNsubmitted), |
a3e84053 | 230 | fProductionMode(other.fProductionMode), |
cd11251e | 231 | fOutputToRunNo(other.fOutputToRunNo), |
0f389141 | 232 | fMergeViaJDL(other.fMergeViaJDL), |
233 | fFastReadOption(other.fFastReadOption), | |
234 | fOverwriteMode(other.fOverwriteMode), | |
149d288c | 235 | fNreplicas(other.fNreplicas), |
3bdcb562 | 236 | fNproofWorkers(other.fNproofWorkers), |
27734f0e | 237 | fNproofWorkersPerSlave(other.fNproofWorkersPerSlave), |
3bdcb562 | 238 | fProofReset(other.fProofReset), |
c57f56b7 | 239 | fRunNumbers(other.fRunNumbers), |
240 | fExecutable(other.fExecutable), | |
0a1c1f7f | 241 | fExecutableCommand(other.fExecutableCommand), |
c57f56b7 | 242 | fArguments(other.fArguments), |
631c0b05 | 243 | fExecutableArgs(other.fExecutableArgs), |
c57f56b7 | 244 | fAnalysisMacro(other.fAnalysisMacro), |
245 | fAnalysisSource(other.fAnalysisSource), | |
d3b18c4c | 246 | fValidationScript(other.fValidationScript), |
d5c6455a | 247 | fAdditionalRootLibs(other.fAdditionalRootLibs), |
c57f56b7 | 248 | fAdditionalLibs(other.fAdditionalLibs), |
249 | fSplitMode(other.fSplitMode), | |
250 | fAPIVersion(other.fAPIVersion), | |
251 | fROOTVersion(other.fROOTVersion), | |
252 | fAliROOTVersion(other.fAliROOTVersion), | |
648174cf | 253 | fExternalPackages(other.fExternalPackages), |
c57f56b7 | 254 | fUser(other.fUser), |
255 | fGridWorkingDir(other.fGridWorkingDir), | |
256 | fGridDataDir(other.fGridDataDir), | |
257 | fDataPattern(other.fDataPattern), | |
258 | fGridOutputDir(other.fGridOutputDir), | |
259 | fOutputArchive(other.fOutputArchive), | |
260 | fOutputFiles(other.fOutputFiles), | |
261 | fInputFormat(other.fInputFormat), | |
e7c71df0 | 262 | fDatasetName(other.fDatasetName), |
c57f56b7 | 263 | fJDLName(other.fJDLName), |
d3b18c4c | 264 | fTerminateFiles(other.fTerminateFiles), |
bb885a9e | 265 | fMergeExcludes(other.fMergeExcludes), |
37d21c01 | 266 | fRegisterExcludes(other.fRegisterExcludes), |
f965131e | 267 | fIncludePath(other.fIncludePath), |
bb885a9e | 268 | fCloseSE(other.fCloseSE), |
0df6ccf2 | 269 | fFriendChainName(other.fFriendChainName), |
c6cb3634 | 270 | fJobTag(other.fJobTag), |
648174cf | 271 | fOutputSingle(other.fOutputSingle), |
5fce53f4 | 272 | fRunPrefix(other.fRunPrefix), |
3bdcb562 | 273 | fProofCluster(other.fProofCluster), |
274 | fProofDataSet(other.fProofDataSet), | |
275 | fFileForTestMode(other.fFileForTestMode), | |
276 | fRootVersionForProof(other.fRootVersionForProof), | |
277 | fAliRootMode(other.fAliRootMode), | |
f47d5cb4 | 278 | fMergeDirName(other.fMergeDirName), |
4e5c5506 | 279 | fInputFiles(0), |
28ce6c9c | 280 | fPackages(0), |
77f34eae | 281 | fModules(0), |
28ce6c9c | 282 | fProofParam() |
c57f56b7 | 283 | { |
284 | // Copy ctor. | |
285 | fGridJDL = (TGridJDL*)gROOT->ProcessLine("new TAlienJDL()"); | |
0f389141 | 286 | fMergingJDL = (TGridJDL*)gROOT->ProcessLine("new TAlienJDL()"); |
a8739e8a | 287 | fRunRange[0] = other.fRunRange[0]; |
288 | fRunRange[1] = other.fRunRange[1]; | |
c57f56b7 | 289 | if (other.fInputFiles) { |
290 | fInputFiles = new TObjArray(); | |
291 | TIter next(other.fInputFiles); | |
292 | TObject *obj; | |
293 | while ((obj=next())) fInputFiles->Add(new TObjString(obj->GetName())); | |
294 | fInputFiles->SetOwner(); | |
295 | } | |
4e5c5506 | 296 | if (other.fPackages) { |
297 | fPackages = new TObjArray(); | |
298 | TIter next(other.fPackages); | |
299 | TObject *obj; | |
300 | while ((obj=next())) fPackages->Add(new TObjString(obj->GetName())); | |
301 | fPackages->SetOwner(); | |
302 | } | |
77f34eae | 303 | if (other.fModules) { |
304 | fModules = new TObjArray(); | |
305 | fModules->SetOwner(); | |
306 | TIter next(other.fModules); | |
307 | AliAnalysisTaskCfg *mod, *crt; | |
308 | while ((crt=(AliAnalysisTaskCfg*)next())) { | |
309 | mod = new AliAnalysisTaskCfg(*crt); | |
310 | fModules->Add(mod); | |
311 | } | |
312 | } | |
c57f56b7 | 313 | } |
314 | ||
315 | //______________________________________________________________________________ | |
316 | AliAnalysisAlien::~AliAnalysisAlien() | |
317 | { | |
318 | // Destructor. | |
77f34eae | 319 | delete fGridJDL; |
320 | delete fMergingJDL; | |
321 | delete fInputFiles; | |
322 | delete fPackages; | |
323 | delete fModules; | |
28ce6c9c | 324 | fProofParam.DeleteAll(); |
c57f56b7 | 325 | } |
326 | ||
327 | //______________________________________________________________________________ | |
328 | AliAnalysisAlien &AliAnalysisAlien::operator=(const AliAnalysisAlien& other) | |
329 | { | |
330 | // Assignment. | |
331 | if (this != &other) { | |
332 | AliAnalysisGrid::operator=(other); | |
333 | fGridJDL = (TGridJDL*)gROOT->ProcessLine("new TAlienJDL()"); | |
0f389141 | 334 | fMergingJDL = (TGridJDL*)gROOT->ProcessLine("new TAlienJDL()"); |
c57f56b7 | 335 | fPrice = other.fPrice; |
336 | fTTL = other.fTTL; | |
337 | fSplitMaxInputFileNumber = other.fSplitMaxInputFileNumber; | |
338 | fMaxInitFailed = other.fMaxInitFailed; | |
339 | fMasterResubmitThreshold = other.fMasterResubmitThreshold; | |
bb885a9e | 340 | fNtestFiles = other.fNtestFiles; |
a3e84053 | 341 | fNrunsPerMaster = other.fNrunsPerMaster; |
342 | fMaxMergeFiles = other.fMaxMergeFiles; | |
b3e07543 | 343 | fMaxMergeStages = other.fMaxMergeStages; |
a3e84053 | 344 | fNsubmitted = other.fNsubmitted; |
345 | fProductionMode = other.fProductionMode; | |
cd11251e | 346 | fOutputToRunNo = other.fOutputToRunNo; |
0f389141 | 347 | fMergeViaJDL = other.fMergeViaJDL; |
348 | fFastReadOption = other.fFastReadOption; | |
349 | fOverwriteMode = other.fOverwriteMode; | |
149d288c | 350 | fNreplicas = other.fNreplicas; |
3bdcb562 | 351 | fNproofWorkers = other.fNproofWorkers; |
27734f0e | 352 | fNproofWorkersPerSlave = other.fNproofWorkersPerSlave; |
3bdcb562 | 353 | fProofReset = other.fProofReset; |
c57f56b7 | 354 | fRunNumbers = other.fRunNumbers; |
355 | fExecutable = other.fExecutable; | |
0a1c1f7f | 356 | fExecutableCommand = other.fExecutableCommand; |
c57f56b7 | 357 | fArguments = other.fArguments; |
631c0b05 | 358 | fExecutableArgs = other.fExecutableArgs; |
c57f56b7 | 359 | fAnalysisMacro = other.fAnalysisMacro; |
360 | fAnalysisSource = other.fAnalysisSource; | |
d3b18c4c | 361 | fValidationScript = other.fValidationScript; |
d5c6455a | 362 | fAdditionalRootLibs = other.fAdditionalRootLibs; |
c57f56b7 | 363 | fAdditionalLibs = other.fAdditionalLibs; |
364 | fSplitMode = other.fSplitMode; | |
365 | fAPIVersion = other.fAPIVersion; | |
366 | fROOTVersion = other.fROOTVersion; | |
367 | fAliROOTVersion = other.fAliROOTVersion; | |
648174cf | 368 | fExternalPackages = other.fExternalPackages; |
c57f56b7 | 369 | fUser = other.fUser; |
370 | fGridWorkingDir = other.fGridWorkingDir; | |
371 | fGridDataDir = other.fGridDataDir; | |
372 | fDataPattern = other.fDataPattern; | |
373 | fGridOutputDir = other.fGridOutputDir; | |
374 | fOutputArchive = other.fOutputArchive; | |
375 | fOutputFiles = other.fOutputFiles; | |
376 | fInputFormat = other.fInputFormat; | |
e7c71df0 | 377 | fDatasetName = other.fDatasetName; |
c57f56b7 | 378 | fJDLName = other.fJDLName; |
d3b18c4c | 379 | fTerminateFiles = other.fTerminateFiles; |
bb885a9e | 380 | fMergeExcludes = other.fMergeExcludes; |
37d21c01 | 381 | fRegisterExcludes = other.fRegisterExcludes; |
f965131e | 382 | fIncludePath = other.fIncludePath; |
bb885a9e | 383 | fCloseSE = other.fCloseSE; |
0df6ccf2 | 384 | fFriendChainName = other.fFriendChainName; |
c6cb3634 | 385 | fJobTag = other.fJobTag; |
648174cf | 386 | fOutputSingle = other.fOutputSingle; |
5fce53f4 | 387 | fRunPrefix = other.fRunPrefix; |
3bdcb562 | 388 | fProofCluster = other.fProofCluster; |
389 | fProofDataSet = other.fProofDataSet; | |
390 | fFileForTestMode = other.fFileForTestMode; | |
391 | fRootVersionForProof = other.fRootVersionForProof; | |
392 | fAliRootMode = other.fAliRootMode; | |
f47d5cb4 | 393 | fMergeDirName = other.fMergeDirName; |
c57f56b7 | 394 | if (other.fInputFiles) { |
395 | fInputFiles = new TObjArray(); | |
396 | TIter next(other.fInputFiles); | |
397 | TObject *obj; | |
398 | while ((obj=next())) fInputFiles->Add(new TObjString(obj->GetName())); | |
399 | fInputFiles->SetOwner(); | |
400 | } | |
4e5c5506 | 401 | if (other.fPackages) { |
402 | fPackages = new TObjArray(); | |
403 | TIter next(other.fPackages); | |
404 | TObject *obj; | |
405 | while ((obj=next())) fPackages->Add(new TObjString(obj->GetName())); | |
406 | fPackages->SetOwner(); | |
407 | } | |
77f34eae | 408 | if (other.fModules) { |
409 | fModules = new TObjArray(); | |
410 | fModules->SetOwner(); | |
411 | TIter next(other.fModules); | |
412 | AliAnalysisTaskCfg *mod, *crt; | |
413 | while ((crt=(AliAnalysisTaskCfg*)next())) { | |
414 | mod = new AliAnalysisTaskCfg(*crt); | |
415 | fModules->Add(mod); | |
416 | } | |
417 | } | |
c57f56b7 | 418 | } |
419 | return *this; | |
420 | } | |
421 | ||
37d21c01 | 422 | //______________________________________________________________________________ |
423 | void AliAnalysisAlien::AddAdditionalLibrary(const char *name) | |
424 | { | |
425 | // Add a single additional library to be loaded. Extension must be present. | |
426 | TString lib(name); | |
427 | if (!lib.Contains(".")) { | |
428 | Error("AddAdditionalLibrary", "Extension not defined for %s", name); | |
429 | return; | |
430 | } | |
431 | if (fAdditionalLibs.Contains(name)) { | |
432 | Warning("AddAdditionalLibrary", "Library %s already added.", name); | |
433 | return; | |
434 | } | |
435 | if (!fAdditionalLibs.IsNull()) fAdditionalLibs += " "; | |
436 | fAdditionalLibs += lib; | |
437 | } | |
438 | ||
77f34eae | 439 | //______________________________________________________________________________ |
440 | void AliAnalysisAlien::AddModule(AliAnalysisTaskCfg *module) | |
441 | { | |
442 | // Adding a module. Checks if already existing. Becomes owned by this. | |
443 | if (!module) return; | |
444 | if (GetModule(module->GetName())) { | |
445 | Error("AddModule", "A module having the same name %s already added", module->GetName()); | |
446 | return; | |
447 | } | |
448 | if (!fModules) { | |
449 | fModules = new TObjArray(); | |
450 | fModules->SetOwner(); | |
451 | } | |
452 | fModules->Add(module); | |
453 | } | |
454 | ||
455 | //______________________________________________________________________________ | |
456 | void AliAnalysisAlien::AddModules(TObjArray *list) | |
457 | { | |
458 | // Adding a list of modules. Checks if already existing. Becomes owned by this. | |
459 | TIter next(list); | |
460 | AliAnalysisTaskCfg *module; | |
461 | while ((module = (AliAnalysisTaskCfg*)next())) AddModule(module); | |
462 | } | |
463 | ||
464 | //______________________________________________________________________________ | |
465 | Bool_t AliAnalysisAlien::CheckDependencies() | |
466 | { | |
467 | // Check if all dependencies are satisfied. Reorder modules if needed. | |
468 | Int_t nmodules = GetNmodules(); | |
469 | if (!nmodules) { | |
470 | Warning("CheckDependencies", "No modules added yet to check their dependencies"); | |
471 | return kTRUE; | |
472 | } | |
473 | AliAnalysisTaskCfg *mod = 0; | |
474 | AliAnalysisTaskCfg *dep = 0; | |
475 | TString depname; | |
476 | Int_t i, j, k; | |
477 | for (i=0; i<nmodules; i++) { | |
478 | mod = (AliAnalysisTaskCfg*) fModules->At(i); | |
479 | Int_t ndeps = mod->GetNdeps(); | |
480 | Int_t istart = i; | |
481 | for (j=0; j<ndeps; j++) { | |
482 | depname = mod->GetDependency(j); | |
483 | dep = GetModule(depname); | |
484 | if (!dep) { | |
485 | Error("CheckDependencies","Dependency %s not added for module %s", | |
486 | depname.Data(), mod->GetName()); | |
487 | return kFALSE; | |
488 | } | |
489 | if (dep->NeedsDependency(mod->GetName())) { | |
490 | Error("CheckDependencies","Modules %s and %s circularly depend on each other", | |
491 | mod->GetName(), dep->GetName()); | |
492 | return kFALSE; | |
493 | } | |
494 | Int_t idep = fModules->IndexOf(dep); | |
495 | // The dependency task must come first | |
496 | if (idep>i) { | |
497 | // Remove at idep and move all objects below up one slot | |
498 | // down to index i included. | |
499 | fModules->RemoveAt(idep); | |
3e40fd4c | 500 | for (k=idep-1; k>=i; k--) fModules->AddAt(fModules->RemoveAt(k),k+1); |
77f34eae | 501 | fModules->AddAt(dep, i++); |
502 | } | |
503 | //Redo from istart if dependencies were inserted | |
504 | if (i>istart) i=istart-1; | |
505 | } | |
506 | } | |
507 | return kTRUE; | |
508 | } | |
509 | ||
3e40fd4c | 510 | //______________________________________________________________________________ |
511 | AliAnalysisManager *AliAnalysisAlien::CreateAnalysisManager(const char *name, const char *filename) | |
512 | { | |
513 | // Create the analysis manager and optionally execute the macro in filename. | |
514 | AliAnalysisManager *mgr = AliAnalysisManager::GetAnalysisManager(); | |
515 | if (mgr) return mgr; | |
516 | mgr = new AliAnalysisManager(name); | |
517 | mgr->SetGridHandler((AliAnalysisGrid*)this); | |
518 | if (strlen(filename)) { | |
519 | TString line = gSystem->ExpandPathName(filename); | |
520 | line.Prepend(".x "); | |
521 | gROOT->ProcessLine(line.Data()); | |
522 | } | |
523 | return mgr; | |
524 | } | |
525 | ||
77f34eae | 526 | //______________________________________________________________________________ |
527 | Int_t AliAnalysisAlien::GetNmodules() const | |
528 | { | |
529 | // Get number of modules. | |
530 | if (!fModules) return 0; | |
531 | return fModules->GetEntries(); | |
532 | } | |
533 | ||
534 | //______________________________________________________________________________ | |
535 | AliAnalysisTaskCfg *AliAnalysisAlien::GetModule(const char *name) | |
536 | { | |
537 | // Get a module by name. | |
538 | if (!fModules) return 0; | |
539 | return (AliAnalysisTaskCfg*)fModules->FindObject(name); | |
540 | } | |
541 | ||
542 | //______________________________________________________________________________ | |
543 | Bool_t AliAnalysisAlien::LoadModule(AliAnalysisTaskCfg *mod) | |
544 | { | |
545 | // Load a given module. | |
546 | if (mod->IsLoaded()) return kTRUE; | |
547 | Int_t ndeps = mod->GetNdeps(); | |
548 | TString depname; | |
549 | for (Int_t j=0; j<ndeps; j++) { | |
550 | depname = mod->GetDependency(j); | |
551 | AliAnalysisTaskCfg *dep = GetModule(depname); | |
552 | if (!dep) { | |
553 | Error("LoadModule","Dependency %s not existing for module %s", | |
554 | depname.Data(), mod->GetName()); | |
555 | return kFALSE; | |
556 | } | |
557 | if (!LoadModule(dep)) { | |
558 | Error("LoadModule","Dependency %s for module %s could not be loaded", | |
559 | depname.Data(), mod->GetName()); | |
560 | return kFALSE; | |
561 | } | |
562 | } | |
563 | // Load libraries for the module | |
564 | if (!mod->CheckLoadLibraries()) { | |
565 | Error("LoadModule", "Cannot load all libraries for module %s", mod->GetName()); | |
566 | return kFALSE; | |
567 | } | |
568 | // Execute the macro | |
569 | if (mod->ExecuteMacro()<0) { | |
570 | Error("LoadModule", "Executing the macro %s with arguments: %s for module %s returned a negative value", | |
571 | mod->GetMacroName(), mod->GetMacroArgs(), mod->GetName()); | |
572 | return kFALSE; | |
573 | } | |
574 | // Configure dependencies | |
575 | if (mod->GetConfigMacro() && mod->ExecuteConfigMacro()<0) { | |
576 | Error("LoadModule", "There was an error executing the deps config macro %s for module %s", | |
577 | mod->GetConfigMacro()->GetTitle(), mod->GetName()); | |
578 | return kFALSE; | |
579 | } | |
5e8c7c22 | 580 | // Adjust extra libraries |
581 | Int_t nlibs = mod->GetNlibs(); | |
582 | TString lib; | |
583 | for (Int_t i=0; i<nlibs; i++) { | |
584 | lib = mod->GetLibrary(i); | |
585 | if (fAdditionalLibs.Contains(lib)) continue; | |
586 | lib = Form("lib%s.so", lib.Data()); | |
587 | if (!fAdditionalLibs.IsNull()) fAdditionalLibs += " "; | |
588 | fAdditionalLibs += lib; | |
589 | } | |
77f34eae | 590 | return kTRUE; |
591 | } | |
592 | ||
139fe6ba | 593 | //______________________________________________________________________________ |
594 | Bool_t AliAnalysisAlien::GenerateTrain(const char *name) | |
595 | { | |
596 | // Generate the full train. | |
597 | fAdditionalLibs = ""; | |
598 | if (!LoadModules()) return kFALSE; | |
599 | AliAnalysisManager *mgr = AliAnalysisManager::GetAnalysisManager(); | |
600 | if (!mgr->InitAnalysis()) return kFALSE; | |
d512d8e2 | 601 | mgr->RunLocalInit(); |
139fe6ba | 602 | mgr->PrintStatus(); |
603 | Int_t productionMode = fProductionMode; | |
604 | SetProductionMode(); | |
605 | TString macro = fAnalysisMacro; | |
606 | TString executable = fExecutable; | |
607 | TString validation = fValidationScript; | |
608 | TString execCommand = fExecutableCommand; | |
609 | SetAnalysisMacro(Form("%s.C", name)); | |
610 | SetExecutable(Form("%s.sh", name)); | |
611 | SetExecutableCommand("aliroot -b -q "); | |
612 | SetValidationScript(Form("%s_validation.sh", name)); | |
613 | StartAnalysis(); | |
614 | SetProductionMode(productionMode); | |
615 | fAnalysisMacro = macro; | |
616 | fExecutable = executable; | |
617 | fExecutableCommand = execCommand; | |
618 | fValidationScript = validation; | |
619 | return kTRUE; | |
620 | } | |
621 | ||
77f34eae | 622 | //______________________________________________________________________________ |
21ca8e59 | 623 | Bool_t AliAnalysisAlien::GenerateTest(const char *name, const char *modname) |
77f34eae | 624 | { |
625 | // Generate test macros for a single module or for the full train. | |
5e8c7c22 | 626 | fAdditionalLibs = ""; |
77f34eae | 627 | if (strlen(modname)) { |
21ca8e59 | 628 | if (!CheckDependencies()) return kFALSE; |
629 | AliAnalysisTaskCfg *mod = GetModule(modname); | |
630 | if (!mod) { | |
631 | Error("GenerateTest", "cannot generate test for inexistent module %s", modname); | |
632 | return kFALSE; | |
633 | } | |
634 | if (!LoadModule(mod)) return kFALSE; | |
635 | } else if (!LoadModules()) return kFALSE; | |
636 | AliAnalysisManager *mgr = AliAnalysisManager::GetAnalysisManager(); | |
637 | if (!mgr->InitAnalysis()) return kFALSE; | |
d512d8e2 | 638 | mgr->RunLocalInit(); |
21ca8e59 | 639 | mgr->PrintStatus(); |
640 | SetLocalTest(kTRUE); | |
641 | Int_t productionMode = fProductionMode; | |
642 | SetProductionMode(); | |
643 | TString macro = fAnalysisMacro; | |
644 | TString executable = fExecutable; | |
645 | TString validation = fValidationScript; | |
646 | TString execCommand = fExecutableCommand; | |
647 | SetAnalysisMacro(Form("%s.C", name)); | |
648 | SetExecutable(Form("%s.sh", name)); | |
649 | SetExecutableCommand("aliroot -b -q "); | |
650 | SetValidationScript(Form("%s_validation.sh", name)); | |
651 | WriteAnalysisFile(); | |
652 | WriteAnalysisMacro(); | |
653 | WriteExecutable(); | |
654 | WriteValidationScript(); | |
655 | SetLocalTest(kFALSE); | |
656 | SetProductionMode(productionMode); | |
657 | fAnalysisMacro = macro; | |
658 | fExecutable = executable; | |
659 | fExecutableCommand = execCommand; | |
660 | fValidationScript = validation; | |
77f34eae | 661 | return kTRUE; |
662 | } | |
663 | ||
664 | //______________________________________________________________________________ | |
665 | Bool_t AliAnalysisAlien::LoadModules() | |
666 | { | |
667 | // Load all modules by executing the AddTask macros. Checks first the dependencies. | |
5e8c7c22 | 668 | fAdditionalLibs = ""; |
21ca8e59 | 669 | Int_t nmodules = GetNmodules(); |
670 | if (!nmodules) { | |
671 | Warning("LoadModules", "No module to be loaded"); | |
672 | return kTRUE; | |
673 | } | |
3e40fd4c | 674 | AliAnalysisManager *mgr = AliAnalysisManager::GetAnalysisManager(); |
675 | if (!mgr) { | |
676 | Error("LoadModules", "No analysis manager created yet. Use CreateAnalysisManager first."); | |
677 | return kFALSE; | |
678 | } | |
77f34eae | 679 | if (!CheckDependencies()) return kFALSE; |
21ca8e59 | 680 | nmodules = GetNmodules(); |
77f34eae | 681 | AliAnalysisTaskCfg *mod; |
21ca8e59 | 682 | for (Int_t imod=0; imod<nmodules; imod++) { |
683 | mod = (AliAnalysisTaskCfg*)fModules->At(imod); | |
77f34eae | 684 | if (!LoadModule(mod)) return kFALSE; |
685 | } | |
77f34eae | 686 | return kTRUE; |
687 | } | |
688 | ||
74013535 | 689 | //______________________________________________________________________________ |
690 | void AliAnalysisAlien::SetRunPrefix(const char *prefix) | |
691 | { | |
692 | // Set the run number format. Can be a prefix or a format like "%09d" | |
693 | fRunPrefix = prefix; | |
694 | if (!fRunPrefix.Contains("%")) fRunPrefix += "%d"; | |
695 | } | |
696 | ||
f965131e | 697 | //______________________________________________________________________________ |
698 | void AliAnalysisAlien::AddIncludePath(const char *path) | |
699 | { | |
700 | // Add include path in the remote analysis macro. | |
701 | TString p(path); | |
702 | if (p.Contains("-I")) fIncludePath += Form("%s ", path); | |
703 | else fIncludePath += Form("-I%s ", path); | |
704 | } | |
705 | ||
c57f56b7 | 706 | //______________________________________________________________________________ |
707 | void AliAnalysisAlien::AddRunNumber(Int_t run) | |
708 | { | |
709 | // Add a run number to the list of runs to be processed. | |
710 | if (fRunNumbers.Length()) fRunNumbers += " "; | |
74013535 | 711 | fRunNumbers += Form(fRunPrefix.Data(), run); |
c57f56b7 | 712 | } |
713 | ||
98690895 | 714 | //______________________________________________________________________________ |
715 | void AliAnalysisAlien::AddRunList(const char* runList) | |
716 | { | |
717 | // Add several runs into the list of runs; they are expected to be separated by a blank character. | |
718 | TString sList = runList; | |
719 | TObjArray *list = sList.Tokenize(" "); | |
720 | Int_t n = list->GetEntries(); | |
721 | for (Int_t i = 0; i < n; i++) { | |
722 | TObjString *os = (TObjString*)list->At(i); | |
723 | AddRunNumber(os->GetString().Atoi()); | |
724 | } | |
725 | delete list; | |
726 | } | |
727 | ||
ee75cfc3 | 728 | //______________________________________________________________________________ |
729 | void AliAnalysisAlien::AddRunNumber(const char* run) | |
730 | { | |
731 | // Add a run number to the list of runs to be processed. | |
7aa5d539 | 732 | TString runs = run; |
733 | TObjString *os; | |
734 | TObjArray *arr = runs.Tokenize(" "); | |
735 | TIter next(arr); | |
736 | TString prefix; | |
737 | prefix.Append(fRunPrefix, fRunPrefix.Index("%d")); | |
738 | while ((os=(TObjString*)next())){ | |
739 | if (fRunNumbers.Length()) fRunNumbers += " "; | |
740 | fRunNumbers += Form("%s%s", prefix.Data(), os->GetString().Data()); | |
741 | } | |
742 | delete arr; | |
ee75cfc3 | 743 | } |
744 | ||
c57f56b7 | 745 | //______________________________________________________________________________ |
746 | void AliAnalysisAlien::AddDataFile(const char *lfn) | |
747 | { | |
748 | // Adds a data file to the input to be analysed. The file should be a valid LFN | |
749 | // or point to an existing file in the alien workdir. | |
750 | if (!fInputFiles) fInputFiles = new TObjArray(); | |
751 | fInputFiles->Add(new TObjString(lfn)); | |
752 | } | |
648174cf | 753 | |
754 | //______________________________________________________________________________ | |
755 | void AliAnalysisAlien::AddExternalPackage(const char *package) | |
756 | { | |
757 | // Adds external packages w.r.t to the default ones (root,aliroot and gapi) | |
758 | if (fExternalPackages) fExternalPackages += " "; | |
759 | fExternalPackages += package; | |
760 | } | |
761 | ||
c57f56b7 | 762 | //______________________________________________________________________________ |
763 | Bool_t AliAnalysisAlien::Connect() | |
764 | { | |
765 | // Try to connect to AliEn. User needs a valid token and /tmp/gclient_env_$UID sourced. | |
766 | if (gGrid && gGrid->IsConnected()) return kTRUE; | |
d3b18c4c | 767 | if (fProductionMode) return kTRUE; |
c57f56b7 | 768 | if (!gGrid) { |
769 | Info("Connect", "Trying to connect to AliEn ..."); | |
770 | TGrid::Connect("alien://"); | |
771 | } | |
772 | if (!gGrid || !gGrid->IsConnected()) { | |
773 | Error("Connect", "Did not managed to connect to AliEn. Make sure you have a valid token."); | |
774 | return kFALSE; | |
775 | } | |
776 | fUser = gGrid->GetUser(); | |
777 | Info("Connect", "\n##### Connected to AliEn as user %s. Setting analysis user to <%s>", fUser.Data(), fUser.Data()); | |
778 | return kTRUE; | |
779 | } | |
780 | ||
781 | //______________________________________________________________________________ | |
782 | void AliAnalysisAlien::CdWork() | |
783 | { | |
784 | // Check validity of alien workspace. Create directory if possible. | |
785 | if (!Connect()) { | |
786 | Error("CdWork", "Alien connection required"); | |
787 | return; | |
788 | } | |
789 | TString homedir = gGrid->GetHomeDirectory(); | |
790 | TString workdir = homedir + fGridWorkingDir; | |
923e2ca5 | 791 | if (DirectoryExists(workdir)) { |
792 | gGrid->Cd(workdir); | |
793 | return; | |
794 | } | |
795 | // Work directory not existing - create it | |
796 | gGrid->Cd(homedir); | |
b93f8109 | 797 | if (gGrid->Mkdir(workdir, "-p")) { |
923e2ca5 | 798 | gGrid->Cd(fGridWorkingDir); |
d3b18c4c | 799 | Info("CdWork", "\n##### Created alien working directory %s", fGridWorkingDir.Data()); |
923e2ca5 | 800 | } else { |
d3b18c4c | 801 | Warning("CdWork", "Working directory %s cannot be created.\n Using %s instead.", |
923e2ca5 | 802 | workdir.Data(), homedir.Data()); |
803 | fGridWorkingDir = ""; | |
804 | } | |
c57f56b7 | 805 | } |
806 | ||
348be253 | 807 | //______________________________________________________________________________ |
808 | Bool_t AliAnalysisAlien::CheckFileCopy(const char *alienpath) | |
809 | { | |
810 | // Check if file copying is possible. | |
d3b18c4c | 811 | if (fProductionMode) return kTRUE; |
348be253 | 812 | if (!Connect()) { |
813 | Error("CheckFileCopy", "Not connected to AliEn. File copying cannot be tested."); | |
814 | return kFALSE; | |
815 | } | |
d3339be3 | 816 | Info("CheckFileCopy", "Checking possibility to copy files to your AliEn home directory... \ |
817 | \n +++ NOTE: You can disable this via: plugin->SetCheckCopy(kFALSE);"); | |
348be253 | 818 | // Check if alien_CLOSE_SE is defined |
819 | TString closeSE = gSystem->Getenv("alien_CLOSE_SE"); | |
820 | if (!closeSE.IsNull()) { | |
821 | Info("CheckFileCopy", "Your current close storage is pointing to: \ | |
822 | \n alien_CLOSE_SE = \"%s\"", closeSE.Data()); | |
823 | } else { | |
824 | Warning("CheckFileCopy", "Your current close storage is empty ! Depending on your location, file copying may fail."); | |
825 | } | |
826 | // Check if grid directory exists. | |
827 | if (!DirectoryExists(alienpath)) { | |
828 | Error("CheckFileCopy", "Alien path %s does not seem to exist", alienpath); | |
829 | return kFALSE; | |
830 | } | |
d3339be3 | 831 | TFile f("plugin_test_copy", "RECREATE"); |
348be253 | 832 | // User may not have write permissions to current directory |
833 | if (f.IsZombie()) { | |
834 | Error("CheckFileCopy", "Cannot create local test file. Do you have write access to current directory: <%s> ?", | |
835 | gSystem->WorkingDirectory()); | |
836 | return kFALSE; | |
837 | } | |
838 | f.Close(); | |
d3339be3 | 839 | if (FileExists(Form("alien://%s/%s",alienpath, f.GetName()))) gGrid->Rm(Form("alien://%s/%s",alienpath, f.GetName())); |
840 | if (!TFile::Cp(f.GetName(), Form("alien://%s/%s",alienpath, f.GetName()))) { | |
841 | Error("CheckFileCopy", "Cannot copy files to Alien destination: <%s> This may be temporary, or: \ | |
348be253 | 842 | \n# 1. Make sure you have write permissions there. If this is the case: \ |
843 | \n# 2. Check the storage availability at: http://alimonitor.cern.ch/stats?page=SE/table \ | |
844 | \n# Do: export alien_CLOSE_SE=\"working_disk_SE\" \ | |
845 | \n# To make this permanent put in in your .bashrc (in .alienshrc is not enough) \ | |
846 | \n# Redo token: rm /tmp/x509up_u$UID then: alien-token-init <username>", alienpath); | |
847 | gSystem->Unlink(f.GetName()); | |
848 | return kFALSE; | |
849 | } | |
850 | gSystem->Unlink(f.GetName()); | |
d3339be3 | 851 | gGrid->Rm(Form("%s%s",alienpath,f.GetName())); |
852 | Info("CheckFileCopy", "### ...SUCCESS ###"); | |
348be253 | 853 | return kTRUE; |
854 | } | |
855 | ||
c57f56b7 | 856 | //______________________________________________________________________________ |
857 | Bool_t AliAnalysisAlien::CheckInputData() | |
858 | { | |
859 | // Check validity of input data. If necessary, create xml files. | |
d3b18c4c | 860 | if (fProductionMode) return kTRUE; |
a8739e8a | 861 | if (!fInputFiles && !fRunNumbers.Length() && !fRunRange[0]) { |
d2a409b2 | 862 | if (!fGridDataDir.Length()) { |
863 | Error("CkeckInputData", "AliEn path to base data directory must be set.\n = Use: SetGridDataDir()"); | |
864 | return kFALSE; | |
865 | } | |
9f020952 | 866 | if (fMergeViaJDL) { |
867 | Error("CheckInputData", "Merging via jdl works only with run numbers, run range or provided xml"); | |
868 | return kFALSE; | |
869 | } | |
d2a409b2 | 870 | Info("CheckInputData", "Analysis will make a single xml for base data directory %s",fGridDataDir.Data()); |
23329835 | 871 | if (fDataPattern.Contains("tag") && TestBit(AliAnalysisGrid::kTest)) |
872 | TObject::SetBit(AliAnalysisGrid::kUseTags, kTRUE); // ADDED (fix problem in determining the tag usage in test mode) | |
d2a409b2 | 873 | return kTRUE; |
c57f56b7 | 874 | } |
875 | // Process declared files | |
a2f5fc01 | 876 | Bool_t isCollection = kFALSE; |
877 | Bool_t isXml = kFALSE; | |
878 | Bool_t useTags = kFALSE; | |
c57f56b7 | 879 | Bool_t checked = kFALSE; |
d3b18c4c | 880 | if (!TestBit(AliAnalysisGrid::kTest)) CdWork(); |
c57f56b7 | 881 | TString file; |
882 | TString workdir = gGrid->GetHomeDirectory(); | |
883 | workdir += fGridWorkingDir; | |
884 | if (fInputFiles) { | |
885 | TObjString *objstr; | |
886 | TIter next(fInputFiles); | |
887 | while ((objstr=(TObjString*)next())) { | |
888 | file = workdir; | |
889 | file += "/"; | |
890 | file += objstr->GetString(); | |
891 | // Store full lfn path | |
892 | if (FileExists(file)) objstr->SetString(file); | |
893 | else { | |
894 | file = objstr->GetName(); | |
895 | if (!FileExists(objstr->GetName())) { | |
896 | Error("CheckInputData", "Data file %s not found or not in your working dir: %s", | |
897 | objstr->GetName(), workdir.Data()); | |
898 | return kFALSE; | |
899 | } | |
900 | } | |
901 | Bool_t iscoll, isxml, usetags; | |
902 | CheckDataType(file, iscoll, isxml, usetags); | |
903 | if (!checked) { | |
904 | checked = kTRUE; | |
a2f5fc01 | 905 | isCollection = iscoll; |
906 | isXml = isxml; | |
907 | useTags = usetags; | |
908 | TObject::SetBit(AliAnalysisGrid::kUseTags, useTags); | |
c57f56b7 | 909 | } else { |
a2f5fc01 | 910 | if ((iscoll != isCollection) || (isxml != isXml) || (usetags != useTags)) { |
c57f56b7 | 911 | Error("CheckInputData", "Some conflict was found in the types of inputs"); |
912 | return kFALSE; | |
913 | } | |
914 | } | |
915 | } | |
916 | } | |
917 | // Process requested run numbers | |
a8739e8a | 918 | if (!fRunNumbers.Length() && !fRunRange[0]) return kTRUE; |
c57f56b7 | 919 | // Check validity of alien data directory |
920 | if (!fGridDataDir.Length()) { | |
921 | Error("CkeckInputData", "AliEn path to base data directory must be set.\n = Use: SetGridDataDir()"); | |
922 | return kFALSE; | |
923 | } | |
923e2ca5 | 924 | if (!DirectoryExists(fGridDataDir)) { |
c57f56b7 | 925 | Error("CheckInputData", "Data directory %s not existing.", fGridDataDir.Data()); |
926 | return kFALSE; | |
927 | } | |
a2f5fc01 | 928 | if (isCollection) { |
c57f56b7 | 929 | Error("CheckInputData", "You are using raw AliEn collections as input. Cannot process run numbers."); |
930 | return kFALSE; | |
931 | } | |
932 | ||
a2f5fc01 | 933 | if (checked && !isXml) { |
c57f56b7 | 934 | Error("CheckInputData", "Cannot mix processing of full runs with non-xml files"); |
935 | return kFALSE; | |
936 | } | |
937 | // Check validity of run number(s) | |
938 | TObjArray *arr; | |
939 | TObjString *os; | |
74013535 | 940 | TString format; |
319593fb | 941 | Int_t nruns = 0; |
904f9f5f | 942 | TString schunk, schunk2; |
c57f56b7 | 943 | TString path; |
944 | if (!checked) { | |
945 | checked = kTRUE; | |
a2f5fc01 | 946 | useTags = fDataPattern.Contains("tag"); |
947 | TObject::SetBit(AliAnalysisGrid::kUseTags, useTags); | |
c57f56b7 | 948 | } |
a2f5fc01 | 949 | if (useTags != fDataPattern.Contains("tag")) { |
c57f56b7 | 950 | Error("CheckInputData", "Cannot mix input files using/not using tags"); |
951 | return kFALSE; | |
952 | } | |
953 | if (fRunNumbers.Length()) { | |
a8739e8a | 954 | Info("CheckDataType", "Using supplied run numbers (run ranges are ignored)"); |
c57f56b7 | 955 | arr = fRunNumbers.Tokenize(" "); |
956 | TIter next(arr); | |
957 | while ((os=(TObjString*)next())) { | |
958 | path = Form("%s/%s ", fGridDataDir.Data(), os->GetString().Data()); | |
923e2ca5 | 959 | if (!DirectoryExists(path)) { |
960 | Warning("CheckInputData", "Run number %s not found in path: <%s>", os->GetString().Data(), path.Data()); | |
a8739e8a | 961 | continue; |
c57f56b7 | 962 | } |
963 | path = Form("%s/%s.xml", workdir.Data(),os->GetString().Data()); | |
964 | TString msg = "\n##### file: "; | |
965 | msg += path; | |
966 | msg += " type: xml_collection;"; | |
a2f5fc01 | 967 | if (useTags) msg += " using_tags: Yes"; |
c57f56b7 | 968 | else msg += " using_tags: No"; |
23329835 | 969 | Info("CheckDataType", "%s", msg.Data()); |
319593fb | 970 | if (fNrunsPerMaster<2) { |
d2a409b2 | 971 | AddDataFile(Form("%s.xml", os->GetString().Data())); |
319593fb | 972 | } else { |
973 | nruns++; | |
974 | if (((nruns-1)%fNrunsPerMaster) == 0) { | |
975 | schunk = os->GetString(); | |
976 | } | |
977 | if ((nruns%fNrunsPerMaster)!=0 && os!=arr->Last()) continue; | |
978 | schunk += Form("_%s.xml", os->GetString().Data()); | |
d2a409b2 | 979 | AddDataFile(schunk); |
319593fb | 980 | } |
c57f56b7 | 981 | } |
982 | delete arr; | |
a8739e8a | 983 | } else { |
984 | Info("CheckDataType", "Using run range [%d, %d]", fRunRange[0], fRunRange[1]); | |
985 | for (Int_t irun=fRunRange[0]; irun<=fRunRange[1]; irun++) { | |
74013535 | 986 | format = Form("%%s/%s ", fRunPrefix.Data()); |
987 | path = Form(format.Data(), fGridDataDir.Data(), irun); | |
923e2ca5 | 988 | if (!DirectoryExists(path)) { |
a8739e8a | 989 | continue; |
990 | } | |
74013535 | 991 | format = Form("%%s/%s.xml", fRunPrefix.Data()); |
992 | path = Form(format.Data(), workdir.Data(),irun); | |
a8739e8a | 993 | TString msg = "\n##### file: "; |
994 | msg += path; | |
995 | msg += " type: xml_collection;"; | |
a2f5fc01 | 996 | if (useTags) msg += " using_tags: Yes"; |
a8739e8a | 997 | else msg += " using_tags: No"; |
23329835 | 998 | Info("CheckDataType", "%s", msg.Data()); |
319593fb | 999 | if (fNrunsPerMaster<2) { |
74013535 | 1000 | format = Form("%s.xml", fRunPrefix.Data()); |
1001 | AddDataFile(Form(format.Data(),irun)); | |
319593fb | 1002 | } else { |
1003 | nruns++; | |
1004 | if (((nruns-1)%fNrunsPerMaster) == 0) { | |
74013535 | 1005 | schunk = Form(fRunPrefix.Data(),irun); |
319593fb | 1006 | } |
74013535 | 1007 | format = Form("_%s.xml", fRunPrefix.Data()); |
1008 | schunk2 = Form(format.Data(), irun); | |
319593fb | 1009 | if ((nruns%fNrunsPerMaster)!=0 && irun != fRunRange[1]) continue; |
904f9f5f | 1010 | schunk += schunk2; |
d2a409b2 | 1011 | AddDataFile(schunk); |
319593fb | 1012 | } |
a8739e8a | 1013 | } |
904f9f5f | 1014 | if (!fInputFiles) { |
1015 | schunk += schunk2; | |
1016 | AddDataFile(schunk); | |
1017 | } | |
c57f56b7 | 1018 | } |
1019 | return kTRUE; | |
1020 | } | |
1021 | ||
21ca8e59 | 1022 | //______________________________________________________________________________ |
43b807f6 | 1023 | Bool_t AliAnalysisAlien::CopyLocalDataset(const char *griddir, const char *pattern, Int_t nfiles, const char *output, const char *archivefile, const char *outputdir) |
21ca8e59 | 1024 | { |
1025 | // Copy data from the given grid directory according a pattern and make a local | |
1026 | // dataset. | |
1027 | if (!Connect()) { | |
1028 | Error("CopyLocalDataset", "Cannot copy local dataset with no grid connection"); | |
1029 | return kFALSE; | |
1030 | } | |
1031 | if (!DirectoryExists(griddir)) { | |
1032 | Error("CopyLocalDataset", "Data directory %s not existing.", griddir); | |
1033 | return kFALSE; | |
1034 | } | |
1035 | TString command = Form("find -z -l %d %s %s", nfiles, griddir, pattern); | |
1036 | printf("Running command: %s\n", command.Data()); | |
1037 | TGridResult *res = gGrid->Command(command); | |
1038 | Int_t nfound = res->GetEntries(); | |
1039 | if (!nfound) { | |
1040 | Error("CopyLocalDataset", "No file found in <%s> having pattern <%s>", griddir, pattern); | |
1041 | return kFALSE; | |
1042 | } | |
1043 | printf("... found %d files. Copying locally ...\n", nfound); | |
1044 | // Copy files locally | |
1045 | ofstream out; | |
1046 | out.open(output, ios::out); | |
1047 | TMap *map; | |
1048 | TString turl, dirname, filename, temp; | |
1049 | TString cdir = gSystem->WorkingDirectory(); | |
139fe6ba | 1050 | gSystem->MakeDirectory(outputdir); |
1051 | gSystem->ChangeDirectory(outputdir); | |
21ca8e59 | 1052 | for (Int_t i=0; i<nfound; i++) { |
1053 | map = (TMap*)res->At(i); | |
1054 | turl = map->GetValue("turl")->GetName(); | |
1055 | filename = gSystem->BaseName(turl.Data()); | |
1056 | dirname = gSystem->DirName(turl.Data()); | |
1057 | dirname = gSystem->BaseName(dirname.Data()); | |
1058 | gSystem->MakeDirectory(dirname); | |
43b807f6 | 1059 | |
1060 | TString source(turl); | |
1061 | TString targetFileName(filename); | |
1062 | ||
1063 | if (strlen(archivefile) > 0) { | |
1064 | // TODO here the archive in which the file resides should be determined | |
1065 | // however whereis returns only a guid, and guid2lfn does not work | |
1066 | // Therefore we use the one provided as argument for now | |
1067 | source = Form("%s/%s", gSystem->DirName(source.Data()), archivefile); | |
1068 | targetFileName = archivefile; | |
1069 | } | |
1070 | if (TFile::Cp(source, Form("file:./%s/%s", dirname.Data(), targetFileName.Data()))) { | |
1071 | if (strlen(archivefile) > 0) targetFileName = Form("%s#%s", targetFileName.Data(), gSystem->BaseName(turl.Data())); | |
1072 | out << cdir << Form("/%s/%s/%s", outputdir, dirname.Data(), targetFileName.Data()) << endl; | |
21ca8e59 | 1073 | } |
1074 | } | |
1075 | gSystem->ChangeDirectory(cdir); | |
1076 | delete res; | |
1077 | return kTRUE; | |
1078 | } | |
1079 | ||
c57f56b7 | 1080 | //______________________________________________________________________________ |
1081 | Bool_t AliAnalysisAlien::CreateDataset(const char *pattern) | |
1082 | { | |
1083 | // Create dataset for the grid data directory + run number. | |
3af861ff | 1084 | const Int_t gMaxEntries = 15000; |
d3b18c4c | 1085 | if (fProductionMode || TestBit(AliAnalysisGrid::kOffline)) return kTRUE; |
c57f56b7 | 1086 | if (!Connect()) { |
1087 | Error("CreateDataset", "Cannot create dataset with no grid connection"); | |
1088 | return kFALSE; | |
1089 | } | |
1090 | ||
1091 | // Cd workspace | |
d3b18c4c | 1092 | if (!TestBit(AliAnalysisGrid::kTest)) CdWork(); |
c57f56b7 | 1093 | TString workdir = gGrid->GetHomeDirectory(); |
1094 | workdir += fGridWorkingDir; | |
1095 | ||
1096 | // Compose the 'find' command arguments | |
74013535 | 1097 | TString format; |
c57f56b7 | 1098 | TString command; |
1099 | TString options = "-x collection "; | |
bb885a9e | 1100 | if (TestBit(AliAnalysisGrid::kTest)) options += Form("-l %d ", fNtestFiles); |
3af861ff | 1101 | else options += Form("-l %d ", gMaxEntries); // Protection for the find command |
c57f56b7 | 1102 | TString conditions = ""; |
3af861ff | 1103 | Int_t nstart = 0; |
1104 | Int_t ncount = 0; | |
1105 | Int_t stage = 0; | |
c57f56b7 | 1106 | TString file; |
1107 | TString path; | |
319593fb | 1108 | Int_t nruns = 0; |
904f9f5f | 1109 | TString schunk, schunk2; |
ab254fd1 | 1110 | TGridCollection *cbase=0, *cadd=0; |
d2a409b2 | 1111 | if (!fRunNumbers.Length() && !fRunRange[0]) { |
1112 | if (fInputFiles && fInputFiles->GetEntries()) return kTRUE; | |
1113 | // Make a single data collection from data directory. | |
1114 | path = fGridDataDir; | |
923e2ca5 | 1115 | if (!DirectoryExists(path)) { |
d2a409b2 | 1116 | Error("CreateDataset", "Path to data directory %s not valid",fGridDataDir.Data()); |
1117 | return kFALSE; | |
1118 | } | |
923e2ca5 | 1119 | // CdWork(); |
d2a409b2 | 1120 | if (TestBit(AliAnalysisGrid::kTest)) file = "wn.xml"; |
1121 | else file = Form("%s.xml", gSystem->BaseName(path)); | |
3af861ff | 1122 | while (1) { |
1123 | ncount = 0; | |
1124 | stage++; | |
1125 | if (gSystem->AccessPathName(file) || TestBit(AliAnalysisGrid::kTest) || fOverwriteMode) { | |
1126 | command = "find "; | |
1127 | command += Form("%s -o %d ",options.Data(), nstart); | |
1128 | command += path; | |
1129 | command += " "; | |
1130 | command += pattern; | |
1131 | command += conditions; | |
1132 | printf("command: %s\n", command.Data()); | |
1133 | TGridResult *res = gGrid->Command(command); | |
1134 | if (res) delete res; | |
1135 | // Write standard output to file | |
1136 | gROOT->ProcessLine(Form("gGrid->Stdout(); > __tmp%d__%s", stage, file.Data())); | |
1137 | Bool_t hasGrep = (gSystem->Exec("grep --version 2>/dev/null > /dev/null")==0)?kTRUE:kFALSE; | |
1138 | Bool_t nullFile = kFALSE; | |
1139 | if (!hasGrep) { | |
1140 | Warning("CreateDataset", "'grep' command not available on this system - cannot validate the result of the grid 'find' command"); | |
1141 | } else { | |
1142 | nullFile = (gSystem->Exec(Form("grep -c /event __tmp%d__%s 2>/dev/null > __tmp__",stage,file.Data()))==0)?kFALSE:kTRUE; | |
1143 | if (nullFile) { | |
1144 | Error("CreateDataset","Dataset %s produced by the previous find command is empty !", file.Data()); | |
1145 | gSystem->Exec("rm -f __tmp*"); | |
1146 | return kFALSE; | |
1147 | } | |
1148 | TString line; | |
1149 | ifstream in; | |
1150 | in.open("__tmp__"); | |
1151 | in >> line; | |
1152 | in.close(); | |
1153 | gSystem->Exec("rm -f __tmp__"); | |
1154 | ncount = line.Atoi(); | |
1155 | } | |
1156 | } | |
1157 | if (ncount == gMaxEntries) { | |
1158 | Info("CreateDataset", "Dataset %s has more than 15K entries. Trying to merge...", file.Data()); | |
1159 | cadd = (TGridCollection*)gROOT->ProcessLine(Form("new TAlienCollection(\"__tmp%d__%s\", 1000000);",stage,file.Data())); | |
1160 | if (!cbase) cbase = cadd; | |
1161 | else { | |
1162 | cbase->Add(cadd); | |
1163 | delete cadd; | |
defd7a3a | 1164 | } |
3af861ff | 1165 | nstart += ncount; |
1166 | } else { | |
1167 | if (cbase) { | |
1168 | cadd = (TGridCollection*)gROOT->ProcessLine(Form("new TAlienCollection(\"__tmp%d__%s\", 1000000);",stage,file.Data())); | |
1169 | printf("... please wait - TAlienCollection::Add() scales badly...\n"); | |
1170 | cbase->Add(cadd); | |
1171 | delete cadd; | |
1172 | cbase->ExportXML(Form("file://%s", file.Data()),kFALSE,kFALSE, file, "Merged entries for a run"); | |
1173 | delete cbase; cbase = 0; | |
1174 | } else { | |
1175 | TFile::Cp(Form("__tmp%d__%s",stage, file.Data()), file.Data()); | |
1176 | } | |
1177 | gSystem->Exec("rm -f __tmp*"); | |
1178 | Info("CreateDataset", "Created dataset %s with %d files", file.Data(), nstart+ncount); | |
1179 | break; | |
1180 | } | |
0f389141 | 1181 | } |
1182 | Bool_t fileExists = FileExists(file); | |
1183 | if (!TestBit(AliAnalysisGrid::kTest) && (!fileExists || fOverwriteMode)) { | |
d2a409b2 | 1184 | // Copy xml file to alien space |
0f389141 | 1185 | if (fileExists) gGrid->Rm(file); |
d2a409b2 | 1186 | TFile::Cp(Form("file:%s",file.Data()), Form("alien://%s/%s",workdir.Data(), file.Data())); |
1187 | if (!FileExists(file)) { | |
1188 | Error("CreateDataset", "Command %s did NOT succeed", command.Data()); | |
1189 | return kFALSE; | |
1190 | } | |
1191 | // Update list of files to be processed. | |
1192 | } | |
1193 | AddDataFile(Form("%s/%s", workdir.Data(), file.Data())); | |
1194 | return kTRUE; | |
1195 | } | |
c57f56b7 | 1196 | // Several runs |
a2f5fc01 | 1197 | Bool_t nullResult = kTRUE; |
a8739e8a | 1198 | if (fRunNumbers.Length()) { |
1199 | TObjArray *arr = fRunNumbers.Tokenize(" "); | |
1200 | TObjString *os; | |
1201 | TIter next(arr); | |
1202 | while ((os=(TObjString*)next())) { | |
3af861ff | 1203 | nstart = 0; |
1204 | stage = 0; | |
dc030a24 | 1205 | path = Form("%s/%s/ ", fGridDataDir.Data(), os->GetString().Data()); |
923e2ca5 | 1206 | if (!DirectoryExists(path)) continue; |
1207 | // CdWork(); | |
a8739e8a | 1208 | if (TestBit(AliAnalysisGrid::kTest)) file = "wn.xml"; |
1209 | else file = Form("%s.xml", os->GetString().Data()); | |
319593fb | 1210 | // If local collection file does not exist, create it via 'find' command. |
3af861ff | 1211 | while (1) { |
1212 | ncount = 0; | |
1213 | stage++; | |
1214 | if (gSystem->AccessPathName(file) || TestBit(AliAnalysisGrid::kTest) || fOverwriteMode) { | |
1215 | command = "find "; | |
1216 | command += Form("%s -o %d ",options.Data(), nstart); | |
1217 | command += path; | |
1218 | command += pattern; | |
1219 | command += conditions; | |
1220 | TGridResult *res = gGrid->Command(command); | |
1221 | if (res) delete res; | |
1222 | // Write standard output to file | |
1223 | gROOT->ProcessLine(Form("gGrid->Stdout(); > __tmp%d__%s", stage,file.Data())); | |
1224 | Bool_t hasGrep = (gSystem->Exec("grep --version 2>/dev/null > /dev/null")==0)?kTRUE:kFALSE; | |
1225 | Bool_t nullFile = kFALSE; | |
1226 | if (!hasGrep) { | |
1227 | Warning("CreateDataset", "'grep' command not available on this system - cannot validate the result of the grid 'find' command"); | |
1228 | } else { | |
1229 | nullFile = (gSystem->Exec(Form("grep -c /event __tmp%d__%s 2>/dev/null > __tmp__",stage,file.Data()))==0)?kFALSE:kTRUE; | |
1230 | if (nullFile) { | |
1231 | Warning("CreateDataset","Dataset %s produced by: <%s> is empty !", file.Data(), command.Data()); | |
1232 | gSystem->Exec("rm -f __tmp*"); | |
1233 | fRunNumbers.ReplaceAll(os->GetString().Data(), ""); | |
1604c9ed | 1234 | break; |
3af861ff | 1235 | } |
1236 | TString line; | |
1237 | ifstream in; | |
1238 | in.open("__tmp__"); | |
1239 | in >> line; | |
1240 | in.close(); | |
1241 | gSystem->Exec("rm -f __tmp__"); | |
1242 | ncount = line.Atoi(); | |
1243 | } | |
1244 | nullResult = kFALSE; | |
1245 | } | |
1246 | if (ncount == gMaxEntries) { | |
1247 | Info("CreateDataset", "Dataset %s has more than 15K entries. Trying to merge...", file.Data()); | |
1248 | if (fNrunsPerMaster > 1) { | |
1249 | Error("CreateDataset", "File %s has more than %d entries. Please set the number of runs per master to 1 !", | |
1250 | file.Data(),gMaxEntries); | |
1251 | return kFALSE; | |
1252 | } | |
1253 | cadd = (TGridCollection*)gROOT->ProcessLine(Form("new TAlienCollection(\"__tmp%d__%s\", 1000000);",stage,file.Data())); | |
1254 | if (!cbase) cbase = cadd; | |
1255 | else { | |
1256 | cbase->Add(cadd); | |
1257 | delete cadd; | |
defd7a3a | 1258 | } |
3af861ff | 1259 | nstart += ncount; |
1260 | } else { | |
c89a84bc | 1261 | if (cbase && fNrunsPerMaster<2) { |
3af861ff | 1262 | cadd = (TGridCollection*)gROOT->ProcessLine(Form("new TAlienCollection(\"__tmp%d__%s\", 1000000);",stage,file.Data())); |
1263 | printf("... please wait - TAlienCollection::Add() scales badly...\n"); | |
1264 | cbase->Add(cadd); | |
1265 | delete cadd; | |
1266 | cbase->ExportXML(Form("file://%s", file.Data()),kFALSE,kFALSE, file, "Merged entries for a run"); | |
1267 | delete cbase; cbase = 0; | |
1268 | } else { | |
1269 | TFile::Cp(Form("__tmp%d__%s",stage, file.Data()), file.Data()); | |
1270 | } | |
1271 | gSystem->Exec("rm -f __tmp*"); | |
1272 | Info("CreateDataset", "Created dataset %s with %d files", file.Data(), nstart+ncount); | |
1273 | break; | |
d3339be3 | 1274 | } |
3af861ff | 1275 | } |
a8739e8a | 1276 | if (TestBit(AliAnalysisGrid::kTest)) break; |
319593fb | 1277 | // Check if there is one run per master job. |
1278 | if (fNrunsPerMaster<2) { | |
1279 | if (FileExists(file)) { | |
0f389141 | 1280 | if (fOverwriteMode) gGrid->Rm(file); |
1281 | else { | |
1282 | Info("CreateDataset", "\n##### Dataset %s exist. Skipping creation...", file.Data()); | |
1283 | continue; | |
1284 | } | |
319593fb | 1285 | } |
1286 | // Copy xml file to alien space | |
1287 | TFile::Cp(Form("file:%s",file.Data()), Form("alien://%s/%s",workdir.Data(), file.Data())); | |
1288 | if (!FileExists(file)) { | |
1289 | Error("CreateDataset", "Command %s did NOT succeed", command.Data()); | |
1290 | delete arr; | |
1291 | return kFALSE; | |
1292 | } | |
1293 | } else { | |
1294 | nruns++; | |
1295 | if (((nruns-1)%fNrunsPerMaster) == 0) { | |
1296 | schunk = os->GetString(); | |
1297 | cbase = (TGridCollection*)gROOT->ProcessLine(Form("new TAlienCollection(\"%s\", 1000000);",file.Data())); | |
1298 | } else { | |
1299 | cadd = (TGridCollection*)gROOT->ProcessLine(Form("new TAlienCollection(\"%s\", 1000000);",file.Data())); | |
84fcd93f | 1300 | printf(" Merging collection <%s> into masterjob input...\n", file.Data()); |
319593fb | 1301 | cbase->Add(cadd); |
1302 | delete cadd; | |
1303 | } | |
1304 | if ((nruns%fNrunsPerMaster)!=0 && os!=arr->Last()) { | |
1305 | continue; | |
1306 | } | |
1307 | schunk += Form("_%s.xml", os->GetString().Data()); | |
0f389141 | 1308 | if (FileExists(schunk)) { |
1309 | if (fOverwriteMode) gGrid->Rm(file); | |
1310 | else { | |
1311 | Info("CreateDataset", "\n##### Dataset %s exist. Skipping creation...", schunk.Data()); | |
1312 | continue; | |
1313 | } | |
319593fb | 1314 | } |
84fcd93f | 1315 | printf("Exporting merged collection <%s> and copying to AliEn\n", schunk.Data()); |
319593fb | 1316 | cbase->ExportXML(Form("file://%s", schunk.Data()),kFALSE,kFALSE, schunk, "Merged runs"); |
e95434bc | 1317 | TFile::Cp(Form("file:%s",schunk.Data()), Form("alien://%s/%s",workdir.Data(), schunk.Data())); |
319593fb | 1318 | if (!FileExists(schunk)) { |
1319 | Error("CreateDataset", "Copy command did NOT succeed for %s", schunk.Data()); | |
1320 | delete arr; | |
1321 | return kFALSE; | |
1322 | } | |
d3339be3 | 1323 | } |
a8739e8a | 1324 | } |
1325 | delete arr; | |
a2f5fc01 | 1326 | if (nullResult) { |
d3339be3 | 1327 | Error("CreateDataset", "No valid dataset corresponding to the query!"); |
1328 | return kFALSE; | |
1329 | } | |
a8739e8a | 1330 | } else { |
1331 | // Process a full run range. | |
1332 | for (Int_t irun=fRunRange[0]; irun<=fRunRange[1]; irun++) { | |
74013535 | 1333 | format = Form("%%s/%s ", fRunPrefix.Data()); |
3af861ff | 1334 | nstart = 0; |
1335 | stage = 0; | |
74013535 | 1336 | path = Form(format.Data(), fGridDataDir.Data(), irun); |
923e2ca5 | 1337 | if (!DirectoryExists(path)) continue; |
1338 | // CdWork(); | |
74013535 | 1339 | format = Form("%s.xml", fRunPrefix.Data()); |
a8739e8a | 1340 | if (TestBit(AliAnalysisGrid::kTest)) file = "wn.xml"; |
74013535 | 1341 | else file = Form(format.Data(), irun); |
0f389141 | 1342 | if (FileExists(file) && fNrunsPerMaster<2 && !TestBit(AliAnalysisGrid::kTest)) { |
1343 | if (fOverwriteMode) gGrid->Rm(file); | |
1344 | else { | |
1345 | Info("CreateDataset", "\n##### Dataset %s exist. Skipping creation...", file.Data()); | |
1346 | continue; | |
1347 | } | |
a8739e8a | 1348 | } |
319593fb | 1349 | // If local collection file does not exist, create it via 'find' command. |
3af861ff | 1350 | while (1) { |
1351 | ncount = 0; | |
1352 | stage++; | |
1353 | if (gSystem->AccessPathName(file) || TestBit(AliAnalysisGrid::kTest) || fOverwriteMode) { | |
1354 | command = "find "; | |
1355 | command += Form("%s -o %d ",options.Data(), nstart); | |
1356 | command += path; | |
1357 | command += pattern; | |
1358 | command += conditions; | |
1359 | TGridResult *res = gGrid->Command(command); | |
1360 | if (res) delete res; | |
1361 | // Write standard output to file | |
1362 | gROOT->ProcessLine(Form("gGrid->Stdout(); > __tmp%d__%s", stage,file.Data())); | |
1363 | Bool_t hasGrep = (gSystem->Exec("grep --version 2>/dev/null > /dev/null")==0)?kTRUE:kFALSE; | |
1364 | Bool_t nullFile = kFALSE; | |
1365 | if (!hasGrep) { | |
1366 | Warning("CreateDataset", "'grep' command not available on this system - cannot validate the result of the grid 'find' command"); | |
1367 | } else { | |
1368 | nullFile = (gSystem->Exec(Form("grep -c /event __tmp%d__%s 2>/dev/null > __tmp__",stage,file.Data()))==0)?kFALSE:kTRUE; | |
1369 | if (nullFile) { | |
1370 | Warning("CreateDataset","Dataset %s produced by: <%s> is empty !", file.Data(), command.Data()); | |
1371 | gSystem->Exec("rm -f __tmp*"); | |
1604c9ed | 1372 | break; |
3af861ff | 1373 | } |
1374 | TString line; | |
1375 | ifstream in; | |
1376 | in.open("__tmp__"); | |
1377 | in >> line; | |
1378 | in.close(); | |
1379 | gSystem->Exec("rm -f __tmp__"); | |
1380 | ncount = line.Atoi(); | |
1381 | } | |
1382 | nullResult = kFALSE; | |
1383 | } | |
1384 | if (ncount == gMaxEntries) { | |
1385 | Info("CreateDataset", "Dataset %s has more than 15K entries. Trying to merge...", file.Data()); | |
1386 | if (fNrunsPerMaster > 1) { | |
1387 | Error("CreateDataset", "File %s has more than %d entries. Please set the number of runs per master to 1 !", | |
1388 | file.Data(),gMaxEntries); | |
1389 | return kFALSE; | |
1390 | } | |
1391 | cadd = (TGridCollection*)gROOT->ProcessLine(Form("new TAlienCollection(\"__tmp%d__%s\", 1000000);",stage,file.Data())); | |
1392 | if (!cbase) cbase = cadd; | |
1393 | else { | |
1394 | cbase->Add(cadd); | |
1395 | delete cadd; | |
defd7a3a | 1396 | } |
3af861ff | 1397 | nstart += ncount; |
1398 | } else { | |
c89a84bc | 1399 | if (cbase && fNrunsPerMaster<2) { |
3af861ff | 1400 | cadd = (TGridCollection*)gROOT->ProcessLine(Form("new TAlienCollection(\"__tmp%d__%s\", 1000000);",stage,file.Data())); |
1401 | printf("... please wait - TAlienCollection::Add() scales badly...\n"); | |
1402 | cbase->Add(cadd); | |
1403 | delete cadd; | |
1404 | cbase->ExportXML(Form("file://%s", file.Data()),kFALSE,kFALSE, file, "Merged entries for a run"); | |
1405 | delete cbase; cbase = 0; | |
1406 | } else { | |
1407 | TFile::Cp(Form("__tmp%d__%s",stage, file.Data()), file.Data()); | |
1408 | } | |
1409 | Info("CreateDataset", "Created dataset %s with %d files", file.Data(), nstart+ncount); | |
1410 | break; | |
d3339be3 | 1411 | } |
319593fb | 1412 | } |
a8739e8a | 1413 | if (TestBit(AliAnalysisGrid::kTest)) break; |
319593fb | 1414 | // Check if there is one run per master job. |
1415 | if (fNrunsPerMaster<2) { | |
1416 | if (FileExists(file)) { | |
0f389141 | 1417 | if (fOverwriteMode) gGrid->Rm(file); |
1418 | else { | |
1419 | Info("CreateDataset", "\n##### Dataset %s exist. Skipping creation...", file.Data()); | |
1420 | continue; | |
1421 | } | |
319593fb | 1422 | } |
1423 | // Copy xml file to alien space | |
1424 | TFile::Cp(Form("file:%s",file.Data()), Form("alien://%s/%s",workdir.Data(), file.Data())); | |
1425 | if (!FileExists(file)) { | |
1426 | Error("CreateDataset", "Command %s did NOT succeed", command.Data()); | |
1427 | return kFALSE; | |
1428 | } | |
1429 | } else { | |
1430 | nruns++; | |
95e5b448 | 1431 | // Check if the collection for the chunk exist locally. |
1432 | Int_t nchunk = (nruns-1)/fNrunsPerMaster; | |
0f389141 | 1433 | if (FileExists(fInputFiles->At(nchunk)->GetName())) { |
1434 | if (fOverwriteMode) gGrid->Rm(fInputFiles->At(nchunk)->GetName()); | |
1435 | else continue; | |
1436 | } | |
84fcd93f | 1437 | printf(" Merging collection <%s> into %d runs chunk...\n",file.Data(),fNrunsPerMaster); |
319593fb | 1438 | if (((nruns-1)%fNrunsPerMaster) == 0) { |
74013535 | 1439 | schunk = Form(fRunPrefix.Data(), irun); |
319593fb | 1440 | cbase = (TGridCollection*)gROOT->ProcessLine(Form("new TAlienCollection(\"%s\", 1000000);",file.Data())); |
1441 | } else { | |
1442 | cadd = (TGridCollection*)gROOT->ProcessLine(Form("new TAlienCollection(\"%s\", 1000000);",file.Data())); | |
1443 | cbase->Add(cadd); | |
1444 | delete cadd; | |
1445 | } | |
74013535 | 1446 | format = Form("%%s_%s.xml", fRunPrefix.Data()); |
1447 | schunk2 = Form(format.Data(), schunk.Data(), irun); | |
904f9f5f | 1448 | if ((nruns%fNrunsPerMaster)!=0 && irun!=fRunRange[1] && schunk2 != fInputFiles->Last()->GetName()) { |
319593fb | 1449 | continue; |
1450 | } | |
904f9f5f | 1451 | schunk = schunk2; |
319593fb | 1452 | if (FileExists(schunk)) { |
0f389141 | 1453 | if (fOverwriteMode) gGrid->Rm(schunk); |
1454 | else { | |
1455 | Info("CreateDataset", "\n##### Dataset %s exist. Skipping creation...", schunk.Data()); | |
1456 | continue; | |
1457 | } | |
319593fb | 1458 | } |
84fcd93f | 1459 | printf("Exporting merged collection <%s> and copying to AliEn.\n", schunk.Data()); |
319593fb | 1460 | cbase->ExportXML(Form("file://%s", schunk.Data()),kFALSE,kFALSE, schunk, "Merged runs"); |
95e5b448 | 1461 | if (FileExists(schunk)) { |
0f389141 | 1462 | if (fOverwriteMode) gGrid->Rm(schunk); |
1463 | else { | |
1464 | Info("CreateDataset", "\n##### Dataset %s exist. Skipping copy...", schunk.Data()); | |
1465 | continue; | |
1466 | } | |
95e5b448 | 1467 | } |
319593fb | 1468 | TFile::Cp(Form("file:%s",schunk.Data()), Form("alien://%s/%s",workdir.Data(), schunk.Data())); |
1469 | if (!FileExists(schunk)) { | |
1470 | Error("CreateDataset", "Copy command did NOT succeed for %s", schunk.Data()); | |
1471 | return kFALSE; | |
1472 | } | |
1473 | } | |
c57f56b7 | 1474 | } |
a2f5fc01 | 1475 | if (nullResult) { |
d3339be3 | 1476 | Error("CreateDataset", "No valid dataset corresponding to the query!"); |
1477 | return kFALSE; | |
1478 | } | |
a8739e8a | 1479 | } |
c57f56b7 | 1480 | return kTRUE; |
1481 | } | |
1482 | ||
1483 | //______________________________________________________________________________ | |
1484 | Bool_t AliAnalysisAlien::CreateJDL() | |
1485 | { | |
1486 | // Generate a JDL file according to current settings. The name of the file is | |
1487 | // specified by fJDLName. | |
1488 | Bool_t error = kFALSE; | |
1489 | TObjArray *arr = 0; | |
1490 | Bool_t copy = kTRUE; | |
d3b18c4c | 1491 | if (fProductionMode || TestBit(AliAnalysisGrid::kOffline) || TestBit(AliAnalysisGrid::kTest)) copy = kFALSE; |
c57f56b7 | 1492 | Bool_t generate = kTRUE; |
1493 | if (TestBit(AliAnalysisGrid::kTest) || TestBit(AliAnalysisGrid::kSubmit)) generate = kFALSE; | |
1494 | if (!Connect()) { | |
1495 | Error("CreateJDL", "Alien connection required"); | |
1496 | return kFALSE; | |
1497 | } | |
1498 | // Check validity of alien workspace | |
d3b18c4c | 1499 | TString workdir; |
1500 | if (!fProductionMode && !fGridWorkingDir.BeginsWith("/alice")) workdir = gGrid->GetHomeDirectory(); | |
1501 | if (!fProductionMode && !TestBit(AliAnalysisGrid::kTest)) CdWork(); | |
c57f56b7 | 1502 | workdir += fGridWorkingDir; |
1503 | if (generate) { | |
1504 | TObjString *os; | |
1505 | if (!fInputFiles) { | |
1506 | Error("CreateJDL()", "Define some input files for your analysis."); | |
1507 | error = kTRUE; | |
1508 | } | |
1509 | // Compose list of input files | |
1510 | // Check if output files were defined | |
1511 | if (!fOutputFiles.Length()) { | |
1512 | Error("CreateJDL", "You must define at least one output file"); | |
1513 | error = kTRUE; | |
1514 | } | |
1515 | // Check if an output directory was defined and valid | |
1516 | if (!fGridOutputDir.Length()) { | |
1517 | Error("CreateJDL", "You must define AliEn output directory"); | |
1518 | error = kTRUE; | |
1519 | } else { | |
d3b18c4c | 1520 | if (!fProductionMode) { |
1521 | if (!fGridOutputDir.Contains("/")) fGridOutputDir = Form("%s/%s", workdir.Data(), fGridOutputDir.Data()); | |
1522 | if (!DirectoryExists(fGridOutputDir)) { | |
1523 | if (gGrid->Mkdir(fGridOutputDir,"-p")) { | |
1524 | Info("CreateJDL", "\n##### Created alien output directory %s", fGridOutputDir.Data()); | |
1525 | } else { | |
1526 | Error("CreateJDL", "Could not create alien output directory %s", fGridOutputDir.Data()); | |
1527 | // error = kTRUE; | |
1528 | } | |
67a3b254 | 1529 | } else { |
1530 | Warning("CreateJDL", "#### Output directory %s exists! If this contains old data, jobs will fail with ERROR_SV !!! ###", fGridOutputDir.Data()); | |
d3b18c4c | 1531 | } |
1532 | gGrid->Cd(workdir); | |
1533 | } | |
c57f56b7 | 1534 | } |
1535 | // Exit if any error up to now | |
1536 | if (error) return kFALSE; | |
1537 | // Set JDL fields | |
0f389141 | 1538 | if (!fUser.IsNull()) { |
1539 | fGridJDL->SetValue("User", Form("\"%s\"", fUser.Data())); | |
1540 | fMergingJDL->SetValue("User", Form("\"%s\"", fUser.Data())); | |
1541 | } | |
1542 | fGridJDL->SetExecutable(fExecutable, "This is the startup script"); | |
1543 | TString mergeExec = fExecutable; | |
1544 | mergeExec.ReplaceAll(".sh", "_merge.sh"); | |
1545 | fMergingJDL->SetExecutable(mergeExec, "This is the startup script"); | |
1546 | mergeExec.ReplaceAll(".sh", ".C"); | |
1547 | fMergingJDL->AddToInputSandbox(Form("LF:%s/%s", workdir.Data(),mergeExec.Data()), "List of input files to be uploaded to workers"); | |
b5b9dee8 | 1548 | if (!fArguments.IsNull()) |
1549 | fGridJDL->SetArguments(fArguments, "Arguments for the executable command"); | |
d3b18c4c | 1550 | if (IsOneStageMerging()) fMergingJDL->SetArguments(fGridOutputDir); |
f47d5cb4 | 1551 | else { |
1552 | if (fProductionMode) fMergingJDL->SetArguments("wn.xml $4"); // xml, stage | |
1553 | else fMergingJDL->SetArguments("wn.xml $2"); // xml, stage | |
1554 | } | |
b3e07543 | 1555 | |
1f0d1ca2 | 1556 | fGridJDL->SetValue("TTL", Form("\"%d\"",fTTL)); |
1557 | fGridJDL->SetDescription("TTL", Form("Time after which the job is killed (%d min.)", fTTL/60)); | |
1558 | fMergingJDL->SetValue("TTL", Form("\"%d\"",fTTL)); | |
1559 | fMergingJDL->SetDescription("TTL", Form("Time after which the job is killed (%d min.)", fTTL/60)); | |
1560 | ||
0f389141 | 1561 | if (fMaxInitFailed > 0) { |
c57f56b7 | 1562 | fGridJDL->SetValue("MaxInitFailed", Form("\"%d\"",fMaxInitFailed)); |
0f389141 | 1563 | fGridJDL->SetDescription("MaxInitFailed", "Maximum number of first failing jobs to abort the master job"); |
1564 | } | |
1565 | if (fSplitMaxInputFileNumber > 0) { | |
c57f56b7 | 1566 | fGridJDL->SetValue("SplitMaxInputFileNumber", Form("\"%d\"", fSplitMaxInputFileNumber)); |
0f389141 | 1567 | fGridJDL->SetDescription("SplitMaxInputFileNumber", "Maximum number of input files to be processed per subjob"); |
b3e07543 | 1568 | } |
1569 | if (!IsOneStageMerging()) { | |
f47d5cb4 | 1570 | fMergingJDL->SetValue("SplitMaxInputFileNumber", Form("\"%d\"",fMaxMergeFiles)); |
b3e07543 | 1571 | fMergingJDL->SetDescription("SplitMaxInputFileNumber", "Maximum number of input files to be merged in one go"); |
0f389141 | 1572 | } |
1573 | if (fSplitMode.Length()) { | |
c57f56b7 | 1574 | fGridJDL->SetValue("Split", Form("\"%s\"", fSplitMode.Data())); |
0f389141 | 1575 | fGridJDL->SetDescription("Split", "We split per SE or file"); |
b3e07543 | 1576 | } |
1577 | fMergingJDL->SetValue("Split", "\"se\""); | |
1578 | fMergingJDL->SetDescription("Split", "We split per SE for merging in stages"); | |
0f389141 | 1579 | if (!fAliROOTVersion.IsNull()) { |
1580 | fGridJDL->AddToPackages("AliRoot", fAliROOTVersion,"VO_ALICE", "List of requested packages"); | |
1581 | fMergingJDL->AddToPackages("AliRoot", fAliROOTVersion, "VO_ALICE", "List of requested packages"); | |
1582 | } | |
1583 | if (!fROOTVersion.IsNull()) { | |
c57f56b7 | 1584 | fGridJDL->AddToPackages("ROOT", fROOTVersion); |
0f389141 | 1585 | fMergingJDL->AddToPackages("ROOT", fROOTVersion); |
1586 | } | |
1587 | if (!fAPIVersion.IsNull()) { | |
c57f56b7 | 1588 | fGridJDL->AddToPackages("APISCONFIG", fAPIVersion); |
0f389141 | 1589 | fMergingJDL->AddToPackages("APISCONFIG", fAPIVersion); |
1590 | } | |
648174cf | 1591 | if (!fExternalPackages.IsNull()) { |
1592 | arr = fExternalPackages.Tokenize(" "); | |
1593 | TIter next(arr); | |
1594 | while ((os=(TObjString*)next())) { | |
1595 | TString pkgname = os->GetString(); | |
1596 | Int_t index = pkgname.Index("::"); | |
1597 | TString pkgversion = pkgname(index+2, pkgname.Length()); | |
1598 | pkgname.Remove(index); | |
1599 | fGridJDL->AddToPackages(pkgname, pkgversion); | |
0f389141 | 1600 | fMergingJDL->AddToPackages(pkgname, pkgversion); |
648174cf | 1601 | } |
1602 | delete arr; | |
1603 | } | |
0f389141 | 1604 | fGridJDL->SetInputDataListFormat(fInputFormat, "Format of input data"); |
1605 | fGridJDL->SetInputDataList("wn.xml", "Collection name to be processed on each worker node"); | |
b3e07543 | 1606 | fMergingJDL->SetInputDataListFormat(fInputFormat, "Format of input data"); |
1607 | fMergingJDL->SetInputDataList("wn.xml", "Collection name to be processed on each worker node"); | |
0f389141 | 1608 | fGridJDL->AddToInputSandbox(Form("LF:%s/%s", workdir.Data(), fAnalysisMacro.Data()), "List of input files to be uploaded to workers"); |
f10e8481 | 1609 | TString analysisFile = fExecutable; |
1610 | analysisFile.ReplaceAll(".sh", ".root"); | |
1611 | fGridJDL->AddToInputSandbox(Form("LF:%s/%s", workdir.Data(),analysisFile.Data())); | |
f866cba5 | 1612 | fMergingJDL->AddToInputSandbox(Form("LF:%s/%s", workdir.Data(),analysisFile.Data())); |
c57f56b7 | 1613 | if (fAdditionalLibs.Length()) { |
1614 | arr = fAdditionalLibs.Tokenize(" "); | |
1615 | TIter next(arr); | |
1616 | while ((os=(TObjString*)next())) { | |
1617 | if (os->GetString().Contains(".so")) continue; | |
1618 | fGridJDL->AddToInputSandbox(Form("LF:%s/%s", workdir.Data(), os->GetString().Data())); | |
0f389141 | 1619 | fMergingJDL->AddToInputSandbox(Form("LF:%s/%s", workdir.Data(), os->GetString().Data())); |
c57f56b7 | 1620 | } |
1621 | delete arr; | |
1622 | } | |
4e5c5506 | 1623 | if (fPackages) { |
1624 | TIter next(fPackages); | |
1625 | TObject *obj; | |
0f389141 | 1626 | while ((obj=next())) { |
4e5c5506 | 1627 | fGridJDL->AddToInputSandbox(Form("LF:%s/%s", workdir.Data(), obj->GetName())); |
0f389141 | 1628 | fMergingJDL->AddToInputSandbox(Form("LF:%s/%s", workdir.Data(), obj->GetName())); |
1629 | } | |
4e5c5506 | 1630 | } |
c57f56b7 | 1631 | if (fOutputArchive.Length()) { |
1632 | arr = fOutputArchive.Tokenize(" "); | |
1633 | TIter next(arr); | |
0f389141 | 1634 | Bool_t first = kTRUE; |
1635 | const char *comment = "Files to be archived"; | |
1636 | const char *comment1 = comment; | |
1637 | while ((os=(TObjString*)next())) { | |
1638 | if (!first) comment = NULL; | |
1639 | if (!os->GetString().Contains("@") && fCloseSE.Length()) | |
1640 | fGridJDL->AddToOutputArchive(Form("%s@%s",os->GetString().Data(), fCloseSE.Data()), comment); | |
1641 | else | |
1642 | fGridJDL->AddToOutputArchive(os->GetString(), comment); | |
1643 | first = kFALSE; | |
1644 | } | |
c57f56b7 | 1645 | delete arr; |
f790bc1b | 1646 | // Output archive for the merging jdl |
1647 | TString outputArchive; | |
1648 | if (TestBit(AliAnalysisGrid::kDefaultOutputs)) { | |
b83f84f0 | 1649 | outputArchive = "log_archive.zip:std*@disk=1 "; |
f790bc1b | 1650 | // Add normal output files, extra files + terminate files |
1651 | TString files = GetListOfFiles("outextter"); | |
37d21c01 | 1652 | // Do not register files in fRegisterExcludes |
1653 | if (!fRegisterExcludes.IsNull()) { | |
1654 | arr = fRegisterExcludes.Tokenize(" "); | |
f790bc1b | 1655 | TIter next1(arr); |
1656 | while ((os=(TObjString*)next1())) { | |
1657 | files.ReplaceAll(Form("%s,",os->GetString().Data()),""); | |
1658 | files.ReplaceAll(os->GetString(),""); | |
1659 | } | |
66d71516 | 1660 | delete arr; |
0f389141 | 1661 | } |
f790bc1b | 1662 | files.ReplaceAll(".root", "*.root"); |
b83f84f0 | 1663 | outputArchive += Form("root_archive.zip:%s,*.stat@disk=%d",files.Data(),fNreplicas); |
f790bc1b | 1664 | } else { |
95f84779 | 1665 | TString files = fOutputArchive; |
1666 | files.ReplaceAll(".root", "*.root"); // nreplicas etc should be already atttached by use | |
1667 | outputArchive = files; | |
f790bc1b | 1668 | } |
0f389141 | 1669 | arr = outputArchive.Tokenize(" "); |
705adb3e | 1670 | TIter next2(arr); |
0f389141 | 1671 | comment = comment1; |
1672 | first = kTRUE; | |
705adb3e | 1673 | while ((os=(TObjString*)next2())) { |
0f389141 | 1674 | if (!first) comment = NULL; |
0cdf65a8 | 1675 | TString currentfile = os->GetString(); |
0cdf65a8 | 1676 | if (!currentfile.Contains("@") && fCloseSE.Length()) |
d3b18c4c | 1677 | fMergingJDL->AddToOutputArchive(Form("%s@%s",currentfile.Data(), fCloseSE.Data()), comment); |
0f389141 | 1678 | else |
0cdf65a8 | 1679 | fMergingJDL->AddToOutputArchive(currentfile, comment); |
0f389141 | 1680 | first = kFALSE; |
1681 | } | |
1682 | delete arr; | |
c57f56b7 | 1683 | } |
149d288c | 1684 | arr = fOutputFiles.Tokenize(","); |
c57f56b7 | 1685 | TIter next(arr); |
0f389141 | 1686 | Bool_t first = kTRUE; |
f790bc1b | 1687 | const char *comment = "Files to be saved"; |
43da816a | 1688 | while ((os=(TObjString*)next())) { |
e1eaf596 | 1689 | // Ignore ouputs in jdl that are also in outputarchive |
1690 | TString sout = os->GetString(); | |
f790bc1b | 1691 | sout.ReplaceAll("*", ""); |
1692 | sout.ReplaceAll(".root", ""); | |
e1eaf596 | 1693 | if (sout.Index("@")>0) sout.Remove(sout.Index("@")); |
1694 | if (fOutputArchive.Contains(sout)) continue; | |
37d21c01 | 1695 | // Ignore fRegisterExcludes |
1696 | if (fRegisterExcludes.Contains(sout)) continue; | |
0f389141 | 1697 | if (!first) comment = NULL; |
43da816a | 1698 | if (!os->GetString().Contains("@") && fCloseSE.Length()) |
0f389141 | 1699 | fGridJDL->AddToOutputSandbox(Form("%s@%s",os->GetString().Data(), fCloseSE.Data()), comment); |
43da816a | 1700 | else |
0f389141 | 1701 | fGridJDL->AddToOutputSandbox(os->GetString(), comment); |
b3e07543 | 1702 | first = kFALSE; |
f790bc1b | 1703 | if (fMergeExcludes.Contains(sout)) continue; |
1704 | if (!os->GetString().Contains("@") && fCloseSE.Length()) | |
1705 | fMergingJDL->AddToOutputSandbox(Form("%s@%s",os->GetString().Data(), fCloseSE.Data()), comment); | |
1706 | else | |
1707 | fMergingJDL->AddToOutputSandbox(os->GetString(), comment); | |
43da816a | 1708 | } |
c57f56b7 | 1709 | delete arr; |
0f389141 | 1710 | fGridJDL->SetPrice((UInt_t)fPrice, "AliEn price for this job"); |
1711 | fMergingJDL->SetPrice((UInt_t)fPrice, "AliEn price for this job"); | |
d3b18c4c | 1712 | TString validationScript = fValidationScript; |
0f389141 | 1713 | fGridJDL->SetValidationCommand(Form("%s/%s", workdir.Data(),validationScript.Data()), "Validation script to be run for each subjob"); |
d3b18c4c | 1714 | validationScript.ReplaceAll(".sh", "_merge.sh"); |
0f389141 | 1715 | fMergingJDL->SetValidationCommand(Form("%s/%s", workdir.Data(),validationScript.Data()), "Validation script to be run for each subjob"); |
1716 | if (fMasterResubmitThreshold) { | |
1717 | fGridJDL->SetValue("MasterResubmitThreshold", Form("\"%d%%\"", fMasterResubmitThreshold)); | |
1718 | fGridJDL->SetDescription("MasterResubmitThreshold", "Resubmit failed jobs until DONE rate reaches this percentage"); | |
1719 | } | |
d2a409b2 | 1720 | // Write a jdl with 2 input parameters: collection name and output dir name. |
1721 | WriteJDL(copy); | |
c57f56b7 | 1722 | } |
1723 | // Copy jdl to grid workspace | |
a8739e8a | 1724 | if (copy) { |
b5e4aaa7 | 1725 | // Check if an output directory was defined and valid |
1726 | if (!fGridOutputDir.Length()) { | |
1727 | Error("CreateJDL", "You must define AliEn output directory"); | |
1728 | return kFALSE; | |
1729 | } else { | |
1730 | if (!fGridOutputDir.Contains("/")) fGridOutputDir = Form("%s/%s", workdir.Data(), fGridOutputDir.Data()); | |
bb2e67a0 | 1731 | if (!fProductionMode && !DirectoryExists(fGridOutputDir)) { |
b93f8109 | 1732 | if (gGrid->Mkdir(fGridOutputDir,"-p")) { |
b5e4aaa7 | 1733 | Info("CreateJDL", "\n##### Created alien output directory %s", fGridOutputDir.Data()); |
1734 | } else { | |
1735 | Error("CreateJDL", "Could not create alien output directory %s", fGridOutputDir.Data()); | |
1736 | return kFALSE; | |
1737 | } | |
1738 | } | |
1739 | gGrid->Cd(workdir); | |
1740 | } | |
648174cf | 1741 | if (TestBit(AliAnalysisGrid::kSubmit)) { |
0f389141 | 1742 | TString mergeJDLName = fExecutable; |
1743 | mergeJDLName.ReplaceAll(".sh", "_merge.jdl"); | |
648174cf | 1744 | TString locjdl = Form("%s/%s", fGridOutputDir.Data(),fJDLName.Data()); |
0f389141 | 1745 | TString locjdl1 = Form("%s/%s", fGridOutputDir.Data(),mergeJDLName.Data()); |
1746 | if (fProductionMode) { | |
648174cf | 1747 | locjdl = Form("%s/%s", workdir.Data(),fJDLName.Data()); |
0f389141 | 1748 | locjdl1 = Form("%s/%s", workdir.Data(),mergeJDLName.Data()); |
1749 | } | |
648174cf | 1750 | if (FileExists(locjdl)) gGrid->Rm(locjdl); |
0f389141 | 1751 | if (FileExists(locjdl1)) gGrid->Rm(locjdl1); |
1752 | Info("CreateJDL", "\n##### Copying JDL file <%s> to your AliEn output directory", fJDLName.Data()); | |
6c395669 | 1753 | if (!copyLocal2Alien("CreateJDL", fJDLName, locjdl)) |
1754 | Fatal("","Terminating"); | |
1755 | // TFile::Cp(Form("file:%s",fJDLName.Data()), Form("alien://%s", locjdl.Data())); | |
0f389141 | 1756 | if (fMergeViaJDL) { |
1757 | Info("CreateJDL", "\n##### Copying merging JDL file <%s> to your AliEn output directory", mergeJDLName.Data()); | |
6c395669 | 1758 | // TFile::Cp(Form("file:%s",mergeJDLName.Data()), Form("alien://%s", locjdl1.Data())); |
1759 | if (!copyLocal2Alien("CreateJDL", mergeJDLName.Data(), locjdl1)) | |
1760 | Fatal("","Terminating"); | |
0f389141 | 1761 | } |
648174cf | 1762 | } |
c57f56b7 | 1763 | if (fAdditionalLibs.Length()) { |
e7c71df0 | 1764 | arr = fAdditionalLibs.Tokenize(" "); |
c57f56b7 | 1765 | TObjString *os; |
1766 | TIter next(arr); | |
1767 | while ((os=(TObjString*)next())) { | |
c57f56b7 | 1768 | if (os->GetString().Contains(".so")) continue; |
4e5c5506 | 1769 | Info("CreateJDL", "\n##### Copying dependency: <%s> to your alien workspace", os->GetString().Data()); |
c57f56b7 | 1770 | if (FileExists(os->GetString())) gGrid->Rm(os->GetString()); |
6c395669 | 1771 | // TFile::Cp(Form("file:%s",os->GetString().Data()), Form("alien://%s/%s", workdir.Data(), os->GetString().Data())); |
1772 | if (!copyLocal2Alien("CreateJDL", os->GetString().Data(), | |
1773 | Form("%s/%s", workdir.Data(), os->GetString().Data()))) | |
1774 | Fatal("","Terminating"); | |
c57f56b7 | 1775 | } |
1776 | delete arr; | |
1777 | } | |
4e5c5506 | 1778 | if (fPackages) { |
1779 | TIter next(fPackages); | |
1780 | TObject *obj; | |
1781 | while ((obj=next())) { | |
fdbbc7be | 1782 | if (FileExists(obj->GetName())) gGrid->Rm(obj->GetName()); |
4e5c5506 | 1783 | Info("CreateJDL", "\n##### Copying dependency: <%s> to your alien workspace", obj->GetName()); |
6c395669 | 1784 | // TFile::Cp(Form("file:%s",obj->GetName()), Form("alien://%s/%s", workdir.Data(), obj->GetName())); |
1785 | if (!copyLocal2Alien("CreateJDL",obj->GetName(), | |
1786 | Form("%s/%s", workdir.Data(), obj->GetName()))) | |
1787 | Fatal("","Terminating"); | |
4e5c5506 | 1788 | } |
1789 | } | |
c57f56b7 | 1790 | } |
1791 | return kTRUE; | |
1792 | } | |
1793 | ||
a8739e8a | 1794 | //______________________________________________________________________________ |
d2a409b2 | 1795 | Bool_t AliAnalysisAlien::WriteJDL(Bool_t copy) |
a8739e8a | 1796 | { |
1797 | // Writes one or more JDL's corresponding to findex. If findex is negative, | |
1798 | // all run numbers are considered in one go (jdl). For non-negative indices | |
1799 | // they correspond to the indices in the array fInputFiles. | |
1800 | if (!fInputFiles) return kFALSE; | |
d3b18c4c | 1801 | TObject *os; |
1802 | TString workdir; | |
1803 | if (!fProductionMode && !fGridWorkingDir.BeginsWith("/alice")) workdir = gGrid->GetHomeDirectory(); | |
a8739e8a | 1804 | workdir += fGridWorkingDir; |
f47d5cb4 | 1805 | TString stageName = "$2"; |
1806 | if (fProductionMode) stageName = "$4"; | |
1807 | if (!fMergeDirName.IsNull()) { | |
1808 | fMergingJDL->AddToInputDataCollection(Form("LF:$1/%s/Stage_%s.xml,nodownload",fMergeDirName.Data(),stageName.Data()), "Collection of files to be merged for current stage"); | |
1809 | fMergingJDL->SetOutputDirectory(Form("$1/%s/Stage_%s/#alien_counter_03i#",fMergeDirName.Data(),stageName.Data()), "Output directory"); | |
1810 | } else { | |
1811 | fMergingJDL->AddToInputDataCollection(Form("LF:$1/Stage_%s.xml,nodownload",stageName.Data()), "Collection of files to be merged for current stage"); | |
1812 | fMergingJDL->SetOutputDirectory(Form("$1/Stage_%s/#alien_counter_03i#",stageName.Data()), "Output directory"); | |
1813 | } | |
d3b18c4c | 1814 | if (fProductionMode) { |
a8739e8a | 1815 | TIter next(fInputFiles); |
b3e07543 | 1816 | while ((os=next())) { |
d3b18c4c | 1817 | fGridJDL->AddToInputDataCollection(Form("LF:%s,nodownload", os->GetName()), "Input xml collections"); |
b3e07543 | 1818 | } |
56754bf6 | 1819 | if (!fOutputToRunNo) |
1820 | fGridJDL->SetOutputDirectory(Form("%s/#alien_counter_04i#", fGridOutputDir.Data())); | |
1821 | else | |
1822 | fGridJDL->SetOutputDirectory(fGridOutputDir); | |
d3b18c4c | 1823 | } else { |
1824 | if (!fRunNumbers.Length() && !fRunRange[0]) { | |
1825 | // One jdl with no parameters in case input data is specified by name. | |
1826 | TIter next(fInputFiles); | |
1827 | while ((os=next())) | |
1828 | fGridJDL->AddToInputDataCollection(Form("LF:%s,nodownload", os->GetName()), "Input xml collections"); | |
1829 | if (!fOutputSingle.IsNull()) | |
1830 | fGridJDL->SetOutputDirectory(Form("#alienfulldir#/../%s",fOutputSingle.Data()), "Output directory"); | |
1831 | else { | |
1832 | fGridJDL->SetOutputDirectory(Form("%s/#alien_counter_03i#", fGridOutputDir.Data()), "Output directory"); | |
1833 | fMergingJDL->SetOutputDirectory(fGridOutputDir); | |
1834 | } | |
1835 | } else { | |
1836 | // One jdl to be submitted with 2 input parameters: data collection name and output dir prefix | |
1837 | fGridJDL->AddToInputDataCollection(Form("LF:%s/$1,nodownload", workdir.Data()), "Input xml collections"); | |
1838 | if (!fOutputSingle.IsNull()) { | |
1839 | if (!fOutputToRunNo) fGridJDL->SetOutputDirectory(Form("#alienfulldir#/%s",fOutputSingle.Data()), "Output directory"); | |
1840 | else fGridJDL->SetOutputDirectory(Form("%s/$2",fGridOutputDir.Data()), "Output directory"); | |
1841 | } else { | |
1842 | fGridJDL->SetOutputDirectory(Form("%s/$2/#alien_counter_03i#", fGridOutputDir.Data()), "Output directory"); | |
d3b18c4c | 1843 | } |
1844 | } | |
a8739e8a | 1845 | } |
1846 | ||
a8739e8a | 1847 | // Generate the JDL as a string |
1848 | TString sjdl = fGridJDL->Generate(); | |
0f389141 | 1849 | TString sjdl1 = fMergingJDL->Generate(); |
f47d5cb4 | 1850 | // Final merge jdl |
1851 | if (!fMergeDirName.IsNull()) { | |
1852 | fMergingJDL->SetOutputDirectory(Form("$1/%s",fMergeDirName.Data()), "Output directory"); | |
1853 | fMergingJDL->AddToInputSandbox(Form("LF:$1/%s/Stage_%s.xml",fMergeDirName.Data(),stageName.Data())); | |
1854 | } else { | |
1855 | fMergingJDL->SetOutputDirectory("$1", "Output directory"); | |
1856 | fMergingJDL->AddToInputSandbox(Form("LF:$1/Stage_%s.xml",stageName.Data())); | |
1857 | } | |
b3e07543 | 1858 | TString sjdl2 = fMergingJDL->Generate(); |
1859 | Int_t index, index1; | |
a8739e8a | 1860 | sjdl.ReplaceAll("\"LF:", "\n \"LF:"); |
1861 | sjdl.ReplaceAll("(member", "\n (member"); | |
1862 | sjdl.ReplaceAll("\",\"VO_", "\",\n \"VO_"); | |
1863 | sjdl.ReplaceAll("{", "{\n "); | |
1864 | sjdl.ReplaceAll("};", "\n};"); | |
1865 | sjdl.ReplaceAll("{\n \n", "{\n"); | |
1866 | sjdl.ReplaceAll("\n\n", "\n"); | |
1867 | sjdl.ReplaceAll("OutputDirectory", "OutputDir"); | |
0f389141 | 1868 | sjdl1.ReplaceAll("\"LF:", "\n \"LF:"); |
1869 | sjdl1.ReplaceAll("(member", "\n (member"); | |
1870 | sjdl1.ReplaceAll("\",\"VO_", "\",\n \"VO_"); | |
1871 | sjdl1.ReplaceAll("{", "{\n "); | |
1872 | sjdl1.ReplaceAll("};", "\n};"); | |
1873 | sjdl1.ReplaceAll("{\n \n", "{\n"); | |
1874 | sjdl1.ReplaceAll("\n\n", "\n"); | |
1875 | sjdl1.ReplaceAll("OutputDirectory", "OutputDir"); | |
b3e07543 | 1876 | sjdl2.ReplaceAll("\"LF:", "\n \"LF:"); |
1877 | sjdl2.ReplaceAll("(member", "\n (member"); | |
1878 | sjdl2.ReplaceAll("\",\"VO_", "\",\n \"VO_"); | |
1879 | sjdl2.ReplaceAll("{", "{\n "); | |
1880 | sjdl2.ReplaceAll("};", "\n};"); | |
1881 | sjdl2.ReplaceAll("{\n \n", "{\n"); | |
1882 | sjdl2.ReplaceAll("\n\n", "\n"); | |
1883 | sjdl2.ReplaceAll("OutputDirectory", "OutputDir"); | |
a8739e8a | 1884 | sjdl += "JDLVariables = \n{\n \"Packages\",\n \"OutputDir\"\n};\n"; |
f60ef0ba | 1885 | sjdl.Prepend(Form("Jobtag = {\n \"comment:%s\"\n};\n", fJobTag.Data())); |
a8739e8a | 1886 | index = sjdl.Index("JDLVariables"); |
1887 | if (index >= 0) sjdl.Insert(index, "\n# JDL variables\n"); | |
4739b2aa | 1888 | sjdl += "Workdirectorysize = {\"5000MB\"};"; |
b3e07543 | 1889 | sjdl1 += "Workdirectorysize = {\"5000MB\"};"; |
0f389141 | 1890 | sjdl1 += "JDLVariables = \n{\n \"Packages\",\n \"OutputDir\"\n};\n"; |
d3b18c4c | 1891 | index = fJobTag.Index(":"); |
1892 | if (index < 0) index = fJobTag.Length(); | |
1893 | TString jobTag = fJobTag; | |
f47d5cb4 | 1894 | if (fProductionMode) jobTag.Insert(index,"_Stage$4"); |
d3b18c4c | 1895 | sjdl1.Prepend(Form("Jobtag = {\n \"comment:%s_Merging\"\n};\n", jobTag.Data())); |
f47d5cb4 | 1896 | if (fProductionMode) { |
1897 | sjdl1.Prepend("# Generated merging jdl (production mode) \ | |
1898 | \n# $1 = full alien path to output directory to be merged \ | |
1899 | \n# $2 = train number \ | |
1900 | \n# $3 = production (like LHC10b) \ | |
1901 | \n# $4 = merging stage \ | |
1902 | \n# Stage_<n>.xml made via: find <OutputDir> *Stage<n-1>/*root_archive.zip\n"); | |
1903 | sjdl2.Prepend(Form("Jobtag = {\n \"comment:%s_FinalMerging\"\n};\n", jobTag.Data())); | |
1904 | sjdl2.Prepend("# Generated merging jdl \ | |
1905 | \n# $1 = full alien path to output directory to be merged \ | |
1906 | \n# $2 = train number \ | |
1907 | \n# $3 = production (like LHC10b) \ | |
1908 | \n# $4 = merging stage \ | |
1909 | \n# Stage_<n>.xml made via: find <OutputDir> *Stage<n-1>/*root_archive.zip\n"); | |
1910 | } else { | |
1911 | sjdl1.Prepend("# Generated merging jdl \ | |
1912 | \n# $1 = full alien path to output directory to be merged \ | |
1913 | \n# $2 = merging stage \ | |
03335324 | 1914 | \n# xml made via: find <OutputDir> *Stage<n-1>/*root_archive.zip\n"); |
f47d5cb4 | 1915 | sjdl2.Prepend(Form("Jobtag = {\n \"comment:%s_FinalMerging\"\n};\n", jobTag.Data())); |
1916 | sjdl2.Prepend("# Generated merging jdl \ | |
1917 | \n# $1 = full alien path to output directory to be merged \ | |
1918 | \n# $2 = merging stage \ | |
03335324 | 1919 | \n# xml made via: find <OutputDir> *Stage<n-1>/*root_archive.zip\n"); |
f47d5cb4 | 1920 | } |
0f389141 | 1921 | index = sjdl1.Index("JDLVariables"); |
1922 | if (index >= 0) sjdl1.Insert(index, "\n# JDL variables\n"); | |
b3e07543 | 1923 | index = sjdl2.Index("JDLVariables"); |
1924 | if (index >= 0) sjdl2.Insert(index, "\n# JDL variables\n"); | |
4739b2aa | 1925 | sjdl1 += "Workdirectorysize = {\"5000MB\"};"; |
b3e07543 | 1926 | sjdl2 += "Workdirectorysize = {\"5000MB\"};"; |
1927 | index = sjdl2.Index("Split ="); | |
1928 | if (index>=0) { | |
1929 | index1 = sjdl2.Index("\n", index); | |
1930 | sjdl2.Remove(index, index1-index+1); | |
1931 | } | |
1932 | index = sjdl2.Index("SplitMaxInputFileNumber"); | |
1933 | if (index>=0) { | |
1934 | index1 = sjdl2.Index("\n", index); | |
1935 | sjdl2.Remove(index, index1-index+1); | |
1936 | } | |
1937 | index = sjdl2.Index("InputDataCollection"); | |
1938 | if (index>=0) { | |
1939 | index1 = sjdl2.Index(";", index); | |
1940 | sjdl2.Remove(index, index1-index+1); | |
1941 | } | |
1942 | index = sjdl2.Index("InputDataListFormat"); | |
1943 | if (index>=0) { | |
1944 | index1 = sjdl2.Index("\n", index); | |
1945 | sjdl2.Remove(index, index1-index+1); | |
1946 | } | |
1947 | index = sjdl2.Index("InputDataList"); | |
1948 | if (index>=0) { | |
1949 | index1 = sjdl2.Index("\n", index); | |
1950 | sjdl2.Remove(index, index1-index+1); | |
1951 | } | |
f47d5cb4 | 1952 | sjdl2.ReplaceAll("wn.xml", Form("Stage_%s.xml",stageName.Data())); |
a8739e8a | 1953 | // Write jdl to file |
a8739e8a | 1954 | ofstream out; |
d2a409b2 | 1955 | out.open(fJDLName.Data(), ios::out); |
a8739e8a | 1956 | if (out.bad()) { |
d3b18c4c | 1957 | Error("WriteJDL", "Bad file name: %s", fJDLName.Data()); |
a8739e8a | 1958 | return kFALSE; |
1959 | } | |
1960 | out << sjdl << endl; | |
b3e07543 | 1961 | out.close(); |
0f389141 | 1962 | TString mergeJDLName = fExecutable; |
1963 | mergeJDLName.ReplaceAll(".sh", "_merge.jdl"); | |
1964 | if (fMergeViaJDL) { | |
1965 | ofstream out1; | |
1966 | out1.open(mergeJDLName.Data(), ios::out); | |
b3e07543 | 1967 | if (out1.bad()) { |
d3b18c4c | 1968 | Error("WriteJDL", "Bad file name: %s", mergeJDLName.Data()); |
0f389141 | 1969 | return kFALSE; |
1970 | } | |
1971 | out1 << sjdl1 << endl; | |
b3e07543 | 1972 | out1.close(); |
1973 | ofstream out2; | |
1974 | TString finalJDL = mergeJDLName; | |
1975 | finalJDL.ReplaceAll(".jdl", "_final.jdl"); | |
1976 | out2.open(finalJDL.Data(), ios::out); | |
1977 | if (out2.bad()) { | |
1978 | Error("WriteJDL", "Bad file name: %s", finalJDL.Data()); | |
1979 | return kFALSE; | |
1980 | } | |
1981 | out2 << sjdl2 << endl; | |
1982 | out2.close(); | |
0f389141 | 1983 | } |
a8739e8a | 1984 | |
1985 | // Copy jdl to grid workspace | |
1986 | if (!copy) { | |
d3b18c4c | 1987 | Info("WriteJDL", "\n##### You may want to review jdl:%s and analysis macro:%s before running in <submit> mode", fJDLName.Data(), fAnalysisMacro.Data()); |
a8739e8a | 1988 | } else { |
d2a409b2 | 1989 | TString locjdl = Form("%s/%s", fGridOutputDir.Data(),fJDLName.Data()); |
0f389141 | 1990 | TString locjdl1 = Form("%s/%s", fGridOutputDir.Data(),mergeJDLName.Data()); |
b3e07543 | 1991 | TString finalJDL = mergeJDLName; |
1992 | finalJDL.ReplaceAll(".jdl", "_final.jdl"); | |
1993 | TString locjdl2 = Form("%s/%s", fGridOutputDir.Data(),finalJDL.Data()); | |
0f389141 | 1994 | if (fProductionMode) { |
b5fe9cba | 1995 | locjdl = Form("%s/%s", workdir.Data(),fJDLName.Data()); |
0f389141 | 1996 | locjdl1 = Form("%s/%s", workdir.Data(),mergeJDLName.Data()); |
b3e07543 | 1997 | locjdl2 = Form("%s/%s", workdir.Data(),finalJDL.Data()); |
0f389141 | 1998 | } |
d2a409b2 | 1999 | if (FileExists(locjdl)) gGrid->Rm(locjdl); |
0f389141 | 2000 | if (FileExists(locjdl1)) gGrid->Rm(locjdl1); |
b3e07543 | 2001 | if (FileExists(locjdl2)) gGrid->Rm(locjdl2); |
d3b18c4c | 2002 | Info("WriteJDL", "\n##### Copying JDL file <%s> to your AliEn output directory", fJDLName.Data()); |
6c395669 | 2003 | // TFile::Cp(Form("file:%s",fJDLName.Data()), Form("alien://%s", locjdl.Data())); |
2004 | if (!copyLocal2Alien("WriteJDL",fJDLName.Data(),locjdl.Data())) | |
2005 | Fatal("","Terminating"); | |
0f389141 | 2006 | if (fMergeViaJDL) { |
b3e07543 | 2007 | Info("WriteJDL", "\n##### Copying merging JDL files <%s> to your AliEn output directory", mergeJDLName.Data()); |
6c395669 | 2008 | // TFile::Cp(Form("file:%s",mergeJDLName.Data()), Form("alien://%s", locjdl1.Data())); |
2009 | // TFile::Cp(Form("file:%s",finalJDL.Data()), Form("alien://%s", locjdl2.Data())); | |
2010 | if (!copyLocal2Alien("WriteJDL",mergeJDLName.Data(),locjdl1.Data())) | |
2011 | Fatal("","Terminating"); | |
2012 | if (!copyLocal2Alien("WriteJDL",finalJDL.Data(),locjdl2.Data())) | |
2013 | Fatal("","Terminating"); | |
0f389141 | 2014 | } |
a8739e8a | 2015 | } |
2016 | return kTRUE; | |
2017 | } | |
2018 | ||
c57f56b7 | 2019 | //______________________________________________________________________________ |
5513444a | 2020 | Bool_t AliAnalysisAlien::FileExists(const char *lfn) |
c57f56b7 | 2021 | { |
2022 | // Returns true if file exists. | |
5513444a | 2023 | if (!gGrid) return kFALSE; |
2ea55496 | 2024 | TString slfn = lfn; |
2025 | slfn.ReplaceAll("alien://",""); | |
2026 | TGridResult *res = gGrid->Ls(slfn); | |
c57f56b7 | 2027 | if (!res) return kFALSE; |
2028 | TMap *map = dynamic_cast<TMap*>(res->At(0)); | |
2029 | if (!map) { | |
2030 | delete res; | |
2031 | return kFALSE; | |
2032 | } | |
2033 | TObjString *objs = dynamic_cast<TObjString*>(map->GetValue("name")); | |
2034 | if (!objs || !objs->GetString().Length()) { | |
2035 | delete res; | |
2036 | return kFALSE; | |
2037 | } | |
2038 | delete res; | |
2039 | return kTRUE; | |
2040 | } | |
2041 | ||
923e2ca5 | 2042 | //______________________________________________________________________________ |
2043 | Bool_t AliAnalysisAlien::DirectoryExists(const char *dirname) | |
2044 | { | |
2045 | // Returns true if directory exists. Can be also a path. | |
2046 | if (!gGrid) return kFALSE; | |
2047 | // Check if dirname is a path | |
2048 | TString dirstripped = dirname; | |
2049 | dirstripped = dirstripped.Strip(); | |
2050 | dirstripped = dirstripped.Strip(TString::kTrailing, '/'); | |
2051 | TString dir = gSystem->BaseName(dirstripped); | |
2052 | dir += "/"; | |
2053 | TString path = gSystem->DirName(dirstripped); | |
2054 | TGridResult *res = gGrid->Ls(path, "-F"); | |
2055 | if (!res) return kFALSE; | |
2056 | TIter next(res); | |
2057 | TMap *map; | |
2058 | TObject *obj; | |
2059 | while ((map=dynamic_cast<TMap*>(next()))) { | |
2060 | obj = map->GetValue("name"); | |
2061 | if (!obj) break; | |
2062 | if (dir == obj->GetName()) { | |
2063 | delete res; | |
2064 | return kTRUE; | |
2065 | } | |
2066 | } | |
2067 | delete res; | |
2068 | return kFALSE; | |
2069 | } | |
2070 | ||
c57f56b7 | 2071 | //______________________________________________________________________________ |
a2f5fc01 | 2072 | void AliAnalysisAlien::CheckDataType(const char *lfn, Bool_t &isCollection, Bool_t &isXml, Bool_t &useTags) |
c57f56b7 | 2073 | { |
2074 | // Check input data type. | |
a2f5fc01 | 2075 | isCollection = kFALSE; |
2076 | isXml = kFALSE; | |
2077 | useTags = kFALSE; | |
c57f56b7 | 2078 | if (!gGrid) { |
2079 | Error("CheckDataType", "No connection to grid"); | |
2080 | return; | |
2081 | } | |
a2f5fc01 | 2082 | isCollection = IsCollection(lfn); |
c57f56b7 | 2083 | TString msg = "\n##### file: "; |
2084 | msg += lfn; | |
a2f5fc01 | 2085 | if (isCollection) { |
c57f56b7 | 2086 | msg += " type: raw_collection;"; |
2087 | // special treatment for collections | |
a2f5fc01 | 2088 | isXml = kFALSE; |
c57f56b7 | 2089 | // check for tag files in the collection |
2090 | TGridResult *res = gGrid->Command(Form("listFilesFromCollection -z -v %s",lfn), kFALSE); | |
2091 | if (!res) { | |
2092 | msg += " using_tags: No (unknown)"; | |
23329835 | 2093 | Info("CheckDataType", "%s", msg.Data()); |
c57f56b7 | 2094 | return; |
2095 | } | |
2096 | const char* typeStr = res->GetKey(0, "origLFN"); | |
2097 | if (!typeStr || !strlen(typeStr)) { | |
2098 | msg += " using_tags: No (unknown)"; | |
23329835 | 2099 | Info("CheckDataType", "%s", msg.Data()); |
c57f56b7 | 2100 | return; |
2101 | } | |
2102 | TString file = typeStr; | |
a2f5fc01 | 2103 | useTags = file.Contains(".tag"); |
2104 | if (useTags) msg += " using_tags: Yes"; | |
c57f56b7 | 2105 | else msg += " using_tags: No"; |
23329835 | 2106 | Info("CheckDataType", "%s", msg.Data()); |
c57f56b7 | 2107 | return; |
2108 | } | |
2109 | TString slfn(lfn); | |
2110 | slfn.ToLower(); | |
a2f5fc01 | 2111 | isXml = slfn.Contains(".xml"); |
2112 | if (isXml) { | |
c57f56b7 | 2113 | // Open xml collection and check if there are tag files inside |
2114 | msg += " type: xml_collection;"; | |
2115 | TGridCollection *coll = (TGridCollection*)gROOT->ProcessLine(Form("TAlienCollection::Open(\"alien://%s\",1);",lfn)); | |
2116 | if (!coll) { | |
2117 | msg += " using_tags: No (unknown)"; | |
23329835 | 2118 | Info("CheckDataType", "%s", msg.Data()); |
c57f56b7 | 2119 | return; |
2120 | } | |
2121 | TMap *map = coll->Next(); | |
2122 | if (!map) { | |
2123 | msg += " using_tags: No (unknown)"; | |
23329835 | 2124 | Info("CheckDataType", "%s", msg.Data()); |
c57f56b7 | 2125 | return; |
2126 | } | |
2127 | map = (TMap*)map->GetValue(""); | |
2128 | TString file; | |
2129 | if (map && map->GetValue("name")) file = map->GetValue("name")->GetName(); | |
a2f5fc01 | 2130 | useTags = file.Contains(".tag"); |
c57f56b7 | 2131 | delete coll; |
a2f5fc01 | 2132 | if (useTags) msg += " using_tags: Yes"; |
c57f56b7 | 2133 | else msg += " using_tags: No"; |
23329835 | 2134 | Info("CheckDataType", "%s", msg.Data()); |
c57f56b7 | 2135 | return; |
2136 | } | |
a2f5fc01 | 2137 | useTags = slfn.Contains(".tag"); |
c57f56b7 | 2138 | if (slfn.Contains(".root")) msg += " type: root file;"; |
f866cba5 | 2139 | else msg += " type: unknown file;"; |
a2f5fc01 | 2140 | if (useTags) msg += " using_tags: Yes"; |
c57f56b7 | 2141 | else msg += " using_tags: No"; |
23329835 | 2142 | Info("CheckDataType", "%s", msg.Data()); |
c57f56b7 | 2143 | } |
2144 | ||
4e5c5506 | 2145 | //______________________________________________________________________________ |
2146 | void AliAnalysisAlien::EnablePackage(const char *package) | |
2147 | { | |
2148 | // Enables a par file supposed to exist in the current directory. | |
2149 | TString pkg(package); | |
2150 | pkg.ReplaceAll(".par", ""); | |
2151 | pkg += ".par"; | |
2152 | if (gSystem->AccessPathName(pkg)) { | |
ebcdf05e | 2153 | Fatal("EnablePackage", "Package %s not found", pkg.Data()); |
4e5c5506 | 2154 | return; |
2155 | } | |
2156 | if (!TObject::TestBit(AliAnalysisGrid::kUsePars)) | |
2157 | Info("EnablePackage", "AliEn plugin will use .par packages"); | |
2158 | TObject::SetBit(AliAnalysisGrid::kUsePars, kTRUE); | |
2159 | if (!fPackages) { | |
2160 | fPackages = new TObjArray(); | |
2161 | fPackages->SetOwner(); | |
2162 | } | |
2163 | fPackages->Add(new TObjString(pkg)); | |
2164 | } | |
2165 | ||
3bdcb562 | 2166 | //______________________________________________________________________________ |
2167 | TChain *AliAnalysisAlien::GetChainForTestMode(const char *treeName) const | |
2168 | { | |
2169 | // Make a tree from files having the location specified in fFileForTestMode. | |
2170 | // Inspired from JF's CreateESDChain. | |
2171 | if (fFileForTestMode.IsNull()) { | |
2172 | Error("GetChainForTestMode", "For proof test mode please use SetFileForTestMode() pointing to a file that contains data file locations."); | |
2173 | return NULL; | |
2174 | } | |
2175 | if (gSystem->AccessPathName(fFileForTestMode)) { | |
2176 | Error("GetChainForTestMode", "File not found: %s", fFileForTestMode.Data()); | |
2177 | return NULL; | |
2178 | } | |
2179 | // Open the file | |
2180 | ifstream in; | |
2181 | in.open(fFileForTestMode); | |
2182 | Int_t count = 0; | |
2183 | // Read the input list of files and add them to the chain | |
2184 | TString line; | |
2185 | TChain *chain = new TChain(treeName); | |
2186 | while (in.good()) | |
2187 | { | |
2188 | in >> line; | |
2189 | if (line.IsNull()) continue; | |
2190 | if (count++ == fNtestFiles) break; | |
2191 | TString esdFile(line); | |
2192 | TFile *file = TFile::Open(esdFile); | |
2193 | if (file) { | |
2194 | if (!file->IsZombie()) chain->Add(esdFile); | |
2195 | file->Close(); | |
2196 | } else { | |
2197 | Error("GetChainforTestMode", "Skipping un-openable file: %s", esdFile.Data()); | |
2198 | } | |
2199 | } | |
2200 | in.close(); | |
2201 | if (!chain->GetListOfFiles()->GetEntries()) { | |
2202 | Error("GetChainForTestMode", "No file from %s could be opened", fFileForTestMode.Data()); | |
2203 | delete chain; | |
2204 | return NULL; | |
2205 | } | |
2206 | // chain->ls(); | |
2207 | return chain; | |
2208 | } | |
2209 | ||
d2a409b2 | 2210 | //______________________________________________________________________________ |
2211 | const char *AliAnalysisAlien::GetJobStatus(Int_t jobidstart, Int_t lastid, Int_t &nrunning, Int_t &nwaiting, Int_t &nerror, Int_t &ndone) | |
2212 | { | |
2213 | // Get job status for all jobs with jobid>jobidstart. | |
2214 | static char mstatus[20]; | |
2215 | mstatus[0] = '\0'; | |
2216 | nrunning = 0; | |
2217 | nwaiting = 0; | |
2218 | nerror = 0; | |
2219 | ndone = 0; | |
2220 | TGridJobStatusList *list = gGrid->Ps(""); | |
2221 | if (!list) return mstatus; | |
2222 | Int_t nentries = list->GetSize(); | |
2223 | TGridJobStatus *status; | |
2224 | Int_t pid; | |
2225 | for (Int_t ijob=0; ijob<nentries; ijob++) { | |
2226 | status = (TGridJobStatus *)list->At(ijob); | |
8ddad121 | 2227 | pid = gROOT->ProcessLine(Form("atoi(((TAlienJobStatus*)%p)->GetKey(\"queueId\"));", status)); |
d2a409b2 | 2228 | if (pid<jobidstart) continue; |
2229 | if (pid == lastid) { | |
8ddad121 | 2230 | gROOT->ProcessLine(Form("sprintf((char*)%p,((TAlienJobStatus*)%p)->GetKey(\"status\"));",mstatus, status)); |
d2a409b2 | 2231 | } |
2232 | switch (status->GetStatus()) { | |
2233 | case TGridJobStatus::kWAITING: | |
2234 | nwaiting++; break; | |
2235 | case TGridJobStatus::kRUNNING: | |
2236 | nrunning++; break; | |
2237 | case TGridJobStatus::kABORTED: | |
2238 | case TGridJobStatus::kFAIL: | |
2239 | case TGridJobStatus::kUNKNOWN: | |
2240 | nerror++; break; | |
2241 | case TGridJobStatus::kDONE: | |
2242 | ndone++; | |
2243 | } | |
2244 | } | |
2245 | list->Delete(); | |
2246 | delete list; | |
2247 | return mstatus; | |
2248 | } | |
2249 | ||
c57f56b7 | 2250 | //______________________________________________________________________________ |
2251 | Bool_t AliAnalysisAlien::IsCollection(const char *lfn) const | |
2252 | { | |
2253 | // Returns true if file is a collection. Functionality duplicated from | |
2254 | // TAlien::Type() because we don't want to directly depend on TAlien. | |
2255 | if (!gGrid) { | |
2256 | Error("IsCollection", "No connection to grid"); | |
2257 | return kFALSE; | |
2258 | } | |
2259 | TGridResult *res = gGrid->Command(Form("type -z %s",lfn),kFALSE); | |
2260 | if (!res) return kFALSE; | |
2261 | const char* typeStr = res->GetKey(0, "type"); | |
2262 | if (!typeStr || !strlen(typeStr)) return kFALSE; | |
2263 | if (!strcmp(typeStr, "collection")) return kTRUE; | |
2264 | delete res; | |
2265 | return kFALSE; | |
2266 | } | |
2267 | ||
fe2d7fc2 | 2268 | //______________________________________________________________________________ |
2269 | Bool_t AliAnalysisAlien::IsSingleOutput() const | |
2270 | { | |
2271 | // Check if single-ouput option is on. | |
2272 | return (!fOutputSingle.IsNull()); | |
2273 | } | |
2274 | ||
16a4353c | 2275 | //______________________________________________________________________________ |
2276 | void AliAnalysisAlien::Print(Option_t *) const | |
2277 | { | |
2278 | // Print current plugin settings. | |
84fcd93f | 2279 | printf("### AliEn analysis plugin current settings ###\n"); |
d3b18c4c | 2280 | AliAnalysisManager *mgr = AliAnalysisManager::GetAnalysisManager(); |
2281 | if (mgr && mgr->IsProofMode()) { | |
2282 | TString proofType = "= PLUGIN IN PROOF MODE ON CLUSTER:_________________"; | |
2283 | if (TestBit(AliAnalysisGrid::kTest)) | |
2284 | proofType = "= PLUGIN IN PROOF LITE MODE ON CLUSTER:____________"; | |
2285 | printf("%s %s\n", proofType.Data(), fProofCluster.Data()); | |
2286 | if (!fProofDataSet.IsNull()) | |
2287 | printf("= Requested data set:___________________________ %s\n", fProofDataSet.Data()); | |
2288 | if (fProofReset==1) | |
2289 | printf("= Soft reset signal will be send to master______ CHANGE BEHAVIOR AFTER COMPLETION\n"); | |
2290 | if (fProofReset>1) | |
2291 | printf("= Hard reset signal will be send to master______ CHANGE BEHAVIOR AFTER COMPLETION\n"); | |
2292 | if (!fRootVersionForProof.IsNull()) | |
2293 | printf("= ROOT version requested________________________ %s\n", fRootVersionForProof.Data()); | |
2294 | else | |
2295 | printf("= ROOT version requested________________________ default\n"); | |
2296 | printf("= AliRoot version requested_____________________ %s\n", fAliROOTVersion.Data()); | |
2297 | if (!fAliRootMode.IsNull()) | |
2298 | printf("= Requested AliRoot mode________________________ %s\n", fAliRootMode.Data()); | |
2299 | if (fNproofWorkers) | |
2300 | printf("= Number of PROOF workers limited to____________ %d\n", fNproofWorkers); | |
2301 | if (fNproofWorkersPerSlave) | |
2302 | printf("= Maximum number of workers per slave___________ %d\n", fNproofWorkersPerSlave); | |
2303 | if (TestSpecialBit(kClearPackages)) | |
2304 | printf("= ClearPackages requested...\n"); | |
2305 | if (fIncludePath.Data()) | |
2306 | printf("= Include path for runtime task compilation: ___ %s\n", fIncludePath.Data()); | |
2307 | printf("= Additional libs to be loaded or souces to be compiled runtime: <%s>\n",fAdditionalLibs.Data()); | |
2308 | if (fPackages && fPackages->GetEntries()) { | |
2309 | TIter next(fPackages); | |
2310 | TObject *obj; | |
2311 | TString list; | |
2312 | while ((obj=next())) list += obj->GetName(); | |
2313 | printf("= Par files to be used: ________________________ %s\n", list.Data()); | |
2314 | } | |
2315 | if (TestSpecialBit(kProofConnectGrid)) | |
2316 | printf("= Requested PROOF connection to grid\n"); | |
2317 | return; | |
2318 | } | |
e1c22e21 | 2319 | printf("= OverwriteMode:________________________________ %d\n", fOverwriteMode); |
2320 | if (fOverwriteMode) { | |
2321 | printf("***** NOTE: Overwrite mode will overwrite the input generated datasets and partial results from previous analysis. \ | |
2322 | \n***** To disable, use: plugin->SetOverwriteMode(kFALSE);\n"); | |
2323 | } | |
348be253 | 2324 | printf("= Copy files to grid: __________________________ %s\n", (IsUseCopy())?"YES":"NO"); |
2325 | printf("= Check if files can be copied to grid: ________ %s\n", (IsCheckCopy())?"YES":"NO"); | |
84fcd93f | 2326 | printf("= Production mode:______________________________ %d\n", fProductionMode); |
2327 | printf("= Version of API requested: ____________________ %s\n", fAPIVersion.Data()); | |
2328 | printf("= Version of ROOT requested: ___________________ %s\n", fROOTVersion.Data()); | |
2329 | printf("= Version of AliRoot requested: ________________ %s\n", fAliROOTVersion.Data()); | |
16a4353c | 2330 | if (fUser.Length()) |
84fcd93f | 2331 | printf("= User running the plugin: _____________________ %s\n", fUser.Data()); |
2332 | printf("= Grid workdir relative to user $HOME: _________ %s\n", fGridWorkingDir.Data()); | |
2333 | printf("= Grid output directory relative to workdir: ___ %s\n", fGridOutputDir.Data()); | |
2334 | printf("= Data base directory path requested: __________ %s\n", fGridDataDir.Data()); | |
2335 | printf("= Data search pattern: _________________________ %s\n", fDataPattern.Data()); | |
2336 | printf("= Input data format: ___________________________ %s\n", fInputFormat.Data()); | |
16a4353c | 2337 | if (fRunNumbers.Length()) |
84fcd93f | 2338 | printf("= Run numbers to be processed: _________________ %s\n", fRunNumbers.Data()); |
16a4353c | 2339 | if (fRunRange[0]) |
74013535 | 2340 | printf("= Run range to be processed: ___________________ %d-%d\n", fRunRange[0], fRunRange[1]); |
16a4353c | 2341 | if (!fRunRange[0] && !fRunNumbers.Length()) { |
2342 | TIter next(fInputFiles); | |
2343 | TObject *obj; | |
2344 | TString list; | |
2345 | while ((obj=next())) list += obj->GetName(); | |
84fcd93f | 2346 | printf("= Input files to be processed: _________________ %s\n", list.Data()); |
16a4353c | 2347 | } |
2348 | if (TestBit(AliAnalysisGrid::kTest)) | |
84fcd93f | 2349 | printf("= Number of input files used in test mode: _____ %d\n", fNtestFiles); |
2350 | printf("= List of output files to be registered: _______ %s\n", fOutputFiles.Data()); | |
2351 | printf("= List of outputs going to be archived: ________ %s\n", fOutputArchive.Data()); | |
2352 | printf("= List of outputs that should not be merged: ___ %s\n", fMergeExcludes.Data()); | |
37d21c01 | 2353 | printf("= List of outputs that should not be registered: %s\n", fRegisterExcludes.Data()); |
d3b18c4c | 2354 | printf("= List of outputs produced during Terminate: ___ %s\n", fTerminateFiles.Data()); |
84fcd93f | 2355 | printf("=====================================================================\n"); |
2356 | printf("= Job price: ___________________________________ %d\n", fPrice); | |
2357 | printf("= Time to live (TTL): __________________________ %d\n", fTTL); | |
2358 | printf("= Max files per subjob: ________________________ %d\n", fSplitMaxInputFileNumber); | |
16a4353c | 2359 | if (fMaxInitFailed>0) |
84fcd93f | 2360 | printf("= Max number of subjob fails to kill: __________ %d\n", fMaxInitFailed); |
16a4353c | 2361 | if (fMasterResubmitThreshold>0) |
84fcd93f | 2362 | printf("= Resubmit master job if failed subjobs >_______ %d\n", fMasterResubmitThreshold); |
149d288c | 2363 | printf("= Number of replicas for the output files_______ %d\n", fNreplicas); |
319593fb | 2364 | if (fNrunsPerMaster>0) |
84fcd93f | 2365 | printf("= Number of runs per master job: _______________ %d\n", fNrunsPerMaster); |
2366 | printf("= Number of files in one chunk to be merged: ___ %d\n", fMaxMergeFiles); | |
b5b9dee8 | 2367 | printf("= Name of the generated execution script: ______ %s\n", fExecutable.Data()); |
2368 | printf("= Executable command: __________________________ %s\n", fExecutableCommand.Data()); | |
16a4353c | 2369 | if (fArguments.Length()) |
84fcd93f | 2370 | printf("= Arguments for the execution script: __________ %s\n",fArguments.Data()); |
631c0b05 | 2371 | if (fExecutableArgs.Length()) |
2372 | printf("= Arguments after macro name in executable______ %s\n",fExecutableArgs.Data()); | |
84fcd93f | 2373 | printf("= Name of the generated analysis macro: ________ %s\n",fAnalysisMacro.Data()); |
2374 | printf("= User analysis files to be deployed: __________ %s\n",fAnalysisSource.Data()); | |
2375 | printf("= Additional libs to be loaded or souces to be compiled runtime: <%s>\n",fAdditionalLibs.Data()); | |
2376 | printf("= Master jobs split mode: ______________________ %s\n",fSplitMode.Data()); | |
16a4353c | 2377 | if (fDatasetName) |
84fcd93f | 2378 | printf("= Custom name for the dataset to be created: ___ %s\n", fDatasetName.Data()); |
2379 | printf("= Name of the generated JDL: ___________________ %s\n", fJDLName.Data()); | |
16a4353c | 2380 | if (fIncludePath.Data()) |
84fcd93f | 2381 | printf("= Include path for runtime task compilation: ___ %s\n", fIncludePath.Data()); |
16a4353c | 2382 | if (fCloseSE.Length()) |
84fcd93f | 2383 | printf("= Force job outputs to storage element: ________ %s\n", fCloseSE.Data()); |
16a4353c | 2384 | if (fFriendChainName.Length()) |
84fcd93f | 2385 | printf("= Open friend chain file on worker: ____________ %s\n", fFriendChainName.Data()); |
d3b18c4c | 2386 | if (fPackages && fPackages->GetEntries()) { |
16a4353c | 2387 | TIter next(fPackages); |
2388 | TObject *obj; | |
2389 | TString list; | |
2390 | while ((obj=next())) list += obj->GetName(); | |
84fcd93f | 2391 | printf("= Par files to be used: ________________________ %s\n", list.Data()); |
16a4353c | 2392 | } |
2393 | } | |
2394 | ||
c57f56b7 | 2395 | //______________________________________________________________________________ |
2396 | void AliAnalysisAlien::SetDefaults() | |
2397 | { | |
2398 | // Set default values for everything. What cannot be filled will be left empty. | |
2399 | if (fGridJDL) delete fGridJDL; | |
2400 | fGridJDL = (TGridJDL*)gROOT->ProcessLine("new TAlienJDL()"); | |
0f389141 | 2401 | fMergingJDL = (TGridJDL*)gROOT->ProcessLine("new TAlienJDL()"); |
c57f56b7 | 2402 | fPrice = 1; |
2403 | fTTL = 30000; | |
2404 | fSplitMaxInputFileNumber = 100; | |
2405 | fMaxInitFailed = 0; | |
2406 | fMasterResubmitThreshold = 0; | |
bb885a9e | 2407 | fNtestFiles = 10; |
149d288c | 2408 | fNreplicas = 2; |
a8739e8a | 2409 | fRunRange[0] = 0; |
2410 | fRunRange[1] = 0; | |
8e3bd06a | 2411 | fRunPrefix = "%d"; |
319593fb | 2412 | fNrunsPerMaster = 1; |
16a4353c | 2413 | fMaxMergeFiles = 100; |
c57f56b7 | 2414 | fRunNumbers = ""; |
2415 | fExecutable = "analysis.sh"; | |
0a1c1f7f | 2416 | fExecutableCommand = "root -b -q"; |
c57f56b7 | 2417 | fArguments = ""; |
631c0b05 | 2418 | fExecutableArgs = ""; |
c57f56b7 | 2419 | fAnalysisMacro = "myAnalysis.C"; |
2420 | fAnalysisSource = ""; | |
2421 | fAdditionalLibs = ""; | |
2422 | fSplitMode = "se"; | |
2423 | fAPIVersion = ""; | |
2424 | fROOTVersion = ""; | |
2425 | fAliROOTVersion = ""; | |
2426 | fUser = ""; // Your alien user name | |
2427 | fGridWorkingDir = ""; | |
2428 | fGridDataDir = ""; // Can be like: /alice/sim/PDC_08a/LHC08c9/ | |
2429 | fDataPattern = "*AliESDs.root"; // Can be like: *AliESDs.root, */pass1/*AliESDs.root, ... | |
0df6ccf2 | 2430 | fFriendChainName = ""; |
c57f56b7 | 2431 | fGridOutputDir = "output"; |
b83f84f0 | 2432 | fOutputArchive = "log_archive.zip:std*@disk=1 root_archive.zip:*.root@disk=2"; |
c57f56b7 | 2433 | fOutputFiles = ""; // Like "AliAODs.root histos.root" |
2434 | fInputFormat = "xml-single"; | |
2435 | fJDLName = "analysis.jdl"; | |
c6cb3634 | 2436 | fJobTag = "Automatically generated analysis JDL"; |
bb885a9e | 2437 | fMergeExcludes = ""; |
0f389141 | 2438 | fMergeViaJDL = 0; |
348be253 | 2439 | SetUseCopy(kTRUE); |
2440 | SetCheckCopy(kTRUE); | |
149d288c | 2441 | SetDefaultOutputs(kTRUE); |
e1c22e21 | 2442 | fOverwriteMode = 1; |
c57f56b7 | 2443 | } |
2444 | ||
0f389141 | 2445 | //______________________________________________________________________________ |
b3e07543 | 2446 | Bool_t AliAnalysisAlien::CheckMergedFiles(const char *filename, const char *aliendir, Int_t nperchunk, const char *jdl) |
0f389141 | 2447 | { |
b3e07543 | 2448 | // Checks current merge stage, makes xml for the next stage, counts number of files, submits next stage. |
2449 | // First check if the result is already in the output directory. | |
2450 | if (FileExists(Form("%s/%s",aliendir,filename))) { | |
2451 | printf("Final merged results found. Not merging again.\n"); | |
7c2cd90a | 2452 | return kFALSE; |
2453 | } | |
b3e07543 | 2454 | // Now check the last stage done. |
2455 | Int_t stage = 0; | |
2456 | while (1) { | |
2457 | if (!FileExists(Form("%s/Stage_%d.xml",aliendir, stage+1))) break; | |
2458 | stage++; | |
2459 | } | |
2460 | // Next stage of merging | |
2461 | stage++; | |
2462 | TString pattern = "*root_archive.zip"; | |
2463 | if (stage>1) pattern = Form("Stage_%d/*root_archive.zip", stage-1); | |
2464 | TGridResult *res = gGrid->Command(Form("find -x Stage_%d %s %s", stage, aliendir, pattern.Data())); | |
2465 | if (res) delete res; | |
2466 | // Write standard output to file | |
2467 | gROOT->ProcessLine(Form("gGrid->Stdout(); > %s", Form("Stage_%d.xml",stage))); | |
2468 | // Count the number of files inside | |
2469 | ifstream ifile; | |
2470 | ifile.open(Form("Stage_%d.xml",stage)); | |
2471 | if (!ifile.good()) { | |
2472 | ::Error("CheckMergedFiles", "Could not redirect result of the find command to file %s", Form("Stage_%d.xml",stage)); | |
7c2cd90a | 2473 | return kFALSE; |
b3e07543 | 2474 | } |
2475 | TString line; | |
2476 | Int_t nfiles = 0; | |
2477 | while (!ifile.eof()) { | |
2478 | ifile >> line; | |
2479 | if (line.Contains("/event")) nfiles++; | |
7c2cd90a | 2480 | } |
b3e07543 | 2481 | ifile.close(); |
2482 | if (!nfiles) { | |
2483 | ::Error("CheckMergedFiles", "Cannot start Stage_%d merging since Stage_%d did not produced yet output", stage, stage-1); | |
2484 | return kFALSE; | |
2485 | } else { | |
2486 | printf("=== Stage_%d produced %d files\n", stage-1, nfiles); | |
7ae54d70 | 2487 | } |
b3e07543 | 2488 | // Copy the file in the output directory |
2489 | printf("===> Copying collection %s in the output directory %s\n", Form("Stage_%d.xml",stage), aliendir); | |
43d5e2dc | 2490 | // TFile::Cp(Form("Stage_%d.xml",stage), Form("alien://%s/Stage_%d.xml",aliendir,stage)); |
6c395669 | 2491 | if (!copyLocal2Alien("CheckMergedFiles", Form("Stage_%d.xml",stage), |
2492 | Form("%s/Stage_%d.xml",aliendir,stage))) Fatal("","Terminating"); | |
b3e07543 | 2493 | // Check if this is the last stage to be done. |
2494 | Bool_t laststage = (nfiles<nperchunk); | |
2495 | if (fMaxMergeStages && stage>=fMaxMergeStages) laststage = kTRUE; | |
2496 | if (laststage) { | |
2497 | printf("### Submiting final merging stage %d\n", stage); | |
2498 | TString finalJDL = jdl; | |
2499 | finalJDL.ReplaceAll(".jdl", "_final.jdl"); | |
03335324 | 2500 | TString query = Form("submit %s %s %d", finalJDL.Data(), aliendir, stage); |
b3e07543 | 2501 | Int_t jobId = SubmitSingleJob(query); |
2502 | if (!jobId) return kFALSE; | |
2503 | } else { | |
2504 | printf("### Submiting merging stage %d\n", stage); | |
03335324 | 2505 | TString query = Form("submit %s %s %d", jdl, aliendir, stage); |
b3e07543 | 2506 | Int_t jobId = SubmitSingleJob(query); |
2507 | if (!jobId) return kFALSE; | |
7c2cd90a | 2508 | } |
b3e07543 | 2509 | return kTRUE; |
2510 | } | |
7c2cd90a | 2511 | |
105631b5 | 2512 | //______________________________________________________________________________ |
2513 | AliAnalysisManager *AliAnalysisAlien::LoadAnalysisManager(const char *fname) | |
2514 | { | |
2515 | // Loat the analysis manager from a file. | |
2516 | TFile *file = TFile::Open(fname); | |
2517 | if (!file) { | |
2518 | ::Error("LoadAnalysisManager", "Cannot open file %s", fname); | |
2519 | return 0; | |
2520 | } | |
2521 | TIter nextkey(file->GetListOfKeys()); | |
2522 | AliAnalysisManager *mgr = 0; | |
2523 | TKey *key; | |
2524 | while ((key=(TKey*)nextkey())) { | |
2525 | if (!strcmp(key->GetClassName(), "AliAnalysisManager")) | |
2526 | mgr = (AliAnalysisManager*)file->Get(key->GetName()); | |
2527 | } | |
2528 | if (!mgr) | |
2529 | ::Error("LoadAnalysisManager", "No analysis manager found in file %s", fname); | |
2530 | return mgr; | |
2531 | } | |
2532 | ||
7c2cd90a | 2533 | //______________________________________________________________________________ |
2534 | Int_t AliAnalysisAlien::SubmitSingleJob(const char *query) | |
2535 | { | |
2536 | // Submits a single job corresponding to the query and returns job id. If 0 submission failed. | |
2537 | if (!gGrid) return 0; | |
2538 | printf("=> %s ------> ",query); | |
2539 | TGridResult *res = gGrid->Command(query); | |
2540 | if (!res) return 0; | |
2541 | TString jobId = res->GetKey(0,"jobId"); | |
2542 | delete res; | |
2543 | if (jobId.IsNull()) { | |
2544 | printf("submission failed. Reason:\n"); | |
2545 | gGrid->Stdout(); | |
2546 | gGrid->Stderr(); | |
2547 | ::Error("SubmitSingleJob", "Your query %s could not be submitted", query); | |
2548 | return 0; | |
2549 | } | |
2550 | printf(" Job id: %s\n", jobId.Data()); | |
2551 | return atoi(jobId); | |
2552 | } | |
2553 | ||
2554 | //______________________________________________________________________________ | |
b3e07543 | 2555 | Bool_t AliAnalysisAlien::MergeOutput(const char *output, const char *basedir, Int_t nmaxmerge, Int_t stage) |
7c2cd90a | 2556 | { |
b3e07543 | 2557 | // Merge given output files from basedir. Basedir can be an alien output directory |
2558 | // but also an xml file with root_archive.zip locations. The file merger will merge nmaxmerge | |
2559 | // files in a group (ignored for xml input). Merging can be done in stages: | |
2560 | // stage=0 : will merge all existing files in a single stage, supporting resume if run locally | |
2561 | // stage=1 : works with an xml of all root_archive.zip in the output directory | |
2562 | // stage>1 : works with an xml of all root_archive.zip in the Stage_<n-1> directory | |
a2f5fc01 | 2563 | TString outputFile = output; |
0f389141 | 2564 | TString command; |
a2f5fc01 | 2565 | TString outputChunk; |
2566 | TString previousChunk = ""; | |
b3e07543 | 2567 | TObjArray *listoffiles = new TObjArray(); |
2568 | // listoffiles->SetOwner(); | |
a2f5fc01 | 2569 | Int_t countChunk = 0; |
2570 | Int_t countZero = nmaxmerge; | |
0f389141 | 2571 | Bool_t merged = kTRUE; |
a2f5fc01 | 2572 | Int_t index = outputFile.Index("@"); |
2573 | if (index > 0) outputFile.Remove(index); | |
7c2cd90a | 2574 | TString inputFile = outputFile; |
b3e07543 | 2575 | TString sbasedir = basedir; |
2576 | if (sbasedir.Contains(".xml")) { | |
2577 | // Merge files pointed by the xml - ignore nmaxmerge and set ichunk to 0 | |
2578 | nmaxmerge = 9999999; | |
2579 | TGridCollection *coll = (TGridCollection*)gROOT->ProcessLine(Form("TAlienCollection::Open(\"%s\");", basedir)); | |
2580 | if (!coll) { | |
2581 | ::Error("MergeOutput", "Input XML collection empty."); | |
2582 | return kFALSE; | |
2583 | } | |
2584 | // Iterate grid collection | |
2585 | while (coll->Next()) { | |
2586 | TString fname = gSystem->DirName(coll->GetTURL()); | |
2587 | fname += "/"; | |
2588 | fname += inputFile; | |
2589 | listoffiles->Add(new TNamed(fname.Data(),"")); | |
2590 | } | |
2591 | } else { | |
2592 | command = Form("find %s/ *%s", basedir, inputFile.Data()); | |
2593 | printf("command: %s\n", command.Data()); | |
2594 | TGridResult *res = gGrid->Command(command); | |
2595 | if (!res) { | |
2596 | ::Error("MergeOutput","No result for the find command\n"); | |
2597 | delete listoffiles; | |
2598 | return kFALSE; | |
2599 | } | |
2600 | TIter nextmap(res); | |
2601 | TMap *map = 0; | |
2602 | while ((map=(TMap*)nextmap())) { | |
2603 | TObjString *objs = dynamic_cast<TObjString*>(map->GetValue("turl")); | |
2604 | if (!objs || !objs->GetString().Length()) { | |
2605 | // Nothing found - skip this output | |
2606 | delete res; | |
2607 | delete listoffiles; | |
2608 | return kFALSE; | |
2609 | } | |
2610 | listoffiles->Add(new TNamed(objs->GetName(),"")); | |
2611 | } | |
2612 | delete res; | |
2613 | } | |
2614 | if (!listoffiles->GetEntries()) { | |
7c2cd90a | 2615 | ::Error("MergeOutput","No result for the find command\n"); |
b3e07543 | 2616 | delete listoffiles; |
0f389141 | 2617 | return kFALSE; |
2618 | } | |
2619 | ||
2620 | TFileMerger *fm = 0; | |
b3e07543 | 2621 | TIter next0(listoffiles); |
2622 | TObjArray *listoffilestmp = new TObjArray(); | |
2623 | listoffilestmp->SetOwner(); | |
2624 | TObject *nextfile; | |
2625 | TString snextfile; | |
2626 | // Keep only the files at upper level | |
2627 | Int_t countChar = 0; | |
2628 | while ((nextfile=next0())) { | |
2629 | snextfile = nextfile->GetName(); | |
2630 | Int_t crtCount = snextfile.CountChar('/'); | |
2631 | if (nextfile == listoffiles->First()) countChar = crtCount; | |
2632 | if (crtCount < countChar) countChar = crtCount; | |
2633 | } | |
2634 | next0.Reset(); | |
2635 | while ((nextfile=next0())) { | |
2636 | snextfile = nextfile->GetName(); | |
2637 | Int_t crtCount = snextfile.CountChar('/'); | |
2638 | if (crtCount > countChar) { | |
2639 | delete nextfile; | |
2640 | continue; | |
2641 | } | |
2642 | listoffilestmp->Add(nextfile); | |
2643 | } | |
2644 | delete listoffiles; | |
2645 | listoffiles = listoffilestmp; // Now contains 'good' files | |
2646 | listoffiles->Print(); | |
2647 | TIter next(listoffiles); | |
7c2cd90a | 2648 | // Check if there is a merge operation to resume. Works only for stage 0 or 1. |
a2f5fc01 | 2649 | outputChunk = outputFile; |
2650 | outputChunk.ReplaceAll(".root", "_*.root"); | |
0f389141 | 2651 | // Check for existent temporary merge files |
e1c22e21 | 2652 | // Check overwrite mode and remove previous partial results if needed |
7c2cd90a | 2653 | // Preserve old merging functionality for stage 0. |
2654 | if (stage==0) { | |
2655 | if (!gSystem->Exec(Form("ls %s 2>/dev/null", outputChunk.Data()))) { | |
2656 | while (1) { | |
2657 | // Skip as many input files as in a chunk | |
2ea55496 | 2658 | for (Int_t counter=0; counter<nmaxmerge; counter++) { |
b3e07543 | 2659 | nextfile = next(); |
2660 | if (!nextfile) { | |
2ea55496 | 2661 | ::Error("MergeOutput", "Mismatch found. Please remove partial merged files from local dir."); |
b3e07543 | 2662 | delete listoffiles; |
2ea55496 | 2663 | return kFALSE; |
2664 | } | |
b3e07543 | 2665 | snextfile = nextfile->GetName(); |
7c2cd90a | 2666 | } |
2667 | outputChunk = outputFile; | |
2668 | outputChunk.ReplaceAll(".root", Form("_%04d.root", countChunk)); | |
2669 | countChunk++; | |
2670 | if (gSystem->AccessPathName(outputChunk)) continue; | |
2671 | // Merged file with chunks up to <countChunk> found | |
2672 | ::Info("MergeOutput", "Resume merging of <%s> from <%s>\n", outputFile.Data(), outputChunk.Data()); | |
2673 | previousChunk = outputChunk; | |
2674 | break; | |
2675 | } | |
2676 | } | |
2677 | countZero = nmaxmerge; | |
2678 | ||
b3e07543 | 2679 | while ((nextfile=next())) { |
2680 | snextfile = nextfile->GetName(); | |
2ea55496 | 2681 | // Loop 'find' results and get next LFN |
7c2cd90a | 2682 | if (countZero == nmaxmerge) { |
2683 | // First file in chunk - create file merger and add previous chunk if any. | |
2b895f34 | 2684 | fm = new TFileMerger(kTRUE); |
7c2cd90a | 2685 | fm->SetFastMethod(kTRUE); |
2686 | if (previousChunk.Length()) fm->AddFile(previousChunk.Data()); | |
2687 | outputChunk = outputFile; | |
2688 | outputChunk.ReplaceAll(".root", Form("_%04d.root", countChunk)); | |
2689 | } | |
2690 | // If last file found, put merged results in the output file | |
b3e07543 | 2691 | if (nextfile == listoffiles->Last()) outputChunk = outputFile; |
7c2cd90a | 2692 | // Add file to be merged and decrement chunk counter. |
b3e07543 | 2693 | fm->AddFile(snextfile); |
7c2cd90a | 2694 | countZero--; |
b3e07543 | 2695 | if (countZero==0 || nextfile == listoffiles->Last()) { |
7c2cd90a | 2696 | if (!fm->GetMergeList() || !fm->GetMergeList()->GetSize()) { |
2697 | // Nothing found - skip this output | |
2698 | ::Warning("MergeOutput", "No <%s> files found.", inputFile.Data()); | |
b3e07543 | 2699 | merged = kFALSE; |
2700 | break; | |
7c2cd90a | 2701 | } |
2702 | fm->OutputFile(outputChunk); | |
2703 | // Merge the outputs, then go to next chunk | |
2704 | if (!fm->Merge()) { | |
2705 | ::Error("MergeOutput", "Could not merge all <%s> files", outputFile.Data()); | |
b3e07543 | 2706 | merged = kFALSE; |
2707 | break; | |
7c2cd90a | 2708 | } else { |
2709 | ::Info("MergeOutputs", "\n##### Merged %d output files to <%s>", fm->GetMergeList()->GetSize(), outputChunk.Data()); | |
2710 | gSystem->Unlink(previousChunk); | |
2711 | } | |
b3e07543 | 2712 | if (nextfile == listoffiles->Last()) break; |
7c2cd90a | 2713 | countChunk++; |
2714 | countZero = nmaxmerge; | |
2715 | previousChunk = outputChunk; | |
0f389141 | 2716 | } |
0f389141 | 2717 | } |
b3e07543 | 2718 | delete listoffiles; |
2719 | delete fm; | |
7c2cd90a | 2720 | return merged; |
2721 | } | |
2722 | // Merging stage different than 0. | |
2723 | // Move to the begining of the requested chunk. | |
2b895f34 | 2724 | fm = new TFileMerger(kTRUE); |
7c2cd90a | 2725 | fm->SetFastMethod(kTRUE); |
b3e07543 | 2726 | while ((nextfile=next())) fm->AddFile(nextfile->GetName()); |
2727 | delete listoffiles; | |
7c2cd90a | 2728 | if (!fm->GetMergeList() || !fm->GetMergeList()->GetSize()) { |
2729 | // Nothing found - skip this output | |
2730 | ::Warning("MergeOutput", "No <%s> files found.", inputFile.Data()); | |
2731 | delete fm; | |
2732 | return kFALSE; | |
2733 | } | |
b3e07543 | 2734 | fm->OutputFile(outputFile); |
7c2cd90a | 2735 | // Merge the outputs |
2736 | if (!fm->Merge()) { | |
2737 | ::Error("MergeOutput", "Could not merge all <%s> files", outputFile.Data()); | |
2738 | delete fm; | |
2739 | return kFALSE; | |
2740 | } else { | |
b3e07543 | 2741 | ::Info("MergeOutput", "\n##### Merged %d output files to <%s>", fm->GetMergeList()->GetSize(), outputFile.Data()); |
0f389141 | 2742 | } |
7c2cd90a | 2743 | delete fm; |
2744 | return kTRUE; | |
0f389141 | 2745 | } |
2746 | ||
c57f56b7 | 2747 | //______________________________________________________________________________ |
2748 | Bool_t AliAnalysisAlien::MergeOutputs() | |
2749 | { | |
2750 | // Merge analysis outputs existing in the AliEn space. | |
2751 | if (TestBit(AliAnalysisGrid::kTest)) return kTRUE; | |
2752 | if (TestBit(AliAnalysisGrid::kOffline)) return kFALSE; | |
2753 | if (!Connect()) { | |
2754 | Error("MergeOutputs", "Cannot merge outputs without grid connection. Terminate will NOT be executed"); | |
2755 | return kFALSE; | |
0f389141 | 2756 | } |
c9e8f7fd | 2757 | if (fMergeViaJDL) { |
2758 | if (!TestBit(AliAnalysisGrid::kMerge)) { | |
2759 | Info("MergeOutputs", "### Re-run with <MergeViaJDL> option in terminate mode of the plugin to submit merging jobs ###"); | |
2760 | return kFALSE; | |
2761 | } | |
2762 | if (fProductionMode) { | |
2763 | Info("MergeOutputs", "### Merging will be submitted by LPM manager... ###"); | |
2764 | return kFALSE; | |
2765 | } | |
0f389141 | 2766 | Info("MergeOutputs", "Submitting merging JDL"); |
a03be957 | 2767 | if (!SubmitMerging()) return kFALSE; |
0f389141 | 2768 | Info("MergeOutputs", "### Re-run with <MergeViaJDL> off to collect results after merging jobs are done ###"); |
c9e8f7fd | 2769 | Info("MergeOutputs", "### The Terminate() method is executed by the merging jobs"); |
001cb79e | 2770 | return kFALSE; |
c57f56b7 | 2771 | } |
2772 | // Get the output path | |
dc030a24 | 2773 | if (!fGridOutputDir.Contains("/")) fGridOutputDir = Form("%s/%s/%s", gGrid->GetHomeDirectory(), fGridWorkingDir.Data(), fGridOutputDir.Data()); |
923e2ca5 | 2774 | if (!DirectoryExists(fGridOutputDir)) { |
c57f56b7 | 2775 | Error("MergeOutputs", "Grid output directory %s not found. Terminate() will NOT be executed", fGridOutputDir.Data()); |
2776 | return kFALSE; | |
2777 | } | |
2778 | if (!fOutputFiles.Length()) { | |
2779 | Error("MergeOutputs", "No output file names defined. Are you running the right AliAnalysisAlien configuration ?"); | |
2780 | return kFALSE; | |
0f389141 | 2781 | } |
2782 | // Check if fast read option was requested | |
e1c22e21 | 2783 | Info("MergeOutputs", "Started local merging of output files from: alien://%s \ |
2784 | \n======= overwrite mode = %d", fGridOutputDir.Data(), (Int_t)fOverwriteMode); | |
0f389141 | 2785 | if (fFastReadOption) { |
d3339be3 | 2786 | Warning("MergeOutputs", "You requested FastRead option. Using xrootd flags to reduce timeouts. This may skip some files that could be accessed ! \ |
2787 | \n+++ NOTE: To disable this option, use: plugin->SetFastReadOption(kFALSE)"); | |
b3e07543 | 2788 | gEnv->SetValue("XNet.ConnectTimeout",50); |
2789 | gEnv->SetValue("XNet.RequestTimeout",50); | |
0f389141 | 2790 | gEnv->SetValue("XNet.MaxRedirectCount",2); |
b3e07543 | 2791 | gEnv->SetValue("XNet.ReconnectTimeout",50); |
0f389141 | 2792 | gEnv->SetValue("XNet.FirstConnectMaxCnt",1); |
c57f56b7 | 2793 | } |
e8b839ab | 2794 | // Make sure we change the temporary directory |
2795 | gSystem->Setenv("TMPDIR", gSystem->pwd()); | |
70c52cf3 | 2796 | // Set temporary compilation directory to current one |
2797 | gSystem->SetBuildDir(gSystem->pwd(), kTRUE); | |
149d288c | 2798 | TObjArray *list = fOutputFiles.Tokenize(","); |
c57f56b7 | 2799 | TIter next(list); |
2800 | TObjString *str; | |
a2f5fc01 | 2801 | TString outputFile; |
c57f56b7 | 2802 | Bool_t merged = kTRUE; |
2803 | while((str=(TObjString*)next())) { | |
a2f5fc01 | 2804 | outputFile = str->GetString(); |
2805 | Int_t index = outputFile.Index("@"); | |
2806 | if (index > 0) outputFile.Remove(index); | |
2807 | TString outputChunk = outputFile; | |
2808 | outputChunk.ReplaceAll(".root", "_*.root"); | |
319593fb | 2809 | // Skip already merged outputs |
a2f5fc01 | 2810 | if (!gSystem->AccessPathName(outputFile)) { |
e1c22e21 | 2811 | if (fOverwriteMode) { |
a2f5fc01 | 2812 | Info("MergeOutputs", "Overwrite mode. Existing file %s was deleted.", outputFile.Data()); |
2813 | gSystem->Unlink(outputFile); | |
2814 | if (!gSystem->Exec(Form("ls %s 2>/dev/null", outputChunk.Data()))) { | |
e1c22e21 | 2815 | Info("MergeOutput", "Overwrite mode: partial merged files %s will removed", |
a2f5fc01 | 2816 | outputChunk.Data()); |
2817 | gSystem->Exec(Form("rm -f %s", outputChunk.Data())); | |
e1c22e21 | 2818 | } |
2819 | } else { | |
a2f5fc01 | 2820 | Info("MergeOutputs", "Output file <%s> found. Not merging again.", outputFile.Data()); |
e1c22e21 | 2821 | continue; |
2822 | } | |
2823 | } else { | |
a2f5fc01 | 2824 | if (!gSystem->Exec(Form("ls %s 2>/dev/null", outputChunk.Data()))) { |
e1c22e21 | 2825 | Info("MergeOutput", "Overwrite mode: partial merged files %s will removed", |
a2f5fc01 | 2826 | outputChunk.Data()); |
2827 | gSystem->Exec(Form("rm -f %s", outputChunk.Data())); | |
e1c22e21 | 2828 | } |
2829 | } | |
37d21c01 | 2830 | if (fMergeExcludes.Contains(outputFile.Data()) || |
2831 | fRegisterExcludes.Contains(outputFile.Data())) continue; | |
16a4353c | 2832 | // Perform a 'find' command in the output directory, looking for registered outputs |
a2f5fc01 | 2833 | merged = MergeOutput(outputFile, fGridOutputDir, fMaxMergeFiles); |
0f389141 | 2834 | if (!merged) { |
2835 | Error("MergeOutputs", "Terminate() will NOT be executed"); | |
2836 | return kFALSE; | |
ff07ec61 | 2837 | } |
2838 | TFile *fileOpened = (TFile*)gROOT->GetListOfFiles()->FindObject(outputFile); | |
2839 | if (fileOpened) fileOpened->Close(); | |
c57f56b7 | 2840 | } |
0f389141 | 2841 | return kTRUE; |
c57f56b7 | 2842 | } |
2843 | ||
bb885a9e | 2844 | //______________________________________________________________________________ |
2845 | void AliAnalysisAlien::SetDefaultOutputs(Bool_t flag) | |
2846 | { | |
2847 | // Use the output files connected to output containers from the analysis manager | |
2848 | // rather than the files defined by SetOutputFiles | |
2849 | if (flag && !TObject::TestBit(AliAnalysisGrid::kDefaultOutputs)) | |
205b201f | 2850 | Info("SetDefaultOutputs", "Plugin will use the output files taken from analysis manager"); |
bb885a9e | 2851 | TObject::SetBit(AliAnalysisGrid::kDefaultOutputs, flag); |
2852 | } | |
2853 | ||
149d288c | 2854 | //______________________________________________________________________________ |
2855 | void AliAnalysisAlien::SetOutputFiles(const char *list) | |
2856 | { | |
2857 | // Manually set the output files list. | |
2858 | // Removes duplicates. Not allowed if default outputs are not disabled. | |
2859 | if (TObject::TestBit(AliAnalysisGrid::kDefaultOutputs)) { | |
2860 | Fatal("SetOutputFiles", "You have to explicitly call SetDefaultOutputs(kFALSE) to manually set output files."); | |
2861 | return; | |
2862 | } | |
2863 | Info("SetOutputFiles", "Output file list is set manually - you are on your own."); | |
2864 | fOutputFiles = ""; | |
2865 | TString slist = list; | |
2866 | if (slist.Contains("@")) Warning("SetOutputFiles","The plugin does not allow explicit SE's. Please use: SetNumberOfReplicas() instead."); | |
2867 | TObjArray *arr = slist.Tokenize(" "); | |
2868 | TObjString *os; | |
2869 | TIter next(arr); | |
2870 | TString sout; | |
2871 | while ((os=(TObjString*)next())) { | |
2872 | sout = os->GetString(); | |
2873 | if (sout.Index("@")>0) sout.Remove(sout.Index("@")); | |
2874 | if (fOutputFiles.Contains(sout)) continue; | |
2875 | if (!fOutputFiles.IsNull()) fOutputFiles += ","; | |
2876 | fOutputFiles += sout; | |
2877 | } | |
2878 | delete arr; | |
f790bc1b | 2879 | } |
149d288c | 2880 | |
2881 | //______________________________________________________________________________ | |
2882 | void AliAnalysisAlien::SetOutputArchive(const char *list) | |
2883 | { | |
2884 | // Manually set the output archive list. Free text - you are on your own... | |
2885 | // Not allowed if default outputs are not disabled. | |
2886 | if (TObject::TestBit(AliAnalysisGrid::kDefaultOutputs)) { | |
2887 | Fatal("SetOutputArchive", "You have to explicitly call SetDefaultOutputs(kFALSE) to manually set the output archives."); | |
2888 | return; | |
2889 | } | |
2890 | Info("SetOutputArchive", "Output archive is set manually - you are on your own."); | |
2891 | fOutputArchive = list; | |
2892 | } | |
2893 | ||
2894 | //______________________________________________________________________________ | |
2895 | void AliAnalysisAlien::SetPreferedSE(const char */*se*/) | |
2896 | { | |
2897 | // Setting a prefered output SE is not allowed anymore. | |
2898 | Warning("SetPreferedSE", "Setting a preferential SE is not allowed anymore via the plugin. Use SetNumberOfReplicas() and SetDefaultOutputs()"); | |
2899 | } | |
2900 | ||
28ce6c9c | 2901 | //______________________________________________________________________________ |
2902 | void AliAnalysisAlien::SetProofParameter(const char *pname, const char *value) | |
2903 | { | |
2904 | // Set some PROOF special parameter. | |
2905 | TPair *pair = dynamic_cast<TPair*>(fProofParam.FindObject(pname)); | |
2906 | if (pair) { | |
2907 | TObject *old = pair->Key(); | |
2908 | TObject *val = pair->Value(); | |
2909 | fProofParam.Remove(old); | |
2910 | delete old; | |
2911 | delete val; | |
2912 | } | |
2913 | fProofParam.Add(new TObjString(pname), new TObjString(value)); | |
2914 | } | |
2915 | ||
2916 | //______________________________________________________________________________ | |
2917 | const char *AliAnalysisAlien::GetProofParameter(const char *pname) const | |
2918 | { | |
2919 | // Returns a special PROOF parameter. | |
2920 | TPair *pair = dynamic_cast<TPair*>(fProofParam.FindObject(pname)); | |
2921 | if (!pair) return 0; | |
2922 | return pair->Value()->GetName(); | |
2923 | } | |
2924 | ||
5513444a | 2925 | //______________________________________________________________________________ |
2926 | Bool_t AliAnalysisAlien::StartAnalysis(Long64_t /*nentries*/, Long64_t /*firstEntry*/) | |
c57f56b7 | 2927 | { |
2928 | // Start remote grid analysis. | |
3bdcb562 | 2929 | AliAnalysisManager *mgr = AliAnalysisManager::GetAnalysisManager(); |
2930 | Bool_t testMode = TestBit(AliAnalysisGrid::kTest); | |
2931 | if (!mgr || !mgr->IsInitialized()) { | |
2932 | Error("StartAnalysis", "You need an initialized analysis manager for this"); | |
2933 | return kFALSE; | |
2934 | } | |
2935 | // Are we in PROOF mode ? | |
2936 | if (mgr->IsProofMode()) { | |
baa34407 | 2937 | if (testMode) Info("StartAnalysis", "##### Starting PROOF analysis with Proof Lite via the plugin #####"); |
2938 | else Info("StartAnalysis", "##### Starting PROOF analysis on cluster <%s> via the plugin #####", fProofCluster.Data()); | |
3bdcb562 | 2939 | if (fProofCluster.IsNull()) { |
2940 | Error("StartAnalysis", "You need to specify the proof cluster name via SetProofCluster"); | |
2941 | return kFALSE; | |
2942 | } | |
2943 | if (fProofDataSet.IsNull() && !testMode) { | |
2944 | Error("StartAnalysis", "You need to specify a dataset using SetProofDataSet()"); | |
2945 | return kFALSE; | |
2946 | } | |
2947 | // Set the needed environment | |
2948 | gEnv->SetValue("XSec.GSI.DelegProxy","2"); | |
2949 | // Do we need to reset PROOF ? The success of the Reset operation cannot be checked | |
2950 | if (fProofReset && !testMode) { | |
2951 | if (fProofReset==1) { | |
2952 | Info("StartAnalysis", "Sending soft reset signal to proof cluster %s", fProofCluster.Data()); | |
2953 | gROOT->ProcessLine(Form("TProof::Reset(\"%s\", kFALSE);", fProofCluster.Data())); | |
2954 | } else { | |
2955 | Info("StartAnalysis", "Sending hard reset signal to proof cluster %s", fProofCluster.Data()); | |
2956 | gROOT->ProcessLine(Form("TProof::Reset(\"%s\", kTRUE);", fProofCluster.Data())); | |
2957 | } | |
2958 | Info("StartAnalysis", "Stopping the analysis. Please use SetProofReset(0) to resume."); | |
2959 | return kFALSE; | |
2960 | } | |
baa34407 | 2961 | |
2962 | if (!testMode) { | |
2963 | // Check if there is an old active session | |
2964 | Long_t nsessions = gROOT->ProcessLine(Form("TProof::Mgr(\"%s\")->QuerySessions(\"\")->GetEntries();", fProofCluster.Data())); | |
2965 | if (nsessions) { | |
2966 | Error("StartAnalysis","You have to reset your old session first\n"); | |
2967 | return kFALSE; | |
2968 | } | |
53911ca6 | 2969 | } |
3bdcb562 | 2970 | // Do we need to change the ROOT version ? The success of this cannot be checked. |
2971 | if (!fRootVersionForProof.IsNull() && !testMode) { | |
2972 | gROOT->ProcessLine(Form("TProof::Mgr(\"%s\")->SetROOTVersion(\"%s\");", | |
2973 | fProofCluster.Data(), fRootVersionForProof.Data())); | |
2974 | } | |
2975 | // Connect to PROOF and check the status | |
2976 | Long_t proof = 0; | |
27734f0e | 2977 | TString sworkers; |
2978 | if (fNproofWorkersPerSlave) sworkers = Form("workers=%dx", fNproofWorkersPerSlave); | |
2979 | else if (fNproofWorkers) sworkers = Form("workers=%d", fNproofWorkers); | |
3bdcb562 | 2980 | if (!testMode) { |
27734f0e | 2981 | if (!sworkers.IsNull()) |
2982 | proof = gROOT->ProcessLine(Form("TProof::Open(\"%s\", \"%s\");", fProofCluster.Data(), sworkers.Data())); | |
3bdcb562 | 2983 | else |
2984 | proof = gROOT->ProcessLine(Form("TProof::Open(\"%s\");", fProofCluster.Data())); | |
2985 | } else { | |
2986 | proof = gROOT->ProcessLine("TProof::Open(\"\");"); | |
2987 | if (!proof) { | |
2988 | Error("StartAnalysis", "Could not start PROOF in test mode"); | |
2989 | return kFALSE; | |
2990 | } | |
2991 | } | |
2992 | if (!proof) { | |
2993 | Error("StartAnalysis", "Could not connect to PROOF cluster <%s>", fProofCluster.Data()); | |
2994 | return kFALSE; | |
2995 | } | |
27734f0e | 2996 | if (fNproofWorkersPerSlave*fNproofWorkers > 0) |
2997 | gROOT->ProcessLine(Form("gProof->SetParallel(%d);", fNproofWorkers)); | |
28ce6c9c | 2998 | // Set proof special parameters if any |
2999 | TIter nextpp(&fProofParam); | |
3000 | TObject *proofparam; | |
3001 | while ((proofparam=nextpp())) { | |
3002 | TString svalue = GetProofParameter(proofparam->GetName()); | |
3003 | gROOT->ProcessLine(Form("gProof->SetParameter(\"%s\",%s);", proofparam->GetName(), svalue.Data())); | |
3004 | } | |
3bdcb562 | 3005 | // Is dataset existing ? |
3006 | if (!testMode) { | |
3007 | TString dataset = fProofDataSet; | |
3008 | Int_t index = dataset.Index("#"); | |
3009 | if (index>=0) dataset.Remove(index); | |
830acc4c | 3010 | // if (!gROOT->ProcessLine(Form("gProof->ExistsDataSet(\"%s\");",fProofDataSet.Data()))) { |
3011 | // Error("StartAnalysis", "Dataset %s not existing", fProofDataSet.Data()); | |
3012 | // return kFALSE; | |
3013 | // } | |
3014 | // Info("StartAnalysis", "Dataset %s found", dataset.Data()); | |
3bdcb562 | 3015 | } |
3016 | // Is ClearPackages() needed ? | |
3017 | if (TestSpecialBit(kClearPackages)) { | |
3018 | Info("StartAnalysis", "ClearPackages signal sent to PROOF. Use SetClearPackages(kFALSE) to reset this."); | |
3019 | gROOT->ProcessLine("gProof->ClearPackages();"); | |
3020 | } | |
3021 | // Is a given aliroot mode requested ? | |
3022 | TList optionsList; | |
1ac846e9 | 3023 | TString parLibs; |
830acc4c | 3024 | if (!fAliRootMode.IsNull()) { |
3bdcb562 | 3025 | TString alirootMode = fAliRootMode; |
3026 | if (alirootMode == "default") alirootMode = ""; | |
3027 | Info("StartAnalysis", "You are requesting AliRoot mode: %s", fAliRootMode.Data()); | |
3028 | optionsList.SetOwner(); | |
3029 | optionsList.Add(new TNamed("ALIROOT_MODE", alirootMode.Data())); | |
3030 | // Check the additional libs to be loaded | |
3031 | TString extraLibs; | |
1ac846e9 | 3032 | Bool_t parMode = kFALSE; |
dc1ffbcb | 3033 | if (!alirootMode.IsNull()) extraLibs = "ANALYSIS:OADB:ANALYSISalice"; |
3bdcb562 | 3034 | // Parse the extra libs for .so |
3035 | if (fAdditionalLibs.Length()) { | |
3036 | TObjArray *list = fAdditionalLibs.Tokenize(" "); | |
3037 | TIter next(list); | |
3038 | TObjString *str; | |
1ac846e9 | 3039 | while((str=(TObjString*)next())) { |
3040 | if (str->GetString().Contains(".so")) { | |
3041 | if (parMode) { | |
3042 | Warning("StartAnalysis", "Plugin does not support loading libs after par files in PROOF mode. Library %s and following will not load on workers", str->GetName()); | |
3043 | break; | |
3044 | } | |
3045 | TString stmp = str->GetName(); | |
3046 | if (stmp.BeginsWith("lib")) stmp.Remove(0,3); | |
3047 | stmp.ReplaceAll(".so",""); | |
3048 | if (!extraLibs.IsNull()) extraLibs += ":"; | |
3049 | extraLibs += stmp; | |
3050 | continue; | |
3051 | } | |
3052 | if (str->GetString().Contains(".par")) { | |
3053 | // The first par file found in the list will not allow any further .so | |
3054 | parMode = kTRUE; | |
3055 | if (!parLibs.IsNull()) parLibs += ":"; | |
3056 | parLibs += str->GetName(); | |
3057 | continue; | |
3058 | } | |
3bdcb562 | 3059 | } |
3060 | if (list) delete list; | |
3061 | } | |
dc030a24 | 3062 | if (!extraLibs.IsNull()) { |
3063 | Info("StartAnalysis", "Adding extra libs: %s",extraLibs.Data()); | |
3064 | optionsList.Add(new TNamed("ALIROOT_EXTRA_LIBS",extraLibs.Data())); | |
3065 | } | |
830acc4c | 3066 | // Check extra includes |
3067 | if (!fIncludePath.IsNull()) { | |
3068 | TString includePath = fIncludePath; | |
3069 | includePath.ReplaceAll(" ",":"); | |
dc030a24 | 3070 | includePath.ReplaceAll("$ALICE_ROOT/",""); |
3071 | includePath.ReplaceAll("${ALICE_ROOT}/",""); | |
8ddad121 | 3072 | includePath.ReplaceAll("-I",""); |
dc030a24 | 3073 | includePath.Remove(TString::kTrailing, ':'); |
830acc4c | 3074 | Info("StartAnalysis", "Adding extra includes: %s",includePath.Data()); |
3075 | optionsList.Add(new TNamed("ALIROOT_EXTRA_INCLUDES",includePath.Data())); | |
3076 | } | |
27734f0e | 3077 | // Check if connection to grid is requested |
3078 | if (TestSpecialBit(kProofConnectGrid)) | |
3079 | optionsList.Add(new TNamed("ALIROOT_ENABLE_ALIEN", "1")); | |
830acc4c | 3080 | // Enable AliRoot par |
3081 | if (testMode) { | |
3082 | // Enable proof lite package | |
3083 | TString alirootLite = gSystem->ExpandPathName("$ALICE_ROOT/ANALYSIS/macros/AliRootProofLite.par"); | |
3084 | for (Int_t i=0; i<optionsList.GetSize(); i++) { | |
3085 | TNamed *obj = (TNamed*)optionsList.At(i); | |
3086 | printf("%s %s\n", obj->GetName(), obj->GetTitle()); | |
3087 | } | |
3088 | if (!gROOT->ProcessLine(Form("gProof->UploadPackage(\"%s\");",alirootLite.Data())) | |
8ddad121 | 3089 | && !gROOT->ProcessLine(Form("gProof->EnablePackage(\"%s\", (TList*)%p);",alirootLite.Data(),&optionsList))) { |
830acc4c | 3090 | Info("StartAnalysis", "AliRootProofLite enabled"); |
3091 | } else { | |
3092 | Error("StartAnalysis", "There was an error trying to enable package AliRootProofLite.par"); | |
3093 | return kFALSE; | |
3094 | } | |
3095 | } else { | |
dc030a24 | 3096 | if ( ! fAliROOTVersion.IsNull() ) { |
3097 | if (gROOT->ProcessLine(Form("gProof->EnablePackage(\"VO_ALICE@AliRoot::%s\", (TList*)%p, kTRUE);", | |
3098 | fAliROOTVersion.Data(), &optionsList))) { | |
3099 | Error("StartAnalysis", "There was an error trying to enable package VO_ALICE@AliRoot::%s", fAliROOTVersion.Data()); | |
3100 | return kFALSE; | |
3101 | } | |
3102 | } | |
27734f0e | 3103 | } |
1ac846e9 | 3104 | // Enable first par files from fAdditionalLibs |
3105 | if (!parLibs.IsNull()) { | |
3106 | TObjArray *list = parLibs.Tokenize(":"); | |
3107 | TIter next(list); | |
3108 | TObjString *package; | |
3109 | while((package=(TObjString*)next())) { | |
40501bb7 | 3110 | TString spkg = package->GetName(); |
3111 | spkg.ReplaceAll(".par", ""); | |
3112 | gSystem->Exec(TString::Format("rm -rf %s", spkg.Data())); | |
b50a41c3 | 3113 | if (!gROOT->ProcessLine(Form("gProof->UploadPackage(\"%s\");", package->GetName()))) { |
4f136f18 | 3114 | TString enablePackage = (testMode)?Form("gProof->EnablePackage(\"%s\",kFALSE);", package->GetName()):Form("gProof->EnablePackage(\"%s\",kTRUE);", package->GetName()); |
3115 | if (gROOT->ProcessLine(enablePackage)) { | |
1ac846e9 | 3116 | Error("StartAnalysis", "There was an error trying to enable package %s", package->GetName()); |
3117 | return kFALSE; | |
3118 | } | |
3119 | } else { | |
3120 | Error("StartAnalysis", "There was an error trying to upload package %s", package->GetName()); | |
3121 | return kFALSE; | |
3122 | } | |
3123 | } | |
3124 | if (list) delete list; | |
3125 | } | |
3bdcb562 | 3126 | } else { |
3127 | if (fAdditionalLibs.Contains(".so") && !testMode) { | |
3128 | Error("StartAnalysis", "You request additional libs to be loaded but did not enabled any AliRoot mode. Please refer to: \ | |
3129 | \n http://aaf.cern.ch/node/83 and use a parameter for SetAliRootMode()"); | |
3130 | return kFALSE; | |
3131 | } | |
3132 | } | |
3133 | // Enable par files if requested | |
3134 | if (fPackages && fPackages->GetEntries()) { | |
3135 | TIter next(fPackages); | |
3136 | TObject *package; | |
3137 | while ((package=next())) { | |
1ac846e9 | 3138 | // Skip packages already enabled |
3139 | if (parLibs.Contains(package->GetName())) continue; | |
40501bb7 | 3140 | TString spkg = package->GetName(); |
3141 | spkg.ReplaceAll(".par", ""); | |
3142 | gSystem->Exec(TString::Format("rm -rf %s", spkg.Data())); | |
dc030a24 | 3143 | if (!gROOT->ProcessLine(Form("gProof->UploadPackage(\"%s\");", package->GetName()))) { |
27734f0e | 3144 | if (gROOT->ProcessLine(Form("gProof->EnablePackage(\"%s\",kTRUE);", package->GetName()))) { |
3bdcb562 | 3145 | Error("StartAnalysis", "There was an error trying to enable package %s", package->GetName()); |
3146 | return kFALSE; | |
3147 | } | |
3148 | } else { | |
3149 | Error("StartAnalysis", "There was an error trying to upload package %s", package->GetName()); | |
3150 | return kFALSE; | |
3151 | } | |
3152 | } | |
3153 | } | |
3154 | // Do we need to load analysis source files ? | |
3155 | // NOTE: don't load on client since this is anyway done by the user to attach his task. | |
3156 | if (fAnalysisSource.Length()) { | |
3157 | TObjArray *list = fAnalysisSource.Tokenize(" "); | |
3158 | TIter next(list); | |
3159 | TObjString *str; | |
3160 | while((str=(TObjString*)next())) { | |
3161 | gROOT->ProcessLine(Form("gProof->Load(\"%s+g\", kTRUE);", str->GetName())); | |
dc030a24 | 3162 | } |
3bdcb562 | 3163 | if (list) delete list; |
3164 | } | |
830acc4c | 3165 | if (testMode) { |
3166 | // Register dataset to proof lite. | |
3167 | if (fFileForTestMode.IsNull()) { | |
3168 | Error("GetChainForTestMode", "For proof test mode please use SetFileForTestMode() pointing to a file that contains data file locations."); | |
3169 | return kFALSE; | |
3170 | } | |
3171 | if (gSystem->AccessPathName(fFileForTestMode)) { | |
3172 | Error("GetChainForTestMode", "File not found: %s", fFileForTestMode.Data()); | |
3173 | return kFALSE; | |
3174 | } | |
3175 | TFileCollection *coll = new TFileCollection(); | |
3176 | coll->AddFromFile(fFileForTestMode); | |
8ddad121 | 3177 | gROOT->ProcessLine(Form("gProof->RegisterDataSet(\"test_collection\", (TFileCollection*)%p, \"OV\");", coll)); |
27734f0e | 3178 | gROOT->ProcessLine("gProof->ShowDataSets()"); |
830acc4c | 3179 | } |
3bdcb562 | 3180 | return kTRUE; |
3181 | } | |
c57f56b7 | 3182 | |
43da816a | 3183 | // Check if output files have to be taken from the analysis manager |
3184 | if (TestBit(AliAnalysisGrid::kDefaultOutputs)) { | |
f790bc1b | 3185 | // Add output files and AOD files |
3186 | fOutputFiles = GetListOfFiles("outaod"); | |
c07b9ce2 | 3187 | // Add extra files registered to the analysis manager |
f790bc1b | 3188 | TString extra = GetListOfFiles("ext"); |
3189 | if (!extra.IsNull()) { | |
149d288c | 3190 | extra.ReplaceAll(".root", "*.root"); |
f790bc1b | 3191 | if (!fOutputFiles.IsNull()) fOutputFiles += ","; |
149d288c | 3192 | fOutputFiles += extra; |
84fcd93f | 3193 | } |
149d288c | 3194 | // Compose the output archive. |
b83f84f0 | 3195 | fOutputArchive = "log_archive.zip:std*@disk=1 "; |
3196 | fOutputArchive += Form("root_archive.zip:%s,*.stat@disk=%d",fOutputFiles.Data(),fNreplicas); | |
43da816a | 3197 | } |
f7b1cbc2 | 3198 | // if (!fCloseSE.Length()) fCloseSE = gSystem->Getenv("alien_CLOSE_SE"); |
c57f56b7 | 3199 | if (TestBit(AliAnalysisGrid::kOffline)) { |
3200 | Info("StartAnalysis","\n##### OFFLINE MODE ##### Files to be used in GRID are produced but not copied \ | |
3201 | \n there nor any job run. You can revise the JDL and analysis \ | |
3202 | \n macro then run the same in \"submit\" mode."); | |
3203 | } else if (TestBit(AliAnalysisGrid::kTest)) { | |
3204 | Info("StartAnalysis","\n##### LOCAL MODE ##### Your analysis will be run locally on a subset of the requested \ | |
3205 | \n dataset."); | |
3206 | } else if (TestBit(AliAnalysisGrid::kSubmit)) { | |
3207 | Info("StartAnalysis","\n##### SUBMIT MODE ##### Files required by your analysis are copied to your grid working \ | |
3208 | \n space and job submitted."); | |
3209 | } else if (TestBit(AliAnalysisGrid::kMerge)) { | |
3210 | Info("StartAnalysis","\n##### MERGE MODE ##### The registered outputs of the analysis will be merged"); | |
0f389141 | 3211 | if (fMergeViaJDL) CheckInputData(); |
5513444a | 3212 | return kTRUE; |
c57f56b7 | 3213 | } else { |
3214 | Info("StartAnalysis","\n##### FULL ANALYSIS MODE ##### Producing needed files and submitting your analysis job..."); | |
3215 | } | |
3216 | ||
348be253 | 3217 | Print(); |
c57f56b7 | 3218 | if (!Connect()) { |
3219 | Error("StartAnalysis", "Cannot start grid analysis without grid connection"); | |
5513444a | 3220 | return kFALSE; |
16a4353c | 3221 | } |
d3b18c4c | 3222 | if (IsCheckCopy() && gGrid) CheckFileCopy(gGrid->GetHomeDirectory()); |
c57f56b7 | 3223 | if (!CheckInputData()) { |
3224 | Error("StartAnalysis", "There was an error in preprocessing your requested input data"); | |
5513444a | 3225 | return kFALSE; |
c57f56b7 | 3226 | } |
d3339be3 | 3227 | if (!CreateDataset(fDataPattern)) { |
3228 | TString serror; | |
3229 | if (!fRunNumbers.Length() && !fRunRange[0]) serror = Form("path to data directory: <%s>", fGridDataDir.Data()); | |
3230 | if (fRunNumbers.Length()) serror = "run numbers"; | |
3231 | if (fRunRange[0]) serror = Form("run range [%d, %d]", fRunRange[0], fRunRange[1]); | |
3232 | serror += Form("\n or data pattern <%s>", fDataPattern.Data()); | |
3233 | Error("StartAnalysis", "No data to process. Please fix %s in your plugin configuration.", serror.Data()); | |
3234 | return kFALSE; | |
3235 | } | |
21ca8e59 | 3236 | WriteAnalysisFile(); |
c57f56b7 | 3237 | WriteAnalysisMacro(); |
3238 | WriteExecutable(); | |
3239 | WriteValidationScript(); | |
0f389141 | 3240 | if (fMergeViaJDL) { |
3241 | WriteMergingMacro(); | |
3242 | WriteMergeExecutable(); | |
3243 | WriteValidationScript(kTRUE); | |
3244 | } | |
5513444a | 3245 | if (!CreateJDL()) return kFALSE; |
3246 | if (TestBit(AliAnalysisGrid::kOffline)) return kFALSE; | |
3bdcb562 | 3247 | if (testMode) { |
c57f56b7 | 3248 | // Locally testing the analysis |
3249 | Info("StartAnalysis", "\n_______________________________________________________________________ \ | |
3250 | \n Running analysis script in a daughter shell as on a worker node \ | |
3251 | \n_______________________________________________________________________"); | |
149d288c | 3252 | TObjArray *list = fOutputFiles.Tokenize(","); |
c57f56b7 | 3253 | TIter next(list); |
3254 | TObjString *str; | |
a2f5fc01 | 3255 | TString outputFile; |
c57f56b7 | 3256 | while((str=(TObjString*)next())) { |
a2f5fc01 | 3257 | outputFile = str->GetString(); |
3258 | Int_t index = outputFile.Index("@"); | |
3259 | if (index > 0) outputFile.Remove(index); | |
3260 | if (!gSystem->AccessPathName(outputFile)) gSystem->Exec(Form("rm %s", outputFile.Data())); | |
c57f56b7 | 3261 | } |
3262 | delete list; | |
3263 | gSystem->Exec(Form("bash %s 2>stderr", fExecutable.Data())); | |
f50e4bc8 | 3264 | gSystem->Exec(Form("bash %s",fValidationScript.Data())); |
c57f56b7 | 3265 | // gSystem->Exec("cat stdout"); |
5513444a | 3266 | return kFALSE; |
c57f56b7 | 3267 | } |
5513444a | 3268 | // Check if submitting is managed by LPM manager |
a3e84053 | 3269 | if (fProductionMode) { |
5513444a | 3270 | TString prodfile = fJDLName; |
3271 | prodfile.ReplaceAll(".jdl", ".prod"); | |
3272 | WriteProductionFile(prodfile); | |
3273 | Info("StartAnalysis", "Job submitting is managed by LPM. Rerun in terminate mode after jobs finished."); | |
3274 | return kFALSE; | |
3275 | } | |
a8739e8a | 3276 | // Submit AliEn job(s) |
d2a409b2 | 3277 | gGrid->Cd(fGridOutputDir); |
a8739e8a | 3278 | TGridResult *res; |
c57f56b7 | 3279 | TString jobID = ""; |
d2a409b2 | 3280 | if (!fRunNumbers.Length() && !fRunRange[0]) { |
dd74a515 | 3281 | // Submit a given xml or a set of runs |
a8739e8a | 3282 | res = gGrid->Command(Form("submit %s", fJDLName.Data())); |
84fcd93f | 3283 | printf("*************************** %s\n",Form("submit %s", fJDLName.Data())); |
a8739e8a | 3284 | if (res) { |
3285 | const char *cjobId = res->GetKey(0,"jobId"); | |
3286 | if (!cjobId) { | |
a03be957 | 3287 | gGrid->Stdout(); |
3288 | gGrid->Stderr(); | |
a8739e8a | 3289 | Error("StartAnalysis", "Your JDL %s could not be submitted", fJDLName.Data()); |
5513444a | 3290 | return kFALSE; |
a8739e8a | 3291 | } else { |
3292 | Info("StartAnalysis", "\n_______________________________________________________________________ \ | |
3293 | \n##### Your JDL %s was successfully submitted. \nTHE JOB ID IS: %s \ | |
3294 | \n_______________________________________________________________________", | |
3295 | fJDLName.Data(), cjobId); | |
3296 | jobID = cjobId; | |
3297 | } | |
3298 | delete res; | |
a03be957 | 3299 | } else { |
3300 | Error("StartAnalysis", "No grid result after submission !!! Bailing out..."); | |
3301 | return kFALSE; | |
a8739e8a | 3302 | } |
3303 | } else { | |
d2a409b2 | 3304 | // Submit for a range of enumeration of runs. |
a03be957 | 3305 | if (!Submit()) return kFALSE; |
c57f56b7 | 3306 | } |
a8739e8a | 3307 | |
c57f56b7 | 3308 | Info("StartAnalysis", "\n#### STARTING AN ALIEN SHELL FOR YOU. EXIT WHEN YOUR JOB %s HAS FINISHED. #### \ |
3309 | \n You may exit at any time and terminate the job later using the option <terminate> \ | |
3310 | \n ##################################################################################", jobID.Data()); | |
bb885a9e | 3311 | gSystem->Exec("aliensh"); |
5513444a | 3312 | return kTRUE; |
c57f56b7 | 3313 | } |
3314 | ||
f790bc1b | 3315 | //______________________________________________________________________________ |
3316 | const char *AliAnalysisAlien::GetListOfFiles(const char *type) | |
3317 | { | |
3318 | // Get a comma-separated list of output files of the requested type. | |
3319 | // Type can be (case unsensitive): | |
3320 | // aod - list of aod files (std, extensions and filters) | |
3321 | // out - list of output files connected to containers (but not aod's or extras) | |
3322 | // ext - list of extra files registered to the manager | |
3323 | // ter - list of files produced in terminate | |
3324 | static TString files; | |
3325 | files = ""; | |
3326 | TString stype = type; | |
3327 | stype.ToLower(); | |
3328 | TString aodfiles, extra; | |
3329 | AliAnalysisManager *mgr = AliAnalysisManager::GetAnalysisManager(); | |
3330 | if (!mgr) { | |
3331 | ::Error("GetListOfFiles", "Cannot call this without analysis manager"); | |
3332 | return files.Data(); | |
3333 | } | |
3334 | if (mgr->GetOutputEventHandler()) { | |
3335 | aodfiles = mgr->GetOutputEventHandler()->GetOutputFileName(); | |
3336 | TString extraaod = mgr->GetOutputEventHandler()->GetExtraOutputs(); | |
3337 | if (!extraaod.IsNull()) { | |
3338 | aodfiles += ","; | |
3339 | aodfiles += extraaod; | |
3340 | } | |
3341 | } | |
3342 | if (stype.Contains("aod")) { | |
3343 | files = aodfiles; | |
3344 | if (stype == "aod") return files.Data(); | |
3345 | } | |
3346 | // Add output files that are not in the list of AOD files | |
3347 | TString outputfiles = ""; | |
3348 | TIter next(mgr->GetOutputs()); | |
3349 | AliAnalysisDataContainer *output; | |
3350 | const char *filename = 0; | |
3351 | while ((output=(AliAnalysisDataContainer*)next())) { | |
3352 | filename = output->GetFileName(); | |
3353 | if (!(strcmp(filename, "default"))) continue; | |
3354 | if (outputfiles.Contains(filename)) continue; | |
3355 | if (aodfiles.Contains(filename)) continue; | |
3356 | if (!outputfiles.IsNull()) outputfiles += ","; | |
3357 | outputfiles += filename; | |
3358 | } | |
3359 | if (stype.Contains("out")) { | |
3360 | if (!files.IsNull()) files += ","; | |
3361 | files += outputfiles; | |
3362 | if (stype == "out") return files.Data(); | |
3363 | } | |
3364 | // Add extra files registered to the analysis manager | |
3365 | TString sextra; | |
3366 | extra = mgr->GetExtraFiles(); | |
3367 | if (!extra.IsNull()) { | |
3368 | extra.Strip(); | |
3369 | extra.ReplaceAll(" ", ","); | |
3370 | TObjArray *fextra = extra.Tokenize(","); | |
3371 | TIter nextx(fextra); | |
3372 | TObject *obj; | |
3373 | while ((obj=nextx())) { | |
3374 | if (aodfiles.Contains(obj->GetName())) continue; | |
3375 | if (outputfiles.Contains(obj->GetName())) continue; | |
3376 | if (sextra.Contains(obj->GetName())) continue; | |
3377 | if (!sextra.IsNull()) sextra += ","; | |
3378 | sextra += obj->GetName(); | |
3379 | } | |
3380 | delete fextra; | |
3381 | if (stype.Contains("ext")) { | |
3382 | if (!files.IsNull()) files += ","; | |
3383 | files += sextra; | |
3384 | } | |
3385 | } | |
3386 | if (stype == "ext") return files.Data(); | |
3387 | TString termfiles; | |
3388 | if (!fTerminateFiles.IsNull()) { | |
3389 | fTerminateFiles.Strip(); | |
3390 | fTerminateFiles.ReplaceAll(" ",","); | |
9c939f2b | 3391 | TObjArray *fextra = fTerminateFiles.Tokenize(","); |
f790bc1b | 3392 | TIter nextx(fextra); |
3393 | TObject *obj; | |
3394 | while ((obj=nextx())) { | |
3395 | if (aodfiles.Contains(obj->GetName())) continue; | |
3396 | if (outputfiles.Contains(obj->GetName())) continue; | |
3397 | if (termfiles.Contains(obj->GetName())) continue; | |
3398 | if (sextra.Contains(obj->GetName())) continue; | |
3399 | if (!termfiles.IsNull()) termfiles += ","; | |
3400 | termfiles += obj->GetName(); | |
3401 | } | |
3402 | delete fextra; | |
3403 | } | |
3404 | if (stype.Contains("ter")) { | |
3405 | if (!files.IsNull() && !termfiles.IsNull()) { | |
3406 | files += ","; | |
3407 | files += termfiles; | |
3408 | } | |
3409 | } | |
3410 | return files.Data(); | |
3411 | } | |
3412 | ||
d2a409b2 | 3413 | //______________________________________________________________________________ |
a03be957 | 3414 | Bool_t AliAnalysisAlien::Submit() |
d2a409b2 | 3415 | { |
3416 | // Submit all master jobs. | |
3417 | Int_t nmasterjobs = fInputFiles->GetEntries(); | |
3418 | Long_t tshoot = gSystem->Now(); | |
a03be957 | 3419 | if (!fNsubmitted && !SubmitNext()) return kFALSE; |
d2a409b2 | 3420 | while (fNsubmitted < nmasterjobs) { |
3421 | Long_t now = gSystem->Now(); | |
3422 | if ((now-tshoot)>30000) { | |
3423 | tshoot = now; | |
a03be957 | 3424 | if (!SubmitNext()) return kFALSE; |
d2a409b2 | 3425 | } |
3426 | } | |
a03be957 | 3427 | return kTRUE; |
d2a409b2 | 3428 | } |
3429 | ||
0f389141 | 3430 | //______________________________________________________________________________ |
a03be957 | 3431 | Bool_t AliAnalysisAlien::SubmitMerging() |
0f389141 | 3432 | { |
3433 | // Submit all merging jobs. | |
dc030a24 | 3434 | if (!fGridOutputDir.Contains("/")) fGridOutputDir = Form("%s/%s/%s", gGrid->GetHomeDirectory(), fGridWorkingDir.Data(), fGridOutputDir.Data()); |
0f389141 | 3435 | gGrid->Cd(fGridOutputDir); |
3436 | TString mergeJDLName = fExecutable; | |
3437 | mergeJDLName.ReplaceAll(".sh", "_merge.jdl"); | |
9f020952 | 3438 | if (!fInputFiles) { |
3439 | Error("SubmitMerging", "You have to use explicit run numbers or run range to merge via JDL!"); | |
3440 | return kFALSE; | |
3441 | } | |
0f389141 | 3442 | Int_t ntosubmit = fInputFiles->GetEntries(); |
0f389141 | 3443 | for (Int_t i=0; i<ntosubmit; i++) { |
f866cba5 | 3444 | TString runOutDir = gSystem->BaseName(fInputFiles->At(i)->GetName()); |
3445 | runOutDir.ReplaceAll(".xml", ""); | |
7c2cd90a | 3446 | if (fOutputToRunNo) { |
3447 | // The output directory is the run number | |
3448 | printf("### Submitting merging job for run <%s>\n", runOutDir.Data()); | |
3449 | runOutDir = Form("%s/%s", fGridOutputDir.Data(), runOutDir.Data()); | |
3450 | } else { | |
17b4e9a4 | 3451 | if (!fRunNumbers.Length() && !fRunRange[0]) { |
3452 | // The output directory is the grid outdir | |
3453 | printf("### Submitting merging job for the full output directory %s.\n", fGridOutputDir.Data()); | |
3454 | runOutDir = fGridOutputDir; | |
3455 | } else { | |
3456 | // The output directory is the master number in 3 digits format | |
3457 | printf("### Submitting merging job for master <%03d>\n", i); | |
3458 | runOutDir = Form("%s/%03d",fGridOutputDir.Data(), i); | |
3459 | } | |
7c2cd90a | 3460 | } |
3461 | // Check now the number of merging stages. | |
2b222f7c | 3462 | TObjArray *list = fOutputFiles.Tokenize(","); |
3463 | TIter next(list); | |
3464 | TObjString *str; | |
3465 | TString outputFile; | |
3466 | while((str=(TObjString*)next())) { | |
3467 | outputFile = str->GetString(); | |
3468 | Int_t index = outputFile.Index("@"); | |
3469 | if (index > 0) outputFile.Remove(index); | |
37d21c01 | 3470 | if (!fMergeExcludes.Contains(outputFile) && |
3471 | !fRegisterExcludes.Contains(outputFile)) break; | |
2b222f7c | 3472 | } |
3473 | delete list; | |
b3e07543 | 3474 | Bool_t done = CheckMergedFiles(outputFile, runOutDir, fMaxMergeFiles, mergeJDLName); |
1d0b4d65 | 3475 | if (!done && (i==ntosubmit-1)) return kFALSE; |
17b4e9a4 | 3476 | if (!fRunNumbers.Length() && !fRunRange[0]) break; |
0f389141 | 3477 | } |
a03be957 | 3478 | if (!ntosubmit) return kTRUE; |
9f020952 | 3479 | Info("StartAnalysis", "\n #### STARTING AN ALIEN SHELL FOR YOU. You can exit any time or inspect your jobs in a different shell.##########\ |
3480 | \n Make sure your jobs are in a final state (you can resubmit failed ones via 'masterjob <id> resubmit ERROR_ALL')\ | |
3481 | \n Rerun in 'terminate' mode to submit all merging stages, each AFTER the previous one completed. The final merged \ | |
3482 | \n output will be written to your alien output directory, while separate stages in <Stage_n>. \ | |
3483 | \n ################################################################################################################"); | |
0f389141 | 3484 | gSystem->Exec("aliensh"); |
a03be957 | 3485 | return kTRUE; |
0f389141 | 3486 | } |
3487 | ||
d2a409b2 | 3488 | //______________________________________________________________________________ |
a03be957 | 3489 | Bool_t AliAnalysisAlien::SubmitNext() |
d2a409b2 | 3490 | { |
08d5b699 | 3491 | // Submit next bunch of master jobs if the queue is free. The first master job is |
3492 | // submitted right away, while the next will not be unless the previous was split. | |
3493 | // The plugin will not submit new master jobs if there are more that 500 jobs in | |
3494 | // waiting phase. | |
d2a409b2 | 3495 | static Bool_t iscalled = kFALSE; |
3496 | static Int_t firstmaster = 0; | |
3497 | static Int_t lastmaster = 0; | |
3498 | static Int_t npermaster = 0; | |
a03be957 | 3499 | if (iscalled) return kTRUE; |
d2a409b2 | 3500 | iscalled = kTRUE; |
3501 | Int_t nrunning=0, nwaiting=0, nerror=0, ndone=0; | |
3502 | Int_t ntosubmit = 0; | |
3503 | TGridResult *res; | |
3504 | TString jobID = ""; | |
3bdcb562 | 3505 | Int_t nmasterjobs = fInputFiles->GetEntries(); |
3506 | if (!fNsubmitted) { | |
3507 | ntosubmit = 1; | |
3508 | if (!IsUseSubmitPolicy()) { | |
90d50a8c | 3509 | if (nmasterjobs>5) |
3bdcb562 | 3510 | Info("SubmitNext","### Warning submit policy not used ! Submitting too many jobs at a time may be prohibitted. \ |
3511 | \n### You can use SetUseSubmitPolicy() to enable if you have problems."); | |
3512 | ntosubmit = nmasterjobs; | |
3513 | } | |
3514 | } else { | |
d2a409b2 | 3515 | TString status = GetJobStatus(firstmaster, lastmaster, nrunning, nwaiting, nerror, ndone); |
84fcd93f | 3516 | printf("=== master %d: %s\n", lastmaster, status.Data()); |
d2a409b2 | 3517 | // If last master not split, just return |
a03be957 | 3518 | if (status != "SPLIT") {iscalled = kFALSE; return kTRUE;} |
d2a409b2 | 3519 | // No more than 100 waiting jobs |
08d5b699 | 3520 | if (nwaiting>500) {iscalled = kFALSE; return kTRUE;} |
d2a409b2 | 3521 | npermaster = (nrunning+nwaiting+nerror+ndone)/fNsubmitted; |
08d5b699 | 3522 | if (npermaster) ntosubmit = (500-nwaiting)/npermaster; |
7586eedc | 3523 | if (!ntosubmit) ntosubmit = 1; |
84fcd93f | 3524 | printf("=== WAITING(%d) RUNNING(%d) DONE(%d) OTHER(%d) NperMaster=%d => to submit %d jobs\n", |
d2a409b2 | 3525 | nwaiting, nrunning, ndone, nerror, npermaster, ntosubmit); |
3526 | } | |
d2a409b2 | 3527 | for (Int_t i=0; i<ntosubmit; i++) { |
3528 | // Submit for a range of enumeration of runs. | |
a03be957 | 3529 | if (fNsubmitted>=nmasterjobs) {iscalled = kFALSE; return kTRUE;} |
d2a409b2 | 3530 | TString query; |
cd11251e | 3531 | TString runOutDir = gSystem->BaseName(fInputFiles->At(fNsubmitted)->GetName()); |
3532 | runOutDir.ReplaceAll(".xml", ""); | |
3533 | if (fOutputToRunNo) | |
3534 | query = Form("submit %s %s %s", fJDLName.Data(), fInputFiles->At(fNsubmitted)->GetName(), runOutDir.Data()); | |
3535 | else | |
3536 | query = Form("submit %s %s %03d", fJDLName.Data(), fInputFiles->At(fNsubmitted)->GetName(), fNsubmitted); | |
84fcd93f | 3537 | printf("********* %s\n",query.Data()); |
d2a409b2 | 3538 | res = gGrid->Command(query); |
3539 | if (res) { | |
98ca124f | 3540 | TString cjobId1 = res->GetKey(0,"jobId"); |
3541 | if (!cjobId1.Length()) { | |
d2a409b2 | 3542 | iscalled = kFALSE; |
a03be957 | 3543 | gGrid->Stdout(); |
3544 | gGrid->Stderr(); | |
3545 | Error("StartAnalysis", "Your JDL %s could not be submitted. The message was:", fJDLName.Data()); | |
3546 | return kFALSE; | |
d2a409b2 | 3547 | } else { |
3548 | Info("StartAnalysis", "\n_______________________________________________________________________ \ | |
3549 | \n##### Your JDL %s submitted (%d to go). \nTHE JOB ID IS: %s \ | |
3550 | \n_______________________________________________________________________", | |
98ca124f | 3551 | fJDLName.Data(), nmasterjobs-fNsubmitted-1, cjobId1.Data()); |
d2a409b2 | 3552 | jobID += cjobId1; |
3553 | jobID += " "; | |
98ca124f | 3554 | lastmaster = cjobId1.Atoi(); |
d2a409b2 | 3555 | if (!firstmaster) firstmaster = lastmaster; |
3556 | fNsubmitted++; | |
3557 | } | |
3558 | delete res; | |
a03be957 | 3559 | } else { |
3560 | Error("StartAnalysis", "No grid result after submission !!! Bailing out..."); | |
3561 | return kFALSE; | |
d2a409b2 | 3562 | } |
3563 | } | |
3564 | iscalled = kFALSE; | |
a03be957 | 3565 | return kTRUE; |
d2a409b2 | 3566 | } |
3567 | ||
c57f56b7 | 3568 | //______________________________________________________________________________ |
3569 | void AliAnalysisAlien::WriteAnalysisFile() | |
3570 | { | |
f10e8481 | 3571 | // Write current analysis manager into the file <analysisFile> |
3572 | TString analysisFile = fExecutable; | |
3573 | analysisFile.ReplaceAll(".sh", ".root"); | |
c57f56b7 | 3574 | if (!TestBit(AliAnalysisGrid::kSubmit)) { |
3575 | AliAnalysisManager *mgr = AliAnalysisManager::GetAnalysisManager(); | |
3576 | if (!mgr || !mgr->IsInitialized()) { | |
3577 | Error("WriteAnalysisFile", "You need an initialized analysis manager for this"); | |
3578 | return; | |
3579 | } | |
3580 | // Check analysis type | |
3581 | TObject *handler; | |
3582 | if (mgr->GetMCtruthEventHandler()) TObject::SetBit(AliAnalysisGrid::kUseMC); | |
3583 | handler = (TObject*)mgr->GetInputEventHandler(); | |
3584 | if (handler) { | |
65eb22f8 | 3585 | if (handler->InheritsFrom("AliMultiInputEventHandler")) { |
3586 | AliMultiInputEventHandler *multiIH = (AliMultiInputEventHandler*)handler; | |
3587 | if (multiIH->GetFirstInputEventHandler()->InheritsFrom("AliESDInputHandler")) TObject::SetBit(AliAnalysisGrid::kUseESD); | |
3588 | if (multiIH->GetFirstInputEventHandler()->InheritsFrom("AliAODInputHandler")) TObject::SetBit(AliAnalysisGrid::kUseAOD); | |
3589 | } else { | |
3590 | if (handler->InheritsFrom("AliESDInputHandler")) TObject::SetBit(AliAnalysisGrid::kUseESD); | |
3591 | if (handler->InheritsFrom("AliAODInputHandler")) TObject::SetBit(AliAnalysisGrid::kUseAOD); | |
3592 | } | |
c57f56b7 | 3593 | } |
3594 | TDirectory *cdir = gDirectory; | |
f10e8481 | 3595 | TFile *file = TFile::Open(analysisFile, "RECREATE"); |
c57f56b7 | 3596 | if (file) { |
e16a394c | 3597 | // Skip task Terminate calls for the grid job (but not in test mode, where we want to check also the terminate mode |
3598 | if (!TestBit(AliAnalysisGrid::kTest)) mgr->SetSkipTerminate(kTRUE); | |
fe2d7fc2 | 3599 | // Unless merging makes no sense |
3600 | if (IsSingleOutput()) mgr->SetSkipTerminate(kFALSE); | |
c57f56b7 | 3601 | mgr->Write(); |
3602 | delete file; | |
fe2d7fc2 | 3603 | // Enable termination for local jobs |
3604 | mgr->SetSkipTerminate(kFALSE); | |
c57f56b7 | 3605 | } |
3606 | if (cdir) cdir->cd(); | |
f10e8481 | 3607 | Info("WriteAnalysisFile", "\n##### Analysis manager: %s wrote to file <%s>\n", mgr->GetName(),analysisFile.Data()); |
c57f56b7 | 3608 | } |
3609 | Bool_t copy = kTRUE; | |
d3b18c4c | 3610 | if (fProductionMode || TestBit(AliAnalysisGrid::kOffline) || TestBit(AliAnalysisGrid::kTest)) copy = kFALSE; |
c57f56b7 | 3611 | if (copy) { |
3612 | CdWork(); | |
3613 | TString workdir = gGrid->GetHomeDirectory(); | |
3614 | workdir += fGridWorkingDir; | |
d3b18c4c | 3615 | Info("WriteAnalysisFile", "\n##### Copying file <%s> containing your initialized analysis manager to your alien workspace", analysisFile.Data()); |
f10e8481 | 3616 | if (FileExists(analysisFile)) gGrid->Rm(analysisFile); |
6c395669 | 3617 | if (!copyLocal2Alien("WriteAnalysisFile",analysisFile.Data(), |
3618 | Form("%s/%s", workdir.Data(),analysisFile.Data()))) Fatal("","Terminating"); | |
c57f56b7 | 3619 | } |
3620 | } | |
3621 | ||
3622 | //______________________________________________________________________________ | |
3623 | void AliAnalysisAlien::WriteAnalysisMacro() | |
3624 | { | |
3625 | // Write the analysis macro that will steer the analysis in grid mode. | |
3626 | if (!TestBit(AliAnalysisGrid::kSubmit)) { | |
3627 | ofstream out; | |
3628 | out.open(fAnalysisMacro.Data(), ios::out); | |
3629 | if (!out.good()) { | |
3630 | Error("WriteAnalysisMacro", "could not open file %s for writing", fAnalysisMacro.Data()); | |
3631 | return; | |
3632 | } | |
5b273635 | 3633 | Bool_t hasSTEERBase = kFALSE; |
3634 | Bool_t hasESD = kFALSE; | |
3635 | Bool_t hasAOD = kFALSE; | |
3636 | Bool_t hasANALYSIS = kFALSE; | |
7ea40ac8 | 3637 | Bool_t hasOADB = kFALSE; |
5b273635 | 3638 | Bool_t hasANALYSISalice = kFALSE; |
3639 | Bool_t hasCORRFW = kFALSE; | |
c57f56b7 | 3640 | TString func = fAnalysisMacro; |
3641 | TString type = "ESD"; | |
3642 | TString comment = "// Analysis using "; | |
c85cfc0f | 3643 | if (IsUseMCchain()) { |
3644 | type = "MC"; | |
3645 | comment += "MC"; | |
3646 | } else { | |
3647 | if (TObject::TestBit(AliAnalysisGrid::kUseESD)) comment += "ESD"; | |
3648 | if (TObject::TestBit(AliAnalysisGrid::kUseAOD)) { | |
3649 | type = "AOD"; | |
3650 | comment += "AOD"; | |
3651 | } | |
3652 | } | |
0df6ccf2 | 3653 | if (type!="AOD" && fFriendChainName!="") { |
3654 | Error("WriteAnalysisMacro", "Friend chain can be attached only to AOD"); | |
3655 | return; | |
3656 | } | |
c57f56b7 | 3657 | if (TObject::TestBit(AliAnalysisGrid::kUseMC)) comment += "/MC"; |
3658 | else comment += " data"; | |
3659 | out << "const char *anatype = \"" << type.Data() << "\";" << endl << endl; | |
3660 | func.ReplaceAll(".C", ""); | |
3661 | out << "void " << func.Data() << "()" << endl; | |
3662 | out << "{" << endl; | |
3663 | out << comment.Data() << endl; | |
3664 | out << "// Automatically generated analysis steering macro executed in grid subjobs" << endl << endl; | |
f7498086 | 3665 | out << " TStopwatch timer;" << endl; |
3666 | out << " timer.Start();" << endl << endl; | |
13f0c00b | 3667 | // Change temp directory to current one |
3668 | out << "// Set temporary merging directory to current one" << endl; | |
3669 | out << " gSystem->Setenv(\"TMPDIR\", gSystem->pwd());" << endl << endl; | |
70c52cf3 | 3670 | out << "// Set temporary compilation directory to current one" << endl; |
3671 | out << " gSystem->SetBuildDir(gSystem->pwd(), kTRUE);" << endl << endl; | |
b3e07543 | 3672 | // Reset existing include path |
3673 | out << "// Reset existing include path and add current directory first in the search" << endl; | |
3674 | out << " gSystem->SetIncludePath(\"-I.\");" << endl; | |
f790bc1b | 3675 | if (!fExecutableCommand.Contains("aliroot")) { |
3676 | out << "// load base root libraries" << endl; | |
3677 | out << " gSystem->Load(\"libTree\");" << endl; | |
3678 | out << " gSystem->Load(\"libGeom\");" << endl; | |
3679 | out << " gSystem->Load(\"libVMC\");" << endl; | |
3680 | out << " gSystem->Load(\"libPhysics\");" << endl << endl; | |
3681 | out << " gSystem->Load(\"libMinuit\");" << endl << endl; | |
3682 | } | |
d5c6455a | 3683 | if (fAdditionalRootLibs.Length()) { |
47a4137d | 3684 | // in principle libtree /lib geom libvmc etc. can go into this list, too |
3685 | out << "// Add aditional libraries" << endl; | |
3686 | TObjArray *list = fAdditionalRootLibs.Tokenize(" "); | |
3687 | TIter next(list); | |
3688 | TObjString *str; | |
3689 | while((str=(TObjString*)next())) { | |
3690 | if (str->GetString().Contains(".so")) | |
3691 | out << " gSystem->Load(\"" << str->GetString().Data() << "\");" << endl; | |
d5c6455a | 3692 | } |
47a4137d | 3693 | if (list) delete list; |
d5c6455a | 3694 | } |
57377eb5 | 3695 | out << "// Load analysis framework libraries" << endl; |
652561d5 | 3696 | TString setupPar = "AliAnalysisAlien::SetupPar"; |
4e5c5506 | 3697 | if (!fPackages) { |
f790bc1b | 3698 | if (!fExecutableCommand.Contains("aliroot")) { |
3699 | out << " gSystem->Load(\"libSTEERBase\");" << endl; | |
3700 | out << " gSystem->Load(\"libESD\");" << endl; | |
3701 | out << " gSystem->Load(\"libAOD\");" << endl; | |
3702 | } | |
4e5c5506 | 3703 | out << " gSystem->Load(\"libANALYSIS\");" << endl; |
7ea40ac8 | 3704 | out << " gSystem->Load(\"libOADB\");" << endl; |
57377eb5 | 3705 | out << " gSystem->Load(\"libANALYSISalice\");" << endl; |
3706 | out << " gSystem->Load(\"libCORRFW\");" << endl << endl; | |
4e5c5506 | 3707 | } else { |
4e5c5506 | 3708 | TIter next(fPackages); |
3709 | TObject *obj; | |
57377eb5 | 3710 | TString pkgname; |
57377eb5 | 3711 | while ((obj=next())) { |
3712 | pkgname = obj->GetName(); | |
4478e6f1 | 3713 | if (pkgname == "STEERBase" || |
3714 | pkgname == "STEERBase.par") hasSTEERBase = kTRUE; | |
3715 | if (pkgname == "ESD" || | |
3716 | pkgname == "ESD.par") hasESD = kTRUE; | |
3717 | if (pkgname == "AOD" || | |
3718 | pkgname == "AOD.par") hasAOD = kTRUE; | |
3719 | if (pkgname == "ANALYSIS" || | |
3720 | pkgname == "ANALYSIS.par") hasANALYSIS = kTRUE; | |
7ea40ac8 | 3721 | if (pkgname == "OADB" || |
3722 | pkgname == "OADB.par") hasOADB = kTRUE; | |
4478e6f1 | 3723 | if (pkgname == "ANALYSISalice" || |
3724 | pkgname == "ANALYSISalice.par") hasANALYSISalice = kTRUE; | |
3725 | if (pkgname == "CORRFW" || | |
3726 | pkgname == "CORRFW.par") hasCORRFW = kTRUE; | |
5b273635 | 3727 | } |
3728 | if (hasANALYSISalice) setupPar = "SetupPar"; | |
57377eb5 | 3729 | if (!hasSTEERBase) out << " gSystem->Load(\"libSTEERBase\");" << endl; |
5b273635 | 3730 | else out << " if (!" << setupPar << "(\"STEERBase\")) return;" << endl; |
57377eb5 | 3731 | if (!hasESD) out << " gSystem->Load(\"libESD\");" << endl; |
5b273635 | 3732 | else out << " if (!" << setupPar << "(\"ESD\")) return;" << endl; |
57377eb5 | 3733 | if (!hasAOD) out << " gSystem->Load(\"libAOD\");" << endl; |
5b273635 | 3734 | else out << " if (!" << setupPar << "(\"AOD\")) return;" << endl; |
57377eb5 | 3735 | if (!hasANALYSIS) out << " gSystem->Load(\"libANALYSIS\");" << endl; |
5b273635 | 3736 | else out << " if (!" << setupPar << "(\"ANALYSIS\")) return;" << endl; |
7ea40ac8 | 3737 | if (!hasOADB) out << " gSystem->Load(\"libOADB\");" << endl; |
3738 | else out << " if (!" << setupPar << "(\"OADB\")) return;" << endl; | |
57377eb5 | 3739 | if (!hasANALYSISalice) out << " gSystem->Load(\"libANALYSISalice\");" << endl; |
5b273635 | 3740 | else out << " if (!" << setupPar << "(\"ANALYSISalice\")) return;" << endl; |
57377eb5 | 3741 | if (!hasCORRFW) out << " gSystem->Load(\"libCORRFW\");" << endl << endl; |
5b273635 | 3742 | else out << " if (!" << setupPar << "(\"CORRFW\")) return;" << endl << endl; |
57377eb5 | 3743 | out << "// Compile other par packages" << endl; |
3744 | next.Reset(); | |
fcc9bb6f | 3745 | while ((obj=next())) { |
3746 | pkgname = obj->GetName(); | |
4478e6f1 | 3747 | if (pkgname == "STEERBase" || |
3748 | pkgname == "STEERBase.par" || | |
3749 | pkgname == "ESD" || | |
3750 | pkgname == "ESD.par" || | |
3751 | pkgname == "AOD" || | |
3752 | pkgname == "AOD.par" || | |
3753 | pkgname == "ANALYSIS" || | |
3754 | pkgname == "ANALYSIS.par" || | |
7ea40ac8 | 3755 | pkgname == "OADB" || |
3756 | pkgname == "OADB.par" || | |
4478e6f1 | 3757 | pkgname == "ANALYSISalice" || |
3758 | pkgname == "ANALYSISalice.par" || | |
3759 | pkgname == "CORRFW" || | |
3760 | pkgname == "CORRFW.par") continue; | |
5b273635 | 3761 | out << " if (!" << setupPar << "(\"" << obj->GetName() << "\")) return;" << endl; |
fcc9bb6f | 3762 | } |
4e5c5506 | 3763 | } |
b3e07543 | 3764 | out << "// include path" << endl; |
3765 | // Get the include path from the interpreter and remove entries pointing to AliRoot | |
3766 | out << " TString intPath = gInterpreter->GetIncludePath();" << endl; | |
3767 | out << " TObjArray *listpaths = intPath.Tokenize(\" \");" << endl; | |
3768 | out << " TIter nextpath(listpaths);" << endl; | |
3769 | out << " TObjString *pname;" << endl; | |
3770 | out << " while ((pname=(TObjString*)nextpath())) {" << endl; | |
3771 | out << " TString current = pname->GetName();" << endl; | |
3772 | out << " if (current.Contains(\"AliRoot\") || current.Contains(\"ALICE_ROOT\")) continue;" << endl; | |
3773 | out << " gSystem->AddIncludePath(current);" << endl; | |
3774 | out << " }" << endl; | |
3775 | out << " if (listpaths) delete listpaths;" << endl; | |
3776 | if (fIncludePath.Length()) out << " gSystem->AddIncludePath(\"" << fIncludePath.Data() << "\");" << endl; | |
3777 | out << " gROOT->ProcessLine(\".include $ALICE_ROOT/include\");" << endl; | |
3778 | out << " printf(\"Include path: %s\\n\", gSystem->GetIncludePath());" << endl << endl; | |
6da75e0b | 3779 | if (fAdditionalLibs.Length()) { |
3780 | out << "// Add aditional AliRoot libraries" << endl; | |
3781 | TObjArray *list = fAdditionalLibs.Tokenize(" "); | |
3782 | TIter next(list); | |
3783 | TObjString *str; | |
3784 | while((str=(TObjString*)next())) { | |
3785 | if (str->GetString().Contains(".so")) | |
3786 | out << " gSystem->Load(\"" << str->GetString().Data() << "\");" << endl; | |
652561d5 | 3787 | if (str->GetString().Contains(".par")) |
3788 | out << " if (!" << setupPar << "(\"" << str->GetString() << "\")) return;" << endl; | |
6da75e0b | 3789 | } |
3790 | if (list) delete list; | |
3791 | } | |
3792 | out << endl; | |
c57f56b7 | 3793 | out << "// analysis source to be compiled at runtime (if any)" << endl; |
3794 | if (fAnalysisSource.Length()) { | |
3795 | TObjArray *list = fAnalysisSource.Tokenize(" "); | |
3796 | TIter next(list); | |
3797 | TObjString *str; | |
3798 | while((str=(TObjString*)next())) { | |
3799 | out << " gROOT->ProcessLine(\".L " << str->GetString().Data() << "+g\");" << endl; | |
3800 | } | |
3801 | if (list) delete list; | |
3802 | } | |
3803 | out << endl; | |
b3e07543 | 3804 | // out << " printf(\"Currently load libraries:\\n\");" << endl; |
3805 | // out << " printf(\"%s\\n\", gSystem->GetLibraries());" << endl; | |
0f389141 | 3806 | if (fFastReadOption) { |
d3339be3 | 3807 | Warning("WriteAnalysisMacro", "!!! You requested FastRead option. Using xrootd flags to reduce timeouts in the grid jobs. This may skip some files that could be accessed !!! \ |
3808 | \n+++ NOTE: To disable this option, use: plugin->SetFastReadOption(kFALSE)"); | |
0f389141 | 3809 | out << "// fast xrootd reading enabled" << endl; |
3810 | out << " printf(\"!!! You requested FastRead option. Using xrootd flags to reduce timeouts. Note that this may skip some files that could be accessed !!!\");" << endl; | |
b3e07543 | 3811 | out << " gEnv->SetValue(\"XNet.ConnectTimeout\",50);" << endl; |
3812 | out << " gEnv->SetValue(\"XNet.RequestTimeout\",50);" << endl; | |
0f389141 | 3813 | out << " gEnv->SetValue(\"XNet.MaxRedirectCount\",2);" << endl; |
b3e07543 | 3814 | out << " gEnv->SetValue(\"XNet.ReconnectTimeout\",50);" << endl; |
0f389141 | 3815 | out << " gEnv->SetValue(\"XNet.FirstConnectMaxCnt\",1);" << endl << endl; |
21ca8e59 | 3816 | } |
3817 | if (!IsLocalTest()) { | |
3818 | out << "// connect to AliEn and make the chain" << endl; | |
3819 | out << " if (!TGrid::Connect(\"alien://\")) return;" << endl; | |
0f389141 | 3820 | } |
c57f56b7 | 3821 | out << "// read the analysis manager from file" << endl; |
f10e8481 | 3822 | TString analysisFile = fExecutable; |
3823 | analysisFile.ReplaceAll(".sh", ".root"); | |
105631b5 | 3824 | out << " AliAnalysisManager *mgr = AliAnalysisAlien::LoadAnalysisManager(\"" |
3825 | << analysisFile << "\");" << endl; | |
3826 | out << " if (!mgr) return;" << endl; | |
21ca8e59 | 3827 | if (IsLocalTest()) { |
3828 | out << " AliAnalysisAlien *plugin = new AliAnalysisAlien();" << endl; | |
3829 | out << " plugin->SetRunMode(\"test\");" << endl; | |
139fe6ba | 3830 | if (fFileForTestMode.IsNull()) |
3831 | out << " plugin->SetFileForTestMode(\"data.txt\");" << endl; | |
3832 | else | |
3833 | out << " plugin->SetFileForTestMode(\"" << fFileForTestMode << "\");" << endl; | |
922b1fc7 | 3834 | out << " plugin->SetNtestFiles(" << fNtestFiles << ");" << endl; |
21ca8e59 | 3835 | out << " mgr->SetGridHandler(plugin);" << endl; |
627a5dbe | 3836 | if (AliAnalysisManager::GetAnalysisManager()) { |
7a366e0b | 3837 | out << " mgr->SetDebugLevel(" << AliAnalysisManager::GetAnalysisManager()->GetDebugLevel() << ");" << endl; |
627a5dbe | 3838 | out << " mgr->SetNSysInfo(" << AliAnalysisManager::GetAnalysisManager()->GetNsysInfo() << ");" << endl; |
3839 | } else { | |
7a366e0b | 3840 | out << " mgr->SetDebugLevel(10);" << endl; |
627a5dbe | 3841 | out << " mgr->SetNSysInfo(100);" << endl; |
3842 | } | |
21ca8e59 | 3843 | } |
c57f56b7 | 3844 | out << " mgr->PrintStatus();" << endl; |
52b6a92b | 3845 | if (AliAnalysisManager::GetAnalysisManager()) { |
f866cba5 | 3846 | if (AliAnalysisManager::GetAnalysisManager()->GetDebugLevel()>3) { |
52b6a92b | 3847 | out << " gEnv->SetValue(\"XNet.Debug\", \"1\");" << endl; |
de52b69c | 3848 | } else { |
9a8288ff | 3849 | if (TestBit(AliAnalysisGrid::kTest)) |
3850 | out << " AliLog::SetGlobalLogLevel(AliLog::kWarning);" << endl; | |
3851 | else | |
3852 | out << " AliLog::SetGlobalLogLevel(AliLog::kError);" << endl; | |
52b6a92b | 3853 | } |
3854 | } | |
21ca8e59 | 3855 | if (!IsLocalTest()) { |
242accb2 | 3856 | out << " TChain *chain = CreateChain(\"wn.xml\", anatype);" << endl << endl; |
21ca8e59 | 3857 | out << " mgr->StartAnalysis(\"localfile\", chain);" << endl; |
3858 | } else { | |
3859 | out << " mgr->StartAnalysis(\"localfile\");" << endl; | |
242accb2 | 3860 | } |
f7498086 | 3861 | out << " timer.Stop();" << endl; |
3862 | out << " timer.Print();" << endl; | |
c57f56b7 | 3863 | out << "}" << endl << endl; |
21ca8e59 | 3864 | if (!IsLocalTest()) { |
fcc9bb6f | 3865 | out <<"//________________________________________________________________________________" << endl; |
c57f56b7 | 3866 | out << "TChain* CreateChain(const char *xmlfile, const char *type=\"ESD\")" << endl; |
3867 | out << "{" << endl; | |
3868 | out << "// Create a chain using url's from xml file" << endl; | |
242accb2 | 3869 | out << " TString filename;" << endl; |
3870 | out << " Int_t run = 0;" << endl; | |
c85cfc0f | 3871 | if (IsUseMCchain()) { |
3872 | out << " TString treename = \"TE\";" << endl; | |
3873 | } else { | |
3874 | out << " TString treename = type;" << endl; | |
3875 | out << " treename.ToLower();" << endl; | |
3876 | out << " treename += \"Tree\";" << endl; | |
3877 | } | |
e02fee64 | 3878 | out << " printf(\"***************************************\\n\");" << endl; |
3879 | out << " printf(\" Getting chain of trees %s\\n\", treename.Data());" << endl; | |
3880 | out << " printf(\"***************************************\\n\");" << endl; | |
c57f56b7 | 3881 | out << " TAlienCollection *coll = TAlienCollection::Open(xmlfile);" << endl; |
3882 | out << " if (!coll) {" << endl; | |
3883 | out << " ::Error(\"CreateChain\", \"Cannot create an AliEn collection from %s\", xmlfile);" << endl; | |
3884 | out << " return NULL;" << endl; | |
3885 | out << " }" << endl; | |
242accb2 | 3886 | out << " AliAnalysisManager *mgr = AliAnalysisManager::GetAnalysisManager();" << endl; |
c57f56b7 | 3887 | out << " TChain *chain = new TChain(treename);" << endl; |
0df6ccf2 | 3888 | if(fFriendChainName!="") { |
3889 | out << " TChain *chainFriend = new TChain(treename);" << endl; | |
3890 | } | |
c57f56b7 | 3891 | out << " coll->Reset();" << endl; |
0df6ccf2 | 3892 | out << " while (coll->Next()) {" << endl; |
242accb2 | 3893 | out << " filename = coll->GetTURL("");" << endl; |
3894 | out << " if (mgr) {" << endl; | |
3895 | out << " Int_t nrun = AliAnalysisManager::GetRunFromAlienPath(filename);" << endl; | |
3896 | out << " if (nrun && nrun != run) {" << endl; | |
3897 | out << " printf(\"### Run number detected from chain: %d\\n\", nrun);" << endl; | |
3898 | out << " mgr->SetRunFromPath(nrun);" << endl; | |
3899 | out << " run = nrun;" << endl; | |
3900 | out << " }" << endl; | |
3901 | out << " }" << endl; | |
3902 | out << " chain->Add(filename);" << endl; | |
0df6ccf2 | 3903 | if(fFriendChainName!="") { |
3904 | out << " TString fileFriend=coll->GetTURL(\"\");" << endl; | |
3905 | out << " fileFriend.ReplaceAll(\"AliAOD.root\",\""<<fFriendChainName.Data()<<"\");" << endl; | |
3906 | out << " fileFriend.ReplaceAll(\"AliAODs.root\",\""<<fFriendChainName.Data()<<"\");" << endl; | |
3907 | out << " chainFriend->Add(fileFriend.Data());" << endl; | |
3908 | } | |
3909 | out << " }" << endl; | |
c57f56b7 | 3910 | out << " if (!chain->GetNtrees()) {" << endl; |
3911 | out << " ::Error(\"CreateChain\", \"No tree found from collection %s\", xmlfile);" << endl; | |
3912 | out << " return NULL;" << endl; | |
3913 | out << " }" << endl; | |
0df6ccf2 | 3914 | if(fFriendChainName!="") { |
3915 | out << " chain->AddFriend(chainFriend);" << endl; | |
3916 | } | |
c57f56b7 | 3917 | out << " return chain;" << endl; |
fcc9bb6f | 3918 | out << "}" << endl << endl; |
c57f56b7 | 3919 | } |
5b273635 | 3920 | if (hasANALYSISalice) { |
3921 | out <<"//________________________________________________________________________________" << endl; | |
3922 | out << "Bool_t SetupPar(const char *package) {" << endl; | |
3923 | out << "// Compile the package and set it up." << endl; | |
3924 | out << " TString pkgdir = package;" << endl; | |
3925 | out << " pkgdir.ReplaceAll(\".par\",\"\");" << endl; | |
b50a41c3 | 3926 | out << " gSystem->Exec(TString::Format(\"tar xvzf %s.par\", pkgdir.Data()));" << endl; |
5b273635 | 3927 | out << " TString cdir = gSystem->WorkingDirectory();" << endl; |
3928 | out << " gSystem->ChangeDirectory(pkgdir);" << endl; | |
3929 | out << " // Check for BUILD.sh and execute" << endl; | |
3930 | out << " if (!gSystem->AccessPathName(\"PROOF-INF/BUILD.sh\")) {" << endl; | |
3931 | out << " printf(\"*******************************\\n\");" << endl; | |
3932 | out << " printf(\"*** Building PAR archive ***\\n\");" << endl; | |
3933 | out << " printf(\"*******************************\\n\");" << endl; | |
3934 | out << " if (gSystem->Exec(\"PROOF-INF/BUILD.sh\")) {" << endl; | |
3935 | out << " ::Error(\"SetupPar\", \"Cannot build par archive %s\", pkgdir.Data());" << endl; | |
3936 | out << " gSystem->ChangeDirectory(cdir);" << endl; | |
3937 | out << " return kFALSE;" << endl; | |
3938 | out << " }" << endl; | |
3939 | out << " } else {" << endl; | |
3940 | out << " ::Error(\"SetupPar\",\"Cannot access PROOF-INF/BUILD.sh for package %s\", pkgdir.Data());" << endl; | |
3941 | out << " gSystem->ChangeDirectory(cdir);" << endl; | |
3942 | out << " return kFALSE;" << endl; | |
3943 | out << " }" << endl; | |
3944 | out << " // Check for SETUP.C and execute" << endl; | |
3945 | out << " if (!gSystem->AccessPathName(\"PROOF-INF/SETUP.C\")) {" << endl; | |
3946 | out << " printf(\"*******************************\\n\");" << endl; | |
3947 | out << " printf(\"*** Setup PAR archive ***\\n\");" << endl; | |
3948 | out << " printf(\"*******************************\\n\");" << endl; | |
3949 | out << " gROOT->Macro(\"PROOF-INF/SETUP.C\");" << endl; | |
3950 | out << " } else {" << endl; | |
3951 | out << " ::Error(\"SetupPar\",\"Cannot access PROOF-INF/SETUP.C for package %s\", pkgdir.Data());" << endl; | |
3952 | out << " gSystem->ChangeDirectory(cdir);" << endl; | |
3953 | out << " return kFALSE;" << endl; | |
3954 | out << " }" << endl; | |
3955 | out << " // Restore original workdir" << endl; | |
3956 | out << " gSystem->ChangeDirectory(cdir);" << endl; | |
3957 | out << " return kTRUE;" << endl; | |
3958 | out << "}" << endl; | |
3959 | } | |
c57f56b7 | 3960 | Info("WriteAnalysisMacro", "\n##### Analysis macro to run on worker nodes <%s> written",fAnalysisMacro.Data()); |
3961 | } | |
3962 | Bool_t copy = kTRUE; | |
d3b18c4c | 3963 | if (fProductionMode || TestBit(AliAnalysisGrid::kOffline) || TestBit(AliAnalysisGrid::kTest)) copy = kFALSE; |
c57f56b7 | 3964 | if (copy) { |
3965 | CdWork(); | |
3966 | TString workdir = gGrid->GetHomeDirectory(); | |
3967 | workdir += fGridWorkingDir; | |
3968 | if (FileExists(fAnalysisMacro)) gGrid->Rm(fAnalysisMacro); | |
c57f56b7 | 3969 | Info("WriteAnalysisMacro", "\n##### Copying analysis macro: <%s> to your alien workspace", fAnalysisMacro.Data()); |
6c395669 | 3970 | // TFile::Cp(Form("file:%s",fAnalysisMacro.Data()), Form("alien://%s/%s", workdir.Data(), fAnalysisMacro.Data())); |
3971 | if (!copyLocal2Alien("WriteAnalysisMacro",fAnalysisMacro.Data(), | |
3972 | Form("alien://%s/%s", workdir.Data(), | |
3973 | fAnalysisMacro.Data()))) Fatal("","Terminating"); | |
c57f56b7 | 3974 | } |
3975 | } | |
3976 | ||
0f389141 | 3977 | //______________________________________________________________________________ |
3978 | void AliAnalysisAlien::WriteMergingMacro() | |
3979 | { | |
3980 | // Write a macro to merge the outputs per master job. | |
3981 | if (!fMergeViaJDL) return; | |
3982 | if (!fOutputFiles.Length()) { | |
3983 | Error("WriteMergingMacro", "No output file names defined. Are you running the right AliAnalysisAlien configuration ?"); | |
3984 | return; | |
3985 | } | |
3986 | TString mergingMacro = fExecutable; | |
3987 | mergingMacro.ReplaceAll(".sh","_merge.C"); | |
139fe6ba | 3988 | if (gGrid && !fGridOutputDir.Contains("/")) fGridOutputDir = Form("%s/%s/%s", gGrid->GetHomeDirectory(), fGridWorkingDir.Data(), fGridOutputDir.Data()); |
0f389141 | 3989 | if (!TestBit(AliAnalysisGrid::kSubmit)) { |
3990 | ofstream out; | |
3991 | out.open(mergingMacro.Data(), ios::out); | |
3992 | if (!out.good()) { | |
3993 | Error("WriteMergingMacro", "could not open file %s for writing", fAnalysisMacro.Data()); | |
3994 | return; | |
3995 | } | |
5b273635 | 3996 | Bool_t hasSTEERBase = kFALSE; |
3997 | Bool_t hasESD = kFALSE; | |
3998 | Bool_t hasAOD = kFALSE; | |
3999 | Bool_t hasANALYSIS = kFALSE; | |
7ea40ac8 | 4000 | Bool_t hasOADB = kFALSE; |
5b273635 | 4001 | Bool_t hasANALYSISalice = kFALSE; |
4002 | Bool_t hasCORRFW = kFALSE; | |
0f389141 | 4003 | TString func = mergingMacro; |
4004 | TString comment; | |
4005 | func.ReplaceAll(".C", ""); | |
f47d5cb4 | 4006 | out << "void " << func.Data() << "(const char *dir, Int_t stage=0)" << endl; |
0f389141 | 4007 | out << "{" << endl; |
4008 | out << "// Automatically generated merging macro executed in grid subjobs" << endl << endl; | |
4009 | out << " TStopwatch timer;" << endl; | |
4010 | out << " timer.Start();" << endl << endl; | |
b3e07543 | 4011 | // Reset existing include path |
4012 | out << "// Reset existing include path and add current directory first in the search" << endl; | |
4013 | out << " gSystem->SetIncludePath(\"-I.\");" << endl; | |
7c2cd90a | 4014 | if (!fExecutableCommand.Contains("aliroot")) { |
4015 | out << "// load base root libraries" << endl; | |
4016 | out << " gSystem->Load(\"libTree\");" << endl; | |
4017 | out << " gSystem->Load(\"libGeom\");" << endl; | |
4018 | out << " gSystem->Load(\"libVMC\");" << endl; | |
4019 | out << " gSystem->Load(\"libPhysics\");" << endl << endl; | |
4020 | out << " gSystem->Load(\"libMinuit\");" << endl << endl; | |
4021 | } | |
0f389141 | 4022 | if (fAdditionalRootLibs.Length()) { |
4023 | // in principle libtree /lib geom libvmc etc. can go into this list, too | |
4024 | out << "// Add aditional libraries" << endl; | |
4025 | TObjArray *list = fAdditionalRootLibs.Tokenize(" "); | |
4026 | TIter next(list); | |
4027 | TObjString *str; | |
4028 | while((str=(TObjString*)next())) { | |
4029 | if (str->GetString().Contains(".so")) | |
4030 | out << " gSystem->Load(\"" << str->GetString().Data() << "\");" << endl; | |
4031 | } | |
4032 | if (list) delete list; | |
4033 | } | |
0f389141 | 4034 | out << "// Load analysis framework libraries" << endl; |
4035 | if (!fPackages) { | |
7c2cd90a | 4036 | if (!fExecutableCommand.Contains("aliroot")) { |
4037 | out << " gSystem->Load(\"libSTEERBase\");" << endl; | |
4038 | out << " gSystem->Load(\"libESD\");" << endl; | |
4039 | out << " gSystem->Load(\"libAOD\");" << endl; | |
4040 | } | |
0f389141 | 4041 | out << " gSystem->Load(\"libANALYSIS\");" << endl; |
7ea40ac8 | 4042 | out << " gSystem->Load(\"libOADB\");" << endl; |
0f389141 | 4043 | out << " gSystem->Load(\"libANALYSISalice\");" << endl; |
4044 | out << " gSystem->Load(\"libCORRFW\");" << endl << endl; | |
4045 | } else { | |
4046 | TIter next(fPackages); | |
4047 | TObject *obj; | |
4048 | TString pkgname; | |
5b273635 | 4049 | TString setupPar = "AliAnalysisAlien::SetupPar"; |
0f389141 | 4050 | while ((obj=next())) { |
4051 | pkgname = obj->GetName(); | |
4052 | if (pkgname == "STEERBase" || | |
4053 | pkgname == "STEERBase.par") hasSTEERBase = kTRUE; | |
4054 | if (pkgname == "ESD" || | |
4055 | pkgname == "ESD.par") hasESD = kTRUE; | |
4056 | if (pkgname == "AOD" || | |
4057 | pkgname == "AOD.par") hasAOD = kTRUE; | |
4058 | if (pkgname == "ANALYSIS" || | |
4059 | pkgname == "ANALYSIS.par") hasANALYSIS = kTRUE; | |
7ea40ac8 | 4060 | if (pkgname == "OADB" || |
4061 | pkgname == "OADB.par") hasOADB = kTRUE; | |
0f389141 | 4062 | if (pkgname == "ANALYSISalice" || |
4063 | pkgname == "ANALYSISalice.par") hasANALYSISalice = kTRUE; | |
4064 | if (pkgname == "CORRFW" || | |
4065 | pkgname == "CORRFW.par") hasCORRFW = kTRUE; | |
4066 | } | |
5b273635 | 4067 | if (hasANALYSISalice) setupPar = "SetupPar"; |
0f389141 | 4068 | if (!hasSTEERBase) out << " gSystem->Load(\"libSTEERBase\");" << endl; |
5b273635 | 4069 | else out << " if (!" << setupPar << "(\"STEERBase\")) return;" << endl; |
0f389141 | 4070 | if (!hasESD) out << " gSystem->Load(\"libESD\");" << endl; |
5b273635 | 4071 | else out << " if (!" << setupPar << "(\"ESD\")) return;" << endl; |
0f389141 | 4072 | if (!hasAOD) out << " gSystem->Load(\"libAOD\");" << endl; |
5b273635 | 4073 | else out << " if (!" << setupPar << "(\"AOD\")) return;" << endl; |
0bc15bcd | 4074 | out << " gSystem->Load(\"libOADB\");" << endl; |
0f389141 | 4075 | if (!hasANALYSIS) out << " gSystem->Load(\"libANALYSIS\");" << endl; |
5b273635 | 4076 | else out << " if (!" << setupPar << "(\"ANALYSIS\")) return;" << endl; |
7ea40ac8 | 4077 | if (!hasOADB) out << " gSystem->Load(\"libOADB\");" << endl; |
4078 | else out << " if (!" << setupPar << "(\"OADB\")) return;" << endl; | |
0f389141 | 4079 | if (!hasANALYSISalice) out << " gSystem->Load(\"libANALYSISalice\");" << endl; |
5b273635 | 4080 | else out << " if (!" << setupPar << "(\"ANALYSISalice\")) return;" << endl; |
0f389141 | 4081 | if (!hasCORRFW) out << " gSystem->Load(\"libCORRFW\");" << endl << endl; |
5b273635 | 4082 | else out << " if (!" << setupPar << "(\"CORRFW\")) return;" << endl << endl; |
0f389141 | 4083 | out << "// Compile other par packages" << endl; |
4084 | next.Reset(); | |
4085 | while ((obj=next())) { | |
4086 | pkgname = obj->GetName(); | |
4087 | if (pkgname == "STEERBase" || | |
4088 | pkgname == "STEERBase.par" || | |
4089 | pkgname == "ESD" || | |
4090 | pkgname == "ESD.par" || | |
4091 | pkgname == "AOD" || | |
4092 | pkgname == "AOD.par" || | |
4093 | pkgname == "ANALYSIS" || | |
4094 | pkgname == "ANALYSIS.par" || | |
7ea40ac8 | 4095 | pkgname == "OADB" || |
4096 | pkgname == "OADB.par" || | |
0f389141 | 4097 | pkgname == "ANALYSISalice" || |
4098 | pkgname == "ANALYSISalice.par" || | |
4099 | pkgname == "CORRFW" || | |
4100 | pkgname == "CORRFW.par") continue; | |
5b273635 | 4101 | out << " if (!" << setupPar << "(\"" << obj->GetName() << "\")) return;" << endl; |
0f389141 | 4102 | } |
4103 | } | |
b3e07543 | 4104 | out << "// include path" << endl; |
4105 | // Get the include path from the interpreter and remove entries pointing to AliRoot | |
4106 | out << " TString intPath = gInterpreter->GetIncludePath();" << endl; | |
4107 | out << " TObjArray *listpaths = intPath.Tokenize(\" \");" << endl; | |
4108 | out << " TIter nextpath(listpaths);" << endl; | |
4109 | out << " TObjString *pname;" << endl; | |
4110 | out << " while ((pname=(TObjString*)nextpath())) {" << endl; | |
4111 | out << " TString current = pname->GetName();" << endl; | |
4112 | out << " if (current.Contains(\"AliRoot\") || current.Contains(\"ALICE_ROOT\")) continue;" << endl; | |
4113 | out << " gSystem->AddIncludePath(current);" << endl; | |
4114 | out << " }" << endl; | |
4115 | out << " if (listpaths) delete listpaths;" << endl; | |
4116 | if (fIncludePath.Length()) out << " gSystem->AddIncludePath(\"" << fIncludePath.Data() << "\");" << endl; | |
4117 | out << " gROOT->ProcessLine(\".include $ALICE_ROOT/include\");" << endl; | |
4118 | out << " printf(\"Include path: %s\\n\", gSystem->GetIncludePath());" << endl << endl; | |
0f389141 | 4119 | if (fAdditionalLibs.Length()) { |
4120 | out << "// Add aditional AliRoot libraries" << endl; | |
4121 | TObjArray *list = fAdditionalLibs.Tokenize(" "); | |
4122 | TIter next(list); | |
4123 | TObjString *str; | |
4124 | while((str=(TObjString*)next())) { | |
4125 | if (str->GetString().Contains(".so")) | |
4126 | out << " gSystem->Load(\"" << str->GetString().Data() << "\");" << endl; | |
4127 | } | |
4128 | if (list) delete list; | |
4129 | } | |
4130 | out << endl; | |
4131 | out << "// Analysis source to be compiled at runtime (if any)" << endl; | |
4132 | if (fAnalysisSource.Length()) { | |
4133 | TObjArray *list = fAnalysisSource.Tokenize(" "); | |
4134 | TIter next(list); | |
4135 | TObjString *str; | |
4136 | while((str=(TObjString*)next())) { | |
4137 | out << " gROOT->ProcessLine(\".L " << str->GetString().Data() << "+g\");" << endl; | |
4138 | } | |
4139 | if (list) delete list; | |
4140 | } | |
149d288c | 4141 | out << endl; |
4142 | ||
0f389141 | 4143 | if (fFastReadOption) { |
4144 | Warning("WriteMergingMacro", "!!! You requested FastRead option. Using xrootd flags to reduce timeouts in the grid merging jobs. Note that this may skip some files that could be accessed !!!"); | |
4145 | out << "// fast xrootd reading enabled" << endl; | |
4146 | out << " printf(\"!!! You requested FastRead option. Using xrootd flags to reduce timeouts. Note that this may skip some files that could be accessed !!!\");" << endl; | |
b3e07543 | 4147 | out << " gEnv->SetValue(\"XNet.ConnectTimeout\",50);" << endl; |
4148 | out << " gEnv->SetValue(\"XNet.RequestTimeout\",50);" << endl; | |
0f389141 | 4149 | out << " gEnv->SetValue(\"XNet.MaxRedirectCount\",2);" << endl; |
b3e07543 | 4150 | out << " gEnv->SetValue(\"XNet.ReconnectTimeout\",50);" << endl; |
0f389141 | 4151 | out << " gEnv->SetValue(\"XNet.FirstConnectMaxCnt\",1);" << endl << endl; |
e8b839ab | 4152 | } |
4153 | // Change temp directory to current one | |
4154 | out << "// Set temporary merging directory to current one" << endl; | |
4155 | out << " gSystem->Setenv(\"TMPDIR\", gSystem->pwd());" << endl << endl; | |
70c52cf3 | 4156 | out << "// Set temporary compilation directory to current one" << endl; |
4157 | out << " gSystem->SetBuildDir(gSystem->pwd(), kTRUE);" << endl << endl; | |
0f389141 | 4158 | out << "// Connect to AliEn" << endl; |
4159 | out << " if (!TGrid::Connect(\"alien://\")) return;" << endl; | |
7c2cd90a | 4160 | out << " TString outputDir = dir;" << endl; |
f790bc1b | 4161 | out << " TString outputFiles = \"" << GetListOfFiles("out") << "\";" << endl; |
37d21c01 | 4162 | out << " TString mergeExcludes = \"" << fMergeExcludes << " " << fRegisterExcludes << "\";" << endl; |
58268c13 | 4163 | out << " TObjArray *list = outputFiles.Tokenize(\",\");" << endl; |
0f389141 | 4164 | out << " TIter *iter = new TIter(list);" << endl; |
4165 | out << " TObjString *str;" << endl; | |
a2f5fc01 | 4166 | out << " TString outputFile;" << endl; |
0f389141 | 4167 | out << " Bool_t merged = kTRUE;" << endl; |
4168 | out << " while((str=(TObjString*)iter->Next())) {" << endl; | |
a2f5fc01 | 4169 | out << " outputFile = str->GetString();" << endl; |
7c2cd90a | 4170 | out << " if (outputFile.Contains(\"*\")) continue;" << endl; |
a2f5fc01 | 4171 | out << " Int_t index = outputFile.Index(\"@\");" << endl; |
4172 | out << " if (index > 0) outputFile.Remove(index);" << endl; | |
0f389141 | 4173 | out << " // Skip already merged outputs" << endl; |
a2f5fc01 | 4174 | out << " if (!gSystem->AccessPathName(outputFile)) {" << endl; |
4175 | out << " printf(\"Output file <%s> found. Not merging again.\",outputFile.Data());" << endl; | |
0f389141 | 4176 | out << " continue;" << endl; |
4177 | out << " }" << endl; | |
a2f5fc01 | 4178 | out << " if (mergeExcludes.Contains(outputFile.Data())) continue;" << endl; |
b3e07543 | 4179 | out << " merged = AliAnalysisAlien::MergeOutput(outputFile, outputDir, " << fMaxMergeFiles << ", stage);" << endl; |
0f389141 | 4180 | out << " if (!merged) {" << endl; |
a2f5fc01 | 4181 | out << " printf(\"ERROR: Cannot merge %s\\n\", outputFile.Data());" << endl; |
7c2cd90a | 4182 | out << " return;" << endl; |
0f389141 | 4183 | out << " }" << endl; |
4184 | out << " }" << endl; | |
7c2cd90a | 4185 | out << " // all outputs merged, validate" << endl; |
4186 | out << " ofstream out;" << endl; | |
4187 | out << " out.open(\"outputs_valid\", ios::out);" << endl; | |
4188 | out << " out.close();" << endl; | |
4189 | out << " // read the analysis manager from file" << endl; | |
f866cba5 | 4190 | TString analysisFile = fExecutable; |
4191 | analysisFile.ReplaceAll(".sh", ".root"); | |
f47d5cb4 | 4192 | out << " if (!outputDir.Contains(\"Stage\")) return;" << endl; |
105631b5 | 4193 | out << " AliAnalysisManager *mgr = AliAnalysisAlien::LoadAnalysisManager(\"" |
4194 | << analysisFile << "\");" << endl; | |
4195 | out << " if (!mgr) return;" << endl; | |
5c4250fc | 4196 | out << " mgr->SetRunFromPath(mgr->GetRunFromAlienPath(dir));" << endl; |
b385fec0 | 4197 | out << " mgr->SetSkipTerminate(kFALSE);" << endl; |
f866cba5 | 4198 | out << " mgr->PrintStatus();" << endl; |
4199 | if (AliAnalysisManager::GetAnalysisManager()) { | |
4200 | if (AliAnalysisManager::GetAnalysisManager()->GetDebugLevel()>3) { | |
4201 | out << " gEnv->SetValue(\"XNet.Debug\", \"1\");" << endl; | |
4202 | } else { | |
9a8288ff | 4203 | if (TestBit(AliAnalysisGrid::kTest)) |
4204 | out << " AliLog::SetGlobalLogLevel(AliLog::kWarning);" << endl; | |
4205 | else | |
4206 | out << " AliLog::SetGlobalLogLevel(AliLog::kError);" << endl; | |
f866cba5 | 4207 | } |
4208 | } | |
9a8288ff | 4209 | out << " TTree *tree = NULL;" << endl; |
4210 | out << " mgr->StartAnalysis(\"gridterminate\", tree);" << endl; | |
0f389141 | 4211 | out << "}" << endl << endl; |
5b273635 | 4212 | if (hasANALYSISalice) { |
4213 | out <<"//________________________________________________________________________________" << endl; | |
4214 | out << "Bool_t SetupPar(const char *package) {" << endl; | |
4215 | out << "// Compile the package and set it up." << endl; | |
4216 | out << " TString pkgdir = package;" << endl; | |
4217 | out << " pkgdir.ReplaceAll(\".par\",\"\");" << endl; | |
b50a41c3 | 4218 | out << " gSystem->Exec(TString::Format(\"tar xvzf %s.par\", pkgdir.Data()));" << endl; |
5b273635 | 4219 | out << " TString cdir = gSystem->WorkingDirectory();" << endl; |
4220 | out << " gSystem->ChangeDirectory(pkgdir);" << endl; | |
4221 | out << " // Check for BUILD.sh and execute" << endl; | |
4222 | out << " if (!gSystem->AccessPathName(\"PROOF-INF/BUILD.sh\")) {" << endl; | |
4223 | out << " printf(\"*******************************\\n\");" << endl; | |
4224 | out << " printf(\"*** Building PAR archive ***\\n\");" << endl; | |
4225 | out << " printf(\"*******************************\\n\");" << endl; | |
4226 | out << " if (gSystem->Exec(\"PROOF-INF/BUILD.sh\")) {" << endl; | |
4227 | out << " ::Error(\"SetupPar\", \"Cannot build par archive %s\", pkgdir.Data());" << endl; | |
4228 | out << " gSystem->ChangeDirectory(cdir);" << endl; | |
4229 | out << " return kFALSE;" << endl; | |
4230 | out << " }" << endl; | |
4231 | out << " } else {" << endl; | |
4232 | out << " ::Error(\"SetupPar\",\"Cannot access PROOF-INF/BUILD.sh for package %s\", pkgdir.Data());" << endl; | |
4233 | out << " gSystem->ChangeDirectory(cdir);" << endl; | |
4234 | out << " return kFALSE;" << endl; | |
4235 | out << " }" << endl; | |
4236 | out << " // Check for SETUP.C and execute" << endl; | |
4237 | out << " if (!gSystem->AccessPathName(\"PROOF-INF/SETUP.C\")) {" << endl; | |
4238 | out << " printf(\"*******************************\\n\");" << endl; | |
4239 | out << " printf(\"*** Setup PAR archive ***\\n\");" << endl; | |
4240 | out << " printf(\"*******************************\\n\");" << endl; | |
4241 | out << " gROOT->Macro(\"PROOF-INF/SETUP.C\");" << endl; | |
4242 | out << " } else {" << endl; | |
4243 | out << " ::Error(\"SetupPar\",\"Cannot access PROOF-INF/SETUP.C for package %s\", pkgdir.Data());" << endl; | |
4244 | out << " gSystem->ChangeDirectory(cdir);" << endl; | |
4245 | out << " return kFALSE;" << endl; | |
4246 | out << " }" << endl; | |
4247 | out << " // Restore original workdir" << endl; | |
4248 | out << " gSystem->ChangeDirectory(cdir);" << endl; | |
4249 | out << " return kTRUE;" << endl; | |
4250 | out << "}" << endl; | |
4251 | } | |
0f389141 | 4252 | } |
4253 | Bool_t copy = kTRUE; | |
d3b18c4c | 4254 | if (fProductionMode || TestBit(AliAnalysisGrid::kOffline) || TestBit(AliAnalysisGrid::kTest)) copy = kFALSE; |
0f389141 | 4255 | if (copy) { |
4256 | CdWork(); | |
4257 | TString workdir = gGrid->GetHomeDirectory(); | |
4258 | workdir += fGridWorkingDir; | |
4259 | if (FileExists(mergingMacro)) gGrid->Rm(mergingMacro); | |
4260 | Info("WriteMergingMacro", "\n##### Copying merging macro: <%s> to your alien workspace", mergingMacro.Data()); | |
6c395669 | 4261 | // TFile::Cp(Form("file:%s",mergingMacro.Data()), Form("alien://%s/%s", workdir.Data(), mergingMacro.Data())); |
4262 | if (!copyLocal2Alien("WriteMergeMacro",mergingMacro.Data(), | |
4263 | Form("%s/%s", workdir.Data(), mergingMacro.Data()))) Fatal("","Terminating"); | |
0f389141 | 4264 | } |
4265 | } | |
4266 | ||
4267 | //______________________________________________________________________________ | |
4268 | Bool_t AliAnalysisAlien::SetupPar(const char *package) | |
4269 | { | |
205b201f | 4270 | // Compile the par file archive pointed by <package>. This must be present in the current directory. |
0f389141 | 4271 | // Note that for loading the compiled library. The current directory should have precedence in |
4272 | // LD_LIBRARY_PATH | |
4273 | TString pkgdir = package; | |
4274 | pkgdir.ReplaceAll(".par",""); | |
b50a41c3 | 4275 | gSystem->Exec(TString::Format("tar xzf %s.par", pkgdir.Data())); |
0f389141 | 4276 | TString cdir = gSystem->WorkingDirectory(); |
4277 | gSystem->ChangeDirectory(pkgdir); | |
4278 | // Check for BUILD.sh and execute | |
4279 | if (!gSystem->AccessPathName("PROOF-INF/BUILD.sh")) { | |
4280 | printf("**************************************************\n"); | |
4281 | printf("*** Building PAR archive %s\n", package); | |
4282 | printf("**************************************************\n"); | |
4283 | if (gSystem->Exec("PROOF-INF/BUILD.sh")) { | |
4284 | ::Error("SetupPar", "Cannot build par archive %s", pkgdir.Data()); | |
4285 | gSystem->ChangeDirectory(cdir); | |
4286 | return kFALSE; | |
4287 | } | |
4288 | } else { | |
4289 | ::Error("SetupPar","Cannot access PROOF-INF/BUILD.sh for package %s", pkgdir.Data()); | |
4290 | gSystem->ChangeDirectory(cdir); | |
4291 | return kFALSE; | |
4292 | } | |
4293 | // Check for SETUP.C and execute | |
4294 | if (!gSystem->AccessPathName("PROOF-INF/SETUP.C")) { | |
4295 | printf("**************************************************\n"); | |
4296 | printf("*** Setup PAR archive %s\n", package); | |
4297 | printf("**************************************************\n"); | |
4298 | gROOT->Macro("PROOF-INF/SETUP.C"); | |
4299 | printf("*** Loaded library: %s\n", gSystem->GetLibraries(pkgdir,"",kFALSE)); | |
4300 | } else { | |
4301 | ::Error("SetupPar","Cannot access PROOF-INF/SETUP.C for package %s", pkgdir.Data()); | |
4302 | gSystem->ChangeDirectory(cdir); | |
4303 | return kFALSE; | |
4304 | } | |
4305 | // Restore original workdir | |
4306 | gSystem->ChangeDirectory(cdir); | |
4307 | return kTRUE; | |
4308 | } | |
4309 | ||
c57f56b7 | 4310 | //______________________________________________________________________________ |
4311 | void AliAnalysisAlien::WriteExecutable() | |
4312 | { | |
4313 | // Generate the alien executable script. | |
4314 | if (!TestBit(AliAnalysisGrid::kSubmit)) { | |
4315 | ofstream out; | |
4316 | out.open(fExecutable.Data(), ios::out); | |
4317 | if (out.bad()) { | |
5513444a | 4318 | Error("WriteExecutable", "Bad file name for executable: %s", fExecutable.Data()); |
c57f56b7 | 4319 | return; |
4320 | } | |
4321 | out << "#!/bin/bash" << endl; | |
2a4d5166 | 4322 | // Make sure we can properly compile par files |
4323 | out << "export LD_LIBRARY_PATH=.:$LD_LIBRARY_PATH" << endl; | |
c57f56b7 | 4324 | out << "echo \"=========================================\"" << endl; |
4325 | out << "echo \"############## PATH : ##############\"" << endl; | |
4326 | out << "echo $PATH" << endl; | |
4327 | out << "echo \"############## LD_LIBRARY_PATH : ##############\"" << endl; | |
4328 | out << "echo $LD_LIBRARY_PATH" << endl; | |
4329 | out << "echo \"############## ROOTSYS : ##############\"" << endl; | |
4330 | out << "echo $ROOTSYS" << endl; | |
4331 | out << "echo \"############## which root : ##############\"" << endl; | |
4332 | out << "which root" << endl; | |
4333 | out << "echo \"############## ALICE_ROOT : ##############\"" << endl; | |
4334 | out << "echo $ALICE_ROOT" << endl; | |
4335 | out << "echo \"############## which aliroot : ##############\"" << endl; | |
4336 | out << "which aliroot" << endl; | |
9c5ddadc | 4337 | out << "echo \"############## system limits : ##############\"" << endl; |
4338 | out << "ulimit -a" << endl; | |
4339 | out << "echo \"############## memory : ##############\"" << endl; | |
4340 | out << "free -m" << endl; | |
c57f56b7 | 4341 | out << "echo \"=========================================\"" << endl << endl; |
0a1c1f7f | 4342 | out << fExecutableCommand << " "; |
370c9880 | 4343 | out << fAnalysisMacro.Data() << " " << fExecutableArgs.Data() << endl; |
4344 | out << "RET=$?" << endl; | |
4345 | out << "if [ \"$RET\" != \"0\" ];then" << endl; | |
4346 | out << " echo \"======== ERROR : " << fAnalysisMacro.Data() << " finished with NON zero code: $RET ========\"" << endl; | |
4347 | out << " if [ \"$RET\" -gt 128 ] && [ \"$RET\" -lt 160 ]; then"<<endl; | |
4348 | out << " let sig=\"$RET - 128\""<<endl; | |
4349 | out << " sigs='HUP INT QUIT ILL TRAP ABRT BUS FPE"<<endl; | |
4350 | out << " KILL USR1 SEGV USR2 PIPE ALRM TERM STKFLT"<<endl; | |
4351 | out << " CHLD CONT STOP TSTP TTIN TTOU URG XCPU"<<endl; | |
4352 | out << " XFSZ VTALRM PROF WINCH IO PWR SYS'"<<endl; | |
4353 | out << " sig=SIG`echo $sigs | awk '{ print $'\"$sig\"' }'`"<<endl; | |
4354 | out << " echo \"======== it appears to have been killed with signal: $sig ========\""<<endl; | |
4355 | out << " fi"<<endl; | |
4356 | out << " exit $RET"<< endl; | |
4357 | out << "fi" << endl << endl ; | |
4358 | out << "echo \"======== " << fAnalysisMacro.Data() << " finished with exit code: $RET ========\"" << endl; | |
9c5ddadc | 4359 | out << "echo \"############## memory after: ##############\"" << endl; |
4360 | out << "free -m" << endl; | |
c57f56b7 | 4361 | } |
4362 | Bool_t copy = kTRUE; | |
d3b18c4c | 4363 | if (fProductionMode || TestBit(AliAnalysisGrid::kOffline) || TestBit(AliAnalysisGrid::kTest)) copy = kFALSE; |
c57f56b7 | 4364 | if (copy) { |
4365 | CdWork(); | |
4366 | TString workdir = gGrid->GetHomeDirectory(); | |
923e2ca5 | 4367 | TString bindir = Form("%s/bin", workdir.Data()); |
b93f8109 | 4368 | if (!DirectoryExists(bindir)) gGrid->Mkdir(bindir,"-p"); |
c57f56b7 | 4369 | workdir += fGridWorkingDir; |
4370 | TString executable = Form("%s/bin/%s", gGrid->GetHomeDirectory(), fExecutable.Data()); | |
4371 | if (FileExists(executable)) gGrid->Rm(executable); | |
d3b18c4c | 4372 | Info("WriteExecutable", "\n##### Copying executable file <%s> to your AliEn bin directory", fExecutable.Data()); |
6c395669 | 4373 | // TFile::Cp(Form("file:%s",fExecutable.Data()), Form("alien://%s", executable.Data())); |
4374 | if (!copyLocal2Alien("WriteExecutable",fExecutable.Data(), | |
4375 | executable.Data())) Fatal("","Terminating"); | |
c57f56b7 | 4376 | } |
4377 | } | |
4378 | ||
0f389141 | 4379 | //______________________________________________________________________________ |
4380 | void AliAnalysisAlien::WriteMergeExecutable() | |
4381 | { | |
4382 | // Generate the alien executable script for the merging job. | |
4383 | if (!fMergeViaJDL) return; | |
4384 | TString mergeExec = fExecutable; | |
4385 | mergeExec.ReplaceAll(".sh", "_merge.sh"); | |
4386 | if (!TestBit(AliAnalysisGrid::kSubmit)) { | |
4387 | ofstream out; | |
4388 | out.open(mergeExec.Data(), ios::out); | |
4389 | if (out.bad()) { | |
4390 | Error("WriteMergingExecutable", "Bad file name for executable: %s", mergeExec.Data()); | |
4391 | return; | |
4392 | } | |
4393 | out << "#!/bin/bash" << endl; | |
2a4d5166 | 4394 | // Make sure we can properly compile par files |
4395 | out << "export LD_LIBRARY_PATH=.:$LD_LIBRARY_PATH" << endl; | |
0f389141 | 4396 | out << "echo \"=========================================\"" << endl; |
4397 | out << "echo \"############## PATH : ##############\"" << endl; | |
4398 | out << "echo $PATH" << endl; | |
4399 | out << "echo \"############## LD_LIBRARY_PATH : ##############\"" << endl; | |
4400 | out << "echo $LD_LIBRARY_PATH" << endl; | |
4401 | out << "echo \"############## ROOTSYS : ##############\"" << endl; | |
4402 | out << "echo $ROOTSYS" << endl; | |
4403 | out << "echo \"############## which root : ##############\"" << endl; | |
4404 | out << "which root" << endl; | |
4405 | out << "echo \"############## ALICE_ROOT : ##############\"" << endl; | |
4406 | out << "echo $ALICE_ROOT" << endl; | |
4407 | out << "echo \"############## which aliroot : ##############\"" << endl; | |
4408 | out << "which aliroot" << endl; | |
4409 | out << "echo \"############## system limits : ##############\"" << endl; | |
4410 | out << "ulimit -a" << endl; | |
4411 | out << "echo \"############## memory : ##############\"" << endl; | |
4412 | out << "free -m" << endl; | |
4413 | out << "echo \"=========================================\"" << endl << endl; | |
0f389141 | 4414 | TString mergeMacro = fExecutable; |
4415 | mergeMacro.ReplaceAll(".sh", "_merge.C"); | |
f790bc1b | 4416 | if (IsOneStageMerging()) |
4417 | out << "export ARG=\"" << mergeMacro << "(\\\"$1\\\")\"" << endl; | |
4418 | else | |
f47d5cb4 | 4419 | out << "export ARG=\"" << mergeMacro << "(\\\"$1\\\",$2)\"" << endl; |
0f389141 | 4420 | out << fExecutableCommand << " " << "$ARG" << endl; |
370c9880 | 4421 | out << "RET=$?" << endl; |
4422 | out << "if [ \"$RET\" != \"0\" ];then" << endl; | |
4423 | out << " echo \"======== ERROR : " << fAnalysisMacro.Data() << " finished with NON zero code: $RET ========\"" << endl; | |
4424 | out << " if [ \"$RET\" -gt 128 ] && [ \"$RET\" -lt 160 ]; then"<<endl; | |
4425 | out << " let sig=\"$RET - 128\""<<endl; | |
4426 | out << " sigs='HUP INT QUIT ILL TRAP ABRT BUS FPE"<<endl; | |
4427 | out << " KILL USR1 SEGV USR2 PIPE ALRM TERM STKFLT"<<endl; | |
4428 | out << " CHLD CONT STOP TSTP TTIN TTOU URG XCPU"<<endl; | |
4429 | out << " XFSZ VTALRM PROF WINCH IO PWR SYS'"<<endl; | |
4430 | out << " sig=SIG`echo $sigs | awk '{ print $'\"$sig\"' }'`"<<endl; | |
4431 | out << " echo \"======== it appears to have been killed with signal: $sig ========\""<<endl; | |
4432 | out << " fi"<<endl; | |
4433 | out << " exit $RET"<< endl; | |
4434 | out << "fi" << endl << endl ; | |
0f389141 | 4435 | out << "echo \"======== " << mergeMacro.Data() << " finished with exit code: $? ========\"" << endl; |
4436 | out << "echo \"############## memory after: ##############\"" << endl; | |
4437 | out << "free -m" << endl; | |
0f389141 | 4438 | } |
4439 | Bool_t copy = kTRUE; | |
d3b18c4c | 4440 | if (fProductionMode || TestBit(AliAnalysisGrid::kOffline) || TestBit(AliAnalysisGrid::kTest)) copy = kFALSE; |
0f389141 | 4441 | if (copy) { |
4442 | CdWork(); | |
4443 | TString workdir = gGrid->GetHomeDirectory(); | |
4444 | TString bindir = Form("%s/bin", workdir.Data()); | |
b93f8109 | 4445 | if (!DirectoryExists(bindir)) gGrid->Mkdir(bindir,"-p"); |
0f389141 | 4446 | workdir += fGridWorkingDir; |
4447 | TString executable = Form("%s/bin/%s", gGrid->GetHomeDirectory(), mergeExec.Data()); | |
4448 | if (FileExists(executable)) gGrid->Rm(executable); | |
d3b18c4c | 4449 | Info("WriteMergeExecutable", "\n##### Copying executable file <%s> to your AliEn bin directory", mergeExec.Data()); |
6c395669 | 4450 | // TFile::Cp(Form("file:%s",mergeExec.Data()), Form("alien://%s", executable.Data())); |
4451 | if (!copyLocal2Alien("WriteMergeExecutable", | |
4452 | mergeExec.Data(), executable.Data())) Fatal("","Terminating"); | |
0f389141 | 4453 | } |
4454 | } | |
4455 | ||
c57f56b7 | 4456 | //______________________________________________________________________________ |
5513444a | 4457 | void AliAnalysisAlien::WriteProductionFile(const char *filename) const |
4458 | { | |
4459 | // Write the production file to be submitted by LPM manager. The format is: | |
f5e8c702 | 4460 | // First line: full_path_to_jdl estimated_no_subjobs_per_master |
5513444a | 4461 | // Next lines: full_path_to_dataset XXX (XXX is a string) |
4462 | // To submit, one has to: submit jdl XXX for all lines | |
4463 | ofstream out; | |
4464 | out.open(filename, ios::out); | |
4465 | if (out.bad()) { | |
4466 | Error("WriteProductionFile", "Bad file name: %s", filename); | |
4467 | return; | |
4468 | } | |
d3b18c4c | 4469 | TString workdir; |
4470 | if (!fProductionMode && !fGridWorkingDir.BeginsWith("/alice")) | |
4471 | workdir = gGrid->GetHomeDirectory(); | |
5513444a | 4472 | workdir += fGridWorkingDir; |
f5e8c702 | 4473 | Int_t njobspermaster = 1000*fNrunsPerMaster/fSplitMaxInputFileNumber; |
5513444a | 4474 | TString locjdl = Form("%s/%s", workdir.Data(),fJDLName.Data()); |
f5e8c702 | 4475 | out << locjdl << " " << njobspermaster << endl; |
5513444a | 4476 | Int_t nmasterjobs = fInputFiles->GetEntries(); |
4477 | for (Int_t i=0; i<nmasterjobs; i++) { | |
409b4ada | 4478 | TString runOutDir = gSystem->BaseName(fInputFiles->At(i)->GetName()); |
4479 | runOutDir.ReplaceAll(".xml", ""); | |
4480 | if (fOutputToRunNo) | |
4481 | out << Form("%s", fInputFiles->At(i)->GetName()) << " " << runOutDir << endl; | |
4482 | else | |
4483 | out << Form("%s", fInputFiles->At(i)->GetName()) << " " << Form("%03d", i) << endl; | |
5513444a | 4484 | } |
d3b18c4c | 4485 | if (gGrid) { |
4486 | Info("WriteProductionFile", "\n##### Copying production file <%s> to your work directory", filename); | |
4487 | if (FileExists(filename)) gGrid->Rm(filename); | |
6c395669 | 4488 | // TFile::Cp(Form("file:%s",filename), Form("alien://%s/%s", workdir.Data(),filename)); |
4489 | if (!copyLocal2Alien("WriteProductionFile", filename, | |
4490 | Form("%s/%s", workdir.Data(),filename))) Fatal("","Terminating"); | |
d3b18c4c | 4491 | } |
5513444a | 4492 | } |
4493 | ||
4494 | //______________________________________________________________________________ | |
0f389141 | 4495 | void AliAnalysisAlien::WriteValidationScript(Bool_t merge) |
c57f56b7 | 4496 | { |
4497 | // Generate the alien validation script. | |
4498 | // Generate the validation script | |
4499 | TObjString *os; | |
d3b18c4c | 4500 | if (fValidationScript.IsNull()) { |
4501 | fValidationScript = fExecutable; | |
4502 | fValidationScript.ReplaceAll(".sh", "_validation.sh"); | |
4503 | } | |
4504 | TString validationScript = fValidationScript; | |
4505 | if (merge) validationScript.ReplaceAll(".sh", "_merge.sh"); | |
c57f56b7 | 4506 | if (!Connect()) { |
4507 | Error("WriteValidationScript", "Alien connection required"); | |
4508 | return; | |
4509 | } | |
d3b18c4c | 4510 | if (!fTerminateFiles.IsNull()) { |
4511 | fTerminateFiles.Strip(); | |
4512 | fTerminateFiles.ReplaceAll(" ",","); | |
4513 | } | |
a2f5fc01 | 4514 | TString outStream = ""; |
4515 | if (!TestBit(AliAnalysisGrid::kTest)) outStream = " >> stdout"; | |
c57f56b7 | 4516 | if (!TestBit(AliAnalysisGrid::kSubmit)) { |
4517 | ofstream out; | |
0d5d317c | 4518 | out.open(validationScript, ios::out); |
c57f56b7 | 4519 | out << "#!/bin/bash" << endl; |
4520 | out << "##################################################" << endl; | |
4521 | out << "validateout=`dirname $0`" << endl; | |
4522 | out << "validatetime=`date`" << endl; | |
4523 | out << "validated=\"0\";" << endl; | |
4524 | out << "error=0" << endl; | |
4525 | out << "if [ -z $validateout ]" << endl; | |
4526 | out << "then" << endl; | |
4527 | out << " validateout=\".\"" << endl; | |
4528 | out << "fi" << endl << endl; | |
4529 | out << "cd $validateout;" << endl; | |
4530 | out << "validateworkdir=`pwd`;" << endl << endl; | |
a2f5fc01 | 4531 | out << "echo \"*******************************************************\"" << outStream << endl; |
4532 | out << "echo \"* Automatically generated validation script *\"" << outStream << endl; | |
c57f56b7 | 4533 | out << "" << endl; |
a2f5fc01 | 4534 | out << "echo \"* Time: $validatetime \"" << outStream << endl; |
4535 | out << "echo \"* Dir: $validateout\"" << outStream << endl; | |
4536 | out << "echo \"* Workdir: $validateworkdir\"" << outStream << endl; | |
4537 | out << "echo \"* ----------------------------------------------------*\"" << outStream << endl; | |
4538 | out << "ls -la ./" << outStream << endl; | |
4539 | out << "echo \"* ----------------------------------------------------*\"" << outStream << endl << endl; | |
c57f56b7 | 4540 | out << "##################################################" << endl; |
ebec370a | 4541 | out << "" << endl; |
4542 | ||
4543 | out << "if [ ! -f stderr ] ; then" << endl; | |
4544 | out << " error=1" << endl; | |
a2f5fc01 | 4545 | out << " echo \"* ########## Job not validated - no stderr ###\" " << outStream << endl; |
4546 | out << " echo \"Error = $error\" " << outStream << endl; | |
ebec370a | 4547 | out << "fi" << endl; |
4548 | ||
b34c9f51 | 4549 | out << "parArch=`grep -Ei \"Cannot Build the PAR Archive\" stderr`" << endl; |
4550 | out << "segViol=`grep -Ei \"Segmentation violation\" stderr`" << endl; | |
4551 | out << "segFault=`grep -Ei \"Segmentation fault\" stderr`" << endl; | |
4552 | out << "glibcErr=`grep -Ei \"*** glibc detected ***\" stderr`" << endl; | |
4553 | out << "" << endl; | |
4554 | ||
ebec370a | 4555 | out << "if [ \"$parArch\" != \"\" ] ; then" << endl; |
4556 | out << " error=1" << endl; | |
a2f5fc01 | 4557 | out << " echo \"* ########## Job not validated - PAR archive not built ###\" " << outStream << endl; |
4558 | out << " echo \"$parArch\" " << outStream << endl; | |
4559 | out << " echo \"Error = $error\" " << outStream << endl; | |
ebec370a | 4560 | out << "fi" << endl; |
4561 | ||
4562 | out << "if [ \"$segViol\" != \"\" ] ; then" << endl; | |
4563 | out << " error=1" << endl; | |
a2f5fc01 | 4564 | out << " echo \"* ########## Job not validated - Segment. violation ###\" " << outStream << endl; |
4565 | out << " echo \"$segViol\" " << outStream << endl; | |
4566 | out << " echo \"Error = $error\" " << outStream << endl; | |
ebec370a | 4567 | out << "fi" << endl; |
4568 | ||
4569 | out << "if [ \"$segFault\" != \"\" ] ; then" << endl; | |
4570 | out << " error=1" << endl; | |
a2f5fc01 | 4571 | out << " echo \"* ########## Job not validated - Segment. fault ###\" " << outStream << endl; |
4572 | out << " echo \"$segFault\" " << outStream << endl; | |
4573 | out << " echo \"Error = $error\" " << outStream << endl; | |
ebec370a | 4574 | out << "fi" << endl; |
4575 | ||
b34c9f51 | 4576 | out << "if [ \"$glibcErr\" != \"\" ] ; then" << endl; |
4577 | out << " error=1" << endl; | |
a2f5fc01 | 4578 | out << " echo \"* ########## Job not validated - *** glibc detected *** ###\" " << outStream << endl; |
4579 | out << " echo \"$glibcErr\" " << outStream << endl; | |
4580 | out << " echo \"Error = $error\" " << outStream << endl; | |
b34c9f51 | 4581 | out << "fi" << endl; |
4582 | ||
ebec370a | 4583 | // Part dedicated to the specific analyses running into the train |
4584 | ||
d3b18c4c | 4585 | TString outputFiles = fOutputFiles; |
4586 | if (merge && !fTerminateFiles.IsNull()) { | |
4587 | outputFiles += ","; | |
4588 | outputFiles += fTerminateFiles; | |
4589 | } | |
4590 | TObjArray *arr = outputFiles.Tokenize(","); | |
c57f56b7 | 4591 | TIter next1(arr); |
a2f5fc01 | 4592 | TString outputFile; |
bbd88db8 | 4593 | while (!merge && (os=(TObjString*)next1())) { |
4594 | // No need to validate outputs produced by merging since the merging macro does this | |
a2f5fc01 | 4595 | outputFile = os->GetString(); |
4596 | Int_t index = outputFile.Index("@"); | |
4597 | if (index > 0) outputFile.Remove(index); | |
bbd88db8 | 4598 | if (fTerminateFiles.Contains(outputFile)) continue; |
a2f5fc01 | 4599 | if (outputFile.Contains("*")) continue; |
4600 | out << "if ! [ -f " << outputFile.Data() << " ] ; then" << endl; | |
c57f56b7 | 4601 | out << " error=1" << endl; |
7c2cd90a | 4602 | out << " echo \"Output file " << outputFile << " not found. Job FAILED !\"" << outStream << endl; |
4603 | out << " echo \"Output file " << outputFile << " not found. Job FAILED !\" >> stderr" << endl; | |
c57f56b7 | 4604 | out << "fi" << endl; |
4605 | } | |
4606 | delete arr; | |
7c2cd90a | 4607 | out << "if ! [ -f outputs_valid ] ; then" << endl; |
4608 | out << " error=1" << endl; | |
4609 | out << " echo \"Output files were not validated by the analysis manager\" >> stdout" << endl; | |
4610 | out << " echo \"Output files were not validated by the analysis manager\" >> stderr" << endl; | |
4611 | out << "fi" << endl; | |
923e2ca5 | 4612 | |
c57f56b7 | 4613 | out << "if [ $error = 0 ] ; then" << endl; |
a2f5fc01 | 4614 | out << " echo \"* ---------------- Job Validated ------------------*\"" << outStream << endl; |
149d288c | 4615 | if (!IsKeepLogs()) { |
4616 | out << " echo \"* === Logs std* will be deleted === \"" << endl; | |
a2f5fc01 | 4617 | outStream = ""; |
149d288c | 4618 | out << " rm -f std*" << endl; |
4619 | } | |
c57f56b7 | 4620 | out << "fi" << endl; |
4621 | ||
a2f5fc01 | 4622 | out << "echo \"* ----------------------------------------------------*\"" << outStream << endl; |
4623 | out << "echo \"*******************************************************\"" << outStream << endl; | |
c57f56b7 | 4624 | out << "cd -" << endl; |
4625 | out << "exit $error" << endl; | |
4626 | } | |
4627 | Bool_t copy = kTRUE; | |
d3b18c4c | 4628 | if (fProductionMode || TestBit(AliAnalysisGrid::kOffline) || TestBit(AliAnalysisGrid::kTest)) copy = kFALSE; |
c57f56b7 | 4629 | if (copy) { |
4630 | CdWork(); | |
4631 | TString workdir = gGrid->GetHomeDirectory(); | |
4632 | workdir += fGridWorkingDir; | |
d3b18c4c | 4633 | Info("WriteValidationScript", "\n##### Copying validation script <%s> to your AliEn working space", validationScript.Data()); |
0d5d317c | 4634 | if (FileExists(validationScript)) gGrid->Rm(validationScript); |
6c395669 | 4635 | // TFile::Cp(Form("file:%s",validationScript.Data()), Form("alien://%s/%s", workdir.Data(),validationScript.Data())); |
4636 | if (!copyLocal2Alien("WriteValidationScript", validationScript.Data(), | |
4637 | Form("%s/%s",workdir.Data(), validationScript.Data()))) Fatal("","Terminating"); | |
c57f56b7 | 4638 | } |
4639 | } |