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