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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), |
d2a409b2 | 61 | fNsubmitted(0), |
a3e84053 | 62 | fProductionMode(0), |
cd11251e | 63 | fOutputToRunNo(0), |
0f389141 | 64 | fMergeViaJDL(0), |
65 | fFastReadOption(0), | |
e1c22e21 | 66 | fOverwriteMode(1), |
149d288c | 67 | fNreplicas(2), |
3bdcb562 | 68 | fNproofWorkers(0), |
27734f0e | 69 | fNproofWorkersPerSlave(0), |
3bdcb562 | 70 | fProofReset(0), |
c57f56b7 | 71 | fRunNumbers(), |
72 | fExecutable(), | |
0a1c1f7f | 73 | fExecutableCommand(), |
c57f56b7 | 74 | fArguments(), |
631c0b05 | 75 | fExecutableArgs(), |
c57f56b7 | 76 | fAnalysisMacro(), |
77 | fAnalysisSource(), | |
d3b18c4c | 78 | fValidationScript(), |
d5c6455a | 79 | fAdditionalRootLibs(), |
c57f56b7 | 80 | fAdditionalLibs(), |
81 | fSplitMode(), | |
82 | fAPIVersion(), | |
83 | fROOTVersion(), | |
84 | fAliROOTVersion(), | |
648174cf | 85 | fExternalPackages(), |
c57f56b7 | 86 | fUser(), |
87 | fGridWorkingDir(), | |
88 | fGridDataDir(), | |
89 | fDataPattern(), | |
90 | fGridOutputDir(), | |
91 | fOutputArchive(), | |
92 | fOutputFiles(), | |
93 | fInputFormat(), | |
e7c71df0 | 94 | fDatasetName(), |
c57f56b7 | 95 | fJDLName(), |
d3b18c4c | 96 | fTerminateFiles(), |
bb885a9e | 97 | fMergeExcludes(), |
f965131e | 98 | fIncludePath(), |
bb885a9e | 99 | fCloseSE(), |
0df6ccf2 | 100 | fFriendChainName(), |
c6cb3634 | 101 | fJobTag(), |
648174cf | 102 | fOutputSingle(), |
5fce53f4 | 103 | fRunPrefix(), |
3bdcb562 | 104 | fProofCluster(), |
105 | fProofDataSet(), | |
106 | fFileForTestMode(), | |
107 | fRootVersionForProof(), | |
108 | fAliRootMode(), | |
4e5c5506 | 109 | fInputFiles(0), |
110 | fPackages(0) | |
c57f56b7 | 111 | { |
112 | // Dummy ctor. | |
113 | SetDefaults(); | |
114 | } | |
115 | ||
116 | //______________________________________________________________________________ | |
117 | AliAnalysisAlien::AliAnalysisAlien(const char *name) | |
118 | :AliAnalysisGrid(name), | |
119 | fGridJDL(NULL), | |
0f389141 | 120 | fMergingJDL(NULL), |
c57f56b7 | 121 | fPrice(0), |
122 | fTTL(0), | |
123 | fSplitMaxInputFileNumber(0), | |
124 | fMaxInitFailed(0), | |
125 | fMasterResubmitThreshold(0), | |
bb885a9e | 126 | fNtestFiles(0), |
319593fb | 127 | fNrunsPerMaster(0), |
16a4353c | 128 | fMaxMergeFiles(0), |
d2a409b2 | 129 | fNsubmitted(0), |
a3e84053 | 130 | fProductionMode(0), |
cd11251e | 131 | fOutputToRunNo(0), |
0f389141 | 132 | fMergeViaJDL(0), |
133 | fFastReadOption(0), | |
e1c22e21 | 134 | fOverwriteMode(1), |
149d288c | 135 | fNreplicas(2), |
3bdcb562 | 136 | fNproofWorkers(0), |
27734f0e | 137 | fNproofWorkersPerSlave(0), |
3bdcb562 | 138 | fProofReset(0), |
c57f56b7 | 139 | fRunNumbers(), |
140 | fExecutable(), | |
0a1c1f7f | 141 | fExecutableCommand(), |
c57f56b7 | 142 | fArguments(), |
631c0b05 | 143 | fExecutableArgs(), |
c57f56b7 | 144 | fAnalysisMacro(), |
145 | fAnalysisSource(), | |
d3b18c4c | 146 | fValidationScript(), |
d5c6455a | 147 | fAdditionalRootLibs(), |
c57f56b7 | 148 | fAdditionalLibs(), |
149 | fSplitMode(), | |
150 | fAPIVersion(), | |
151 | fROOTVersion(), | |
152 | fAliROOTVersion(), | |
648174cf | 153 | fExternalPackages(), |
c57f56b7 | 154 | fUser(), |
155 | fGridWorkingDir(), | |
156 | fGridDataDir(), | |
157 | fDataPattern(), | |
158 | fGridOutputDir(), | |
159 | fOutputArchive(), | |
160 | fOutputFiles(), | |
161 | fInputFormat(), | |
e7c71df0 | 162 | fDatasetName(), |
c57f56b7 | 163 | fJDLName(), |
d3b18c4c | 164 | fTerminateFiles(), |
bb885a9e | 165 | fMergeExcludes(), |
f965131e | 166 | fIncludePath(), |
bb885a9e | 167 | fCloseSE(), |
0df6ccf2 | 168 | fFriendChainName(), |
c6cb3634 | 169 | fJobTag(), |
648174cf | 170 | fOutputSingle(), |
5fce53f4 | 171 | fRunPrefix(), |
3bdcb562 | 172 | fProofCluster(), |
173 | fProofDataSet(), | |
174 | fFileForTestMode(), | |
175 | fRootVersionForProof(), | |
176 | fAliRootMode(), | |
4e5c5506 | 177 | fInputFiles(0), |
178 | fPackages(0) | |
c57f56b7 | 179 | { |
180 | // Default ctor. | |
181 | SetDefaults(); | |
182 | } | |
183 | ||
184 | //______________________________________________________________________________ | |
185 | AliAnalysisAlien::AliAnalysisAlien(const AliAnalysisAlien& other) | |
186 | :AliAnalysisGrid(other), | |
187 | fGridJDL(NULL), | |
0f389141 | 188 | fMergingJDL(NULL), |
c57f56b7 | 189 | fPrice(other.fPrice), |
190 | fTTL(other.fTTL), | |
191 | fSplitMaxInputFileNumber(other.fSplitMaxInputFileNumber), | |
192 | fMaxInitFailed(other.fMaxInitFailed), | |
193 | fMasterResubmitThreshold(other.fMasterResubmitThreshold), | |
bb885a9e | 194 | fNtestFiles(other.fNtestFiles), |
319593fb | 195 | fNrunsPerMaster(other.fNrunsPerMaster), |
16a4353c | 196 | fMaxMergeFiles(other.fMaxMergeFiles), |
d2a409b2 | 197 | fNsubmitted(other.fNsubmitted), |
a3e84053 | 198 | fProductionMode(other.fProductionMode), |
cd11251e | 199 | fOutputToRunNo(other.fOutputToRunNo), |
0f389141 | 200 | fMergeViaJDL(other.fMergeViaJDL), |
201 | fFastReadOption(other.fFastReadOption), | |
202 | fOverwriteMode(other.fOverwriteMode), | |
149d288c | 203 | fNreplicas(other.fNreplicas), |
3bdcb562 | 204 | fNproofWorkers(other.fNproofWorkers), |
27734f0e | 205 | fNproofWorkersPerSlave(other.fNproofWorkersPerSlave), |
3bdcb562 | 206 | fProofReset(other.fProofReset), |
c57f56b7 | 207 | fRunNumbers(other.fRunNumbers), |
208 | fExecutable(other.fExecutable), | |
0a1c1f7f | 209 | fExecutableCommand(other.fExecutableCommand), |
c57f56b7 | 210 | fArguments(other.fArguments), |
631c0b05 | 211 | fExecutableArgs(other.fExecutableArgs), |
c57f56b7 | 212 | fAnalysisMacro(other.fAnalysisMacro), |
213 | fAnalysisSource(other.fAnalysisSource), | |
d3b18c4c | 214 | fValidationScript(other.fValidationScript), |
d5c6455a | 215 | fAdditionalRootLibs(other.fAdditionalRootLibs), |
c57f56b7 | 216 | fAdditionalLibs(other.fAdditionalLibs), |
217 | fSplitMode(other.fSplitMode), | |
218 | fAPIVersion(other.fAPIVersion), | |
219 | fROOTVersion(other.fROOTVersion), | |
220 | fAliROOTVersion(other.fAliROOTVersion), | |
648174cf | 221 | fExternalPackages(other.fExternalPackages), |
c57f56b7 | 222 | fUser(other.fUser), |
223 | fGridWorkingDir(other.fGridWorkingDir), | |
224 | fGridDataDir(other.fGridDataDir), | |
225 | fDataPattern(other.fDataPattern), | |
226 | fGridOutputDir(other.fGridOutputDir), | |
227 | fOutputArchive(other.fOutputArchive), | |
228 | fOutputFiles(other.fOutputFiles), | |
229 | fInputFormat(other.fInputFormat), | |
e7c71df0 | 230 | fDatasetName(other.fDatasetName), |
c57f56b7 | 231 | fJDLName(other.fJDLName), |
d3b18c4c | 232 | fTerminateFiles(other.fTerminateFiles), |
bb885a9e | 233 | fMergeExcludes(other.fMergeExcludes), |
f965131e | 234 | fIncludePath(other.fIncludePath), |
bb885a9e | 235 | fCloseSE(other.fCloseSE), |
0df6ccf2 | 236 | fFriendChainName(other.fFriendChainName), |
c6cb3634 | 237 | fJobTag(other.fJobTag), |
648174cf | 238 | fOutputSingle(other.fOutputSingle), |
5fce53f4 | 239 | fRunPrefix(other.fRunPrefix), |
3bdcb562 | 240 | fProofCluster(other.fProofCluster), |
241 | fProofDataSet(other.fProofDataSet), | |
242 | fFileForTestMode(other.fFileForTestMode), | |
243 | fRootVersionForProof(other.fRootVersionForProof), | |
244 | fAliRootMode(other.fAliRootMode), | |
4e5c5506 | 245 | fInputFiles(0), |
246 | fPackages(0) | |
c57f56b7 | 247 | { |
248 | // Copy ctor. | |
249 | fGridJDL = (TGridJDL*)gROOT->ProcessLine("new TAlienJDL()"); | |
0f389141 | 250 | fMergingJDL = (TGridJDL*)gROOT->ProcessLine("new TAlienJDL()"); |
a8739e8a | 251 | fRunRange[0] = other.fRunRange[0]; |
252 | fRunRange[1] = other.fRunRange[1]; | |
c57f56b7 | 253 | if (other.fInputFiles) { |
254 | fInputFiles = new TObjArray(); | |
255 | TIter next(other.fInputFiles); | |
256 | TObject *obj; | |
257 | while ((obj=next())) fInputFiles->Add(new TObjString(obj->GetName())); | |
258 | fInputFiles->SetOwner(); | |
259 | } | |
4e5c5506 | 260 | if (other.fPackages) { |
261 | fPackages = new TObjArray(); | |
262 | TIter next(other.fPackages); | |
263 | TObject *obj; | |
264 | while ((obj=next())) fPackages->Add(new TObjString(obj->GetName())); | |
265 | fPackages->SetOwner(); | |
266 | } | |
c57f56b7 | 267 | } |
268 | ||
269 | //______________________________________________________________________________ | |
270 | AliAnalysisAlien::~AliAnalysisAlien() | |
271 | { | |
272 | // Destructor. | |
273 | if (fGridJDL) delete fGridJDL; | |
0f389141 | 274 | if (fMergingJDL) delete fMergingJDL; |
c57f56b7 | 275 | if (fInputFiles) delete fInputFiles; |
4e5c5506 | 276 | if (fPackages) delete fPackages; |
c57f56b7 | 277 | } |
278 | ||
279 | //______________________________________________________________________________ | |
280 | AliAnalysisAlien &AliAnalysisAlien::operator=(const AliAnalysisAlien& other) | |
281 | { | |
282 | // Assignment. | |
283 | if (this != &other) { | |
284 | AliAnalysisGrid::operator=(other); | |
285 | fGridJDL = (TGridJDL*)gROOT->ProcessLine("new TAlienJDL()"); | |
0f389141 | 286 | fMergingJDL = (TGridJDL*)gROOT->ProcessLine("new TAlienJDL()"); |
c57f56b7 | 287 | fPrice = other.fPrice; |
288 | fTTL = other.fTTL; | |
289 | fSplitMaxInputFileNumber = other.fSplitMaxInputFileNumber; | |
290 | fMaxInitFailed = other.fMaxInitFailed; | |
291 | fMasterResubmitThreshold = other.fMasterResubmitThreshold; | |
bb885a9e | 292 | fNtestFiles = other.fNtestFiles; |
a3e84053 | 293 | fNrunsPerMaster = other.fNrunsPerMaster; |
294 | fMaxMergeFiles = other.fMaxMergeFiles; | |
295 | fNsubmitted = other.fNsubmitted; | |
296 | fProductionMode = other.fProductionMode; | |
cd11251e | 297 | fOutputToRunNo = other.fOutputToRunNo; |
0f389141 | 298 | fMergeViaJDL = other.fMergeViaJDL; |
299 | fFastReadOption = other.fFastReadOption; | |
300 | fOverwriteMode = other.fOverwriteMode; | |
149d288c | 301 | fNreplicas = other.fNreplicas; |
3bdcb562 | 302 | fNproofWorkers = other.fNproofWorkers; |
27734f0e | 303 | fNproofWorkersPerSlave = other.fNproofWorkersPerSlave; |
3bdcb562 | 304 | fProofReset = other.fProofReset; |
c57f56b7 | 305 | fRunNumbers = other.fRunNumbers; |
306 | fExecutable = other.fExecutable; | |
0a1c1f7f | 307 | fExecutableCommand = other.fExecutableCommand; |
c57f56b7 | 308 | fArguments = other.fArguments; |
631c0b05 | 309 | fExecutableArgs = other.fExecutableArgs; |
c57f56b7 | 310 | fAnalysisMacro = other.fAnalysisMacro; |
311 | fAnalysisSource = other.fAnalysisSource; | |
d3b18c4c | 312 | fValidationScript = other.fValidationScript; |
d5c6455a | 313 | fAdditionalRootLibs = other.fAdditionalRootLibs; |
c57f56b7 | 314 | fAdditionalLibs = other.fAdditionalLibs; |
315 | fSplitMode = other.fSplitMode; | |
316 | fAPIVersion = other.fAPIVersion; | |
317 | fROOTVersion = other.fROOTVersion; | |
318 | fAliROOTVersion = other.fAliROOTVersion; | |
648174cf | 319 | fExternalPackages = other.fExternalPackages; |
c57f56b7 | 320 | fUser = other.fUser; |
321 | fGridWorkingDir = other.fGridWorkingDir; | |
322 | fGridDataDir = other.fGridDataDir; | |
323 | fDataPattern = other.fDataPattern; | |
324 | fGridOutputDir = other.fGridOutputDir; | |
325 | fOutputArchive = other.fOutputArchive; | |
326 | fOutputFiles = other.fOutputFiles; | |
327 | fInputFormat = other.fInputFormat; | |
e7c71df0 | 328 | fDatasetName = other.fDatasetName; |
c57f56b7 | 329 | fJDLName = other.fJDLName; |
d3b18c4c | 330 | fTerminateFiles = other.fTerminateFiles; |
bb885a9e | 331 | fMergeExcludes = other.fMergeExcludes; |
f965131e | 332 | fIncludePath = other.fIncludePath; |
bb885a9e | 333 | fCloseSE = other.fCloseSE; |
0df6ccf2 | 334 | fFriendChainName = other.fFriendChainName; |
c6cb3634 | 335 | fJobTag = other.fJobTag; |
648174cf | 336 | fOutputSingle = other.fOutputSingle; |
5fce53f4 | 337 | fRunPrefix = other.fRunPrefix; |
3bdcb562 | 338 | fProofCluster = other.fProofCluster; |
339 | fProofDataSet = other.fProofDataSet; | |
340 | fFileForTestMode = other.fFileForTestMode; | |
341 | fRootVersionForProof = other.fRootVersionForProof; | |
342 | fAliRootMode = other.fAliRootMode; | |
c57f56b7 | 343 | if (other.fInputFiles) { |
344 | fInputFiles = new TObjArray(); | |
345 | TIter next(other.fInputFiles); | |
346 | TObject *obj; | |
347 | while ((obj=next())) fInputFiles->Add(new TObjString(obj->GetName())); | |
348 | fInputFiles->SetOwner(); | |
349 | } | |
4e5c5506 | 350 | if (other.fPackages) { |
351 | fPackages = new TObjArray(); | |
352 | TIter next(other.fPackages); | |
353 | TObject *obj; | |
354 | while ((obj=next())) fPackages->Add(new TObjString(obj->GetName())); | |
355 | fPackages->SetOwner(); | |
356 | } | |
c57f56b7 | 357 | } |
358 | return *this; | |
359 | } | |
360 | ||
f965131e | 361 | //______________________________________________________________________________ |
362 | void AliAnalysisAlien::AddIncludePath(const char *path) | |
363 | { | |
364 | // Add include path in the remote analysis macro. | |
365 | TString p(path); | |
366 | if (p.Contains("-I")) fIncludePath += Form("%s ", path); | |
367 | else fIncludePath += Form("-I%s ", path); | |
368 | } | |
369 | ||
c57f56b7 | 370 | //______________________________________________________________________________ |
371 | void AliAnalysisAlien::AddRunNumber(Int_t run) | |
372 | { | |
373 | // Add a run number to the list of runs to be processed. | |
374 | if (fRunNumbers.Length()) fRunNumbers += " "; | |
5fce53f4 | 375 | fRunNumbers += Form("%s%d", fRunPrefix.Data(), run); |
c57f56b7 | 376 | } |
377 | ||
ee75cfc3 | 378 | //______________________________________________________________________________ |
379 | void AliAnalysisAlien::AddRunNumber(const char* run) | |
380 | { | |
381 | // Add a run number to the list of runs to be processed. | |
382 | if (fRunNumbers.Length()) fRunNumbers += " "; | |
383 | fRunNumbers += run; | |
384 | } | |
385 | ||
c57f56b7 | 386 | //______________________________________________________________________________ |
387 | void AliAnalysisAlien::AddDataFile(const char *lfn) | |
388 | { | |
389 | // Adds a data file to the input to be analysed. The file should be a valid LFN | |
390 | // or point to an existing file in the alien workdir. | |
391 | if (!fInputFiles) fInputFiles = new TObjArray(); | |
392 | fInputFiles->Add(new TObjString(lfn)); | |
393 | } | |
648174cf | 394 | |
395 | //______________________________________________________________________________ | |
396 | void AliAnalysisAlien::AddExternalPackage(const char *package) | |
397 | { | |
398 | // Adds external packages w.r.t to the default ones (root,aliroot and gapi) | |
399 | if (fExternalPackages) fExternalPackages += " "; | |
400 | fExternalPackages += package; | |
401 | } | |
402 | ||
c57f56b7 | 403 | //______________________________________________________________________________ |
404 | Bool_t AliAnalysisAlien::Connect() | |
405 | { | |
406 | // Try to connect to AliEn. User needs a valid token and /tmp/gclient_env_$UID sourced. | |
407 | if (gGrid && gGrid->IsConnected()) return kTRUE; | |
d3b18c4c | 408 | if (fProductionMode) return kTRUE; |
c57f56b7 | 409 | if (!gGrid) { |
410 | Info("Connect", "Trying to connect to AliEn ..."); | |
411 | TGrid::Connect("alien://"); | |
412 | } | |
413 | if (!gGrid || !gGrid->IsConnected()) { | |
414 | Error("Connect", "Did not managed to connect to AliEn. Make sure you have a valid token."); | |
415 | return kFALSE; | |
416 | } | |
417 | fUser = gGrid->GetUser(); | |
418 | Info("Connect", "\n##### Connected to AliEn as user %s. Setting analysis user to <%s>", fUser.Data(), fUser.Data()); | |
419 | return kTRUE; | |
420 | } | |
421 | ||
422 | //______________________________________________________________________________ | |
423 | void AliAnalysisAlien::CdWork() | |
424 | { | |
425 | // Check validity of alien workspace. Create directory if possible. | |
426 | if (!Connect()) { | |
427 | Error("CdWork", "Alien connection required"); | |
428 | return; | |
429 | } | |
430 | TString homedir = gGrid->GetHomeDirectory(); | |
431 | TString workdir = homedir + fGridWorkingDir; | |
923e2ca5 | 432 | if (DirectoryExists(workdir)) { |
433 | gGrid->Cd(workdir); | |
434 | return; | |
435 | } | |
436 | // Work directory not existing - create it | |
437 | gGrid->Cd(homedir); | |
b93f8109 | 438 | if (gGrid->Mkdir(workdir, "-p")) { |
923e2ca5 | 439 | gGrid->Cd(fGridWorkingDir); |
d3b18c4c | 440 | Info("CdWork", "\n##### Created alien working directory %s", fGridWorkingDir.Data()); |
923e2ca5 | 441 | } else { |
d3b18c4c | 442 | Warning("CdWork", "Working directory %s cannot be created.\n Using %s instead.", |
923e2ca5 | 443 | workdir.Data(), homedir.Data()); |
444 | fGridWorkingDir = ""; | |
445 | } | |
c57f56b7 | 446 | } |
447 | ||
348be253 | 448 | //______________________________________________________________________________ |
449 | Bool_t AliAnalysisAlien::CheckFileCopy(const char *alienpath) | |
450 | { | |
451 | // Check if file copying is possible. | |
d3b18c4c | 452 | if (fProductionMode) return kTRUE; |
348be253 | 453 | if (!Connect()) { |
454 | Error("CheckFileCopy", "Not connected to AliEn. File copying cannot be tested."); | |
455 | return kFALSE; | |
456 | } | |
d3339be3 | 457 | Info("CheckFileCopy", "Checking possibility to copy files to your AliEn home directory... \ |
458 | \n +++ NOTE: You can disable this via: plugin->SetCheckCopy(kFALSE);"); | |
348be253 | 459 | // Check if alien_CLOSE_SE is defined |
460 | TString closeSE = gSystem->Getenv("alien_CLOSE_SE"); | |
461 | if (!closeSE.IsNull()) { | |
462 | Info("CheckFileCopy", "Your current close storage is pointing to: \ | |
463 | \n alien_CLOSE_SE = \"%s\"", closeSE.Data()); | |
464 | } else { | |
465 | Warning("CheckFileCopy", "Your current close storage is empty ! Depending on your location, file copying may fail."); | |
466 | } | |
467 | // Check if grid directory exists. | |
468 | if (!DirectoryExists(alienpath)) { | |
469 | Error("CheckFileCopy", "Alien path %s does not seem to exist", alienpath); | |
470 | return kFALSE; | |
471 | } | |
d3339be3 | 472 | TFile f("plugin_test_copy", "RECREATE"); |
348be253 | 473 | // User may not have write permissions to current directory |
474 | if (f.IsZombie()) { | |
475 | Error("CheckFileCopy", "Cannot create local test file. Do you have write access to current directory: <%s> ?", | |
476 | gSystem->WorkingDirectory()); | |
477 | return kFALSE; | |
478 | } | |
479 | f.Close(); | |
d3339be3 | 480 | if (FileExists(Form("alien://%s/%s",alienpath, f.GetName()))) gGrid->Rm(Form("alien://%s/%s",alienpath, f.GetName())); |
481 | if (!TFile::Cp(f.GetName(), Form("alien://%s/%s",alienpath, f.GetName()))) { | |
482 | Error("CheckFileCopy", "Cannot copy files to Alien destination: <%s> This may be temporary, or: \ | |
348be253 | 483 | \n# 1. Make sure you have write permissions there. If this is the case: \ |
484 | \n# 2. Check the storage availability at: http://alimonitor.cern.ch/stats?page=SE/table \ | |
485 | \n# Do: export alien_CLOSE_SE=\"working_disk_SE\" \ | |
486 | \n# To make this permanent put in in your .bashrc (in .alienshrc is not enough) \ | |
487 | \n# Redo token: rm /tmp/x509up_u$UID then: alien-token-init <username>", alienpath); | |
488 | gSystem->Unlink(f.GetName()); | |
489 | return kFALSE; | |
490 | } | |
491 | gSystem->Unlink(f.GetName()); | |
d3339be3 | 492 | gGrid->Rm(Form("%s%s",alienpath,f.GetName())); |
493 | Info("CheckFileCopy", "### ...SUCCESS ###"); | |
348be253 | 494 | return kTRUE; |
495 | } | |
496 | ||
c57f56b7 | 497 | //______________________________________________________________________________ |
498 | Bool_t AliAnalysisAlien::CheckInputData() | |
499 | { | |
500 | // Check validity of input data. If necessary, create xml files. | |
d3b18c4c | 501 | if (fProductionMode) return kTRUE; |
a8739e8a | 502 | if (!fInputFiles && !fRunNumbers.Length() && !fRunRange[0]) { |
d2a409b2 | 503 | if (!fGridDataDir.Length()) { |
504 | Error("CkeckInputData", "AliEn path to base data directory must be set.\n = Use: SetGridDataDir()"); | |
505 | return kFALSE; | |
506 | } | |
507 | Info("CheckInputData", "Analysis will make a single xml for base data directory %s",fGridDataDir.Data()); | |
23329835 | 508 | if (fDataPattern.Contains("tag") && TestBit(AliAnalysisGrid::kTest)) |
509 | TObject::SetBit(AliAnalysisGrid::kUseTags, kTRUE); // ADDED (fix problem in determining the tag usage in test mode) | |
d2a409b2 | 510 | return kTRUE; |
c57f56b7 | 511 | } |
512 | // Process declared files | |
a2f5fc01 | 513 | Bool_t isCollection = kFALSE; |
514 | Bool_t isXml = kFALSE; | |
515 | Bool_t useTags = kFALSE; | |
c57f56b7 | 516 | Bool_t checked = kFALSE; |
d3b18c4c | 517 | if (!TestBit(AliAnalysisGrid::kTest)) CdWork(); |
c57f56b7 | 518 | TString file; |
519 | TString workdir = gGrid->GetHomeDirectory(); | |
520 | workdir += fGridWorkingDir; | |
521 | if (fInputFiles) { | |
522 | TObjString *objstr; | |
523 | TIter next(fInputFiles); | |
524 | while ((objstr=(TObjString*)next())) { | |
525 | file = workdir; | |
526 | file += "/"; | |
527 | file += objstr->GetString(); | |
528 | // Store full lfn path | |
529 | if (FileExists(file)) objstr->SetString(file); | |
530 | else { | |
531 | file = objstr->GetName(); | |
532 | if (!FileExists(objstr->GetName())) { | |
533 | Error("CheckInputData", "Data file %s not found or not in your working dir: %s", | |
534 | objstr->GetName(), workdir.Data()); | |
535 | return kFALSE; | |
536 | } | |
537 | } | |
538 | Bool_t iscoll, isxml, usetags; | |
539 | CheckDataType(file, iscoll, isxml, usetags); | |
540 | if (!checked) { | |
541 | checked = kTRUE; | |
a2f5fc01 | 542 | isCollection = iscoll; |
543 | isXml = isxml; | |
544 | useTags = usetags; | |
545 | TObject::SetBit(AliAnalysisGrid::kUseTags, useTags); | |
c57f56b7 | 546 | } else { |
a2f5fc01 | 547 | if ((iscoll != isCollection) || (isxml != isXml) || (usetags != useTags)) { |
c57f56b7 | 548 | Error("CheckInputData", "Some conflict was found in the types of inputs"); |
549 | return kFALSE; | |
550 | } | |
551 | } | |
552 | } | |
553 | } | |
554 | // Process requested run numbers | |
a8739e8a | 555 | if (!fRunNumbers.Length() && !fRunRange[0]) return kTRUE; |
c57f56b7 | 556 | // Check validity of alien data directory |
557 | if (!fGridDataDir.Length()) { | |
558 | Error("CkeckInputData", "AliEn path to base data directory must be set.\n = Use: SetGridDataDir()"); | |
559 | return kFALSE; | |
560 | } | |
923e2ca5 | 561 | if (!DirectoryExists(fGridDataDir)) { |
c57f56b7 | 562 | Error("CheckInputData", "Data directory %s not existing.", fGridDataDir.Data()); |
563 | return kFALSE; | |
564 | } | |
a2f5fc01 | 565 | if (isCollection) { |
c57f56b7 | 566 | Error("CheckInputData", "You are using raw AliEn collections as input. Cannot process run numbers."); |
567 | return kFALSE; | |
568 | } | |
569 | ||
a2f5fc01 | 570 | if (checked && !isXml) { |
c57f56b7 | 571 | Error("CheckInputData", "Cannot mix processing of full runs with non-xml files"); |
572 | return kFALSE; | |
573 | } | |
574 | // Check validity of run number(s) | |
575 | TObjArray *arr; | |
576 | TObjString *os; | |
319593fb | 577 | Int_t nruns = 0; |
904f9f5f | 578 | TString schunk, schunk2; |
c57f56b7 | 579 | TString path; |
580 | if (!checked) { | |
581 | checked = kTRUE; | |
a2f5fc01 | 582 | useTags = fDataPattern.Contains("tag"); |
583 | TObject::SetBit(AliAnalysisGrid::kUseTags, useTags); | |
c57f56b7 | 584 | } |
a2f5fc01 | 585 | if (useTags != fDataPattern.Contains("tag")) { |
c57f56b7 | 586 | Error("CheckInputData", "Cannot mix input files using/not using tags"); |
587 | return kFALSE; | |
588 | } | |
589 | if (fRunNumbers.Length()) { | |
a8739e8a | 590 | Info("CheckDataType", "Using supplied run numbers (run ranges are ignored)"); |
c57f56b7 | 591 | arr = fRunNumbers.Tokenize(" "); |
592 | TIter next(arr); | |
593 | while ((os=(TObjString*)next())) { | |
594 | path = Form("%s/%s ", fGridDataDir.Data(), os->GetString().Data()); | |
923e2ca5 | 595 | if (!DirectoryExists(path)) { |
596 | Warning("CheckInputData", "Run number %s not found in path: <%s>", os->GetString().Data(), path.Data()); | |
a8739e8a | 597 | continue; |
c57f56b7 | 598 | } |
599 | path = Form("%s/%s.xml", workdir.Data(),os->GetString().Data()); | |
600 | TString msg = "\n##### file: "; | |
601 | msg += path; | |
602 | msg += " type: xml_collection;"; | |
a2f5fc01 | 603 | if (useTags) msg += " using_tags: Yes"; |
c57f56b7 | 604 | else msg += " using_tags: No"; |
23329835 | 605 | Info("CheckDataType", "%s", msg.Data()); |
319593fb | 606 | if (fNrunsPerMaster<2) { |
d2a409b2 | 607 | AddDataFile(Form("%s.xml", os->GetString().Data())); |
319593fb | 608 | } else { |
609 | nruns++; | |
610 | if (((nruns-1)%fNrunsPerMaster) == 0) { | |
611 | schunk = os->GetString(); | |
612 | } | |
613 | if ((nruns%fNrunsPerMaster)!=0 && os!=arr->Last()) continue; | |
614 | schunk += Form("_%s.xml", os->GetString().Data()); | |
d2a409b2 | 615 | AddDataFile(schunk); |
319593fb | 616 | } |
c57f56b7 | 617 | } |
618 | delete arr; | |
a8739e8a | 619 | } else { |
620 | Info("CheckDataType", "Using run range [%d, %d]", fRunRange[0], fRunRange[1]); | |
621 | for (Int_t irun=fRunRange[0]; irun<=fRunRange[1]; irun++) { | |
5fce53f4 | 622 | path = Form("%s/%s%d ", fGridDataDir.Data(), fRunPrefix.Data(), irun); |
923e2ca5 | 623 | if (!DirectoryExists(path)) { |
624 | // Warning("CheckInputData", "Run number %d not found in path: <%s>", irun, path.Data()); | |
a8739e8a | 625 | continue; |
626 | } | |
5fce53f4 | 627 | path = Form("%s/%s%d.xml", workdir.Data(),fRunPrefix.Data(),irun); |
a8739e8a | 628 | TString msg = "\n##### file: "; |
629 | msg += path; | |
630 | msg += " type: xml_collection;"; | |
a2f5fc01 | 631 | if (useTags) msg += " using_tags: Yes"; |
a8739e8a | 632 | else msg += " using_tags: No"; |
23329835 | 633 | Info("CheckDataType", "%s", msg.Data()); |
319593fb | 634 | if (fNrunsPerMaster<2) { |
5fce53f4 | 635 | AddDataFile(Form("%s%d.xml",fRunPrefix.Data(),irun)); |
319593fb | 636 | } else { |
637 | nruns++; | |
638 | if (((nruns-1)%fNrunsPerMaster) == 0) { | |
5fce53f4 | 639 | schunk = Form("%s%d", fRunPrefix.Data(),irun); |
319593fb | 640 | } |
904f9f5f | 641 | schunk2 = Form("_%s%d.xml", fRunPrefix.Data(), irun); |
319593fb | 642 | if ((nruns%fNrunsPerMaster)!=0 && irun != fRunRange[1]) continue; |
904f9f5f | 643 | schunk += schunk2; |
d2a409b2 | 644 | AddDataFile(schunk); |
319593fb | 645 | } |
a8739e8a | 646 | } |
904f9f5f | 647 | if (!fInputFiles) { |
648 | schunk += schunk2; | |
649 | AddDataFile(schunk); | |
650 | } | |
c57f56b7 | 651 | } |
652 | return kTRUE; | |
653 | } | |
654 | ||
655 | //______________________________________________________________________________ | |
656 | Bool_t AliAnalysisAlien::CreateDataset(const char *pattern) | |
657 | { | |
658 | // Create dataset for the grid data directory + run number. | |
d3b18c4c | 659 | if (fProductionMode || TestBit(AliAnalysisGrid::kOffline)) return kTRUE; |
c57f56b7 | 660 | if (!Connect()) { |
661 | Error("CreateDataset", "Cannot create dataset with no grid connection"); | |
662 | return kFALSE; | |
663 | } | |
664 | ||
665 | // Cd workspace | |
d3b18c4c | 666 | if (!TestBit(AliAnalysisGrid::kTest)) CdWork(); |
c57f56b7 | 667 | TString workdir = gGrid->GetHomeDirectory(); |
668 | workdir += fGridWorkingDir; | |
669 | ||
670 | // Compose the 'find' command arguments | |
671 | TString command; | |
672 | TString options = "-x collection "; | |
bb885a9e | 673 | if (TestBit(AliAnalysisGrid::kTest)) options += Form("-l %d ", fNtestFiles); |
c57f56b7 | 674 | TString conditions = ""; |
675 | ||
676 | TString file; | |
677 | TString path; | |
319593fb | 678 | Int_t nruns = 0; |
904f9f5f | 679 | TString schunk, schunk2; |
ab254fd1 | 680 | TGridCollection *cbase=0, *cadd=0; |
d2a409b2 | 681 | if (!fRunNumbers.Length() && !fRunRange[0]) { |
682 | if (fInputFiles && fInputFiles->GetEntries()) return kTRUE; | |
683 | // Make a single data collection from data directory. | |
684 | path = fGridDataDir; | |
923e2ca5 | 685 | if (!DirectoryExists(path)) { |
d2a409b2 | 686 | Error("CreateDataset", "Path to data directory %s not valid",fGridDataDir.Data()); |
687 | return kFALSE; | |
688 | } | |
923e2ca5 | 689 | // CdWork(); |
d2a409b2 | 690 | if (TestBit(AliAnalysisGrid::kTest)) file = "wn.xml"; |
691 | else file = Form("%s.xml", gSystem->BaseName(path)); | |
0f389141 | 692 | if (gSystem->AccessPathName(file) || TestBit(AliAnalysisGrid::kTest) || fOverwriteMode) { |
d2a409b2 | 693 | command = "find "; |
694 | command += options; | |
695 | command += path; | |
696 | command += " "; | |
697 | command += pattern; | |
698 | command += conditions; | |
84fcd93f | 699 | printf("command: %s\n", command.Data()); |
d2a409b2 | 700 | TGridResult *res = gGrid->Command(command); |
701 | if (res) delete res; | |
702 | // Write standard output to file | |
703 | gROOT->ProcessLine(Form("gGrid->Stdout(); > %s", file.Data())); | |
a2f5fc01 | 704 | Bool_t hasGrep = (gSystem->Exec("grep --version 2>/dev/null > /dev/null")==0)?kTRUE:kFALSE; |
705 | Bool_t nullFile = kFALSE; | |
706 | if (!hasGrep) { | |
d3339be3 | 707 | Warning("CreateDataset", "'grep' command not available on this system - cannot validate the result of the grid 'find' command"); |
708 | } else { | |
a2f5fc01 | 709 | nullFile = (gSystem->Exec(Form("grep /event %s 2>/dev/null > /dev/null",file.Data()))==0)?kFALSE:kTRUE; |
710 | if (nullFile) { | |
defd7a3a | 711 | Error("CreateDataset","Dataset %s produced by the previous find command is empty !", file.Data()); |
712 | return kFALSE; | |
713 | } | |
d3339be3 | 714 | } |
0f389141 | 715 | } |
716 | Bool_t fileExists = FileExists(file); | |
717 | if (!TestBit(AliAnalysisGrid::kTest) && (!fileExists || fOverwriteMode)) { | |
d2a409b2 | 718 | // Copy xml file to alien space |
0f389141 | 719 | if (fileExists) gGrid->Rm(file); |
d2a409b2 | 720 | TFile::Cp(Form("file:%s",file.Data()), Form("alien://%s/%s",workdir.Data(), file.Data())); |
721 | if (!FileExists(file)) { | |
722 | Error("CreateDataset", "Command %s did NOT succeed", command.Data()); | |
723 | return kFALSE; | |
724 | } | |
725 | // Update list of files to be processed. | |
726 | } | |
727 | AddDataFile(Form("%s/%s", workdir.Data(), file.Data())); | |
728 | return kTRUE; | |
729 | } | |
c57f56b7 | 730 | // Several runs |
a2f5fc01 | 731 | Bool_t nullResult = kTRUE; |
a8739e8a | 732 | if (fRunNumbers.Length()) { |
733 | TObjArray *arr = fRunNumbers.Tokenize(" "); | |
734 | TObjString *os; | |
735 | TIter next(arr); | |
736 | while ((os=(TObjString*)next())) { | |
737 | path = Form("%s/%s ", fGridDataDir.Data(), os->GetString().Data()); | |
923e2ca5 | 738 | if (!DirectoryExists(path)) continue; |
739 | // CdWork(); | |
a8739e8a | 740 | if (TestBit(AliAnalysisGrid::kTest)) file = "wn.xml"; |
741 | else file = Form("%s.xml", os->GetString().Data()); | |
319593fb | 742 | // If local collection file does not exist, create it via 'find' command. |
d3339be3 | 743 | if (gSystem->AccessPathName(file) || TestBit(AliAnalysisGrid::kTest) || fOverwriteMode) { |
319593fb | 744 | command = "find "; |
745 | command += options; | |
746 | command += path; | |
747 | command += pattern; | |
748 | command += conditions; | |
749 | TGridResult *res = gGrid->Command(command); | |
750 | if (res) delete res; | |
751 | // Write standard output to file | |
752 | gROOT->ProcessLine(Form("gGrid->Stdout(); > %s", file.Data())); | |
a2f5fc01 | 753 | Bool_t hasGrep = (gSystem->Exec("grep --version 2>/dev/null > /dev/null")==0)?kTRUE:kFALSE; |
754 | Bool_t nullFile = kFALSE; | |
755 | if (!hasGrep) { | |
d3339be3 | 756 | Warning("CreateDataset", "'grep' command not available on this system - cannot validate the result of the grid 'find' command"); |
757 | } else { | |
a2f5fc01 | 758 | nullFile = (gSystem->Exec(Form("grep /event %s 2>/dev/null > /dev/null",file.Data()))==0)?kFALSE:kTRUE; |
759 | if (nullFile) { | |
defd7a3a | 760 | Warning("CreateDataset","Dataset %s produced by: <%s> is empty !", file.Data(), command.Data()); |
761 | fRunNumbers.ReplaceAll(os->GetString().Data(), ""); | |
762 | continue; | |
763 | } | |
d3339be3 | 764 | } |
a2f5fc01 | 765 | nullResult = kFALSE; |
d3339be3 | 766 | } |
a8739e8a | 767 | if (TestBit(AliAnalysisGrid::kTest)) break; |
319593fb | 768 | // Check if there is one run per master job. |
769 | if (fNrunsPerMaster<2) { | |
770 | if (FileExists(file)) { | |
0f389141 | 771 | if (fOverwriteMode) gGrid->Rm(file); |
772 | else { | |
773 | Info("CreateDataset", "\n##### Dataset %s exist. Skipping creation...", file.Data()); | |
774 | continue; | |
775 | } | |
319593fb | 776 | } |
777 | // Copy xml file to alien space | |
778 | TFile::Cp(Form("file:%s",file.Data()), Form("alien://%s/%s",workdir.Data(), file.Data())); | |
779 | if (!FileExists(file)) { | |
780 | Error("CreateDataset", "Command %s did NOT succeed", command.Data()); | |
781 | delete arr; | |
782 | return kFALSE; | |
783 | } | |
784 | } else { | |
785 | nruns++; | |
786 | if (((nruns-1)%fNrunsPerMaster) == 0) { | |
787 | schunk = os->GetString(); | |
788 | cbase = (TGridCollection*)gROOT->ProcessLine(Form("new TAlienCollection(\"%s\", 1000000);",file.Data())); | |
789 | } else { | |
790 | cadd = (TGridCollection*)gROOT->ProcessLine(Form("new TAlienCollection(\"%s\", 1000000);",file.Data())); | |
84fcd93f | 791 | printf(" Merging collection <%s> into masterjob input...\n", file.Data()); |
319593fb | 792 | cbase->Add(cadd); |
793 | delete cadd; | |
794 | } | |
795 | if ((nruns%fNrunsPerMaster)!=0 && os!=arr->Last()) { | |
796 | continue; | |
797 | } | |
798 | schunk += Form("_%s.xml", os->GetString().Data()); | |
0f389141 | 799 | if (FileExists(schunk)) { |
800 | if (fOverwriteMode) gGrid->Rm(file); | |
801 | else { | |
802 | Info("CreateDataset", "\n##### Dataset %s exist. Skipping creation...", schunk.Data()); | |
803 | continue; | |
804 | } | |
319593fb | 805 | } |
84fcd93f | 806 | printf("Exporting merged collection <%s> and copying to AliEn\n", schunk.Data()); |
319593fb | 807 | cbase->ExportXML(Form("file://%s", schunk.Data()),kFALSE,kFALSE, schunk, "Merged runs"); |
e95434bc | 808 | TFile::Cp(Form("file:%s",schunk.Data()), Form("alien://%s/%s",workdir.Data(), schunk.Data())); |
319593fb | 809 | if (!FileExists(schunk)) { |
810 | Error("CreateDataset", "Copy command did NOT succeed for %s", schunk.Data()); | |
811 | delete arr; | |
812 | return kFALSE; | |
813 | } | |
d3339be3 | 814 | } |
a8739e8a | 815 | } |
816 | delete arr; | |
a2f5fc01 | 817 | if (nullResult) { |
d3339be3 | 818 | Error("CreateDataset", "No valid dataset corresponding to the query!"); |
819 | return kFALSE; | |
820 | } | |
a8739e8a | 821 | } else { |
822 | // Process a full run range. | |
823 | for (Int_t irun=fRunRange[0]; irun<=fRunRange[1]; irun++) { | |
5fce53f4 | 824 | path = Form("%s/%s%d ", fGridDataDir.Data(), fRunPrefix.Data(), irun); |
923e2ca5 | 825 | if (!DirectoryExists(path)) continue; |
826 | // CdWork(); | |
a8739e8a | 827 | if (TestBit(AliAnalysisGrid::kTest)) file = "wn.xml"; |
5fce53f4 | 828 | else file = Form("%s%d.xml", fRunPrefix.Data(), irun); |
0f389141 | 829 | if (FileExists(file) && fNrunsPerMaster<2 && !TestBit(AliAnalysisGrid::kTest)) { |
830 | if (fOverwriteMode) gGrid->Rm(file); | |
831 | else { | |
832 | Info("CreateDataset", "\n##### Dataset %s exist. Skipping creation...", file.Data()); | |
833 | continue; | |
834 | } | |
a8739e8a | 835 | } |
319593fb | 836 | // If local collection file does not exist, create it via 'find' command. |
d3339be3 | 837 | if (gSystem->AccessPathName(file) || TestBit(AliAnalysisGrid::kTest) || fOverwriteMode) { |
319593fb | 838 | command = "find "; |
839 | command += options; | |
840 | command += path; | |
841 | command += pattern; | |
842 | command += conditions; | |
843 | TGridResult *res = gGrid->Command(command); | |
844 | if (res) delete res; | |
845 | // Write standard output to file | |
846 | gROOT->ProcessLine(Form("gGrid->Stdout(); > %s", file.Data())); | |
a2f5fc01 | 847 | Bool_t hasGrep = (gSystem->Exec("grep --version 2>/dev/null > /dev/null")==0)?kTRUE:kFALSE; |
848 | Bool_t nullFile = kFALSE; | |
849 | if (!hasGrep) { | |
d3339be3 | 850 | Warning("CreateDataset", "'grep' command not available on this system - cannot validate the result of the grid 'find' command"); |
851 | } else { | |
a2f5fc01 | 852 | nullFile = (gSystem->Exec(Form("grep /event %s 2>/dev/null > /dev/null",file.Data()))==0)?kFALSE:kTRUE; |
853 | if (nullFile) { | |
defd7a3a | 854 | Warning("CreateDataset","Dataset %s produced by: <%s> is empty !", file.Data(), command.Data()); |
855 | continue; | |
856 | } | |
d3339be3 | 857 | } |
a2f5fc01 | 858 | nullResult = kFALSE; |
319593fb | 859 | } |
a8739e8a | 860 | if (TestBit(AliAnalysisGrid::kTest)) break; |
319593fb | 861 | // Check if there is one run per master job. |
862 | if (fNrunsPerMaster<2) { | |
863 | if (FileExists(file)) { | |
0f389141 | 864 | if (fOverwriteMode) gGrid->Rm(file); |
865 | else { | |
866 | Info("CreateDataset", "\n##### Dataset %s exist. Skipping creation...", file.Data()); | |
867 | continue; | |
868 | } | |
319593fb | 869 | } |
870 | // Copy xml file to alien space | |
871 | TFile::Cp(Form("file:%s",file.Data()), Form("alien://%s/%s",workdir.Data(), file.Data())); | |
872 | if (!FileExists(file)) { | |
873 | Error("CreateDataset", "Command %s did NOT succeed", command.Data()); | |
874 | return kFALSE; | |
875 | } | |
876 | } else { | |
877 | nruns++; | |
95e5b448 | 878 | // Check if the collection for the chunk exist locally. |
879 | Int_t nchunk = (nruns-1)/fNrunsPerMaster; | |
0f389141 | 880 | if (FileExists(fInputFiles->At(nchunk)->GetName())) { |
881 | if (fOverwriteMode) gGrid->Rm(fInputFiles->At(nchunk)->GetName()); | |
882 | else continue; | |
883 | } | |
84fcd93f | 884 | printf(" Merging collection <%s> into %d runs chunk...\n",file.Data(),fNrunsPerMaster); |
319593fb | 885 | if (((nruns-1)%fNrunsPerMaster) == 0) { |
904f9f5f | 886 | schunk = Form("%s%d", fRunPrefix.Data(), irun); |
319593fb | 887 | cbase = (TGridCollection*)gROOT->ProcessLine(Form("new TAlienCollection(\"%s\", 1000000);",file.Data())); |
888 | } else { | |
889 | cadd = (TGridCollection*)gROOT->ProcessLine(Form("new TAlienCollection(\"%s\", 1000000);",file.Data())); | |
890 | cbase->Add(cadd); | |
891 | delete cadd; | |
892 | } | |
904f9f5f | 893 | schunk2 = Form("%s_%s%d.xml", schunk.Data(), fRunPrefix.Data(), irun); |
894 | if ((nruns%fNrunsPerMaster)!=0 && irun!=fRunRange[1] && schunk2 != fInputFiles->Last()->GetName()) { | |
319593fb | 895 | continue; |
896 | } | |
904f9f5f | 897 | schunk = schunk2; |
319593fb | 898 | if (FileExists(schunk)) { |
0f389141 | 899 | if (fOverwriteMode) gGrid->Rm(schunk); |
900 | else { | |
901 | Info("CreateDataset", "\n##### Dataset %s exist. Skipping creation...", schunk.Data()); | |
902 | continue; | |
903 | } | |
319593fb | 904 | } |
84fcd93f | 905 | printf("Exporting merged collection <%s> and copying to AliEn.\n", schunk.Data()); |
319593fb | 906 | cbase->ExportXML(Form("file://%s", schunk.Data()),kFALSE,kFALSE, schunk, "Merged runs"); |
95e5b448 | 907 | if (FileExists(schunk)) { |
0f389141 | 908 | if (fOverwriteMode) gGrid->Rm(schunk); |
909 | else { | |
910 | Info("CreateDataset", "\n##### Dataset %s exist. Skipping copy...", schunk.Data()); | |
911 | continue; | |
912 | } | |
95e5b448 | 913 | } |
319593fb | 914 | TFile::Cp(Form("file:%s",schunk.Data()), Form("alien://%s/%s",workdir.Data(), schunk.Data())); |
915 | if (!FileExists(schunk)) { | |
916 | Error("CreateDataset", "Copy command did NOT succeed for %s", schunk.Data()); | |
917 | return kFALSE; | |
918 | } | |
919 | } | |
c57f56b7 | 920 | } |
a2f5fc01 | 921 | if (nullResult) { |
d3339be3 | 922 | Error("CreateDataset", "No valid dataset corresponding to the query!"); |
923 | return kFALSE; | |
924 | } | |
a8739e8a | 925 | } |
c57f56b7 | 926 | return kTRUE; |
927 | } | |
928 | ||
929 | //______________________________________________________________________________ | |
930 | Bool_t AliAnalysisAlien::CreateJDL() | |
931 | { | |
932 | // Generate a JDL file according to current settings. The name of the file is | |
933 | // specified by fJDLName. | |
934 | Bool_t error = kFALSE; | |
935 | TObjArray *arr = 0; | |
936 | Bool_t copy = kTRUE; | |
d3b18c4c | 937 | if (fProductionMode || TestBit(AliAnalysisGrid::kOffline) || TestBit(AliAnalysisGrid::kTest)) copy = kFALSE; |
c57f56b7 | 938 | Bool_t generate = kTRUE; |
939 | if (TestBit(AliAnalysisGrid::kTest) || TestBit(AliAnalysisGrid::kSubmit)) generate = kFALSE; | |
940 | if (!Connect()) { | |
941 | Error("CreateJDL", "Alien connection required"); | |
942 | return kFALSE; | |
943 | } | |
944 | // Check validity of alien workspace | |
d3b18c4c | 945 | TString workdir; |
946 | if (!fProductionMode && !fGridWorkingDir.BeginsWith("/alice")) workdir = gGrid->GetHomeDirectory(); | |
947 | if (!fProductionMode && !TestBit(AliAnalysisGrid::kTest)) CdWork(); | |
c57f56b7 | 948 | workdir += fGridWorkingDir; |
949 | if (generate) { | |
950 | TObjString *os; | |
951 | if (!fInputFiles) { | |
952 | Error("CreateJDL()", "Define some input files for your analysis."); | |
953 | error = kTRUE; | |
954 | } | |
955 | // Compose list of input files | |
956 | // Check if output files were defined | |
957 | if (!fOutputFiles.Length()) { | |
958 | Error("CreateJDL", "You must define at least one output file"); | |
959 | error = kTRUE; | |
960 | } | |
961 | // Check if an output directory was defined and valid | |
962 | if (!fGridOutputDir.Length()) { | |
963 | Error("CreateJDL", "You must define AliEn output directory"); | |
964 | error = kTRUE; | |
965 | } else { | |
d3b18c4c | 966 | if (!fProductionMode) { |
967 | if (!fGridOutputDir.Contains("/")) fGridOutputDir = Form("%s/%s", workdir.Data(), fGridOutputDir.Data()); | |
968 | if (!DirectoryExists(fGridOutputDir)) { | |
969 | if (gGrid->Mkdir(fGridOutputDir,"-p")) { | |
970 | Info("CreateJDL", "\n##### Created alien output directory %s", fGridOutputDir.Data()); | |
971 | } else { | |
972 | Error("CreateJDL", "Could not create alien output directory %s", fGridOutputDir.Data()); | |
973 | // error = kTRUE; | |
974 | } | |
975 | } | |
976 | gGrid->Cd(workdir); | |
977 | } | |
c57f56b7 | 978 | } |
979 | // Exit if any error up to now | |
980 | if (error) return kFALSE; | |
981 | // Set JDL fields | |
0f389141 | 982 | if (!fUser.IsNull()) { |
983 | fGridJDL->SetValue("User", Form("\"%s\"", fUser.Data())); | |
984 | fMergingJDL->SetValue("User", Form("\"%s\"", fUser.Data())); | |
985 | } | |
986 | fGridJDL->SetExecutable(fExecutable, "This is the startup script"); | |
987 | TString mergeExec = fExecutable; | |
988 | mergeExec.ReplaceAll(".sh", "_merge.sh"); | |
989 | fMergingJDL->SetExecutable(mergeExec, "This is the startup script"); | |
990 | mergeExec.ReplaceAll(".sh", ".C"); | |
991 | fMergingJDL->AddToInputSandbox(Form("LF:%s/%s", workdir.Data(),mergeExec.Data()), "List of input files to be uploaded to workers"); | |
b5b9dee8 | 992 | if (!fArguments.IsNull()) |
993 | fGridJDL->SetArguments(fArguments, "Arguments for the executable command"); | |
d3b18c4c | 994 | if (IsOneStageMerging()) fMergingJDL->SetArguments(fGridOutputDir); |
995 | else fMergingJDL->SetArguments("$1 $2 $3"); | |
1f0d1ca2 | 996 | fGridJDL->SetValue("TTL", Form("\"%d\"",fTTL)); |
997 | fGridJDL->SetDescription("TTL", Form("Time after which the job is killed (%d min.)", fTTL/60)); | |
998 | fMergingJDL->SetValue("TTL", Form("\"%d\"",fTTL)); | |
999 | fMergingJDL->SetDescription("TTL", Form("Time after which the job is killed (%d min.)", fTTL/60)); | |
1000 | ||
0f389141 | 1001 | if (fMaxInitFailed > 0) { |
c57f56b7 | 1002 | fGridJDL->SetValue("MaxInitFailed", Form("\"%d\"",fMaxInitFailed)); |
0f389141 | 1003 | fGridJDL->SetDescription("MaxInitFailed", "Maximum number of first failing jobs to abort the master job"); |
1004 | } | |
1005 | if (fSplitMaxInputFileNumber > 0) { | |
c57f56b7 | 1006 | fGridJDL->SetValue("SplitMaxInputFileNumber", Form("\"%d\"", fSplitMaxInputFileNumber)); |
0f389141 | 1007 | fGridJDL->SetDescription("SplitMaxInputFileNumber", "Maximum number of input files to be processed per subjob"); |
1008 | } | |
1009 | if (fSplitMode.Length()) { | |
c57f56b7 | 1010 | fGridJDL->SetValue("Split", Form("\"%s\"", fSplitMode.Data())); |
0f389141 | 1011 | fGridJDL->SetDescription("Split", "We split per SE or file"); |
1012 | } | |
1013 | if (!fAliROOTVersion.IsNull()) { | |
1014 | fGridJDL->AddToPackages("AliRoot", fAliROOTVersion,"VO_ALICE", "List of requested packages"); | |
1015 | fMergingJDL->AddToPackages("AliRoot", fAliROOTVersion, "VO_ALICE", "List of requested packages"); | |
1016 | } | |
1017 | if (!fROOTVersion.IsNull()) { | |
c57f56b7 | 1018 | fGridJDL->AddToPackages("ROOT", fROOTVersion); |
0f389141 | 1019 | fMergingJDL->AddToPackages("ROOT", fROOTVersion); |
1020 | } | |
1021 | if (!fAPIVersion.IsNull()) { | |
c57f56b7 | 1022 | fGridJDL->AddToPackages("APISCONFIG", fAPIVersion); |
0f389141 | 1023 | fMergingJDL->AddToPackages("APISCONFIG", fAPIVersion); |
1024 | } | |
648174cf | 1025 | if (!fExternalPackages.IsNull()) { |
1026 | arr = fExternalPackages.Tokenize(" "); | |
1027 | TIter next(arr); | |
1028 | while ((os=(TObjString*)next())) { | |
1029 | TString pkgname = os->GetString(); | |
1030 | Int_t index = pkgname.Index("::"); | |
1031 | TString pkgversion = pkgname(index+2, pkgname.Length()); | |
1032 | pkgname.Remove(index); | |
1033 | fGridJDL->AddToPackages(pkgname, pkgversion); | |
0f389141 | 1034 | fMergingJDL->AddToPackages(pkgname, pkgversion); |
648174cf | 1035 | } |
1036 | delete arr; | |
1037 | } | |
0f389141 | 1038 | fGridJDL->SetInputDataListFormat(fInputFormat, "Format of input data"); |
1039 | fGridJDL->SetInputDataList("wn.xml", "Collection name to be processed on each worker node"); | |
1040 | fGridJDL->AddToInputSandbox(Form("LF:%s/%s", workdir.Data(), fAnalysisMacro.Data()), "List of input files to be uploaded to workers"); | |
f10e8481 | 1041 | TString analysisFile = fExecutable; |
1042 | analysisFile.ReplaceAll(".sh", ".root"); | |
1043 | fGridJDL->AddToInputSandbox(Form("LF:%s/%s", workdir.Data(),analysisFile.Data())); | |
f866cba5 | 1044 | fMergingJDL->AddToInputSandbox(Form("LF:%s/%s", workdir.Data(),analysisFile.Data())); |
c57f56b7 | 1045 | if (IsUsingTags() && !gSystem->AccessPathName("ConfigureCuts.C")) |
1046 | fGridJDL->AddToInputSandbox(Form("LF:%s/ConfigureCuts.C", workdir.Data())); | |
1047 | if (fAdditionalLibs.Length()) { | |
1048 | arr = fAdditionalLibs.Tokenize(" "); | |
1049 | TIter next(arr); | |
1050 | while ((os=(TObjString*)next())) { | |
1051 | if (os->GetString().Contains(".so")) continue; | |
1052 | fGridJDL->AddToInputSandbox(Form("LF:%s/%s", workdir.Data(), os->GetString().Data())); | |
0f389141 | 1053 | fMergingJDL->AddToInputSandbox(Form("LF:%s/%s", workdir.Data(), os->GetString().Data())); |
c57f56b7 | 1054 | } |
1055 | delete arr; | |
1056 | } | |
4e5c5506 | 1057 | if (fPackages) { |
1058 | TIter next(fPackages); | |
1059 | TObject *obj; | |
0f389141 | 1060 | while ((obj=next())) { |
4e5c5506 | 1061 | fGridJDL->AddToInputSandbox(Form("LF:%s/%s", workdir.Data(), obj->GetName())); |
0f389141 | 1062 | fMergingJDL->AddToInputSandbox(Form("LF:%s/%s", workdir.Data(), obj->GetName())); |
1063 | } | |
4e5c5506 | 1064 | } |
c57f56b7 | 1065 | if (fOutputArchive.Length()) { |
1066 | arr = fOutputArchive.Tokenize(" "); | |
1067 | TIter next(arr); | |
0f389141 | 1068 | Bool_t first = kTRUE; |
1069 | const char *comment = "Files to be archived"; | |
1070 | const char *comment1 = comment; | |
1071 | while ((os=(TObjString*)next())) { | |
1072 | if (!first) comment = NULL; | |
1073 | if (!os->GetString().Contains("@") && fCloseSE.Length()) | |
1074 | fGridJDL->AddToOutputArchive(Form("%s@%s",os->GetString().Data(), fCloseSE.Data()), comment); | |
1075 | else | |
1076 | fGridJDL->AddToOutputArchive(os->GetString(), comment); | |
1077 | first = kFALSE; | |
1078 | } | |
c57f56b7 | 1079 | delete arr; |
f790bc1b | 1080 | // Output archive for the merging jdl |
1081 | TString outputArchive; | |
1082 | if (TestBit(AliAnalysisGrid::kDefaultOutputs)) { | |
1083 | outputArchive = "log_archive.zip:std*@disk=1 "; | |
1084 | // Add normal output files, extra files + terminate files | |
1085 | TString files = GetListOfFiles("outextter"); | |
1086 | // Do not register merge excludes | |
1087 | if (!fMergeExcludes.IsNull()) { | |
1088 | arr = fMergeExcludes.Tokenize(" "); | |
1089 | TIter next1(arr); | |
1090 | while ((os=(TObjString*)next1())) { | |
1091 | files.ReplaceAll(Form("%s,",os->GetString().Data()),""); | |
1092 | files.ReplaceAll(os->GetString(),""); | |
1093 | } | |
66d71516 | 1094 | delete arr; |
0f389141 | 1095 | } |
f790bc1b | 1096 | files.ReplaceAll(".root", "*.root"); |
1097 | outputArchive += Form("root_archive.zip:%s@disk=%d",files.Data(),fNreplicas); | |
1098 | } else { | |
1099 | outputArchive = fOutputArchive; | |
1100 | } | |
0f389141 | 1101 | arr = outputArchive.Tokenize(" "); |
705adb3e | 1102 | TIter next2(arr); |
0f389141 | 1103 | comment = comment1; |
1104 | first = kTRUE; | |
705adb3e | 1105 | while ((os=(TObjString*)next2())) { |
0f389141 | 1106 | if (!first) comment = NULL; |
0cdf65a8 | 1107 | TString currentfile = os->GetString(); |
d3b18c4c | 1108 | if (!IsOneStageMerging()) currentfile.ReplaceAll(".zip", "-Stage$2_$3.zip"); |
0cdf65a8 | 1109 | if (!currentfile.Contains("@") && fCloseSE.Length()) |
d3b18c4c | 1110 | fMergingJDL->AddToOutputArchive(Form("%s@%s",currentfile.Data(), fCloseSE.Data()), comment); |
0f389141 | 1111 | else |
0cdf65a8 | 1112 | fMergingJDL->AddToOutputArchive(currentfile, comment); |
0f389141 | 1113 | first = kFALSE; |
1114 | } | |
1115 | delete arr; | |
c57f56b7 | 1116 | } |
149d288c | 1117 | arr = fOutputFiles.Tokenize(","); |
c57f56b7 | 1118 | TIter next(arr); |
0f389141 | 1119 | Bool_t first = kTRUE; |
f790bc1b | 1120 | const char *comment = "Files to be saved"; |
43da816a | 1121 | while ((os=(TObjString*)next())) { |
e1eaf596 | 1122 | // Ignore ouputs in jdl that are also in outputarchive |
1123 | TString sout = os->GetString(); | |
f790bc1b | 1124 | sout.ReplaceAll("*", ""); |
1125 | sout.ReplaceAll(".root", ""); | |
e1eaf596 | 1126 | if (sout.Index("@")>0) sout.Remove(sout.Index("@")); |
1127 | if (fOutputArchive.Contains(sout)) continue; | |
0f389141 | 1128 | if (!first) comment = NULL; |
43da816a | 1129 | if (!os->GetString().Contains("@") && fCloseSE.Length()) |
0f389141 | 1130 | fGridJDL->AddToOutputSandbox(Form("%s@%s",os->GetString().Data(), fCloseSE.Data()), comment); |
43da816a | 1131 | else |
0f389141 | 1132 | fGridJDL->AddToOutputSandbox(os->GetString(), comment); |
1133 | first = kFALSE; | |
f790bc1b | 1134 | if (fMergeExcludes.Contains(sout)) continue; |
1135 | if (!os->GetString().Contains("@") && fCloseSE.Length()) | |
1136 | fMergingJDL->AddToOutputSandbox(Form("%s@%s",os->GetString().Data(), fCloseSE.Data()), comment); | |
1137 | else | |
1138 | fMergingJDL->AddToOutputSandbox(os->GetString(), comment); | |
43da816a | 1139 | } |
c57f56b7 | 1140 | delete arr; |
0f389141 | 1141 | fGridJDL->SetPrice((UInt_t)fPrice, "AliEn price for this job"); |
1142 | fMergingJDL->SetPrice((UInt_t)fPrice, "AliEn price for this job"); | |
d3b18c4c | 1143 | TString validationScript = fValidationScript; |
0f389141 | 1144 | fGridJDL->SetValidationCommand(Form("%s/%s", workdir.Data(),validationScript.Data()), "Validation script to be run for each subjob"); |
d3b18c4c | 1145 | validationScript.ReplaceAll(".sh", "_merge.sh"); |
0f389141 | 1146 | fMergingJDL->SetValidationCommand(Form("%s/%s", workdir.Data(),validationScript.Data()), "Validation script to be run for each subjob"); |
1147 | if (fMasterResubmitThreshold) { | |
1148 | fGridJDL->SetValue("MasterResubmitThreshold", Form("\"%d%%\"", fMasterResubmitThreshold)); | |
1149 | fGridJDL->SetDescription("MasterResubmitThreshold", "Resubmit failed jobs until DONE rate reaches this percentage"); | |
1150 | } | |
d2a409b2 | 1151 | // Write a jdl with 2 input parameters: collection name and output dir name. |
1152 | WriteJDL(copy); | |
c57f56b7 | 1153 | } |
1154 | // Copy jdl to grid workspace | |
a8739e8a | 1155 | if (copy) { |
b5e4aaa7 | 1156 | // Check if an output directory was defined and valid |
1157 | if (!fGridOutputDir.Length()) { | |
1158 | Error("CreateJDL", "You must define AliEn output directory"); | |
1159 | return kFALSE; | |
1160 | } else { | |
1161 | if (!fGridOutputDir.Contains("/")) fGridOutputDir = Form("%s/%s", workdir.Data(), fGridOutputDir.Data()); | |
bb2e67a0 | 1162 | if (!fProductionMode && !DirectoryExists(fGridOutputDir)) { |
b93f8109 | 1163 | if (gGrid->Mkdir(fGridOutputDir,"-p")) { |
b5e4aaa7 | 1164 | Info("CreateJDL", "\n##### Created alien output directory %s", fGridOutputDir.Data()); |
1165 | } else { | |
1166 | Error("CreateJDL", "Could not create alien output directory %s", fGridOutputDir.Data()); | |
1167 | return kFALSE; | |
1168 | } | |
1169 | } | |
1170 | gGrid->Cd(workdir); | |
1171 | } | |
648174cf | 1172 | if (TestBit(AliAnalysisGrid::kSubmit)) { |
0f389141 | 1173 | TString mergeJDLName = fExecutable; |
1174 | mergeJDLName.ReplaceAll(".sh", "_merge.jdl"); | |
648174cf | 1175 | TString locjdl = Form("%s/%s", fGridOutputDir.Data(),fJDLName.Data()); |
0f389141 | 1176 | TString locjdl1 = Form("%s/%s", fGridOutputDir.Data(),mergeJDLName.Data()); |
1177 | if (fProductionMode) { | |
648174cf | 1178 | locjdl = Form("%s/%s", workdir.Data(),fJDLName.Data()); |
0f389141 | 1179 | locjdl1 = Form("%s/%s", workdir.Data(),mergeJDLName.Data()); |
1180 | } | |
648174cf | 1181 | if (FileExists(locjdl)) gGrid->Rm(locjdl); |
0f389141 | 1182 | if (FileExists(locjdl1)) gGrid->Rm(locjdl1); |
1183 | Info("CreateJDL", "\n##### Copying JDL file <%s> to your AliEn output directory", fJDLName.Data()); | |
648174cf | 1184 | TFile::Cp(Form("file:%s",fJDLName.Data()), Form("alien://%s", locjdl.Data())); |
0f389141 | 1185 | if (fMergeViaJDL) { |
1186 | Info("CreateJDL", "\n##### Copying merging JDL file <%s> to your AliEn output directory", mergeJDLName.Data()); | |
1187 | TFile::Cp(Form("file:%s",mergeJDLName.Data()), Form("alien://%s", locjdl1.Data())); | |
1188 | } | |
648174cf | 1189 | } |
c57f56b7 | 1190 | if (fAdditionalLibs.Length()) { |
e7c71df0 | 1191 | arr = fAdditionalLibs.Tokenize(" "); |
c57f56b7 | 1192 | TObjString *os; |
1193 | TIter next(arr); | |
1194 | while ((os=(TObjString*)next())) { | |
c57f56b7 | 1195 | if (os->GetString().Contains(".so")) continue; |
4e5c5506 | 1196 | Info("CreateJDL", "\n##### Copying dependency: <%s> to your alien workspace", os->GetString().Data()); |
c57f56b7 | 1197 | if (FileExists(os->GetString())) gGrid->Rm(os->GetString()); |
1198 | TFile::Cp(Form("file:%s",os->GetString().Data()), Form("alien://%s/%s", workdir.Data(), os->GetString().Data())); | |
1199 | } | |
1200 | delete arr; | |
1201 | } | |
4e5c5506 | 1202 | if (fPackages) { |
1203 | TIter next(fPackages); | |
1204 | TObject *obj; | |
1205 | while ((obj=next())) { | |
fdbbc7be | 1206 | if (FileExists(obj->GetName())) gGrid->Rm(obj->GetName()); |
4e5c5506 | 1207 | Info("CreateJDL", "\n##### Copying dependency: <%s> to your alien workspace", obj->GetName()); |
1208 | TFile::Cp(Form("file:%s",obj->GetName()), Form("alien://%s/%s", workdir.Data(), obj->GetName())); | |
1209 | } | |
1210 | } | |
c57f56b7 | 1211 | } |
1212 | return kTRUE; | |
1213 | } | |
1214 | ||
a8739e8a | 1215 | //______________________________________________________________________________ |
d2a409b2 | 1216 | Bool_t AliAnalysisAlien::WriteJDL(Bool_t copy) |
a8739e8a | 1217 | { |
1218 | // Writes one or more JDL's corresponding to findex. If findex is negative, | |
1219 | // all run numbers are considered in one go (jdl). For non-negative indices | |
1220 | // they correspond to the indices in the array fInputFiles. | |
1221 | if (!fInputFiles) return kFALSE; | |
d3b18c4c | 1222 | TObject *os; |
1223 | TString workdir; | |
1224 | if (!fProductionMode && !fGridWorkingDir.BeginsWith("/alice")) workdir = gGrid->GetHomeDirectory(); | |
a8739e8a | 1225 | workdir += fGridWorkingDir; |
d2a409b2 | 1226 | |
d3b18c4c | 1227 | if (fProductionMode) { |
a8739e8a | 1228 | TIter next(fInputFiles); |
d3b18c4c | 1229 | while ((os=next())) |
1230 | fGridJDL->AddToInputDataCollection(Form("LF:%s,nodownload", os->GetName()), "Input xml collections"); | |
1231 | fGridJDL->SetOutputDirectory(Form("%s/#alien_counter_04i#", fGridOutputDir.Data())); | |
1232 | fMergingJDL->SetOutputDirectory(fGridOutputDir); | |
1233 | } else { | |
1234 | if (!fRunNumbers.Length() && !fRunRange[0]) { | |
1235 | // One jdl with no parameters in case input data is specified by name. | |
1236 | TIter next(fInputFiles); | |
1237 | while ((os=next())) | |
1238 | fGridJDL->AddToInputDataCollection(Form("LF:%s,nodownload", os->GetName()), "Input xml collections"); | |
1239 | if (!fOutputSingle.IsNull()) | |
1240 | fGridJDL->SetOutputDirectory(Form("#alienfulldir#/../%s",fOutputSingle.Data()), "Output directory"); | |
1241 | else { | |
1242 | fGridJDL->SetOutputDirectory(Form("%s/#alien_counter_03i#", fGridOutputDir.Data()), "Output directory"); | |
1243 | fMergingJDL->SetOutputDirectory(fGridOutputDir); | |
1244 | } | |
1245 | } else { | |
1246 | // One jdl to be submitted with 2 input parameters: data collection name and output dir prefix | |
1247 | fGridJDL->AddToInputDataCollection(Form("LF:%s/$1,nodownload", workdir.Data()), "Input xml collections"); | |
1248 | if (!fOutputSingle.IsNull()) { | |
1249 | if (!fOutputToRunNo) fGridJDL->SetOutputDirectory(Form("#alienfulldir#/%s",fOutputSingle.Data()), "Output directory"); | |
1250 | else fGridJDL->SetOutputDirectory(Form("%s/$2",fGridOutputDir.Data()), "Output directory"); | |
1251 | } else { | |
1252 | fGridJDL->SetOutputDirectory(Form("%s/$2/#alien_counter_03i#", fGridOutputDir.Data()), "Output directory"); | |
1253 | fMergingJDL->SetOutputDirectory("$1", "Output directory"); | |
1254 | } | |
1255 | } | |
a8739e8a | 1256 | } |
1257 | ||
a8739e8a | 1258 | // Generate the JDL as a string |
1259 | TString sjdl = fGridJDL->Generate(); | |
0f389141 | 1260 | TString sjdl1 = fMergingJDL->Generate(); |
a8739e8a | 1261 | Int_t index; |
a8739e8a | 1262 | sjdl.ReplaceAll("\"LF:", "\n \"LF:"); |
1263 | sjdl.ReplaceAll("(member", "\n (member"); | |
1264 | sjdl.ReplaceAll("\",\"VO_", "\",\n \"VO_"); | |
1265 | sjdl.ReplaceAll("{", "{\n "); | |
1266 | sjdl.ReplaceAll("};", "\n};"); | |
1267 | sjdl.ReplaceAll("{\n \n", "{\n"); | |
1268 | sjdl.ReplaceAll("\n\n", "\n"); | |
1269 | sjdl.ReplaceAll("OutputDirectory", "OutputDir"); | |
0f389141 | 1270 | sjdl1.ReplaceAll("\"LF:", "\n \"LF:"); |
1271 | sjdl1.ReplaceAll("(member", "\n (member"); | |
1272 | sjdl1.ReplaceAll("\",\"VO_", "\",\n \"VO_"); | |
1273 | sjdl1.ReplaceAll("{", "{\n "); | |
1274 | sjdl1.ReplaceAll("};", "\n};"); | |
1275 | sjdl1.ReplaceAll("{\n \n", "{\n"); | |
1276 | sjdl1.ReplaceAll("\n\n", "\n"); | |
1277 | sjdl1.ReplaceAll("OutputDirectory", "OutputDir"); | |
a8739e8a | 1278 | sjdl += "JDLVariables = \n{\n \"Packages\",\n \"OutputDir\"\n};\n"; |
f60ef0ba | 1279 | sjdl.Prepend(Form("Jobtag = {\n \"comment:%s\"\n};\n", fJobTag.Data())); |
a8739e8a | 1280 | index = sjdl.Index("JDLVariables"); |
1281 | if (index >= 0) sjdl.Insert(index, "\n# JDL variables\n"); | |
4739b2aa | 1282 | sjdl += "Workdirectorysize = {\"5000MB\"};"; |
0f389141 | 1283 | sjdl1 += "JDLVariables = \n{\n \"Packages\",\n \"OutputDir\"\n};\n"; |
d3b18c4c | 1284 | index = fJobTag.Index(":"); |
1285 | if (index < 0) index = fJobTag.Length(); | |
1286 | TString jobTag = fJobTag; | |
1287 | jobTag.Insert(index, "_Merging"); | |
1288 | sjdl1.Prepend(Form("Jobtag = {\n \"comment:%s_Merging\"\n};\n", jobTag.Data())); | |
7c2cd90a | 1289 | sjdl1.Prepend("# Generated merging jdl\n# $1 = full alien path to output directory to be merged\n# $2 = merging stage\n# $3 = merged chunk\n"); |
0f389141 | 1290 | index = sjdl1.Index("JDLVariables"); |
1291 | if (index >= 0) sjdl1.Insert(index, "\n# JDL variables\n"); | |
4739b2aa | 1292 | sjdl1 += "Workdirectorysize = {\"5000MB\"};"; |
a8739e8a | 1293 | // Write jdl to file |
a8739e8a | 1294 | ofstream out; |
d2a409b2 | 1295 | out.open(fJDLName.Data(), ios::out); |
a8739e8a | 1296 | if (out.bad()) { |
d3b18c4c | 1297 | Error("WriteJDL", "Bad file name: %s", fJDLName.Data()); |
a8739e8a | 1298 | return kFALSE; |
1299 | } | |
1300 | out << sjdl << endl; | |
0f389141 | 1301 | TString mergeJDLName = fExecutable; |
1302 | mergeJDLName.ReplaceAll(".sh", "_merge.jdl"); | |
1303 | if (fMergeViaJDL) { | |
1304 | ofstream out1; | |
1305 | out1.open(mergeJDLName.Data(), ios::out); | |
1306 | if (out.bad()) { | |
d3b18c4c | 1307 | Error("WriteJDL", "Bad file name: %s", mergeJDLName.Data()); |
0f389141 | 1308 | return kFALSE; |
1309 | } | |
1310 | out1 << sjdl1 << endl; | |
1311 | } | |
a8739e8a | 1312 | |
1313 | // Copy jdl to grid workspace | |
1314 | if (!copy) { | |
d3b18c4c | 1315 | Info("WriteJDL", "\n##### You may want to review jdl:%s and analysis macro:%s before running in <submit> mode", fJDLName.Data(), fAnalysisMacro.Data()); |
a8739e8a | 1316 | } else { |
d2a409b2 | 1317 | TString locjdl = Form("%s/%s", fGridOutputDir.Data(),fJDLName.Data()); |
0f389141 | 1318 | TString locjdl1 = Form("%s/%s", fGridOutputDir.Data(),mergeJDLName.Data()); |
1319 | if (fProductionMode) { | |
b5fe9cba | 1320 | locjdl = Form("%s/%s", workdir.Data(),fJDLName.Data()); |
0f389141 | 1321 | locjdl1 = Form("%s/%s", workdir.Data(),mergeJDLName.Data()); |
1322 | } | |
d2a409b2 | 1323 | if (FileExists(locjdl)) gGrid->Rm(locjdl); |
0f389141 | 1324 | if (FileExists(locjdl1)) gGrid->Rm(locjdl1); |
d3b18c4c | 1325 | Info("WriteJDL", "\n##### Copying JDL file <%s> to your AliEn output directory", fJDLName.Data()); |
5513444a | 1326 | TFile::Cp(Form("file:%s",fJDLName.Data()), Form("alien://%s", locjdl.Data())); |
0f389141 | 1327 | if (fMergeViaJDL) { |
d3b18c4c | 1328 | Info("WriteJDL", "\n##### Copying merging JDL file <%s> to your AliEn output directory", mergeJDLName.Data()); |
0f389141 | 1329 | TFile::Cp(Form("file:%s",mergeJDLName.Data()), Form("alien://%s", locjdl1.Data())); |
1330 | } | |
a8739e8a | 1331 | } |
1332 | return kTRUE; | |
1333 | } | |
1334 | ||
c57f56b7 | 1335 | //______________________________________________________________________________ |
5513444a | 1336 | Bool_t AliAnalysisAlien::FileExists(const char *lfn) |
c57f56b7 | 1337 | { |
1338 | // Returns true if file exists. | |
5513444a | 1339 | if (!gGrid) return kFALSE; |
c57f56b7 | 1340 | TGridResult *res = gGrid->Ls(lfn); |
1341 | if (!res) return kFALSE; | |
1342 | TMap *map = dynamic_cast<TMap*>(res->At(0)); | |
1343 | if (!map) { | |
1344 | delete res; | |
1345 | return kFALSE; | |
1346 | } | |
1347 | TObjString *objs = dynamic_cast<TObjString*>(map->GetValue("name")); | |
1348 | if (!objs || !objs->GetString().Length()) { | |
1349 | delete res; | |
1350 | return kFALSE; | |
1351 | } | |
1352 | delete res; | |
1353 | return kTRUE; | |
1354 | } | |
1355 | ||
923e2ca5 | 1356 | //______________________________________________________________________________ |
1357 | Bool_t AliAnalysisAlien::DirectoryExists(const char *dirname) | |
1358 | { | |
1359 | // Returns true if directory exists. Can be also a path. | |
1360 | if (!gGrid) return kFALSE; | |
1361 | // Check if dirname is a path | |
1362 | TString dirstripped = dirname; | |
1363 | dirstripped = dirstripped.Strip(); | |
1364 | dirstripped = dirstripped.Strip(TString::kTrailing, '/'); | |
1365 | TString dir = gSystem->BaseName(dirstripped); | |
1366 | dir += "/"; | |
1367 | TString path = gSystem->DirName(dirstripped); | |
1368 | TGridResult *res = gGrid->Ls(path, "-F"); | |
1369 | if (!res) return kFALSE; | |
1370 | TIter next(res); | |
1371 | TMap *map; | |
1372 | TObject *obj; | |
1373 | while ((map=dynamic_cast<TMap*>(next()))) { | |
1374 | obj = map->GetValue("name"); | |
1375 | if (!obj) break; | |
1376 | if (dir == obj->GetName()) { | |
1377 | delete res; | |
1378 | return kTRUE; | |
1379 | } | |
1380 | } | |
1381 | delete res; | |
1382 | return kFALSE; | |
1383 | } | |
1384 | ||
c57f56b7 | 1385 | //______________________________________________________________________________ |
a2f5fc01 | 1386 | void AliAnalysisAlien::CheckDataType(const char *lfn, Bool_t &isCollection, Bool_t &isXml, Bool_t &useTags) |
c57f56b7 | 1387 | { |
1388 | // Check input data type. | |
a2f5fc01 | 1389 | isCollection = kFALSE; |
1390 | isXml = kFALSE; | |
1391 | useTags = kFALSE; | |
c57f56b7 | 1392 | if (!gGrid) { |
1393 | Error("CheckDataType", "No connection to grid"); | |
1394 | return; | |
1395 | } | |
a2f5fc01 | 1396 | isCollection = IsCollection(lfn); |
c57f56b7 | 1397 | TString msg = "\n##### file: "; |
1398 | msg += lfn; | |
a2f5fc01 | 1399 | if (isCollection) { |
c57f56b7 | 1400 | msg += " type: raw_collection;"; |
1401 | // special treatment for collections | |
a2f5fc01 | 1402 | isXml = kFALSE; |
c57f56b7 | 1403 | // check for tag files in the collection |
1404 | TGridResult *res = gGrid->Command(Form("listFilesFromCollection -z -v %s",lfn), kFALSE); | |
1405 | if (!res) { | |
1406 | msg += " using_tags: No (unknown)"; | |
23329835 | 1407 | Info("CheckDataType", "%s", msg.Data()); |
c57f56b7 | 1408 | return; |
1409 | } | |
1410 | const char* typeStr = res->GetKey(0, "origLFN"); | |
1411 | if (!typeStr || !strlen(typeStr)) { | |
1412 | msg += " using_tags: No (unknown)"; | |
23329835 | 1413 | Info("CheckDataType", "%s", msg.Data()); |
c57f56b7 | 1414 | return; |
1415 | } | |
1416 | TString file = typeStr; | |
a2f5fc01 | 1417 | useTags = file.Contains(".tag"); |
1418 | if (useTags) msg += " using_tags: Yes"; | |
c57f56b7 | 1419 | else msg += " using_tags: No"; |
23329835 | 1420 | Info("CheckDataType", "%s", msg.Data()); |
c57f56b7 | 1421 | return; |
1422 | } | |
1423 | TString slfn(lfn); | |
1424 | slfn.ToLower(); | |
a2f5fc01 | 1425 | isXml = slfn.Contains(".xml"); |
1426 | if (isXml) { | |
c57f56b7 | 1427 | // Open xml collection and check if there are tag files inside |
1428 | msg += " type: xml_collection;"; | |
1429 | TGridCollection *coll = (TGridCollection*)gROOT->ProcessLine(Form("TAlienCollection::Open(\"alien://%s\",1);",lfn)); | |
1430 | if (!coll) { | |
1431 | msg += " using_tags: No (unknown)"; | |
23329835 | 1432 | Info("CheckDataType", "%s", msg.Data()); |
c57f56b7 | 1433 | return; |
1434 | } | |
1435 | TMap *map = coll->Next(); | |
1436 | if (!map) { | |
1437 | msg += " using_tags: No (unknown)"; | |
23329835 | 1438 | Info("CheckDataType", "%s", msg.Data()); |
c57f56b7 | 1439 | return; |
1440 | } | |
1441 | map = (TMap*)map->GetValue(""); | |
1442 | TString file; | |
1443 | if (map && map->GetValue("name")) file = map->GetValue("name")->GetName(); | |
a2f5fc01 | 1444 | useTags = file.Contains(".tag"); |
c57f56b7 | 1445 | delete coll; |
a2f5fc01 | 1446 | if (useTags) msg += " using_tags: Yes"; |
c57f56b7 | 1447 | else msg += " using_tags: No"; |
23329835 | 1448 | Info("CheckDataType", "%s", msg.Data()); |
c57f56b7 | 1449 | return; |
1450 | } | |
a2f5fc01 | 1451 | useTags = slfn.Contains(".tag"); |
c57f56b7 | 1452 | if (slfn.Contains(".root")) msg += " type: root file;"; |
f866cba5 | 1453 | else msg += " type: unknown file;"; |
a2f5fc01 | 1454 | if (useTags) msg += " using_tags: Yes"; |
c57f56b7 | 1455 | else msg += " using_tags: No"; |
23329835 | 1456 | Info("CheckDataType", "%s", msg.Data()); |
c57f56b7 | 1457 | } |
1458 | ||
4e5c5506 | 1459 | //______________________________________________________________________________ |
1460 | void AliAnalysisAlien::EnablePackage(const char *package) | |
1461 | { | |
1462 | // Enables a par file supposed to exist in the current directory. | |
1463 | TString pkg(package); | |
1464 | pkg.ReplaceAll(".par", ""); | |
1465 | pkg += ".par"; | |
1466 | if (gSystem->AccessPathName(pkg)) { | |
ebcdf05e | 1467 | Fatal("EnablePackage", "Package %s not found", pkg.Data()); |
4e5c5506 | 1468 | return; |
1469 | } | |
1470 | if (!TObject::TestBit(AliAnalysisGrid::kUsePars)) | |
1471 | Info("EnablePackage", "AliEn plugin will use .par packages"); | |
1472 | TObject::SetBit(AliAnalysisGrid::kUsePars, kTRUE); | |
1473 | if (!fPackages) { | |
1474 | fPackages = new TObjArray(); | |
1475 | fPackages->SetOwner(); | |
1476 | } | |
1477 | fPackages->Add(new TObjString(pkg)); | |
1478 | } | |
1479 | ||
3bdcb562 | 1480 | //______________________________________________________________________________ |
1481 | TChain *AliAnalysisAlien::GetChainForTestMode(const char *treeName) const | |
1482 | { | |
1483 | // Make a tree from files having the location specified in fFileForTestMode. | |
1484 | // Inspired from JF's CreateESDChain. | |
1485 | if (fFileForTestMode.IsNull()) { | |
1486 | Error("GetChainForTestMode", "For proof test mode please use SetFileForTestMode() pointing to a file that contains data file locations."); | |
1487 | return NULL; | |
1488 | } | |
1489 | if (gSystem->AccessPathName(fFileForTestMode)) { | |
1490 | Error("GetChainForTestMode", "File not found: %s", fFileForTestMode.Data()); | |
1491 | return NULL; | |
1492 | } | |
1493 | // Open the file | |
1494 | ifstream in; | |
1495 | in.open(fFileForTestMode); | |
1496 | Int_t count = 0; | |
1497 | // Read the input list of files and add them to the chain | |
1498 | TString line; | |
1499 | TChain *chain = new TChain(treeName); | |
1500 | while (in.good()) | |
1501 | { | |
1502 | in >> line; | |
1503 | if (line.IsNull()) continue; | |
1504 | if (count++ == fNtestFiles) break; | |
1505 | TString esdFile(line); | |
1506 | TFile *file = TFile::Open(esdFile); | |
1507 | if (file) { | |
1508 | if (!file->IsZombie()) chain->Add(esdFile); | |
1509 | file->Close(); | |
1510 | } else { | |
1511 | Error("GetChainforTestMode", "Skipping un-openable file: %s", esdFile.Data()); | |
1512 | } | |
1513 | } | |
1514 | in.close(); | |
1515 | if (!chain->GetListOfFiles()->GetEntries()) { | |
1516 | Error("GetChainForTestMode", "No file from %s could be opened", fFileForTestMode.Data()); | |
1517 | delete chain; | |
1518 | return NULL; | |
1519 | } | |
1520 | // chain->ls(); | |
1521 | return chain; | |
1522 | } | |
1523 | ||
d2a409b2 | 1524 | //______________________________________________________________________________ |
1525 | const char *AliAnalysisAlien::GetJobStatus(Int_t jobidstart, Int_t lastid, Int_t &nrunning, Int_t &nwaiting, Int_t &nerror, Int_t &ndone) | |
1526 | { | |
1527 | // Get job status for all jobs with jobid>jobidstart. | |
1528 | static char mstatus[20]; | |
1529 | mstatus[0] = '\0'; | |
1530 | nrunning = 0; | |
1531 | nwaiting = 0; | |
1532 | nerror = 0; | |
1533 | ndone = 0; | |
1534 | TGridJobStatusList *list = gGrid->Ps(""); | |
1535 | if (!list) return mstatus; | |
1536 | Int_t nentries = list->GetSize(); | |
1537 | TGridJobStatus *status; | |
1538 | Int_t pid; | |
1539 | for (Int_t ijob=0; ijob<nentries; ijob++) { | |
1540 | status = (TGridJobStatus *)list->At(ijob); | |
1541 | pid = gROOT->ProcessLine(Form("atoi(((TAlienJobStatus*)0x%lx)->GetKey(\"queueId\"));", (ULong_t)status)); | |
1542 | if (pid<jobidstart) continue; | |
1543 | if (pid == lastid) { | |
1544 | gROOT->ProcessLine(Form("sprintf((char*)0x%lx,((TAlienJobStatus*)0x%lx)->GetKey(\"status\"));",(ULong_t)mstatus, (ULong_t)status)); | |
1545 | } | |
1546 | switch (status->GetStatus()) { | |
1547 | case TGridJobStatus::kWAITING: | |
1548 | nwaiting++; break; | |
1549 | case TGridJobStatus::kRUNNING: | |
1550 | nrunning++; break; | |
1551 | case TGridJobStatus::kABORTED: | |
1552 | case TGridJobStatus::kFAIL: | |
1553 | case TGridJobStatus::kUNKNOWN: | |
1554 | nerror++; break; | |
1555 | case TGridJobStatus::kDONE: | |
1556 | ndone++; | |
1557 | } | |
1558 | } | |
1559 | list->Delete(); | |
1560 | delete list; | |
1561 | return mstatus; | |
1562 | } | |
1563 | ||
c57f56b7 | 1564 | //______________________________________________________________________________ |
1565 | Bool_t AliAnalysisAlien::IsCollection(const char *lfn) const | |
1566 | { | |
1567 | // Returns true if file is a collection. Functionality duplicated from | |
1568 | // TAlien::Type() because we don't want to directly depend on TAlien. | |
1569 | if (!gGrid) { | |
1570 | Error("IsCollection", "No connection to grid"); | |
1571 | return kFALSE; | |
1572 | } | |
1573 | TGridResult *res = gGrid->Command(Form("type -z %s",lfn),kFALSE); | |
1574 | if (!res) return kFALSE; | |
1575 | const char* typeStr = res->GetKey(0, "type"); | |
1576 | if (!typeStr || !strlen(typeStr)) return kFALSE; | |
1577 | if (!strcmp(typeStr, "collection")) return kTRUE; | |
1578 | delete res; | |
1579 | return kFALSE; | |
1580 | } | |
1581 | ||
fe2d7fc2 | 1582 | //______________________________________________________________________________ |
1583 | Bool_t AliAnalysisAlien::IsSingleOutput() const | |
1584 | { | |
1585 | // Check if single-ouput option is on. | |
1586 | return (!fOutputSingle.IsNull()); | |
1587 | } | |
1588 | ||
16a4353c | 1589 | //______________________________________________________________________________ |
1590 | void AliAnalysisAlien::Print(Option_t *) const | |
1591 | { | |
1592 | // Print current plugin settings. | |
84fcd93f | 1593 | printf("### AliEn analysis plugin current settings ###\n"); |
d3b18c4c | 1594 | AliAnalysisManager *mgr = AliAnalysisManager::GetAnalysisManager(); |
1595 | if (mgr && mgr->IsProofMode()) { | |
1596 | TString proofType = "= PLUGIN IN PROOF MODE ON CLUSTER:_________________"; | |
1597 | if (TestBit(AliAnalysisGrid::kTest)) | |
1598 | proofType = "= PLUGIN IN PROOF LITE MODE ON CLUSTER:____________"; | |
1599 | printf("%s %s\n", proofType.Data(), fProofCluster.Data()); | |
1600 | if (!fProofDataSet.IsNull()) | |
1601 | printf("= Requested data set:___________________________ %s\n", fProofDataSet.Data()); | |
1602 | if (fProofReset==1) | |
1603 | printf("= Soft reset signal will be send to master______ CHANGE BEHAVIOR AFTER COMPLETION\n"); | |
1604 | if (fProofReset>1) | |
1605 | printf("= Hard reset signal will be send to master______ CHANGE BEHAVIOR AFTER COMPLETION\n"); | |
1606 | if (!fRootVersionForProof.IsNull()) | |
1607 | printf("= ROOT version requested________________________ %s\n", fRootVersionForProof.Data()); | |
1608 | else | |
1609 | printf("= ROOT version requested________________________ default\n"); | |
1610 | printf("= AliRoot version requested_____________________ %s\n", fAliROOTVersion.Data()); | |
1611 | if (!fAliRootMode.IsNull()) | |
1612 | printf("= Requested AliRoot mode________________________ %s\n", fAliRootMode.Data()); | |
1613 | if (fNproofWorkers) | |
1614 | printf("= Number of PROOF workers limited to____________ %d\n", fNproofWorkers); | |
1615 | if (fNproofWorkersPerSlave) | |
1616 | printf("= Maximum number of workers per slave___________ %d\n", fNproofWorkersPerSlave); | |
1617 | if (TestSpecialBit(kClearPackages)) | |
1618 | printf("= ClearPackages requested...\n"); | |
1619 | if (fIncludePath.Data()) | |
1620 | printf("= Include path for runtime task compilation: ___ %s\n", fIncludePath.Data()); | |
1621 | printf("= Additional libs to be loaded or souces to be compiled runtime: <%s>\n",fAdditionalLibs.Data()); | |
1622 | if (fPackages && fPackages->GetEntries()) { | |
1623 | TIter next(fPackages); | |
1624 | TObject *obj; | |
1625 | TString list; | |
1626 | while ((obj=next())) list += obj->GetName(); | |
1627 | printf("= Par files to be used: ________________________ %s\n", list.Data()); | |
1628 | } | |
1629 | if (TestSpecialBit(kProofConnectGrid)) | |
1630 | printf("= Requested PROOF connection to grid\n"); | |
1631 | return; | |
1632 | } | |
e1c22e21 | 1633 | printf("= OverwriteMode:________________________________ %d\n", fOverwriteMode); |
1634 | if (fOverwriteMode) { | |
1635 | printf("***** NOTE: Overwrite mode will overwrite the input generated datasets and partial results from previous analysis. \ | |
1636 | \n***** To disable, use: plugin->SetOverwriteMode(kFALSE);\n"); | |
1637 | } | |
348be253 | 1638 | printf("= Copy files to grid: __________________________ %s\n", (IsUseCopy())?"YES":"NO"); |
1639 | printf("= Check if files can be copied to grid: ________ %s\n", (IsCheckCopy())?"YES":"NO"); | |
84fcd93f | 1640 | printf("= Production mode:______________________________ %d\n", fProductionMode); |
1641 | printf("= Version of API requested: ____________________ %s\n", fAPIVersion.Data()); | |
1642 | printf("= Version of ROOT requested: ___________________ %s\n", fROOTVersion.Data()); | |
1643 | printf("= Version of AliRoot requested: ________________ %s\n", fAliROOTVersion.Data()); | |
16a4353c | 1644 | if (fUser.Length()) |
84fcd93f | 1645 | printf("= User running the plugin: _____________________ %s\n", fUser.Data()); |
1646 | printf("= Grid workdir relative to user $HOME: _________ %s\n", fGridWorkingDir.Data()); | |
1647 | printf("= Grid output directory relative to workdir: ___ %s\n", fGridOutputDir.Data()); | |
1648 | printf("= Data base directory path requested: __________ %s\n", fGridDataDir.Data()); | |
1649 | printf("= Data search pattern: _________________________ %s\n", fDataPattern.Data()); | |
1650 | printf("= Input data format: ___________________________ %s\n", fInputFormat.Data()); | |
16a4353c | 1651 | if (fRunNumbers.Length()) |
84fcd93f | 1652 | printf("= Run numbers to be processed: _________________ %s\n", fRunNumbers.Data()); |
16a4353c | 1653 | if (fRunRange[0]) |
5fce53f4 | 1654 | printf("= Run range to be processed: ___________________ %s%d-%s%d\n", fRunPrefix.Data(), fRunRange[0], fRunPrefix.Data(), fRunRange[1]); |
16a4353c | 1655 | if (!fRunRange[0] && !fRunNumbers.Length()) { |
1656 | TIter next(fInputFiles); | |
1657 | TObject *obj; | |
1658 | TString list; | |
1659 | while ((obj=next())) list += obj->GetName(); | |
84fcd93f | 1660 | printf("= Input files to be processed: _________________ %s\n", list.Data()); |
16a4353c | 1661 | } |
1662 | if (TestBit(AliAnalysisGrid::kTest)) | |
84fcd93f | 1663 | printf("= Number of input files used in test mode: _____ %d\n", fNtestFiles); |
1664 | printf("= List of output files to be registered: _______ %s\n", fOutputFiles.Data()); | |
1665 | printf("= List of outputs going to be archived: ________ %s\n", fOutputArchive.Data()); | |
1666 | printf("= List of outputs that should not be merged: ___ %s\n", fMergeExcludes.Data()); | |
d3b18c4c | 1667 | printf("= List of outputs produced during Terminate: ___ %s\n", fTerminateFiles.Data()); |
84fcd93f | 1668 | printf("=====================================================================\n"); |
1669 | printf("= Job price: ___________________________________ %d\n", fPrice); | |
1670 | printf("= Time to live (TTL): __________________________ %d\n", fTTL); | |
1671 | printf("= Max files per subjob: ________________________ %d\n", fSplitMaxInputFileNumber); | |
16a4353c | 1672 | if (fMaxInitFailed>0) |
84fcd93f | 1673 | printf("= Max number of subjob fails to kill: __________ %d\n", fMaxInitFailed); |
16a4353c | 1674 | if (fMasterResubmitThreshold>0) |
84fcd93f | 1675 | printf("= Resubmit master job if failed subjobs >_______ %d\n", fMasterResubmitThreshold); |
149d288c | 1676 | printf("= Number of replicas for the output files_______ %d\n", fNreplicas); |
319593fb | 1677 | if (fNrunsPerMaster>0) |
84fcd93f | 1678 | printf("= Number of runs per master job: _______________ %d\n", fNrunsPerMaster); |
1679 | printf("= Number of files in one chunk to be merged: ___ %d\n", fMaxMergeFiles); | |
b5b9dee8 | 1680 | printf("= Name of the generated execution script: ______ %s\n", fExecutable.Data()); |
1681 | printf("= Executable command: __________________________ %s\n", fExecutableCommand.Data()); | |
16a4353c | 1682 | if (fArguments.Length()) |
84fcd93f | 1683 | printf("= Arguments for the execution script: __________ %s\n",fArguments.Data()); |
631c0b05 | 1684 | if (fExecutableArgs.Length()) |
1685 | printf("= Arguments after macro name in executable______ %s\n",fExecutableArgs.Data()); | |
84fcd93f | 1686 | printf("= Name of the generated analysis macro: ________ %s\n",fAnalysisMacro.Data()); |
1687 | printf("= User analysis files to be deployed: __________ %s\n",fAnalysisSource.Data()); | |
1688 | printf("= Additional libs to be loaded or souces to be compiled runtime: <%s>\n",fAdditionalLibs.Data()); | |
1689 | printf("= Master jobs split mode: ______________________ %s\n",fSplitMode.Data()); | |
16a4353c | 1690 | if (fDatasetName) |
84fcd93f | 1691 | printf("= Custom name for the dataset to be created: ___ %s\n", fDatasetName.Data()); |
1692 | printf("= Name of the generated JDL: ___________________ %s\n", fJDLName.Data()); | |
16a4353c | 1693 | if (fIncludePath.Data()) |
84fcd93f | 1694 | printf("= Include path for runtime task compilation: ___ %s\n", fIncludePath.Data()); |
16a4353c | 1695 | if (fCloseSE.Length()) |
84fcd93f | 1696 | printf("= Force job outputs to storage element: ________ %s\n", fCloseSE.Data()); |
16a4353c | 1697 | if (fFriendChainName.Length()) |
84fcd93f | 1698 | printf("= Open friend chain file on worker: ____________ %s\n", fFriendChainName.Data()); |
d3b18c4c | 1699 | if (fPackages && fPackages->GetEntries()) { |
16a4353c | 1700 | TIter next(fPackages); |
1701 | TObject *obj; | |
1702 | TString list; | |
1703 | while ((obj=next())) list += obj->GetName(); | |
84fcd93f | 1704 | printf("= Par files to be used: ________________________ %s\n", list.Data()); |
16a4353c | 1705 | } |
1706 | } | |
1707 | ||
c57f56b7 | 1708 | //______________________________________________________________________________ |
1709 | void AliAnalysisAlien::SetDefaults() | |
1710 | { | |
1711 | // Set default values for everything. What cannot be filled will be left empty. | |
1712 | if (fGridJDL) delete fGridJDL; | |
1713 | fGridJDL = (TGridJDL*)gROOT->ProcessLine("new TAlienJDL()"); | |
0f389141 | 1714 | fMergingJDL = (TGridJDL*)gROOT->ProcessLine("new TAlienJDL()"); |
c57f56b7 | 1715 | fPrice = 1; |
1716 | fTTL = 30000; | |
1717 | fSplitMaxInputFileNumber = 100; | |
1718 | fMaxInitFailed = 0; | |
1719 | fMasterResubmitThreshold = 0; | |
bb885a9e | 1720 | fNtestFiles = 10; |
149d288c | 1721 | fNreplicas = 2; |
a8739e8a | 1722 | fRunRange[0] = 0; |
1723 | fRunRange[1] = 0; | |
319593fb | 1724 | fNrunsPerMaster = 1; |
16a4353c | 1725 | fMaxMergeFiles = 100; |
c57f56b7 | 1726 | fRunNumbers = ""; |
1727 | fExecutable = "analysis.sh"; | |
0a1c1f7f | 1728 | fExecutableCommand = "root -b -q"; |
c57f56b7 | 1729 | fArguments = ""; |
631c0b05 | 1730 | fExecutableArgs = ""; |
c57f56b7 | 1731 | fAnalysisMacro = "myAnalysis.C"; |
1732 | fAnalysisSource = ""; | |
1733 | fAdditionalLibs = ""; | |
1734 | fSplitMode = "se"; | |
1735 | fAPIVersion = ""; | |
1736 | fROOTVersion = ""; | |
1737 | fAliROOTVersion = ""; | |
1738 | fUser = ""; // Your alien user name | |
1739 | fGridWorkingDir = ""; | |
1740 | fGridDataDir = ""; // Can be like: /alice/sim/PDC_08a/LHC08c9/ | |
1741 | fDataPattern = "*AliESDs.root"; // Can be like: *AliESDs.root, */pass1/*AliESDs.root, ... | |
0df6ccf2 | 1742 | fFriendChainName = ""; |
c57f56b7 | 1743 | fGridOutputDir = "output"; |
149d288c | 1744 | fOutputArchive = "log_archive.zip:std*@disk=1 root_archive.zip:*.root@disk=2"; |
c57f56b7 | 1745 | fOutputFiles = ""; // Like "AliAODs.root histos.root" |
1746 | fInputFormat = "xml-single"; | |
1747 | fJDLName = "analysis.jdl"; | |
c6cb3634 | 1748 | fJobTag = "Automatically generated analysis JDL"; |
bb885a9e | 1749 | fMergeExcludes = ""; |
0f389141 | 1750 | fMergeViaJDL = 0; |
348be253 | 1751 | SetUseCopy(kTRUE); |
1752 | SetCheckCopy(kTRUE); | |
149d288c | 1753 | SetDefaultOutputs(kTRUE); |
e1c22e21 | 1754 | fOverwriteMode = 1; |
c57f56b7 | 1755 | } |
1756 | ||
0f389141 | 1757 | //______________________________________________________________________________ |
7c2cd90a | 1758 | Bool_t AliAnalysisAlien::CheckMergedFiles(const char *filename, const char *aliendir, Int_t nperchunk, Bool_t submit, const char *jdl) |
0f389141 | 1759 | { |
7c2cd90a | 1760 | // Static method that checks the status of merging. This can submit merging jobs that did not produced the expected |
1761 | // output. If <submit> is false (checking) returns true only when the final merged file was found. If submit is true returns | |
1762 | // true if the jobs were successfully submitted. | |
1763 | Int_t countOrig = 0; | |
1764 | Int_t countStage = 0; | |
1765 | Int_t stage = 0; | |
1766 | Int_t i; | |
1767 | Bool_t doneFinal = kFALSE; | |
1768 | TBits chunksDone; | |
1769 | TString saliendir(aliendir); | |
1770 | TString sfilename, stmp; | |
1771 | saliendir.ReplaceAll("//","/"); | |
1772 | saliendir = saliendir.Strip(TString::kTrailing, '/'); | |
1773 | if (!gGrid) { | |
1774 | ::Error("GetNregisteredFiles", "You need to be connected to AliEn."); | |
1775 | return kFALSE; | |
1776 | } | |
0cdf65a8 | 1777 | sfilename = filename; |
1778 | sfilename.ReplaceAll(".root", "*.root"); | |
1779 | printf("Checking directory <%s> for merged files <%s> ...\n", aliendir, sfilename.Data()); | |
1780 | TString command = Form("find %s/ *%s", saliendir.Data(), sfilename.Data()); | |
7c2cd90a | 1781 | TGridResult *res = gGrid->Command(command); |
1782 | if (!res) { | |
1783 | ::Error("GetNregisteredFiles","Error: No result for the find command\n"); | |
1784 | return kFALSE; | |
1785 | } | |
1786 | TIter nextmap(res); | |
1787 | TMap *map = 0; | |
1788 | while ((map=(TMap*)nextmap())) { | |
1789 | TString turl = map->GetValue("turl")->GetName(); | |
1790 | if (!turl.Length()) { | |
1791 | // Nothing found | |
1792 | delete res; | |
1793 | return kFALSE; | |
1794 | } | |
1795 | turl.ReplaceAll("alien://", ""); | |
1796 | turl.ReplaceAll(saliendir, ""); | |
1797 | sfilename = gSystem->BaseName(turl); | |
0cdf65a8 | 1798 | turl = turl.Strip(TString::kLeading, '/'); |
7c2cd90a | 1799 | // Now check to what the file corresponds to: |
1800 | // original output - aliendir/%03d/filename | |
1801 | // merged file (which stage) - aliendir/filename-Stage%02d_%04d | |
1802 | // final merged file - aliendir/filename | |
1803 | if (sfilename == turl) { | |
1804 | if (sfilename == filename) { | |
1805 | doneFinal = kTRUE; | |
1806 | } else { | |
1807 | // check stage | |
1808 | Int_t index = sfilename.Index("Stage"); | |
1809 | if (index<0) continue; | |
1810 | stmp = sfilename(index+5,2); | |
1811 | Int_t istage = atoi(stmp); | |
1812 | stmp = sfilename(index+8,4); | |
1813 | Int_t ijob = atoi(stmp); | |
1814 | if (istage<stage) continue; // Ignore lower stages | |
1815 | if (istage>stage) { | |
1816 | countStage = 0; | |
1817 | chunksDone.ResetAllBits(); | |
1818 | stage = istage; | |
1819 | } | |
1820 | countStage++; | |
1821 | chunksDone.SetBitNumber(ijob); | |
1822 | } | |
1823 | } else { | |
1824 | countOrig++; | |
1825 | } | |
1826 | if (doneFinal) { | |
1827 | delete res; | |
0cdf65a8 | 1828 | printf("=> Removing files from previous stages...\n"); |
1829 | gGrid->Rm(Form("%s/*Stage*.root", aliendir)); | |
7a62d541 | 1830 | for (i=1; i<stage; i++) |
1831 | gGrid->Rm(Form("%s/*Stage%d*.zip", aliendir, i)); | |
7c2cd90a | 1832 | return kTRUE; |
1833 | } | |
1834 | } | |
1835 | delete res; | |
1836 | // Compute number of jobs that were submitted for the current stage | |
1837 | Int_t ntotstage = countOrig; | |
7ae54d70 | 1838 | for (i=1; i<=stage; i++) { |
1839 | if (ntotstage%nperchunk) ntotstage = (ntotstage/nperchunk)+1; | |
1840 | else ntotstage = (ntotstage/nperchunk); | |
1841 | } | |
7c2cd90a | 1842 | // Now compare with the number of set bits in the chunksDone array |
1843 | Int_t nmissing = (stage>0)?(ntotstage - countStage):0; | |
1844 | // Print the info | |
1845 | printf("*** Found %d original files\n", countOrig); | |
1846 | if (stage==0) printf("*** No merging completed so far.\n"); | |
1847 | else printf("*** Found %d out of %d files merged for stage %d\n", countStage, ntotstage, stage); | |
1848 | if (nmissing) printf("*** Number of merged files missing for this stage: %d -> check merging job completion\n", nmissing); | |
7c2cd90a | 1849 | if (!submit) return doneFinal; |
1850 | // Sumbit merging jobs for all missing chunks for the current stage. | |
1851 | TString query = Form("submit %s %s", jdl, aliendir); | |
1852 | Int_t ichunk = -1; | |
1853 | if (nmissing) { | |
1854 | for (i=0; i<nmissing; i++) { | |
1855 | ichunk = chunksDone.FirstNullBit(ichunk+1); | |
1856 | Int_t jobId = SubmitSingleJob(Form("%s %d %d", query.Data(), stage, ichunk)); | |
1857 | if (!jobId) return kFALSE; | |
1858 | } | |
1859 | return kTRUE; | |
1860 | } | |
1861 | // Submit next stage of merging | |
1862 | if (stage==0) countStage = countOrig; | |
7ae54d70 | 1863 | Int_t nchunks = (countStage/nperchunk); |
1864 | if (countStage%nperchunk) nchunks += 1; | |
7c2cd90a | 1865 | for (i=0; i<nchunks; i++) { |
1866 | Int_t jobId = SubmitSingleJob(Form("%s %d %d", query.Data(), stage+1, i)); | |
1867 | if (!jobId) return kFALSE; | |
1868 | } | |
1869 | return kTRUE; | |
1870 | } | |
1871 | ||
1872 | //______________________________________________________________________________ | |
1873 | Int_t AliAnalysisAlien::SubmitSingleJob(const char *query) | |
1874 | { | |
1875 | // Submits a single job corresponding to the query and returns job id. If 0 submission failed. | |
1876 | if (!gGrid) return 0; | |
1877 | printf("=> %s ------> ",query); | |
1878 | TGridResult *res = gGrid->Command(query); | |
1879 | if (!res) return 0; | |
1880 | TString jobId = res->GetKey(0,"jobId"); | |
1881 | delete res; | |
1882 | if (jobId.IsNull()) { | |
1883 | printf("submission failed. Reason:\n"); | |
1884 | gGrid->Stdout(); | |
1885 | gGrid->Stderr(); | |
1886 | ::Error("SubmitSingleJob", "Your query %s could not be submitted", query); | |
1887 | return 0; | |
1888 | } | |
1889 | printf(" Job id: %s\n", jobId.Data()); | |
1890 | return atoi(jobId); | |
1891 | } | |
1892 | ||
1893 | //______________________________________________________________________________ | |
1894 | Bool_t AliAnalysisAlien::MergeOutput(const char *output, const char *basedir, Int_t nmaxmerge, Int_t stage, Int_t ichunk) | |
1895 | { | |
1896 | // Merge given output files from basedir. The file merger will merge nmaxmerge | |
1897 | // files in a group. Merging can be done in stages: | |
1898 | // stage=0 : will merge all existing files in a single stage | |
1899 | // stage=1 : does a find command for all files that do NOT contain the string "Stage". | |
1900 | // If their number is bigger that nmaxmerge, only the files from | |
1901 | // ichunk*nmaxmerge to ichunk*(nmaxmerge+1)-1 will get merged as output_stage_<ichunk> | |
1902 | // stage=n : does a find command for files named <output>Stage<stage-1>_*. If their number is bigger than | |
1903 | // nmaxmerge, merge just the chunk ichunk, otherwise write the merged output to the file | |
1904 | // named <output>. | |
a2f5fc01 | 1905 | TString outputFile = output; |
0f389141 | 1906 | TString command; |
a2f5fc01 | 1907 | TString outputChunk; |
1908 | TString previousChunk = ""; | |
1909 | Int_t countChunk = 0; | |
1910 | Int_t countZero = nmaxmerge; | |
0f389141 | 1911 | Bool_t merged = kTRUE; |
a2f5fc01 | 1912 | Int_t index = outputFile.Index("@"); |
1913 | if (index > 0) outputFile.Remove(index); | |
7c2cd90a | 1914 | TString inputFile = outputFile; |
1915 | if (stage>1) inputFile.ReplaceAll(".root", Form("-Stage%02d_*.root", stage-1)); | |
1916 | command = Form("find %s/ *%s", basedir, inputFile.Data()); | |
0f389141 | 1917 | printf("command: %s\n", command.Data()); |
1918 | TGridResult *res = gGrid->Command(command); | |
1919 | if (!res) { | |
7c2cd90a | 1920 | ::Error("MergeOutput","No result for the find command\n"); |
0f389141 | 1921 | return kFALSE; |
1922 | } | |
1923 | ||
1924 | TFileMerger *fm = 0; | |
1925 | TIter nextmap(res); | |
1926 | TMap *map = 0; | |
7c2cd90a | 1927 | // Check if there is a merge operation to resume. Works only for stage 0 or 1. |
a2f5fc01 | 1928 | outputChunk = outputFile; |
1929 | outputChunk.ReplaceAll(".root", "_*.root"); | |
0f389141 | 1930 | // Check for existent temporary merge files |
e1c22e21 | 1931 | // Check overwrite mode and remove previous partial results if needed |
7c2cd90a | 1932 | // Preserve old merging functionality for stage 0. |
1933 | if (stage==0) { | |
1934 | if (!gSystem->Exec(Form("ls %s 2>/dev/null", outputChunk.Data()))) { | |
1935 | while (1) { | |
1936 | // Skip as many input files as in a chunk | |
1937 | for (Int_t counter=0; counter<nmaxmerge; counter++) map = (TMap*)nextmap(); | |
1938 | if (!map) { | |
1939 | ::Error("MergeOutput", "Cannot resume merging for <%s>, nentries=%d", outputFile.Data(), res->GetSize()); | |
1940 | delete res; | |
1941 | return kFALSE; | |
1942 | } | |
1943 | outputChunk = outputFile; | |
1944 | outputChunk.ReplaceAll(".root", Form("_%04d.root", countChunk)); | |
1945 | countChunk++; | |
1946 | if (gSystem->AccessPathName(outputChunk)) continue; | |
1947 | // Merged file with chunks up to <countChunk> found | |
1948 | ::Info("MergeOutput", "Resume merging of <%s> from <%s>\n", outputFile.Data(), outputChunk.Data()); | |
1949 | previousChunk = outputChunk; | |
1950 | break; | |
1951 | } | |
1952 | } | |
1953 | countZero = nmaxmerge; | |
1954 | ||
1955 | while ((map=(TMap*)nextmap())) { | |
1956 | // Loop 'find' results and get next LFN | |
1957 | if (countZero == nmaxmerge) { | |
1958 | // First file in chunk - create file merger and add previous chunk if any. | |
1959 | fm = new TFileMerger(kFALSE); | |
1960 | fm->SetFastMethod(kTRUE); | |
1961 | if (previousChunk.Length()) fm->AddFile(previousChunk.Data()); | |
1962 | outputChunk = outputFile; | |
1963 | outputChunk.ReplaceAll(".root", Form("_%04d.root", countChunk)); | |
1964 | } | |
1965 | // If last file found, put merged results in the output file | |
1966 | if (map == res->Last()) outputChunk = outputFile; | |
1967 | TObjString *objs = dynamic_cast<TObjString*>(map->GetValue("turl")); | |
1968 | if (!objs || !objs->GetString().Length()) { | |
1969 | // Nothing found - skip this output | |
0f389141 | 1970 | delete res; |
7c2cd90a | 1971 | delete fm; |
0f389141 | 1972 | return kFALSE; |
7c2cd90a | 1973 | } |
1974 | // Add file to be merged and decrement chunk counter. | |
1975 | fm->AddFile(objs->GetString()); | |
1976 | countZero--; | |
1977 | if (countZero==0 || map == res->Last()) { | |
1978 | if (!fm->GetMergeList() || !fm->GetMergeList()->GetSize()) { | |
1979 | // Nothing found - skip this output | |
1980 | ::Warning("MergeOutput", "No <%s> files found.", inputFile.Data()); | |
1981 | delete res; | |
1982 | delete fm; | |
1983 | return kFALSE; | |
1984 | } | |
1985 | fm->OutputFile(outputChunk); | |
1986 | // Merge the outputs, then go to next chunk | |
1987 | if (!fm->Merge()) { | |
1988 | ::Error("MergeOutput", "Could not merge all <%s> files", outputFile.Data()); | |
1989 | delete res; | |
1990 | delete fm; | |
1991 | return kFALSE; | |
1992 | } else { | |
1993 | ::Info("MergeOutputs", "\n##### Merged %d output files to <%s>", fm->GetMergeList()->GetSize(), outputChunk.Data()); | |
1994 | gSystem->Unlink(previousChunk); | |
1995 | } | |
1996 | if (map == res->Last()) { | |
1997 | delete res; | |
1998 | delete fm; | |
1999 | break; | |
2000 | } | |
2001 | countChunk++; | |
2002 | countZero = nmaxmerge; | |
2003 | previousChunk = outputChunk; | |
0f389141 | 2004 | } |
0f389141 | 2005 | } |
7c2cd90a | 2006 | return merged; |
2007 | } | |
2008 | // Merging stage different than 0. | |
2009 | // Move to the begining of the requested chunk. | |
2010 | outputChunk = outputFile; | |
2011 | if (nmaxmerge < res->GetSize()) { | |
2012 | if (ichunk*nmaxmerge >= res->GetSize()) { | |
2013 | ::Error("MergeOutput", "Cannot merge merge chunk %d grouping %d files from %d total.", ichunk, nmaxmerge, res->GetSize()); | |
2014 | delete res; | |
2015 | return kFALSE; | |
2016 | } | |
2017 | for (Int_t counter=0; counter<ichunk*nmaxmerge; counter++) map = (TMap*)nextmap(); | |
2018 | outputChunk.ReplaceAll(".root", Form("-Stage%02d_%04d.root", stage, ichunk)); | |
2019 | } | |
2020 | countZero = nmaxmerge; | |
2021 | fm = new TFileMerger(kFALSE); | |
2022 | fm->SetFastMethod(kTRUE); | |
0f389141 | 2023 | while ((map=(TMap*)nextmap())) { |
7c2cd90a | 2024 | // Loop 'find' results and get next LFN |
0f389141 | 2025 | TObjString *objs = dynamic_cast<TObjString*>(map->GetValue("turl")); |
2026 | if (!objs || !objs->GetString().Length()) { | |
2027 | // Nothing found - skip this output | |
2028 | delete res; | |
2029 | delete fm; | |
2030 | return kFALSE; | |
2031 | } | |
2032 | // Add file to be merged and decrement chunk counter. | |
2033 | fm->AddFile(objs->GetString()); | |
a2f5fc01 | 2034 | countZero--; |
7c2cd90a | 2035 | if (countZero==0) break; |
2036 | } | |
2037 | delete res; | |
2038 | if (!fm->GetMergeList() || !fm->GetMergeList()->GetSize()) { | |
2039 | // Nothing found - skip this output | |
2040 | ::Warning("MergeOutput", "No <%s> files found.", inputFile.Data()); | |
2041 | delete fm; | |
2042 | return kFALSE; | |
2043 | } | |
2044 | fm->OutputFile(outputChunk); | |
2045 | // Merge the outputs | |
2046 | if (!fm->Merge()) { | |
2047 | ::Error("MergeOutput", "Could not merge all <%s> files", outputFile.Data()); | |
2048 | delete fm; | |
2049 | return kFALSE; | |
2050 | } else { | |
2051 | ::Info("MergeOutput", "\n##### Merged %d output files to <%s>", fm->GetMergeList()->GetSize(), outputChunk.Data()); | |
0f389141 | 2052 | } |
7c2cd90a | 2053 | delete fm; |
2054 | return kTRUE; | |
0f389141 | 2055 | } |
2056 | ||
c57f56b7 | 2057 | //______________________________________________________________________________ |
2058 | Bool_t AliAnalysisAlien::MergeOutputs() | |
2059 | { | |
2060 | // Merge analysis outputs existing in the AliEn space. | |
2061 | if (TestBit(AliAnalysisGrid::kTest)) return kTRUE; | |
2062 | if (TestBit(AliAnalysisGrid::kOffline)) return kFALSE; | |
2063 | if (!Connect()) { | |
2064 | Error("MergeOutputs", "Cannot merge outputs without grid connection. Terminate will NOT be executed"); | |
2065 | return kFALSE; | |
0f389141 | 2066 | } |
c9e8f7fd | 2067 | if (fMergeViaJDL) { |
2068 | if (!TestBit(AliAnalysisGrid::kMerge)) { | |
2069 | Info("MergeOutputs", "### Re-run with <MergeViaJDL> option in terminate mode of the plugin to submit merging jobs ###"); | |
2070 | return kFALSE; | |
2071 | } | |
2072 | if (fProductionMode) { | |
2073 | Info("MergeOutputs", "### Merging will be submitted by LPM manager... ###"); | |
2074 | return kFALSE; | |
2075 | } | |
0f389141 | 2076 | Info("MergeOutputs", "Submitting merging JDL"); |
a03be957 | 2077 | if (!SubmitMerging()) return kFALSE; |
0f389141 | 2078 | Info("MergeOutputs", "### Re-run with <MergeViaJDL> off to collect results after merging jobs are done ###"); |
c9e8f7fd | 2079 | Info("MergeOutputs", "### The Terminate() method is executed by the merging jobs"); |
001cb79e | 2080 | return kFALSE; |
c57f56b7 | 2081 | } |
2082 | // Get the output path | |
d2a409b2 | 2083 | if (!fGridOutputDir.Contains("/")) fGridOutputDir = Form("/%s/%s/%s", gGrid->GetHomeDirectory(), fGridWorkingDir.Data(), fGridOutputDir.Data()); |
923e2ca5 | 2084 | if (!DirectoryExists(fGridOutputDir)) { |
c57f56b7 | 2085 | Error("MergeOutputs", "Grid output directory %s not found. Terminate() will NOT be executed", fGridOutputDir.Data()); |
2086 | return kFALSE; | |
2087 | } | |
2088 | if (!fOutputFiles.Length()) { | |
2089 | Error("MergeOutputs", "No output file names defined. Are you running the right AliAnalysisAlien configuration ?"); | |
2090 | return kFALSE; | |
0f389141 | 2091 | } |
2092 | // Check if fast read option was requested | |
e1c22e21 | 2093 | Info("MergeOutputs", "Started local merging of output files from: alien://%s \ |
2094 | \n======= overwrite mode = %d", fGridOutputDir.Data(), (Int_t)fOverwriteMode); | |
0f389141 | 2095 | if (fFastReadOption) { |
d3339be3 | 2096 | Warning("MergeOutputs", "You requested FastRead option. Using xrootd flags to reduce timeouts. This may skip some files that could be accessed ! \ |
2097 | \n+++ NOTE: To disable this option, use: plugin->SetFastReadOption(kFALSE)"); | |
2098 | gEnv->SetValue("XNet.ConnectTimeout",10); | |
2099 | gEnv->SetValue("XNet.RequestTimeout",10); | |
0f389141 | 2100 | gEnv->SetValue("XNet.MaxRedirectCount",2); |
d3339be3 | 2101 | gEnv->SetValue("XNet.ReconnectTimeout",10); |
0f389141 | 2102 | gEnv->SetValue("XNet.FirstConnectMaxCnt",1); |
c57f56b7 | 2103 | } |
e8b839ab | 2104 | // Make sure we change the temporary directory |
2105 | gSystem->Setenv("TMPDIR", gSystem->pwd()); | |
149d288c | 2106 | TObjArray *list = fOutputFiles.Tokenize(","); |
c57f56b7 | 2107 | TIter next(list); |
2108 | TObjString *str; | |
a2f5fc01 | 2109 | TString outputFile; |
c57f56b7 | 2110 | Bool_t merged = kTRUE; |
2111 | while((str=(TObjString*)next())) { | |
a2f5fc01 | 2112 | outputFile = str->GetString(); |
2113 | Int_t index = outputFile.Index("@"); | |
2114 | if (index > 0) outputFile.Remove(index); | |
2115 | TString outputChunk = outputFile; | |
2116 | outputChunk.ReplaceAll(".root", "_*.root"); | |
319593fb | 2117 | // Skip already merged outputs |
a2f5fc01 | 2118 | if (!gSystem->AccessPathName(outputFile)) { |
e1c22e21 | 2119 | if (fOverwriteMode) { |
a2f5fc01 | 2120 | Info("MergeOutputs", "Overwrite mode. Existing file %s was deleted.", outputFile.Data()); |
2121 | gSystem->Unlink(outputFile); | |
2122 | if (!gSystem->Exec(Form("ls %s 2>/dev/null", outputChunk.Data()))) { | |
e1c22e21 | 2123 | Info("MergeOutput", "Overwrite mode: partial merged files %s will removed", |
a2f5fc01 | 2124 | outputChunk.Data()); |
2125 | gSystem->Exec(Form("rm -f %s", outputChunk.Data())); | |
e1c22e21 | 2126 | } |
2127 | } else { | |
a2f5fc01 | 2128 | Info("MergeOutputs", "Output file <%s> found. Not merging again.", outputFile.Data()); |
e1c22e21 | 2129 | continue; |
2130 | } | |
2131 | } else { | |
a2f5fc01 | 2132 | if (!gSystem->Exec(Form("ls %s 2>/dev/null", outputChunk.Data()))) { |
e1c22e21 | 2133 | Info("MergeOutput", "Overwrite mode: partial merged files %s will removed", |
a2f5fc01 | 2134 | outputChunk.Data()); |
2135 | gSystem->Exec(Form("rm -f %s", outputChunk.Data())); | |
e1c22e21 | 2136 | } |
2137 | } | |
bb885a9e | 2138 | if (fMergeExcludes.Length() && |
a2f5fc01 | 2139 | fMergeExcludes.Contains(outputFile.Data())) continue; |
16a4353c | 2140 | // Perform a 'find' command in the output directory, looking for registered outputs |
a2f5fc01 | 2141 | merged = MergeOutput(outputFile, fGridOutputDir, fMaxMergeFiles); |
0f389141 | 2142 | if (!merged) { |
2143 | Error("MergeOutputs", "Terminate() will NOT be executed"); | |
2144 | return kFALSE; | |
ff07ec61 | 2145 | } |
2146 | TFile *fileOpened = (TFile*)gROOT->GetListOfFiles()->FindObject(outputFile); | |
2147 | if (fileOpened) fileOpened->Close(); | |
c57f56b7 | 2148 | } |
0f389141 | 2149 | return kTRUE; |
c57f56b7 | 2150 | } |
2151 | ||
bb885a9e | 2152 | //______________________________________________________________________________ |
2153 | void AliAnalysisAlien::SetDefaultOutputs(Bool_t flag) | |
2154 | { | |
2155 | // Use the output files connected to output containers from the analysis manager | |
2156 | // rather than the files defined by SetOutputFiles | |
2157 | if (flag && !TObject::TestBit(AliAnalysisGrid::kDefaultOutputs)) | |
205b201f | 2158 | Info("SetDefaultOutputs", "Plugin will use the output files taken from analysis manager"); |
bb885a9e | 2159 | TObject::SetBit(AliAnalysisGrid::kDefaultOutputs, flag); |
2160 | } | |
2161 | ||
149d288c | 2162 | //______________________________________________________________________________ |
2163 | void AliAnalysisAlien::SetOutputFiles(const char *list) | |
2164 | { | |
2165 | // Manually set the output files list. | |
2166 | // Removes duplicates. Not allowed if default outputs are not disabled. | |
2167 | if (TObject::TestBit(AliAnalysisGrid::kDefaultOutputs)) { | |
2168 | Fatal("SetOutputFiles", "You have to explicitly call SetDefaultOutputs(kFALSE) to manually set output files."); | |
2169 | return; | |
2170 | } | |
2171 | Info("SetOutputFiles", "Output file list is set manually - you are on your own."); | |
2172 | fOutputFiles = ""; | |
2173 | TString slist = list; | |
2174 | if (slist.Contains("@")) Warning("SetOutputFiles","The plugin does not allow explicit SE's. Please use: SetNumberOfReplicas() instead."); | |
2175 | TObjArray *arr = slist.Tokenize(" "); | |
2176 | TObjString *os; | |
2177 | TIter next(arr); | |
2178 | TString sout; | |
2179 | while ((os=(TObjString*)next())) { | |
2180 | sout = os->GetString(); | |
2181 | if (sout.Index("@")>0) sout.Remove(sout.Index("@")); | |
2182 | if (fOutputFiles.Contains(sout)) continue; | |
2183 | if (!fOutputFiles.IsNull()) fOutputFiles += ","; | |
2184 | fOutputFiles += sout; | |
2185 | } | |
2186 | delete arr; | |
f790bc1b | 2187 | } |
149d288c | 2188 | |
2189 | //______________________________________________________________________________ | |
2190 | void AliAnalysisAlien::SetOutputArchive(const char *list) | |
2191 | { | |
2192 | // Manually set the output archive list. Free text - you are on your own... | |
2193 | // Not allowed if default outputs are not disabled. | |
2194 | if (TObject::TestBit(AliAnalysisGrid::kDefaultOutputs)) { | |
2195 | Fatal("SetOutputArchive", "You have to explicitly call SetDefaultOutputs(kFALSE) to manually set the output archives."); | |
2196 | return; | |
2197 | } | |
2198 | Info("SetOutputArchive", "Output archive is set manually - you are on your own."); | |
2199 | fOutputArchive = list; | |
2200 | } | |
2201 | ||
2202 | //______________________________________________________________________________ | |
2203 | void AliAnalysisAlien::SetPreferedSE(const char */*se*/) | |
2204 | { | |
2205 | // Setting a prefered output SE is not allowed anymore. | |
2206 | Warning("SetPreferedSE", "Setting a preferential SE is not allowed anymore via the plugin. Use SetNumberOfReplicas() and SetDefaultOutputs()"); | |
2207 | } | |
2208 | ||
5513444a | 2209 | //______________________________________________________________________________ |
2210 | Bool_t AliAnalysisAlien::StartAnalysis(Long64_t /*nentries*/, Long64_t /*firstEntry*/) | |
c57f56b7 | 2211 | { |
2212 | // Start remote grid analysis. | |
3bdcb562 | 2213 | AliAnalysisManager *mgr = AliAnalysisManager::GetAnalysisManager(); |
2214 | Bool_t testMode = TestBit(AliAnalysisGrid::kTest); | |
2215 | if (!mgr || !mgr->IsInitialized()) { | |
2216 | Error("StartAnalysis", "You need an initialized analysis manager for this"); | |
2217 | return kFALSE; | |
2218 | } | |
2219 | // Are we in PROOF mode ? | |
2220 | if (mgr->IsProofMode()) { | |
90d50a8c | 2221 | Info("StartAnalysis", "##### Starting PROOF analysis on cluster <%s> via the plugin #####", fProofCluster.Data()); |
3bdcb562 | 2222 | if (fProofCluster.IsNull()) { |
2223 | Error("StartAnalysis", "You need to specify the proof cluster name via SetProofCluster"); | |
2224 | return kFALSE; | |
2225 | } | |
2226 | if (fProofDataSet.IsNull() && !testMode) { | |
2227 | Error("StartAnalysis", "You need to specify a dataset using SetProofDataSet()"); | |
2228 | return kFALSE; | |
2229 | } | |
2230 | // Set the needed environment | |
2231 | gEnv->SetValue("XSec.GSI.DelegProxy","2"); | |
2232 | // Do we need to reset PROOF ? The success of the Reset operation cannot be checked | |
2233 | if (fProofReset && !testMode) { | |
2234 | if (fProofReset==1) { | |
2235 | Info("StartAnalysis", "Sending soft reset signal to proof cluster %s", fProofCluster.Data()); | |
2236 | gROOT->ProcessLine(Form("TProof::Reset(\"%s\", kFALSE);", fProofCluster.Data())); | |
2237 | } else { | |
2238 | Info("StartAnalysis", "Sending hard reset signal to proof cluster %s", fProofCluster.Data()); | |
2239 | gROOT->ProcessLine(Form("TProof::Reset(\"%s\", kTRUE);", fProofCluster.Data())); | |
2240 | } | |
2241 | Info("StartAnalysis", "Stopping the analysis. Please use SetProofReset(0) to resume."); | |
2242 | return kFALSE; | |
2243 | } | |
2244 | // Do we need to change the ROOT version ? The success of this cannot be checked. | |
2245 | if (!fRootVersionForProof.IsNull() && !testMode) { | |
2246 | gROOT->ProcessLine(Form("TProof::Mgr(\"%s\")->SetROOTVersion(\"%s\");", | |
2247 | fProofCluster.Data(), fRootVersionForProof.Data())); | |
2248 | } | |
2249 | // Connect to PROOF and check the status | |
2250 | Long_t proof = 0; | |
27734f0e | 2251 | TString sworkers; |
2252 | if (fNproofWorkersPerSlave) sworkers = Form("workers=%dx", fNproofWorkersPerSlave); | |
2253 | else if (fNproofWorkers) sworkers = Form("workers=%d", fNproofWorkers); | |
3bdcb562 | 2254 | if (!testMode) { |
27734f0e | 2255 | if (!sworkers.IsNull()) |
2256 | proof = gROOT->ProcessLine(Form("TProof::Open(\"%s\", \"%s\");", fProofCluster.Data(), sworkers.Data())); | |
3bdcb562 | 2257 | else |
2258 | proof = gROOT->ProcessLine(Form("TProof::Open(\"%s\");", fProofCluster.Data())); | |
2259 | } else { | |
2260 | proof = gROOT->ProcessLine("TProof::Open(\"\");"); | |
2261 | if (!proof) { | |
2262 | Error("StartAnalysis", "Could not start PROOF in test mode"); | |
2263 | return kFALSE; | |
2264 | } | |
2265 | } | |
2266 | if (!proof) { | |
2267 | Error("StartAnalysis", "Could not connect to PROOF cluster <%s>", fProofCluster.Data()); | |
2268 | return kFALSE; | |
2269 | } | |
27734f0e | 2270 | if (fNproofWorkersPerSlave*fNproofWorkers > 0) |
2271 | gROOT->ProcessLine(Form("gProof->SetParallel(%d);", fNproofWorkers)); | |
3bdcb562 | 2272 | // Is dataset existing ? |
2273 | if (!testMode) { | |
2274 | TString dataset = fProofDataSet; | |
2275 | Int_t index = dataset.Index("#"); | |
2276 | if (index>=0) dataset.Remove(index); | |
830acc4c | 2277 | // if (!gROOT->ProcessLine(Form("gProof->ExistsDataSet(\"%s\");",fProofDataSet.Data()))) { |
2278 | // Error("StartAnalysis", "Dataset %s not existing", fProofDataSet.Data()); | |
2279 | // return kFALSE; | |
2280 | // } | |
2281 | // Info("StartAnalysis", "Dataset %s found", dataset.Data()); | |
3bdcb562 | 2282 | } |
2283 | // Is ClearPackages() needed ? | |
2284 | if (TestSpecialBit(kClearPackages)) { | |
2285 | Info("StartAnalysis", "ClearPackages signal sent to PROOF. Use SetClearPackages(kFALSE) to reset this."); | |
2286 | gROOT->ProcessLine("gProof->ClearPackages();"); | |
2287 | } | |
2288 | // Is a given aliroot mode requested ? | |
2289 | TList optionsList; | |
830acc4c | 2290 | if (!fAliRootMode.IsNull()) { |
3bdcb562 | 2291 | TString alirootMode = fAliRootMode; |
2292 | if (alirootMode == "default") alirootMode = ""; | |
2293 | Info("StartAnalysis", "You are requesting AliRoot mode: %s", fAliRootMode.Data()); | |
2294 | optionsList.SetOwner(); | |
2295 | optionsList.Add(new TNamed("ALIROOT_MODE", alirootMode.Data())); | |
2296 | // Check the additional libs to be loaded | |
2297 | TString extraLibs; | |
2298 | if (!alirootMode.IsNull()) extraLibs = "ANALYSIS:ANALYSISalice"; | |
2299 | // Parse the extra libs for .so | |
2300 | if (fAdditionalLibs.Length()) { | |
2301 | TObjArray *list = fAdditionalLibs.Tokenize(" "); | |
2302 | TIter next(list); | |
2303 | TObjString *str; | |
2304 | while((str=(TObjString*)next()) && str->GetString().Contains(".so")) { | |
830acc4c | 2305 | TString stmp = str->GetName(); |
2306 | if (stmp.BeginsWith("lib")) stmp.Remove(0,3); | |
2307 | stmp.ReplaceAll(".so",""); | |
3bdcb562 | 2308 | if (!extraLibs.IsNull()) extraLibs += ":"; |
830acc4c | 2309 | extraLibs += stmp; |
3bdcb562 | 2310 | } |
2311 | if (list) delete list; | |
2312 | } | |
2313 | if (!extraLibs.IsNull()) optionsList.Add(new TNamed("ALIROOT_EXTRA_LIBS",extraLibs.Data())); | |
830acc4c | 2314 | // Check extra includes |
2315 | if (!fIncludePath.IsNull()) { | |
2316 | TString includePath = fIncludePath; | |
2317 | includePath.ReplaceAll(" ",":"); | |
2318 | includePath.Strip(TString::kTrailing, ':'); | |
2319 | Info("StartAnalysis", "Adding extra includes: %s",includePath.Data()); | |
2320 | optionsList.Add(new TNamed("ALIROOT_EXTRA_INCLUDES",includePath.Data())); | |
2321 | } | |
27734f0e | 2322 | // Check if connection to grid is requested |
2323 | if (TestSpecialBit(kProofConnectGrid)) | |
2324 | optionsList.Add(new TNamed("ALIROOT_ENABLE_ALIEN", "1")); | |
830acc4c | 2325 | // Enable AliRoot par |
2326 | if (testMode) { | |
2327 | // Enable proof lite package | |
2328 | TString alirootLite = gSystem->ExpandPathName("$ALICE_ROOT/ANALYSIS/macros/AliRootProofLite.par"); | |
2329 | for (Int_t i=0; i<optionsList.GetSize(); i++) { | |
2330 | TNamed *obj = (TNamed*)optionsList.At(i); | |
2331 | printf("%s %s\n", obj->GetName(), obj->GetTitle()); | |
2332 | } | |
2333 | if (!gROOT->ProcessLine(Form("gProof->UploadPackage(\"%s\");",alirootLite.Data())) | |
2334 | && !gROOT->ProcessLine(Form("gProof->EnablePackage(\"%s\", (TList*)0x%lx);",alirootLite.Data(),(ULong_t)&optionsList))) { | |
2335 | Info("StartAnalysis", "AliRootProofLite enabled"); | |
2336 | } else { | |
2337 | Error("StartAnalysis", "There was an error trying to enable package AliRootProofLite.par"); | |
2338 | return kFALSE; | |
2339 | } | |
2340 | } else { | |
2341 | if (gROOT->ProcessLine(Form("gProof->EnablePackage(\"VO_ALICE@AliRoot::%s\", (TList*)0x%lx);", | |
2342 | fAliROOTVersion.Data(), (ULong_t)&optionsList))) { | |
2343 | Error("StartAnalysis", "There was an error trying to enable package VO_ALICE@AliRoot::%s", fAliROOTVersion.Data()); | |
2344 | return kFALSE; | |
2345 | } | |
27734f0e | 2346 | } |
3bdcb562 | 2347 | } else { |
2348 | if (fAdditionalLibs.Contains(".so") && !testMode) { | |
2349 | Error("StartAnalysis", "You request additional libs to be loaded but did not enabled any AliRoot mode. Please refer to: \ | |
2350 | \n http://aaf.cern.ch/node/83 and use a parameter for SetAliRootMode()"); | |
2351 | return kFALSE; | |
2352 | } | |
2353 | } | |
2354 | // Enable par files if requested | |
2355 | if (fPackages && fPackages->GetEntries()) { | |
2356 | TIter next(fPackages); | |
2357 | TObject *package; | |
2358 | while ((package=next())) { | |
2359 | if (gROOT->ProcessLine(Form("gProof->UploadPackage(\"%s\");", package->GetName()))) { | |
27734f0e | 2360 | if (gROOT->ProcessLine(Form("gProof->EnablePackage(\"%s\",kTRUE);", package->GetName()))) { |
3bdcb562 | 2361 | Error("StartAnalysis", "There was an error trying to enable package %s", package->GetName()); |
2362 | return kFALSE; | |
2363 | } | |
2364 | } else { | |
2365 | Error("StartAnalysis", "There was an error trying to upload package %s", package->GetName()); | |
2366 | return kFALSE; | |
2367 | } | |
2368 | } | |
2369 | } | |
2370 | // Do we need to load analysis source files ? | |
2371 | // NOTE: don't load on client since this is anyway done by the user to attach his task. | |
2372 | if (fAnalysisSource.Length()) { | |
2373 | TObjArray *list = fAnalysisSource.Tokenize(" "); | |
2374 | TIter next(list); | |
2375 | TObjString *str; | |
2376 | while((str=(TObjString*)next())) { | |
2377 | gROOT->ProcessLine(Form("gProof->Load(\"%s+g\", kTRUE);", str->GetName())); | |
2378 | } | |
2379 | if (list) delete list; | |
2380 | } | |
830acc4c | 2381 | if (testMode) { |
2382 | // Register dataset to proof lite. | |
2383 | if (fFileForTestMode.IsNull()) { | |
2384 | Error("GetChainForTestMode", "For proof test mode please use SetFileForTestMode() pointing to a file that contains data file locations."); | |
2385 | return kFALSE; | |
2386 | } | |
2387 | if (gSystem->AccessPathName(fFileForTestMode)) { | |
2388 | Error("GetChainForTestMode", "File not found: %s", fFileForTestMode.Data()); | |
2389 | return kFALSE; | |
2390 | } | |
2391 | TFileCollection *coll = new TFileCollection(); | |
2392 | coll->AddFromFile(fFileForTestMode); | |
27734f0e | 2393 | gROOT->ProcessLine(Form("gProof->RegisterDataSet(\"test_collection\", (TFileCollection*)0x%lx, \"OV\");", (ULong_t)coll)); |
2394 | gROOT->ProcessLine("gProof->ShowDataSets()"); | |
830acc4c | 2395 | } |
3bdcb562 | 2396 | return kTRUE; |
2397 | } | |
c57f56b7 | 2398 | |
43da816a | 2399 | // Check if output files have to be taken from the analysis manager |
2400 | if (TestBit(AliAnalysisGrid::kDefaultOutputs)) { | |
f790bc1b | 2401 | // Add output files and AOD files |
2402 | fOutputFiles = GetListOfFiles("outaod"); | |
c07b9ce2 | 2403 | // Add extra files registered to the analysis manager |
f790bc1b | 2404 | TString extra = GetListOfFiles("ext"); |
2405 | if (!extra.IsNull()) { | |
149d288c | 2406 | extra.ReplaceAll(".root", "*.root"); |
f790bc1b | 2407 | if (!fOutputFiles.IsNull()) fOutputFiles += ","; |
149d288c | 2408 | fOutputFiles += extra; |
84fcd93f | 2409 | } |
149d288c | 2410 | // Compose the output archive. |
2411 | fOutputArchive = "log_archive.zip:std*@disk=1 "; | |
2412 | fOutputArchive += Form("root_archive.zip:%s@disk=%d",fOutputFiles.Data(),fNreplicas); | |
43da816a | 2413 | } |
f7b1cbc2 | 2414 | // if (!fCloseSE.Length()) fCloseSE = gSystem->Getenv("alien_CLOSE_SE"); |
c57f56b7 | 2415 | if (TestBit(AliAnalysisGrid::kOffline)) { |
2416 | Info("StartAnalysis","\n##### OFFLINE MODE ##### Files to be used in GRID are produced but not copied \ | |
2417 | \n there nor any job run. You can revise the JDL and analysis \ | |
2418 | \n macro then run the same in \"submit\" mode."); | |
2419 | } else if (TestBit(AliAnalysisGrid::kTest)) { | |
2420 | Info("StartAnalysis","\n##### LOCAL MODE ##### Your analysis will be run locally on a subset of the requested \ | |
2421 | \n dataset."); | |
2422 | } else if (TestBit(AliAnalysisGrid::kSubmit)) { | |
2423 | Info("StartAnalysis","\n##### SUBMIT MODE ##### Files required by your analysis are copied to your grid working \ | |
2424 | \n space and job submitted."); | |
2425 | } else if (TestBit(AliAnalysisGrid::kMerge)) { | |
2426 | Info("StartAnalysis","\n##### MERGE MODE ##### The registered outputs of the analysis will be merged"); | |
0f389141 | 2427 | if (fMergeViaJDL) CheckInputData(); |
5513444a | 2428 | return kTRUE; |
c57f56b7 | 2429 | } else { |
2430 | Info("StartAnalysis","\n##### FULL ANALYSIS MODE ##### Producing needed files and submitting your analysis job..."); | |
2431 | } | |
2432 | ||
348be253 | 2433 | Print(); |
c57f56b7 | 2434 | if (!Connect()) { |
2435 | Error("StartAnalysis", "Cannot start grid analysis without grid connection"); | |
5513444a | 2436 | return kFALSE; |
16a4353c | 2437 | } |
d3b18c4c | 2438 | if (IsCheckCopy() && gGrid) CheckFileCopy(gGrid->GetHomeDirectory()); |
c57f56b7 | 2439 | if (!CheckInputData()) { |
2440 | Error("StartAnalysis", "There was an error in preprocessing your requested input data"); | |
5513444a | 2441 | return kFALSE; |
c57f56b7 | 2442 | } |
d3339be3 | 2443 | if (!CreateDataset(fDataPattern)) { |
2444 | TString serror; | |
2445 | if (!fRunNumbers.Length() && !fRunRange[0]) serror = Form("path to data directory: <%s>", fGridDataDir.Data()); | |
2446 | if (fRunNumbers.Length()) serror = "run numbers"; | |
2447 | if (fRunRange[0]) serror = Form("run range [%d, %d]", fRunRange[0], fRunRange[1]); | |
2448 | serror += Form("\n or data pattern <%s>", fDataPattern.Data()); | |
2449 | Error("StartAnalysis", "No data to process. Please fix %s in your plugin configuration.", serror.Data()); | |
2450 | return kFALSE; | |
2451 | } | |
c57f56b7 | 2452 | WriteAnalysisFile(); |
2453 | WriteAnalysisMacro(); | |
2454 | WriteExecutable(); | |
2455 | WriteValidationScript(); | |
0f389141 | 2456 | if (fMergeViaJDL) { |
2457 | WriteMergingMacro(); | |
2458 | WriteMergeExecutable(); | |
2459 | WriteValidationScript(kTRUE); | |
2460 | } | |
5513444a | 2461 | if (!CreateJDL()) return kFALSE; |
2462 | if (TestBit(AliAnalysisGrid::kOffline)) return kFALSE; | |
3bdcb562 | 2463 | if (testMode) { |
c57f56b7 | 2464 | // Locally testing the analysis |
2465 | Info("StartAnalysis", "\n_______________________________________________________________________ \ | |
2466 | \n Running analysis script in a daughter shell as on a worker node \ | |
2467 | \n_______________________________________________________________________"); | |
149d288c | 2468 | TObjArray *list = fOutputFiles.Tokenize(","); |
c57f56b7 | 2469 | TIter next(list); |
2470 | TObjString *str; | |
a2f5fc01 | 2471 | TString outputFile; |
c57f56b7 | 2472 | while((str=(TObjString*)next())) { |
a2f5fc01 | 2473 | outputFile = str->GetString(); |
2474 | Int_t index = outputFile.Index("@"); | |
2475 | if (index > 0) outputFile.Remove(index); | |
2476 | if (!gSystem->AccessPathName(outputFile)) gSystem->Exec(Form("rm %s", outputFile.Data())); | |
c57f56b7 | 2477 | } |
2478 | delete list; | |
2479 | gSystem->Exec(Form("bash %s 2>stderr", fExecutable.Data())); | |
f50e4bc8 | 2480 | gSystem->Exec(Form("bash %s",fValidationScript.Data())); |
c57f56b7 | 2481 | // gSystem->Exec("cat stdout"); |
5513444a | 2482 | return kFALSE; |
c57f56b7 | 2483 | } |
5513444a | 2484 | // Check if submitting is managed by LPM manager |
a3e84053 | 2485 | if (fProductionMode) { |
5513444a | 2486 | TString prodfile = fJDLName; |
2487 | prodfile.ReplaceAll(".jdl", ".prod"); | |
2488 | WriteProductionFile(prodfile); | |
2489 | Info("StartAnalysis", "Job submitting is managed by LPM. Rerun in terminate mode after jobs finished."); | |
2490 | return kFALSE; | |
2491 | } | |
a8739e8a | 2492 | // Submit AliEn job(s) |
d2a409b2 | 2493 | gGrid->Cd(fGridOutputDir); |
a8739e8a | 2494 | TGridResult *res; |
c57f56b7 | 2495 | TString jobID = ""; |
d2a409b2 | 2496 | if (!fRunNumbers.Length() && !fRunRange[0]) { |
dd74a515 | 2497 | // Submit a given xml or a set of runs |
a8739e8a | 2498 | res = gGrid->Command(Form("submit %s", fJDLName.Data())); |
84fcd93f | 2499 | printf("*************************** %s\n",Form("submit %s", fJDLName.Data())); |
a8739e8a | 2500 | if (res) { |
2501 | const char *cjobId = res->GetKey(0,"jobId"); | |
2502 | if (!cjobId) { | |
a03be957 | 2503 | gGrid->Stdout(); |
2504 | gGrid->Stderr(); | |
a8739e8a | 2505 | Error("StartAnalysis", "Your JDL %s could not be submitted", fJDLName.Data()); |
5513444a | 2506 | return kFALSE; |
a8739e8a | 2507 | } else { |
2508 | Info("StartAnalysis", "\n_______________________________________________________________________ \ | |
2509 | \n##### Your JDL %s was successfully submitted. \nTHE JOB ID IS: %s \ | |
2510 | \n_______________________________________________________________________", | |
2511 | fJDLName.Data(), cjobId); | |
2512 | jobID = cjobId; | |
2513 | } | |
2514 | delete res; | |
a03be957 | 2515 | } else { |
2516 | Error("StartAnalysis", "No grid result after submission !!! Bailing out..."); | |
2517 | return kFALSE; | |
a8739e8a | 2518 | } |
2519 | } else { | |
d2a409b2 | 2520 | // Submit for a range of enumeration of runs. |
a03be957 | 2521 | if (!Submit()) return kFALSE; |
c57f56b7 | 2522 | } |
a8739e8a | 2523 | |
c57f56b7 | 2524 | Info("StartAnalysis", "\n#### STARTING AN ALIEN SHELL FOR YOU. EXIT WHEN YOUR JOB %s HAS FINISHED. #### \ |
2525 | \n You may exit at any time and terminate the job later using the option <terminate> \ | |
2526 | \n ##################################################################################", jobID.Data()); | |
bb885a9e | 2527 | gSystem->Exec("aliensh"); |
5513444a | 2528 | return kTRUE; |
c57f56b7 | 2529 | } |
2530 | ||
f790bc1b | 2531 | //______________________________________________________________________________ |
2532 | const char *AliAnalysisAlien::GetListOfFiles(const char *type) | |
2533 | { | |
2534 | // Get a comma-separated list of output files of the requested type. | |
2535 | // Type can be (case unsensitive): | |
2536 | // aod - list of aod files (std, extensions and filters) | |
2537 | // out - list of output files connected to containers (but not aod's or extras) | |
2538 | // ext - list of extra files registered to the manager | |
2539 | // ter - list of files produced in terminate | |
2540 | static TString files; | |
2541 | files = ""; | |
2542 | TString stype = type; | |
2543 | stype.ToLower(); | |
2544 | TString aodfiles, extra; | |
2545 | AliAnalysisManager *mgr = AliAnalysisManager::GetAnalysisManager(); | |
2546 | if (!mgr) { | |
2547 | ::Error("GetListOfFiles", "Cannot call this without analysis manager"); | |
2548 | return files.Data(); | |
2549 | } | |
2550 | if (mgr->GetOutputEventHandler()) { | |
2551 | aodfiles = mgr->GetOutputEventHandler()->GetOutputFileName(); | |
2552 | TString extraaod = mgr->GetOutputEventHandler()->GetExtraOutputs(); | |
2553 | if (!extraaod.IsNull()) { | |
2554 | aodfiles += ","; | |
2555 | aodfiles += extraaod; | |
2556 | } | |
2557 | } | |
2558 | if (stype.Contains("aod")) { | |
2559 | files = aodfiles; | |
2560 | if (stype == "aod") return files.Data(); | |
2561 | } | |
2562 | // Add output files that are not in the list of AOD files | |
2563 | TString outputfiles = ""; | |
2564 | TIter next(mgr->GetOutputs()); | |
2565 | AliAnalysisDataContainer *output; | |
2566 | const char *filename = 0; | |
2567 | while ((output=(AliAnalysisDataContainer*)next())) { | |
2568 | filename = output->GetFileName(); | |
2569 | if (!(strcmp(filename, "default"))) continue; | |
2570 | if (outputfiles.Contains(filename)) continue; | |
2571 | if (aodfiles.Contains(filename)) continue; | |
2572 | if (!outputfiles.IsNull()) outputfiles += ","; | |
2573 | outputfiles += filename; | |
2574 | } | |
2575 | if (stype.Contains("out")) { | |
2576 | if (!files.IsNull()) files += ","; | |
2577 | files += outputfiles; | |
2578 | if (stype == "out") return files.Data(); | |
2579 | } | |
2580 | // Add extra files registered to the analysis manager | |
2581 | TString sextra; | |
2582 | extra = mgr->GetExtraFiles(); | |
2583 | if (!extra.IsNull()) { | |
2584 | extra.Strip(); | |
2585 | extra.ReplaceAll(" ", ","); | |
2586 | TObjArray *fextra = extra.Tokenize(","); | |
2587 | TIter nextx(fextra); | |
2588 | TObject *obj; | |
2589 | while ((obj=nextx())) { | |
2590 | if (aodfiles.Contains(obj->GetName())) continue; | |
2591 | if (outputfiles.Contains(obj->GetName())) continue; | |
2592 | if (sextra.Contains(obj->GetName())) continue; | |
2593 | if (!sextra.IsNull()) sextra += ","; | |
2594 | sextra += obj->GetName(); | |
2595 | } | |
2596 | delete fextra; | |
2597 | if (stype.Contains("ext")) { | |
2598 | if (!files.IsNull()) files += ","; | |
2599 | files += sextra; | |
2600 | } | |
2601 | } | |
2602 | if (stype == "ext") return files.Data(); | |
2603 | TString termfiles; | |
2604 | if (!fTerminateFiles.IsNull()) { | |
2605 | fTerminateFiles.Strip(); | |
2606 | fTerminateFiles.ReplaceAll(" ",","); | |
9c939f2b | 2607 | TObjArray *fextra = fTerminateFiles.Tokenize(","); |
f790bc1b | 2608 | TIter nextx(fextra); |
2609 | TObject *obj; | |
2610 | while ((obj=nextx())) { | |
2611 | if (aodfiles.Contains(obj->GetName())) continue; | |
2612 | if (outputfiles.Contains(obj->GetName())) continue; | |
2613 | if (termfiles.Contains(obj->GetName())) continue; | |
2614 | if (sextra.Contains(obj->GetName())) continue; | |
2615 | if (!termfiles.IsNull()) termfiles += ","; | |
2616 | termfiles += obj->GetName(); | |
2617 | } | |
2618 | delete fextra; | |
2619 | } | |
2620 | if (stype.Contains("ter")) { | |
2621 | if (!files.IsNull() && !termfiles.IsNull()) { | |
2622 | files += ","; | |
2623 | files += termfiles; | |
2624 | } | |
2625 | } | |
2626 | return files.Data(); | |
2627 | } | |
2628 | ||
d2a409b2 | 2629 | //______________________________________________________________________________ |
a03be957 | 2630 | Bool_t AliAnalysisAlien::Submit() |
d2a409b2 | 2631 | { |
2632 | // Submit all master jobs. | |
2633 | Int_t nmasterjobs = fInputFiles->GetEntries(); | |
2634 | Long_t tshoot = gSystem->Now(); | |
a03be957 | 2635 | if (!fNsubmitted && !SubmitNext()) return kFALSE; |
d2a409b2 | 2636 | while (fNsubmitted < nmasterjobs) { |
2637 | Long_t now = gSystem->Now(); | |
2638 | if ((now-tshoot)>30000) { | |
2639 | tshoot = now; | |
a03be957 | 2640 | if (!SubmitNext()) return kFALSE; |
d2a409b2 | 2641 | } |
2642 | } | |
a03be957 | 2643 | return kTRUE; |
d2a409b2 | 2644 | } |
2645 | ||
0f389141 | 2646 | //______________________________________________________________________________ |
a03be957 | 2647 | Bool_t AliAnalysisAlien::SubmitMerging() |
0f389141 | 2648 | { |
2649 | // Submit all merging jobs. | |
2650 | if (!fGridOutputDir.Contains("/")) fGridOutputDir = Form("/%s/%s/%s", gGrid->GetHomeDirectory(), fGridWorkingDir.Data(), fGridOutputDir.Data()); | |
2651 | gGrid->Cd(fGridOutputDir); | |
2652 | TString mergeJDLName = fExecutable; | |
2653 | mergeJDLName.ReplaceAll(".sh", "_merge.jdl"); | |
2654 | Int_t ntosubmit = fInputFiles->GetEntries(); | |
0f389141 | 2655 | for (Int_t i=0; i<ntosubmit; i++) { |
f866cba5 | 2656 | TString runOutDir = gSystem->BaseName(fInputFiles->At(i)->GetName()); |
2657 | runOutDir.ReplaceAll(".xml", ""); | |
7c2cd90a | 2658 | if (fOutputToRunNo) { |
2659 | // The output directory is the run number | |
2660 | printf("### Submitting merging job for run <%s>\n", runOutDir.Data()); | |
2661 | runOutDir = Form("%s/%s", fGridOutputDir.Data(), runOutDir.Data()); | |
2662 | } else { | |
2663 | // The output directory is the master number in 3 digits format | |
2664 | printf("### Submitting merging job for master <%03d>\n", i); | |
2665 | runOutDir = Form("%s/%03d",fGridOutputDir.Data(), i); | |
2666 | } | |
2667 | // Check now the number of merging stages. | |
2b222f7c | 2668 | TObjArray *list = fOutputFiles.Tokenize(","); |
2669 | TIter next(list); | |
2670 | TObjString *str; | |
2671 | TString outputFile; | |
2672 | while((str=(TObjString*)next())) { | |
2673 | outputFile = str->GetString(); | |
2674 | Int_t index = outputFile.Index("@"); | |
2675 | if (index > 0) outputFile.Remove(index); | |
2676 | if (!fMergeExcludes.Contains(outputFile)) break; | |
2677 | } | |
2678 | delete list; | |
7c2cd90a | 2679 | Bool_t done = CheckMergedFiles(outputFile, runOutDir, fMaxMergeFiles, kTRUE, mergeJDLName); |
2680 | if (!done) return kFALSE; | |
0f389141 | 2681 | } |
a03be957 | 2682 | if (!ntosubmit) return kTRUE; |
0f389141 | 2683 | Info("StartAnalysis", "\n#### STARTING AN ALIEN SHELL FOR YOU. EXIT WHEN YOUR MERGING JOBS HAVE FINISHED. #### \ |
2684 | \n You may exit at any time and terminate the job later using the option <terminate> but disabling SetMergeViaJDL\ | |
2685 | \n ##################################################################################"); | |
2686 | gSystem->Exec("aliensh"); | |
a03be957 | 2687 | return kTRUE; |
0f389141 | 2688 | } |
2689 | ||
d2a409b2 | 2690 | //______________________________________________________________________________ |
a03be957 | 2691 | Bool_t AliAnalysisAlien::SubmitNext() |
d2a409b2 | 2692 | { |
08d5b699 | 2693 | // Submit next bunch of master jobs if the queue is free. The first master job is |
2694 | // submitted right away, while the next will not be unless the previous was split. | |
2695 | // The plugin will not submit new master jobs if there are more that 500 jobs in | |
2696 | // waiting phase. | |
d2a409b2 | 2697 | static Bool_t iscalled = kFALSE; |
2698 | static Int_t firstmaster = 0; | |
2699 | static Int_t lastmaster = 0; | |
2700 | static Int_t npermaster = 0; | |
a03be957 | 2701 | if (iscalled) return kTRUE; |
d2a409b2 | 2702 | iscalled = kTRUE; |
2703 | Int_t nrunning=0, nwaiting=0, nerror=0, ndone=0; | |
2704 | Int_t ntosubmit = 0; | |
2705 | TGridResult *res; | |
2706 | TString jobID = ""; | |
3bdcb562 | 2707 | Int_t nmasterjobs = fInputFiles->GetEntries(); |
2708 | if (!fNsubmitted) { | |
2709 | ntosubmit = 1; | |
2710 | if (!IsUseSubmitPolicy()) { | |
90d50a8c | 2711 | if (nmasterjobs>5) |
3bdcb562 | 2712 | Info("SubmitNext","### Warning submit policy not used ! Submitting too many jobs at a time may be prohibitted. \ |
2713 | \n### You can use SetUseSubmitPolicy() to enable if you have problems."); | |
2714 | ntosubmit = nmasterjobs; | |
2715 | } | |
2716 | } else { | |
d2a409b2 | 2717 | TString status = GetJobStatus(firstmaster, lastmaster, nrunning, nwaiting, nerror, ndone); |
84fcd93f | 2718 | printf("=== master %d: %s\n", lastmaster, status.Data()); |
d2a409b2 | 2719 | // If last master not split, just return |
a03be957 | 2720 | if (status != "SPLIT") {iscalled = kFALSE; return kTRUE;} |
d2a409b2 | 2721 | // No more than 100 waiting jobs |
08d5b699 | 2722 | if (nwaiting>500) {iscalled = kFALSE; return kTRUE;} |
d2a409b2 | 2723 | npermaster = (nrunning+nwaiting+nerror+ndone)/fNsubmitted; |
08d5b699 | 2724 | if (npermaster) ntosubmit = (500-nwaiting)/npermaster; |
7586eedc | 2725 | if (!ntosubmit) ntosubmit = 1; |
84fcd93f | 2726 | printf("=== WAITING(%d) RUNNING(%d) DONE(%d) OTHER(%d) NperMaster=%d => to submit %d jobs\n", |
d2a409b2 | 2727 | nwaiting, nrunning, ndone, nerror, npermaster, ntosubmit); |
2728 | } | |
d2a409b2 | 2729 | for (Int_t i=0; i<ntosubmit; i++) { |
2730 | // Submit for a range of enumeration of runs. | |
a03be957 | 2731 | if (fNsubmitted>=nmasterjobs) {iscalled = kFALSE; return kTRUE;} |
d2a409b2 | 2732 | TString query; |
cd11251e | 2733 | TString runOutDir = gSystem->BaseName(fInputFiles->At(fNsubmitted)->GetName()); |
2734 | runOutDir.ReplaceAll(".xml", ""); | |
2735 | if (fOutputToRunNo) | |
2736 | query = Form("submit %s %s %s", fJDLName.Data(), fInputFiles->At(fNsubmitted)->GetName(), runOutDir.Data()); | |
2737 | else | |
2738 | query = Form("submit %s %s %03d", fJDLName.Data(), fInputFiles->At(fNsubmitted)->GetName(), fNsubmitted); | |
84fcd93f | 2739 | printf("********* %s\n",query.Data()); |
d2a409b2 | 2740 | res = gGrid->Command(query); |
2741 | if (res) { | |
98ca124f | 2742 | TString cjobId1 = res->GetKey(0,"jobId"); |
2743 | if (!cjobId1.Length()) { | |
d2a409b2 | 2744 | iscalled = kFALSE; |
a03be957 | 2745 | gGrid->Stdout(); |
2746 | gGrid->Stderr(); | |
2747 | Error("StartAnalysis", "Your JDL %s could not be submitted. The message was:", fJDLName.Data()); | |
2748 | return kFALSE; | |
d2a409b2 | 2749 | } else { |
2750 | Info("StartAnalysis", "\n_______________________________________________________________________ \ | |
2751 | \n##### Your JDL %s submitted (%d to go). \nTHE JOB ID IS: %s \ | |
2752 | \n_______________________________________________________________________", | |
98ca124f | 2753 | fJDLName.Data(), nmasterjobs-fNsubmitted-1, cjobId1.Data()); |
d2a409b2 | 2754 | jobID += cjobId1; |
2755 | jobID += " "; | |
98ca124f | 2756 | lastmaster = cjobId1.Atoi(); |
d2a409b2 | 2757 | if (!firstmaster) firstmaster = lastmaster; |
2758 | fNsubmitted++; | |
2759 | } | |
2760 | delete res; | |
a03be957 | 2761 | } else { |
2762 | Error("StartAnalysis", "No grid result after submission !!! Bailing out..."); | |
2763 | return kFALSE; | |
d2a409b2 | 2764 | } |
2765 | } | |
2766 | iscalled = kFALSE; | |
a03be957 | 2767 | return kTRUE; |
d2a409b2 | 2768 | } |
2769 | ||
c57f56b7 | 2770 | //______________________________________________________________________________ |
2771 | void AliAnalysisAlien::WriteAnalysisFile() | |
2772 | { | |
f10e8481 | 2773 | // Write current analysis manager into the file <analysisFile> |
2774 | TString analysisFile = fExecutable; | |
2775 | analysisFile.ReplaceAll(".sh", ".root"); | |
c57f56b7 | 2776 | if (!TestBit(AliAnalysisGrid::kSubmit)) { |
2777 | AliAnalysisManager *mgr = AliAnalysisManager::GetAnalysisManager(); | |
2778 | if (!mgr || !mgr->IsInitialized()) { | |
2779 | Error("WriteAnalysisFile", "You need an initialized analysis manager for this"); | |
2780 | return; | |
2781 | } | |
2782 | // Check analysis type | |
2783 | TObject *handler; | |
2784 | if (mgr->GetMCtruthEventHandler()) TObject::SetBit(AliAnalysisGrid::kUseMC); | |
2785 | handler = (TObject*)mgr->GetInputEventHandler(); | |
2786 | if (handler) { | |
2787 | if (handler->InheritsFrom("AliESDInputHandler")) TObject::SetBit(AliAnalysisGrid::kUseESD); | |
2788 | if (handler->InheritsFrom("AliAODInputHandler")) TObject::SetBit(AliAnalysisGrid::kUseAOD); | |
2789 | } | |
2790 | TDirectory *cdir = gDirectory; | |
f10e8481 | 2791 | TFile *file = TFile::Open(analysisFile, "RECREATE"); |
c57f56b7 | 2792 | if (file) { |
e16a394c | 2793 | // Skip task Terminate calls for the grid job (but not in test mode, where we want to check also the terminate mode |
2794 | if (!TestBit(AliAnalysisGrid::kTest)) mgr->SetSkipTerminate(kTRUE); | |
fe2d7fc2 | 2795 | // Unless merging makes no sense |
2796 | if (IsSingleOutput()) mgr->SetSkipTerminate(kFALSE); | |
c57f56b7 | 2797 | mgr->Write(); |
2798 | delete file; | |
fe2d7fc2 | 2799 | // Enable termination for local jobs |
2800 | mgr->SetSkipTerminate(kFALSE); | |
c57f56b7 | 2801 | } |
2802 | if (cdir) cdir->cd(); | |
f10e8481 | 2803 | Info("WriteAnalysisFile", "\n##### Analysis manager: %s wrote to file <%s>\n", mgr->GetName(),analysisFile.Data()); |
c57f56b7 | 2804 | } |
2805 | Bool_t copy = kTRUE; | |
d3b18c4c | 2806 | if (fProductionMode || TestBit(AliAnalysisGrid::kOffline) || TestBit(AliAnalysisGrid::kTest)) copy = kFALSE; |
c57f56b7 | 2807 | if (copy) { |
2808 | CdWork(); | |
2809 | TString workdir = gGrid->GetHomeDirectory(); | |
2810 | workdir += fGridWorkingDir; | |
d3b18c4c | 2811 | Info("WriteAnalysisFile", "\n##### Copying file <%s> containing your initialized analysis manager to your alien workspace", analysisFile.Data()); |
f10e8481 | 2812 | if (FileExists(analysisFile)) gGrid->Rm(analysisFile); |
2813 | TFile::Cp(Form("file:%s",analysisFile.Data()), Form("alien://%s/%s", workdir.Data(),analysisFile.Data())); | |
c57f56b7 | 2814 | } |
2815 | } | |
2816 | ||
2817 | //______________________________________________________________________________ | |
2818 | void AliAnalysisAlien::WriteAnalysisMacro() | |
2819 | { | |
2820 | // Write the analysis macro that will steer the analysis in grid mode. | |
2821 | if (!TestBit(AliAnalysisGrid::kSubmit)) { | |
2822 | ofstream out; | |
2823 | out.open(fAnalysisMacro.Data(), ios::out); | |
2824 | if (!out.good()) { | |
2825 | Error("WriteAnalysisMacro", "could not open file %s for writing", fAnalysisMacro.Data()); | |
2826 | return; | |
2827 | } | |
5b273635 | 2828 | Bool_t hasSTEERBase = kFALSE; |
2829 | Bool_t hasESD = kFALSE; | |
2830 | Bool_t hasAOD = kFALSE; | |
2831 | Bool_t hasANALYSIS = kFALSE; | |
2832 | Bool_t hasANALYSISalice = kFALSE; | |
2833 | Bool_t hasCORRFW = kFALSE; | |
c57f56b7 | 2834 | TString func = fAnalysisMacro; |
2835 | TString type = "ESD"; | |
2836 | TString comment = "// Analysis using "; | |
2837 | if (TObject::TestBit(AliAnalysisGrid::kUseESD)) comment += "ESD"; | |
2838 | if (TObject::TestBit(AliAnalysisGrid::kUseAOD)) { | |
2839 | type = "AOD"; | |
2840 | comment += "AOD"; | |
2841 | } | |
0df6ccf2 | 2842 | if (type!="AOD" && fFriendChainName!="") { |
2843 | Error("WriteAnalysisMacro", "Friend chain can be attached only to AOD"); | |
2844 | return; | |
2845 | } | |
c57f56b7 | 2846 | if (TObject::TestBit(AliAnalysisGrid::kUseMC)) comment += "/MC"; |
2847 | else comment += " data"; | |
2848 | out << "const char *anatype = \"" << type.Data() << "\";" << endl << endl; | |
2849 | func.ReplaceAll(".C", ""); | |
2850 | out << "void " << func.Data() << "()" << endl; | |
2851 | out << "{" << endl; | |
2852 | out << comment.Data() << endl; | |
2853 | out << "// Automatically generated analysis steering macro executed in grid subjobs" << endl << endl; | |
f7498086 | 2854 | out << " TStopwatch timer;" << endl; |
2855 | out << " timer.Start();" << endl << endl; | |
13f0c00b | 2856 | // Change temp directory to current one |
2857 | out << "// Set temporary merging directory to current one" << endl; | |
2858 | out << " gSystem->Setenv(\"TMPDIR\", gSystem->pwd());" << endl << endl; | |
f790bc1b | 2859 | if (!fExecutableCommand.Contains("aliroot")) { |
2860 | out << "// load base root libraries" << endl; | |
2861 | out << " gSystem->Load(\"libTree\");" << endl; | |
2862 | out << " gSystem->Load(\"libGeom\");" << endl; | |
2863 | out << " gSystem->Load(\"libVMC\");" << endl; | |
2864 | out << " gSystem->Load(\"libPhysics\");" << endl << endl; | |
2865 | out << " gSystem->Load(\"libMinuit\");" << endl << endl; | |
2866 | } | |
d5c6455a | 2867 | if (fAdditionalRootLibs.Length()) { |
47a4137d | 2868 | // in principle libtree /lib geom libvmc etc. can go into this list, too |
2869 | out << "// Add aditional libraries" << endl; | |
2870 | TObjArray *list = fAdditionalRootLibs.Tokenize(" "); | |
2871 | TIter next(list); | |
2872 | TObjString *str; | |
2873 | while((str=(TObjString*)next())) { | |
2874 | if (str->GetString().Contains(".so")) | |
2875 | out << " gSystem->Load(\"" << str->GetString().Data() << "\");" << endl; | |
d5c6455a | 2876 | } |
47a4137d | 2877 | if (list) delete list; |
d5c6455a | 2878 | } |
47a4137d | 2879 | out << "// include path" << endl; |
2880 | if (fIncludePath.Length()) out << " gSystem->AddIncludePath(\"" << fIncludePath.Data() << "\");" << endl; | |
2881 | out << " gSystem->AddIncludePath(\"-I$ALICE_ROOT/include\");" << endl << endl; | |
57377eb5 | 2882 | out << "// Load analysis framework libraries" << endl; |
652561d5 | 2883 | TString setupPar = "AliAnalysisAlien::SetupPar"; |
4e5c5506 | 2884 | if (!fPackages) { |
f790bc1b | 2885 | if (!fExecutableCommand.Contains("aliroot")) { |
2886 | out << " gSystem->Load(\"libSTEERBase\");" << endl; | |
2887 | out << " gSystem->Load(\"libESD\");" << endl; | |
2888 | out << " gSystem->Load(\"libAOD\");" << endl; | |
2889 | } | |
4e5c5506 | 2890 | out << " gSystem->Load(\"libANALYSIS\");" << endl; |
57377eb5 | 2891 | out << " gSystem->Load(\"libANALYSISalice\");" << endl; |
2892 | out << " gSystem->Load(\"libCORRFW\");" << endl << endl; | |
4e5c5506 | 2893 | } else { |
4e5c5506 | 2894 | TIter next(fPackages); |
2895 | TObject *obj; | |
57377eb5 | 2896 | TString pkgname; |
57377eb5 | 2897 | while ((obj=next())) { |
2898 | pkgname = obj->GetName(); | |
4478e6f1 | 2899 | if (pkgname == "STEERBase" || |
2900 | pkgname == "STEERBase.par") hasSTEERBase = kTRUE; | |
2901 | if (pkgname == "ESD" || | |
2902 | pkgname == "ESD.par") hasESD = kTRUE; | |
2903 | if (pkgname == "AOD" || | |
2904 | pkgname == "AOD.par") hasAOD = kTRUE; | |
2905 | if (pkgname == "ANALYSIS" || | |
2906 | pkgname == "ANALYSIS.par") hasANALYSIS = kTRUE; | |
2907 | if (pkgname == "ANALYSISalice" || | |
2908 | pkgname == "ANALYSISalice.par") hasANALYSISalice = kTRUE; | |
2909 | if (pkgname == "CORRFW" || | |
2910 | pkgname == "CORRFW.par") hasCORRFW = kTRUE; | |
5b273635 | 2911 | } |
2912 | if (hasANALYSISalice) setupPar = "SetupPar"; | |
57377eb5 | 2913 | if (!hasSTEERBase) out << " gSystem->Load(\"libSTEERBase\");" << endl; |
5b273635 | 2914 | else out << " if (!" << setupPar << "(\"STEERBase\")) return;" << endl; |
57377eb5 | 2915 | if (!hasESD) out << " gSystem->Load(\"libESD\");" << endl; |
5b273635 | 2916 | else out << " if (!" << setupPar << "(\"ESD\")) return;" << endl; |
57377eb5 | 2917 | if (!hasAOD) out << " gSystem->Load(\"libAOD\");" << endl; |
5b273635 | 2918 | else out << " if (!" << setupPar << "(\"AOD\")) return;" << endl; |
57377eb5 | 2919 | if (!hasANALYSIS) out << " gSystem->Load(\"libANALYSIS\");" << endl; |
5b273635 | 2920 | else out << " if (!" << setupPar << "(\"ANALYSIS\")) return;" << endl; |
57377eb5 | 2921 | if (!hasANALYSISalice) out << " gSystem->Load(\"libANALYSISalice\");" << endl; |
5b273635 | 2922 | else out << " if (!" << setupPar << "(\"ANALYSISalice\")) return;" << endl; |
57377eb5 | 2923 | if (!hasCORRFW) out << " gSystem->Load(\"libCORRFW\");" << endl << endl; |
5b273635 | 2924 | else out << " if (!" << setupPar << "(\"CORRFW\")) return;" << endl << endl; |
57377eb5 | 2925 | out << "// Compile other par packages" << endl; |
2926 | next.Reset(); | |
fcc9bb6f | 2927 | while ((obj=next())) { |
2928 | pkgname = obj->GetName(); | |
4478e6f1 | 2929 | if (pkgname == "STEERBase" || |
2930 | pkgname == "STEERBase.par" || | |
2931 | pkgname == "ESD" || | |
2932 | pkgname == "ESD.par" || | |
2933 | pkgname == "AOD" || | |
2934 | pkgname == "AOD.par" || | |
2935 | pkgname == "ANALYSIS" || | |
2936 | pkgname == "ANALYSIS.par" || | |
2937 | pkgname == "ANALYSISalice" || | |
2938 | pkgname == "ANALYSISalice.par" || | |
2939 | pkgname == "CORRFW" || | |
2940 | pkgname == "CORRFW.par") continue; | |
5b273635 | 2941 | out << " if (!" << setupPar << "(\"" << obj->GetName() << "\")) return;" << endl; |
fcc9bb6f | 2942 | } |
4e5c5506 | 2943 | } |
6da75e0b | 2944 | if (fAdditionalLibs.Length()) { |
2945 | out << "// Add aditional AliRoot libraries" << endl; | |
2946 | TObjArray *list = fAdditionalLibs.Tokenize(" "); | |
2947 | TIter next(list); | |
2948 | TObjString *str; | |
2949 | while((str=(TObjString*)next())) { | |
2950 | if (str->GetString().Contains(".so")) | |
2951 | out << " gSystem->Load(\"" << str->GetString().Data() << "\");" << endl; | |
652561d5 | 2952 | if (str->GetString().Contains(".par")) |
2953 | out << " if (!" << setupPar << "(\"" << str->GetString() << "\")) return;" << endl; | |
6da75e0b | 2954 | } |
2955 | if (list) delete list; | |
2956 | } | |
2957 | out << endl; | |
c57f56b7 | 2958 | out << "// analysis source to be compiled at runtime (if any)" << endl; |
2959 | if (fAnalysisSource.Length()) { | |
2960 | TObjArray *list = fAnalysisSource.Tokenize(" "); | |
2961 | TIter next(list); | |
2962 | TObjString *str; | |
2963 | while((str=(TObjString*)next())) { | |
2964 | out << " gROOT->ProcessLine(\".L " << str->GetString().Data() << "+g\");" << endl; | |
2965 | } | |
2966 | if (list) delete list; | |
2967 | } | |
2968 | out << endl; | |
0f389141 | 2969 | if (fFastReadOption) { |
d3339be3 | 2970 | 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 !!! \ |
2971 | \n+++ NOTE: To disable this option, use: plugin->SetFastReadOption(kFALSE)"); | |
0f389141 | 2972 | out << "// fast xrootd reading enabled" << endl; |
2973 | out << " printf(\"!!! You requested FastRead option. Using xrootd flags to reduce timeouts. Note that this may skip some files that could be accessed !!!\");" << endl; | |
d3339be3 | 2974 | out << " gEnv->SetValue(\"XNet.ConnectTimeout\",10);" << endl; |
f790bc1b | 2975 | out << " gEnv->SetValue(\"XNet.RequestTimeout\",10);" << endl; |
0f389141 | 2976 | out << " gEnv->SetValue(\"XNet.MaxRedirectCount\",2);" << endl; |
f790bc1b | 2977 | out << " gEnv->SetValue(\"XNet.ReconnectTimeout\",10);" << endl; |
0f389141 | 2978 | out << " gEnv->SetValue(\"XNet.FirstConnectMaxCnt\",1);" << endl << endl; |
2979 | } | |
c57f56b7 | 2980 | out << "// connect to AliEn and make the chain" << endl; |
2981 | out << " if (!TGrid::Connect(\"alien://\")) return;" << endl; | |
c57f56b7 | 2982 | out << "// read the analysis manager from file" << endl; |
f10e8481 | 2983 | TString analysisFile = fExecutable; |
2984 | analysisFile.ReplaceAll(".sh", ".root"); | |
2985 | out << " TFile *file = TFile::Open(\"" << analysisFile << "\");" << endl; | |
c57f56b7 | 2986 | out << " if (!file) return;" << endl; |
2987 | out << " TIter nextkey(file->GetListOfKeys());" << endl; | |
2988 | out << " AliAnalysisManager *mgr = 0;" << endl; | |
2989 | out << " TKey *key;" << endl; | |
2990 | out << " while ((key=(TKey*)nextkey())) {" << endl; | |
2991 | out << " if (!strcmp(key->GetClassName(), \"AliAnalysisManager\"))" << endl; | |
2992 | out << " mgr = (AliAnalysisManager*)file->Get(key->GetName());" << endl; | |
2993 | out << " };" << endl; | |
2994 | out << " if (!mgr) {" << endl; | |
205b201f | 2995 | out << " ::Error(\"" << func.Data() << "\", \"No analysis manager found in file " << analysisFile <<"\");" << endl; |
c57f56b7 | 2996 | out << " return;" << endl; |
2997 | out << " }" << endl << endl; | |
2998 | out << " mgr->PrintStatus();" << endl; | |
52b6a92b | 2999 | if (AliAnalysisManager::GetAnalysisManager()) { |
f866cba5 | 3000 | if (AliAnalysisManager::GetAnalysisManager()->GetDebugLevel()>3) { |
52b6a92b | 3001 | out << " gEnv->SetValue(\"XNet.Debug\", \"1\");" << endl; |
de52b69c | 3002 | } else { |
9a8288ff | 3003 | if (TestBit(AliAnalysisGrid::kTest)) |
3004 | out << " AliLog::SetGlobalLogLevel(AliLog::kWarning);" << endl; | |
3005 | else | |
3006 | out << " AliLog::SetGlobalLogLevel(AliLog::kError);" << endl; | |
52b6a92b | 3007 | } |
3008 | } | |
242accb2 | 3009 | if (IsUsingTags()) { |
3010 | out << " TChain *chain = CreateChainFromTags(\"wn.xml\", anatype);" << endl << endl; | |
3011 | } else { | |
3012 | out << " TChain *chain = CreateChain(\"wn.xml\", anatype);" << endl << endl; | |
3013 | } | |
c57f56b7 | 3014 | out << " mgr->StartAnalysis(\"localfile\", chain);" << endl; |
f7498086 | 3015 | out << " timer.Stop();" << endl; |
3016 | out << " timer.Print();" << endl; | |
c57f56b7 | 3017 | out << "}" << endl << endl; |
3018 | if (IsUsingTags()) { | |
3019 | out << "TChain* CreateChainFromTags(const char *xmlfile, const char *type=\"ESD\")" << endl; | |
3020 | out << "{" << endl; | |
3021 | out << "// Create a chain using tags from the xml file." << endl; | |
3022 | out << " TAlienCollection* coll = TAlienCollection::Open(xmlfile);" << endl; | |
3023 | out << " if (!coll) {" << endl; | |
3024 | out << " ::Error(\"CreateChainFromTags\", \"Cannot create an AliEn collection from %s\", xmlfile);" << endl; | |
3025 | out << " return NULL;" << endl; | |
3026 | out << " }" << endl; | |
3027 | out << " TGridResult* tagResult = coll->GetGridResult(\"\",kFALSE,kFALSE);" << endl; | |
3028 | out << " AliTagAnalysis *tagAna = new AliTagAnalysis(type);" << endl; | |
3029 | out << " tagAna->ChainGridTags(tagResult);" << endl << endl; | |
3030 | out << " AliRunTagCuts *runCuts = new AliRunTagCuts();" << endl; | |
3031 | out << " AliLHCTagCuts *lhcCuts = new AliLHCTagCuts();" << endl; | |
3032 | out << " AliDetectorTagCuts *detCuts = new AliDetectorTagCuts();" << endl; | |
3033 | out << " AliEventTagCuts *evCuts = new AliEventTagCuts();" << endl; | |
3034 | out << " // Check if the cuts configuration file was provided" << endl; | |
3035 | out << " if (!gSystem->AccessPathName(\"ConfigureCuts.C\")) {" << endl; | |
3036 | out << " gROOT->LoadMacro(\"ConfigureCuts.C\");" << endl; | |
3037 | out << " ConfigureCuts(runCuts, lhcCuts, detCuts, evCuts);" << endl; | |
3038 | out << " }" << endl; | |
0df6ccf2 | 3039 | if (fFriendChainName=="") { |
3040 | out << " TChain *chain = tagAna->QueryTags(runCuts, lhcCuts, detCuts, evCuts);" << endl; | |
3041 | } else { | |
3042 | out << " TString tmpColl=\"tmpCollection.xml\";" << endl; | |
3043 | out << " tagAna->CreateXMLCollection(tmpColl.Data(),runCuts, lhcCuts, detCuts, evCuts);" << endl; | |
3044 | out << " TChain *chain = CreateChain(tmpColl.Data(),type);" << endl; | |
3045 | } | |
c57f56b7 | 3046 | out << " if (!chain || !chain->GetNtrees()) return NULL;" << endl; |
3047 | out << " chain->ls();" << endl; | |
3048 | out << " return chain;" << endl; | |
fcc9bb6f | 3049 | out << "}" << endl << endl; |
c57f56b7 | 3050 | if (gSystem->AccessPathName("ConfigureCuts.C")) { |
3051 | TString msg = "\n##### You may want to provide a macro ConfigureCuts.C with a method:\n"; | |
3052 | msg += " void ConfigureCuts(AliRunTagCuts *runCuts,\n"; | |
3053 | msg += " AliLHCTagCuts *lhcCuts,\n"; | |
3054 | msg += " AliDetectorTagCuts *detCuts,\n"; | |
3055 | msg += " AliEventTagCuts *evCuts)"; | |
23329835 | 3056 | Info("WriteAnalysisMacro", "%s", msg.Data()); |
c57f56b7 | 3057 | } |
0df6ccf2 | 3058 | } |
3059 | if (!IsUsingTags() || fFriendChainName!="") { | |
fcc9bb6f | 3060 | out <<"//________________________________________________________________________________" << endl; |
c57f56b7 | 3061 | out << "TChain* CreateChain(const char *xmlfile, const char *type=\"ESD\")" << endl; |
3062 | out << "{" << endl; | |
3063 | out << "// Create a chain using url's from xml file" << endl; | |
242accb2 | 3064 | out << " TString filename;" << endl; |
3065 | out << " Int_t run = 0;" << endl; | |
c57f56b7 | 3066 | out << " TString treename = type;" << endl; |
3067 | out << " treename.ToLower();" << endl; | |
3068 | out << " treename += \"Tree\";" << endl; | |
e02fee64 | 3069 | out << " printf(\"***************************************\\n\");" << endl; |
3070 | out << " printf(\" Getting chain of trees %s\\n\", treename.Data());" << endl; | |
3071 | out << " printf(\"***************************************\\n\");" << endl; | |
c57f56b7 | 3072 | out << " TAlienCollection *coll = TAlienCollection::Open(xmlfile);" << endl; |
3073 | out << " if (!coll) {" << endl; | |
3074 | out << " ::Error(\"CreateChain\", \"Cannot create an AliEn collection from %s\", xmlfile);" << endl; | |
3075 | out << " return NULL;" << endl; | |
3076 | out << " }" << endl; | |
242accb2 | 3077 | out << " AliAnalysisManager *mgr = AliAnalysisManager::GetAnalysisManager();" << endl; |
c57f56b7 | 3078 | out << " TChain *chain = new TChain(treename);" << endl; |
0df6ccf2 | 3079 | if(fFriendChainName!="") { |
3080 | out << " TChain *chainFriend = new TChain(treename);" << endl; | |
3081 | } | |
c57f56b7 | 3082 | out << " coll->Reset();" << endl; |
0df6ccf2 | 3083 | out << " while (coll->Next()) {" << endl; |
242accb2 | 3084 | out << " filename = coll->GetTURL("");" << endl; |
3085 | out << " if (mgr) {" << endl; | |
3086 | out << " Int_t nrun = AliAnalysisManager::GetRunFromAlienPath(filename);" << endl; | |
3087 | out << " if (nrun && nrun != run) {" << endl; | |
3088 | out << " printf(\"### Run number detected from chain: %d\\n\", nrun);" << endl; | |
3089 | out << " mgr->SetRunFromPath(nrun);" << endl; | |
3090 | out << " run = nrun;" << endl; | |
3091 | out << " }" << endl; | |
3092 | out << " }" << endl; | |
3093 | out << " chain->Add(filename);" << endl; | |
0df6ccf2 | 3094 | if(fFriendChainName!="") { |
3095 | out << " TString fileFriend=coll->GetTURL(\"\");" << endl; | |
3096 | out << " fileFriend.ReplaceAll(\"AliAOD.root\",\""<<fFriendChainName.Data()<<"\");" << endl; | |
3097 | out << " fileFriend.ReplaceAll(\"AliAODs.root\",\""<<fFriendChainName.Data()<<"\");" << endl; | |
3098 | out << " chainFriend->Add(fileFriend.Data());" << endl; | |
3099 | } | |
3100 | out << " }" << endl; | |
c57f56b7 | 3101 | out << " if (!chain->GetNtrees()) {" << endl; |
3102 | out << " ::Error(\"CreateChain\", \"No tree found from collection %s\", xmlfile);" << endl; | |
3103 | out << " return NULL;" << endl; | |
3104 | out << " }" << endl; | |
0df6ccf2 | 3105 | if(fFriendChainName!="") { |
3106 | out << " chain->AddFriend(chainFriend);" << endl; | |
3107 | } | |
c57f56b7 | 3108 | out << " return chain;" << endl; |
fcc9bb6f | 3109 | out << "}" << endl << endl; |
c57f56b7 | 3110 | } |
5b273635 | 3111 | if (hasANALYSISalice) { |
3112 | out <<"//________________________________________________________________________________" << endl; | |
3113 | out << "Bool_t SetupPar(const char *package) {" << endl; | |
3114 | out << "// Compile the package and set it up." << endl; | |
3115 | out << " TString pkgdir = package;" << endl; | |
3116 | out << " pkgdir.ReplaceAll(\".par\",\"\");" << endl; | |
3117 | out << " gSystem->Exec(Form(\"tar xvzf %s.par\", pkgdir.Data()));" << endl; | |
3118 | out << " TString cdir = gSystem->WorkingDirectory();" << endl; | |
3119 | out << " gSystem->ChangeDirectory(pkgdir);" << endl; | |
3120 | out << " // Check for BUILD.sh and execute" << endl; | |
3121 | out << " if (!gSystem->AccessPathName(\"PROOF-INF/BUILD.sh\")) {" << endl; | |
3122 | out << " printf(\"*******************************\\n\");" << endl; | |
3123 | out << " printf(\"*** Building PAR archive ***\\n\");" << endl; | |
3124 | out << " printf(\"*******************************\\n\");" << endl; | |
3125 | out << " if (gSystem->Exec(\"PROOF-INF/BUILD.sh\")) {" << endl; | |
3126 | out << " ::Error(\"SetupPar\", \"Cannot build par archive %s\", pkgdir.Data());" << endl; | |
3127 | out << " gSystem->ChangeDirectory(cdir);" << endl; | |
3128 | out << " return kFALSE;" << endl; | |
3129 | out << " }" << endl; | |
3130 | out << " } else {" << endl; | |
3131 | out << " ::Error(\"SetupPar\",\"Cannot access PROOF-INF/BUILD.sh for package %s\", pkgdir.Data());" << endl; | |
3132 | out << " gSystem->ChangeDirectory(cdir);" << endl; | |
3133 | out << " return kFALSE;" << endl; | |
3134 | out << " }" << endl; | |
3135 | out << " // Check for SETUP.C and execute" << endl; | |
3136 | out << " if (!gSystem->AccessPathName(\"PROOF-INF/SETUP.C\")) {" << endl; | |
3137 | out << " printf(\"*******************************\\n\");" << endl; | |
3138 | out << " printf(\"*** Setup PAR archive ***\\n\");" << endl; | |
3139 | out << " printf(\"*******************************\\n\");" << endl; | |
3140 | out << " gROOT->Macro(\"PROOF-INF/SETUP.C\");" << endl; | |
3141 | out << " } else {" << endl; | |
3142 | out << " ::Error(\"SetupPar\",\"Cannot access PROOF-INF/SETUP.C for package %s\", pkgdir.Data());" << endl; | |
3143 | out << " gSystem->ChangeDirectory(cdir);" << endl; | |
3144 | out << " return kFALSE;" << endl; | |
3145 | out << " }" << endl; | |
3146 | out << " // Restore original workdir" << endl; | |
3147 | out << " gSystem->ChangeDirectory(cdir);" << endl; | |
3148 | out << " return kTRUE;" << endl; | |
3149 | out << "}" << endl; | |
3150 | } | |
c57f56b7 | 3151 | Info("WriteAnalysisMacro", "\n##### Analysis macro to run on worker nodes <%s> written",fAnalysisMacro.Data()); |
3152 | } | |
3153 | Bool_t copy = kTRUE; | |
d3b18c4c | 3154 | if (fProductionMode || TestBit(AliAnalysisGrid::kOffline) || TestBit(AliAnalysisGrid::kTest)) copy = kFALSE; |
c57f56b7 | 3155 | if (copy) { |
3156 | CdWork(); | |
3157 | TString workdir = gGrid->GetHomeDirectory(); | |
3158 | workdir += fGridWorkingDir; | |
3159 | if (FileExists(fAnalysisMacro)) gGrid->Rm(fAnalysisMacro); | |
3160 | if (IsUsingTags() && !gSystem->AccessPathName("ConfigureCuts.C")) { | |
3161 | if (FileExists("ConfigureCuts.C")) gGrid->Rm("ConfigureCuts.C"); | |
3162 | Info("WriteAnalysisMacro", "\n##### Copying cuts configuration macro: <ConfigureCuts.C> to your alien workspace"); | |
3163 | TFile::Cp("file:ConfigureCuts.C", Form("alien://%s/ConfigureCuts.C", workdir.Data())); | |
3164 | } | |
3165 | Info("WriteAnalysisMacro", "\n##### Copying analysis macro: <%s> to your alien workspace", fAnalysisMacro.Data()); | |
3166 | TFile::Cp(Form("file:%s",fAnalysisMacro.Data()), Form("alien://%s/%s", workdir.Data(), fAnalysisMacro.Data())); | |
3167 | } | |
3168 | } | |
3169 | ||
0f389141 | 3170 | //______________________________________________________________________________ |
3171 | void AliAnalysisAlien::WriteMergingMacro() | |
3172 | { | |
3173 | // Write a macro to merge the outputs per master job. | |
3174 | if (!fMergeViaJDL) return; | |
3175 | if (!fOutputFiles.Length()) { | |
3176 | Error("WriteMergingMacro", "No output file names defined. Are you running the right AliAnalysisAlien configuration ?"); | |
3177 | return; | |
3178 | } | |
3179 | TString mergingMacro = fExecutable; | |
3180 | mergingMacro.ReplaceAll(".sh","_merge.C"); | |
3181 | if (!fGridOutputDir.Contains("/")) fGridOutputDir = Form("/%s/%s/%s", gGrid->GetHomeDirectory(), fGridWorkingDir.Data(), fGridOutputDir.Data()); | |
3182 | if (!TestBit(AliAnalysisGrid::kSubmit)) { | |
3183 | ofstream out; | |
3184 | out.open(mergingMacro.Data(), ios::out); | |
3185 | if (!out.good()) { | |
3186 | Error("WriteMergingMacro", "could not open file %s for writing", fAnalysisMacro.Data()); | |
3187 | return; | |
3188 | } | |
5b273635 | 3189 | Bool_t hasSTEERBase = kFALSE; |
3190 | Bool_t hasESD = kFALSE; | |
3191 | Bool_t hasAOD = kFALSE; | |
3192 | Bool_t hasANALYSIS = kFALSE; | |
3193 | Bool_t hasANALYSISalice = kFALSE; | |
3194 | Bool_t hasCORRFW = kFALSE; | |
0f389141 | 3195 | TString func = mergingMacro; |
3196 | TString comment; | |
3197 | func.ReplaceAll(".C", ""); | |
7c2cd90a | 3198 | out << "void " << func.Data() << "(const char *dir, Int_t stage=0, Int_t ichunk=0)" << endl; |
0f389141 | 3199 | out << "{" << endl; |
3200 | out << "// Automatically generated merging macro executed in grid subjobs" << endl << endl; | |
3201 | out << " TStopwatch timer;" << endl; | |
3202 | out << " timer.Start();" << endl << endl; | |
7c2cd90a | 3203 | if (!fExecutableCommand.Contains("aliroot")) { |
3204 | out << "// load base root libraries" << endl; | |
3205 | out << " gSystem->Load(\"libTree\");" << endl; | |
3206 | out << " gSystem->Load(\"libGeom\");" << endl; | |
3207 | out << " gSystem->Load(\"libVMC\");" << endl; | |
3208 | out << " gSystem->Load(\"libPhysics\");" << endl << endl; | |
3209 | out << " gSystem->Load(\"libMinuit\");" << endl << endl; | |
3210 | } | |
0f389141 | 3211 | if (fAdditionalRootLibs.Length()) { |
3212 | // in principle libtree /lib geom libvmc etc. can go into this list, too | |
3213 | out << "// Add aditional libraries" << endl; | |
3214 | TObjArray *list = fAdditionalRootLibs.Tokenize(" "); | |
3215 | TIter next(list); | |
3216 | TObjString *str; | |
3217 | while((str=(TObjString*)next())) { | |
3218 | if (str->GetString().Contains(".so")) | |
3219 | out << " gSystem->Load(\"" << str->GetString().Data() << "\");" << endl; | |
3220 | } | |
3221 | if (list) delete list; | |
3222 | } | |
3223 | out << "// include path" << endl; | |
3224 | if (fIncludePath.Length()) out << " gSystem->AddIncludePath(\"" << fIncludePath.Data() << "\");" << endl; | |
3225 | out << " gSystem->AddIncludePath(\"-I$ALICE_ROOT/include\");" << endl << endl; | |
3226 | out << "// Load analysis framework libraries" << endl; | |
3227 | if (!fPackages) { | |
7c2cd90a | 3228 | if (!fExecutableCommand.Contains("aliroot")) { |
3229 | out << " gSystem->Load(\"libSTEERBase\");" << endl; | |
3230 | out << " gSystem->Load(\"libESD\");" << endl; | |
3231 | out << " gSystem->Load(\"libAOD\");" << endl; | |
3232 | } | |
0f389141 | 3233 | out << " gSystem->Load(\"libANALYSIS\");" << endl; |
3234 | out << " gSystem->Load(\"libANALYSISalice\");" << endl; | |
3235 | out << " gSystem->Load(\"libCORRFW\");" << endl << endl; | |
3236 | } else { | |
3237 | TIter next(fPackages); | |
3238 | TObject *obj; | |
3239 | TString pkgname; | |
5b273635 | 3240 | TString setupPar = "AliAnalysisAlien::SetupPar"; |
0f389141 | 3241 | while ((obj=next())) { |
3242 | pkgname = obj->GetName(); | |
3243 | if (pkgname == "STEERBase" || | |
3244 | pkgname == "STEERBase.par") hasSTEERBase = kTRUE; | |
3245 | if (pkgname == "ESD" || | |
3246 | pkgname == "ESD.par") hasESD = kTRUE; | |
3247 | if (pkgname == "AOD" || | |
3248 | pkgname == "AOD.par") hasAOD = kTRUE; | |
3249 | if (pkgname == "ANALYSIS" || | |
3250 | pkgname == "ANALYSIS.par") hasANALYSIS = kTRUE; | |
3251 | if (pkgname == "ANALYSISalice" || | |
3252 | pkgname == "ANALYSISalice.par") hasANALYSISalice = kTRUE; | |
3253 | if (pkgname == "CORRFW" || | |
3254 | pkgname == "CORRFW.par") hasCORRFW = kTRUE; | |
3255 | } | |
5b273635 | 3256 | if (hasANALYSISalice) setupPar = "SetupPar"; |
0f389141 | 3257 | if (!hasSTEERBase) out << " gSystem->Load(\"libSTEERBase\");" << endl; |
5b273635 | 3258 | else out << " if (!" << setupPar << "(\"STEERBase\")) return;" << endl; |
0f389141 | 3259 | if (!hasESD) out << " gSystem->Load(\"libESD\");" << endl; |
5b273635 | 3260 | else out << " if (!" << setupPar << "(\"ESD\")) return;" << endl; |
0f389141 | 3261 | if (!hasAOD) out << " gSystem->Load(\"libAOD\");" << endl; |
5b273635 | 3262 | else out << " if (!" << setupPar << "(\"AOD\")) return;" << endl; |
0f389141 | 3263 | if (!hasANALYSIS) out << " gSystem->Load(\"libANALYSIS\");" << endl; |
5b273635 | 3264 | else out << " if (!" << setupPar << "(\"ANALYSIS\")) return;" << endl; |
0f389141 | 3265 | if (!hasANALYSISalice) out << " gSystem->Load(\"libANALYSISalice\");" << endl; |
5b273635 | 3266 | else out << " if (!" << setupPar << "(\"ANALYSISalice\")) return;" << endl; |
0f389141 | 3267 | if (!hasCORRFW) out << " gSystem->Load(\"libCORRFW\");" << endl << endl; |
5b273635 | 3268 | else out << " if (!" << setupPar << "(\"CORRFW\")) return;" << endl << endl; |
0f389141 | 3269 | out << "// Compile other par packages" << endl; |
3270 | next.Reset(); | |
3271 | while ((obj=next())) { | |
3272 | pkgname = obj->GetName(); | |
3273 | if (pkgname == "STEERBase" || | |
3274 | pkgname == "STEERBase.par" || | |
3275 | pkgname == "ESD" || | |
3276 | pkgname == "ESD.par" || | |
3277 | pkgname == "AOD" || | |
3278 | pkgname == "AOD.par" || | |
3279 | pkgname == "ANALYSIS" || | |
3280 | pkgname == "ANALYSIS.par" || | |
3281 | pkgname == "ANALYSISalice" || | |
3282 | pkgname == "ANALYSISalice.par" || | |
3283 | pkgname == "CORRFW" || | |
3284 | pkgname == "CORRFW.par") continue; | |
5b273635 | 3285 | out << " if (!" << setupPar << "(\"" << obj->GetName() << "\")) return;" << endl; |
0f389141 | 3286 | } |
3287 | } | |
3288 | if (fAdditionalLibs.Length()) { | |
3289 | out << "// Add aditional AliRoot libraries" << endl; | |
3290 | TObjArray *list = fAdditionalLibs.Tokenize(" "); | |
3291 | TIter next(list); | |
3292 | TObjString *str; | |
3293 | while((str=(TObjString*)next())) { | |
3294 | if (str->GetString().Contains(".so")) | |
3295 | out << " gSystem->Load(\"" << str->GetString().Data() << "\");" << endl; | |
3296 | } | |
3297 | if (list) delete list; | |
3298 | } | |
3299 | out << endl; | |
3300 | out << "// Analysis source to be compiled at runtime (if any)" << endl; | |
3301 | if (fAnalysisSource.Length()) { | |
3302 | TObjArray *list = fAnalysisSource.Tokenize(" "); | |
3303 | TIter next(list); | |
3304 | TObjString *str; | |
3305 | while((str=(TObjString*)next())) { | |
3306 | out << " gROOT->ProcessLine(\".L " << str->GetString().Data() << "+g\");" << endl; | |
3307 | } | |
3308 | if (list) delete list; | |
3309 | } | |
149d288c | 3310 | out << endl; |
3311 | ||
0f389141 | 3312 | if (fFastReadOption) { |
3313 | 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 !!!"); | |
3314 | out << "// fast xrootd reading enabled" << endl; | |
3315 | out << " printf(\"!!! You requested FastRead option. Using xrootd flags to reduce timeouts. Note that this may skip some files that could be accessed !!!\");" << endl; | |
d3339be3 | 3316 | out << " gEnv->SetValue(\"XNet.ConnectTimeout\",10);" << endl; |
f790bc1b | 3317 | out << " gEnv->SetValue(\"XNet.RequestTimeout\",10);" << endl; |
0f389141 | 3318 | out << " gEnv->SetValue(\"XNet.MaxRedirectCount\",2);" << endl; |
f790bc1b | 3319 | out << " gEnv->SetValue(\"XNet.ReconnectTimeout\",10);" << endl; |
0f389141 | 3320 | out << " gEnv->SetValue(\"XNet.FirstConnectMaxCnt\",1);" << endl << endl; |
e8b839ab | 3321 | } |
3322 | // Change temp directory to current one | |
3323 | out << "// Set temporary merging directory to current one" << endl; | |
3324 | out << " gSystem->Setenv(\"TMPDIR\", gSystem->pwd());" << endl << endl; | |
0f389141 | 3325 | out << "// Connect to AliEn" << endl; |
3326 | out << " if (!TGrid::Connect(\"alien://\")) return;" << endl; | |
0cdf65a8 | 3327 | out << " Bool_t laststage = kFALSE;" << endl; |
7c2cd90a | 3328 | out << " TString outputDir = dir;" << endl; |
f790bc1b | 3329 | out << " TString outputFiles = \"" << GetListOfFiles("out") << "\";" << endl; |
0f389141 | 3330 | out << " TString mergeExcludes = \"" << fMergeExcludes << "\";" << endl; |
58268c13 | 3331 | out << " TObjArray *list = outputFiles.Tokenize(\",\");" << endl; |
0f389141 | 3332 | out << " TIter *iter = new TIter(list);" << endl; |
3333 | out << " TObjString *str;" << endl; | |
a2f5fc01 | 3334 | out << " TString outputFile;" << endl; |
0f389141 | 3335 | out << " Bool_t merged = kTRUE;" << endl; |
3336 | out << " while((str=(TObjString*)iter->Next())) {" << endl; | |
a2f5fc01 | 3337 | out << " outputFile = str->GetString();" << endl; |
7c2cd90a | 3338 | out << " if (outputFile.Contains(\"*\")) continue;" << endl; |
a2f5fc01 | 3339 | out << " Int_t index = outputFile.Index(\"@\");" << endl; |
3340 | out << " if (index > 0) outputFile.Remove(index);" << endl; | |
0f389141 | 3341 | out << " // Skip already merged outputs" << endl; |
a2f5fc01 | 3342 | out << " if (!gSystem->AccessPathName(outputFile)) {" << endl; |
3343 | out << " printf(\"Output file <%s> found. Not merging again.\",outputFile.Data());" << endl; | |
0f389141 | 3344 | out << " continue;" << endl; |
3345 | out << " }" << endl; | |
a2f5fc01 | 3346 | out << " if (mergeExcludes.Contains(outputFile.Data())) continue;" << endl; |
7c2cd90a | 3347 | out << " merged = AliAnalysisAlien::MergeOutput(outputFile, outputDir, " << fMaxMergeFiles << ", stage, ichunk);" << endl; |
0f389141 | 3348 | out << " if (!merged) {" << endl; |
a2f5fc01 | 3349 | out << " printf(\"ERROR: Cannot merge %s\\n\", outputFile.Data());" << endl; |
7c2cd90a | 3350 | out << " return;" << endl; |
0f389141 | 3351 | out << " }" << endl; |
7c2cd90a | 3352 | out << " // Check if this was the last stage. If yes, run terminate for the tasks." << endl; |
3353 | out << " if (!gSystem->AccessPathName(outputFile)) laststage = kTRUE;" << endl; | |
0f389141 | 3354 | out << " }" << endl; |
7c2cd90a | 3355 | out << " // all outputs merged, validate" << endl; |
3356 | out << " ofstream out;" << endl; | |
3357 | out << " out.open(\"outputs_valid\", ios::out);" << endl; | |
3358 | out << " out.close();" << endl; | |
3359 | out << " // read the analysis manager from file" << endl; | |
f866cba5 | 3360 | TString analysisFile = fExecutable; |
3361 | analysisFile.ReplaceAll(".sh", ".root"); | |
7c2cd90a | 3362 | out << " if (!laststage) return;" << endl; |
f866cba5 | 3363 | out << " TFile *file = TFile::Open(\"" << analysisFile << "\");" << endl; |
7c2cd90a | 3364 | out << " if (!file) return;" << endl; |
f866cba5 | 3365 | out << " TIter nextkey(file->GetListOfKeys());" << endl; |
3366 | out << " AliAnalysisManager *mgr = 0;" << endl; | |
3367 | out << " TKey *key;" << endl; | |
3368 | out << " while ((key=(TKey*)nextkey())) {" << endl; | |
3369 | out << " if (!strcmp(key->GetClassName(), \"AliAnalysisManager\"))" << endl; | |
3370 | out << " mgr = (AliAnalysisManager*)file->Get(key->GetName());" << endl; | |
3371 | out << " };" << endl; | |
3372 | out << " if (!mgr) {" << endl; | |
3373 | out << " ::Error(\"" << func.Data() << "\", \"No analysis manager found in file" << analysisFile <<"\");" << endl; | |
3374 | out << " return;" << endl; | |
3375 | out << " }" << endl << endl; | |
b385fec0 | 3376 | out << " mgr->SetSkipTerminate(kFALSE);" << endl; |
f866cba5 | 3377 | out << " mgr->PrintStatus();" << endl; |
3378 | if (AliAnalysisManager::GetAnalysisManager()) { | |
3379 | if (AliAnalysisManager::GetAnalysisManager()->GetDebugLevel()>3) { | |
3380 | out << " gEnv->SetValue(\"XNet.Debug\", \"1\");" << endl; | |
3381 | } else { | |
9a8288ff | 3382 | if (TestBit(AliAnalysisGrid::kTest)) |
3383 | out << " AliLog::SetGlobalLogLevel(AliLog::kWarning);" << endl; | |
3384 | else | |
3385 | out << " AliLog::SetGlobalLogLevel(AliLog::kError);" << endl; | |
f866cba5 | 3386 | } |
3387 | } | |
9a8288ff | 3388 | out << " TTree *tree = NULL;" << endl; |
3389 | out << " mgr->StartAnalysis(\"gridterminate\", tree);" << endl; | |
0f389141 | 3390 | out << "}" << endl << endl; |
5b273635 | 3391 | if (hasANALYSISalice) { |
3392 | out <<"//________________________________________________________________________________" << endl; | |
3393 | out << "Bool_t SetupPar(const char *package) {" << endl; | |
3394 | out << "// Compile the package and set it up." << endl; | |
3395 | out << " TString pkgdir = package;" << endl; | |
3396 | out << " pkgdir.ReplaceAll(\".par\",\"\");" << endl; | |
3397 | out << " gSystem->Exec(Form(\"tar xvzf %s.par\", pkgdir.Data()));" << endl; | |
3398 | out << " TString cdir = gSystem->WorkingDirectory();" << endl; | |
3399 | out << " gSystem->ChangeDirectory(pkgdir);" << endl; | |
3400 | out << " // Check for BUILD.sh and execute" << endl; | |
3401 | out << " if (!gSystem->AccessPathName(\"PROOF-INF/BUILD.sh\")) {" << endl; | |
3402 | out << " printf(\"*******************************\\n\");" << endl; | |
3403 | out << " printf(\"*** Building PAR archive ***\\n\");" << endl; | |
3404 | out << " printf(\"*******************************\\n\");" << endl; | |
3405 | out << " if (gSystem->Exec(\"PROOF-INF/BUILD.sh\")) {" << endl; | |
3406 | out << " ::Error(\"SetupPar\", \"Cannot build par archive %s\", pkgdir.Data());" << endl; | |
3407 | out << " gSystem->ChangeDirectory(cdir);" << endl; | |
3408 | out << " return kFALSE;" << endl; | |
3409 | out << " }" << endl; | |
3410 | out << " } else {" << endl; | |
3411 | out << " ::Error(\"SetupPar\",\"Cannot access PROOF-INF/BUILD.sh for package %s\", pkgdir.Data());" << endl; | |
3412 | out << " gSystem->ChangeDirectory(cdir);" << endl; | |
3413 | out << " return kFALSE;" << endl; | |
3414 | out << " }" << endl; | |
3415 | out << " // Check for SETUP.C and execute" << endl; | |
3416 | out << " if (!gSystem->AccessPathName(\"PROOF-INF/SETUP.C\")) {" << endl; | |
3417 | out << " printf(\"*******************************\\n\");" << endl; | |
3418 | out << " printf(\"*** Setup PAR archive ***\\n\");" << endl; | |
3419 | out << " printf(\"*******************************\\n\");" << endl; | |
3420 | out << " gROOT->Macro(\"PROOF-INF/SETUP.C\");" << endl; | |
3421 | out << " } else {" << endl; | |
3422 | out << " ::Error(\"SetupPar\",\"Cannot access PROOF-INF/SETUP.C for package %s\", pkgdir.Data());" << endl; | |
3423 | out << " gSystem->ChangeDirectory(cdir);" << endl; | |
3424 | out << " return kFALSE;" << endl; | |
3425 | out << " }" << endl; | |
3426 | out << " // Restore original workdir" << endl; | |
3427 | out << " gSystem->ChangeDirectory(cdir);" << endl; | |
3428 | out << " return kTRUE;" << endl; | |
3429 | out << "}" << endl; | |
3430 | } | |
0f389141 | 3431 | } |
3432 | Bool_t copy = kTRUE; | |
d3b18c4c | 3433 | if (fProductionMode || TestBit(AliAnalysisGrid::kOffline) || TestBit(AliAnalysisGrid::kTest)) copy = kFALSE; |
0f389141 | 3434 | if (copy) { |
3435 | CdWork(); | |
3436 | TString workdir = gGrid->GetHomeDirectory(); | |
3437 | workdir += fGridWorkingDir; | |
3438 | if (FileExists(mergingMacro)) gGrid->Rm(mergingMacro); | |
3439 | Info("WriteMergingMacro", "\n##### Copying merging macro: <%s> to your alien workspace", mergingMacro.Data()); | |
3440 | TFile::Cp(Form("file:%s",mergingMacro.Data()), Form("alien://%s/%s", workdir.Data(), mergingMacro.Data())); | |
3441 | } | |
3442 | } | |
3443 | ||
3444 | //______________________________________________________________________________ | |
3445 | Bool_t AliAnalysisAlien::SetupPar(const char *package) | |
3446 | { | |
205b201f | 3447 | // Compile the par file archive pointed by <package>. This must be present in the current directory. |
0f389141 | 3448 | // Note that for loading the compiled library. The current directory should have precedence in |
3449 | // LD_LIBRARY_PATH | |
3450 | TString pkgdir = package; | |
3451 | pkgdir.ReplaceAll(".par",""); | |
3452 | gSystem->Exec(Form("tar xvzf %s.par", pkgdir.Data())); | |
3453 | TString cdir = gSystem->WorkingDirectory(); | |
3454 | gSystem->ChangeDirectory(pkgdir); | |
3455 | // Check for BUILD.sh and execute | |
3456 | if (!gSystem->AccessPathName("PROOF-INF/BUILD.sh")) { | |
3457 | printf("**************************************************\n"); | |
3458 | printf("*** Building PAR archive %s\n", package); | |
3459 | printf("**************************************************\n"); | |
3460 | if (gSystem->Exec("PROOF-INF/BUILD.sh")) { | |
3461 | ::Error("SetupPar", "Cannot build par archive %s", pkgdir.Data()); | |
3462 | gSystem->ChangeDirectory(cdir); | |
3463 | return kFALSE; | |
3464 | } | |
3465 | } else { | |
3466 | ::Error("SetupPar","Cannot access PROOF-INF/BUILD.sh for package %s", pkgdir.Data()); | |
3467 | gSystem->ChangeDirectory(cdir); | |
3468 | return kFALSE; | |
3469 | } | |
3470 | // Check for SETUP.C and execute | |
3471 | if (!gSystem->AccessPathName("PROOF-INF/SETUP.C")) { | |
3472 | printf("**************************************************\n"); | |
3473 | printf("*** Setup PAR archive %s\n", package); | |
3474 | printf("**************************************************\n"); | |
3475 | gROOT->Macro("PROOF-INF/SETUP.C"); | |
3476 | printf("*** Loaded library: %s\n", gSystem->GetLibraries(pkgdir,"",kFALSE)); | |
3477 | } else { | |
3478 | ::Error("SetupPar","Cannot access PROOF-INF/SETUP.C for package %s", pkgdir.Data()); | |
3479 | gSystem->ChangeDirectory(cdir); | |
3480 | return kFALSE; | |
3481 | } | |
3482 | // Restore original workdir | |
3483 | gSystem->ChangeDirectory(cdir); | |
3484 | return kTRUE; | |
3485 | } | |
3486 | ||
c57f56b7 | 3487 | //______________________________________________________________________________ |
3488 | void AliAnalysisAlien::WriteExecutable() | |
3489 | { | |
3490 | // Generate the alien executable script. | |
3491 | if (!TestBit(AliAnalysisGrid::kSubmit)) { | |
3492 | ofstream out; | |
3493 | out.open(fExecutable.Data(), ios::out); | |
3494 | if (out.bad()) { | |
5513444a | 3495 | Error("WriteExecutable", "Bad file name for executable: %s", fExecutable.Data()); |
c57f56b7 | 3496 | return; |
3497 | } | |
3498 | out << "#!/bin/bash" << endl; | |
c57f56b7 | 3499 | out << "echo \"=========================================\"" << endl; |
3500 | out << "echo \"############## PATH : ##############\"" << endl; | |
3501 | out << "echo $PATH" << endl; | |
3502 | out << "echo \"############## LD_LIBRARY_PATH : ##############\"" << endl; | |
3503 | out << "echo $LD_LIBRARY_PATH" << endl; | |
3504 | out << "echo \"############## ROOTSYS : ##############\"" << endl; | |
3505 | out << "echo $ROOTSYS" << endl; | |
3506 | out << "echo \"############## which root : ##############\"" << endl; | |
3507 | out << "which root" << endl; | |
3508 | out << "echo \"############## ALICE_ROOT : ##############\"" << endl; | |
3509 | out << "echo $ALICE_ROOT" << endl; | |
3510 | out << "echo \"############## which aliroot : ##############\"" << endl; | |
3511 | out << "which aliroot" << endl; | |
9c5ddadc | 3512 | out << "echo \"############## system limits : ##############\"" << endl; |
3513 | out << "ulimit -a" << endl; | |
3514 | out << "echo \"############## memory : ##############\"" << endl; | |
3515 | out << "free -m" << endl; | |
c57f56b7 | 3516 | out << "echo \"=========================================\"" << endl << endl; |
74a53467 | 3517 | // Make sure we can properly compile par files |
3518 | if (TObject::TestBit(AliAnalysisGrid::kUsePars)) out << "export LD_LIBRARY_PATH=.:$LD_LIBRARY_PATH" << endl; | |
0a1c1f7f | 3519 | out << fExecutableCommand << " "; |
631c0b05 | 3520 | out << fAnalysisMacro.Data() << " " << fExecutableArgs.Data() << endl << endl; |
9c5ddadc | 3521 | out << "echo \"======== " << fAnalysisMacro.Data() << " finished with exit code: $? ========\"" << endl; |
3522 | out << "echo \"############## memory after: ##############\"" << endl; | |
3523 | out << "free -m" << endl; | |
c57f56b7 | 3524 | } |
3525 | Bool_t copy = kTRUE; | |
d3b18c4c | 3526 | if (fProductionMode || TestBit(AliAnalysisGrid::kOffline) || TestBit(AliAnalysisGrid::kTest)) copy = kFALSE; |
c57f56b7 | 3527 | if (copy) { |
3528 | CdWork(); | |
3529 | TString workdir = gGrid->GetHomeDirectory(); | |
923e2ca5 | 3530 | TString bindir = Form("%s/bin", workdir.Data()); |
b93f8109 | 3531 | if (!DirectoryExists(bindir)) gGrid->Mkdir(bindir,"-p"); |
c57f56b7 | 3532 | workdir += fGridWorkingDir; |
3533 | TString executable = Form("%s/bin/%s", gGrid->GetHomeDirectory(), fExecutable.Data()); | |
3534 | if (FileExists(executable)) gGrid->Rm(executable); | |
d3b18c4c | 3535 | Info("WriteExecutable", "\n##### Copying executable file <%s> to your AliEn bin directory", fExecutable.Data()); |
c57f56b7 | 3536 | TFile::Cp(Form("file:%s",fExecutable.Data()), Form("alien://%s", executable.Data())); |
3537 | } | |
3538 | } | |
3539 | ||
0f389141 | 3540 | //______________________________________________________________________________ |
3541 | void AliAnalysisAlien::WriteMergeExecutable() | |
3542 | { | |
3543 | // Generate the alien executable script for the merging job. | |
3544 | if (!fMergeViaJDL) return; | |
3545 | TString mergeExec = fExecutable; | |
3546 | mergeExec.ReplaceAll(".sh", "_merge.sh"); | |
3547 | if (!TestBit(AliAnalysisGrid::kSubmit)) { | |
3548 | ofstream out; | |
3549 | out.open(mergeExec.Data(), ios::out); | |
3550 | if (out.bad()) { | |
3551 | Error("WriteMergingExecutable", "Bad file name for executable: %s", mergeExec.Data()); | |
3552 | return; | |
3553 | } | |
3554 | out << "#!/bin/bash" << endl; | |
3555 | out << "echo \"=========================================\"" << endl; | |
3556 | out << "echo \"############## PATH : ##############\"" << endl; | |
3557 | out << "echo $PATH" << endl; | |
3558 | out << "echo \"############## LD_LIBRARY_PATH : ##############\"" << endl; | |
3559 | out << "echo $LD_LIBRARY_PATH" << endl; | |
3560 | out << "echo \"############## ROOTSYS : ##############\"" << endl; | |
3561 | out << "echo $ROOTSYS" << endl; | |
3562 | out << "echo \"############## which root : ##############\"" << endl; | |
3563 | out << "which root" << endl; | |
3564 | out << "echo \"############## ALICE_ROOT : ##############\"" << endl; | |
3565 | out << "echo $ALICE_ROOT" << endl; | |
3566 | out << "echo \"############## which aliroot : ##############\"" << endl; | |
3567 | out << "which aliroot" << endl; | |
3568 | out << "echo \"############## system limits : ##############\"" << endl; | |
3569 | out << "ulimit -a" << endl; | |
3570 | out << "echo \"############## memory : ##############\"" << endl; | |
3571 | out << "free -m" << endl; | |
3572 | out << "echo \"=========================================\"" << endl << endl; | |
3573 | // Make sure we can properly compile par files | |
3574 | if (TObject::TestBit(AliAnalysisGrid::kUsePars)) out << "export LD_LIBRARY_PATH=.:$LD_LIBRARY_PATH" << endl; | |
3575 | TString mergeMacro = fExecutable; | |
3576 | mergeMacro.ReplaceAll(".sh", "_merge.C"); | |
f790bc1b | 3577 | if (IsOneStageMerging()) |
3578 | out << "export ARG=\"" << mergeMacro << "(\\\"$1\\\")\"" << endl; | |
3579 | else | |
3580 | out << "export ARG=\"" << mergeMacro << "(\\\"$1\\\",$2,$3)\"" << endl; | |
0f389141 | 3581 | out << fExecutableCommand << " " << "$ARG" << endl; |
3582 | out << "echo \"======== " << mergeMacro.Data() << " finished with exit code: $? ========\"" << endl; | |
3583 | out << "echo \"############## memory after: ##############\"" << endl; | |
3584 | out << "free -m" << endl; | |
0f389141 | 3585 | } |
3586 | Bool_t copy = kTRUE; | |
d3b18c4c | 3587 | if (fProductionMode || TestBit(AliAnalysisGrid::kOffline) || TestBit(AliAnalysisGrid::kTest)) copy = kFALSE; |
0f389141 | 3588 | if (copy) { |
3589 | CdWork(); | |
3590 | TString workdir = gGrid->GetHomeDirectory(); | |
3591 | TString bindir = Form("%s/bin", workdir.Data()); | |
b93f8109 | 3592 | if (!DirectoryExists(bindir)) gGrid->Mkdir(bindir,"-p"); |
0f389141 | 3593 | workdir += fGridWorkingDir; |
3594 | TString executable = Form("%s/bin/%s", gGrid->GetHomeDirectory(), mergeExec.Data()); | |
3595 | if (FileExists(executable)) gGrid->Rm(executable); | |
d3b18c4c | 3596 | Info("WriteMergeExecutable", "\n##### Copying executable file <%s> to your AliEn bin directory", mergeExec.Data()); |
0f389141 | 3597 | TFile::Cp(Form("file:%s",mergeExec.Data()), Form("alien://%s", executable.Data())); |
3598 | } | |
3599 | } | |
3600 | ||
c57f56b7 | 3601 | //______________________________________________________________________________ |
5513444a | 3602 | void AliAnalysisAlien::WriteProductionFile(const char *filename) const |
3603 | { | |
3604 | // Write the production file to be submitted by LPM manager. The format is: | |
f5e8c702 | 3605 | // First line: full_path_to_jdl estimated_no_subjobs_per_master |
5513444a | 3606 | // Next lines: full_path_to_dataset XXX (XXX is a string) |
3607 | // To submit, one has to: submit jdl XXX for all lines | |
3608 | ofstream out; | |
3609 | out.open(filename, ios::out); | |
3610 | if (out.bad()) { | |
3611 | Error("WriteProductionFile", "Bad file name: %s", filename); | |
3612 | return; | |
3613 | } | |
d3b18c4c | 3614 | TString workdir; |
3615 | if (!fProductionMode && !fGridWorkingDir.BeginsWith("/alice")) | |
3616 | workdir = gGrid->GetHomeDirectory(); | |
5513444a | 3617 | workdir += fGridWorkingDir; |
f5e8c702 | 3618 | Int_t njobspermaster = 1000*fNrunsPerMaster/fSplitMaxInputFileNumber; |
5513444a | 3619 | TString locjdl = Form("%s/%s", workdir.Data(),fJDLName.Data()); |
f5e8c702 | 3620 | out << locjdl << " " << njobspermaster << endl; |
5513444a | 3621 | Int_t nmasterjobs = fInputFiles->GetEntries(); |
3622 | for (Int_t i=0; i<nmasterjobs; i++) { | |
409b4ada | 3623 | TString runOutDir = gSystem->BaseName(fInputFiles->At(i)->GetName()); |
3624 | runOutDir.ReplaceAll(".xml", ""); | |
3625 | if (fOutputToRunNo) | |
3626 | out << Form("%s", fInputFiles->At(i)->GetName()) << " " << runOutDir << endl; | |
3627 | else | |
3628 | out << Form("%s", fInputFiles->At(i)->GetName()) << " " << Form("%03d", i) << endl; | |
5513444a | 3629 | } |
d3b18c4c | 3630 | if (gGrid) { |
3631 | Info("WriteProductionFile", "\n##### Copying production file <%s> to your work directory", filename); | |
3632 | if (FileExists(filename)) gGrid->Rm(filename); | |
3633 | TFile::Cp(Form("file:%s",filename), Form("alien://%s/%s", workdir.Data(),filename)); | |
3634 | } | |
5513444a | 3635 | } |
3636 | ||
3637 | //______________________________________________________________________________ | |
0f389141 | 3638 | void AliAnalysisAlien::WriteValidationScript(Bool_t merge) |
c57f56b7 | 3639 | { |
3640 | // Generate the alien validation script. | |
3641 | // Generate the validation script | |
3642 | TObjString *os; | |
d3b18c4c | 3643 | if (fValidationScript.IsNull()) { |
3644 | fValidationScript = fExecutable; | |
3645 | fValidationScript.ReplaceAll(".sh", "_validation.sh"); | |
3646 | } | |
3647 | TString validationScript = fValidationScript; | |
3648 | if (merge) validationScript.ReplaceAll(".sh", "_merge.sh"); | |
c57f56b7 | 3649 | if (!Connect()) { |
3650 | Error("WriteValidationScript", "Alien connection required"); | |
3651 | return; | |
3652 | } | |
d3b18c4c | 3653 | if (!fTerminateFiles.IsNull()) { |
3654 | fTerminateFiles.Strip(); | |
3655 | fTerminateFiles.ReplaceAll(" ",","); | |
3656 | } | |
a2f5fc01 | 3657 | TString outStream = ""; |
3658 | if (!TestBit(AliAnalysisGrid::kTest)) outStream = " >> stdout"; | |
c57f56b7 | 3659 | if (!TestBit(AliAnalysisGrid::kSubmit)) { |
3660 | ofstream out; | |
0d5d317c | 3661 | out.open(validationScript, ios::out); |
c57f56b7 | 3662 | out << "#!/bin/bash" << endl; |
3663 | out << "##################################################" << endl; | |
3664 | out << "validateout=`dirname $0`" << endl; | |
3665 | out << "validatetime=`date`" << endl; | |
3666 | out << "validated=\"0\";" << endl; | |
3667 | out << "error=0" << endl; | |
3668 | out << "if [ -z $validateout ]" << endl; | |
3669 | out << "then" << endl; | |
3670 | out << " validateout=\".\"" << endl; | |
3671 | out << "fi" << endl << endl; | |
3672 | out << "cd $validateout;" << endl; | |
3673 | out << "validateworkdir=`pwd`;" << endl << endl; | |
a2f5fc01 | 3674 | out << "echo \"*******************************************************\"" << outStream << endl; |
3675 | out << "echo \"* Automatically generated validation script *\"" << outStream << endl; | |
c57f56b7 | 3676 | out << "" << endl; |
a2f5fc01 | 3677 | out << "echo \"* Time: $validatetime \"" << outStream << endl; |
3678 | out << "echo \"* Dir: $validateout\"" << outStream << endl; | |
3679 | out << "echo \"* Workdir: $validateworkdir\"" << outStream << endl; | |
3680 | out << "echo \"* ----------------------------------------------------*\"" << outStream << endl; | |
3681 | out << "ls -la ./" << outStream << endl; | |
3682 | out << "echo \"* ----------------------------------------------------*\"" << outStream << endl << endl; | |
c57f56b7 | 3683 | out << "##################################################" << endl; |
ebec370a | 3684 | out << "" << endl; |
3685 | ||
3686 | out << "if [ ! -f stderr ] ; then" << endl; | |
3687 | out << " error=1" << endl; | |
a2f5fc01 | 3688 | out << " echo \"* ########## Job not validated - no stderr ###\" " << outStream << endl; |
3689 | out << " echo \"Error = $error\" " << outStream << endl; | |
ebec370a | 3690 | out << "fi" << endl; |
3691 | ||
b34c9f51 | 3692 | out << "parArch=`grep -Ei \"Cannot Build the PAR Archive\" stderr`" << endl; |
3693 | out << "segViol=`grep -Ei \"Segmentation violation\" stderr`" << endl; | |
3694 | out << "segFault=`grep -Ei \"Segmentation fault\" stderr`" << endl; | |
3695 | out << "glibcErr=`grep -Ei \"*** glibc detected ***\" stderr`" << endl; | |
3696 | out << "" << endl; | |
3697 | ||
ebec370a | 3698 | out << "if [ \"$parArch\" != \"\" ] ; then" << endl; |
3699 | out << " error=1" << endl; | |
a2f5fc01 | 3700 | out << " echo \"* ########## Job not validated - PAR archive not built ###\" " << outStream << endl; |
3701 | out << " echo \"$parArch\" " << outStream << endl; | |
3702 | out << " echo \"Error = $error\" " << outStream << endl; | |
ebec370a | 3703 | out << "fi" << endl; |
3704 | ||
3705 | out << "if [ \"$segViol\" != \"\" ] ; then" << endl; | |
3706 | out << " error=1" << endl; | |
a2f5fc01 | 3707 | out << " echo \"* ########## Job not validated - Segment. violation ###\" " << outStream << endl; |
3708 | out << " echo \"$segViol\" " << outStream << endl; | |
3709 | out << " echo \"Error = $error\" " << outStream << endl; | |
ebec370a | 3710 | out << "fi" << endl; |
3711 | ||
3712 | out << "if [ \"$segFault\" != \"\" ] ; then" << endl; | |
3713 | out << " error=1" << endl; | |
a2f5fc01 | 3714 | out << " echo \"* ########## Job not validated - Segment. fault ###\" " << outStream << endl; |
3715 | out << " echo \"$segFault\" " << outStream << endl; | |
3716 | out << " echo \"Error = $error\" " << outStream << endl; | |
ebec370a | 3717 | out << "fi" << endl; |
3718 | ||
b34c9f51 | 3719 | out << "if [ \"$glibcErr\" != \"\" ] ; then" << endl; |
3720 | out << " error=1" << endl; | |
a2f5fc01 | 3721 | out << " echo \"* ########## Job not validated - *** glibc detected *** ###\" " << outStream << endl; |
3722 | out << " echo \"$glibcErr\" " << outStream << endl; | |
3723 | out << " echo \"Error = $error\" " << outStream << endl; | |
b34c9f51 | 3724 | out << "fi" << endl; |
3725 | ||
ebec370a | 3726 | // Part dedicated to the specific analyses running into the train |
3727 | ||
d3b18c4c | 3728 | TString outputFiles = fOutputFiles; |
3729 | if (merge && !fTerminateFiles.IsNull()) { | |
3730 | outputFiles += ","; | |
3731 | outputFiles += fTerminateFiles; | |
3732 | } | |
3733 | TObjArray *arr = outputFiles.Tokenize(","); | |
c57f56b7 | 3734 | TIter next1(arr); |
a2f5fc01 | 3735 | TString outputFile; |
c57f56b7 | 3736 | while ((os=(TObjString*)next1())) { |
a2f5fc01 | 3737 | outputFile = os->GetString(); |
3738 | Int_t index = outputFile.Index("@"); | |
3739 | if (index > 0) outputFile.Remove(index); | |
d3b18c4c | 3740 | if (!merge && fTerminateFiles.Contains(outputFile)) continue; |
a2f5fc01 | 3741 | if (merge && fMergeExcludes.Contains(outputFile)) continue; |
a2f5fc01 | 3742 | if (outputFile.Contains("*")) continue; |
3743 | out << "if ! [ -f " << outputFile.Data() << " ] ; then" << endl; | |
c57f56b7 | 3744 | out << " error=1" << endl; |
7c2cd90a | 3745 | out << " echo \"Output file " << outputFile << " not found. Job FAILED !\"" << outStream << endl; |
3746 | out << " echo \"Output file " << outputFile << " not found. Job FAILED !\" >> stderr" << endl; | |
c57f56b7 | 3747 | out << "fi" << endl; |
3748 | } | |
3749 | delete arr; | |
7c2cd90a | 3750 | out << "if ! [ -f outputs_valid ] ; then" << endl; |
3751 | out << " error=1" << endl; | |
3752 | out << " echo \"Output files were not validated by the analysis manager\" >> stdout" << endl; | |
3753 | out << " echo \"Output files were not validated by the analysis manager\" >> stderr" << endl; | |
3754 | out << "fi" << endl; | |
923e2ca5 | 3755 | |
c57f56b7 | 3756 | out << "if [ $error = 0 ] ; then" << endl; |
a2f5fc01 | 3757 | out << " echo \"* ---------------- Job Validated ------------------*\"" << outStream << endl; |
149d288c | 3758 | if (!IsKeepLogs()) { |
3759 | out << " echo \"* === Logs std* will be deleted === \"" << endl; | |
a2f5fc01 | 3760 | outStream = ""; |
149d288c | 3761 | out << " rm -f std*" << endl; |
3762 | } | |
c57f56b7 | 3763 | out << "fi" << endl; |
3764 | ||
a2f5fc01 | 3765 | out << "echo \"* ----------------------------------------------------*\"" << outStream << endl; |
3766 | out << "echo \"*******************************************************\"" << outStream << endl; | |
c57f56b7 | 3767 | out << "cd -" << endl; |
3768 | out << "exit $error" << endl; | |
3769 | } | |
3770 | Bool_t copy = kTRUE; | |
d3b18c4c | 3771 | if (fProductionMode || TestBit(AliAnalysisGrid::kOffline) || TestBit(AliAnalysisGrid::kTest)) copy = kFALSE; |
c57f56b7 | 3772 | if (copy) { |
3773 | CdWork(); | |
3774 | TString workdir = gGrid->GetHomeDirectory(); | |
3775 | workdir += fGridWorkingDir; | |
d3b18c4c | 3776 | Info("WriteValidationScript", "\n##### Copying validation script <%s> to your AliEn working space", validationScript.Data()); |
0d5d317c | 3777 | if (FileExists(validationScript)) gGrid->Rm(validationScript); |
3778 | TFile::Cp(Form("file:%s",validationScript.Data()), Form("alien://%s/%s", workdir.Data(),validationScript.Data())); | |
c57f56b7 | 3779 | } |
3780 | } |