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c57f56b7 | 1 | /************************************************************************** |
2 | * Copyright(c) 1998-2007, ALICE Experiment at CERN, All rights reserved. * | |
3 | * * | |
4 | * Author: The ALICE Off-line Project. * | |
5 | * Contributors are mentioned in the code where appropriate. * | |
6 | * * | |
7 | * Permission to use, copy, modify and distribute this software and its * | |
8 | * documentation strictly for non-commercial purposes is hereby granted * | |
9 | * without fee, provided that the above copyright notice appears in all * | |
10 | * copies and that both the copyright notice and this permission notice * | |
11 | * appear in the supporting documentation. The authors make no claims * | |
12 | * about the suitability of this software for any purpose. It is * | |
13 | * provided "as is" without express or implied warranty. * | |
14 | **************************************************************************/ | |
15 | ||
16 | // Author: Mihaela Gheata, 01/09/2008 | |
17 | ||
18 | //============================================================================== | |
19 | // AliAnalysisAlien - AliEn utility class. Provides interface for creating | |
20 | // a personalized JDL, finding and creating a dataset. | |
21 | //============================================================================== | |
22 | ||
65eb22f8 | 23 | #include "AliAnalysisAlien.h" |
24 | ||
c57f56b7 | 25 | #include "Riostream.h" |
0f389141 | 26 | #include "TEnv.h" |
105631b5 | 27 | #include "TKey.h" |
7c2cd90a | 28 | #include "TBits.h" |
0f389141 | 29 | #include "TError.h" |
c57f56b7 | 30 | #include "TROOT.h" |
31 | #include "TSystem.h" | |
32 | #include "TFile.h" | |
830acc4c | 33 | #include "TFileCollection.h" |
3bdcb562 | 34 | #include "TChain.h" |
c57f56b7 | 35 | #include "TObjString.h" |
36 | #include "TObjArray.h" | |
77f34eae | 37 | #include "TMacro.h" |
c57f56b7 | 38 | #include "TGrid.h" |
39 | #include "TGridResult.h" | |
40 | #include "TGridCollection.h" | |
41 | #include "TGridJDL.h" | |
d2a409b2 | 42 | #include "TGridJobStatusList.h" |
43 | #include "TGridJobStatus.h" | |
c57f56b7 | 44 | #include "TFileMerger.h" |
45 | #include "AliAnalysisManager.h" | |
77f34eae | 46 | #include "AliAnalysisTaskCfg.h" |
bb885a9e | 47 | #include "AliVEventHandler.h" |
48 | #include "AliAnalysisDataContainer.h" | |
65eb22f8 | 49 | #include "AliMultiInputEventHandler.h" |
c57f56b7 | 50 | |
c82bb898 | 51 | using std::ofstream; |
52 | using std::ifstream; | |
53 | using std::ios; | |
54 | using std::endl; | |
c57f56b7 | 55 | ClassImp(AliAnalysisAlien) |
6c395669 | 56 | #if 0 |
57 | ; | |
58 | #endif | |
c57f56b7 | 59 | |
6c395669 | 60 | namespace { |
61 | Bool_t copyLocal2Alien(const char* where, const char* loc, const char* rem) | |
62 | { | |
63 | TString sl(Form("file:%s", loc)); | |
64 | TString sr(Form("alien://%s", rem)); | |
65 | Bool_t ret = TFile::Cp(sl, sr); | |
66 | if (!ret) { | |
67 | Warning(where, "Failed to copy %s to %s", sl.Data(), sr.Data()); | |
68 | } | |
69 | return ret; | |
70 | } | |
71 | } | |
72 | ||
c57f56b7 | 73 | //______________________________________________________________________________ |
74 | AliAnalysisAlien::AliAnalysisAlien() | |
75 | :AliAnalysisGrid(), | |
76 | fGridJDL(NULL), | |
0f389141 | 77 | fMergingJDL(NULL), |
c57f56b7 | 78 | fPrice(0), |
79 | fTTL(0), | |
80 | fSplitMaxInputFileNumber(0), | |
81 | fMaxInitFailed(0), | |
82 | fMasterResubmitThreshold(0), | |
bb885a9e | 83 | fNtestFiles(0), |
319593fb | 84 | fNrunsPerMaster(0), |
16a4353c | 85 | fMaxMergeFiles(0), |
b3e07543 | 86 | fMaxMergeStages(0), |
d2a409b2 | 87 | fNsubmitted(0), |
a3e84053 | 88 | fProductionMode(0), |
cd11251e | 89 | fOutputToRunNo(0), |
0f389141 | 90 | fMergeViaJDL(0), |
91 | fFastReadOption(0), | |
e1c22e21 | 92 | fOverwriteMode(1), |
149d288c | 93 | fNreplicas(2), |
3bdcb562 | 94 | fNproofWorkers(0), |
27734f0e | 95 | fNproofWorkersPerSlave(0), |
3bdcb562 | 96 | fProofReset(0), |
c57f56b7 | 97 | fRunNumbers(), |
98 | fExecutable(), | |
0a1c1f7f | 99 | fExecutableCommand(), |
c57f56b7 | 100 | fArguments(), |
631c0b05 | 101 | fExecutableArgs(), |
c57f56b7 | 102 | fAnalysisMacro(), |
103 | fAnalysisSource(), | |
d3b18c4c | 104 | fValidationScript(), |
d5c6455a | 105 | fAdditionalRootLibs(), |
c57f56b7 | 106 | fAdditionalLibs(), |
107 | fSplitMode(), | |
108 | fAPIVersion(), | |
109 | fROOTVersion(), | |
110 | fAliROOTVersion(), | |
648174cf | 111 | fExternalPackages(), |
c57f56b7 | 112 | fUser(), |
113 | fGridWorkingDir(), | |
114 | fGridDataDir(), | |
115 | fDataPattern(), | |
116 | fGridOutputDir(), | |
117 | fOutputArchive(), | |
118 | fOutputFiles(), | |
119 | fInputFormat(), | |
e7c71df0 | 120 | fDatasetName(), |
c57f56b7 | 121 | fJDLName(), |
d3b18c4c | 122 | fTerminateFiles(), |
bb885a9e | 123 | fMergeExcludes(), |
37d21c01 | 124 | fRegisterExcludes(), |
f965131e | 125 | fIncludePath(), |
bb885a9e | 126 | fCloseSE(), |
0df6ccf2 | 127 | fFriendChainName(), |
c6cb3634 | 128 | fJobTag(), |
648174cf | 129 | fOutputSingle(), |
5fce53f4 | 130 | fRunPrefix(), |
3bdcb562 | 131 | fProofCluster(), |
132 | fProofDataSet(), | |
133 | fFileForTestMode(), | |
3bdcb562 | 134 | fAliRootMode(), |
d88e4159 | 135 | fProofProcessOpt(), |
f47d5cb4 | 136 | fMergeDirName(), |
4e5c5506 | 137 | fInputFiles(0), |
28ce6c9c | 138 | fPackages(0), |
77f34eae | 139 | fModules(0), |
d88e4159 | 140 | fProofParam(), |
0ad3ea1f | 141 | fDropToShell(true), |
142 | fGridJobIDs(""), | |
143 | fGridStages("") | |
c57f56b7 | 144 | { |
145 | // Dummy ctor. | |
146 | SetDefaults(); | |
147 | } | |
148 | ||
149 | //______________________________________________________________________________ | |
150 | AliAnalysisAlien::AliAnalysisAlien(const char *name) | |
151 | :AliAnalysisGrid(name), | |
152 | fGridJDL(NULL), | |
0f389141 | 153 | fMergingJDL(NULL), |
c57f56b7 | 154 | fPrice(0), |
155 | fTTL(0), | |
156 | fSplitMaxInputFileNumber(0), | |
157 | fMaxInitFailed(0), | |
158 | fMasterResubmitThreshold(0), | |
bb885a9e | 159 | fNtestFiles(0), |
319593fb | 160 | fNrunsPerMaster(0), |
16a4353c | 161 | fMaxMergeFiles(0), |
b3e07543 | 162 | fMaxMergeStages(0), |
d2a409b2 | 163 | fNsubmitted(0), |
a3e84053 | 164 | fProductionMode(0), |
cd11251e | 165 | fOutputToRunNo(0), |
0f389141 | 166 | fMergeViaJDL(0), |
167 | fFastReadOption(0), | |
e1c22e21 | 168 | fOverwriteMode(1), |
149d288c | 169 | fNreplicas(2), |
3bdcb562 | 170 | fNproofWorkers(0), |
27734f0e | 171 | fNproofWorkersPerSlave(0), |
3bdcb562 | 172 | fProofReset(0), |
c57f56b7 | 173 | fRunNumbers(), |
174 | fExecutable(), | |
0a1c1f7f | 175 | fExecutableCommand(), |
c57f56b7 | 176 | fArguments(), |
631c0b05 | 177 | fExecutableArgs(), |
c57f56b7 | 178 | fAnalysisMacro(), |
179 | fAnalysisSource(), | |
d3b18c4c | 180 | fValidationScript(), |
d5c6455a | 181 | fAdditionalRootLibs(), |
c57f56b7 | 182 | fAdditionalLibs(), |
183 | fSplitMode(), | |
184 | fAPIVersion(), | |
185 | fROOTVersion(), | |
186 | fAliROOTVersion(), | |
648174cf | 187 | fExternalPackages(), |
c57f56b7 | 188 | fUser(), |
189 | fGridWorkingDir(), | |
190 | fGridDataDir(), | |
191 | fDataPattern(), | |
192 | fGridOutputDir(), | |
193 | fOutputArchive(), | |
194 | fOutputFiles(), | |
195 | fInputFormat(), | |
e7c71df0 | 196 | fDatasetName(), |
c57f56b7 | 197 | fJDLName(), |
d3b18c4c | 198 | fTerminateFiles(), |
bb885a9e | 199 | fMergeExcludes(), |
37d21c01 | 200 | fRegisterExcludes(), |
f965131e | 201 | fIncludePath(), |
bb885a9e | 202 | fCloseSE(), |
0df6ccf2 | 203 | fFriendChainName(), |
c6cb3634 | 204 | fJobTag(), |
648174cf | 205 | fOutputSingle(), |
5fce53f4 | 206 | fRunPrefix(), |
3bdcb562 | 207 | fProofCluster(), |
208 | fProofDataSet(), | |
209 | fFileForTestMode(), | |
3bdcb562 | 210 | fAliRootMode(), |
d88e4159 | 211 | fProofProcessOpt(), |
f47d5cb4 | 212 | fMergeDirName(), |
4e5c5506 | 213 | fInputFiles(0), |
28ce6c9c | 214 | fPackages(0), |
77f34eae | 215 | fModules(0), |
d88e4159 | 216 | fProofParam(), |
0ad3ea1f | 217 | fDropToShell(true), |
218 | fGridJobIDs(""), | |
219 | fGridStages("") | |
c57f56b7 | 220 | { |
221 | // Default ctor. | |
222 | SetDefaults(); | |
223 | } | |
224 | ||
225 | //______________________________________________________________________________ | |
226 | AliAnalysisAlien::AliAnalysisAlien(const AliAnalysisAlien& other) | |
227 | :AliAnalysisGrid(other), | |
228 | fGridJDL(NULL), | |
0f389141 | 229 | fMergingJDL(NULL), |
c57f56b7 | 230 | fPrice(other.fPrice), |
231 | fTTL(other.fTTL), | |
232 | fSplitMaxInputFileNumber(other.fSplitMaxInputFileNumber), | |
233 | fMaxInitFailed(other.fMaxInitFailed), | |
234 | fMasterResubmitThreshold(other.fMasterResubmitThreshold), | |
bb885a9e | 235 | fNtestFiles(other.fNtestFiles), |
319593fb | 236 | fNrunsPerMaster(other.fNrunsPerMaster), |
16a4353c | 237 | fMaxMergeFiles(other.fMaxMergeFiles), |
b3e07543 | 238 | fMaxMergeStages(other.fMaxMergeStages), |
d2a409b2 | 239 | fNsubmitted(other.fNsubmitted), |
a3e84053 | 240 | fProductionMode(other.fProductionMode), |
cd11251e | 241 | fOutputToRunNo(other.fOutputToRunNo), |
0f389141 | 242 | fMergeViaJDL(other.fMergeViaJDL), |
243 | fFastReadOption(other.fFastReadOption), | |
244 | fOverwriteMode(other.fOverwriteMode), | |
149d288c | 245 | fNreplicas(other.fNreplicas), |
3bdcb562 | 246 | fNproofWorkers(other.fNproofWorkers), |
27734f0e | 247 | fNproofWorkersPerSlave(other.fNproofWorkersPerSlave), |
3bdcb562 | 248 | fProofReset(other.fProofReset), |
c57f56b7 | 249 | fRunNumbers(other.fRunNumbers), |
250 | fExecutable(other.fExecutable), | |
0a1c1f7f | 251 | fExecutableCommand(other.fExecutableCommand), |
c57f56b7 | 252 | fArguments(other.fArguments), |
631c0b05 | 253 | fExecutableArgs(other.fExecutableArgs), |
c57f56b7 | 254 | fAnalysisMacro(other.fAnalysisMacro), |
255 | fAnalysisSource(other.fAnalysisSource), | |
d3b18c4c | 256 | fValidationScript(other.fValidationScript), |
d5c6455a | 257 | fAdditionalRootLibs(other.fAdditionalRootLibs), |
c57f56b7 | 258 | fAdditionalLibs(other.fAdditionalLibs), |
259 | fSplitMode(other.fSplitMode), | |
260 | fAPIVersion(other.fAPIVersion), | |
261 | fROOTVersion(other.fROOTVersion), | |
262 | fAliROOTVersion(other.fAliROOTVersion), | |
648174cf | 263 | fExternalPackages(other.fExternalPackages), |
c57f56b7 | 264 | fUser(other.fUser), |
265 | fGridWorkingDir(other.fGridWorkingDir), | |
266 | fGridDataDir(other.fGridDataDir), | |
267 | fDataPattern(other.fDataPattern), | |
268 | fGridOutputDir(other.fGridOutputDir), | |
269 | fOutputArchive(other.fOutputArchive), | |
270 | fOutputFiles(other.fOutputFiles), | |
271 | fInputFormat(other.fInputFormat), | |
e7c71df0 | 272 | fDatasetName(other.fDatasetName), |
c57f56b7 | 273 | fJDLName(other.fJDLName), |
d3b18c4c | 274 | fTerminateFiles(other.fTerminateFiles), |
bb885a9e | 275 | fMergeExcludes(other.fMergeExcludes), |
37d21c01 | 276 | fRegisterExcludes(other.fRegisterExcludes), |
f965131e | 277 | fIncludePath(other.fIncludePath), |
bb885a9e | 278 | fCloseSE(other.fCloseSE), |
0df6ccf2 | 279 | fFriendChainName(other.fFriendChainName), |
c6cb3634 | 280 | fJobTag(other.fJobTag), |
648174cf | 281 | fOutputSingle(other.fOutputSingle), |
5fce53f4 | 282 | fRunPrefix(other.fRunPrefix), |
3bdcb562 | 283 | fProofCluster(other.fProofCluster), |
284 | fProofDataSet(other.fProofDataSet), | |
285 | fFileForTestMode(other.fFileForTestMode), | |
3bdcb562 | 286 | fAliRootMode(other.fAliRootMode), |
d88e4159 | 287 | fProofProcessOpt(other.fProofProcessOpt), |
f47d5cb4 | 288 | fMergeDirName(other.fMergeDirName), |
4e5c5506 | 289 | fInputFiles(0), |
28ce6c9c | 290 | fPackages(0), |
77f34eae | 291 | fModules(0), |
d88e4159 | 292 | fProofParam(), |
0ad3ea1f | 293 | fDropToShell(other.fDropToShell), |
294 | fGridJobIDs(other.fGridJobIDs), | |
295 | fGridStages(other.fGridStages) | |
c57f56b7 | 296 | { |
297 | // Copy ctor. | |
298 | fGridJDL = (TGridJDL*)gROOT->ProcessLine("new TAlienJDL()"); | |
0f389141 | 299 | fMergingJDL = (TGridJDL*)gROOT->ProcessLine("new TAlienJDL()"); |
a8739e8a | 300 | fRunRange[0] = other.fRunRange[0]; |
301 | fRunRange[1] = other.fRunRange[1]; | |
c57f56b7 | 302 | if (other.fInputFiles) { |
303 | fInputFiles = new TObjArray(); | |
304 | TIter next(other.fInputFiles); | |
305 | TObject *obj; | |
306 | while ((obj=next())) fInputFiles->Add(new TObjString(obj->GetName())); | |
307 | fInputFiles->SetOwner(); | |
308 | } | |
4e5c5506 | 309 | if (other.fPackages) { |
310 | fPackages = new TObjArray(); | |
311 | TIter next(other.fPackages); | |
312 | TObject *obj; | |
313 | while ((obj=next())) fPackages->Add(new TObjString(obj->GetName())); | |
314 | fPackages->SetOwner(); | |
315 | } | |
77f34eae | 316 | if (other.fModules) { |
317 | fModules = new TObjArray(); | |
318 | fModules->SetOwner(); | |
319 | TIter next(other.fModules); | |
320 | AliAnalysisTaskCfg *mod, *crt; | |
321 | while ((crt=(AliAnalysisTaskCfg*)next())) { | |
322 | mod = new AliAnalysisTaskCfg(*crt); | |
323 | fModules->Add(mod); | |
324 | } | |
325 | } | |
c57f56b7 | 326 | } |
327 | ||
328 | //______________________________________________________________________________ | |
329 | AliAnalysisAlien::~AliAnalysisAlien() | |
330 | { | |
331 | // Destructor. | |
77f34eae | 332 | delete fGridJDL; |
333 | delete fMergingJDL; | |
334 | delete fInputFiles; | |
335 | delete fPackages; | |
336 | delete fModules; | |
28ce6c9c | 337 | fProofParam.DeleteAll(); |
c57f56b7 | 338 | } |
339 | ||
340 | //______________________________________________________________________________ | |
341 | AliAnalysisAlien &AliAnalysisAlien::operator=(const AliAnalysisAlien& other) | |
342 | { | |
343 | // Assignment. | |
344 | if (this != &other) { | |
345 | AliAnalysisGrid::operator=(other); | |
346 | fGridJDL = (TGridJDL*)gROOT->ProcessLine("new TAlienJDL()"); | |
0f389141 | 347 | fMergingJDL = (TGridJDL*)gROOT->ProcessLine("new TAlienJDL()"); |
c57f56b7 | 348 | fPrice = other.fPrice; |
349 | fTTL = other.fTTL; | |
350 | fSplitMaxInputFileNumber = other.fSplitMaxInputFileNumber; | |
351 | fMaxInitFailed = other.fMaxInitFailed; | |
352 | fMasterResubmitThreshold = other.fMasterResubmitThreshold; | |
bb885a9e | 353 | fNtestFiles = other.fNtestFiles; |
a3e84053 | 354 | fNrunsPerMaster = other.fNrunsPerMaster; |
355 | fMaxMergeFiles = other.fMaxMergeFiles; | |
b3e07543 | 356 | fMaxMergeStages = other.fMaxMergeStages; |
a3e84053 | 357 | fNsubmitted = other.fNsubmitted; |
358 | fProductionMode = other.fProductionMode; | |
cd11251e | 359 | fOutputToRunNo = other.fOutputToRunNo; |
0f389141 | 360 | fMergeViaJDL = other.fMergeViaJDL; |
361 | fFastReadOption = other.fFastReadOption; | |
362 | fOverwriteMode = other.fOverwriteMode; | |
149d288c | 363 | fNreplicas = other.fNreplicas; |
3bdcb562 | 364 | fNproofWorkers = other.fNproofWorkers; |
27734f0e | 365 | fNproofWorkersPerSlave = other.fNproofWorkersPerSlave; |
3bdcb562 | 366 | fProofReset = other.fProofReset; |
c57f56b7 | 367 | fRunNumbers = other.fRunNumbers; |
368 | fExecutable = other.fExecutable; | |
0a1c1f7f | 369 | fExecutableCommand = other.fExecutableCommand; |
c57f56b7 | 370 | fArguments = other.fArguments; |
631c0b05 | 371 | fExecutableArgs = other.fExecutableArgs; |
c57f56b7 | 372 | fAnalysisMacro = other.fAnalysisMacro; |
373 | fAnalysisSource = other.fAnalysisSource; | |
d3b18c4c | 374 | fValidationScript = other.fValidationScript; |
d5c6455a | 375 | fAdditionalRootLibs = other.fAdditionalRootLibs; |
c57f56b7 | 376 | fAdditionalLibs = other.fAdditionalLibs; |
377 | fSplitMode = other.fSplitMode; | |
378 | fAPIVersion = other.fAPIVersion; | |
379 | fROOTVersion = other.fROOTVersion; | |
380 | fAliROOTVersion = other.fAliROOTVersion; | |
648174cf | 381 | fExternalPackages = other.fExternalPackages; |
c57f56b7 | 382 | fUser = other.fUser; |
383 | fGridWorkingDir = other.fGridWorkingDir; | |
384 | fGridDataDir = other.fGridDataDir; | |
385 | fDataPattern = other.fDataPattern; | |
386 | fGridOutputDir = other.fGridOutputDir; | |
387 | fOutputArchive = other.fOutputArchive; | |
388 | fOutputFiles = other.fOutputFiles; | |
389 | fInputFormat = other.fInputFormat; | |
e7c71df0 | 390 | fDatasetName = other.fDatasetName; |
c57f56b7 | 391 | fJDLName = other.fJDLName; |
d3b18c4c | 392 | fTerminateFiles = other.fTerminateFiles; |
bb885a9e | 393 | fMergeExcludes = other.fMergeExcludes; |
37d21c01 | 394 | fRegisterExcludes = other.fRegisterExcludes; |
f965131e | 395 | fIncludePath = other.fIncludePath; |
bb885a9e | 396 | fCloseSE = other.fCloseSE; |
0df6ccf2 | 397 | fFriendChainName = other.fFriendChainName; |
c6cb3634 | 398 | fJobTag = other.fJobTag; |
648174cf | 399 | fOutputSingle = other.fOutputSingle; |
5fce53f4 | 400 | fRunPrefix = other.fRunPrefix; |
3bdcb562 | 401 | fProofCluster = other.fProofCluster; |
402 | fProofDataSet = other.fProofDataSet; | |
403 | fFileForTestMode = other.fFileForTestMode; | |
3bdcb562 | 404 | fAliRootMode = other.fAliRootMode; |
d88e4159 | 405 | fProofProcessOpt = other.fProofProcessOpt; |
f47d5cb4 | 406 | fMergeDirName = other.fMergeDirName; |
d88e4159 | 407 | fDropToShell = other.fDropToShell; |
0ad3ea1f | 408 | fGridJobIDs = other.fGridJobIDs; |
409 | fGridStages = other.fGridStages; | |
c57f56b7 | 410 | if (other.fInputFiles) { |
411 | fInputFiles = new TObjArray(); | |
412 | TIter next(other.fInputFiles); | |
413 | TObject *obj; | |
414 | while ((obj=next())) fInputFiles->Add(new TObjString(obj->GetName())); | |
415 | fInputFiles->SetOwner(); | |
416 | } | |
4e5c5506 | 417 | if (other.fPackages) { |
418 | fPackages = new TObjArray(); | |
419 | TIter next(other.fPackages); | |
420 | TObject *obj; | |
421 | while ((obj=next())) fPackages->Add(new TObjString(obj->GetName())); | |
422 | fPackages->SetOwner(); | |
423 | } | |
77f34eae | 424 | if (other.fModules) { |
425 | fModules = new TObjArray(); | |
426 | fModules->SetOwner(); | |
427 | TIter next(other.fModules); | |
428 | AliAnalysisTaskCfg *mod, *crt; | |
429 | while ((crt=(AliAnalysisTaskCfg*)next())) { | |
430 | mod = new AliAnalysisTaskCfg(*crt); | |
431 | fModules->Add(mod); | |
432 | } | |
433 | } | |
c57f56b7 | 434 | } |
435 | return *this; | |
436 | } | |
437 | ||
37d21c01 | 438 | //______________________________________________________________________________ |
439 | void AliAnalysisAlien::AddAdditionalLibrary(const char *name) | |
440 | { | |
441 | // Add a single additional library to be loaded. Extension must be present. | |
442 | TString lib(name); | |
443 | if (!lib.Contains(".")) { | |
444 | Error("AddAdditionalLibrary", "Extension not defined for %s", name); | |
445 | return; | |
446 | } | |
447 | if (fAdditionalLibs.Contains(name)) { | |
448 | Warning("AddAdditionalLibrary", "Library %s already added.", name); | |
449 | return; | |
450 | } | |
451 | if (!fAdditionalLibs.IsNull()) fAdditionalLibs += " "; | |
452 | fAdditionalLibs += lib; | |
453 | } | |
454 | ||
77f34eae | 455 | //______________________________________________________________________________ |
456 | void AliAnalysisAlien::AddModule(AliAnalysisTaskCfg *module) | |
457 | { | |
458 | // Adding a module. Checks if already existing. Becomes owned by this. | |
459 | if (!module) return; | |
460 | if (GetModule(module->GetName())) { | |
461 | Error("AddModule", "A module having the same name %s already added", module->GetName()); | |
462 | return; | |
463 | } | |
464 | if (!fModules) { | |
465 | fModules = new TObjArray(); | |
466 | fModules->SetOwner(); | |
467 | } | |
468 | fModules->Add(module); | |
469 | } | |
470 | ||
471 | //______________________________________________________________________________ | |
472 | void AliAnalysisAlien::AddModules(TObjArray *list) | |
473 | { | |
474 | // Adding a list of modules. Checks if already existing. Becomes owned by this. | |
475 | TIter next(list); | |
476 | AliAnalysisTaskCfg *module; | |
477 | while ((module = (AliAnalysisTaskCfg*)next())) AddModule(module); | |
478 | } | |
479 | ||
480 | //______________________________________________________________________________ | |
481 | Bool_t AliAnalysisAlien::CheckDependencies() | |
482 | { | |
483 | // Check if all dependencies are satisfied. Reorder modules if needed. | |
484 | Int_t nmodules = GetNmodules(); | |
485 | if (!nmodules) { | |
486 | Warning("CheckDependencies", "No modules added yet to check their dependencies"); | |
487 | return kTRUE; | |
488 | } | |
489 | AliAnalysisTaskCfg *mod = 0; | |
490 | AliAnalysisTaskCfg *dep = 0; | |
491 | TString depname; | |
492 | Int_t i, j, k; | |
493 | for (i=0; i<nmodules; i++) { | |
494 | mod = (AliAnalysisTaskCfg*) fModules->At(i); | |
495 | Int_t ndeps = mod->GetNdeps(); | |
496 | Int_t istart = i; | |
497 | for (j=0; j<ndeps; j++) { | |
498 | depname = mod->GetDependency(j); | |
499 | dep = GetModule(depname); | |
500 | if (!dep) { | |
501 | Error("CheckDependencies","Dependency %s not added for module %s", | |
502 | depname.Data(), mod->GetName()); | |
503 | return kFALSE; | |
504 | } | |
505 | if (dep->NeedsDependency(mod->GetName())) { | |
506 | Error("CheckDependencies","Modules %s and %s circularly depend on each other", | |
507 | mod->GetName(), dep->GetName()); | |
508 | return kFALSE; | |
509 | } | |
510 | Int_t idep = fModules->IndexOf(dep); | |
511 | // The dependency task must come first | |
512 | if (idep>i) { | |
513 | // Remove at idep and move all objects below up one slot | |
514 | // down to index i included. | |
515 | fModules->RemoveAt(idep); | |
3e40fd4c | 516 | for (k=idep-1; k>=i; k--) fModules->AddAt(fModules->RemoveAt(k),k+1); |
77f34eae | 517 | fModules->AddAt(dep, i++); |
518 | } | |
519 | //Redo from istart if dependencies were inserted | |
520 | if (i>istart) i=istart-1; | |
521 | } | |
522 | } | |
523 | return kTRUE; | |
524 | } | |
525 | ||
3e40fd4c | 526 | //______________________________________________________________________________ |
527 | AliAnalysisManager *AliAnalysisAlien::CreateAnalysisManager(const char *name, const char *filename) | |
528 | { | |
529 | // Create the analysis manager and optionally execute the macro in filename. | |
530 | AliAnalysisManager *mgr = AliAnalysisManager::GetAnalysisManager(); | |
531 | if (mgr) return mgr; | |
532 | mgr = new AliAnalysisManager(name); | |
533 | mgr->SetGridHandler((AliAnalysisGrid*)this); | |
534 | if (strlen(filename)) { | |
535 | TString line = gSystem->ExpandPathName(filename); | |
536 | line.Prepend(".x "); | |
537 | gROOT->ProcessLine(line.Data()); | |
538 | } | |
539 | return mgr; | |
540 | } | |
541 | ||
77f34eae | 542 | //______________________________________________________________________________ |
543 | Int_t AliAnalysisAlien::GetNmodules() const | |
544 | { | |
545 | // Get number of modules. | |
546 | if (!fModules) return 0; | |
547 | return fModules->GetEntries(); | |
548 | } | |
549 | ||
550 | //______________________________________________________________________________ | |
551 | AliAnalysisTaskCfg *AliAnalysisAlien::GetModule(const char *name) | |
552 | { | |
553 | // Get a module by name. | |
554 | if (!fModules) return 0; | |
555 | return (AliAnalysisTaskCfg*)fModules->FindObject(name); | |
556 | } | |
557 | ||
558 | //______________________________________________________________________________ | |
559 | Bool_t AliAnalysisAlien::LoadModule(AliAnalysisTaskCfg *mod) | |
560 | { | |
561 | // Load a given module. | |
562 | if (mod->IsLoaded()) return kTRUE; | |
192ddca2 | 563 | AliAnalysisManager *mgr = AliAnalysisManager::GetAnalysisManager(); |
564 | if (!mgr) { | |
565 | Error("LoadModule", "No analysis manager created yet. Use CreateAnalysisManager first."); | |
566 | return kFALSE; | |
567 | } | |
77f34eae | 568 | Int_t ndeps = mod->GetNdeps(); |
569 | TString depname; | |
570 | for (Int_t j=0; j<ndeps; j++) { | |
571 | depname = mod->GetDependency(j); | |
572 | AliAnalysisTaskCfg *dep = GetModule(depname); | |
573 | if (!dep) { | |
574 | Error("LoadModule","Dependency %s not existing for module %s", | |
575 | depname.Data(), mod->GetName()); | |
576 | return kFALSE; | |
577 | } | |
578 | if (!LoadModule(dep)) { | |
579 | Error("LoadModule","Dependency %s for module %s could not be loaded", | |
580 | depname.Data(), mod->GetName()); | |
581 | return kFALSE; | |
582 | } | |
583 | } | |
584 | // Load libraries for the module | |
585 | if (!mod->CheckLoadLibraries()) { | |
586 | Error("LoadModule", "Cannot load all libraries for module %s", mod->GetName()); | |
587 | return kFALSE; | |
588 | } | |
192ddca2 | 589 | // Check if a custom file name was requested |
590 | if (strlen(mod->GetOutputFileName())) mgr->SetCommonFileName(mod->GetOutputFileName()); | |
591 | ||
592 | // Check if a custom terminate file name was requested | |
593 | if (strlen(mod->GetTerminateFileName())) { | |
594 | if (!fTerminateFiles.IsNull()) fTerminateFiles += ","; | |
595 | fTerminateFiles += mod->GetTerminateFileName(); | |
596 | } | |
597 | ||
77f34eae | 598 | // Execute the macro |
599 | if (mod->ExecuteMacro()<0) { | |
600 | Error("LoadModule", "Executing the macro %s with arguments: %s for module %s returned a negative value", | |
601 | mod->GetMacroName(), mod->GetMacroArgs(), mod->GetName()); | |
602 | return kFALSE; | |
603 | } | |
604 | // Configure dependencies | |
605 | if (mod->GetConfigMacro() && mod->ExecuteConfigMacro()<0) { | |
606 | Error("LoadModule", "There was an error executing the deps config macro %s for module %s", | |
607 | mod->GetConfigMacro()->GetTitle(), mod->GetName()); | |
608 | return kFALSE; | |
609 | } | |
5e8c7c22 | 610 | // Adjust extra libraries |
611 | Int_t nlibs = mod->GetNlibs(); | |
612 | TString lib; | |
613 | for (Int_t i=0; i<nlibs; i++) { | |
614 | lib = mod->GetLibrary(i); | |
5e8c7c22 | 615 | lib = Form("lib%s.so", lib.Data()); |
c9d6bd12 | 616 | if (fAdditionalLibs.Contains(lib)) continue; |
5e8c7c22 | 617 | if (!fAdditionalLibs.IsNull()) fAdditionalLibs += " "; |
618 | fAdditionalLibs += lib; | |
619 | } | |
77f34eae | 620 | return kTRUE; |
621 | } | |
622 | ||
139fe6ba | 623 | //______________________________________________________________________________ |
624 | Bool_t AliAnalysisAlien::GenerateTrain(const char *name) | |
625 | { | |
626 | // Generate the full train. | |
627 | fAdditionalLibs = ""; | |
628 | if (!LoadModules()) return kFALSE; | |
629 | AliAnalysisManager *mgr = AliAnalysisManager::GetAnalysisManager(); | |
630 | if (!mgr->InitAnalysis()) return kFALSE; | |
d512d8e2 | 631 | mgr->RunLocalInit(); |
139fe6ba | 632 | mgr->PrintStatus(); |
633 | Int_t productionMode = fProductionMode; | |
634 | SetProductionMode(); | |
635 | TString macro = fAnalysisMacro; | |
636 | TString executable = fExecutable; | |
637 | TString validation = fValidationScript; | |
638 | TString execCommand = fExecutableCommand; | |
639 | SetAnalysisMacro(Form("%s.C", name)); | |
640 | SetExecutable(Form("%s.sh", name)); | |
a8e31fb0 | 641 | // SetExecutableCommand("aliroot -b -q "); |
139fe6ba | 642 | SetValidationScript(Form("%s_validation.sh", name)); |
643 | StartAnalysis(); | |
644 | SetProductionMode(productionMode); | |
645 | fAnalysisMacro = macro; | |
646 | fExecutable = executable; | |
647 | fExecutableCommand = execCommand; | |
648 | fValidationScript = validation; | |
649 | return kTRUE; | |
650 | } | |
651 | ||
77f34eae | 652 | //______________________________________________________________________________ |
21ca8e59 | 653 | Bool_t AliAnalysisAlien::GenerateTest(const char *name, const char *modname) |
77f34eae | 654 | { |
655 | // Generate test macros for a single module or for the full train. | |
5e8c7c22 | 656 | fAdditionalLibs = ""; |
77f34eae | 657 | if (strlen(modname)) { |
21ca8e59 | 658 | if (!CheckDependencies()) return kFALSE; |
659 | AliAnalysisTaskCfg *mod = GetModule(modname); | |
660 | if (!mod) { | |
661 | Error("GenerateTest", "cannot generate test for inexistent module %s", modname); | |
662 | return kFALSE; | |
663 | } | |
664 | if (!LoadModule(mod)) return kFALSE; | |
665 | } else if (!LoadModules()) return kFALSE; | |
666 | AliAnalysisManager *mgr = AliAnalysisManager::GetAnalysisManager(); | |
667 | if (!mgr->InitAnalysis()) return kFALSE; | |
d512d8e2 | 668 | mgr->RunLocalInit(); |
21ca8e59 | 669 | mgr->PrintStatus(); |
670 | SetLocalTest(kTRUE); | |
671 | Int_t productionMode = fProductionMode; | |
672 | SetProductionMode(); | |
673 | TString macro = fAnalysisMacro; | |
674 | TString executable = fExecutable; | |
675 | TString validation = fValidationScript; | |
676 | TString execCommand = fExecutableCommand; | |
677 | SetAnalysisMacro(Form("%s.C", name)); | |
678 | SetExecutable(Form("%s.sh", name)); | |
d66aa2a9 | 679 | fOutputFiles = GetListOfFiles("outaod"); |
680 | // Add extra files registered to the analysis manager | |
681 | TString extra = GetListOfFiles("ext"); | |
682 | if (!extra.IsNull()) { | |
683 | extra.ReplaceAll(".root", "*.root"); | |
684 | if (!fOutputFiles.IsNull()) fOutputFiles += ","; | |
685 | fOutputFiles += extra; | |
686 | } | |
a8e31fb0 | 687 | // SetExecutableCommand("aliroot -b -q "); |
21ca8e59 | 688 | SetValidationScript(Form("%s_validation.sh", name)); |
689 | WriteAnalysisFile(); | |
690 | WriteAnalysisMacro(); | |
691 | WriteExecutable(); | |
692 | WriteValidationScript(); | |
ffbe06b9 | 693 | WriteMergingMacro(); |
694 | WriteMergeExecutable(); | |
695 | WriteValidationScript(kTRUE); | |
21ca8e59 | 696 | SetLocalTest(kFALSE); |
697 | SetProductionMode(productionMode); | |
698 | fAnalysisMacro = macro; | |
699 | fExecutable = executable; | |
700 | fExecutableCommand = execCommand; | |
701 | fValidationScript = validation; | |
77f34eae | 702 | return kTRUE; |
703 | } | |
704 | ||
705 | //______________________________________________________________________________ | |
706 | Bool_t AliAnalysisAlien::LoadModules() | |
707 | { | |
708 | // Load all modules by executing the AddTask macros. Checks first the dependencies. | |
5e8c7c22 | 709 | fAdditionalLibs = ""; |
21ca8e59 | 710 | Int_t nmodules = GetNmodules(); |
711 | if (!nmodules) { | |
712 | Warning("LoadModules", "No module to be loaded"); | |
713 | return kTRUE; | |
714 | } | |
3e40fd4c | 715 | AliAnalysisManager *mgr = AliAnalysisManager::GetAnalysisManager(); |
716 | if (!mgr) { | |
717 | Error("LoadModules", "No analysis manager created yet. Use CreateAnalysisManager first."); | |
718 | return kFALSE; | |
719 | } | |
77f34eae | 720 | if (!CheckDependencies()) return kFALSE; |
21ca8e59 | 721 | nmodules = GetNmodules(); |
77f34eae | 722 | AliAnalysisTaskCfg *mod; |
21ca8e59 | 723 | for (Int_t imod=0; imod<nmodules; imod++) { |
724 | mod = (AliAnalysisTaskCfg*)fModules->At(imod); | |
77f34eae | 725 | if (!LoadModule(mod)) return kFALSE; |
726 | } | |
77f34eae | 727 | return kTRUE; |
728 | } | |
729 | ||
74013535 | 730 | //______________________________________________________________________________ |
731 | void AliAnalysisAlien::SetRunPrefix(const char *prefix) | |
732 | { | |
733 | // Set the run number format. Can be a prefix or a format like "%09d" | |
734 | fRunPrefix = prefix; | |
735 | if (!fRunPrefix.Contains("%")) fRunPrefix += "%d"; | |
736 | } | |
737 | ||
f965131e | 738 | //______________________________________________________________________________ |
739 | void AliAnalysisAlien::AddIncludePath(const char *path) | |
740 | { | |
741 | // Add include path in the remote analysis macro. | |
742 | TString p(path); | |
743 | if (p.Contains("-I")) fIncludePath += Form("%s ", path); | |
744 | else fIncludePath += Form("-I%s ", path); | |
745 | } | |
746 | ||
c57f56b7 | 747 | //______________________________________________________________________________ |
748 | void AliAnalysisAlien::AddRunNumber(Int_t run) | |
749 | { | |
750 | // Add a run number to the list of runs to be processed. | |
751 | if (fRunNumbers.Length()) fRunNumbers += " "; | |
74013535 | 752 | fRunNumbers += Form(fRunPrefix.Data(), run); |
c57f56b7 | 753 | } |
754 | ||
98690895 | 755 | //______________________________________________________________________________ |
756 | void AliAnalysisAlien::AddRunList(const char* runList) | |
757 | { | |
758 | // Add several runs into the list of runs; they are expected to be separated by a blank character. | |
759 | TString sList = runList; | |
760 | TObjArray *list = sList.Tokenize(" "); | |
761 | Int_t n = list->GetEntries(); | |
762 | for (Int_t i = 0; i < n; i++) { | |
763 | TObjString *os = (TObjString*)list->At(i); | |
764 | AddRunNumber(os->GetString().Atoi()); | |
765 | } | |
766 | delete list; | |
767 | } | |
768 | ||
ee75cfc3 | 769 | //______________________________________________________________________________ |
770 | void AliAnalysisAlien::AddRunNumber(const char* run) | |
771 | { | |
772 | // Add a run number to the list of runs to be processed. | |
7aa5d539 | 773 | TString runs = run; |
774 | TObjString *os; | |
775 | TObjArray *arr = runs.Tokenize(" "); | |
776 | TIter next(arr); | |
777 | TString prefix; | |
778 | prefix.Append(fRunPrefix, fRunPrefix.Index("%d")); | |
779 | while ((os=(TObjString*)next())){ | |
780 | if (fRunNumbers.Length()) fRunNumbers += " "; | |
781 | fRunNumbers += Form("%s%s", prefix.Data(), os->GetString().Data()); | |
782 | } | |
783 | delete arr; | |
ee75cfc3 | 784 | } |
785 | ||
c57f56b7 | 786 | //______________________________________________________________________________ |
787 | void AliAnalysisAlien::AddDataFile(const char *lfn) | |
788 | { | |
789 | // Adds a data file to the input to be analysed. The file should be a valid LFN | |
790 | // or point to an existing file in the alien workdir. | |
791 | if (!fInputFiles) fInputFiles = new TObjArray(); | |
792 | fInputFiles->Add(new TObjString(lfn)); | |
793 | } | |
648174cf | 794 | |
795 | //______________________________________________________________________________ | |
796 | void AliAnalysisAlien::AddExternalPackage(const char *package) | |
797 | { | |
798 | // Adds external packages w.r.t to the default ones (root,aliroot and gapi) | |
799 | if (fExternalPackages) fExternalPackages += " "; | |
800 | fExternalPackages += package; | |
801 | } | |
802 | ||
c57f56b7 | 803 | //______________________________________________________________________________ |
804 | Bool_t AliAnalysisAlien::Connect() | |
805 | { | |
806 | // Try to connect to AliEn. User needs a valid token and /tmp/gclient_env_$UID sourced. | |
807 | if (gGrid && gGrid->IsConnected()) return kTRUE; | |
d3b18c4c | 808 | if (fProductionMode) return kTRUE; |
c57f56b7 | 809 | if (!gGrid) { |
810 | Info("Connect", "Trying to connect to AliEn ..."); | |
811 | TGrid::Connect("alien://"); | |
812 | } | |
813 | if (!gGrid || !gGrid->IsConnected()) { | |
814 | Error("Connect", "Did not managed to connect to AliEn. Make sure you have a valid token."); | |
815 | return kFALSE; | |
816 | } | |
817 | fUser = gGrid->GetUser(); | |
818 | Info("Connect", "\n##### Connected to AliEn as user %s. Setting analysis user to <%s>", fUser.Data(), fUser.Data()); | |
819 | return kTRUE; | |
820 | } | |
821 | ||
822 | //______________________________________________________________________________ | |
823 | void AliAnalysisAlien::CdWork() | |
824 | { | |
825 | // Check validity of alien workspace. Create directory if possible. | |
826 | if (!Connect()) { | |
827 | Error("CdWork", "Alien connection required"); | |
828 | return; | |
829 | } | |
830 | TString homedir = gGrid->GetHomeDirectory(); | |
831 | TString workdir = homedir + fGridWorkingDir; | |
923e2ca5 | 832 | if (DirectoryExists(workdir)) { |
833 | gGrid->Cd(workdir); | |
834 | return; | |
835 | } | |
836 | // Work directory not existing - create it | |
837 | gGrid->Cd(homedir); | |
b93f8109 | 838 | if (gGrid->Mkdir(workdir, "-p")) { |
923e2ca5 | 839 | gGrid->Cd(fGridWorkingDir); |
d3b18c4c | 840 | Info("CdWork", "\n##### Created alien working directory %s", fGridWorkingDir.Data()); |
923e2ca5 | 841 | } else { |
d3b18c4c | 842 | Warning("CdWork", "Working directory %s cannot be created.\n Using %s instead.", |
923e2ca5 | 843 | workdir.Data(), homedir.Data()); |
844 | fGridWorkingDir = ""; | |
845 | } | |
c57f56b7 | 846 | } |
847 | ||
348be253 | 848 | //______________________________________________________________________________ |
849 | Bool_t AliAnalysisAlien::CheckFileCopy(const char *alienpath) | |
850 | { | |
851 | // Check if file copying is possible. | |
d3b18c4c | 852 | if (fProductionMode) return kTRUE; |
b5ae4fe0 | 853 | TString salienpath(alienpath); |
854 | if (salienpath.Contains(" ")) { | |
855 | Error("CheckFileCopy", "path: <%s> contains blancs - FIX IT !",alienpath); | |
856 | return kFALSE; | |
857 | } | |
348be253 | 858 | if (!Connect()) { |
859 | Error("CheckFileCopy", "Not connected to AliEn. File copying cannot be tested."); | |
860 | return kFALSE; | |
861 | } | |
d3339be3 | 862 | Info("CheckFileCopy", "Checking possibility to copy files to your AliEn home directory... \ |
863 | \n +++ NOTE: You can disable this via: plugin->SetCheckCopy(kFALSE);"); | |
348be253 | 864 | // Check if alien_CLOSE_SE is defined |
865 | TString closeSE = gSystem->Getenv("alien_CLOSE_SE"); | |
866 | if (!closeSE.IsNull()) { | |
867 | Info("CheckFileCopy", "Your current close storage is pointing to: \ | |
868 | \n alien_CLOSE_SE = \"%s\"", closeSE.Data()); | |
869 | } else { | |
870 | Warning("CheckFileCopy", "Your current close storage is empty ! Depending on your location, file copying may fail."); | |
871 | } | |
872 | // Check if grid directory exists. | |
873 | if (!DirectoryExists(alienpath)) { | |
874 | Error("CheckFileCopy", "Alien path %s does not seem to exist", alienpath); | |
875 | return kFALSE; | |
876 | } | |
b5ae4fe0 | 877 | TString stest = "plugin_test_copy"; |
878 | TFile f(stest, "RECREATE"); | |
348be253 | 879 | // User may not have write permissions to current directory |
880 | if (f.IsZombie()) { | |
881 | Error("CheckFileCopy", "Cannot create local test file. Do you have write access to current directory: <%s> ?", | |
882 | gSystem->WorkingDirectory()); | |
883 | return kFALSE; | |
884 | } | |
885 | f.Close(); | |
b5ae4fe0 | 886 | if (FileExists(Form("alien://%s/%s",alienpath, stest.Data()))) gGrid->Rm(Form("alien://%s/%s",alienpath, stest.Data())); |
887 | if (!TFile::Cp(stest.Data(), Form("alien://%s/%s",alienpath, stest.Data()))) { | |
d3339be3 | 888 | Error("CheckFileCopy", "Cannot copy files to Alien destination: <%s> This may be temporary, or: \ |
348be253 | 889 | \n# 1. Make sure you have write permissions there. If this is the case: \ |
890 | \n# 2. Check the storage availability at: http://alimonitor.cern.ch/stats?page=SE/table \ | |
891 | \n# Do: export alien_CLOSE_SE=\"working_disk_SE\" \ | |
892 | \n# To make this permanent put in in your .bashrc (in .alienshrc is not enough) \ | |
893 | \n# Redo token: rm /tmp/x509up_u$UID then: alien-token-init <username>", alienpath); | |
b5ae4fe0 | 894 | gSystem->Unlink(stest.Data()); |
348be253 | 895 | return kFALSE; |
896 | } | |
b5ae4fe0 | 897 | gSystem->Unlink(stest.Data()); |
898 | gGrid->Rm(Form("%s/%s",alienpath,stest.Data())); | |
d3339be3 | 899 | Info("CheckFileCopy", "### ...SUCCESS ###"); |
348be253 | 900 | return kTRUE; |
901 | } | |
902 | ||
c57f56b7 | 903 | //______________________________________________________________________________ |
904 | Bool_t AliAnalysisAlien::CheckInputData() | |
905 | { | |
906 | // Check validity of input data. If necessary, create xml files. | |
d3b18c4c | 907 | if (fProductionMode) return kTRUE; |
a8739e8a | 908 | if (!fInputFiles && !fRunNumbers.Length() && !fRunRange[0]) { |
d2a409b2 | 909 | if (!fGridDataDir.Length()) { |
910 | Error("CkeckInputData", "AliEn path to base data directory must be set.\n = Use: SetGridDataDir()"); | |
911 | return kFALSE; | |
912 | } | |
9f020952 | 913 | if (fMergeViaJDL) { |
914 | Error("CheckInputData", "Merging via jdl works only with run numbers, run range or provided xml"); | |
915 | return kFALSE; | |
916 | } | |
d2a409b2 | 917 | Info("CheckInputData", "Analysis will make a single xml for base data directory %s",fGridDataDir.Data()); |
23329835 | 918 | if (fDataPattern.Contains("tag") && TestBit(AliAnalysisGrid::kTest)) |
919 | TObject::SetBit(AliAnalysisGrid::kUseTags, kTRUE); // ADDED (fix problem in determining the tag usage in test mode) | |
d2a409b2 | 920 | return kTRUE; |
c57f56b7 | 921 | } |
922 | // Process declared files | |
a2f5fc01 | 923 | Bool_t isCollection = kFALSE; |
924 | Bool_t isXml = kFALSE; | |
925 | Bool_t useTags = kFALSE; | |
c57f56b7 | 926 | Bool_t checked = kFALSE; |
d3b18c4c | 927 | if (!TestBit(AliAnalysisGrid::kTest)) CdWork(); |
c57f56b7 | 928 | TString file; |
929 | TString workdir = gGrid->GetHomeDirectory(); | |
930 | workdir += fGridWorkingDir; | |
931 | if (fInputFiles) { | |
932 | TObjString *objstr; | |
933 | TIter next(fInputFiles); | |
934 | while ((objstr=(TObjString*)next())) { | |
935 | file = workdir; | |
936 | file += "/"; | |
937 | file += objstr->GetString(); | |
938 | // Store full lfn path | |
939 | if (FileExists(file)) objstr->SetString(file); | |
940 | else { | |
941 | file = objstr->GetName(); | |
942 | if (!FileExists(objstr->GetName())) { | |
943 | Error("CheckInputData", "Data file %s not found or not in your working dir: %s", | |
944 | objstr->GetName(), workdir.Data()); | |
945 | return kFALSE; | |
946 | } | |
947 | } | |
948 | Bool_t iscoll, isxml, usetags; | |
949 | CheckDataType(file, iscoll, isxml, usetags); | |
950 | if (!checked) { | |
951 | checked = kTRUE; | |
a2f5fc01 | 952 | isCollection = iscoll; |
953 | isXml = isxml; | |
954 | useTags = usetags; | |
955 | TObject::SetBit(AliAnalysisGrid::kUseTags, useTags); | |
c57f56b7 | 956 | } else { |
a2f5fc01 | 957 | if ((iscoll != isCollection) || (isxml != isXml) || (usetags != useTags)) { |
c57f56b7 | 958 | Error("CheckInputData", "Some conflict was found in the types of inputs"); |
959 | return kFALSE; | |
960 | } | |
961 | } | |
962 | } | |
963 | } | |
964 | // Process requested run numbers | |
a8739e8a | 965 | if (!fRunNumbers.Length() && !fRunRange[0]) return kTRUE; |
c57f56b7 | 966 | // Check validity of alien data directory |
967 | if (!fGridDataDir.Length()) { | |
968 | Error("CkeckInputData", "AliEn path to base data directory must be set.\n = Use: SetGridDataDir()"); | |
969 | return kFALSE; | |
970 | } | |
923e2ca5 | 971 | if (!DirectoryExists(fGridDataDir)) { |
c57f56b7 | 972 | Error("CheckInputData", "Data directory %s not existing.", fGridDataDir.Data()); |
973 | return kFALSE; | |
974 | } | |
a2f5fc01 | 975 | if (isCollection) { |
c57f56b7 | 976 | Error("CheckInputData", "You are using raw AliEn collections as input. Cannot process run numbers."); |
977 | return kFALSE; | |
978 | } | |
979 | ||
a2f5fc01 | 980 | if (checked && !isXml) { |
c57f56b7 | 981 | Error("CheckInputData", "Cannot mix processing of full runs with non-xml files"); |
982 | return kFALSE; | |
983 | } | |
984 | // Check validity of run number(s) | |
985 | TObjArray *arr; | |
986 | TObjString *os; | |
74013535 | 987 | TString format; |
319593fb | 988 | Int_t nruns = 0; |
904f9f5f | 989 | TString schunk, schunk2; |
c57f56b7 | 990 | TString path; |
991 | if (!checked) { | |
992 | checked = kTRUE; | |
a2f5fc01 | 993 | useTags = fDataPattern.Contains("tag"); |
994 | TObject::SetBit(AliAnalysisGrid::kUseTags, useTags); | |
c57f56b7 | 995 | } |
a2f5fc01 | 996 | if (useTags != fDataPattern.Contains("tag")) { |
c57f56b7 | 997 | Error("CheckInputData", "Cannot mix input files using/not using tags"); |
998 | return kFALSE; | |
999 | } | |
1000 | if (fRunNumbers.Length()) { | |
a8739e8a | 1001 | Info("CheckDataType", "Using supplied run numbers (run ranges are ignored)"); |
c57f56b7 | 1002 | arr = fRunNumbers.Tokenize(" "); |
1003 | TIter next(arr); | |
1004 | while ((os=(TObjString*)next())) { | |
1005 | path = Form("%s/%s ", fGridDataDir.Data(), os->GetString().Data()); | |
923e2ca5 | 1006 | if (!DirectoryExists(path)) { |
1007 | Warning("CheckInputData", "Run number %s not found in path: <%s>", os->GetString().Data(), path.Data()); | |
a8739e8a | 1008 | continue; |
c57f56b7 | 1009 | } |
1010 | path = Form("%s/%s.xml", workdir.Data(),os->GetString().Data()); | |
1011 | TString msg = "\n##### file: "; | |
1012 | msg += path; | |
1013 | msg += " type: xml_collection;"; | |
a2f5fc01 | 1014 | if (useTags) msg += " using_tags: Yes"; |
c57f56b7 | 1015 | else msg += " using_tags: No"; |
23329835 | 1016 | Info("CheckDataType", "%s", msg.Data()); |
319593fb | 1017 | if (fNrunsPerMaster<2) { |
d2a409b2 | 1018 | AddDataFile(Form("%s.xml", os->GetString().Data())); |
319593fb | 1019 | } else { |
1020 | nruns++; | |
1021 | if (((nruns-1)%fNrunsPerMaster) == 0) { | |
1022 | schunk = os->GetString(); | |
1023 | } | |
1024 | if ((nruns%fNrunsPerMaster)!=0 && os!=arr->Last()) continue; | |
1025 | schunk += Form("_%s.xml", os->GetString().Data()); | |
d2a409b2 | 1026 | AddDataFile(schunk); |
319593fb | 1027 | } |
c57f56b7 | 1028 | } |
1029 | delete arr; | |
a8739e8a | 1030 | } else { |
1031 | Info("CheckDataType", "Using run range [%d, %d]", fRunRange[0], fRunRange[1]); | |
1032 | for (Int_t irun=fRunRange[0]; irun<=fRunRange[1]; irun++) { | |
74013535 | 1033 | format = Form("%%s/%s ", fRunPrefix.Data()); |
1034 | path = Form(format.Data(), fGridDataDir.Data(), irun); | |
923e2ca5 | 1035 | if (!DirectoryExists(path)) { |
a8739e8a | 1036 | continue; |
1037 | } | |
74013535 | 1038 | format = Form("%%s/%s.xml", fRunPrefix.Data()); |
1039 | path = Form(format.Data(), workdir.Data(),irun); | |
a8739e8a | 1040 | TString msg = "\n##### file: "; |
1041 | msg += path; | |
1042 | msg += " type: xml_collection;"; | |
a2f5fc01 | 1043 | if (useTags) msg += " using_tags: Yes"; |
a8739e8a | 1044 | else msg += " using_tags: No"; |
23329835 | 1045 | Info("CheckDataType", "%s", msg.Data()); |
319593fb | 1046 | if (fNrunsPerMaster<2) { |
74013535 | 1047 | format = Form("%s.xml", fRunPrefix.Data()); |
1048 | AddDataFile(Form(format.Data(),irun)); | |
319593fb | 1049 | } else { |
1050 | nruns++; | |
1051 | if (((nruns-1)%fNrunsPerMaster) == 0) { | |
74013535 | 1052 | schunk = Form(fRunPrefix.Data(),irun); |
319593fb | 1053 | } |
74013535 | 1054 | format = Form("_%s.xml", fRunPrefix.Data()); |
1055 | schunk2 = Form(format.Data(), irun); | |
319593fb | 1056 | if ((nruns%fNrunsPerMaster)!=0 && irun != fRunRange[1]) continue; |
904f9f5f | 1057 | schunk += schunk2; |
d2a409b2 | 1058 | AddDataFile(schunk); |
319593fb | 1059 | } |
a8739e8a | 1060 | } |
904f9f5f | 1061 | if (!fInputFiles) { |
1062 | schunk += schunk2; | |
1063 | AddDataFile(schunk); | |
1064 | } | |
c57f56b7 | 1065 | } |
1066 | return kTRUE; | |
1067 | } | |
1068 | ||
21ca8e59 | 1069 | //______________________________________________________________________________ |
4a8b667c | 1070 | Int_t AliAnalysisAlien::CopyLocalDataset(const char *griddir, const char *pattern, Int_t nfiles, const char *output, const char *archivefile, const char *outputdir) |
21ca8e59 | 1071 | { |
1072 | // Copy data from the given grid directory according a pattern and make a local | |
1073 | // dataset. | |
2ba4c287 | 1074 | // archivefile (optional) results in that the archive containing the file <pattern> is copied. archivefile can contain a list of files (semicolon-separated) which are all copied |
21ca8e59 | 1075 | if (!Connect()) { |
1076 | Error("CopyLocalDataset", "Cannot copy local dataset with no grid connection"); | |
4a8b667c | 1077 | return 0; |
21ca8e59 | 1078 | } |
1079 | if (!DirectoryExists(griddir)) { | |
1080 | Error("CopyLocalDataset", "Data directory %s not existing.", griddir); | |
4a8b667c | 1081 | return 0; |
21ca8e59 | 1082 | } |
1083 | TString command = Form("find -z -l %d %s %s", nfiles, griddir, pattern); | |
1084 | printf("Running command: %s\n", command.Data()); | |
1085 | TGridResult *res = gGrid->Command(command); | |
1086 | Int_t nfound = res->GetEntries(); | |
1087 | if (!nfound) { | |
1088 | Error("CopyLocalDataset", "No file found in <%s> having pattern <%s>", griddir, pattern); | |
4a8b667c | 1089 | return 0; |
21ca8e59 | 1090 | } |
1091 | printf("... found %d files. Copying locally ...\n", nfound); | |
2ba4c287 | 1092 | |
1093 | // archives | |
1094 | TObjArray* additionalArchives = 0; | |
1095 | if (strlen(archivefile) > 0 && TString(archivefile).Contains(";")) { | |
1096 | additionalArchives = TString(archivefile).Tokenize(";"); | |
1097 | archivefile = additionalArchives->At(0)->GetName(); | |
1098 | additionalArchives->RemoveAt(0); | |
1099 | additionalArchives->Compress(); | |
1100 | } | |
1101 | ||
21ca8e59 | 1102 | // Copy files locally |
1103 | ofstream out; | |
1104 | out.open(output, ios::out); | |
1105 | TMap *map; | |
1106 | TString turl, dirname, filename, temp; | |
1107 | TString cdir = gSystem->WorkingDirectory(); | |
139fe6ba | 1108 | gSystem->MakeDirectory(outputdir); |
1109 | gSystem->ChangeDirectory(outputdir); | |
4a8b667c | 1110 | Int_t ncopied = 0; |
21ca8e59 | 1111 | for (Int_t i=0; i<nfound; i++) { |
1112 | map = (TMap*)res->At(i); | |
1113 | turl = map->GetValue("turl")->GetName(); | |
1114 | filename = gSystem->BaseName(turl.Data()); | |
1115 | dirname = gSystem->DirName(turl.Data()); | |
1116 | dirname = gSystem->BaseName(dirname.Data()); | |
1117 | gSystem->MakeDirectory(dirname); | |
43b807f6 | 1118 | |
1119 | TString source(turl); | |
1120 | TString targetFileName(filename); | |
1121 | ||
1122 | if (strlen(archivefile) > 0) { | |
4a8b667c | 1123 | // TODO here the archive in which the file resides should be determined |
1124 | // however whereis returns only a guid, and guid2lfn does not work | |
1125 | // Therefore we use the one provided as argument for now | |
1126 | source = Form("%s/%s", gSystem->DirName(source.Data()), archivefile); | |
1127 | targetFileName = archivefile; | |
43b807f6 | 1128 | } |
1129 | if (TFile::Cp(source, Form("file:./%s/%s", dirname.Data(), targetFileName.Data()))) { | |
4a8b667c | 1130 | Bool_t success = kTRUE; |
1131 | if (additionalArchives) { | |
1132 | for (Int_t j=0; j<additionalArchives->GetEntriesFast(); j++) { | |
1133 | TString target; | |
1134 | target.Form("./%s/%s", dirname.Data(), additionalArchives->At(j)->GetName()); | |
1135 | gSystem->MakeDirectory(gSystem->DirName(target)); | |
1136 | success &= TFile::Cp(Form("%s/%s", gSystem->DirName(source.Data()), additionalArchives->At(j)->GetName()), Form("file:%s", target.Data())); | |
1137 | } | |
1138 | } | |
2ba4c287 | 1139 | |
4a8b667c | 1140 | if (success) { |
1141 | if (strlen(archivefile) > 0) targetFileName = Form("%s#%s", targetFileName.Data(), gSystem->BaseName(turl.Data())); | |
1142 | out << cdir << Form("/%s/%s/%s", outputdir, dirname.Data(), targetFileName.Data()) << endl; | |
1143 | ncopied++; | |
1144 | } | |
21ca8e59 | 1145 | } |
1146 | } | |
1147 | gSystem->ChangeDirectory(cdir); | |
1148 | delete res; | |
4a8b667c | 1149 | delete additionalArchives; |
1150 | return ncopied; | |
21ca8e59 | 1151 | } |
1152 | ||
c57f56b7 | 1153 | //______________________________________________________________________________ |
1154 | Bool_t AliAnalysisAlien::CreateDataset(const char *pattern) | |
1155 | { | |
1156 | // Create dataset for the grid data directory + run number. | |
3af861ff | 1157 | const Int_t gMaxEntries = 15000; |
d3b18c4c | 1158 | if (fProductionMode || TestBit(AliAnalysisGrid::kOffline)) return kTRUE; |
c57f56b7 | 1159 | if (!Connect()) { |
1160 | Error("CreateDataset", "Cannot create dataset with no grid connection"); | |
1161 | return kFALSE; | |
1162 | } | |
1163 | ||
1164 | // Cd workspace | |
d3b18c4c | 1165 | if (!TestBit(AliAnalysisGrid::kTest)) CdWork(); |
c57f56b7 | 1166 | TString workdir = gGrid->GetHomeDirectory(); |
1167 | workdir += fGridWorkingDir; | |
1168 | ||
1169 | // Compose the 'find' command arguments | |
74013535 | 1170 | TString format; |
c57f56b7 | 1171 | TString command; |
1172 | TString options = "-x collection "; | |
bb885a9e | 1173 | if (TestBit(AliAnalysisGrid::kTest)) options += Form("-l %d ", fNtestFiles); |
3af861ff | 1174 | else options += Form("-l %d ", gMaxEntries); // Protection for the find command |
c57f56b7 | 1175 | TString conditions = ""; |
3af861ff | 1176 | Int_t nstart = 0; |
1177 | Int_t ncount = 0; | |
1178 | Int_t stage = 0; | |
c57f56b7 | 1179 | TString file; |
1180 | TString path; | |
319593fb | 1181 | Int_t nruns = 0; |
904f9f5f | 1182 | TString schunk, schunk2; |
ab254fd1 | 1183 | TGridCollection *cbase=0, *cadd=0; |
d2a409b2 | 1184 | if (!fRunNumbers.Length() && !fRunRange[0]) { |
1185 | if (fInputFiles && fInputFiles->GetEntries()) return kTRUE; | |
1186 | // Make a single data collection from data directory. | |
1187 | path = fGridDataDir; | |
923e2ca5 | 1188 | if (!DirectoryExists(path)) { |
d2a409b2 | 1189 | Error("CreateDataset", "Path to data directory %s not valid",fGridDataDir.Data()); |
1190 | return kFALSE; | |
1191 | } | |
923e2ca5 | 1192 | // CdWork(); |
d2a409b2 | 1193 | if (TestBit(AliAnalysisGrid::kTest)) file = "wn.xml"; |
1194 | else file = Form("%s.xml", gSystem->BaseName(path)); | |
3af861ff | 1195 | while (1) { |
1196 | ncount = 0; | |
1197 | stage++; | |
1198 | if (gSystem->AccessPathName(file) || TestBit(AliAnalysisGrid::kTest) || fOverwriteMode) { | |
1199 | command = "find "; | |
1200 | command += Form("%s -o %d ",options.Data(), nstart); | |
1201 | command += path; | |
1202 | command += " "; | |
1203 | command += pattern; | |
1204 | command += conditions; | |
1205 | printf("command: %s\n", command.Data()); | |
1206 | TGridResult *res = gGrid->Command(command); | |
1207 | if (res) delete res; | |
1208 | // Write standard output to file | |
1209 | gROOT->ProcessLine(Form("gGrid->Stdout(); > __tmp%d__%s", stage, file.Data())); | |
1210 | Bool_t hasGrep = (gSystem->Exec("grep --version 2>/dev/null > /dev/null")==0)?kTRUE:kFALSE; | |
1211 | Bool_t nullFile = kFALSE; | |
1212 | if (!hasGrep) { | |
1213 | Warning("CreateDataset", "'grep' command not available on this system - cannot validate the result of the grid 'find' command"); | |
1214 | } else { | |
1215 | nullFile = (gSystem->Exec(Form("grep -c /event __tmp%d__%s 2>/dev/null > __tmp__",stage,file.Data()))==0)?kFALSE:kTRUE; | |
1216 | if (nullFile) { | |
1217 | Error("CreateDataset","Dataset %s produced by the previous find command is empty !", file.Data()); | |
1218 | gSystem->Exec("rm -f __tmp*"); | |
1219 | return kFALSE; | |
1220 | } | |
1221 | TString line; | |
1222 | ifstream in; | |
1223 | in.open("__tmp__"); | |
1224 | in >> line; | |
1225 | in.close(); | |
1226 | gSystem->Exec("rm -f __tmp__"); | |
1227 | ncount = line.Atoi(); | |
1228 | } | |
1229 | } | |
1230 | if (ncount == gMaxEntries) { | |
1231 | Info("CreateDataset", "Dataset %s has more than 15K entries. Trying to merge...", file.Data()); | |
1232 | cadd = (TGridCollection*)gROOT->ProcessLine(Form("new TAlienCollection(\"__tmp%d__%s\", 1000000);",stage,file.Data())); | |
1233 | if (!cbase) cbase = cadd; | |
1234 | else { | |
1235 | cbase->Add(cadd); | |
1236 | delete cadd; | |
defd7a3a | 1237 | } |
3af861ff | 1238 | nstart += ncount; |
1239 | } else { | |
1240 | if (cbase) { | |
1241 | cadd = (TGridCollection*)gROOT->ProcessLine(Form("new TAlienCollection(\"__tmp%d__%s\", 1000000);",stage,file.Data())); | |
1242 | printf("... please wait - TAlienCollection::Add() scales badly...\n"); | |
1243 | cbase->Add(cadd); | |
1244 | delete cadd; | |
1245 | cbase->ExportXML(Form("file://%s", file.Data()),kFALSE,kFALSE, file, "Merged entries for a run"); | |
1246 | delete cbase; cbase = 0; | |
1247 | } else { | |
1248 | TFile::Cp(Form("__tmp%d__%s",stage, file.Data()), file.Data()); | |
1249 | } | |
1250 | gSystem->Exec("rm -f __tmp*"); | |
1251 | Info("CreateDataset", "Created dataset %s with %d files", file.Data(), nstart+ncount); | |
1252 | break; | |
1253 | } | |
0f389141 | 1254 | } |
1255 | Bool_t fileExists = FileExists(file); | |
1256 | if (!TestBit(AliAnalysisGrid::kTest) && (!fileExists || fOverwriteMode)) { | |
d2a409b2 | 1257 | // Copy xml file to alien space |
0f389141 | 1258 | if (fileExists) gGrid->Rm(file); |
d2a409b2 | 1259 | TFile::Cp(Form("file:%s",file.Data()), Form("alien://%s/%s",workdir.Data(), file.Data())); |
1260 | if (!FileExists(file)) { | |
1261 | Error("CreateDataset", "Command %s did NOT succeed", command.Data()); | |
1262 | return kFALSE; | |
1263 | } | |
1264 | // Update list of files to be processed. | |
1265 | } | |
1266 | AddDataFile(Form("%s/%s", workdir.Data(), file.Data())); | |
1267 | return kTRUE; | |
1268 | } | |
c57f56b7 | 1269 | // Several runs |
a2f5fc01 | 1270 | Bool_t nullResult = kTRUE; |
a8739e8a | 1271 | if (fRunNumbers.Length()) { |
1272 | TObjArray *arr = fRunNumbers.Tokenize(" "); | |
1273 | TObjString *os; | |
1274 | TIter next(arr); | |
1275 | while ((os=(TObjString*)next())) { | |
3af861ff | 1276 | nstart = 0; |
1277 | stage = 0; | |
dc030a24 | 1278 | path = Form("%s/%s/ ", fGridDataDir.Data(), os->GetString().Data()); |
923e2ca5 | 1279 | if (!DirectoryExists(path)) continue; |
1280 | // CdWork(); | |
a8739e8a | 1281 | if (TestBit(AliAnalysisGrid::kTest)) file = "wn.xml"; |
1282 | else file = Form("%s.xml", os->GetString().Data()); | |
319593fb | 1283 | // If local collection file does not exist, create it via 'find' command. |
3af861ff | 1284 | while (1) { |
1285 | ncount = 0; | |
1286 | stage++; | |
1287 | if (gSystem->AccessPathName(file) || TestBit(AliAnalysisGrid::kTest) || fOverwriteMode) { | |
1288 | command = "find "; | |
1289 | command += Form("%s -o %d ",options.Data(), nstart); | |
1290 | command += path; | |
1291 | command += pattern; | |
1292 | command += conditions; | |
1293 | TGridResult *res = gGrid->Command(command); | |
1294 | if (res) delete res; | |
1295 | // Write standard output to file | |
1296 | gROOT->ProcessLine(Form("gGrid->Stdout(); > __tmp%d__%s", stage,file.Data())); | |
1297 | Bool_t hasGrep = (gSystem->Exec("grep --version 2>/dev/null > /dev/null")==0)?kTRUE:kFALSE; | |
1298 | Bool_t nullFile = kFALSE; | |
1299 | if (!hasGrep) { | |
1300 | Warning("CreateDataset", "'grep' command not available on this system - cannot validate the result of the grid 'find' command"); | |
1301 | } else { | |
1302 | nullFile = (gSystem->Exec(Form("grep -c /event __tmp%d__%s 2>/dev/null > __tmp__",stage,file.Data()))==0)?kFALSE:kTRUE; | |
1303 | if (nullFile) { | |
1304 | Warning("CreateDataset","Dataset %s produced by: <%s> is empty !", file.Data(), command.Data()); | |
1305 | gSystem->Exec("rm -f __tmp*"); | |
1306 | fRunNumbers.ReplaceAll(os->GetString().Data(), ""); | |
1604c9ed | 1307 | break; |
3af861ff | 1308 | } |
1309 | TString line; | |
1310 | ifstream in; | |
1311 | in.open("__tmp__"); | |
1312 | in >> line; | |
1313 | in.close(); | |
1314 | gSystem->Exec("rm -f __tmp__"); | |
1315 | ncount = line.Atoi(); | |
1316 | } | |
1317 | nullResult = kFALSE; | |
1318 | } | |
1319 | if (ncount == gMaxEntries) { | |
1320 | Info("CreateDataset", "Dataset %s has more than 15K entries. Trying to merge...", file.Data()); | |
1321 | if (fNrunsPerMaster > 1) { | |
1322 | Error("CreateDataset", "File %s has more than %d entries. Please set the number of runs per master to 1 !", | |
1323 | file.Data(),gMaxEntries); | |
1324 | return kFALSE; | |
1325 | } | |
1326 | cadd = (TGridCollection*)gROOT->ProcessLine(Form("new TAlienCollection(\"__tmp%d__%s\", 1000000);",stage,file.Data())); | |
1327 | if (!cbase) cbase = cadd; | |
1328 | else { | |
1329 | cbase->Add(cadd); | |
1330 | delete cadd; | |
defd7a3a | 1331 | } |
3af861ff | 1332 | nstart += ncount; |
1333 | } else { | |
c89a84bc | 1334 | if (cbase && fNrunsPerMaster<2) { |
3af861ff | 1335 | cadd = (TGridCollection*)gROOT->ProcessLine(Form("new TAlienCollection(\"__tmp%d__%s\", 1000000);",stage,file.Data())); |
1336 | printf("... please wait - TAlienCollection::Add() scales badly...\n"); | |
1337 | cbase->Add(cadd); | |
1338 | delete cadd; | |
1339 | cbase->ExportXML(Form("file://%s", file.Data()),kFALSE,kFALSE, file, "Merged entries for a run"); | |
1340 | delete cbase; cbase = 0; | |
1341 | } else { | |
1342 | TFile::Cp(Form("__tmp%d__%s",stage, file.Data()), file.Data()); | |
1343 | } | |
1344 | gSystem->Exec("rm -f __tmp*"); | |
1345 | Info("CreateDataset", "Created dataset %s with %d files", file.Data(), nstart+ncount); | |
1346 | break; | |
d3339be3 | 1347 | } |
3af861ff | 1348 | } |
a8739e8a | 1349 | if (TestBit(AliAnalysisGrid::kTest)) break; |
319593fb | 1350 | // Check if there is one run per master job. |
1351 | if (fNrunsPerMaster<2) { | |
1352 | if (FileExists(file)) { | |
0f389141 | 1353 | if (fOverwriteMode) gGrid->Rm(file); |
1354 | else { | |
1355 | Info("CreateDataset", "\n##### Dataset %s exist. Skipping creation...", file.Data()); | |
1356 | continue; | |
1357 | } | |
319593fb | 1358 | } |
1359 | // Copy xml file to alien space | |
1360 | TFile::Cp(Form("file:%s",file.Data()), Form("alien://%s/%s",workdir.Data(), file.Data())); | |
1361 | if (!FileExists(file)) { | |
1362 | Error("CreateDataset", "Command %s did NOT succeed", command.Data()); | |
1363 | delete arr; | |
1364 | return kFALSE; | |
1365 | } | |
1366 | } else { | |
1367 | nruns++; | |
1368 | if (((nruns-1)%fNrunsPerMaster) == 0) { | |
1369 | schunk = os->GetString(); | |
1370 | cbase = (TGridCollection*)gROOT->ProcessLine(Form("new TAlienCollection(\"%s\", 1000000);",file.Data())); | |
1371 | } else { | |
1372 | cadd = (TGridCollection*)gROOT->ProcessLine(Form("new TAlienCollection(\"%s\", 1000000);",file.Data())); | |
84fcd93f | 1373 | printf(" Merging collection <%s> into masterjob input...\n", file.Data()); |
319593fb | 1374 | cbase->Add(cadd); |
1375 | delete cadd; | |
1376 | } | |
1377 | if ((nruns%fNrunsPerMaster)!=0 && os!=arr->Last()) { | |
1378 | continue; | |
1379 | } | |
1380 | schunk += Form("_%s.xml", os->GetString().Data()); | |
0f389141 | 1381 | if (FileExists(schunk)) { |
1382 | if (fOverwriteMode) gGrid->Rm(file); | |
1383 | else { | |
1384 | Info("CreateDataset", "\n##### Dataset %s exist. Skipping creation...", schunk.Data()); | |
1385 | continue; | |
1386 | } | |
319593fb | 1387 | } |
84fcd93f | 1388 | printf("Exporting merged collection <%s> and copying to AliEn\n", schunk.Data()); |
319593fb | 1389 | cbase->ExportXML(Form("file://%s", schunk.Data()),kFALSE,kFALSE, schunk, "Merged runs"); |
e95434bc | 1390 | TFile::Cp(Form("file:%s",schunk.Data()), Form("alien://%s/%s",workdir.Data(), schunk.Data())); |
319593fb | 1391 | if (!FileExists(schunk)) { |
1392 | Error("CreateDataset", "Copy command did NOT succeed for %s", schunk.Data()); | |
1393 | delete arr; | |
1394 | return kFALSE; | |
1395 | } | |
d3339be3 | 1396 | } |
a8739e8a | 1397 | } |
1398 | delete arr; | |
a2f5fc01 | 1399 | if (nullResult) { |
d3339be3 | 1400 | Error("CreateDataset", "No valid dataset corresponding to the query!"); |
1401 | return kFALSE; | |
1402 | } | |
a8739e8a | 1403 | } else { |
1404 | // Process a full run range. | |
1405 | for (Int_t irun=fRunRange[0]; irun<=fRunRange[1]; irun++) { | |
74013535 | 1406 | format = Form("%%s/%s ", fRunPrefix.Data()); |
3af861ff | 1407 | nstart = 0; |
1408 | stage = 0; | |
74013535 | 1409 | path = Form(format.Data(), fGridDataDir.Data(), irun); |
923e2ca5 | 1410 | if (!DirectoryExists(path)) continue; |
1411 | // CdWork(); | |
74013535 | 1412 | format = Form("%s.xml", fRunPrefix.Data()); |
a8739e8a | 1413 | if (TestBit(AliAnalysisGrid::kTest)) file = "wn.xml"; |
74013535 | 1414 | else file = Form(format.Data(), irun); |
0f389141 | 1415 | if (FileExists(file) && fNrunsPerMaster<2 && !TestBit(AliAnalysisGrid::kTest)) { |
1416 | if (fOverwriteMode) gGrid->Rm(file); | |
1417 | else { | |
1418 | Info("CreateDataset", "\n##### Dataset %s exist. Skipping creation...", file.Data()); | |
1419 | continue; | |
1420 | } | |
a8739e8a | 1421 | } |
319593fb | 1422 | // If local collection file does not exist, create it via 'find' command. |
3af861ff | 1423 | while (1) { |
1424 | ncount = 0; | |
1425 | stage++; | |
1426 | if (gSystem->AccessPathName(file) || TestBit(AliAnalysisGrid::kTest) || fOverwriteMode) { | |
1427 | command = "find "; | |
1428 | command += Form("%s -o %d ",options.Data(), nstart); | |
1429 | command += path; | |
1430 | command += pattern; | |
1431 | command += conditions; | |
1432 | TGridResult *res = gGrid->Command(command); | |
1433 | if (res) delete res; | |
1434 | // Write standard output to file | |
1435 | gROOT->ProcessLine(Form("gGrid->Stdout(); > __tmp%d__%s", stage,file.Data())); | |
1436 | Bool_t hasGrep = (gSystem->Exec("grep --version 2>/dev/null > /dev/null")==0)?kTRUE:kFALSE; | |
1437 | Bool_t nullFile = kFALSE; | |
1438 | if (!hasGrep) { | |
1439 | Warning("CreateDataset", "'grep' command not available on this system - cannot validate the result of the grid 'find' command"); | |
1440 | } else { | |
1441 | nullFile = (gSystem->Exec(Form("grep -c /event __tmp%d__%s 2>/dev/null > __tmp__",stage,file.Data()))==0)?kFALSE:kTRUE; | |
1442 | if (nullFile) { | |
1443 | Warning("CreateDataset","Dataset %s produced by: <%s> is empty !", file.Data(), command.Data()); | |
1444 | gSystem->Exec("rm -f __tmp*"); | |
1604c9ed | 1445 | break; |
3af861ff | 1446 | } |
1447 | TString line; | |
1448 | ifstream in; | |
1449 | in.open("__tmp__"); | |
1450 | in >> line; | |
1451 | in.close(); | |
1452 | gSystem->Exec("rm -f __tmp__"); | |
1453 | ncount = line.Atoi(); | |
1454 | } | |
1455 | nullResult = kFALSE; | |
1456 | } | |
1457 | if (ncount == gMaxEntries) { | |
1458 | Info("CreateDataset", "Dataset %s has more than 15K entries. Trying to merge...", file.Data()); | |
1459 | if (fNrunsPerMaster > 1) { | |
1460 | Error("CreateDataset", "File %s has more than %d entries. Please set the number of runs per master to 1 !", | |
1461 | file.Data(),gMaxEntries); | |
1462 | return kFALSE; | |
1463 | } | |
1464 | cadd = (TGridCollection*)gROOT->ProcessLine(Form("new TAlienCollection(\"__tmp%d__%s\", 1000000);",stage,file.Data())); | |
1465 | if (!cbase) cbase = cadd; | |
1466 | else { | |
1467 | cbase->Add(cadd); | |
1468 | delete cadd; | |
defd7a3a | 1469 | } |
3af861ff | 1470 | nstart += ncount; |
1471 | } else { | |
c89a84bc | 1472 | if (cbase && fNrunsPerMaster<2) { |
3af861ff | 1473 | cadd = (TGridCollection*)gROOT->ProcessLine(Form("new TAlienCollection(\"__tmp%d__%s\", 1000000);",stage,file.Data())); |
1474 | printf("... please wait - TAlienCollection::Add() scales badly...\n"); | |
1475 | cbase->Add(cadd); | |
1476 | delete cadd; | |
1477 | cbase->ExportXML(Form("file://%s", file.Data()),kFALSE,kFALSE, file, "Merged entries for a run"); | |
1478 | delete cbase; cbase = 0; | |
1479 | } else { | |
1480 | TFile::Cp(Form("__tmp%d__%s",stage, file.Data()), file.Data()); | |
1481 | } | |
1482 | Info("CreateDataset", "Created dataset %s with %d files", file.Data(), nstart+ncount); | |
1483 | break; | |
d3339be3 | 1484 | } |
319593fb | 1485 | } |
a8739e8a | 1486 | if (TestBit(AliAnalysisGrid::kTest)) break; |
319593fb | 1487 | // Check if there is one run per master job. |
1488 | if (fNrunsPerMaster<2) { | |
1489 | if (FileExists(file)) { | |
0f389141 | 1490 | if (fOverwriteMode) gGrid->Rm(file); |
1491 | else { | |
1492 | Info("CreateDataset", "\n##### Dataset %s exist. Skipping creation...", file.Data()); | |
1493 | continue; | |
1494 | } | |
319593fb | 1495 | } |
1496 | // Copy xml file to alien space | |
1497 | TFile::Cp(Form("file:%s",file.Data()), Form("alien://%s/%s",workdir.Data(), file.Data())); | |
1498 | if (!FileExists(file)) { | |
1499 | Error("CreateDataset", "Command %s did NOT succeed", command.Data()); | |
1500 | return kFALSE; | |
1501 | } | |
1502 | } else { | |
1503 | nruns++; | |
95e5b448 | 1504 | // Check if the collection for the chunk exist locally. |
1505 | Int_t nchunk = (nruns-1)/fNrunsPerMaster; | |
0f389141 | 1506 | if (FileExists(fInputFiles->At(nchunk)->GetName())) { |
1507 | if (fOverwriteMode) gGrid->Rm(fInputFiles->At(nchunk)->GetName()); | |
1508 | else continue; | |
1509 | } | |
84fcd93f | 1510 | printf(" Merging collection <%s> into %d runs chunk...\n",file.Data(),fNrunsPerMaster); |
319593fb | 1511 | if (((nruns-1)%fNrunsPerMaster) == 0) { |
74013535 | 1512 | schunk = Form(fRunPrefix.Data(), irun); |
319593fb | 1513 | cbase = (TGridCollection*)gROOT->ProcessLine(Form("new TAlienCollection(\"%s\", 1000000);",file.Data())); |
1514 | } else { | |
1515 | cadd = (TGridCollection*)gROOT->ProcessLine(Form("new TAlienCollection(\"%s\", 1000000);",file.Data())); | |
1516 | cbase->Add(cadd); | |
1517 | delete cadd; | |
1518 | } | |
74013535 | 1519 | format = Form("%%s_%s.xml", fRunPrefix.Data()); |
1520 | schunk2 = Form(format.Data(), schunk.Data(), irun); | |
904f9f5f | 1521 | if ((nruns%fNrunsPerMaster)!=0 && irun!=fRunRange[1] && schunk2 != fInputFiles->Last()->GetName()) { |
319593fb | 1522 | continue; |
1523 | } | |
904f9f5f | 1524 | schunk = schunk2; |
319593fb | 1525 | if (FileExists(schunk)) { |
0f389141 | 1526 | if (fOverwriteMode) gGrid->Rm(schunk); |
1527 | else { | |
1528 | Info("CreateDataset", "\n##### Dataset %s exist. Skipping creation...", schunk.Data()); | |
1529 | continue; | |
1530 | } | |
319593fb | 1531 | } |
84fcd93f | 1532 | printf("Exporting merged collection <%s> and copying to AliEn.\n", schunk.Data()); |
319593fb | 1533 | cbase->ExportXML(Form("file://%s", schunk.Data()),kFALSE,kFALSE, schunk, "Merged runs"); |
95e5b448 | 1534 | if (FileExists(schunk)) { |
0f389141 | 1535 | if (fOverwriteMode) gGrid->Rm(schunk); |
1536 | else { | |
1537 | Info("CreateDataset", "\n##### Dataset %s exist. Skipping copy...", schunk.Data()); | |
1538 | continue; | |
1539 | } | |
95e5b448 | 1540 | } |
319593fb | 1541 | TFile::Cp(Form("file:%s",schunk.Data()), Form("alien://%s/%s",workdir.Data(), schunk.Data())); |
1542 | if (!FileExists(schunk)) { | |
1543 | Error("CreateDataset", "Copy command did NOT succeed for %s", schunk.Data()); | |
1544 | return kFALSE; | |
1545 | } | |
1546 | } | |
c57f56b7 | 1547 | } |
a2f5fc01 | 1548 | if (nullResult) { |
d3339be3 | 1549 | Error("CreateDataset", "No valid dataset corresponding to the query!"); |
1550 | return kFALSE; | |
1551 | } | |
a8739e8a | 1552 | } |
c57f56b7 | 1553 | return kTRUE; |
1554 | } | |
1555 | ||
1556 | //______________________________________________________________________________ | |
1557 | Bool_t AliAnalysisAlien::CreateJDL() | |
1558 | { | |
1559 | // Generate a JDL file according to current settings. The name of the file is | |
1560 | // specified by fJDLName. | |
ec5acdce | 1561 | AliAnalysisManager *mgr = AliAnalysisManager::GetAnalysisManager(); |
c57f56b7 | 1562 | Bool_t error = kFALSE; |
1563 | TObjArray *arr = 0; | |
1564 | Bool_t copy = kTRUE; | |
d3b18c4c | 1565 | if (fProductionMode || TestBit(AliAnalysisGrid::kOffline) || TestBit(AliAnalysisGrid::kTest)) copy = kFALSE; |
c57f56b7 | 1566 | Bool_t generate = kTRUE; |
1567 | if (TestBit(AliAnalysisGrid::kTest) || TestBit(AliAnalysisGrid::kSubmit)) generate = kFALSE; | |
1568 | if (!Connect()) { | |
1569 | Error("CreateJDL", "Alien connection required"); | |
1570 | return kFALSE; | |
1571 | } | |
1572 | // Check validity of alien workspace | |
d3b18c4c | 1573 | TString workdir; |
1574 | if (!fProductionMode && !fGridWorkingDir.BeginsWith("/alice")) workdir = gGrid->GetHomeDirectory(); | |
1575 | if (!fProductionMode && !TestBit(AliAnalysisGrid::kTest)) CdWork(); | |
c57f56b7 | 1576 | workdir += fGridWorkingDir; |
1577 | if (generate) { | |
1578 | TObjString *os; | |
1579 | if (!fInputFiles) { | |
1580 | Error("CreateJDL()", "Define some input files for your analysis."); | |
1581 | error = kTRUE; | |
1582 | } | |
1583 | // Compose list of input files | |
1584 | // Check if output files were defined | |
1585 | if (!fOutputFiles.Length()) { | |
1586 | Error("CreateJDL", "You must define at least one output file"); | |
1587 | error = kTRUE; | |
1588 | } | |
1589 | // Check if an output directory was defined and valid | |
1590 | if (!fGridOutputDir.Length()) { | |
1591 | Error("CreateJDL", "You must define AliEn output directory"); | |
1592 | error = kTRUE; | |
1593 | } else { | |
d3b18c4c | 1594 | if (!fProductionMode) { |
1595 | if (!fGridOutputDir.Contains("/")) fGridOutputDir = Form("%s/%s", workdir.Data(), fGridOutputDir.Data()); | |
1596 | if (!DirectoryExists(fGridOutputDir)) { | |
1597 | if (gGrid->Mkdir(fGridOutputDir,"-p")) { | |
1598 | Info("CreateJDL", "\n##### Created alien output directory %s", fGridOutputDir.Data()); | |
1599 | } else { | |
1600 | Error("CreateJDL", "Could not create alien output directory %s", fGridOutputDir.Data()); | |
1601 | // error = kTRUE; | |
1602 | } | |
67a3b254 | 1603 | } else { |
1604 | Warning("CreateJDL", "#### Output directory %s exists! If this contains old data, jobs will fail with ERROR_SV !!! ###", fGridOutputDir.Data()); | |
d3b18c4c | 1605 | } |
1606 | gGrid->Cd(workdir); | |
1607 | } | |
c57f56b7 | 1608 | } |
1609 | // Exit if any error up to now | |
1610 | if (error) return kFALSE; | |
1611 | // Set JDL fields | |
0f389141 | 1612 | if (!fUser.IsNull()) { |
1613 | fGridJDL->SetValue("User", Form("\"%s\"", fUser.Data())); | |
1614 | fMergingJDL->SetValue("User", Form("\"%s\"", fUser.Data())); | |
1615 | } | |
1616 | fGridJDL->SetExecutable(fExecutable, "This is the startup script"); | |
1617 | TString mergeExec = fExecutable; | |
1618 | mergeExec.ReplaceAll(".sh", "_merge.sh"); | |
1619 | fMergingJDL->SetExecutable(mergeExec, "This is the startup script"); | |
1620 | mergeExec.ReplaceAll(".sh", ".C"); | |
1621 | fMergingJDL->AddToInputSandbox(Form("LF:%s/%s", workdir.Data(),mergeExec.Data()), "List of input files to be uploaded to workers"); | |
b5b9dee8 | 1622 | if (!fArguments.IsNull()) |
1623 | fGridJDL->SetArguments(fArguments, "Arguments for the executable command"); | |
d3b18c4c | 1624 | if (IsOneStageMerging()) fMergingJDL->SetArguments(fGridOutputDir); |
f47d5cb4 | 1625 | else { |
1626 | if (fProductionMode) fMergingJDL->SetArguments("wn.xml $4"); // xml, stage | |
1627 | else fMergingJDL->SetArguments("wn.xml $2"); // xml, stage | |
1628 | } | |
b3e07543 | 1629 | |
1f0d1ca2 | 1630 | fGridJDL->SetValue("TTL", Form("\"%d\"",fTTL)); |
1631 | fGridJDL->SetDescription("TTL", Form("Time after which the job is killed (%d min.)", fTTL/60)); | |
1632 | fMergingJDL->SetValue("TTL", Form("\"%d\"",fTTL)); | |
1633 | fMergingJDL->SetDescription("TTL", Form("Time after which the job is killed (%d min.)", fTTL/60)); | |
1634 | ||
0f389141 | 1635 | if (fMaxInitFailed > 0) { |
c57f56b7 | 1636 | fGridJDL->SetValue("MaxInitFailed", Form("\"%d\"",fMaxInitFailed)); |
0f389141 | 1637 | fGridJDL->SetDescription("MaxInitFailed", "Maximum number of first failing jobs to abort the master job"); |
1638 | } | |
1639 | if (fSplitMaxInputFileNumber > 0) { | |
c57f56b7 | 1640 | fGridJDL->SetValue("SplitMaxInputFileNumber", Form("\"%d\"", fSplitMaxInputFileNumber)); |
0f389141 | 1641 | fGridJDL->SetDescription("SplitMaxInputFileNumber", "Maximum number of input files to be processed per subjob"); |
b3e07543 | 1642 | } |
1643 | if (!IsOneStageMerging()) { | |
f47d5cb4 | 1644 | fMergingJDL->SetValue("SplitMaxInputFileNumber", Form("\"%d\"",fMaxMergeFiles)); |
b3e07543 | 1645 | fMergingJDL->SetDescription("SplitMaxInputFileNumber", "Maximum number of input files to be merged in one go"); |
0f389141 | 1646 | } |
1647 | if (fSplitMode.Length()) { | |
c57f56b7 | 1648 | fGridJDL->SetValue("Split", Form("\"%s\"", fSplitMode.Data())); |
0f389141 | 1649 | fGridJDL->SetDescription("Split", "We split per SE or file"); |
b3e07543 | 1650 | } |
1651 | fMergingJDL->SetValue("Split", "\"se\""); | |
1652 | fMergingJDL->SetDescription("Split", "We split per SE for merging in stages"); | |
0f389141 | 1653 | if (!fAliROOTVersion.IsNull()) { |
1654 | fGridJDL->AddToPackages("AliRoot", fAliROOTVersion,"VO_ALICE", "List of requested packages"); | |
1655 | fMergingJDL->AddToPackages("AliRoot", fAliROOTVersion, "VO_ALICE", "List of requested packages"); | |
1656 | } | |
1657 | if (!fROOTVersion.IsNull()) { | |
c57f56b7 | 1658 | fGridJDL->AddToPackages("ROOT", fROOTVersion); |
0f389141 | 1659 | fMergingJDL->AddToPackages("ROOT", fROOTVersion); |
1660 | } | |
1661 | if (!fAPIVersion.IsNull()) { | |
c57f56b7 | 1662 | fGridJDL->AddToPackages("APISCONFIG", fAPIVersion); |
0f389141 | 1663 | fMergingJDL->AddToPackages("APISCONFIG", fAPIVersion); |
1664 | } | |
648174cf | 1665 | if (!fExternalPackages.IsNull()) { |
1666 | arr = fExternalPackages.Tokenize(" "); | |
1667 | TIter next(arr); | |
1668 | while ((os=(TObjString*)next())) { | |
1669 | TString pkgname = os->GetString(); | |
1670 | Int_t index = pkgname.Index("::"); | |
1671 | TString pkgversion = pkgname(index+2, pkgname.Length()); | |
1672 | pkgname.Remove(index); | |
1673 | fGridJDL->AddToPackages(pkgname, pkgversion); | |
0f389141 | 1674 | fMergingJDL->AddToPackages(pkgname, pkgversion); |
648174cf | 1675 | } |
1676 | delete arr; | |
1677 | } | |
0f389141 | 1678 | fGridJDL->SetInputDataListFormat(fInputFormat, "Format of input data"); |
1679 | fGridJDL->SetInputDataList("wn.xml", "Collection name to be processed on each worker node"); | |
b3e07543 | 1680 | fMergingJDL->SetInputDataListFormat(fInputFormat, "Format of input data"); |
1681 | fMergingJDL->SetInputDataList("wn.xml", "Collection name to be processed on each worker node"); | |
0f389141 | 1682 | fGridJDL->AddToInputSandbox(Form("LF:%s/%s", workdir.Data(), fAnalysisMacro.Data()), "List of input files to be uploaded to workers"); |
f10e8481 | 1683 | TString analysisFile = fExecutable; |
1684 | analysisFile.ReplaceAll(".sh", ".root"); | |
1685 | fGridJDL->AddToInputSandbox(Form("LF:%s/%s", workdir.Data(),analysisFile.Data())); | |
f866cba5 | 1686 | fMergingJDL->AddToInputSandbox(Form("LF:%s/%s", workdir.Data(),analysisFile.Data())); |
c57f56b7 | 1687 | if (fAdditionalLibs.Length()) { |
1688 | arr = fAdditionalLibs.Tokenize(" "); | |
1689 | TIter next(arr); | |
1690 | while ((os=(TObjString*)next())) { | |
1691 | if (os->GetString().Contains(".so")) continue; | |
1692 | fGridJDL->AddToInputSandbox(Form("LF:%s/%s", workdir.Data(), os->GetString().Data())); | |
0f389141 | 1693 | fMergingJDL->AddToInputSandbox(Form("LF:%s/%s", workdir.Data(), os->GetString().Data())); |
c57f56b7 | 1694 | } |
1695 | delete arr; | |
1696 | } | |
4e5c5506 | 1697 | if (fPackages) { |
1698 | TIter next(fPackages); | |
1699 | TObject *obj; | |
0f389141 | 1700 | while ((obj=next())) { |
4e5c5506 | 1701 | fGridJDL->AddToInputSandbox(Form("LF:%s/%s", workdir.Data(), obj->GetName())); |
0f389141 | 1702 | fMergingJDL->AddToInputSandbox(Form("LF:%s/%s", workdir.Data(), obj->GetName())); |
1703 | } | |
4e5c5506 | 1704 | } |
c57f56b7 | 1705 | if (fOutputArchive.Length()) { |
e4d9a069 | 1706 | TString outputArchive = fOutputArchive; |
1707 | if (!fRegisterExcludes.IsNull()) { | |
1708 | arr = fRegisterExcludes.Tokenize(" "); | |
1709 | TIter next1(arr); | |
1710 | while ((os=(TObjString*)next1())) { | |
1711 | outputArchive.ReplaceAll(Form("%s,",os->GetString().Data()),""); | |
1712 | outputArchive.ReplaceAll(os->GetString(),""); | |
1713 | } | |
1714 | delete arr; | |
1715 | } | |
1716 | arr = outputArchive.Tokenize(" "); | |
c57f56b7 | 1717 | TIter next(arr); |
0f389141 | 1718 | Bool_t first = kTRUE; |
1719 | const char *comment = "Files to be archived"; | |
1720 | const char *comment1 = comment; | |
1721 | while ((os=(TObjString*)next())) { | |
1722 | if (!first) comment = NULL; | |
1723 | if (!os->GetString().Contains("@") && fCloseSE.Length()) | |
1724 | fGridJDL->AddToOutputArchive(Form("%s@%s",os->GetString().Data(), fCloseSE.Data()), comment); | |
1725 | else | |
1726 | fGridJDL->AddToOutputArchive(os->GetString(), comment); | |
1727 | first = kFALSE; | |
1728 | } | |
c57f56b7 | 1729 | delete arr; |
f790bc1b | 1730 | // Output archive for the merging jdl |
f790bc1b | 1731 | if (TestBit(AliAnalysisGrid::kDefaultOutputs)) { |
b83f84f0 | 1732 | outputArchive = "log_archive.zip:std*@disk=1 "; |
f790bc1b | 1733 | // Add normal output files, extra files + terminate files |
1734 | TString files = GetListOfFiles("outextter"); | |
37d21c01 | 1735 | // Do not register files in fRegisterExcludes |
1736 | if (!fRegisterExcludes.IsNull()) { | |
1737 | arr = fRegisterExcludes.Tokenize(" "); | |
f790bc1b | 1738 | TIter next1(arr); |
1739 | while ((os=(TObjString*)next1())) { | |
1740 | files.ReplaceAll(Form("%s,",os->GetString().Data()),""); | |
1741 | files.ReplaceAll(os->GetString(),""); | |
1742 | } | |
66d71516 | 1743 | delete arr; |
0f389141 | 1744 | } |
f790bc1b | 1745 | files.ReplaceAll(".root", "*.root"); |
ec5acdce | 1746 | |
1747 | if (mgr->IsCollectThroughput()) | |
1748 | outputArchive += Form("root_archive.zip:%s,*.stat,*%s@disk=%d",files.Data(),mgr->GetFileInfoLog(),fNreplicas); | |
1749 | else | |
1750 | outputArchive += Form("root_archive.zip:%s,*.stat@disk=%d",files.Data(),fNreplicas); | |
f790bc1b | 1751 | } else { |
95f84779 | 1752 | TString files = fOutputArchive; |
1753 | files.ReplaceAll(".root", "*.root"); // nreplicas etc should be already atttached by use | |
1754 | outputArchive = files; | |
f790bc1b | 1755 | } |
0f389141 | 1756 | arr = outputArchive.Tokenize(" "); |
705adb3e | 1757 | TIter next2(arr); |
0f389141 | 1758 | comment = comment1; |
1759 | first = kTRUE; | |
705adb3e | 1760 | while ((os=(TObjString*)next2())) { |
0f389141 | 1761 | if (!first) comment = NULL; |
0cdf65a8 | 1762 | TString currentfile = os->GetString(); |
0cdf65a8 | 1763 | if (!currentfile.Contains("@") && fCloseSE.Length()) |
d3b18c4c | 1764 | fMergingJDL->AddToOutputArchive(Form("%s@%s",currentfile.Data(), fCloseSE.Data()), comment); |
0f389141 | 1765 | else |
0cdf65a8 | 1766 | fMergingJDL->AddToOutputArchive(currentfile, comment); |
0f389141 | 1767 | first = kFALSE; |
1768 | } | |
1769 | delete arr; | |
c57f56b7 | 1770 | } |
149d288c | 1771 | arr = fOutputFiles.Tokenize(","); |
c57f56b7 | 1772 | TIter next(arr); |
0f389141 | 1773 | Bool_t first = kTRUE; |
f790bc1b | 1774 | const char *comment = "Files to be saved"; |
43da816a | 1775 | while ((os=(TObjString*)next())) { |
e1eaf596 | 1776 | // Ignore ouputs in jdl that are also in outputarchive |
1777 | TString sout = os->GetString(); | |
f790bc1b | 1778 | sout.ReplaceAll("*", ""); |
1779 | sout.ReplaceAll(".root", ""); | |
e1eaf596 | 1780 | if (sout.Index("@")>0) sout.Remove(sout.Index("@")); |
1781 | if (fOutputArchive.Contains(sout)) continue; | |
37d21c01 | 1782 | // Ignore fRegisterExcludes |
1783 | if (fRegisterExcludes.Contains(sout)) continue; | |
0f389141 | 1784 | if (!first) comment = NULL; |
43da816a | 1785 | if (!os->GetString().Contains("@") && fCloseSE.Length()) |
0f389141 | 1786 | fGridJDL->AddToOutputSandbox(Form("%s@%s",os->GetString().Data(), fCloseSE.Data()), comment); |
43da816a | 1787 | else |
0f389141 | 1788 | fGridJDL->AddToOutputSandbox(os->GetString(), comment); |
b3e07543 | 1789 | first = kFALSE; |
f790bc1b | 1790 | if (fMergeExcludes.Contains(sout)) continue; |
1791 | if (!os->GetString().Contains("@") && fCloseSE.Length()) | |
1792 | fMergingJDL->AddToOutputSandbox(Form("%s@%s",os->GetString().Data(), fCloseSE.Data()), comment); | |
1793 | else | |
1794 | fMergingJDL->AddToOutputSandbox(os->GetString(), comment); | |
43da816a | 1795 | } |
c57f56b7 | 1796 | delete arr; |
0f389141 | 1797 | fGridJDL->SetPrice((UInt_t)fPrice, "AliEn price for this job"); |
1798 | fMergingJDL->SetPrice((UInt_t)fPrice, "AliEn price for this job"); | |
d3b18c4c | 1799 | TString validationScript = fValidationScript; |
0f389141 | 1800 | fGridJDL->SetValidationCommand(Form("%s/%s", workdir.Data(),validationScript.Data()), "Validation script to be run for each subjob"); |
d3b18c4c | 1801 | validationScript.ReplaceAll(".sh", "_merge.sh"); |
0f389141 | 1802 | fMergingJDL->SetValidationCommand(Form("%s/%s", workdir.Data(),validationScript.Data()), "Validation script to be run for each subjob"); |
1803 | if (fMasterResubmitThreshold) { | |
1804 | fGridJDL->SetValue("MasterResubmitThreshold", Form("\"%d%%\"", fMasterResubmitThreshold)); | |
1805 | fGridJDL->SetDescription("MasterResubmitThreshold", "Resubmit failed jobs until DONE rate reaches this percentage"); | |
1806 | } | |
d2a409b2 | 1807 | // Write a jdl with 2 input parameters: collection name and output dir name. |
1808 | WriteJDL(copy); | |
c57f56b7 | 1809 | } |
1810 | // Copy jdl to grid workspace | |
a8739e8a | 1811 | if (copy) { |
b5e4aaa7 | 1812 | // Check if an output directory was defined and valid |
1813 | if (!fGridOutputDir.Length()) { | |
1814 | Error("CreateJDL", "You must define AliEn output directory"); | |
1815 | return kFALSE; | |
1816 | } else { | |
1817 | if (!fGridOutputDir.Contains("/")) fGridOutputDir = Form("%s/%s", workdir.Data(), fGridOutputDir.Data()); | |
bb2e67a0 | 1818 | if (!fProductionMode && !DirectoryExists(fGridOutputDir)) { |
b93f8109 | 1819 | if (gGrid->Mkdir(fGridOutputDir,"-p")) { |
b5e4aaa7 | 1820 | Info("CreateJDL", "\n##### Created alien output directory %s", fGridOutputDir.Data()); |
1821 | } else { | |
1822 | Error("CreateJDL", "Could not create alien output directory %s", fGridOutputDir.Data()); | |
1823 | return kFALSE; | |
1824 | } | |
1825 | } | |
1826 | gGrid->Cd(workdir); | |
1827 | } | |
648174cf | 1828 | if (TestBit(AliAnalysisGrid::kSubmit)) { |
0f389141 | 1829 | TString mergeJDLName = fExecutable; |
1830 | mergeJDLName.ReplaceAll(".sh", "_merge.jdl"); | |
648174cf | 1831 | TString locjdl = Form("%s/%s", fGridOutputDir.Data(),fJDLName.Data()); |
0f389141 | 1832 | TString locjdl1 = Form("%s/%s", fGridOutputDir.Data(),mergeJDLName.Data()); |
1833 | if (fProductionMode) { | |
648174cf | 1834 | locjdl = Form("%s/%s", workdir.Data(),fJDLName.Data()); |
0f389141 | 1835 | locjdl1 = Form("%s/%s", workdir.Data(),mergeJDLName.Data()); |
1836 | } | |
648174cf | 1837 | if (FileExists(locjdl)) gGrid->Rm(locjdl); |
0f389141 | 1838 | if (FileExists(locjdl1)) gGrid->Rm(locjdl1); |
1839 | Info("CreateJDL", "\n##### Copying JDL file <%s> to your AliEn output directory", fJDLName.Data()); | |
6c395669 | 1840 | if (!copyLocal2Alien("CreateJDL", fJDLName, locjdl)) |
1841 | Fatal("","Terminating"); | |
1842 | // TFile::Cp(Form("file:%s",fJDLName.Data()), Form("alien://%s", locjdl.Data())); | |
0f389141 | 1843 | if (fMergeViaJDL) { |
1844 | Info("CreateJDL", "\n##### Copying merging JDL file <%s> to your AliEn output directory", mergeJDLName.Data()); | |
6c395669 | 1845 | // TFile::Cp(Form("file:%s",mergeJDLName.Data()), Form("alien://%s", locjdl1.Data())); |
1846 | if (!copyLocal2Alien("CreateJDL", mergeJDLName.Data(), locjdl1)) | |
1847 | Fatal("","Terminating"); | |
0f389141 | 1848 | } |
648174cf | 1849 | } |
c57f56b7 | 1850 | if (fAdditionalLibs.Length()) { |
e7c71df0 | 1851 | arr = fAdditionalLibs.Tokenize(" "); |
c57f56b7 | 1852 | TObjString *os; |
1853 | TIter next(arr); | |
1854 | while ((os=(TObjString*)next())) { | |
c57f56b7 | 1855 | if (os->GetString().Contains(".so")) continue; |
4e5c5506 | 1856 | Info("CreateJDL", "\n##### Copying dependency: <%s> to your alien workspace", os->GetString().Data()); |
c57f56b7 | 1857 | if (FileExists(os->GetString())) gGrid->Rm(os->GetString()); |
6c395669 | 1858 | // TFile::Cp(Form("file:%s",os->GetString().Data()), Form("alien://%s/%s", workdir.Data(), os->GetString().Data())); |
1859 | if (!copyLocal2Alien("CreateJDL", os->GetString().Data(), | |
1860 | Form("%s/%s", workdir.Data(), os->GetString().Data()))) | |
1861 | Fatal("","Terminating"); | |
c57f56b7 | 1862 | } |
1863 | delete arr; | |
1864 | } | |
4e5c5506 | 1865 | if (fPackages) { |
1866 | TIter next(fPackages); | |
1867 | TObject *obj; | |
1868 | while ((obj=next())) { | |
fdbbc7be | 1869 | if (FileExists(obj->GetName())) gGrid->Rm(obj->GetName()); |
4e5c5506 | 1870 | Info("CreateJDL", "\n##### Copying dependency: <%s> to your alien workspace", obj->GetName()); |
6c395669 | 1871 | // TFile::Cp(Form("file:%s",obj->GetName()), Form("alien://%s/%s", workdir.Data(), obj->GetName())); |
1872 | if (!copyLocal2Alien("CreateJDL",obj->GetName(), | |
1873 | Form("%s/%s", workdir.Data(), obj->GetName()))) | |
1874 | Fatal("","Terminating"); | |
4e5c5506 | 1875 | } |
1876 | } | |
c57f56b7 | 1877 | } |
1878 | return kTRUE; | |
1879 | } | |
1880 | ||
a8739e8a | 1881 | //______________________________________________________________________________ |
d2a409b2 | 1882 | Bool_t AliAnalysisAlien::WriteJDL(Bool_t copy) |
a8739e8a | 1883 | { |
1884 | // Writes one or more JDL's corresponding to findex. If findex is negative, | |
1885 | // all run numbers are considered in one go (jdl). For non-negative indices | |
1886 | // they correspond to the indices in the array fInputFiles. | |
1887 | if (!fInputFiles) return kFALSE; | |
d3b18c4c | 1888 | TObject *os; |
1889 | TString workdir; | |
1890 | if (!fProductionMode && !fGridWorkingDir.BeginsWith("/alice")) workdir = gGrid->GetHomeDirectory(); | |
a8739e8a | 1891 | workdir += fGridWorkingDir; |
f47d5cb4 | 1892 | TString stageName = "$2"; |
1893 | if (fProductionMode) stageName = "$4"; | |
1894 | if (!fMergeDirName.IsNull()) { | |
1895 | fMergingJDL->AddToInputDataCollection(Form("LF:$1/%s/Stage_%s.xml,nodownload",fMergeDirName.Data(),stageName.Data()), "Collection of files to be merged for current stage"); | |
1896 | fMergingJDL->SetOutputDirectory(Form("$1/%s/Stage_%s/#alien_counter_03i#",fMergeDirName.Data(),stageName.Data()), "Output directory"); | |
1897 | } else { | |
1898 | fMergingJDL->AddToInputDataCollection(Form("LF:$1/Stage_%s.xml,nodownload",stageName.Data()), "Collection of files to be merged for current stage"); | |
1899 | fMergingJDL->SetOutputDirectory(Form("$1/Stage_%s/#alien_counter_03i#",stageName.Data()), "Output directory"); | |
1900 | } | |
d3b18c4c | 1901 | if (fProductionMode) { |
a8739e8a | 1902 | TIter next(fInputFiles); |
b3e07543 | 1903 | while ((os=next())) { |
d3b18c4c | 1904 | fGridJDL->AddToInputDataCollection(Form("LF:%s,nodownload", os->GetName()), "Input xml collections"); |
b3e07543 | 1905 | } |
56754bf6 | 1906 | if (!fOutputToRunNo) |
1907 | fGridJDL->SetOutputDirectory(Form("%s/#alien_counter_04i#", fGridOutputDir.Data())); | |
1908 | else | |
1909 | fGridJDL->SetOutputDirectory(fGridOutputDir); | |
d3b18c4c | 1910 | } else { |
1911 | if (!fRunNumbers.Length() && !fRunRange[0]) { | |
1912 | // One jdl with no parameters in case input data is specified by name. | |
1913 | TIter next(fInputFiles); | |
1914 | while ((os=next())) | |
1915 | fGridJDL->AddToInputDataCollection(Form("LF:%s,nodownload", os->GetName()), "Input xml collections"); | |
1916 | if (!fOutputSingle.IsNull()) | |
1917 | fGridJDL->SetOutputDirectory(Form("#alienfulldir#/../%s",fOutputSingle.Data()), "Output directory"); | |
1918 | else { | |
1919 | fGridJDL->SetOutputDirectory(Form("%s/#alien_counter_03i#", fGridOutputDir.Data()), "Output directory"); | |
1920 | fMergingJDL->SetOutputDirectory(fGridOutputDir); | |
1921 | } | |
1922 | } else { | |
1923 | // One jdl to be submitted with 2 input parameters: data collection name and output dir prefix | |
1924 | fGridJDL->AddToInputDataCollection(Form("LF:%s/$1,nodownload", workdir.Data()), "Input xml collections"); | |
1925 | if (!fOutputSingle.IsNull()) { | |
1926 | if (!fOutputToRunNo) fGridJDL->SetOutputDirectory(Form("#alienfulldir#/%s",fOutputSingle.Data()), "Output directory"); | |
1927 | else fGridJDL->SetOutputDirectory(Form("%s/$2",fGridOutputDir.Data()), "Output directory"); | |
1928 | } else { | |
1929 | fGridJDL->SetOutputDirectory(Form("%s/$2/#alien_counter_03i#", fGridOutputDir.Data()), "Output directory"); | |
d3b18c4c | 1930 | } |
1931 | } | |
a8739e8a | 1932 | } |
1933 | ||
a8739e8a | 1934 | // Generate the JDL as a string |
1935 | TString sjdl = fGridJDL->Generate(); | |
0f389141 | 1936 | TString sjdl1 = fMergingJDL->Generate(); |
f47d5cb4 | 1937 | // Final merge jdl |
1938 | if (!fMergeDirName.IsNull()) { | |
1939 | fMergingJDL->SetOutputDirectory(Form("$1/%s",fMergeDirName.Data()), "Output directory"); | |
1940 | fMergingJDL->AddToInputSandbox(Form("LF:$1/%s/Stage_%s.xml",fMergeDirName.Data(),stageName.Data())); | |
1941 | } else { | |
1942 | fMergingJDL->SetOutputDirectory("$1", "Output directory"); | |
1943 | fMergingJDL->AddToInputSandbox(Form("LF:$1/Stage_%s.xml",stageName.Data())); | |
1944 | } | |
b3e07543 | 1945 | TString sjdl2 = fMergingJDL->Generate(); |
1946 | Int_t index, index1; | |
a8739e8a | 1947 | sjdl.ReplaceAll("\"LF:", "\n \"LF:"); |
1948 | sjdl.ReplaceAll("(member", "\n (member"); | |
1949 | sjdl.ReplaceAll("\",\"VO_", "\",\n \"VO_"); | |
1950 | sjdl.ReplaceAll("{", "{\n "); | |
1951 | sjdl.ReplaceAll("};", "\n};"); | |
1952 | sjdl.ReplaceAll("{\n \n", "{\n"); | |
1953 | sjdl.ReplaceAll("\n\n", "\n"); | |
1954 | sjdl.ReplaceAll("OutputDirectory", "OutputDir"); | |
0f389141 | 1955 | sjdl1.ReplaceAll("\"LF:", "\n \"LF:"); |
1956 | sjdl1.ReplaceAll("(member", "\n (member"); | |
1957 | sjdl1.ReplaceAll("\",\"VO_", "\",\n \"VO_"); | |
1958 | sjdl1.ReplaceAll("{", "{\n "); | |
1959 | sjdl1.ReplaceAll("};", "\n};"); | |
1960 | sjdl1.ReplaceAll("{\n \n", "{\n"); | |
1961 | sjdl1.ReplaceAll("\n\n", "\n"); | |
1962 | sjdl1.ReplaceAll("OutputDirectory", "OutputDir"); | |
b3e07543 | 1963 | sjdl2.ReplaceAll("\"LF:", "\n \"LF:"); |
1964 | sjdl2.ReplaceAll("(member", "\n (member"); | |
1965 | sjdl2.ReplaceAll("\",\"VO_", "\",\n \"VO_"); | |
1966 | sjdl2.ReplaceAll("{", "{\n "); | |
1967 | sjdl2.ReplaceAll("};", "\n};"); | |
1968 | sjdl2.ReplaceAll("{\n \n", "{\n"); | |
1969 | sjdl2.ReplaceAll("\n\n", "\n"); | |
1970 | sjdl2.ReplaceAll("OutputDirectory", "OutputDir"); | |
a8739e8a | 1971 | sjdl += "JDLVariables = \n{\n \"Packages\",\n \"OutputDir\"\n};\n"; |
f60ef0ba | 1972 | sjdl.Prepend(Form("Jobtag = {\n \"comment:%s\"\n};\n", fJobTag.Data())); |
a8739e8a | 1973 | index = sjdl.Index("JDLVariables"); |
1974 | if (index >= 0) sjdl.Insert(index, "\n# JDL variables\n"); | |
4739b2aa | 1975 | sjdl += "Workdirectorysize = {\"5000MB\"};"; |
b3e07543 | 1976 | sjdl1 += "Workdirectorysize = {\"5000MB\"};"; |
0f389141 | 1977 | sjdl1 += "JDLVariables = \n{\n \"Packages\",\n \"OutputDir\"\n};\n"; |
d3b18c4c | 1978 | index = fJobTag.Index(":"); |
1979 | if (index < 0) index = fJobTag.Length(); | |
1980 | TString jobTag = fJobTag; | |
f47d5cb4 | 1981 | if (fProductionMode) jobTag.Insert(index,"_Stage$4"); |
d3b18c4c | 1982 | sjdl1.Prepend(Form("Jobtag = {\n \"comment:%s_Merging\"\n};\n", jobTag.Data())); |
f47d5cb4 | 1983 | if (fProductionMode) { |
1984 | sjdl1.Prepend("# Generated merging jdl (production mode) \ | |
1985 | \n# $1 = full alien path to output directory to be merged \ | |
1986 | \n# $2 = train number \ | |
1987 | \n# $3 = production (like LHC10b) \ | |
1988 | \n# $4 = merging stage \ | |
1989 | \n# Stage_<n>.xml made via: find <OutputDir> *Stage<n-1>/*root_archive.zip\n"); | |
1990 | sjdl2.Prepend(Form("Jobtag = {\n \"comment:%s_FinalMerging\"\n};\n", jobTag.Data())); | |
1991 | sjdl2.Prepend("# Generated merging jdl \ | |
1992 | \n# $1 = full alien path to output directory to be merged \ | |
1993 | \n# $2 = train number \ | |
1994 | \n# $3 = production (like LHC10b) \ | |
1995 | \n# $4 = merging stage \ | |
1996 | \n# Stage_<n>.xml made via: find <OutputDir> *Stage<n-1>/*root_archive.zip\n"); | |
1997 | } else { | |
1998 | sjdl1.Prepend("# Generated merging jdl \ | |
1999 | \n# $1 = full alien path to output directory to be merged \ | |
2000 | \n# $2 = merging stage \ | |
03335324 | 2001 | \n# xml made via: find <OutputDir> *Stage<n-1>/*root_archive.zip\n"); |
f47d5cb4 | 2002 | sjdl2.Prepend(Form("Jobtag = {\n \"comment:%s_FinalMerging\"\n};\n", jobTag.Data())); |
2003 | sjdl2.Prepend("# Generated merging jdl \ | |
2004 | \n# $1 = full alien path to output directory to be merged \ | |
2005 | \n# $2 = merging stage \ | |
03335324 | 2006 | \n# xml made via: find <OutputDir> *Stage<n-1>/*root_archive.zip\n"); |
f47d5cb4 | 2007 | } |
0f389141 | 2008 | index = sjdl1.Index("JDLVariables"); |
2009 | if (index >= 0) sjdl1.Insert(index, "\n# JDL variables\n"); | |
b3e07543 | 2010 | index = sjdl2.Index("JDLVariables"); |
2011 | if (index >= 0) sjdl2.Insert(index, "\n# JDL variables\n"); | |
4739b2aa | 2012 | sjdl1 += "Workdirectorysize = {\"5000MB\"};"; |
b3e07543 | 2013 | sjdl2 += "Workdirectorysize = {\"5000MB\"};"; |
2014 | index = sjdl2.Index("Split ="); | |
2015 | if (index>=0) { | |
2016 | index1 = sjdl2.Index("\n", index); | |
2017 | sjdl2.Remove(index, index1-index+1); | |
2018 | } | |
2019 | index = sjdl2.Index("SplitMaxInputFileNumber"); | |
2020 | if (index>=0) { | |
2021 | index1 = sjdl2.Index("\n", index); | |
2022 | sjdl2.Remove(index, index1-index+1); | |
2023 | } | |
2024 | index = sjdl2.Index("InputDataCollection"); | |
2025 | if (index>=0) { | |
2026 | index1 = sjdl2.Index(";", index); | |
2027 | sjdl2.Remove(index, index1-index+1); | |
2028 | } | |
2029 | index = sjdl2.Index("InputDataListFormat"); | |
2030 | if (index>=0) { | |
2031 | index1 = sjdl2.Index("\n", index); | |
2032 | sjdl2.Remove(index, index1-index+1); | |
2033 | } | |
2034 | index = sjdl2.Index("InputDataList"); | |
2035 | if (index>=0) { | |
2036 | index1 = sjdl2.Index("\n", index); | |
2037 | sjdl2.Remove(index, index1-index+1); | |
2038 | } | |
f47d5cb4 | 2039 | sjdl2.ReplaceAll("wn.xml", Form("Stage_%s.xml",stageName.Data())); |
a8739e8a | 2040 | // Write jdl to file |
a8739e8a | 2041 | ofstream out; |
d2a409b2 | 2042 | out.open(fJDLName.Data(), ios::out); |
a8739e8a | 2043 | if (out.bad()) { |
d3b18c4c | 2044 | Error("WriteJDL", "Bad file name: %s", fJDLName.Data()); |
a8739e8a | 2045 | return kFALSE; |
2046 | } | |
2047 | out << sjdl << endl; | |
b3e07543 | 2048 | out.close(); |
0f389141 | 2049 | TString mergeJDLName = fExecutable; |
2050 | mergeJDLName.ReplaceAll(".sh", "_merge.jdl"); | |
2051 | if (fMergeViaJDL) { | |
2052 | ofstream out1; | |
2053 | out1.open(mergeJDLName.Data(), ios::out); | |
b3e07543 | 2054 | if (out1.bad()) { |
d3b18c4c | 2055 | Error("WriteJDL", "Bad file name: %s", mergeJDLName.Data()); |
0f389141 | 2056 | return kFALSE; |
2057 | } | |
2058 | out1 << sjdl1 << endl; | |
b3e07543 | 2059 | out1.close(); |
2060 | ofstream out2; | |
2061 | TString finalJDL = mergeJDLName; | |
2062 | finalJDL.ReplaceAll(".jdl", "_final.jdl"); | |
2063 | out2.open(finalJDL.Data(), ios::out); | |
2064 | if (out2.bad()) { | |
2065 | Error("WriteJDL", "Bad file name: %s", finalJDL.Data()); | |
2066 | return kFALSE; | |
2067 | } | |
2068 | out2 << sjdl2 << endl; | |
2069 | out2.close(); | |
0f389141 | 2070 | } |
a8739e8a | 2071 | |
2072 | // Copy jdl to grid workspace | |
2073 | if (!copy) { | |
d3b18c4c | 2074 | Info("WriteJDL", "\n##### You may want to review jdl:%s and analysis macro:%s before running in <submit> mode", fJDLName.Data(), fAnalysisMacro.Data()); |
a8739e8a | 2075 | } else { |
d2a409b2 | 2076 | TString locjdl = Form("%s/%s", fGridOutputDir.Data(),fJDLName.Data()); |
0f389141 | 2077 | TString locjdl1 = Form("%s/%s", fGridOutputDir.Data(),mergeJDLName.Data()); |
b3e07543 | 2078 | TString finalJDL = mergeJDLName; |
2079 | finalJDL.ReplaceAll(".jdl", "_final.jdl"); | |
2080 | TString locjdl2 = Form("%s/%s", fGridOutputDir.Data(),finalJDL.Data()); | |
0f389141 | 2081 | if (fProductionMode) { |
b5fe9cba | 2082 | locjdl = Form("%s/%s", workdir.Data(),fJDLName.Data()); |
0f389141 | 2083 | locjdl1 = Form("%s/%s", workdir.Data(),mergeJDLName.Data()); |
b3e07543 | 2084 | locjdl2 = Form("%s/%s", workdir.Data(),finalJDL.Data()); |
0f389141 | 2085 | } |
d2a409b2 | 2086 | if (FileExists(locjdl)) gGrid->Rm(locjdl); |
0f389141 | 2087 | if (FileExists(locjdl1)) gGrid->Rm(locjdl1); |
b3e07543 | 2088 | if (FileExists(locjdl2)) gGrid->Rm(locjdl2); |
d3b18c4c | 2089 | Info("WriteJDL", "\n##### Copying JDL file <%s> to your AliEn output directory", fJDLName.Data()); |
6c395669 | 2090 | // TFile::Cp(Form("file:%s",fJDLName.Data()), Form("alien://%s", locjdl.Data())); |
2091 | if (!copyLocal2Alien("WriteJDL",fJDLName.Data(),locjdl.Data())) | |
2092 | Fatal("","Terminating"); | |
0f389141 | 2093 | if (fMergeViaJDL) { |
b3e07543 | 2094 | Info("WriteJDL", "\n##### Copying merging JDL files <%s> to your AliEn output directory", mergeJDLName.Data()); |
6c395669 | 2095 | // TFile::Cp(Form("file:%s",mergeJDLName.Data()), Form("alien://%s", locjdl1.Data())); |
2096 | // TFile::Cp(Form("file:%s",finalJDL.Data()), Form("alien://%s", locjdl2.Data())); | |
2097 | if (!copyLocal2Alien("WriteJDL",mergeJDLName.Data(),locjdl1.Data())) | |
2098 | Fatal("","Terminating"); | |
2099 | if (!copyLocal2Alien("WriteJDL",finalJDL.Data(),locjdl2.Data())) | |
2100 | Fatal("","Terminating"); | |
0f389141 | 2101 | } |
a8739e8a | 2102 | } |
2103 | return kTRUE; | |
2104 | } | |
2105 | ||
c57f56b7 | 2106 | //______________________________________________________________________________ |
5513444a | 2107 | Bool_t AliAnalysisAlien::FileExists(const char *lfn) |
c57f56b7 | 2108 | { |
2109 | // Returns true if file exists. | |
5513444a | 2110 | if (!gGrid) return kFALSE; |
2ea55496 | 2111 | TString slfn = lfn; |
2112 | slfn.ReplaceAll("alien://",""); | |
2113 | TGridResult *res = gGrid->Ls(slfn); | |
c57f56b7 | 2114 | if (!res) return kFALSE; |
2115 | TMap *map = dynamic_cast<TMap*>(res->At(0)); | |
2116 | if (!map) { | |
2117 | delete res; | |
2118 | return kFALSE; | |
2119 | } | |
2120 | TObjString *objs = dynamic_cast<TObjString*>(map->GetValue("name")); | |
2121 | if (!objs || !objs->GetString().Length()) { | |
2122 | delete res; | |
2123 | return kFALSE; | |
2124 | } | |
2125 | delete res; | |
2126 | return kTRUE; | |
2127 | } | |
2128 | ||
923e2ca5 | 2129 | //______________________________________________________________________________ |
2130 | Bool_t AliAnalysisAlien::DirectoryExists(const char *dirname) | |
2131 | { | |
2132 | // Returns true if directory exists. Can be also a path. | |
2133 | if (!gGrid) return kFALSE; | |
2134 | // Check if dirname is a path | |
2135 | TString dirstripped = dirname; | |
2136 | dirstripped = dirstripped.Strip(); | |
2137 | dirstripped = dirstripped.Strip(TString::kTrailing, '/'); | |
2138 | TString dir = gSystem->BaseName(dirstripped); | |
2139 | dir += "/"; | |
2140 | TString path = gSystem->DirName(dirstripped); | |
2141 | TGridResult *res = gGrid->Ls(path, "-F"); | |
2142 | if (!res) return kFALSE; | |
2143 | TIter next(res); | |
2144 | TMap *map; | |
2145 | TObject *obj; | |
2146 | while ((map=dynamic_cast<TMap*>(next()))) { | |
2147 | obj = map->GetValue("name"); | |
2148 | if (!obj) break; | |
2149 | if (dir == obj->GetName()) { | |
2150 | delete res; | |
2151 | return kTRUE; | |
2152 | } | |
2153 | } | |
2154 | delete res; | |
2155 | return kFALSE; | |
2156 | } | |
2157 | ||
c57f56b7 | 2158 | //______________________________________________________________________________ |
a2f5fc01 | 2159 | void AliAnalysisAlien::CheckDataType(const char *lfn, Bool_t &isCollection, Bool_t &isXml, Bool_t &useTags) |
c57f56b7 | 2160 | { |
2161 | // Check input data type. | |
a2f5fc01 | 2162 | isCollection = kFALSE; |
2163 | isXml = kFALSE; | |
2164 | useTags = kFALSE; | |
c57f56b7 | 2165 | if (!gGrid) { |
2166 | Error("CheckDataType", "No connection to grid"); | |
2167 | return; | |
2168 | } | |
a2f5fc01 | 2169 | isCollection = IsCollection(lfn); |
c57f56b7 | 2170 | TString msg = "\n##### file: "; |
2171 | msg += lfn; | |
a2f5fc01 | 2172 | if (isCollection) { |
c57f56b7 | 2173 | msg += " type: raw_collection;"; |
2174 | // special treatment for collections | |
a2f5fc01 | 2175 | isXml = kFALSE; |
c57f56b7 | 2176 | // check for tag files in the collection |
2177 | TGridResult *res = gGrid->Command(Form("listFilesFromCollection -z -v %s",lfn), kFALSE); | |
2178 | if (!res) { | |
2179 | msg += " using_tags: No (unknown)"; | |
23329835 | 2180 | Info("CheckDataType", "%s", msg.Data()); |
c57f56b7 | 2181 | return; |
2182 | } | |
2183 | const char* typeStr = res->GetKey(0, "origLFN"); | |
2184 | if (!typeStr || !strlen(typeStr)) { | |
2185 | msg += " using_tags: No (unknown)"; | |
23329835 | 2186 | Info("CheckDataType", "%s", msg.Data()); |
c57f56b7 | 2187 | return; |
2188 | } | |
2189 | TString file = typeStr; | |
a2f5fc01 | 2190 | useTags = file.Contains(".tag"); |
2191 | if (useTags) msg += " using_tags: Yes"; | |
c57f56b7 | 2192 | else msg += " using_tags: No"; |
23329835 | 2193 | Info("CheckDataType", "%s", msg.Data()); |
c57f56b7 | 2194 | return; |
2195 | } | |
2196 | TString slfn(lfn); | |
2197 | slfn.ToLower(); | |
a2f5fc01 | 2198 | isXml = slfn.Contains(".xml"); |
2199 | if (isXml) { | |
c57f56b7 | 2200 | // Open xml collection and check if there are tag files inside |
2201 | msg += " type: xml_collection;"; | |
2202 | TGridCollection *coll = (TGridCollection*)gROOT->ProcessLine(Form("TAlienCollection::Open(\"alien://%s\",1);",lfn)); | |
2203 | if (!coll) { | |
2204 | msg += " using_tags: No (unknown)"; | |
23329835 | 2205 | Info("CheckDataType", "%s", msg.Data()); |
c57f56b7 | 2206 | return; |
2207 | } | |
2208 | TMap *map = coll->Next(); | |
2209 | if (!map) { | |
2210 | msg += " using_tags: No (unknown)"; | |
23329835 | 2211 | Info("CheckDataType", "%s", msg.Data()); |
c57f56b7 | 2212 | return; |
2213 | } | |
2214 | map = (TMap*)map->GetValue(""); | |
2215 | TString file; | |
2216 | if (map && map->GetValue("name")) file = map->GetValue("name")->GetName(); | |
a2f5fc01 | 2217 | useTags = file.Contains(".tag"); |
c57f56b7 | 2218 | delete coll; |
a2f5fc01 | 2219 | if (useTags) msg += " using_tags: Yes"; |
c57f56b7 | 2220 | else msg += " using_tags: No"; |
23329835 | 2221 | Info("CheckDataType", "%s", msg.Data()); |
c57f56b7 | 2222 | return; |
2223 | } | |
a2f5fc01 | 2224 | useTags = slfn.Contains(".tag"); |
c57f56b7 | 2225 | if (slfn.Contains(".root")) msg += " type: root file;"; |
f866cba5 | 2226 | else msg += " type: unknown file;"; |
a2f5fc01 | 2227 | if (useTags) msg += " using_tags: Yes"; |
c57f56b7 | 2228 | else msg += " using_tags: No"; |
23329835 | 2229 | Info("CheckDataType", "%s", msg.Data()); |
c57f56b7 | 2230 | } |
2231 | ||
4e5c5506 | 2232 | //______________________________________________________________________________ |
2233 | void AliAnalysisAlien::EnablePackage(const char *package) | |
2234 | { | |
2235 | // Enables a par file supposed to exist in the current directory. | |
2236 | TString pkg(package); | |
2237 | pkg.ReplaceAll(".par", ""); | |
2238 | pkg += ".par"; | |
2239 | if (gSystem->AccessPathName(pkg)) { | |
ebcdf05e | 2240 | Fatal("EnablePackage", "Package %s not found", pkg.Data()); |
4e5c5506 | 2241 | return; |
2242 | } | |
2243 | if (!TObject::TestBit(AliAnalysisGrid::kUsePars)) | |
2244 | Info("EnablePackage", "AliEn plugin will use .par packages"); | |
2245 | TObject::SetBit(AliAnalysisGrid::kUsePars, kTRUE); | |
2246 | if (!fPackages) { | |
2247 | fPackages = new TObjArray(); | |
2248 | fPackages->SetOwner(); | |
2249 | } | |
2250 | fPackages->Add(new TObjString(pkg)); | |
2251 | } | |
2252 | ||
3bdcb562 | 2253 | //______________________________________________________________________________ |
2254 | TChain *AliAnalysisAlien::GetChainForTestMode(const char *treeName) const | |
2255 | { | |
2256 | // Make a tree from files having the location specified in fFileForTestMode. | |
2257 | // Inspired from JF's CreateESDChain. | |
2258 | if (fFileForTestMode.IsNull()) { | |
2259 | Error("GetChainForTestMode", "For proof test mode please use SetFileForTestMode() pointing to a file that contains data file locations."); | |
2260 | return NULL; | |
2261 | } | |
2262 | if (gSystem->AccessPathName(fFileForTestMode)) { | |
2263 | Error("GetChainForTestMode", "File not found: %s", fFileForTestMode.Data()); | |
2264 | return NULL; | |
2265 | } | |
2266 | // Open the file | |
2267 | ifstream in; | |
2268 | in.open(fFileForTestMode); | |
2269 | Int_t count = 0; | |
2270 | // Read the input list of files and add them to the chain | |
b505f1f8 | 2271 | TString line; |
d6c60197 | 2272 | TString streeName(treeName); |
2273 | if (IsUseMCchain()) streeName = "TE"; | |
2274 | TChain *chain = new TChain(streeName); | |
b505f1f8 | 2275 | TChain *chainFriend = 0; |
d6c60197 | 2276 | if (!fFriendChainName.IsNull()) chainFriend = new TChain(streeName); |
b505f1f8 | 2277 | while (in.good()) |
2278 | { | |
3bdcb562 | 2279 | in >> line; |
ffbe06b9 | 2280 | if (line.IsNull() || line.BeginsWith("#")) continue; |
3bdcb562 | 2281 | if (count++ == fNtestFiles) break; |
2282 | TString esdFile(line); | |
2283 | TFile *file = TFile::Open(esdFile); | |
b505f1f8 | 2284 | if (file && !file->IsZombie()) { |
2285 | chain->Add(esdFile); | |
3bdcb562 | 2286 | file->Close(); |
b505f1f8 | 2287 | if (!fFriendChainName.IsNull()) { |
4b5d9e21 | 2288 | if (esdFile.Index("#") > -1) |
2289 | esdFile.Remove(esdFile.Index("#")); | |
2290 | esdFile = gSystem->DirName(esdFile); | |
2291 | esdFile += "/" + fFriendChainName; | |
b505f1f8 | 2292 | file = TFile::Open(esdFile); |
2293 | if (file && !file->IsZombie()) { | |
2294 | file->Close(); | |
2295 | chainFriend->Add(esdFile); | |
2296 | } else { | |
2297 | Fatal("GetChainForTestMode", "Cannot open friend file: %s", esdFile.Data()); | |
2298 | return 0; | |
2299 | } | |
4b5d9e21 | 2300 | } |
3bdcb562 | 2301 | } else { |
2302 | Error("GetChainforTestMode", "Skipping un-openable file: %s", esdFile.Data()); | |
2303 | } | |
b505f1f8 | 2304 | } |
2305 | in.close(); | |
2306 | if (!chain->GetListOfFiles()->GetEntries()) { | |
3bdcb562 | 2307 | Error("GetChainForTestMode", "No file from %s could be opened", fFileForTestMode.Data()); |
2308 | delete chain; | |
b505f1f8 | 2309 | delete chainFriend; |
3bdcb562 | 2310 | return NULL; |
b505f1f8 | 2311 | } |
3bdcb562 | 2312 | // chain->ls(); |
b505f1f8 | 2313 | if (!fFriendChainName.IsNull()) chain->AddFriend(chainFriend); |
2314 | return chain; | |
3bdcb562 | 2315 | } |
2316 | ||
d2a409b2 | 2317 | //______________________________________________________________________________ |
2318 | const char *AliAnalysisAlien::GetJobStatus(Int_t jobidstart, Int_t lastid, Int_t &nrunning, Int_t &nwaiting, Int_t &nerror, Int_t &ndone) | |
2319 | { | |
2320 | // Get job status for all jobs with jobid>jobidstart. | |
2321 | static char mstatus[20]; | |
2322 | mstatus[0] = '\0'; | |
2323 | nrunning = 0; | |
2324 | nwaiting = 0; | |
2325 | nerror = 0; | |
2326 | ndone = 0; | |
2327 | TGridJobStatusList *list = gGrid->Ps(""); | |
2328 | if (!list) return mstatus; | |
2329 | Int_t nentries = list->GetSize(); | |
2330 | TGridJobStatus *status; | |
2331 | Int_t pid; | |
2332 | for (Int_t ijob=0; ijob<nentries; ijob++) { | |
2333 | status = (TGridJobStatus *)list->At(ijob); | |
8ddad121 | 2334 | pid = gROOT->ProcessLine(Form("atoi(((TAlienJobStatus*)%p)->GetKey(\"queueId\"));", status)); |
d2a409b2 | 2335 | if (pid<jobidstart) continue; |
2336 | if (pid == lastid) { | |
8ddad121 | 2337 | gROOT->ProcessLine(Form("sprintf((char*)%p,((TAlienJobStatus*)%p)->GetKey(\"status\"));",mstatus, status)); |
d2a409b2 | 2338 | } |
2339 | switch (status->GetStatus()) { | |
2340 | case TGridJobStatus::kWAITING: | |
2341 | nwaiting++; break; | |
2342 | case TGridJobStatus::kRUNNING: | |
2343 | nrunning++; break; | |
2344 | case TGridJobStatus::kABORTED: | |
2345 | case TGridJobStatus::kFAIL: | |
2346 | case TGridJobStatus::kUNKNOWN: | |
2347 | nerror++; break; | |
2348 | case TGridJobStatus::kDONE: | |
2349 | ndone++; | |
2350 | } | |
2351 | } | |
2352 | list->Delete(); | |
2353 | delete list; | |
2354 | return mstatus; | |
2355 | } | |
2356 | ||
c57f56b7 | 2357 | //______________________________________________________________________________ |
2358 | Bool_t AliAnalysisAlien::IsCollection(const char *lfn) const | |
2359 | { | |
2360 | // Returns true if file is a collection. Functionality duplicated from | |
2361 | // TAlien::Type() because we don't want to directly depend on TAlien. | |
2362 | if (!gGrid) { | |
2363 | Error("IsCollection", "No connection to grid"); | |
2364 | return kFALSE; | |
2365 | } | |
2366 | TGridResult *res = gGrid->Command(Form("type -z %s",lfn),kFALSE); | |
2367 | if (!res) return kFALSE; | |
2368 | const char* typeStr = res->GetKey(0, "type"); | |
2369 | if (!typeStr || !strlen(typeStr)) return kFALSE; | |
2370 | if (!strcmp(typeStr, "collection")) return kTRUE; | |
2371 | delete res; | |
2372 | return kFALSE; | |
2373 | } | |
2374 | ||
fe2d7fc2 | 2375 | //______________________________________________________________________________ |
2376 | Bool_t AliAnalysisAlien::IsSingleOutput() const | |
2377 | { | |
2378 | // Check if single-ouput option is on. | |
2379 | return (!fOutputSingle.IsNull()); | |
2380 | } | |
2381 | ||
16a4353c | 2382 | //______________________________________________________________________________ |
2383 | void AliAnalysisAlien::Print(Option_t *) const | |
2384 | { | |
2385 | // Print current plugin settings. | |
84fcd93f | 2386 | printf("### AliEn analysis plugin current settings ###\n"); |
d3b18c4c | 2387 | AliAnalysisManager *mgr = AliAnalysisManager::GetAnalysisManager(); |
2388 | if (mgr && mgr->IsProofMode()) { | |
2389 | TString proofType = "= PLUGIN IN PROOF MODE ON CLUSTER:_________________"; | |
2390 | if (TestBit(AliAnalysisGrid::kTest)) | |
2391 | proofType = "= PLUGIN IN PROOF LITE MODE ON CLUSTER:____________"; | |
2392 | printf("%s %s\n", proofType.Data(), fProofCluster.Data()); | |
2393 | if (!fProofDataSet.IsNull()) | |
2394 | printf("= Requested data set:___________________________ %s\n", fProofDataSet.Data()); | |
2395 | if (fProofReset==1) | |
2396 | printf("= Soft reset signal will be send to master______ CHANGE BEHAVIOR AFTER COMPLETION\n"); | |
2397 | if (fProofReset>1) | |
2398 | printf("= Hard reset signal will be send to master______ CHANGE BEHAVIOR AFTER COMPLETION\n"); | |
874de7ea | 2399 | if (!fROOTVersion.IsNull()) |
2400 | printf("= ROOT version requested________________________ %s\n", fROOTVersion.Data()); | |
d3b18c4c | 2401 | else |
2402 | printf("= ROOT version requested________________________ default\n"); | |
2403 | printf("= AliRoot version requested_____________________ %s\n", fAliROOTVersion.Data()); | |
2404 | if (!fAliRootMode.IsNull()) | |
2405 | printf("= Requested AliRoot mode________________________ %s\n", fAliRootMode.Data()); | |
2406 | if (fNproofWorkers) | |
2407 | printf("= Number of PROOF workers limited to____________ %d\n", fNproofWorkers); | |
2408 | if (fNproofWorkersPerSlave) | |
2409 | printf("= Maximum number of workers per slave___________ %d\n", fNproofWorkersPerSlave); | |
2410 | if (TestSpecialBit(kClearPackages)) | |
2411 | printf("= ClearPackages requested...\n"); | |
2412 | if (fIncludePath.Data()) | |
2413 | printf("= Include path for runtime task compilation: ___ %s\n", fIncludePath.Data()); | |
2414 | printf("= Additional libs to be loaded or souces to be compiled runtime: <%s>\n",fAdditionalLibs.Data()); | |
2415 | if (fPackages && fPackages->GetEntries()) { | |
2416 | TIter next(fPackages); | |
2417 | TObject *obj; | |
2418 | TString list; | |
2419 | while ((obj=next())) list += obj->GetName(); | |
2420 | printf("= Par files to be used: ________________________ %s\n", list.Data()); | |
2421 | } | |
2422 | if (TestSpecialBit(kProofConnectGrid)) | |
2423 | printf("= Requested PROOF connection to grid\n"); | |
2424 | return; | |
2425 | } | |
e1c22e21 | 2426 | printf("= OverwriteMode:________________________________ %d\n", fOverwriteMode); |
2427 | if (fOverwriteMode) { | |
2428 | printf("***** NOTE: Overwrite mode will overwrite the input generated datasets and partial results from previous analysis. \ | |
2429 | \n***** To disable, use: plugin->SetOverwriteMode(kFALSE);\n"); | |
2430 | } | |
348be253 | 2431 | printf("= Copy files to grid: __________________________ %s\n", (IsUseCopy())?"YES":"NO"); |
2432 | printf("= Check if files can be copied to grid: ________ %s\n", (IsCheckCopy())?"YES":"NO"); | |
84fcd93f | 2433 | printf("= Production mode:______________________________ %d\n", fProductionMode); |
2434 | printf("= Version of API requested: ____________________ %s\n", fAPIVersion.Data()); | |
2435 | printf("= Version of ROOT requested: ___________________ %s\n", fROOTVersion.Data()); | |
2436 | printf("= Version of AliRoot requested: ________________ %s\n", fAliROOTVersion.Data()); | |
16a4353c | 2437 | if (fUser.Length()) |
84fcd93f | 2438 | printf("= User running the plugin: _____________________ %s\n", fUser.Data()); |
2439 | printf("= Grid workdir relative to user $HOME: _________ %s\n", fGridWorkingDir.Data()); | |
2440 | printf("= Grid output directory relative to workdir: ___ %s\n", fGridOutputDir.Data()); | |
2441 | printf("= Data base directory path requested: __________ %s\n", fGridDataDir.Data()); | |
2442 | printf("= Data search pattern: _________________________ %s\n", fDataPattern.Data()); | |
2443 | printf("= Input data format: ___________________________ %s\n", fInputFormat.Data()); | |
16a4353c | 2444 | if (fRunNumbers.Length()) |
84fcd93f | 2445 | printf("= Run numbers to be processed: _________________ %s\n", fRunNumbers.Data()); |
16a4353c | 2446 | if (fRunRange[0]) |
74013535 | 2447 | printf("= Run range to be processed: ___________________ %d-%d\n", fRunRange[0], fRunRange[1]); |
16a4353c | 2448 | if (!fRunRange[0] && !fRunNumbers.Length()) { |
2449 | TIter next(fInputFiles); | |
2450 | TObject *obj; | |
2451 | TString list; | |
2452 | while ((obj=next())) list += obj->GetName(); | |
84fcd93f | 2453 | printf("= Input files to be processed: _________________ %s\n", list.Data()); |
16a4353c | 2454 | } |
2455 | if (TestBit(AliAnalysisGrid::kTest)) | |
84fcd93f | 2456 | printf("= Number of input files used in test mode: _____ %d\n", fNtestFiles); |
2457 | printf("= List of output files to be registered: _______ %s\n", fOutputFiles.Data()); | |
2458 | printf("= List of outputs going to be archived: ________ %s\n", fOutputArchive.Data()); | |
2459 | printf("= List of outputs that should not be merged: ___ %s\n", fMergeExcludes.Data()); | |
37d21c01 | 2460 | printf("= List of outputs that should not be registered: %s\n", fRegisterExcludes.Data()); |
d3b18c4c | 2461 | printf("= List of outputs produced during Terminate: ___ %s\n", fTerminateFiles.Data()); |
84fcd93f | 2462 | printf("=====================================================================\n"); |
2463 | printf("= Job price: ___________________________________ %d\n", fPrice); | |
2464 | printf("= Time to live (TTL): __________________________ %d\n", fTTL); | |
2465 | printf("= Max files per subjob: ________________________ %d\n", fSplitMaxInputFileNumber); | |
16a4353c | 2466 | if (fMaxInitFailed>0) |
84fcd93f | 2467 | printf("= Max number of subjob fails to kill: __________ %d\n", fMaxInitFailed); |
16a4353c | 2468 | if (fMasterResubmitThreshold>0) |
84fcd93f | 2469 | printf("= Resubmit master job if failed subjobs >_______ %d\n", fMasterResubmitThreshold); |
149d288c | 2470 | printf("= Number of replicas for the output files_______ %d\n", fNreplicas); |
319593fb | 2471 | if (fNrunsPerMaster>0) |
84fcd93f | 2472 | printf("= Number of runs per master job: _______________ %d\n", fNrunsPerMaster); |
2473 | printf("= Number of files in one chunk to be merged: ___ %d\n", fMaxMergeFiles); | |
b5b9dee8 | 2474 | printf("= Name of the generated execution script: ______ %s\n", fExecutable.Data()); |
2475 | printf("= Executable command: __________________________ %s\n", fExecutableCommand.Data()); | |
16a4353c | 2476 | if (fArguments.Length()) |
84fcd93f | 2477 | printf("= Arguments for the execution script: __________ %s\n",fArguments.Data()); |
631c0b05 | 2478 | if (fExecutableArgs.Length()) |
2479 | printf("= Arguments after macro name in executable______ %s\n",fExecutableArgs.Data()); | |
84fcd93f | 2480 | printf("= Name of the generated analysis macro: ________ %s\n",fAnalysisMacro.Data()); |
2481 | printf("= User analysis files to be deployed: __________ %s\n",fAnalysisSource.Data()); | |
2482 | printf("= Additional libs to be loaded or souces to be compiled runtime: <%s>\n",fAdditionalLibs.Data()); | |
2483 | printf("= Master jobs split mode: ______________________ %s\n",fSplitMode.Data()); | |
16a4353c | 2484 | if (fDatasetName) |
84fcd93f | 2485 | printf("= Custom name for the dataset to be created: ___ %s\n", fDatasetName.Data()); |
2486 | printf("= Name of the generated JDL: ___________________ %s\n", fJDLName.Data()); | |
16a4353c | 2487 | if (fIncludePath.Data()) |
84fcd93f | 2488 | printf("= Include path for runtime task compilation: ___ %s\n", fIncludePath.Data()); |
16a4353c | 2489 | if (fCloseSE.Length()) |
84fcd93f | 2490 | printf("= Force job outputs to storage element: ________ %s\n", fCloseSE.Data()); |
16a4353c | 2491 | if (fFriendChainName.Length()) |
84fcd93f | 2492 | printf("= Open friend chain file on worker: ____________ %s\n", fFriendChainName.Data()); |
d3b18c4c | 2493 | if (fPackages && fPackages->GetEntries()) { |
16a4353c | 2494 | TIter next(fPackages); |
2495 | TObject *obj; | |
2496 | TString list; | |
2497 | while ((obj=next())) list += obj->GetName(); | |
84fcd93f | 2498 | printf("= Par files to be used: ________________________ %s\n", list.Data()); |
16a4353c | 2499 | } |
2500 | } | |
2501 | ||
c57f56b7 | 2502 | //______________________________________________________________________________ |
2503 | void AliAnalysisAlien::SetDefaults() | |
2504 | { | |
2505 | // Set default values for everything. What cannot be filled will be left empty. | |
2506 | if (fGridJDL) delete fGridJDL; | |
2507 | fGridJDL = (TGridJDL*)gROOT->ProcessLine("new TAlienJDL()"); | |
0f389141 | 2508 | fMergingJDL = (TGridJDL*)gROOT->ProcessLine("new TAlienJDL()"); |
c57f56b7 | 2509 | fPrice = 1; |
2510 | fTTL = 30000; | |
2511 | fSplitMaxInputFileNumber = 100; | |
2512 | fMaxInitFailed = 0; | |
2513 | fMasterResubmitThreshold = 0; | |
bb885a9e | 2514 | fNtestFiles = 10; |
149d288c | 2515 | fNreplicas = 2; |
a8739e8a | 2516 | fRunRange[0] = 0; |
2517 | fRunRange[1] = 0; | |
8e3bd06a | 2518 | fRunPrefix = "%d"; |
319593fb | 2519 | fNrunsPerMaster = 1; |
16a4353c | 2520 | fMaxMergeFiles = 100; |
c57f56b7 | 2521 | fRunNumbers = ""; |
2522 | fExecutable = "analysis.sh"; | |
5aa94dc3 | 2523 | fExecutableCommand = "root -b -q -x"; |
c57f56b7 | 2524 | fArguments = ""; |
631c0b05 | 2525 | fExecutableArgs = ""; |
c57f56b7 | 2526 | fAnalysisMacro = "myAnalysis.C"; |
2527 | fAnalysisSource = ""; | |
2528 | fAdditionalLibs = ""; | |
2529 | fSplitMode = "se"; | |
2530 | fAPIVersion = ""; | |
2531 | fROOTVersion = ""; | |
2532 | fAliROOTVersion = ""; | |
2533 | fUser = ""; // Your alien user name | |
2534 | fGridWorkingDir = ""; | |
2535 | fGridDataDir = ""; // Can be like: /alice/sim/PDC_08a/LHC08c9/ | |
2536 | fDataPattern = "*AliESDs.root"; // Can be like: *AliESDs.root, */pass1/*AliESDs.root, ... | |
0df6ccf2 | 2537 | fFriendChainName = ""; |
c57f56b7 | 2538 | fGridOutputDir = "output"; |
b83f84f0 | 2539 | fOutputArchive = "log_archive.zip:std*@disk=1 root_archive.zip:*.root@disk=2"; |
c57f56b7 | 2540 | fOutputFiles = ""; // Like "AliAODs.root histos.root" |
2541 | fInputFormat = "xml-single"; | |
2542 | fJDLName = "analysis.jdl"; | |
c6cb3634 | 2543 | fJobTag = "Automatically generated analysis JDL"; |
bb885a9e | 2544 | fMergeExcludes = ""; |
0f389141 | 2545 | fMergeViaJDL = 0; |
348be253 | 2546 | SetUseCopy(kTRUE); |
2547 | SetCheckCopy(kTRUE); | |
149d288c | 2548 | SetDefaultOutputs(kTRUE); |
e1c22e21 | 2549 | fOverwriteMode = 1; |
c57f56b7 | 2550 | } |
2551 | ||
874de7ea | 2552 | //______________________________________________________________________________ |
2553 | void AliAnalysisAlien::SetRootVersionForProof(const char *version) | |
2554 | { | |
2555 | // Obsolete method. Use SetROOTVersion instead | |
2556 | Warning("SetRootVersionForProof", "Obsolete. Use SetROOTVersion instead"); | |
2557 | SetROOTVersion(version); | |
2558 | } | |
2559 | ||
0f389141 | 2560 | //______________________________________________________________________________ |
b3e07543 | 2561 | Bool_t AliAnalysisAlien::CheckMergedFiles(const char *filename, const char *aliendir, Int_t nperchunk, const char *jdl) |
0f389141 | 2562 | { |
b3e07543 | 2563 | // Checks current merge stage, makes xml for the next stage, counts number of files, submits next stage. |
2564 | // First check if the result is already in the output directory. | |
2565 | if (FileExists(Form("%s/%s",aliendir,filename))) { | |
2566 | printf("Final merged results found. Not merging again.\n"); | |
7c2cd90a | 2567 | return kFALSE; |
2568 | } | |
b3e07543 | 2569 | // Now check the last stage done. |
2570 | Int_t stage = 0; | |
2571 | while (1) { | |
2572 | if (!FileExists(Form("%s/Stage_%d.xml",aliendir, stage+1))) break; | |
2573 | stage++; | |
2574 | } | |
2575 | // Next stage of merging | |
2576 | stage++; | |
2577 | TString pattern = "*root_archive.zip"; | |
2578 | if (stage>1) pattern = Form("Stage_%d/*root_archive.zip", stage-1); | |
2579 | TGridResult *res = gGrid->Command(Form("find -x Stage_%d %s %s", stage, aliendir, pattern.Data())); | |
2580 | if (res) delete res; | |
2581 | // Write standard output to file | |
2582 | gROOT->ProcessLine(Form("gGrid->Stdout(); > %s", Form("Stage_%d.xml",stage))); | |
2583 | // Count the number of files inside | |
2584 | ifstream ifile; | |
2585 | ifile.open(Form("Stage_%d.xml",stage)); | |
2586 | if (!ifile.good()) { | |
2587 | ::Error("CheckMergedFiles", "Could not redirect result of the find command to file %s", Form("Stage_%d.xml",stage)); | |
7c2cd90a | 2588 | return kFALSE; |
b3e07543 | 2589 | } |
2590 | TString line; | |
2591 | Int_t nfiles = 0; | |
2592 | while (!ifile.eof()) { | |
2593 | ifile >> line; | |
2594 | if (line.Contains("/event")) nfiles++; | |
7c2cd90a | 2595 | } |
b3e07543 | 2596 | ifile.close(); |
2597 | if (!nfiles) { | |
2598 | ::Error("CheckMergedFiles", "Cannot start Stage_%d merging since Stage_%d did not produced yet output", stage, stage-1); | |
2599 | return kFALSE; | |
2600 | } else { | |
2601 | printf("=== Stage_%d produced %d files\n", stage-1, nfiles); | |
7ae54d70 | 2602 | } |
b3e07543 | 2603 | // Copy the file in the output directory |
2604 | printf("===> Copying collection %s in the output directory %s\n", Form("Stage_%d.xml",stage), aliendir); | |
43d5e2dc | 2605 | // TFile::Cp(Form("Stage_%d.xml",stage), Form("alien://%s/Stage_%d.xml",aliendir,stage)); |
6c395669 | 2606 | if (!copyLocal2Alien("CheckMergedFiles", Form("Stage_%d.xml",stage), |
2607 | Form("%s/Stage_%d.xml",aliendir,stage))) Fatal("","Terminating"); | |
b3e07543 | 2608 | // Check if this is the last stage to be done. |
2609 | Bool_t laststage = (nfiles<nperchunk); | |
2610 | if (fMaxMergeStages && stage>=fMaxMergeStages) laststage = kTRUE; | |
0ad3ea1f | 2611 | Int_t jobId = 0; |
b3e07543 | 2612 | if (laststage) { |
2613 | printf("### Submiting final merging stage %d\n", stage); | |
2614 | TString finalJDL = jdl; | |
2615 | finalJDL.ReplaceAll(".jdl", "_final.jdl"); | |
03335324 | 2616 | TString query = Form("submit %s %s %d", finalJDL.Data(), aliendir, stage); |
0ad3ea1f | 2617 | jobId = SubmitSingleJob(query); |
b3e07543 | 2618 | } else { |
2619 | printf("### Submiting merging stage %d\n", stage); | |
03335324 | 2620 | TString query = Form("submit %s %s %d", jdl, aliendir, stage); |
0ad3ea1f | 2621 | jobId = SubmitSingleJob(query); |
7c2cd90a | 2622 | } |
0ad3ea1f | 2623 | if (!jobId) return kFALSE; |
2624 | ||
2625 | if (!fGridJobIDs.IsNull()) fGridJobIDs.Append(" "); | |
2626 | fGridJobIDs.Append(Form("%d", jobId)); | |
2627 | if (!fGridStages.IsNull()) fGridStages.Append(" "); | |
2628 | fGridStages.Append(Form("%s_merge_stage%d", | |
2629 | laststage ? "final" : "partial", stage)); | |
2630 | ||
b3e07543 | 2631 | return kTRUE; |
2632 | } | |
7c2cd90a | 2633 | |
105631b5 | 2634 | //______________________________________________________________________________ |
2635 | AliAnalysisManager *AliAnalysisAlien::LoadAnalysisManager(const char *fname) | |
2636 | { | |
2637 | // Loat the analysis manager from a file. | |
2638 | TFile *file = TFile::Open(fname); | |
2639 | if (!file) { | |
2640 | ::Error("LoadAnalysisManager", "Cannot open file %s", fname); | |
2641 | return 0; | |
2642 | } | |
2643 | TIter nextkey(file->GetListOfKeys()); | |
2644 | AliAnalysisManager *mgr = 0; | |
2645 | TKey *key; | |
2646 | while ((key=(TKey*)nextkey())) { | |
2647 | if (!strcmp(key->GetClassName(), "AliAnalysisManager")) | |
2648 | mgr = (AliAnalysisManager*)file->Get(key->GetName()); | |
2649 | } | |
2650 | if (!mgr) | |
2651 | ::Error("LoadAnalysisManager", "No analysis manager found in file %s", fname); | |
2652 | return mgr; | |
2653 | } | |
2654 | ||
7c2cd90a | 2655 | //______________________________________________________________________________ |
2656 | Int_t AliAnalysisAlien::SubmitSingleJob(const char *query) | |
2657 | { | |
2658 | // Submits a single job corresponding to the query and returns job id. If 0 submission failed. | |
2659 | if (!gGrid) return 0; | |
2660 | printf("=> %s ------> ",query); | |
2661 | TGridResult *res = gGrid->Command(query); | |
2662 | if (!res) return 0; | |
2663 | TString jobId = res->GetKey(0,"jobId"); | |
2664 | delete res; | |
2665 | if (jobId.IsNull()) { | |
2666 | printf("submission failed. Reason:\n"); | |
2667 | gGrid->Stdout(); | |
2668 | gGrid->Stderr(); | |
2669 | ::Error("SubmitSingleJob", "Your query %s could not be submitted", query); | |
2670 | return 0; | |
2671 | } | |
0ad3ea1f | 2672 | Int_t ijobId = jobId.Atoi(); |
2673 | printf(" Job id: '%s' (%d)\n", jobId.Data(), ijobId); | |
2674 | return ijobId; | |
7c2cd90a | 2675 | } |
2676 | ||
ec5acdce | 2677 | //______________________________________________________________________________ |
2678 | Bool_t AliAnalysisAlien::MergeInfo(const char *output, const char *collection) | |
2679 | { | |
2680 | // Merges a collection of output files using concatenation. | |
d66aa2a9 | 2681 | TString scoll(collection); |
2682 | if (!scoll.Contains(".xml")) return kFALSE; | |
ec5acdce | 2683 | TGridCollection *coll = (TGridCollection*)gROOT->ProcessLine(Form("TAlienCollection::Open(\"%s\");", collection)); |
2684 | if (!coll) { | |
2685 | ::Error("MergeInfo", "Input XML %s collection empty.", collection); | |
2686 | return kFALSE; | |
2687 | } | |
2688 | // Iterate grid collection | |
2689 | TString outtmp; | |
2690 | Bool_t merged = kFALSE; | |
2691 | Int_t ifile = 0; | |
2692 | while (coll->Next()) { | |
2693 | TString fname = gSystem->DirName(coll->GetTURL()); | |
2694 | fname += "/"; | |
2695 | fname += output; | |
2696 | outtmp = Form("%d_%s", ifile, output); | |
2697 | if (!TFile::Cp(fname, outtmp)) { | |
2698 | ::Error("MergeInfo", "Could not copy %s", fname.Data()); | |
2699 | continue; | |
2700 | } | |
2701 | ifile++; | |
2702 | if (ifile<2) { | |
2703 | gSystem->Exec(Form("cp %s lastmerged", outtmp.Data())); | |
2704 | continue; | |
2705 | } | |
2706 | gSystem->Exec(Form("cat lastmerged %s > tempmerged", outtmp.Data())); | |
2707 | gSystem->Exec("cp tempmerged lastmerged"); | |
2708 | } | |
2709 | if (ifile) { | |
2710 | gSystem->Exec(Form("cp lastmerged %s", output)); | |
2711 | gSystem->Exec(Form("rm tempmerged lastmerged *_%s", output)); | |
2712 | merged = kTRUE; | |
2713 | } | |
2714 | return merged; | |
2715 | } | |
2716 | ||
7c2cd90a | 2717 | //______________________________________________________________________________ |
b3e07543 | 2718 | Bool_t AliAnalysisAlien::MergeOutput(const char *output, const char *basedir, Int_t nmaxmerge, Int_t stage) |
7c2cd90a | 2719 | { |
b3e07543 | 2720 | // Merge given output files from basedir. Basedir can be an alien output directory |
2721 | // but also an xml file with root_archive.zip locations. The file merger will merge nmaxmerge | |
2722 | // files in a group (ignored for xml input). Merging can be done in stages: | |
2723 | // stage=0 : will merge all existing files in a single stage, supporting resume if run locally | |
2724 | // stage=1 : works with an xml of all root_archive.zip in the output directory | |
2725 | // stage>1 : works with an xml of all root_archive.zip in the Stage_<n-1> directory | |
a2f5fc01 | 2726 | TString outputFile = output; |
0f389141 | 2727 | TString command; |
a2f5fc01 | 2728 | TString outputChunk; |
2729 | TString previousChunk = ""; | |
b3e07543 | 2730 | TObjArray *listoffiles = new TObjArray(); |
2731 | // listoffiles->SetOwner(); | |
a2f5fc01 | 2732 | Int_t countChunk = 0; |
2733 | Int_t countZero = nmaxmerge; | |
0f389141 | 2734 | Bool_t merged = kTRUE; |
d66aa2a9 | 2735 | Bool_t isGrid = kTRUE; |
a2f5fc01 | 2736 | Int_t index = outputFile.Index("@"); |
2737 | if (index > 0) outputFile.Remove(index); | |
7c2cd90a | 2738 | TString inputFile = outputFile; |
b3e07543 | 2739 | TString sbasedir = basedir; |
2740 | if (sbasedir.Contains(".xml")) { | |
2741 | // Merge files pointed by the xml - ignore nmaxmerge and set ichunk to 0 | |
2742 | nmaxmerge = 9999999; | |
2743 | TGridCollection *coll = (TGridCollection*)gROOT->ProcessLine(Form("TAlienCollection::Open(\"%s\");", basedir)); | |
2744 | if (!coll) { | |
2745 | ::Error("MergeOutput", "Input XML collection empty."); | |
2746 | return kFALSE; | |
2747 | } | |
2748 | // Iterate grid collection | |
2749 | while (coll->Next()) { | |
2750 | TString fname = gSystem->DirName(coll->GetTURL()); | |
2751 | fname += "/"; | |
2752 | fname += inputFile; | |
2753 | listoffiles->Add(new TNamed(fname.Data(),"")); | |
2754 | } | |
ffbe06b9 | 2755 | } else if (sbasedir.Contains(".txt")) { |
d66aa2a9 | 2756 | // The file having the .txt extension is expected to contain a list of |
2757 | // folders where the output files will be looked. For alien folders, | |
2758 | // the full folder LFN is expected (starting with alien://) | |
ffbe06b9 | 2759 | // Assume lfn's on each line |
2760 | TString line; | |
2761 | ifstream in; | |
2762 | in.open(sbasedir); | |
d66aa2a9 | 2763 | if (in.fail()) { |
2764 | ::Error("MergeOutput", "File %s cannot be opened. Merging stopped." ,sbasedir.Data()); | |
2765 | return kTRUE; | |
2766 | } | |
ffbe06b9 | 2767 | Int_t nfiles = 0; |
2768 | while (in.good()) { | |
2769 | in >> line; | |
2770 | if (line.IsNull() || line.BeginsWith("#")) continue; | |
d66aa2a9 | 2771 | line.Strip(); |
2772 | if (!line.Contains("alien:")) isGrid = kFALSE; | |
2773 | line += "/"; | |
2774 | line += outputFile; | |
ffbe06b9 | 2775 | nfiles++; |
2776 | listoffiles->Add(new TNamed(line.Data(),"")); | |
2777 | } | |
d66aa2a9 | 2778 | in.close(); |
ffbe06b9 | 2779 | if (!nfiles) { |
2780 | ::Error("MergeOutput","Input file %s contains no files to be merged\n", sbasedir.Data()); | |
2781 | delete listoffiles; | |
2782 | return kFALSE; | |
2783 | } | |
b3e07543 | 2784 | } else { |
2785 | command = Form("find %s/ *%s", basedir, inputFile.Data()); | |
2786 | printf("command: %s\n", command.Data()); | |
2787 | TGridResult *res = gGrid->Command(command); | |
2788 | if (!res) { | |
2789 | ::Error("MergeOutput","No result for the find command\n"); | |
2790 | delete listoffiles; | |
2791 | return kFALSE; | |
2792 | } | |
2793 | TIter nextmap(res); | |
2794 | TMap *map = 0; | |
2795 | while ((map=(TMap*)nextmap())) { | |
2796 | TObjString *objs = dynamic_cast<TObjString*>(map->GetValue("turl")); | |
2797 | if (!objs || !objs->GetString().Length()) { | |
2798 | // Nothing found - skip this output | |
2799 | delete res; | |
2800 | delete listoffiles; | |
2801 | return kFALSE; | |
2802 | } | |
2803 | listoffiles->Add(new TNamed(objs->GetName(),"")); | |
2804 | } | |
2805 | delete res; | |
2806 | } | |
2807 | if (!listoffiles->GetEntries()) { | |
7c2cd90a | 2808 | ::Error("MergeOutput","No result for the find command\n"); |
b3e07543 | 2809 | delete listoffiles; |
0f389141 | 2810 | return kFALSE; |
2811 | } | |
2812 | ||
2813 | TFileMerger *fm = 0; | |
b3e07543 | 2814 | TIter next0(listoffiles); |
2815 | TObjArray *listoffilestmp = new TObjArray(); | |
2816 | listoffilestmp->SetOwner(); | |
2817 | TObject *nextfile; | |
2818 | TString snextfile; | |
2819 | // Keep only the files at upper level | |
2820 | Int_t countChar = 0; | |
2821 | while ((nextfile=next0())) { | |
2822 | snextfile = nextfile->GetName(); | |
2823 | Int_t crtCount = snextfile.CountChar('/'); | |
2824 | if (nextfile == listoffiles->First()) countChar = crtCount; | |
2825 | if (crtCount < countChar) countChar = crtCount; | |
2826 | } | |
2827 | next0.Reset(); | |
2828 | while ((nextfile=next0())) { | |
2829 | snextfile = nextfile->GetName(); | |
2830 | Int_t crtCount = snextfile.CountChar('/'); | |
2831 | if (crtCount > countChar) { | |
2832 | delete nextfile; | |
2833 | continue; | |
2834 | } | |
2835 | listoffilestmp->Add(nextfile); | |
2836 | } | |
2837 | delete listoffiles; | |
2838 | listoffiles = listoffilestmp; // Now contains 'good' files | |
2839 | listoffiles->Print(); | |
2840 | TIter next(listoffiles); | |
7c2cd90a | 2841 | // Check if there is a merge operation to resume. Works only for stage 0 or 1. |
a2f5fc01 | 2842 | outputChunk = outputFile; |
2843 | outputChunk.ReplaceAll(".root", "_*.root"); | |
0f389141 | 2844 | // Check for existent temporary merge files |
e1c22e21 | 2845 | // Check overwrite mode and remove previous partial results if needed |
7c2cd90a | 2846 | // Preserve old merging functionality for stage 0. |
2847 | if (stage==0) { | |
2848 | if (!gSystem->Exec(Form("ls %s 2>/dev/null", outputChunk.Data()))) { | |
2849 | while (1) { | |
2850 | // Skip as many input files as in a chunk | |
2ea55496 | 2851 | for (Int_t counter=0; counter<nmaxmerge; counter++) { |
b3e07543 | 2852 | nextfile = next(); |
2853 | if (!nextfile) { | |
2ea55496 | 2854 | ::Error("MergeOutput", "Mismatch found. Please remove partial merged files from local dir."); |
b3e07543 | 2855 | delete listoffiles; |
2ea55496 | 2856 | return kFALSE; |
2857 | } | |
b3e07543 | 2858 | snextfile = nextfile->GetName(); |
7c2cd90a | 2859 | } |
2860 | outputChunk = outputFile; | |
2861 | outputChunk.ReplaceAll(".root", Form("_%04d.root", countChunk)); | |
2862 | countChunk++; | |
2863 | if (gSystem->AccessPathName(outputChunk)) continue; | |
2864 | // Merged file with chunks up to <countChunk> found | |
2865 | ::Info("MergeOutput", "Resume merging of <%s> from <%s>\n", outputFile.Data(), outputChunk.Data()); | |
2866 | previousChunk = outputChunk; | |
2867 | break; | |
2868 | } | |
2869 | } | |
2870 | countZero = nmaxmerge; | |
2871 | ||
b3e07543 | 2872 | while ((nextfile=next())) { |
2873 | snextfile = nextfile->GetName(); | |
2ea55496 | 2874 | // Loop 'find' results and get next LFN |
7c2cd90a | 2875 | if (countZero == nmaxmerge) { |
2876 | // First file in chunk - create file merger and add previous chunk if any. | |
d66aa2a9 | 2877 | fm = new TFileMerger(isGrid); |
7c2cd90a | 2878 | fm->SetFastMethod(kTRUE); |
2879 | if (previousChunk.Length()) fm->AddFile(previousChunk.Data()); | |
2880 | outputChunk = outputFile; | |
2881 | outputChunk.ReplaceAll(".root", Form("_%04d.root", countChunk)); | |
2882 | } | |
2883 | // If last file found, put merged results in the output file | |
b3e07543 | 2884 | if (nextfile == listoffiles->Last()) outputChunk = outputFile; |
7c2cd90a | 2885 | // Add file to be merged and decrement chunk counter. |
b3e07543 | 2886 | fm->AddFile(snextfile); |
7c2cd90a | 2887 | countZero--; |
b3e07543 | 2888 | if (countZero==0 || nextfile == listoffiles->Last()) { |
7c2cd90a | 2889 | if (!fm->GetMergeList() || !fm->GetMergeList()->GetSize()) { |
2890 | // Nothing found - skip this output | |
2891 | ::Warning("MergeOutput", "No <%s> files found.", inputFile.Data()); | |
b3e07543 | 2892 | merged = kFALSE; |
2893 | break; | |
7c2cd90a | 2894 | } |
2895 | fm->OutputFile(outputChunk); | |
2896 | // Merge the outputs, then go to next chunk | |
2897 | if (!fm->Merge()) { | |
2898 | ::Error("MergeOutput", "Could not merge all <%s> files", outputFile.Data()); | |
b3e07543 | 2899 | merged = kFALSE; |
2900 | break; | |
7c2cd90a | 2901 | } else { |
2902 | ::Info("MergeOutputs", "\n##### Merged %d output files to <%s>", fm->GetMergeList()->GetSize(), outputChunk.Data()); | |
2903 | gSystem->Unlink(previousChunk); | |
2904 | } | |
b3e07543 | 2905 | if (nextfile == listoffiles->Last()) break; |
7c2cd90a | 2906 | countChunk++; |
2907 | countZero = nmaxmerge; | |
2908 | previousChunk = outputChunk; | |
0f389141 | 2909 | } |
0f389141 | 2910 | } |
b3e07543 | 2911 | delete listoffiles; |
2912 | delete fm; | |
7c2cd90a | 2913 | return merged; |
2914 | } | |
2915 | // Merging stage different than 0. | |
2916 | // Move to the begining of the requested chunk. | |
d66aa2a9 | 2917 | fm = new TFileMerger(isGrid); |
7c2cd90a | 2918 | fm->SetFastMethod(kTRUE); |
b3e07543 | 2919 | while ((nextfile=next())) fm->AddFile(nextfile->GetName()); |
2920 | delete listoffiles; | |
7c2cd90a | 2921 | if (!fm->GetMergeList() || !fm->GetMergeList()->GetSize()) { |
2922 | // Nothing found - skip this output | |
2923 | ::Warning("MergeOutput", "No <%s> files found.", inputFile.Data()); | |
2924 | delete fm; | |
2925 | return kFALSE; | |
2926 | } | |
b3e07543 | 2927 | fm->OutputFile(outputFile); |
7c2cd90a | 2928 | // Merge the outputs |
2929 | if (!fm->Merge()) { | |
2930 | ::Error("MergeOutput", "Could not merge all <%s> files", outputFile.Data()); | |
2931 | delete fm; | |
2932 | return kFALSE; | |
2933 | } else { | |
b3e07543 | 2934 | ::Info("MergeOutput", "\n##### Merged %d output files to <%s>", fm->GetMergeList()->GetSize(), outputFile.Data()); |
0f389141 | 2935 | } |
7c2cd90a | 2936 | delete fm; |
2937 | return kTRUE; | |
0f389141 | 2938 | } |
2939 | ||
c57f56b7 | 2940 | //______________________________________________________________________________ |
2941 | Bool_t AliAnalysisAlien::MergeOutputs() | |
2942 | { | |
2943 | // Merge analysis outputs existing in the AliEn space. | |
2944 | if (TestBit(AliAnalysisGrid::kTest)) return kTRUE; | |
2945 | if (TestBit(AliAnalysisGrid::kOffline)) return kFALSE; | |
2946 | if (!Connect()) { | |
2947 | Error("MergeOutputs", "Cannot merge outputs without grid connection. Terminate will NOT be executed"); | |
2948 | return kFALSE; | |
0f389141 | 2949 | } |
c9e8f7fd | 2950 | if (fMergeViaJDL) { |
2951 | if (!TestBit(AliAnalysisGrid::kMerge)) { | |
2952 | Info("MergeOutputs", "### Re-run with <MergeViaJDL> option in terminate mode of the plugin to submit merging jobs ###"); | |
2953 | return kFALSE; | |
2954 | } | |
2955 | if (fProductionMode) { | |
2956 | Info("MergeOutputs", "### Merging will be submitted by LPM manager... ###"); | |
2957 | return kFALSE; | |
2958 | } | |
0f389141 | 2959 | Info("MergeOutputs", "Submitting merging JDL"); |
a03be957 | 2960 | if (!SubmitMerging()) return kFALSE; |
0f389141 | 2961 | Info("MergeOutputs", "### Re-run with <MergeViaJDL> off to collect results after merging jobs are done ###"); |
c9e8f7fd | 2962 | Info("MergeOutputs", "### The Terminate() method is executed by the merging jobs"); |
001cb79e | 2963 | return kFALSE; |
c57f56b7 | 2964 | } |
2965 | // Get the output path | |
dc030a24 | 2966 | if (!fGridOutputDir.Contains("/")) fGridOutputDir = Form("%s/%s/%s", gGrid->GetHomeDirectory(), fGridWorkingDir.Data(), fGridOutputDir.Data()); |
923e2ca5 | 2967 | if (!DirectoryExists(fGridOutputDir)) { |
c57f56b7 | 2968 | Error("MergeOutputs", "Grid output directory %s not found. Terminate() will NOT be executed", fGridOutputDir.Data()); |
2969 | return kFALSE; | |
2970 | } | |
2971 | if (!fOutputFiles.Length()) { | |
2972 | Error("MergeOutputs", "No output file names defined. Are you running the right AliAnalysisAlien configuration ?"); | |
2973 | return kFALSE; | |
0f389141 | 2974 | } |
2975 | // Check if fast read option was requested | |
e1c22e21 | 2976 | Info("MergeOutputs", "Started local merging of output files from: alien://%s \ |
2977 | \n======= overwrite mode = %d", fGridOutputDir.Data(), (Int_t)fOverwriteMode); | |
0f389141 | 2978 | if (fFastReadOption) { |
d3339be3 | 2979 | Warning("MergeOutputs", "You requested FastRead option. Using xrootd flags to reduce timeouts. This may skip some files that could be accessed ! \ |
2980 | \n+++ NOTE: To disable this option, use: plugin->SetFastReadOption(kFALSE)"); | |
b3e07543 | 2981 | gEnv->SetValue("XNet.ConnectTimeout",50); |
2982 | gEnv->SetValue("XNet.RequestTimeout",50); | |
0f389141 | 2983 | gEnv->SetValue("XNet.MaxRedirectCount",2); |
b3e07543 | 2984 | gEnv->SetValue("XNet.ReconnectTimeout",50); |
0f389141 | 2985 | gEnv->SetValue("XNet.FirstConnectMaxCnt",1); |
c57f56b7 | 2986 | } |
e8b839ab | 2987 | // Make sure we change the temporary directory |
2988 | gSystem->Setenv("TMPDIR", gSystem->pwd()); | |
70c52cf3 | 2989 | // Set temporary compilation directory to current one |
2990 | gSystem->SetBuildDir(gSystem->pwd(), kTRUE); | |
149d288c | 2991 | TObjArray *list = fOutputFiles.Tokenize(","); |
c57f56b7 | 2992 | TIter next(list); |
2993 | TObjString *str; | |
a2f5fc01 | 2994 | TString outputFile; |
c57f56b7 | 2995 | Bool_t merged = kTRUE; |
2996 | while((str=(TObjString*)next())) { | |
a2f5fc01 | 2997 | outputFile = str->GetString(); |
2998 | Int_t index = outputFile.Index("@"); | |
2999 | if (index > 0) outputFile.Remove(index); | |
3000 | TString outputChunk = outputFile; | |
3001 | outputChunk.ReplaceAll(".root", "_*.root"); | |
319593fb | 3002 | // Skip already merged outputs |
a2f5fc01 | 3003 | if (!gSystem->AccessPathName(outputFile)) { |
e1c22e21 | 3004 | if (fOverwriteMode) { |
a2f5fc01 | 3005 | Info("MergeOutputs", "Overwrite mode. Existing file %s was deleted.", outputFile.Data()); |
3006 | gSystem->Unlink(outputFile); | |
3007 | if (!gSystem->Exec(Form("ls %s 2>/dev/null", outputChunk.Data()))) { | |
e1c22e21 | 3008 | Info("MergeOutput", "Overwrite mode: partial merged files %s will removed", |
a2f5fc01 | 3009 | outputChunk.Data()); |
3010 | gSystem->Exec(Form("rm -f %s", outputChunk.Data())); | |
e1c22e21 | 3011 | } |
3012 | } else { | |
a2f5fc01 | 3013 | Info("MergeOutputs", "Output file <%s> found. Not merging again.", outputFile.Data()); |
e1c22e21 | 3014 | continue; |
3015 | } | |
3016 | } else { | |
a2f5fc01 | 3017 | if (!gSystem->Exec(Form("ls %s 2>/dev/null", outputChunk.Data()))) { |
e1c22e21 | 3018 | Info("MergeOutput", "Overwrite mode: partial merged files %s will removed", |
a2f5fc01 | 3019 | outputChunk.Data()); |
3020 | gSystem->Exec(Form("rm -f %s", outputChunk.Data())); | |
e1c22e21 | 3021 | } |
3022 | } | |
37d21c01 | 3023 | if (fMergeExcludes.Contains(outputFile.Data()) || |
3024 | fRegisterExcludes.Contains(outputFile.Data())) continue; | |
16a4353c | 3025 | // Perform a 'find' command in the output directory, looking for registered outputs |
a2f5fc01 | 3026 | merged = MergeOutput(outputFile, fGridOutputDir, fMaxMergeFiles); |
0f389141 | 3027 | if (!merged) { |
3028 | Error("MergeOutputs", "Terminate() will NOT be executed"); | |
09d5920f | 3029 | delete list; |
3030 | return kFALSE; | |
ff07ec61 | 3031 | } |
3032 | TFile *fileOpened = (TFile*)gROOT->GetListOfFiles()->FindObject(outputFile); | |
3033 | if (fileOpened) fileOpened->Close(); | |
c57f56b7 | 3034 | } |
09d5920f | 3035 | delete list; |
0f389141 | 3036 | return kTRUE; |
c57f56b7 | 3037 | } |
3038 | ||
bb885a9e | 3039 | //______________________________________________________________________________ |
3040 | void AliAnalysisAlien::SetDefaultOutputs(Bool_t flag) | |
3041 | { | |
3042 | // Use the output files connected to output containers from the analysis manager | |
3043 | // rather than the files defined by SetOutputFiles | |
3044 | if (flag && !TObject::TestBit(AliAnalysisGrid::kDefaultOutputs)) | |
205b201f | 3045 | Info("SetDefaultOutputs", "Plugin will use the output files taken from analysis manager"); |
bb885a9e | 3046 | TObject::SetBit(AliAnalysisGrid::kDefaultOutputs, flag); |
3047 | } | |
3048 | ||
149d288c | 3049 | //______________________________________________________________________________ |
3050 | void AliAnalysisAlien::SetOutputFiles(const char *list) | |
3051 | { | |
3052 | // Manually set the output files list. | |
3053 | // Removes duplicates. Not allowed if default outputs are not disabled. | |
3054 | if (TObject::TestBit(AliAnalysisGrid::kDefaultOutputs)) { | |
3055 | Fatal("SetOutputFiles", "You have to explicitly call SetDefaultOutputs(kFALSE) to manually set output files."); | |
3056 | return; | |
3057 | } | |
3058 | Info("SetOutputFiles", "Output file list is set manually - you are on your own."); | |
3059 | fOutputFiles = ""; | |
3060 | TString slist = list; | |
3061 | if (slist.Contains("@")) Warning("SetOutputFiles","The plugin does not allow explicit SE's. Please use: SetNumberOfReplicas() instead."); | |
3062 | TObjArray *arr = slist.Tokenize(" "); | |
3063 | TObjString *os; | |
3064 | TIter next(arr); | |
3065 | TString sout; | |
3066 | while ((os=(TObjString*)next())) { | |
3067 | sout = os->GetString(); | |
3068 | if (sout.Index("@")>0) sout.Remove(sout.Index("@")); | |
3069 | if (fOutputFiles.Contains(sout)) continue; | |
3070 | if (!fOutputFiles.IsNull()) fOutputFiles += ","; | |
3071 | fOutputFiles += sout; | |
3072 | } | |
3073 | delete arr; | |
f790bc1b | 3074 | } |
149d288c | 3075 | |
3076 | //______________________________________________________________________________ | |
3077 | void AliAnalysisAlien::SetOutputArchive(const char *list) | |
3078 | { | |
3079 | // Manually set the output archive list. Free text - you are on your own... | |
3080 | // Not allowed if default outputs are not disabled. | |
3081 | if (TObject::TestBit(AliAnalysisGrid::kDefaultOutputs)) { | |
3082 | Fatal("SetOutputArchive", "You have to explicitly call SetDefaultOutputs(kFALSE) to manually set the output archives."); | |
3083 | return; | |
3084 | } | |
3085 | Info("SetOutputArchive", "Output archive is set manually - you are on your own."); | |
3086 | fOutputArchive = list; | |
3087 | } | |
3088 | ||
3089 | //______________________________________________________________________________ | |
3090 | void AliAnalysisAlien::SetPreferedSE(const char */*se*/) | |
3091 | { | |
3092 | // Setting a prefered output SE is not allowed anymore. | |
3093 | Warning("SetPreferedSE", "Setting a preferential SE is not allowed anymore via the plugin. Use SetNumberOfReplicas() and SetDefaultOutputs()"); | |
3094 | } | |
3095 | ||
28ce6c9c | 3096 | //______________________________________________________________________________ |
3097 | void AliAnalysisAlien::SetProofParameter(const char *pname, const char *value) | |
3098 | { | |
3099 | // Set some PROOF special parameter. | |
3100 | TPair *pair = dynamic_cast<TPair*>(fProofParam.FindObject(pname)); | |
3101 | if (pair) { | |
3102 | TObject *old = pair->Key(); | |
3103 | TObject *val = pair->Value(); | |
3104 | fProofParam.Remove(old); | |
3105 | delete old; | |
3106 | delete val; | |
3107 | } | |
3108 | fProofParam.Add(new TObjString(pname), new TObjString(value)); | |
3109 | } | |
3110 | ||
3111 | //______________________________________________________________________________ | |
3112 | const char *AliAnalysisAlien::GetProofParameter(const char *pname) const | |
3113 | { | |
3114 | // Returns a special PROOF parameter. | |
3115 | TPair *pair = dynamic_cast<TPair*>(fProofParam.FindObject(pname)); | |
3116 | if (!pair) return 0; | |
3117 | return pair->Value()->GetName(); | |
3118 | } | |
3119 | ||
5513444a | 3120 | //______________________________________________________________________________ |
3121 | Bool_t AliAnalysisAlien::StartAnalysis(Long64_t /*nentries*/, Long64_t /*firstEntry*/) | |
c57f56b7 | 3122 | { |
3123 | // Start remote grid analysis. | |
3bdcb562 | 3124 | AliAnalysisManager *mgr = AliAnalysisManager::GetAnalysisManager(); |
3125 | Bool_t testMode = TestBit(AliAnalysisGrid::kTest); | |
3126 | if (!mgr || !mgr->IsInitialized()) { | |
3127 | Error("StartAnalysis", "You need an initialized analysis manager for this"); | |
3128 | return kFALSE; | |
3129 | } | |
3130 | // Are we in PROOF mode ? | |
3131 | if (mgr->IsProofMode()) { | |
baa34407 | 3132 | if (testMode) Info("StartAnalysis", "##### Starting PROOF analysis with Proof Lite via the plugin #####"); |
3133 | else Info("StartAnalysis", "##### Starting PROOF analysis on cluster <%s> via the plugin #####", fProofCluster.Data()); | |
3bdcb562 | 3134 | if (fProofCluster.IsNull()) { |
3135 | Error("StartAnalysis", "You need to specify the proof cluster name via SetProofCluster"); | |
3136 | return kFALSE; | |
3137 | } | |
3138 | if (fProofDataSet.IsNull() && !testMode) { | |
3139 | Error("StartAnalysis", "You need to specify a dataset using SetProofDataSet()"); | |
3140 | return kFALSE; | |
3141 | } | |
3142 | // Set the needed environment | |
3143 | gEnv->SetValue("XSec.GSI.DelegProxy","2"); | |
3144 | // Do we need to reset PROOF ? The success of the Reset operation cannot be checked | |
3145 | if (fProofReset && !testMode) { | |
3146 | if (fProofReset==1) { | |
3147 | Info("StartAnalysis", "Sending soft reset signal to proof cluster %s", fProofCluster.Data()); | |
3148 | gROOT->ProcessLine(Form("TProof::Reset(\"%s\", kFALSE);", fProofCluster.Data())); | |
3149 | } else { | |
3150 | Info("StartAnalysis", "Sending hard reset signal to proof cluster %s", fProofCluster.Data()); | |
3151 | gROOT->ProcessLine(Form("TProof::Reset(\"%s\", kTRUE);", fProofCluster.Data())); | |
3152 | } | |
3153 | Info("StartAnalysis", "Stopping the analysis. Please use SetProofReset(0) to resume."); | |
3154 | return kFALSE; | |
3155 | } | |
baa34407 | 3156 | |
3157 | if (!testMode) { | |
3158 | // Check if there is an old active session | |
3159 | Long_t nsessions = gROOT->ProcessLine(Form("TProof::Mgr(\"%s\")->QuerySessions(\"\")->GetEntries();", fProofCluster.Data())); | |
3160 | if (nsessions) { | |
3161 | Error("StartAnalysis","You have to reset your old session first\n"); | |
3162 | return kFALSE; | |
3163 | } | |
53911ca6 | 3164 | } |
3bdcb562 | 3165 | // Do we need to change the ROOT version ? The success of this cannot be checked. |
874de7ea | 3166 | if (!fROOTVersion.IsNull() && !testMode) { |
cbccef47 | 3167 | gROOT->ProcessLine(Form("TProof::Mgr(\"%s\")->SetROOTVersion(\"VO_ALICE@ROOT::%s\");", |
874de7ea | 3168 | fProofCluster.Data(), fROOTVersion.Data())); |
3bdcb562 | 3169 | } |
3170 | // Connect to PROOF and check the status | |
3171 | Long_t proof = 0; | |
27734f0e | 3172 | TString sworkers; |
3173 | if (fNproofWorkersPerSlave) sworkers = Form("workers=%dx", fNproofWorkersPerSlave); | |
3174 | else if (fNproofWorkers) sworkers = Form("workers=%d", fNproofWorkers); | |
3bdcb562 | 3175 | if (!testMode) { |
27734f0e | 3176 | if (!sworkers.IsNull()) |
3177 | proof = gROOT->ProcessLine(Form("TProof::Open(\"%s\", \"%s\");", fProofCluster.Data(), sworkers.Data())); | |
3bdcb562 | 3178 | else |
3179 | proof = gROOT->ProcessLine(Form("TProof::Open(\"%s\");", fProofCluster.Data())); | |
3180 | } else { | |
3181 | proof = gROOT->ProcessLine("TProof::Open(\"\");"); | |
3182 | if (!proof) { | |
3183 | Error("StartAnalysis", "Could not start PROOF in test mode"); | |
3184 | return kFALSE; | |
3185 | } | |
3186 | } | |
3187 | if (!proof) { | |
3188 | Error("StartAnalysis", "Could not connect to PROOF cluster <%s>", fProofCluster.Data()); | |
3189 | return kFALSE; | |
3190 | } | |
27734f0e | 3191 | if (fNproofWorkersPerSlave*fNproofWorkers > 0) |
3192 | gROOT->ProcessLine(Form("gProof->SetParallel(%d);", fNproofWorkers)); | |
28ce6c9c | 3193 | // Set proof special parameters if any |
3194 | TIter nextpp(&fProofParam); | |
3195 | TObject *proofparam; | |
3196 | while ((proofparam=nextpp())) { | |
3197 | TString svalue = GetProofParameter(proofparam->GetName()); | |
3198 | gROOT->ProcessLine(Form("gProof->SetParameter(\"%s\",%s);", proofparam->GetName(), svalue.Data())); | |
3199 | } | |
3bdcb562 | 3200 | // Is dataset existing ? |
3201 | if (!testMode) { | |
3202 | TString dataset = fProofDataSet; | |
3203 | Int_t index = dataset.Index("#"); | |
3204 | if (index>=0) dataset.Remove(index); | |
830acc4c | 3205 | // if (!gROOT->ProcessLine(Form("gProof->ExistsDataSet(\"%s\");",fProofDataSet.Data()))) { |
3206 | // Error("StartAnalysis", "Dataset %s not existing", fProofDataSet.Data()); | |
3207 | // return kFALSE; | |
3208 | // } | |
3209 | // Info("StartAnalysis", "Dataset %s found", dataset.Data()); | |
3bdcb562 | 3210 | } |
3211 | // Is ClearPackages() needed ? | |
3212 | if (TestSpecialBit(kClearPackages)) { | |
3213 | Info("StartAnalysis", "ClearPackages signal sent to PROOF. Use SetClearPackages(kFALSE) to reset this."); | |
3214 | gROOT->ProcessLine("gProof->ClearPackages();"); | |
3215 | } | |
3216 | // Is a given aliroot mode requested ? | |
3217 | TList optionsList; | |
1ac846e9 | 3218 | TString parLibs; |
830acc4c | 3219 | if (!fAliRootMode.IsNull()) { |
3bdcb562 | 3220 | TString alirootMode = fAliRootMode; |
3221 | if (alirootMode == "default") alirootMode = ""; | |
3222 | Info("StartAnalysis", "You are requesting AliRoot mode: %s", fAliRootMode.Data()); | |
3223 | optionsList.SetOwner(); | |
3224 | optionsList.Add(new TNamed("ALIROOT_MODE", alirootMode.Data())); | |
3225 | // Check the additional libs to be loaded | |
3226 | TString extraLibs; | |
1ac846e9 | 3227 | Bool_t parMode = kFALSE; |
dc1ffbcb | 3228 | if (!alirootMode.IsNull()) extraLibs = "ANALYSIS:OADB:ANALYSISalice"; |
3bdcb562 | 3229 | // Parse the extra libs for .so |
3230 | if (fAdditionalLibs.Length()) { | |
3231 | TObjArray *list = fAdditionalLibs.Tokenize(" "); | |
3232 | TIter next(list); | |
3233 | TObjString *str; | |
1ac846e9 | 3234 | while((str=(TObjString*)next())) { |
3235 | if (str->GetString().Contains(".so")) { | |
3236 | if (parMode) { | |
3237 | Warning("StartAnalysis", "Plugin does not support loading libs after par files in PROOF mode. Library %s and following will not load on workers", str->GetName()); | |
3238 | break; | |
3239 | } | |
3240 | TString stmp = str->GetName(); | |
3241 | if (stmp.BeginsWith("lib")) stmp.Remove(0,3); | |
3242 | stmp.ReplaceAll(".so",""); | |
3243 | if (!extraLibs.IsNull()) extraLibs += ":"; | |
3244 | extraLibs += stmp; | |
3245 | continue; | |
3246 | } | |
3247 | if (str->GetString().Contains(".par")) { | |
3248 | // The first par file found in the list will not allow any further .so | |
3249 | parMode = kTRUE; | |
3250 | if (!parLibs.IsNull()) parLibs += ":"; | |
3251 | parLibs += str->GetName(); | |
3252 | continue; | |
3253 | } | |
3bdcb562 | 3254 | } |
3255 | if (list) delete list; | |
3256 | } | |
dc030a24 | 3257 | if (!extraLibs.IsNull()) { |
3258 | Info("StartAnalysis", "Adding extra libs: %s",extraLibs.Data()); | |
3259 | optionsList.Add(new TNamed("ALIROOT_EXTRA_LIBS",extraLibs.Data())); | |
3260 | } | |
830acc4c | 3261 | // Check extra includes |
3262 | if (!fIncludePath.IsNull()) { | |
3263 | TString includePath = fIncludePath; | |
3264 | includePath.ReplaceAll(" ",":"); | |
dc030a24 | 3265 | includePath.ReplaceAll("$ALICE_ROOT/",""); |
3266 | includePath.ReplaceAll("${ALICE_ROOT}/",""); | |
8ddad121 | 3267 | includePath.ReplaceAll("-I",""); |
dc030a24 | 3268 | includePath.Remove(TString::kTrailing, ':'); |
830acc4c | 3269 | Info("StartAnalysis", "Adding extra includes: %s",includePath.Data()); |
3270 | optionsList.Add(new TNamed("ALIROOT_EXTRA_INCLUDES",includePath.Data())); | |
3271 | } | |
27734f0e | 3272 | // Check if connection to grid is requested |
3273 | if (TestSpecialBit(kProofConnectGrid)) | |
3274 | optionsList.Add(new TNamed("ALIROOT_ENABLE_ALIEN", "1")); | |
830acc4c | 3275 | // Enable AliRoot par |
3276 | if (testMode) { | |
3277 | // Enable proof lite package | |
3278 | TString alirootLite = gSystem->ExpandPathName("$ALICE_ROOT/ANALYSIS/macros/AliRootProofLite.par"); | |
3279 | for (Int_t i=0; i<optionsList.GetSize(); i++) { | |
3280 | TNamed *obj = (TNamed*)optionsList.At(i); | |
3281 | printf("%s %s\n", obj->GetName(), obj->GetTitle()); | |
3282 | } | |
3283 | if (!gROOT->ProcessLine(Form("gProof->UploadPackage(\"%s\");",alirootLite.Data())) | |
8ddad121 | 3284 | && !gROOT->ProcessLine(Form("gProof->EnablePackage(\"%s\", (TList*)%p);",alirootLite.Data(),&optionsList))) { |
830acc4c | 3285 | Info("StartAnalysis", "AliRootProofLite enabled"); |
3286 | } else { | |
3287 | Error("StartAnalysis", "There was an error trying to enable package AliRootProofLite.par"); | |
3288 | return kFALSE; | |
3289 | } | |
3290 | } else { | |
dc030a24 | 3291 | if ( ! fAliROOTVersion.IsNull() ) { |
3292 | if (gROOT->ProcessLine(Form("gProof->EnablePackage(\"VO_ALICE@AliRoot::%s\", (TList*)%p, kTRUE);", | |
3293 | fAliROOTVersion.Data(), &optionsList))) { | |
3294 | Error("StartAnalysis", "There was an error trying to enable package VO_ALICE@AliRoot::%s", fAliROOTVersion.Data()); | |
3295 | return kFALSE; | |
3296 | } | |
3297 | } | |
27734f0e | 3298 | } |
1ac846e9 | 3299 | // Enable first par files from fAdditionalLibs |
3300 | if (!parLibs.IsNull()) { | |
3301 | TObjArray *list = parLibs.Tokenize(":"); | |
3302 | TIter next(list); | |
3303 | TObjString *package; | |
3304 | while((package=(TObjString*)next())) { | |
40501bb7 | 3305 | TString spkg = package->GetName(); |
3306 | spkg.ReplaceAll(".par", ""); | |
3307 | gSystem->Exec(TString::Format("rm -rf %s", spkg.Data())); | |
b50a41c3 | 3308 | if (!gROOT->ProcessLine(Form("gProof->UploadPackage(\"%s\");", package->GetName()))) { |
4f136f18 | 3309 | TString enablePackage = (testMode)?Form("gProof->EnablePackage(\"%s\",kFALSE);", package->GetName()):Form("gProof->EnablePackage(\"%s\",kTRUE);", package->GetName()); |
3310 | if (gROOT->ProcessLine(enablePackage)) { | |
1ac846e9 | 3311 | Error("StartAnalysis", "There was an error trying to enable package %s", package->GetName()); |
3312 | return kFALSE; | |
3313 | } | |
3314 | } else { | |
3315 | Error("StartAnalysis", "There was an error trying to upload package %s", package->GetName()); | |
3316 | return kFALSE; | |
3317 | } | |
3318 | } | |
3319 | if (list) delete list; | |
3320 | } | |
3bdcb562 | 3321 | } else { |
3322 | if (fAdditionalLibs.Contains(".so") && !testMode) { | |
3323 | Error("StartAnalysis", "You request additional libs to be loaded but did not enabled any AliRoot mode. Please refer to: \ | |
3324 | \n http://aaf.cern.ch/node/83 and use a parameter for SetAliRootMode()"); | |
3325 | return kFALSE; | |
3326 | } | |
3327 | } | |
3328 | // Enable par files if requested | |
3329 | if (fPackages && fPackages->GetEntries()) { | |
3330 | TIter next(fPackages); | |
3331 | TObject *package; | |
3332 | while ((package=next())) { | |
1ac846e9 | 3333 | // Skip packages already enabled |
3334 | if (parLibs.Contains(package->GetName())) continue; | |
40501bb7 | 3335 | TString spkg = package->GetName(); |
3336 | spkg.ReplaceAll(".par", ""); | |
3337 | gSystem->Exec(TString::Format("rm -rf %s", spkg.Data())); | |
dc030a24 | 3338 | if (!gROOT->ProcessLine(Form("gProof->UploadPackage(\"%s\");", package->GetName()))) { |
27734f0e | 3339 | if (gROOT->ProcessLine(Form("gProof->EnablePackage(\"%s\",kTRUE);", package->GetName()))) { |
3bdcb562 | 3340 | Error("StartAnalysis", "There was an error trying to enable package %s", package->GetName()); |
3341 | return kFALSE; | |
3342 | } | |
3343 | } else { | |
3344 | Error("StartAnalysis", "There was an error trying to upload package %s", package->GetName()); | |
3345 | return kFALSE; | |
3346 | } | |
3347 | } | |
3348 | } | |
3349 | // Do we need to load analysis source files ? | |
3350 | // NOTE: don't load on client since this is anyway done by the user to attach his task. | |
3351 | if (fAnalysisSource.Length()) { | |
3352 | TObjArray *list = fAnalysisSource.Tokenize(" "); | |
3353 | TIter next(list); | |
3354 | TObjString *str; | |
3355 | while((str=(TObjString*)next())) { | |
3356 | gROOT->ProcessLine(Form("gProof->Load(\"%s+g\", kTRUE);", str->GetName())); | |
dc030a24 | 3357 | } |
3bdcb562 | 3358 | if (list) delete list; |
3359 | } | |
830acc4c | 3360 | if (testMode) { |
3361 | // Register dataset to proof lite. | |
3362 | if (fFileForTestMode.IsNull()) { | |
3363 | Error("GetChainForTestMode", "For proof test mode please use SetFileForTestMode() pointing to a file that contains data file locations."); | |
3364 | return kFALSE; | |
3365 | } | |
3366 | if (gSystem->AccessPathName(fFileForTestMode)) { | |
3367 | Error("GetChainForTestMode", "File not found: %s", fFileForTestMode.Data()); | |
3368 | return kFALSE; | |
3369 | } | |
3370 | TFileCollection *coll = new TFileCollection(); | |
3371 | coll->AddFromFile(fFileForTestMode); | |
8ddad121 | 3372 | gROOT->ProcessLine(Form("gProof->RegisterDataSet(\"test_collection\", (TFileCollection*)%p, \"OV\");", coll)); |
27734f0e | 3373 | gROOT->ProcessLine("gProof->ShowDataSets()"); |
830acc4c | 3374 | } |
3bdcb562 | 3375 | return kTRUE; |
3376 | } | |
c57f56b7 | 3377 | |
43da816a | 3378 | // Check if output files have to be taken from the analysis manager |
3379 | if (TestBit(AliAnalysisGrid::kDefaultOutputs)) { | |
f790bc1b | 3380 | // Add output files and AOD files |
3381 | fOutputFiles = GetListOfFiles("outaod"); | |
c07b9ce2 | 3382 | // Add extra files registered to the analysis manager |
f790bc1b | 3383 | TString extra = GetListOfFiles("ext"); |
3384 | if (!extra.IsNull()) { | |
149d288c | 3385 | extra.ReplaceAll(".root", "*.root"); |
f790bc1b | 3386 | if (!fOutputFiles.IsNull()) fOutputFiles += ","; |
149d288c | 3387 | fOutputFiles += extra; |
84fcd93f | 3388 | } |
149d288c | 3389 | // Compose the output archive. |
b83f84f0 | 3390 | fOutputArchive = "log_archive.zip:std*@disk=1 "; |
ec5acdce | 3391 | if (mgr->IsCollectThroughput()) |
3392 | fOutputArchive += Form("root_archive.zip:%s,*.stat,*%s@disk=%d",fOutputFiles.Data(),mgr->GetFileInfoLog(),fNreplicas); | |
3393 | else | |
3394 | fOutputArchive += Form("root_archive.zip:%s,*.stat@disk=%d",fOutputFiles.Data(),fNreplicas); | |
43da816a | 3395 | } |
f7b1cbc2 | 3396 | // if (!fCloseSE.Length()) fCloseSE = gSystem->Getenv("alien_CLOSE_SE"); |
c57f56b7 | 3397 | if (TestBit(AliAnalysisGrid::kOffline)) { |
3398 | Info("StartAnalysis","\n##### OFFLINE MODE ##### Files to be used in GRID are produced but not copied \ | |
3399 | \n there nor any job run. You can revise the JDL and analysis \ | |
3400 | \n macro then run the same in \"submit\" mode."); | |
3401 | } else if (TestBit(AliAnalysisGrid::kTest)) { | |
3402 | Info("StartAnalysis","\n##### LOCAL MODE ##### Your analysis will be run locally on a subset of the requested \ | |
3403 | \n dataset."); | |
3404 | } else if (TestBit(AliAnalysisGrid::kSubmit)) { | |
3405 | Info("StartAnalysis","\n##### SUBMIT MODE ##### Files required by your analysis are copied to your grid working \ | |
3406 | \n space and job submitted."); | |
3407 | } else if (TestBit(AliAnalysisGrid::kMerge)) { | |
3408 | Info("StartAnalysis","\n##### MERGE MODE ##### The registered outputs of the analysis will be merged"); | |
0f389141 | 3409 | if (fMergeViaJDL) CheckInputData(); |
5513444a | 3410 | return kTRUE; |
c57f56b7 | 3411 | } else { |
3412 | Info("StartAnalysis","\n##### FULL ANALYSIS MODE ##### Producing needed files and submitting your analysis job..."); | |
3413 | } | |
3414 | ||
348be253 | 3415 | Print(); |
c57f56b7 | 3416 | if (!Connect()) { |
3417 | Error("StartAnalysis", "Cannot start grid analysis without grid connection"); | |
5513444a | 3418 | return kFALSE; |
16a4353c | 3419 | } |
d3b18c4c | 3420 | if (IsCheckCopy() && gGrid) CheckFileCopy(gGrid->GetHomeDirectory()); |
c57f56b7 | 3421 | if (!CheckInputData()) { |
3422 | Error("StartAnalysis", "There was an error in preprocessing your requested input data"); | |
5513444a | 3423 | return kFALSE; |
c57f56b7 | 3424 | } |
d3339be3 | 3425 | if (!CreateDataset(fDataPattern)) { |
3426 | TString serror; | |
3427 | if (!fRunNumbers.Length() && !fRunRange[0]) serror = Form("path to data directory: <%s>", fGridDataDir.Data()); | |
3428 | if (fRunNumbers.Length()) serror = "run numbers"; | |
3429 | if (fRunRange[0]) serror = Form("run range [%d, %d]", fRunRange[0], fRunRange[1]); | |
3430 | serror += Form("\n or data pattern <%s>", fDataPattern.Data()); | |
3431 | Error("StartAnalysis", "No data to process. Please fix %s in your plugin configuration.", serror.Data()); | |
3432 | return kFALSE; | |
3433 | } | |
21ca8e59 | 3434 | WriteAnalysisFile(); |
c57f56b7 | 3435 | WriteAnalysisMacro(); |
3436 | WriteExecutable(); | |
3437 | WriteValidationScript(); | |
0f389141 | 3438 | if (fMergeViaJDL) { |
3439 | WriteMergingMacro(); | |
3440 | WriteMergeExecutable(); | |
3441 | WriteValidationScript(kTRUE); | |
3442 | } | |
5513444a | 3443 | if (!CreateJDL()) return kFALSE; |
3444 | if (TestBit(AliAnalysisGrid::kOffline)) return kFALSE; | |
3bdcb562 | 3445 | if (testMode) { |
c57f56b7 | 3446 | // Locally testing the analysis |
3447 | Info("StartAnalysis", "\n_______________________________________________________________________ \ | |
3448 | \n Running analysis script in a daughter shell as on a worker node \ | |
3449 | \n_______________________________________________________________________"); | |
149d288c | 3450 | TObjArray *list = fOutputFiles.Tokenize(","); |
c57f56b7 | 3451 | TIter next(list); |
3452 | TObjString *str; | |
a2f5fc01 | 3453 | TString outputFile; |
c57f56b7 | 3454 | while((str=(TObjString*)next())) { |
a2f5fc01 | 3455 | outputFile = str->GetString(); |
3456 | Int_t index = outputFile.Index("@"); | |
3457 | if (index > 0) outputFile.Remove(index); | |
3458 | if (!gSystem->AccessPathName(outputFile)) gSystem->Exec(Form("rm %s", outputFile.Data())); | |
c57f56b7 | 3459 | } |
3460 | delete list; | |
3461 | gSystem->Exec(Form("bash %s 2>stderr", fExecutable.Data())); | |
f50e4bc8 | 3462 | gSystem->Exec(Form("bash %s",fValidationScript.Data())); |
c57f56b7 | 3463 | // gSystem->Exec("cat stdout"); |
5513444a | 3464 | return kFALSE; |
c57f56b7 | 3465 | } |
5513444a | 3466 | // Check if submitting is managed by LPM manager |
a3e84053 | 3467 | if (fProductionMode) { |
7ac61826 | 3468 | //TString prodfile = fJDLName; |
3469 | //prodfile.ReplaceAll(".jdl", ".prod"); | |
3470 | //WriteProductionFile(prodfile); | |
5513444a | 3471 | Info("StartAnalysis", "Job submitting is managed by LPM. Rerun in terminate mode after jobs finished."); |
3472 | return kFALSE; | |
3473 | } | |
a8739e8a | 3474 | // Submit AliEn job(s) |
d2a409b2 | 3475 | gGrid->Cd(fGridOutputDir); |
a8739e8a | 3476 | TGridResult *res; |
c57f56b7 | 3477 | TString jobID = ""; |
0ad3ea1f | 3478 | fGridJobIDs = ""; |
3479 | fGridStages = ""; | |
d2a409b2 | 3480 | if (!fRunNumbers.Length() && !fRunRange[0]) { |
dd74a515 | 3481 | // Submit a given xml or a set of runs |
a8739e8a | 3482 | res = gGrid->Command(Form("submit %s", fJDLName.Data())); |
84fcd93f | 3483 | printf("*************************** %s\n",Form("submit %s", fJDLName.Data())); |
a8739e8a | 3484 | if (res) { |
3485 | const char *cjobId = res->GetKey(0,"jobId"); | |
3486 | if (!cjobId) { | |
a03be957 | 3487 | gGrid->Stdout(); |
3488 | gGrid->Stderr(); | |
a8739e8a | 3489 | Error("StartAnalysis", "Your JDL %s could not be submitted", fJDLName.Data()); |
5513444a | 3490 | return kFALSE; |
a8739e8a | 3491 | } else { |
3492 | Info("StartAnalysis", "\n_______________________________________________________________________ \ | |
3493 | \n##### Your JDL %s was successfully submitted. \nTHE JOB ID IS: %s \ | |
3494 | \n_______________________________________________________________________", | |
3495 | fJDLName.Data(), cjobId); | |
3496 | jobID = cjobId; | |
0ad3ea1f | 3497 | if (jobID.Atoi()) { |
3498 | if (!fGridJobIDs.IsNull()) fGridJobIDs.Append(" "); | |
3499 | fGridJobIDs.Append(jobID); | |
3500 | if (!fGridStages.IsNull()) fGridStages.Append(" "); | |
3501 | fGridStages.Append("full"); | |
3502 | } | |
a8739e8a | 3503 | } |
3504 | delete res; | |
a03be957 | 3505 | } else { |
3506 | Error("StartAnalysis", "No grid result after submission !!! Bailing out..."); | |
3507 | return kFALSE; | |
a8739e8a | 3508 | } |
3509 | } else { | |
d2a409b2 | 3510 | // Submit for a range of enumeration of runs. |
a03be957 | 3511 | if (!Submit()) return kFALSE; |
0ad3ea1f | 3512 | jobID = fGridJobIDs; |
c57f56b7 | 3513 | } |
a8739e8a | 3514 | |
d88e4159 | 3515 | if (fDropToShell) { |
3516 | Info("StartAnalysis", "\n#### STARTING AN ALIEN SHELL FOR YOU. EXIT WHEN YOUR JOB %s HAS FINISHED. #### \ | |
3517 | \n You may exit at any time and terminate the job later using the option <terminate> \ | |
3518 | \n ##################################################################################", jobID.Data()); | |
3519 | gSystem->Exec("aliensh"); | |
3520 | } else { | |
3521 | Info("StartAnalysis", "\n#### SUBMITTED JOB %s TO ALIEN QUEUE #### \ | |
3522 | \n Remember to terminate the job later using the option <terminate> \ | |
3523 | \n ##################################################################################", jobID.Data()); | |
3524 | } | |
5513444a | 3525 | return kTRUE; |
c57f56b7 | 3526 | } |
3527 | ||
f790bc1b | 3528 | //______________________________________________________________________________ |
3529 | const char *AliAnalysisAlien::GetListOfFiles(const char *type) | |
3530 | { | |
3531 | // Get a comma-separated list of output files of the requested type. | |
3532 | // Type can be (case unsensitive): | |
3533 | // aod - list of aod files (std, extensions and filters) | |
3534 | // out - list of output files connected to containers (but not aod's or extras) | |
3535 | // ext - list of extra files registered to the manager | |
3536 | // ter - list of files produced in terminate | |
3537 | static TString files; | |
3538 | files = ""; | |
3539 | TString stype = type; | |
3540 | stype.ToLower(); | |
3541 | TString aodfiles, extra; | |
3542 | AliAnalysisManager *mgr = AliAnalysisManager::GetAnalysisManager(); | |
3543 | if (!mgr) { | |
3544 | ::Error("GetListOfFiles", "Cannot call this without analysis manager"); | |
3545 | return files.Data(); | |
3546 | } | |
3547 | if (mgr->GetOutputEventHandler()) { | |
3548 | aodfiles = mgr->GetOutputEventHandler()->GetOutputFileName(); | |
3549 | TString extraaod = mgr->GetOutputEventHandler()->GetExtraOutputs(); | |
3550 | if (!extraaod.IsNull()) { | |
3551 | aodfiles += ","; | |
3552 | aodfiles += extraaod; | |
3553 | } | |
3554 | } | |
3555 | if (stype.Contains("aod")) { | |
3556 | files = aodfiles; | |
3557 | if (stype == "aod") return files.Data(); | |
3558 | } | |
3559 | // Add output files that are not in the list of AOD files | |
3560 | TString outputfiles = ""; | |
3561 | TIter next(mgr->GetOutputs()); | |
3562 | AliAnalysisDataContainer *output; | |
3563 | const char *filename = 0; | |
3564 | while ((output=(AliAnalysisDataContainer*)next())) { | |
3565 | filename = output->GetFileName(); | |
3566 | if (!(strcmp(filename, "default"))) continue; | |
3567 | if (outputfiles.Contains(filename)) continue; | |
3568 | if (aodfiles.Contains(filename)) continue; | |
3569 | if (!outputfiles.IsNull()) outputfiles += ","; | |
3570 | outputfiles += filename; | |
3571 | } | |
3572 | if (stype.Contains("out")) { | |
3573 | if (!files.IsNull()) files += ","; | |
3574 | files += outputfiles; | |
3575 | if (stype == "out") return files.Data(); | |
3576 | } | |
3577 | // Add extra files registered to the analysis manager | |
3578 | TString sextra; | |
3579 | extra = mgr->GetExtraFiles(); | |
3580 | if (!extra.IsNull()) { | |
3581 | extra.Strip(); | |
3582 | extra.ReplaceAll(" ", ","); | |
3583 | TObjArray *fextra = extra.Tokenize(","); | |
3584 | TIter nextx(fextra); | |
3585 | TObject *obj; | |
3586 | while ((obj=nextx())) { | |
3587 | if (aodfiles.Contains(obj->GetName())) continue; | |
3588 | if (outputfiles.Contains(obj->GetName())) continue; | |
3589 | if (sextra.Contains(obj->GetName())) continue; | |
3590 | if (!sextra.IsNull()) sextra += ","; | |
3591 | sextra += obj->GetName(); | |
3592 | } | |
3593 | delete fextra; | |
3594 | if (stype.Contains("ext")) { | |
3595 | if (!files.IsNull()) files += ","; | |
3596 | files += sextra; | |
3597 | } | |
3598 | } | |
3599 | if (stype == "ext") return files.Data(); | |
3600 | TString termfiles; | |
3601 | if (!fTerminateFiles.IsNull()) { | |
3602 | fTerminateFiles.Strip(); | |
3603 | fTerminateFiles.ReplaceAll(" ",","); | |
9c939f2b | 3604 | TObjArray *fextra = fTerminateFiles.Tokenize(","); |
f790bc1b | 3605 | TIter nextx(fextra); |
3606 | TObject *obj; | |
3607 | while ((obj=nextx())) { | |
3608 | if (aodfiles.Contains(obj->GetName())) continue; | |
3609 | if (outputfiles.Contains(obj->GetName())) continue; | |
3610 | if (termfiles.Contains(obj->GetName())) continue; | |
3611 | if (sextra.Contains(obj->GetName())) continue; | |
3612 | if (!termfiles.IsNull()) termfiles += ","; | |
3613 | termfiles += obj->GetName(); | |
3614 | } | |
3615 | delete fextra; | |
3616 | } | |
3617 | if (stype.Contains("ter")) { | |
3618 | if (!files.IsNull() && !termfiles.IsNull()) { | |
3619 | files += ","; | |
3620 | files += termfiles; | |
3621 | } | |
3622 | } | |
3623 | return files.Data(); | |
3624 | } | |
3625 | ||
d2a409b2 | 3626 | //______________________________________________________________________________ |
a03be957 | 3627 | Bool_t AliAnalysisAlien::Submit() |
d2a409b2 | 3628 | { |
3629 | // Submit all master jobs. | |
3630 | Int_t nmasterjobs = fInputFiles->GetEntries(); | |
3631 | Long_t tshoot = gSystem->Now(); | |
a03be957 | 3632 | if (!fNsubmitted && !SubmitNext()) return kFALSE; |
d2a409b2 | 3633 | while (fNsubmitted < nmasterjobs) { |
3634 | Long_t now = gSystem->Now(); | |
3635 | if ((now-tshoot)>30000) { | |
3636 | tshoot = now; | |
a03be957 | 3637 | if (!SubmitNext()) return kFALSE; |
d2a409b2 | 3638 | } |
3639 | } | |
a03be957 | 3640 | return kTRUE; |
d2a409b2 | 3641 | } |
3642 | ||
0f389141 | 3643 | //______________________________________________________________________________ |
a03be957 | 3644 | Bool_t AliAnalysisAlien::SubmitMerging() |
0f389141 | 3645 | { |
3646 | // Submit all merging jobs. | |
dc030a24 | 3647 | if (!fGridOutputDir.Contains("/")) fGridOutputDir = Form("%s/%s/%s", gGrid->GetHomeDirectory(), fGridWorkingDir.Data(), fGridOutputDir.Data()); |
0f389141 | 3648 | gGrid->Cd(fGridOutputDir); |
3649 | TString mergeJDLName = fExecutable; | |
3650 | mergeJDLName.ReplaceAll(".sh", "_merge.jdl"); | |
9f020952 | 3651 | if (!fInputFiles) { |
3652 | Error("SubmitMerging", "You have to use explicit run numbers or run range to merge via JDL!"); | |
3653 | return kFALSE; | |
3654 | } | |
0f389141 | 3655 | Int_t ntosubmit = fInputFiles->GetEntries(); |
0f389141 | 3656 | for (Int_t i=0; i<ntosubmit; i++) { |
f866cba5 | 3657 | TString runOutDir = gSystem->BaseName(fInputFiles->At(i)->GetName()); |
3658 | runOutDir.ReplaceAll(".xml", ""); | |
7c2cd90a | 3659 | if (fOutputToRunNo) { |
3660 | // The output directory is the run number | |
3661 | printf("### Submitting merging job for run <%s>\n", runOutDir.Data()); | |
3662 | runOutDir = Form("%s/%s", fGridOutputDir.Data(), runOutDir.Data()); | |
3663 | } else { | |
17b4e9a4 | 3664 | if (!fRunNumbers.Length() && !fRunRange[0]) { |
3665 | // The output directory is the grid outdir | |
3666 | printf("### Submitting merging job for the full output directory %s.\n", fGridOutputDir.Data()); | |
3667 | runOutDir = fGridOutputDir; | |
3668 | } else { | |
3669 | // The output directory is the master number in 3 digits format | |
3670 | printf("### Submitting merging job for master <%03d>\n", i); | |
3671 | runOutDir = Form("%s/%03d",fGridOutputDir.Data(), i); | |
3672 | } | |
7c2cd90a | 3673 | } |
3674 | // Check now the number of merging stages. | |
2b222f7c | 3675 | TObjArray *list = fOutputFiles.Tokenize(","); |
3676 | TIter next(list); | |
3677 | TObjString *str; | |
3678 | TString outputFile; | |
3679 | while((str=(TObjString*)next())) { | |
3680 | outputFile = str->GetString(); | |
3681 | Int_t index = outputFile.Index("@"); | |
3682 | if (index > 0) outputFile.Remove(index); | |
37d21c01 | 3683 | if (!fMergeExcludes.Contains(outputFile) && |
3684 | !fRegisterExcludes.Contains(outputFile)) break; | |
2b222f7c | 3685 | } |
3686 | delete list; | |
b3e07543 | 3687 | Bool_t done = CheckMergedFiles(outputFile, runOutDir, fMaxMergeFiles, mergeJDLName); |
1d0b4d65 | 3688 | if (!done && (i==ntosubmit-1)) return kFALSE; |
17b4e9a4 | 3689 | if (!fRunNumbers.Length() && !fRunRange[0]) break; |
0f389141 | 3690 | } |
a03be957 | 3691 | if (!ntosubmit) return kTRUE; |
d88e4159 | 3692 | if (fDropToShell) { |
3693 | Info("StartAnalysis", "\n #### STARTING AN ALIEN SHELL FOR YOU. You can exit any time or inspect your jobs in a different shell.##########\ | |
3694 | \n Make sure your jobs are in a final state (you can resubmit failed ones via 'masterjob <id> resubmit ERROR_ALL')\ | |
3695 | \n Rerun in 'terminate' mode to submit all merging stages, each AFTER the previous one completed. The final merged \ | |
3696 | \n output will be written to your alien output directory, while separate stages in <Stage_n>. \ | |
3697 | \n ################################################################################################################"); | |
3698 | gSystem->Exec("aliensh"); | |
3699 | } else { | |
3700 | Info("StartAnalysis", "\n #### STARTED MERGING JOBS FOR YOU #### \ | |
3701 | \n Make sure your jobs are in a final state (you can resubmit failed ones via 'masterjob <id> resubmit ERROR_ALL') \ | |
3702 | \n Rerun in 'terminate' mode to submit all merging stages, each AFTER the previous one completed. The final merged \ | |
3703 | \n output will be written to your alien output directory, while separate stages in <Stage_n>. \ | |
3704 | \n ################################################################################################################"); | |
3705 | } | |
a03be957 | 3706 | return kTRUE; |
0f389141 | 3707 | } |
3708 | ||
d2a409b2 | 3709 | //______________________________________________________________________________ |
a03be957 | 3710 | Bool_t AliAnalysisAlien::SubmitNext() |
d2a409b2 | 3711 | { |
08d5b699 | 3712 | // Submit next bunch of master jobs if the queue is free. The first master job is |
3713 | // submitted right away, while the next will not be unless the previous was split. | |
3714 | // The plugin will not submit new master jobs if there are more that 500 jobs in | |
3715 | // waiting phase. | |
d2a409b2 | 3716 | static Bool_t iscalled = kFALSE; |
3717 | static Int_t firstmaster = 0; | |
3718 | static Int_t lastmaster = 0; | |
3719 | static Int_t npermaster = 0; | |
a03be957 | 3720 | if (iscalled) return kTRUE; |
d2a409b2 | 3721 | iscalled = kTRUE; |
3722 | Int_t nrunning=0, nwaiting=0, nerror=0, ndone=0; | |
3723 | Int_t ntosubmit = 0; | |
3724 | TGridResult *res; | |
3725 | TString jobID = ""; | |
3bdcb562 | 3726 | Int_t nmasterjobs = fInputFiles->GetEntries(); |
3727 | if (!fNsubmitted) { | |
3728 | ntosubmit = 1; | |
3729 | if (!IsUseSubmitPolicy()) { | |
90d50a8c | 3730 | if (nmasterjobs>5) |
3bdcb562 | 3731 | Info("SubmitNext","### Warning submit policy not used ! Submitting too many jobs at a time may be prohibitted. \ |
3732 | \n### You can use SetUseSubmitPolicy() to enable if you have problems."); | |
3733 | ntosubmit = nmasterjobs; | |
3734 | } | |
3735 | } else { | |
d2a409b2 | 3736 | TString status = GetJobStatus(firstmaster, lastmaster, nrunning, nwaiting, nerror, ndone); |
84fcd93f | 3737 | printf("=== master %d: %s\n", lastmaster, status.Data()); |
d2a409b2 | 3738 | // If last master not split, just return |
a03be957 | 3739 | if (status != "SPLIT") {iscalled = kFALSE; return kTRUE;} |
d2a409b2 | 3740 | // No more than 100 waiting jobs |
08d5b699 | 3741 | if (nwaiting>500) {iscalled = kFALSE; return kTRUE;} |
d2a409b2 | 3742 | npermaster = (nrunning+nwaiting+nerror+ndone)/fNsubmitted; |
08d5b699 | 3743 | if (npermaster) ntosubmit = (500-nwaiting)/npermaster; |
7586eedc | 3744 | if (!ntosubmit) ntosubmit = 1; |
84fcd93f | 3745 | printf("=== WAITING(%d) RUNNING(%d) DONE(%d) OTHER(%d) NperMaster=%d => to submit %d jobs\n", |
d2a409b2 | 3746 | nwaiting, nrunning, ndone, nerror, npermaster, ntosubmit); |
3747 | } | |
d2a409b2 | 3748 | for (Int_t i=0; i<ntosubmit; i++) { |
3749 | // Submit for a range of enumeration of runs. | |
a03be957 | 3750 | if (fNsubmitted>=nmasterjobs) {iscalled = kFALSE; return kTRUE;} |
d2a409b2 | 3751 | TString query; |
cd11251e | 3752 | TString runOutDir = gSystem->BaseName(fInputFiles->At(fNsubmitted)->GetName()); |
3753 | runOutDir.ReplaceAll(".xml", ""); | |
3754 | if (fOutputToRunNo) | |
3755 | query = Form("submit %s %s %s", fJDLName.Data(), fInputFiles->At(fNsubmitted)->GetName(), runOutDir.Data()); | |
3756 | else | |
3757 | query = Form("submit %s %s %03d", fJDLName.Data(), fInputFiles->At(fNsubmitted)->GetName(), fNsubmitted); | |
84fcd93f | 3758 | printf("********* %s\n",query.Data()); |
d2a409b2 | 3759 | res = gGrid->Command(query); |
3760 | if (res) { | |
98ca124f | 3761 | TString cjobId1 = res->GetKey(0,"jobId"); |
3762 | if (!cjobId1.Length()) { | |
d2a409b2 | 3763 | iscalled = kFALSE; |
a03be957 | 3764 | gGrid->Stdout(); |
3765 | gGrid->Stderr(); | |
3766 | Error("StartAnalysis", "Your JDL %s could not be submitted. The message was:", fJDLName.Data()); | |
3767 | return kFALSE; | |
d2a409b2 | 3768 | } else { |
3769 | Info("StartAnalysis", "\n_______________________________________________________________________ \ | |
3770 | \n##### Your JDL %s submitted (%d to go). \nTHE JOB ID IS: %s \ | |
3771 | \n_______________________________________________________________________", | |
98ca124f | 3772 | fJDLName.Data(), nmasterjobs-fNsubmitted-1, cjobId1.Data()); |
0ad3ea1f | 3773 | if (!fGridJobIDs.IsNull()) fGridJobIDs.Append(" "); |
3774 | fGridJobIDs.Append(cjobId1); | |
3775 | if (!fGridStages.IsNull()) fGridStages.Append(" "); | |
3776 | fGridStages.Append("full"); | |
d2a409b2 | 3777 | jobID += cjobId1; |
3778 | jobID += " "; | |
98ca124f | 3779 | lastmaster = cjobId1.Atoi(); |
d2a409b2 | 3780 | if (!firstmaster) firstmaster = lastmaster; |
3781 | fNsubmitted++; | |
3782 | } | |
3783 | delete res; | |
a03be957 | 3784 | } else { |
3785 | Error("StartAnalysis", "No grid result after submission !!! Bailing out..."); | |
3786 | return kFALSE; | |
d2a409b2 | 3787 | } |
3788 | } | |
3789 | iscalled = kFALSE; | |
a03be957 | 3790 | return kTRUE; |
d2a409b2 | 3791 | } |
3792 | ||
c57f56b7 | 3793 | //______________________________________________________________________________ |
3794 | void AliAnalysisAlien::WriteAnalysisFile() | |
3795 | { | |
f10e8481 | 3796 | // Write current analysis manager into the file <analysisFile> |
3797 | TString analysisFile = fExecutable; | |
3798 | analysisFile.ReplaceAll(".sh", ".root"); | |
c57f56b7 | 3799 | if (!TestBit(AliAnalysisGrid::kSubmit)) { |
3800 | AliAnalysisManager *mgr = AliAnalysisManager::GetAnalysisManager(); | |
3801 | if (!mgr || !mgr->IsInitialized()) { | |
3802 | Error("WriteAnalysisFile", "You need an initialized analysis manager for this"); | |
3803 | return; | |
3804 | } | |
3805 | // Check analysis type | |
3806 | TObject *handler; | |
3807 | if (mgr->GetMCtruthEventHandler()) TObject::SetBit(AliAnalysisGrid::kUseMC); | |
3808 | handler = (TObject*)mgr->GetInputEventHandler(); | |
3809 | if (handler) { | |
65eb22f8 | 3810 | if (handler->InheritsFrom("AliMultiInputEventHandler")) { |
3811 | AliMultiInputEventHandler *multiIH = (AliMultiInputEventHandler*)handler; | |
3812 | if (multiIH->GetFirstInputEventHandler()->InheritsFrom("AliESDInputHandler")) TObject::SetBit(AliAnalysisGrid::kUseESD); | |
3813 | if (multiIH->GetFirstInputEventHandler()->InheritsFrom("AliAODInputHandler")) TObject::SetBit(AliAnalysisGrid::kUseAOD); | |
3814 | } else { | |
3815 | if (handler->InheritsFrom("AliESDInputHandler")) TObject::SetBit(AliAnalysisGrid::kUseESD); | |
3816 | if (handler->InheritsFrom("AliAODInputHandler")) TObject::SetBit(AliAnalysisGrid::kUseAOD); | |
3817 | } | |
c57f56b7 | 3818 | } |
3819 | TDirectory *cdir = gDirectory; | |
f10e8481 | 3820 | TFile *file = TFile::Open(analysisFile, "RECREATE"); |
c57f56b7 | 3821 | if (file) { |
e16a394c | 3822 | // Skip task Terminate calls for the grid job (but not in test mode, where we want to check also the terminate mode |
3823 | if (!TestBit(AliAnalysisGrid::kTest)) mgr->SetSkipTerminate(kTRUE); | |
fe2d7fc2 | 3824 | // Unless merging makes no sense |
3825 | if (IsSingleOutput()) mgr->SetSkipTerminate(kFALSE); | |
c57f56b7 | 3826 | mgr->Write(); |
3827 | delete file; | |
fe2d7fc2 | 3828 | // Enable termination for local jobs |
3829 | mgr->SetSkipTerminate(kFALSE); | |
c57f56b7 | 3830 | } |
3831 | if (cdir) cdir->cd(); | |
f10e8481 | 3832 | Info("WriteAnalysisFile", "\n##### Analysis manager: %s wrote to file <%s>\n", mgr->GetName(),analysisFile.Data()); |
c57f56b7 | 3833 | } |
3834 | Bool_t copy = kTRUE; | |
d3b18c4c | 3835 | if (fProductionMode || TestBit(AliAnalysisGrid::kOffline) || TestBit(AliAnalysisGrid::kTest)) copy = kFALSE; |
c57f56b7 | 3836 | if (copy) { |
3837 | CdWork(); | |
3838 | TString workdir = gGrid->GetHomeDirectory(); | |
3839 | workdir += fGridWorkingDir; | |
d3b18c4c | 3840 | Info("WriteAnalysisFile", "\n##### Copying file <%s> containing your initialized analysis manager to your alien workspace", analysisFile.Data()); |
f10e8481 | 3841 | if (FileExists(analysisFile)) gGrid->Rm(analysisFile); |
6c395669 | 3842 | if (!copyLocal2Alien("WriteAnalysisFile",analysisFile.Data(), |
3843 | Form("%s/%s", workdir.Data(),analysisFile.Data()))) Fatal("","Terminating"); | |
c57f56b7 | 3844 | } |
3845 | } | |
3846 | ||
3847 | //______________________________________________________________________________ | |
3848 | void AliAnalysisAlien::WriteAnalysisMacro() | |
3849 | { | |
3850 | // Write the analysis macro that will steer the analysis in grid mode. | |
3851 | if (!TestBit(AliAnalysisGrid::kSubmit)) { | |
3852 | ofstream out; | |
3853 | out.open(fAnalysisMacro.Data(), ios::out); | |
3854 | if (!out.good()) { | |
3855 | Error("WriteAnalysisMacro", "could not open file %s for writing", fAnalysisMacro.Data()); | |
3856 | return; | |
3857 | } | |
5b273635 | 3858 | Bool_t hasSTEERBase = kFALSE; |
3859 | Bool_t hasESD = kFALSE; | |
3860 | Bool_t hasAOD = kFALSE; | |
3861 | Bool_t hasANALYSIS = kFALSE; | |
7ea40ac8 | 3862 | Bool_t hasOADB = kFALSE; |
5b273635 | 3863 | Bool_t hasANALYSISalice = kFALSE; |
3864 | Bool_t hasCORRFW = kFALSE; | |
c57f56b7 | 3865 | TString func = fAnalysisMacro; |
3866 | TString type = "ESD"; | |
3867 | TString comment = "// Analysis using "; | |
c85cfc0f | 3868 | if (IsUseMCchain()) { |
3869 | type = "MC"; | |
3870 | comment += "MC"; | |
3871 | } else { | |
3872 | if (TObject::TestBit(AliAnalysisGrid::kUseESD)) comment += "ESD"; | |
3873 | if (TObject::TestBit(AliAnalysisGrid::kUseAOD)) { | |
3874 | type = "AOD"; | |
3875 | comment += "AOD"; | |
3876 | } | |
3877 | } | |
0df6ccf2 | 3878 | if (type!="AOD" && fFriendChainName!="") { |
3879 | Error("WriteAnalysisMacro", "Friend chain can be attached only to AOD"); | |
3880 | return; | |
3881 | } | |
c57f56b7 | 3882 | if (TObject::TestBit(AliAnalysisGrid::kUseMC)) comment += "/MC"; |
3883 | else comment += " data"; | |
3884 | out << "const char *anatype = \"" << type.Data() << "\";" << endl << endl; | |
3885 | func.ReplaceAll(".C", ""); | |
3886 | out << "void " << func.Data() << "()" << endl; | |
3887 | out << "{" << endl; | |
3888 | out << comment.Data() << endl; | |
3889 | out << "// Automatically generated analysis steering macro executed in grid subjobs" << endl << endl; | |
f7498086 | 3890 | out << " TStopwatch timer;" << endl; |
3891 | out << " timer.Start();" << endl << endl; | |
13f0c00b | 3892 | // Change temp directory to current one |
fdee57f1 | 3893 | if (!IsLocalTest()) { |
3894 | out << "// connect to AliEn and make the chain" << endl; | |
3895 | out << " if (!TGrid::Connect(\"alien://\")) return;" << endl; | |
3896 | } | |
13f0c00b | 3897 | out << "// Set temporary merging directory to current one" << endl; |
3898 | out << " gSystem->Setenv(\"TMPDIR\", gSystem->pwd());" << endl << endl; | |
70c52cf3 | 3899 | out << "// Set temporary compilation directory to current one" << endl; |
3900 | out << " gSystem->SetBuildDir(gSystem->pwd(), kTRUE);" << endl << endl; | |
b3e07543 | 3901 | // Reset existing include path |
3902 | out << "// Reset existing include path and add current directory first in the search" << endl; | |
3903 | out << " gSystem->SetIncludePath(\"-I.\");" << endl; | |
f790bc1b | 3904 | if (!fExecutableCommand.Contains("aliroot")) { |
3905 | out << "// load base root libraries" << endl; | |
3906 | out << " gSystem->Load(\"libTree\");" << endl; | |
3907 | out << " gSystem->Load(\"libGeom\");" << endl; | |
3908 | out << " gSystem->Load(\"libVMC\");" << endl; | |
3909 | out << " gSystem->Load(\"libPhysics\");" << endl << endl; | |
3910 | out << " gSystem->Load(\"libMinuit\");" << endl << endl; | |
3911 | } | |
d5c6455a | 3912 | if (fAdditionalRootLibs.Length()) { |
47a4137d | 3913 | // in principle libtree /lib geom libvmc etc. can go into this list, too |
3914 | out << "// Add aditional libraries" << endl; | |
3915 | TObjArray *list = fAdditionalRootLibs.Tokenize(" "); | |
3916 | TIter next(list); | |
3917 | TObjString *str; | |
3918 | while((str=(TObjString*)next())) { | |
3919 | if (str->GetString().Contains(".so")) | |
3920 | out << " gSystem->Load(\"" << str->GetString().Data() << "\");" << endl; | |
d5c6455a | 3921 | } |
47a4137d | 3922 | if (list) delete list; |
d5c6455a | 3923 | } |
57377eb5 | 3924 | out << "// Load analysis framework libraries" << endl; |
652561d5 | 3925 | TString setupPar = "AliAnalysisAlien::SetupPar"; |
4e5c5506 | 3926 | if (!fPackages) { |
f790bc1b | 3927 | if (!fExecutableCommand.Contains("aliroot")) { |
3928 | out << " gSystem->Load(\"libSTEERBase\");" << endl; | |
3929 | out << " gSystem->Load(\"libESD\");" << endl; | |
3930 | out << " gSystem->Load(\"libAOD\");" << endl; | |
3931 | } | |
4e5c5506 | 3932 | out << " gSystem->Load(\"libANALYSIS\");" << endl; |
7ea40ac8 | 3933 | out << " gSystem->Load(\"libOADB\");" << endl; |
57377eb5 | 3934 | out << " gSystem->Load(\"libANALYSISalice\");" << endl; |
3935 | out << " gSystem->Load(\"libCORRFW\");" << endl << endl; | |
4e5c5506 | 3936 | } else { |
4e5c5506 | 3937 | TIter next(fPackages); |
3938 | TObject *obj; | |
57377eb5 | 3939 | TString pkgname; |
57377eb5 | 3940 | while ((obj=next())) { |
3941 | pkgname = obj->GetName(); | |
4478e6f1 | 3942 | if (pkgname == "STEERBase" || |
3943 | pkgname == "STEERBase.par") hasSTEERBase = kTRUE; | |
3944 | if (pkgname == "ESD" || | |
3945 | pkgname == "ESD.par") hasESD = kTRUE; | |
3946 | if (pkgname == "AOD" || | |
3947 | pkgname == "AOD.par") hasAOD = kTRUE; | |
3948 | if (pkgname == "ANALYSIS" || | |
3949 | pkgname == "ANALYSIS.par") hasANALYSIS = kTRUE; | |
7ea40ac8 | 3950 | if (pkgname == "OADB" || |
3951 | pkgname == "OADB.par") hasOADB = kTRUE; | |
4478e6f1 | 3952 | if (pkgname == "ANALYSISalice" || |
3953 | pkgname == "ANALYSISalice.par") hasANALYSISalice = kTRUE; | |
3954 | if (pkgname == "CORRFW" || | |
3955 | pkgname == "CORRFW.par") hasCORRFW = kTRUE; | |
5b273635 | 3956 | } |
3957 | if (hasANALYSISalice) setupPar = "SetupPar"; | |
57377eb5 | 3958 | if (!hasSTEERBase) out << " gSystem->Load(\"libSTEERBase\");" << endl; |
5b273635 | 3959 | else out << " if (!" << setupPar << "(\"STEERBase\")) return;" << endl; |
57377eb5 | 3960 | if (!hasESD) out << " gSystem->Load(\"libESD\");" << endl; |
5b273635 | 3961 | else out << " if (!" << setupPar << "(\"ESD\")) return;" << endl; |
57377eb5 | 3962 | if (!hasAOD) out << " gSystem->Load(\"libAOD\");" << endl; |
5b273635 | 3963 | else out << " if (!" << setupPar << "(\"AOD\")) return;" << endl; |
57377eb5 | 3964 | if (!hasANALYSIS) out << " gSystem->Load(\"libANALYSIS\");" << endl; |
5b273635 | 3965 | else out << " if (!" << setupPar << "(\"ANALYSIS\")) return;" << endl; |
7ea40ac8 | 3966 | if (!hasOADB) out << " gSystem->Load(\"libOADB\");" << endl; |
3967 | else out << " if (!" << setupPar << "(\"OADB\")) return;" << endl; | |
57377eb5 | 3968 | if (!hasANALYSISalice) out << " gSystem->Load(\"libANALYSISalice\");" << endl; |
5b273635 | 3969 | else out << " if (!" << setupPar << "(\"ANALYSISalice\")) return;" << endl; |
57377eb5 | 3970 | if (!hasCORRFW) out << " gSystem->Load(\"libCORRFW\");" << endl << endl; |
5b273635 | 3971 | else out << " if (!" << setupPar << "(\"CORRFW\")) return;" << endl << endl; |
57377eb5 | 3972 | out << "// Compile other par packages" << endl; |
3973 | next.Reset(); | |
fcc9bb6f | 3974 | while ((obj=next())) { |
3975 | pkgname = obj->GetName(); | |
4478e6f1 | 3976 | if (pkgname == "STEERBase" || |
3977 | pkgname == "STEERBase.par" || | |
3978 | pkgname == "ESD" || | |
3979 | pkgname == "ESD.par" || | |
3980 | pkgname == "AOD" || | |
3981 | pkgname == "AOD.par" || | |
3982 | pkgname == "ANALYSIS" || | |
3983 | pkgname == "ANALYSIS.par" || | |
7ea40ac8 | 3984 | pkgname == "OADB" || |
3985 | pkgname == "OADB.par" || | |
4478e6f1 | 3986 | pkgname == "ANALYSISalice" || |
3987 | pkgname == "ANALYSISalice.par" || | |
3988 | pkgname == "CORRFW" || | |
3989 | pkgname == "CORRFW.par") continue; | |
5b273635 | 3990 | out << " if (!" << setupPar << "(\"" << obj->GetName() << "\")) return;" << endl; |
fcc9bb6f | 3991 | } |
4e5c5506 | 3992 | } |
b3e07543 | 3993 | out << "// include path" << endl; |
3994 | // Get the include path from the interpreter and remove entries pointing to AliRoot | |
3995 | out << " TString intPath = gInterpreter->GetIncludePath();" << endl; | |
3996 | out << " TObjArray *listpaths = intPath.Tokenize(\" \");" << endl; | |
3997 | out << " TIter nextpath(listpaths);" << endl; | |
3998 | out << " TObjString *pname;" << endl; | |
3999 | out << " while ((pname=(TObjString*)nextpath())) {" << endl; | |
4000 | out << " TString current = pname->GetName();" << endl; | |
4001 | out << " if (current.Contains(\"AliRoot\") || current.Contains(\"ALICE_ROOT\")) continue;" << endl; | |
4002 | out << " gSystem->AddIncludePath(current);" << endl; | |
4003 | out << " }" << endl; | |
4004 | out << " if (listpaths) delete listpaths;" << endl; | |
4005 | if (fIncludePath.Length()) out << " gSystem->AddIncludePath(\"" << fIncludePath.Data() << "\");" << endl; | |
4006 | out << " gROOT->ProcessLine(\".include $ALICE_ROOT/include\");" << endl; | |
4007 | out << " printf(\"Include path: %s\\n\", gSystem->GetIncludePath());" << endl << endl; | |
6da75e0b | 4008 | if (fAdditionalLibs.Length()) { |
4009 | out << "// Add aditional AliRoot libraries" << endl; | |
4010 | TObjArray *list = fAdditionalLibs.Tokenize(" "); | |
4011 | TIter next(list); | |
4012 | TObjString *str; | |
4013 | while((str=(TObjString*)next())) { | |
4014 | if (str->GetString().Contains(".so")) | |
4015 | out << " gSystem->Load(\"" << str->GetString().Data() << "\");" << endl; | |
652561d5 | 4016 | if (str->GetString().Contains(".par")) |
4017 | out << " if (!" << setupPar << "(\"" << str->GetString() << "\")) return;" << endl; | |
6da75e0b | 4018 | } |
4019 | if (list) delete list; | |
4020 | } | |
4021 | out << endl; | |
c57f56b7 | 4022 | out << "// analysis source to be compiled at runtime (if any)" << endl; |
4023 | if (fAnalysisSource.Length()) { | |
4024 | TObjArray *list = fAnalysisSource.Tokenize(" "); | |
4025 | TIter next(list); | |
4026 | TObjString *str; | |
4027 | while((str=(TObjString*)next())) { | |
4028 | out << " gROOT->ProcessLine(\".L " << str->GetString().Data() << "+g\");" << endl; | |
4029 | } | |
4030 | if (list) delete list; | |
4031 | } | |
4032 | out << endl; | |
b3e07543 | 4033 | // out << " printf(\"Currently load libraries:\\n\");" << endl; |
4034 | // out << " printf(\"%s\\n\", gSystem->GetLibraries());" << endl; | |
0f389141 | 4035 | if (fFastReadOption) { |
d3339be3 | 4036 | 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 !!! \ |
4037 | \n+++ NOTE: To disable this option, use: plugin->SetFastReadOption(kFALSE)"); | |
0f389141 | 4038 | out << "// fast xrootd reading enabled" << endl; |
4039 | out << " printf(\"!!! You requested FastRead option. Using xrootd flags to reduce timeouts. Note that this may skip some files that could be accessed !!!\");" << endl; | |
b3e07543 | 4040 | out << " gEnv->SetValue(\"XNet.ConnectTimeout\",50);" << endl; |
4041 | out << " gEnv->SetValue(\"XNet.RequestTimeout\",50);" << endl; | |
0f389141 | 4042 | out << " gEnv->SetValue(\"XNet.MaxRedirectCount\",2);" << endl; |
b3e07543 | 4043 | out << " gEnv->SetValue(\"XNet.ReconnectTimeout\",50);" << endl; |
0f389141 | 4044 | out << " gEnv->SetValue(\"XNet.FirstConnectMaxCnt\",1);" << endl << endl; |
21ca8e59 | 4045 | } |
c57f56b7 | 4046 | out << "// read the analysis manager from file" << endl; |
f10e8481 | 4047 | TString analysisFile = fExecutable; |
4048 | analysisFile.ReplaceAll(".sh", ".root"); | |
105631b5 | 4049 | out << " AliAnalysisManager *mgr = AliAnalysisAlien::LoadAnalysisManager(\"" |
4050 | << analysisFile << "\");" << endl; | |
4051 | out << " if (!mgr) return;" << endl; | |
21ca8e59 | 4052 | if (IsLocalTest()) { |
4053 | out << " AliAnalysisAlien *plugin = new AliAnalysisAlien();" << endl; | |
4054 | out << " plugin->SetRunMode(\"test\");" << endl; | |
139fe6ba | 4055 | if (fFileForTestMode.IsNull()) |
4056 | out << " plugin->SetFileForTestMode(\"data.txt\");" << endl; | |
4057 | else | |
4058 | out << " plugin->SetFileForTestMode(\"" << fFileForTestMode << "\");" << endl; | |
922b1fc7 | 4059 | out << " plugin->SetNtestFiles(" << fNtestFiles << ");" << endl; |
4b5d9e21 | 4060 | if (!fFriendChainName.IsNull()) |
4061 | out << " plugin->SetFriendChainName(\"" << fFriendChainName << "\");" << endl; | |
024dfa52 | 4062 | if (IsUseMCchain()) |
4063 | out << " plugin->SetUseMCchain();" << endl; | |
21ca8e59 | 4064 | out << " mgr->SetGridHandler(plugin);" << endl; |
627a5dbe | 4065 | if (AliAnalysisManager::GetAnalysisManager()) { |
7a366e0b | 4066 | out << " mgr->SetDebugLevel(" << AliAnalysisManager::GetAnalysisManager()->GetDebugLevel() << ");" << endl; |
627a5dbe | 4067 | out << " mgr->SetNSysInfo(" << AliAnalysisManager::GetAnalysisManager()->GetNsysInfo() << ");" << endl; |
4068 | } else { | |
7a366e0b | 4069 | out << " mgr->SetDebugLevel(10);" << endl; |
627a5dbe | 4070 | out << " mgr->SetNSysInfo(100);" << endl; |
4071 | } | |
21ca8e59 | 4072 | } |
c57f56b7 | 4073 | out << " mgr->PrintStatus();" << endl; |
52b6a92b | 4074 | if (AliAnalysisManager::GetAnalysisManager()) { |
f866cba5 | 4075 | if (AliAnalysisManager::GetAnalysisManager()->GetDebugLevel()>3) { |
52b6a92b | 4076 | out << " gEnv->SetValue(\"XNet.Debug\", \"1\");" << endl; |
de52b69c | 4077 | } else { |
9a8288ff | 4078 | if (TestBit(AliAnalysisGrid::kTest)) |
4079 | out << " AliLog::SetGlobalLogLevel(AliLog::kWarning);" << endl; | |
4080 | else | |
4081 | out << " AliLog::SetGlobalLogLevel(AliLog::kError);" << endl; | |
52b6a92b | 4082 | } |
4083 | } | |
21ca8e59 | 4084 | if (!IsLocalTest()) { |
242accb2 | 4085 | out << " TChain *chain = CreateChain(\"wn.xml\", anatype);" << endl << endl; |
21ca8e59 | 4086 | out << " mgr->StartAnalysis(\"localfile\", chain);" << endl; |
4087 | } else { | |
4088 | out << " mgr->StartAnalysis(\"localfile\");" << endl; | |
242accb2 | 4089 | } |
f7498086 | 4090 | out << " timer.Stop();" << endl; |
4091 | out << " timer.Print();" << endl; | |
c57f56b7 | 4092 | out << "}" << endl << endl; |
21ca8e59 | 4093 | if (!IsLocalTest()) { |
fcc9bb6f | 4094 | out <<"//________________________________________________________________________________" << endl; |
c57f56b7 | 4095 | out << "TChain* CreateChain(const char *xmlfile, const char *type=\"ESD\")" << endl; |
4096 | out << "{" << endl; | |
4097 | out << "// Create a chain using url's from xml file" << endl; | |
242accb2 | 4098 | out << " TString filename;" << endl; |
4099 | out << " Int_t run = 0;" << endl; | |
c85cfc0f | 4100 | if (IsUseMCchain()) { |
4101 | out << " TString treename = \"TE\";" << endl; | |
4102 | } else { | |
4103 | out << " TString treename = type;" << endl; | |
4104 | out << " treename.ToLower();" << endl; | |
4105 | out << " treename += \"Tree\";" << endl; | |
4106 | } | |
e02fee64 | 4107 | out << " printf(\"***************************************\\n\");" << endl; |
4108 | out << " printf(\" Getting chain of trees %s\\n\", treename.Data());" << endl; | |
4109 | out << " printf(\"***************************************\\n\");" << endl; | |
c57f56b7 | 4110 | out << " TAlienCollection *coll = TAlienCollection::Open(xmlfile);" << endl; |
4111 | out << " if (!coll) {" << endl; | |
4112 | out << " ::Error(\"CreateChain\", \"Cannot create an AliEn collection from %s\", xmlfile);" << endl; | |
4113 | out << " return NULL;" << endl; | |
4114 | out << " }" << endl; | |
242accb2 | 4115 | out << " AliAnalysisManager *mgr = AliAnalysisManager::GetAnalysisManager();" << endl; |
c57f56b7 | 4116 | out << " TChain *chain = new TChain(treename);" << endl; |
0df6ccf2 | 4117 | if(fFriendChainName!="") { |
4118 | out << " TChain *chainFriend = new TChain(treename);" << endl; | |
4119 | } | |
c57f56b7 | 4120 | out << " coll->Reset();" << endl; |
0df6ccf2 | 4121 | out << " while (coll->Next()) {" << endl; |
242accb2 | 4122 | out << " filename = coll->GetTURL("");" << endl; |
4123 | out << " if (mgr) {" << endl; | |
4124 | out << " Int_t nrun = AliAnalysisManager::GetRunFromAlienPath(filename);" << endl; | |
4125 | out << " if (nrun && nrun != run) {" << endl; | |
4126 | out << " printf(\"### Run number detected from chain: %d\\n\", nrun);" << endl; | |
4127 | out << " mgr->SetRunFromPath(nrun);" << endl; | |
4128 | out << " run = nrun;" << endl; | |
4129 | out << " }" << endl; | |
4130 | out << " }" << endl; | |
4131 | out << " chain->Add(filename);" << endl; | |
0df6ccf2 | 4132 | if(fFriendChainName!="") { |
4133 | out << " TString fileFriend=coll->GetTURL(\"\");" << endl; | |
4b5d9e21 | 4134 | out << " if (fileFriend.Index(\"#\") > -1) fileFriend.Remove(fileFriend.Index(\"#\"));" << endl; |
4135 | out << " fileFriend = gSystem->DirName(fileFriend);" << endl; | |
4136 | out << " fileFriend += \"/\";" << endl; | |
4137 | out << " fileFriend += \"" << fFriendChainName << "\";"; | |
4138 | out << " TFile *file = TFile::Open(fileFriend);" << endl; | |
4139 | out << " if (file) {" << endl; | |
4140 | out << " file->Close();" << endl; | |
4141 | out << " chainFriend->Add(fileFriend.Data());" << endl; | |
4142 | out << " } else {" << endl; | |
4143 | out << " ::Fatal(\"CreateChain\", \"Cannot open friend file: %s\", fileFriend.Data());" << endl; | |
4144 | out << " return 0;" << endl; | |
4145 | out << " }" << endl; | |
0df6ccf2 | 4146 | } |
4147 | out << " }" << endl; | |
c57f56b7 | 4148 | out << " if (!chain->GetNtrees()) {" << endl; |
4149 | out << " ::Error(\"CreateChain\", \"No tree found from collection %s\", xmlfile);" << endl; | |
4150 | out << " return NULL;" << endl; | |
4151 | out << " }" << endl; | |
0df6ccf2 | 4152 | if(fFriendChainName!="") { |
4153 | out << " chain->AddFriend(chainFriend);" << endl; | |
4154 | } | |
c57f56b7 | 4155 | out << " return chain;" << endl; |
fcc9bb6f | 4156 | out << "}" << endl << endl; |
c57f56b7 | 4157 | } |
5b273635 | 4158 | if (hasANALYSISalice) { |
4159 | out <<"//________________________________________________________________________________" << endl; | |
4160 | out << "Bool_t SetupPar(const char *package) {" << endl; | |
4161 | out << "// Compile the package and set it up." << endl; | |
4162 | out << " TString pkgdir = package;" << endl; | |
4163 | out << " pkgdir.ReplaceAll(\".par\",\"\");" << endl; | |
b50a41c3 | 4164 | out << " gSystem->Exec(TString::Format(\"tar xvzf %s.par\", pkgdir.Data()));" << endl; |
5b273635 | 4165 | out << " TString cdir = gSystem->WorkingDirectory();" << endl; |
4166 | out << " gSystem->ChangeDirectory(pkgdir);" << endl; | |
4167 | out << " // Check for BUILD.sh and execute" << endl; | |
4168 | out << " if (!gSystem->AccessPathName(\"PROOF-INF/BUILD.sh\")) {" << endl; | |
4169 | out << " printf(\"*******************************\\n\");" << endl; | |
4170 | out << " printf(\"*** Building PAR archive ***\\n\");" << endl; | |
4171 | out << " printf(\"*******************************\\n\");" << endl; | |
4172 | out << " if (gSystem->Exec(\"PROOF-INF/BUILD.sh\")) {" << endl; | |
4173 | out << " ::Error(\"SetupPar\", \"Cannot build par archive %s\", pkgdir.Data());" << endl; | |
4174 | out << " gSystem->ChangeDirectory(cdir);" << endl; | |
4175 | out << " return kFALSE;" << endl; | |
4176 | out << " }" << endl; | |
4177 | out << " } else {" << endl; | |
4178 | out << " ::Error(\"SetupPar\",\"Cannot access PROOF-INF/BUILD.sh for package %s\", pkgdir.Data());" << endl; | |
4179 | out << " gSystem->ChangeDirectory(cdir);" << endl; | |
4180 | out << " return kFALSE;" << endl; | |
4181 | out << " }" << endl; | |
4182 | out << " // Check for SETUP.C and execute" << endl; | |
4183 | out << " if (!gSystem->AccessPathName(\"PROOF-INF/SETUP.C\")) {" << endl; | |
4184 | out << " printf(\"*******************************\\n\");" << endl; | |
4185 | out << " printf(\"*** Setup PAR archive ***\\n\");" << endl; | |
4186 | out << " printf(\"*******************************\\n\");" << endl; | |
4187 | out << " gROOT->Macro(\"PROOF-INF/SETUP.C\");" << endl; | |
4188 | out << " } else {" << endl; | |
4189 | out << " ::Error(\"SetupPar\",\"Cannot access PROOF-INF/SETUP.C for package %s\", pkgdir.Data());" << endl; | |
4190 | out << " gSystem->ChangeDirectory(cdir);" << endl; | |
4191 | out << " return kFALSE;" << endl; | |
4192 | out << " }" << endl; | |
4193 | out << " // Restore original workdir" << endl; | |
4194 | out << " gSystem->ChangeDirectory(cdir);" << endl; | |
4195 | out << " return kTRUE;" << endl; | |
4196 | out << "}" << endl; | |
4197 | } | |
c57f56b7 | 4198 | Info("WriteAnalysisMacro", "\n##### Analysis macro to run on worker nodes <%s> written",fAnalysisMacro.Data()); |
4199 | } | |
4200 | Bool_t copy = kTRUE; | |
d3b18c4c | 4201 | if (fProductionMode || TestBit(AliAnalysisGrid::kOffline) || TestBit(AliAnalysisGrid::kTest)) copy = kFALSE; |
c57f56b7 | 4202 | if (copy) { |
4203 | CdWork(); | |
4204 | TString workdir = gGrid->GetHomeDirectory(); | |
4205 | workdir += fGridWorkingDir; | |
4206 | if (FileExists(fAnalysisMacro)) gGrid->Rm(fAnalysisMacro); | |
c57f56b7 | 4207 | Info("WriteAnalysisMacro", "\n##### Copying analysis macro: <%s> to your alien workspace", fAnalysisMacro.Data()); |
6c395669 | 4208 | // TFile::Cp(Form("file:%s",fAnalysisMacro.Data()), Form("alien://%s/%s", workdir.Data(), fAnalysisMacro.Data())); |
4209 | if (!copyLocal2Alien("WriteAnalysisMacro",fAnalysisMacro.Data(), | |
4210 | Form("alien://%s/%s", workdir.Data(), | |
4211 | fAnalysisMacro.Data()))) Fatal("","Terminating"); | |
c57f56b7 | 4212 | } |
4213 | } | |
4214 | ||
0f389141 | 4215 | //______________________________________________________________________________ |
4216 | void AliAnalysisAlien::WriteMergingMacro() | |
4217 | { | |
4218 | // Write a macro to merge the outputs per master job. | |
4219 | if (!fMergeViaJDL) return; | |
4220 | if (!fOutputFiles.Length()) { | |
4221 | Error("WriteMergingMacro", "No output file names defined. Are you running the right AliAnalysisAlien configuration ?"); | |
4222 | return; | |
4223 | } | |
ec5acdce | 4224 | AliAnalysisManager *mgr = AliAnalysisManager::GetAnalysisManager(); |
0f389141 | 4225 | TString mergingMacro = fExecutable; |
4226 | mergingMacro.ReplaceAll(".sh","_merge.C"); | |
139fe6ba | 4227 | if (gGrid && !fGridOutputDir.Contains("/")) fGridOutputDir = Form("%s/%s/%s", gGrid->GetHomeDirectory(), fGridWorkingDir.Data(), fGridOutputDir.Data()); |
0f389141 | 4228 | if (!TestBit(AliAnalysisGrid::kSubmit)) { |
4229 | ofstream out; | |
4230 | out.open(mergingMacro.Data(), ios::out); | |
4231 | if (!out.good()) { | |
4232 | Error("WriteMergingMacro", "could not open file %s for writing", fAnalysisMacro.Data()); | |
4233 | return; | |
4234 | } | |
5b273635 | 4235 | Bool_t hasSTEERBase = kFALSE; |
4236 | Bool_t hasESD = kFALSE; | |
4237 | Bool_t hasAOD = kFALSE; | |
4238 | Bool_t hasANALYSIS = kFALSE; | |
7ea40ac8 | 4239 | Bool_t hasOADB = kFALSE; |
5b273635 | 4240 | Bool_t hasANALYSISalice = kFALSE; |
4241 | Bool_t hasCORRFW = kFALSE; | |
0f389141 | 4242 | TString func = mergingMacro; |
4243 | TString comment; | |
4244 | func.ReplaceAll(".C", ""); | |
f47d5cb4 | 4245 | out << "void " << func.Data() << "(const char *dir, Int_t stage=0)" << endl; |
0f389141 | 4246 | out << "{" << endl; |
4247 | out << "// Automatically generated merging macro executed in grid subjobs" << endl << endl; | |
4248 | out << " TStopwatch timer;" << endl; | |
4249 | out << " timer.Start();" << endl << endl; | |
b3e07543 | 4250 | // Reset existing include path |
4251 | out << "// Reset existing include path and add current directory first in the search" << endl; | |
4252 | out << " gSystem->SetIncludePath(\"-I.\");" << endl; | |
7c2cd90a | 4253 | if (!fExecutableCommand.Contains("aliroot")) { |
4254 | out << "// load base root libraries" << endl; | |
4255 | out << " gSystem->Load(\"libTree\");" << endl; | |
4256 | out << " gSystem->Load(\"libGeom\");" << endl; | |
4257 | out << " gSystem->Load(\"libVMC\");" << endl; | |
4258 | out << " gSystem->Load(\"libPhysics\");" << endl << endl; | |
4259 | out << " gSystem->Load(\"libMinuit\");" << endl << endl; | |
4260 | } | |
0f389141 | 4261 | if (fAdditionalRootLibs.Length()) { |
4262 | // in principle libtree /lib geom libvmc etc. can go into this list, too | |
4263 | out << "// Add aditional libraries" << endl; | |
4264 | TObjArray *list = fAdditionalRootLibs.Tokenize(" "); | |
4265 | TIter next(list); | |
4266 | TObjString *str; | |
4267 | while((str=(TObjString*)next())) { | |
4268 | if (str->GetString().Contains(".so")) | |
4269 | out << " gSystem->Load(\"" << str->GetString().Data() << "\");" << endl; | |
4270 | } | |
4271 | if (list) delete list; | |
4272 | } | |
0f389141 | 4273 | out << "// Load analysis framework libraries" << endl; |
4274 | if (!fPackages) { | |
7c2cd90a | 4275 | if (!fExecutableCommand.Contains("aliroot")) { |
4276 | out << " gSystem->Load(\"libSTEERBase\");" << endl; | |
4277 | out << " gSystem->Load(\"libESD\");" << endl; | |
4278 | out << " gSystem->Load(\"libAOD\");" << endl; | |
4279 | } | |
0f389141 | 4280 | out << " gSystem->Load(\"libANALYSIS\");" << endl; |
7ea40ac8 | 4281 | out << " gSystem->Load(\"libOADB\");" << endl; |
0f389141 | 4282 | out << " gSystem->Load(\"libANALYSISalice\");" << endl; |
4283 | out << " gSystem->Load(\"libCORRFW\");" << endl << endl; | |
4284 | } else { | |
4285 | TIter next(fPackages); | |
4286 | TObject *obj; | |
4287 | TString pkgname; | |
5b273635 | 4288 | TString setupPar = "AliAnalysisAlien::SetupPar"; |
0f389141 | 4289 | while ((obj=next())) { |
4290 | pkgname = obj->GetName(); | |
4291 | if (pkgname == "STEERBase" || | |
4292 | pkgname == "STEERBase.par") hasSTEERBase = kTRUE; | |
4293 | if (pkgname == "ESD" || | |
4294 | pkgname == "ESD.par") hasESD = kTRUE; | |
4295 | if (pkgname == "AOD" || | |
4296 | pkgname == "AOD.par") hasAOD = kTRUE; | |
4297 | if (pkgname == "ANALYSIS" || | |
4298 | pkgname == "ANALYSIS.par") hasANALYSIS = kTRUE; | |
7ea40ac8 | 4299 | if (pkgname == "OADB" || |
4300 | pkgname == "OADB.par") hasOADB = kTRUE; | |
0f389141 | 4301 | if (pkgname == "ANALYSISalice" || |
4302 | pkgname == "ANALYSISalice.par") hasANALYSISalice = kTRUE; | |
4303 | if (pkgname == "CORRFW" || | |
4304 | pkgname == "CORRFW.par") hasCORRFW = kTRUE; | |
4305 | } | |
5b273635 | 4306 | if (hasANALYSISalice) setupPar = "SetupPar"; |
0f389141 | 4307 | if (!hasSTEERBase) out << " gSystem->Load(\"libSTEERBase\");" << endl; |
5b273635 | 4308 | else out << " if (!" << setupPar << "(\"STEERBase\")) return;" << endl; |
0f389141 | 4309 | if (!hasESD) out << " gSystem->Load(\"libESD\");" << endl; |
5b273635 | 4310 | else out << " if (!" << setupPar << "(\"ESD\")) return;" << endl; |
0f389141 | 4311 | if (!hasAOD) out << " gSystem->Load(\"libAOD\");" << endl; |
5b273635 | 4312 | else out << " if (!" << setupPar << "(\"AOD\")) return;" << endl; |
0bc15bcd | 4313 | out << " gSystem->Load(\"libOADB\");" << endl; |
0f389141 | 4314 | if (!hasANALYSIS) out << " gSystem->Load(\"libANALYSIS\");" << endl; |
5b273635 | 4315 | else out << " if (!" << setupPar << "(\"ANALYSIS\")) return;" << endl; |
7ea40ac8 | 4316 | if (!hasOADB) out << " gSystem->Load(\"libOADB\");" << endl; |
4317 | else out << " if (!" << setupPar << "(\"OADB\")) return;" << endl; | |
0f389141 | 4318 | if (!hasANALYSISalice) out << " gSystem->Load(\"libANALYSISalice\");" << endl; |
5b273635 | 4319 | else out << " if (!" << setupPar << "(\"ANALYSISalice\")) return;" << endl; |
0f389141 | 4320 | if (!hasCORRFW) out << " gSystem->Load(\"libCORRFW\");" << endl << endl; |
5b273635 | 4321 | else out << " if (!" << setupPar << "(\"CORRFW\")) return;" << endl << endl; |
0f389141 | 4322 | out << "// Compile other par packages" << endl; |
4323 | next.Reset(); | |
4324 | while ((obj=next())) { | |
4325 | pkgname = obj->GetName(); | |
4326 | if (pkgname == "STEERBase" || | |
4327 | pkgname == "STEERBase.par" || | |
4328 | pkgname == "ESD" || | |
4329 | pkgname == "ESD.par" || | |
4330 | pkgname == "AOD" || | |
4331 | pkgname == "AOD.par" || | |
4332 | pkgname == "ANALYSIS" || | |
4333 | pkgname == "ANALYSIS.par" || | |
7ea40ac8 | 4334 | pkgname == "OADB" || |
4335 | pkgname == "OADB.par" || | |
0f389141 | 4336 | pkgname == "ANALYSISalice" || |
4337 | pkgname == "ANALYSISalice.par" || | |
4338 | pkgname == "CORRFW" || | |
4339 | pkgname == "CORRFW.par") continue; | |
5b273635 | 4340 | out << " if (!" << setupPar << "(\"" << obj->GetName() << "\")) return;" << endl; |
0f389141 | 4341 | } |
4342 | } | |
b3e07543 | 4343 | out << "// include path" << endl; |
4344 | // Get the include path from the interpreter and remove entries pointing to AliRoot | |
4345 | out << " TString intPath = gInterpreter->GetIncludePath();" << endl; | |
4346 | out << " TObjArray *listpaths = intPath.Tokenize(\" \");" << endl; | |
4347 | out << " TIter nextpath(listpaths);" << endl; | |
4348 | out << " TObjString *pname;" << endl; | |
4349 | out << " while ((pname=(TObjString*)nextpath())) {" << endl; | |
4350 | out << " TString current = pname->GetName();" << endl; | |
4351 | out << " if (current.Contains(\"AliRoot\") || current.Contains(\"ALICE_ROOT\")) continue;" << endl; | |
4352 | out << " gSystem->AddIncludePath(current);" << endl; | |
4353 | out << " }" << endl; | |
4354 | out << " if (listpaths) delete listpaths;" << endl; | |
4355 | if (fIncludePath.Length()) out << " gSystem->AddIncludePath(\"" << fIncludePath.Data() << "\");" << endl; | |
4356 | out << " gROOT->ProcessLine(\".include $ALICE_ROOT/include\");" << endl; | |
4357 | out << " printf(\"Include path: %s\\n\", gSystem->GetIncludePath());" << endl << endl; | |
0f389141 | 4358 | if (fAdditionalLibs.Length()) { |
4359 | out << "// Add aditional AliRoot libraries" << endl; | |
4360 | TObjArray *list = fAdditionalLibs.Tokenize(" "); | |
4361 | TIter next(list); | |
4362 | TObjString *str; | |
4363 | while((str=(TObjString*)next())) { | |
4364 | if (str->GetString().Contains(".so")) | |
4365 | out << " gSystem->Load(\"" << str->GetString().Data() << "\");" << endl; | |
4366 | } | |
4367 | if (list) delete list; | |
4368 | } | |
4369 | out << endl; | |
4370 | out << "// Analysis source to be compiled at runtime (if any)" << endl; | |
4371 | if (fAnalysisSource.Length()) { | |
4372 | TObjArray *list = fAnalysisSource.Tokenize(" "); | |
4373 | TIter next(list); | |
4374 | TObjString *str; | |
4375 | while((str=(TObjString*)next())) { | |
4376 | out << " gROOT->ProcessLine(\".L " << str->GetString().Data() << "+g\");" << endl; | |
4377 | } | |
4378 | if (list) delete list; | |
4379 | } | |
149d288c | 4380 | out << endl; |
4381 | ||
0f389141 | 4382 | if (fFastReadOption) { |
4383 | 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 !!!"); | |
4384 | out << "// fast xrootd reading enabled" << endl; | |
4385 | out << " printf(\"!!! You requested FastRead option. Using xrootd flags to reduce timeouts. Note that this may skip some files that could be accessed !!!\");" << endl; | |
b3e07543 | 4386 | out << " gEnv->SetValue(\"XNet.ConnectTimeout\",50);" << endl; |
4387 | out << " gEnv->SetValue(\"XNet.RequestTimeout\",50);" << endl; | |
0f389141 | 4388 | out << " gEnv->SetValue(\"XNet.MaxRedirectCount\",2);" << endl; |
b3e07543 | 4389 | out << " gEnv->SetValue(\"XNet.ReconnectTimeout\",50);" << endl; |
0f389141 | 4390 | out << " gEnv->SetValue(\"XNet.FirstConnectMaxCnt\",1);" << endl << endl; |
e8b839ab | 4391 | } |
4392 | // Change temp directory to current one | |
fdee57f1 | 4393 | out << "// Connect to AliEn" << endl; |
4394 | out << " if (!TGrid::Connect(\"alien://\")) return;" << endl; | |
e8b839ab | 4395 | out << "// Set temporary merging directory to current one" << endl; |
4396 | out << " gSystem->Setenv(\"TMPDIR\", gSystem->pwd());" << endl << endl; | |
70c52cf3 | 4397 | out << "// Set temporary compilation directory to current one" << endl; |
4398 | out << " gSystem->SetBuildDir(gSystem->pwd(), kTRUE);" << endl << endl; | |
7c2cd90a | 4399 | out << " TString outputDir = dir;" << endl; |
f790bc1b | 4400 | out << " TString outputFiles = \"" << GetListOfFiles("out") << "\";" << endl; |
37d21c01 | 4401 | out << " TString mergeExcludes = \"" << fMergeExcludes << " " << fRegisterExcludes << "\";" << endl; |
58268c13 | 4402 | out << " TObjArray *list = outputFiles.Tokenize(\",\");" << endl; |
0f389141 | 4403 | out << " TIter *iter = new TIter(list);" << endl; |
4404 | out << " TObjString *str;" << endl; | |
a2f5fc01 | 4405 | out << " TString outputFile;" << endl; |
0f389141 | 4406 | out << " Bool_t merged = kTRUE;" << endl; |
ec5acdce | 4407 | TString analysisFile = fExecutable; |
4408 | analysisFile.ReplaceAll(".sh", ".root"); | |
4409 | out << " AliAnalysisManager *mgr = AliAnalysisAlien::LoadAnalysisManager(\"" | |
4410 | << analysisFile << "\");" << endl; | |
4411 | out << " if (!mgr) {" << endl; | |
4412 | out << " printf(\"ERROR: Analysis manager could not be extracted from file \");" << endl; | |
4413 | out << " return;" << endl; | |
4414 | out << " }" << endl; | |
d66aa2a9 | 4415 | if (IsLocalTest()) { |
4416 | out << " printf(\"===================================\n\");" << endl; | |
4417 | out << " printf(\"Testing merging...\\n\");" << endl; | |
4418 | out << " printf(\"===================================\n\");" << endl; | |
4419 | } | |
0f389141 | 4420 | out << " while((str=(TObjString*)iter->Next())) {" << endl; |
a2f5fc01 | 4421 | out << " outputFile = str->GetString();" << endl; |
7c2cd90a | 4422 | out << " if (outputFile.Contains(\"*\")) continue;" << endl; |
a2f5fc01 | 4423 | out << " Int_t index = outputFile.Index(\"@\");" << endl; |
4424 | out << " if (index > 0) outputFile.Remove(index);" << endl; | |
0f389141 | 4425 | out << " // Skip already merged outputs" << endl; |
a2f5fc01 | 4426 | out << " if (!gSystem->AccessPathName(outputFile)) {" << endl; |
d66aa2a9 | 4427 | out << " printf(\"Output file <%s> found. Not merging again.\\n\",outputFile.Data());" << endl; |
0f389141 | 4428 | out << " continue;" << endl; |
4429 | out << " }" << endl; | |
a2f5fc01 | 4430 | out << " if (mergeExcludes.Contains(outputFile.Data())) continue;" << endl; |
b3e07543 | 4431 | out << " merged = AliAnalysisAlien::MergeOutput(outputFile, outputDir, " << fMaxMergeFiles << ", stage);" << endl; |
0f389141 | 4432 | out << " if (!merged) {" << endl; |
a2f5fc01 | 4433 | out << " printf(\"ERROR: Cannot merge %s\\n\", outputFile.Data());" << endl; |
7c2cd90a | 4434 | out << " return;" << endl; |
0f389141 | 4435 | out << " }" << endl; |
4436 | out << " }" << endl; | |
d66aa2a9 | 4437 | if (mgr && mgr->IsCollectThroughput() && !IsLocalTest()) { |
ec5acdce | 4438 | out << " TString infolog = \"" << mgr->GetFileInfoLog() << "\";" << endl; |
4439 | out << " AliAnalysisAlien::MergeInfo(infolog, outputDir);" << endl; | |
4440 | } | |
7c2cd90a | 4441 | out << " // all outputs merged, validate" << endl; |
4442 | out << " ofstream out;" << endl; | |
4443 | out << " out.open(\"outputs_valid\", ios::out);" << endl; | |
4444 | out << " out.close();" << endl; | |
4445 | out << " // read the analysis manager from file" << endl; | |
d66aa2a9 | 4446 | if (IsLocalTest()) { |
4447 | out << " printf(\"===================================\n\");" << endl; | |
4448 | out << " printf(\"Testing Terminate()...\\n\");" << endl; | |
4449 | out << " printf(\"===================================\n\");" << endl; | |
4450 | } else { | |
4451 | out << " if (!outputDir.Contains(\"Stage\")) return;" << endl; | |
4452 | } | |
5c4250fc | 4453 | out << " mgr->SetRunFromPath(mgr->GetRunFromAlienPath(dir));" << endl; |
b385fec0 | 4454 | out << " mgr->SetSkipTerminate(kFALSE);" << endl; |
f866cba5 | 4455 | out << " mgr->PrintStatus();" << endl; |
ec5acdce | 4456 | if (mgr) { |
4457 | if (mgr->GetDebugLevel()>3) { | |
f866cba5 | 4458 | out << " gEnv->SetValue(\"XNet.Debug\", \"1\");" << endl; |
4459 | } else { | |
9a8288ff | 4460 | if (TestBit(AliAnalysisGrid::kTest)) |
4461 | out << " AliLog::SetGlobalLogLevel(AliLog::kWarning);" << endl; | |
4462 | else | |
4463 | out << " AliLog::SetGlobalLogLevel(AliLog::kError);" << endl; | |
f866cba5 | 4464 | } |
4465 | } | |
9a8288ff | 4466 | out << " TTree *tree = NULL;" << endl; |
4467 | out << " mgr->StartAnalysis(\"gridterminate\", tree);" << endl; | |
0f389141 | 4468 | out << "}" << endl << endl; |
5b273635 | 4469 | if (hasANALYSISalice) { |
4470 | out <<"//________________________________________________________________________________" << endl; | |
4471 | out << "Bool_t SetupPar(const char *package) {" << endl; | |
4472 | out << "// Compile the package and set it up." << endl; | |
4473 | out << " TString pkgdir = package;" << endl; | |
4474 | out << " pkgdir.ReplaceAll(\".par\",\"\");" << endl; | |
b50a41c3 | 4475 | out << " gSystem->Exec(TString::Format(\"tar xvzf %s.par\", pkgdir.Data()));" << endl; |
5b273635 | 4476 | out << " TString cdir = gSystem->WorkingDirectory();" << endl; |
4477 | out << " gSystem->ChangeDirectory(pkgdir);" << endl; | |
4478 | out << " // Check for BUILD.sh and execute" << endl; | |
4479 | out << " if (!gSystem->AccessPathName(\"PROOF-INF/BUILD.sh\")) {" << endl; | |
4480 | out << " printf(\"*******************************\\n\");" << endl; | |
4481 | out << " printf(\"*** Building PAR archive ***\\n\");" << endl; | |
4482 | out << " printf(\"*******************************\\n\");" << endl; | |
4483 | out << " if (gSystem->Exec(\"PROOF-INF/BUILD.sh\")) {" << endl; | |
4484 | out << " ::Error(\"SetupPar\", \"Cannot build par archive %s\", pkgdir.Data());" << endl; | |
4485 | out << " gSystem->ChangeDirectory(cdir);" << endl; | |
4486 | out << " return kFALSE;" << endl; | |
4487 | out << " }" << endl; | |
4488 | out << " } else {" << endl; | |
4489 | out << " ::Error(\"SetupPar\",\"Cannot access PROOF-INF/BUILD.sh for package %s\", pkgdir.Data());" << endl; | |
4490 | out << " gSystem->ChangeDirectory(cdir);" << endl; | |
4491 | out << " return kFALSE;" << endl; | |
4492 | out << " }" << endl; | |
4493 | out << " // Check for SETUP.C and execute" << endl; | |
4494 | out << " if (!gSystem->AccessPathName(\"PROOF-INF/SETUP.C\")) {" << endl; | |
4495 | out << " printf(\"*******************************\\n\");" << endl; | |
4496 | out << " printf(\"*** Setup PAR archive ***\\n\");" << endl; | |
4497 | out << " printf(\"*******************************\\n\");" << endl; | |
4498 | out << " gROOT->Macro(\"PROOF-INF/SETUP.C\");" << endl; | |
4499 | out << " } else {" << endl; | |
4500 | out << " ::Error(\"SetupPar\",\"Cannot access PROOF-INF/SETUP.C for package %s\", pkgdir.Data());" << endl; | |
4501 | out << " gSystem->ChangeDirectory(cdir);" << endl; | |
4502 | out << " return kFALSE;" << endl; | |
4503 | out << " }" << endl; | |
4504 | out << " // Restore original workdir" << endl; | |
4505 | out << " gSystem->ChangeDirectory(cdir);" << endl; | |
4506 | out << " return kTRUE;" << endl; | |
4507 | out << "}" << endl; | |
4508 | } | |
0f389141 | 4509 | } |
4510 | Bool_t copy = kTRUE; | |
d3b18c4c | 4511 | if (fProductionMode || TestBit(AliAnalysisGrid::kOffline) || TestBit(AliAnalysisGrid::kTest)) copy = kFALSE; |
0f389141 | 4512 | if (copy) { |
4513 | CdWork(); | |
4514 | TString workdir = gGrid->GetHomeDirectory(); | |
4515 | workdir += fGridWorkingDir; | |
4516 | if (FileExists(mergingMacro)) gGrid->Rm(mergingMacro); | |
4517 | Info("WriteMergingMacro", "\n##### Copying merging macro: <%s> to your alien workspace", mergingMacro.Data()); | |
6c395669 | 4518 | // TFile::Cp(Form("file:%s",mergingMacro.Data()), Form("alien://%s/%s", workdir.Data(), mergingMacro.Data())); |
4519 | if (!copyLocal2Alien("WriteMergeMacro",mergingMacro.Data(), | |
4520 | Form("%s/%s", workdir.Data(), mergingMacro.Data()))) Fatal("","Terminating"); | |
0f389141 | 4521 | } |
4522 | } | |
4523 | ||
4524 | //______________________________________________________________________________ | |
4525 | Bool_t AliAnalysisAlien::SetupPar(const char *package) | |
4526 | { | |
205b201f | 4527 | // Compile the par file archive pointed by <package>. This must be present in the current directory. |
0f389141 | 4528 | // Note that for loading the compiled library. The current directory should have precedence in |
4529 | // LD_LIBRARY_PATH | |
4530 | TString pkgdir = package; | |
4531 | pkgdir.ReplaceAll(".par",""); | |
b50a41c3 | 4532 | gSystem->Exec(TString::Format("tar xzf %s.par", pkgdir.Data())); |
0f389141 | 4533 | TString cdir = gSystem->WorkingDirectory(); |
4534 | gSystem->ChangeDirectory(pkgdir); | |
4535 | // Check for BUILD.sh and execute | |
4536 | if (!gSystem->AccessPathName("PROOF-INF/BUILD.sh")) { | |
4537 | printf("**************************************************\n"); | |
4538 | printf("*** Building PAR archive %s\n", package); | |
4539 | printf("**************************************************\n"); | |
4540 | if (gSystem->Exec("PROOF-INF/BUILD.sh")) { | |
4541 | ::Error("SetupPar", "Cannot build par archive %s", pkgdir.Data()); | |
4542 | gSystem->ChangeDirectory(cdir); | |
4543 | return kFALSE; | |
4544 | } | |
4545 | } else { | |
4546 | ::Error("SetupPar","Cannot access PROOF-INF/BUILD.sh for package %s", pkgdir.Data()); | |
4547 | gSystem->ChangeDirectory(cdir); | |
4548 | return kFALSE; | |
4549 | } | |
4550 | // Check for SETUP.C and execute | |
4551 | if (!gSystem->AccessPathName("PROOF-INF/SETUP.C")) { | |
4552 | printf("**************************************************\n"); | |
4553 | printf("*** Setup PAR archive %s\n", package); | |
4554 | printf("**************************************************\n"); | |
4555 | gROOT->Macro("PROOF-INF/SETUP.C"); | |
4556 | printf("*** Loaded library: %s\n", gSystem->GetLibraries(pkgdir,"",kFALSE)); | |
4557 | } else { | |
4558 | ::Error("SetupPar","Cannot access PROOF-INF/SETUP.C for package %s", pkgdir.Data()); | |
4559 | gSystem->ChangeDirectory(cdir); | |
4560 | return kFALSE; | |
4561 | } | |
4562 | // Restore original workdir | |
4563 | gSystem->ChangeDirectory(cdir); | |
4564 | return kTRUE; | |
4565 | } | |
4566 | ||
c57f56b7 | 4567 | //______________________________________________________________________________ |
4568 | void AliAnalysisAlien::WriteExecutable() | |
4569 | { | |
4570 | // Generate the alien executable script. | |
5aa94dc3 | 4571 | // Patch executable with -x to catch error code |
4572 | if (fExecutableCommand.Contains("root") && | |
4573 | fExecutableCommand.Contains("-q") && | |
4574 | !fExecutableCommand.Contains("-x")) fExecutableCommand += " -x"; | |
c57f56b7 | 4575 | if (!TestBit(AliAnalysisGrid::kSubmit)) { |
4576 | ofstream out; | |
4577 | out.open(fExecutable.Data(), ios::out); | |
4578 | if (out.bad()) { | |
5513444a | 4579 | Error("WriteExecutable", "Bad file name for executable: %s", fExecutable.Data()); |
c57f56b7 | 4580 | return; |
4581 | } | |
4582 | out << "#!/bin/bash" << endl; | |
2a4d5166 | 4583 | // Make sure we can properly compile par files |
4584 | out << "export LD_LIBRARY_PATH=.:$LD_LIBRARY_PATH" << endl; | |
c57f56b7 | 4585 | out << "echo \"=========================================\"" << endl; |
4586 | out << "echo \"############## PATH : ##############\"" << endl; | |
4587 | out << "echo $PATH" << endl; | |
4588 | out << "echo \"############## LD_LIBRARY_PATH : ##############\"" << endl; | |
4589 | out << "echo $LD_LIBRARY_PATH" << endl; | |
4590 | out << "echo \"############## ROOTSYS : ##############\"" << endl; | |
4591 | out << "echo $ROOTSYS" << endl; | |
4592 | out << "echo \"############## which root : ##############\"" << endl; | |
4593 | out << "which root" << endl; | |
4594 | out << "echo \"############## ALICE_ROOT : ##############\"" << endl; | |
4595 | out << "echo $ALICE_ROOT" << endl; | |
4596 | out << "echo \"############## which aliroot : ##############\"" << endl; | |
4597 | out << "which aliroot" << endl; | |
9c5ddadc | 4598 | out << "echo \"############## system limits : ##############\"" << endl; |
4599 | out << "ulimit -a" << endl; | |
4600 | out << "echo \"############## memory : ##############\"" << endl; | |
4601 | out << "free -m" << endl; | |
c57f56b7 | 4602 | out << "echo \"=========================================\"" << endl << endl; |
0a1c1f7f | 4603 | out << fExecutableCommand << " "; |
370c9880 | 4604 | out << fAnalysisMacro.Data() << " " << fExecutableArgs.Data() << endl; |
4605 | out << "RET=$?" << endl; | |
4606 | out << "if [ \"$RET\" != \"0\" ];then" << endl; | |
4607 | out << " echo \"======== ERROR : " << fAnalysisMacro.Data() << " finished with NON zero code: $RET ========\"" << endl; | |
4608 | out << " if [ \"$RET\" -gt 128 ] && [ \"$RET\" -lt 160 ]; then"<<endl; | |
4609 | out << " let sig=\"$RET - 128\""<<endl; | |
4610 | out << " sigs='HUP INT QUIT ILL TRAP ABRT BUS FPE"<<endl; | |
4611 | out << " KILL USR1 SEGV USR2 PIPE ALRM TERM STKFLT"<<endl; | |
4612 | out << " CHLD CONT STOP TSTP TTIN TTOU URG XCPU"<<endl; | |
4613 | out << " XFSZ VTALRM PROF WINCH IO PWR SYS'"<<endl; | |
4614 | out << " sig=SIG`echo $sigs | awk '{ print $'\"$sig\"' }'`"<<endl; | |
4615 | out << " echo \"======== it appears to have been killed with signal: $sig ========\""<<endl; | |
4616 | out << " fi"<<endl; | |
4617 | out << " exit $RET"<< endl; | |
4618 | out << "fi" << endl << endl ; | |
4619 | out << "echo \"======== " << fAnalysisMacro.Data() << " finished with exit code: $RET ========\"" << endl; | |
9c5ddadc | 4620 | out << "echo \"############## memory after: ##############\"" << endl; |
4621 | out << "free -m" << endl; | |
c57f56b7 | 4622 | } |
4623 | Bool_t copy = kTRUE; | |
d3b18c4c | 4624 | if (fProductionMode || TestBit(AliAnalysisGrid::kOffline) || TestBit(AliAnalysisGrid::kTest)) copy = kFALSE; |
c57f56b7 | 4625 | if (copy) { |
4626 | CdWork(); | |
4627 | TString workdir = gGrid->GetHomeDirectory(); | |
923e2ca5 | 4628 | TString bindir = Form("%s/bin", workdir.Data()); |
b93f8109 | 4629 | if (!DirectoryExists(bindir)) gGrid->Mkdir(bindir,"-p"); |
c57f56b7 | 4630 | workdir += fGridWorkingDir; |
4631 | TString executable = Form("%s/bin/%s", gGrid->GetHomeDirectory(), fExecutable.Data()); | |
4632 | if (FileExists(executable)) gGrid->Rm(executable); | |
d3b18c4c | 4633 | Info("WriteExecutable", "\n##### Copying executable file <%s> to your AliEn bin directory", fExecutable.Data()); |
6c395669 | 4634 | // TFile::Cp(Form("file:%s",fExecutable.Data()), Form("alien://%s", executable.Data())); |
4635 | if (!copyLocal2Alien("WriteExecutable",fExecutable.Data(), | |
4636 | executable.Data())) Fatal("","Terminating"); | |
c57f56b7 | 4637 | } |
4638 | } | |
4639 | ||
0f389141 | 4640 | //______________________________________________________________________________ |
4641 | void AliAnalysisAlien::WriteMergeExecutable() | |
4642 | { | |
4643 | // Generate the alien executable script for the merging job. | |
4644 | if (!fMergeViaJDL) return; | |
4645 | TString mergeExec = fExecutable; | |
4646 | mergeExec.ReplaceAll(".sh", "_merge.sh"); | |
4647 | if (!TestBit(AliAnalysisGrid::kSubmit)) { | |
4648 | ofstream out; | |
4649 | out.open(mergeExec.Data(), ios::out); | |
4650 | if (out.bad()) { | |
4651 | Error("WriteMergingExecutable", "Bad file name for executable: %s", mergeExec.Data()); | |
4652 | return; | |
4653 | } | |
4654 | out << "#!/bin/bash" << endl; | |
2a4d5166 | 4655 | // Make sure we can properly compile par files |
4656 | out << "export LD_LIBRARY_PATH=.:$LD_LIBRARY_PATH" << endl; | |
0f389141 | 4657 | out << "echo \"=========================================\"" << endl; |
4658 | out << "echo \"############## PATH : ##############\"" << endl; | |
4659 | out << "echo $PATH" << endl; | |
4660 | out << "echo \"############## LD_LIBRARY_PATH : ##############\"" << endl; | |
4661 | out << "echo $LD_LIBRARY_PATH" << endl; | |
4662 | out << "echo \"############## ROOTSYS : ##############\"" << endl; | |
4663 | out << "echo $ROOTSYS" << endl; | |
4664 | out << "echo \"############## which root : ##############\"" << endl; | |
4665 | out << "which root" << endl; | |
4666 | out << "echo \"############## ALICE_ROOT : ##############\"" << endl; | |
4667 | out << "echo $ALICE_ROOT" << endl; | |
4668 | out << "echo \"############## which aliroot : ##############\"" << endl; | |
4669 | out << "which aliroot" << endl; | |
4670 | out << "echo \"############## system limits : ##############\"" << endl; | |
4671 | out << "ulimit -a" << endl; | |
4672 | out << "echo \"############## memory : ##############\"" << endl; | |
4673 | out << "free -m" << endl; | |
4674 | out << "echo \"=========================================\"" << endl << endl; | |
0f389141 | 4675 | TString mergeMacro = fExecutable; |
4676 | mergeMacro.ReplaceAll(".sh", "_merge.C"); | |
f790bc1b | 4677 | if (IsOneStageMerging()) |
4678 | out << "export ARG=\"" << mergeMacro << "(\\\"$1\\\")\"" << endl; | |
4679 | else | |
f47d5cb4 | 4680 | out << "export ARG=\"" << mergeMacro << "(\\\"$1\\\",$2)\"" << endl; |
0f389141 | 4681 | out << fExecutableCommand << " " << "$ARG" << endl; |
370c9880 | 4682 | out << "RET=$?" << endl; |
4683 | out << "if [ \"$RET\" != \"0\" ];then" << endl; | |
4684 | out << " echo \"======== ERROR : " << fAnalysisMacro.Data() << " finished with NON zero code: $RET ========\"" << endl; | |
4685 | out << " if [ \"$RET\" -gt 128 ] && [ \"$RET\" -lt 160 ]; then"<<endl; | |
4686 | out << " let sig=\"$RET - 128\""<<endl; | |
4687 | out << " sigs='HUP INT QUIT ILL TRAP ABRT BUS FPE"<<endl; | |
4688 | out << " KILL USR1 SEGV USR2 PIPE ALRM TERM STKFLT"<<endl; | |
4689 | out << " CHLD CONT STOP TSTP TTIN TTOU URG XCPU"<<endl; | |
4690 | out << " XFSZ VTALRM PROF WINCH IO PWR SYS'"<<endl; | |
4691 | out << " sig=SIG`echo $sigs | awk '{ print $'\"$sig\"' }'`"<<endl; | |
4692 | out << " echo \"======== it appears to have been killed with signal: $sig ========\""<<endl; | |
4693 | out << " fi"<<endl; | |
4694 | out << " exit $RET"<< endl; | |
4695 | out << "fi" << endl << endl ; | |
0f389141 | 4696 | out << "echo \"======== " << mergeMacro.Data() << " finished with exit code: $? ========\"" << endl; |
4697 | out << "echo \"############## memory after: ##############\"" << endl; | |
4698 | out << "free -m" << endl; | |
0f389141 | 4699 | } |
4700 | Bool_t copy = kTRUE; | |
d3b18c4c | 4701 | if (fProductionMode || TestBit(AliAnalysisGrid::kOffline) || TestBit(AliAnalysisGrid::kTest)) copy = kFALSE; |
0f389141 | 4702 | if (copy) { |
4703 | CdWork(); | |
4704 | TString workdir = gGrid->GetHomeDirectory(); | |
4705 | TString bindir = Form("%s/bin", workdir.Data()); | |
b93f8109 | 4706 | if (!DirectoryExists(bindir)) gGrid->Mkdir(bindir,"-p"); |
0f389141 | 4707 | workdir += fGridWorkingDir; |
4708 | TString executable = Form("%s/bin/%s", gGrid->GetHomeDirectory(), mergeExec.Data()); | |
4709 | if (FileExists(executable)) gGrid->Rm(executable); | |
d3b18c4c | 4710 | Info("WriteMergeExecutable", "\n##### Copying executable file <%s> to your AliEn bin directory", mergeExec.Data()); |
6c395669 | 4711 | // TFile::Cp(Form("file:%s",mergeExec.Data()), Form("alien://%s", executable.Data())); |
4712 | if (!copyLocal2Alien("WriteMergeExecutable", | |
4713 | mergeExec.Data(), executable.Data())) Fatal("","Terminating"); | |
0f389141 | 4714 | } |
4715 | } | |
4716 | ||
c57f56b7 | 4717 | //______________________________________________________________________________ |
5513444a | 4718 | void AliAnalysisAlien::WriteProductionFile(const char *filename) const |
4719 | { | |
4720 | // Write the production file to be submitted by LPM manager. The format is: | |
f5e8c702 | 4721 | // First line: full_path_to_jdl estimated_no_subjobs_per_master |
5513444a | 4722 | // Next lines: full_path_to_dataset XXX (XXX is a string) |
4723 | // To submit, one has to: submit jdl XXX for all lines | |
4724 | ofstream out; | |
4725 | out.open(filename, ios::out); | |
4726 | if (out.bad()) { | |
4727 | Error("WriteProductionFile", "Bad file name: %s", filename); | |
4728 | return; | |
4729 | } | |
d3b18c4c | 4730 | TString workdir; |
4731 | if (!fProductionMode && !fGridWorkingDir.BeginsWith("/alice")) | |
4732 | workdir = gGrid->GetHomeDirectory(); | |
5513444a | 4733 | workdir += fGridWorkingDir; |
f5e8c702 | 4734 | Int_t njobspermaster = 1000*fNrunsPerMaster/fSplitMaxInputFileNumber; |
5513444a | 4735 | TString locjdl = Form("%s/%s", workdir.Data(),fJDLName.Data()); |
f5e8c702 | 4736 | out << locjdl << " " << njobspermaster << endl; |
5513444a | 4737 | Int_t nmasterjobs = fInputFiles->GetEntries(); |
4738 | for (Int_t i=0; i<nmasterjobs; i++) { | |
409b4ada | 4739 | TString runOutDir = gSystem->BaseName(fInputFiles->At(i)->GetName()); |
4740 | runOutDir.ReplaceAll(".xml", ""); | |
4741 | if (fOutputToRunNo) | |
4742 | out << Form("%s", fInputFiles->At(i)->GetName()) << " " << runOutDir << endl; | |
4743 | else | |
4744 | out << Form("%s", fInputFiles->At(i)->GetName()) << " " << Form("%03d", i) << endl; | |
5513444a | 4745 | } |
d3b18c4c | 4746 | if (gGrid) { |
4747 | Info("WriteProductionFile", "\n##### Copying production file <%s> to your work directory", filename); | |
4748 | if (FileExists(filename)) gGrid->Rm(filename); | |
6c395669 | 4749 | // TFile::Cp(Form("file:%s",filename), Form("alien://%s/%s", workdir.Data(),filename)); |
4750 | if (!copyLocal2Alien("WriteProductionFile", filename, | |
4751 | Form("%s/%s", workdir.Data(),filename))) Fatal("","Terminating"); | |
d3b18c4c | 4752 | } |
5513444a | 4753 | } |
4754 | ||
4755 | //______________________________________________________________________________ | |
0f389141 | 4756 | void AliAnalysisAlien::WriteValidationScript(Bool_t merge) |
c57f56b7 | 4757 | { |
4758 | // Generate the alien validation script. | |
4759 | // Generate the validation script | |
4760 | TObjString *os; | |
d3b18c4c | 4761 | if (fValidationScript.IsNull()) { |
4762 | fValidationScript = fExecutable; | |
4763 | fValidationScript.ReplaceAll(".sh", "_validation.sh"); | |
4764 | } | |
4765 | TString validationScript = fValidationScript; | |
4766 | if (merge) validationScript.ReplaceAll(".sh", "_merge.sh"); | |
c57f56b7 | 4767 | if (!Connect()) { |
4768 | Error("WriteValidationScript", "Alien connection required"); | |
4769 | return; | |
4770 | } | |
d3b18c4c | 4771 | if (!fTerminateFiles.IsNull()) { |
4772 | fTerminateFiles.Strip(); | |
4773 | fTerminateFiles.ReplaceAll(" ",","); | |
4774 | } | |
a2f5fc01 | 4775 | TString outStream = ""; |
4776 | if (!TestBit(AliAnalysisGrid::kTest)) outStream = " >> stdout"; | |
c57f56b7 | 4777 | if (!TestBit(AliAnalysisGrid::kSubmit)) { |
4778 | ofstream out; | |
0d5d317c | 4779 | out.open(validationScript, ios::out); |
c57f56b7 | 4780 | out << "#!/bin/bash" << endl; |
4781 | out << "##################################################" << endl; | |
4782 | out << "validateout=`dirname $0`" << endl; | |
4783 | out << "validatetime=`date`" << endl; | |
4784 | out << "validated=\"0\";" << endl; | |
4785 | out << "error=0" << endl; | |
4786 | out << "if [ -z $validateout ]" << endl; | |
4787 | out << "then" << endl; | |
4788 | out << " validateout=\".\"" << endl; | |
4789 | out << "fi" << endl << endl; | |
4790 | out << "cd $validateout;" << endl; | |
4791 | out << "validateworkdir=`pwd`;" << endl << endl; | |
a2f5fc01 | 4792 | out << "echo \"*******************************************************\"" << outStream << endl; |
4793 | out << "echo \"* Automatically generated validation script *\"" << outStream << endl; | |
c57f56b7 | 4794 | out << "" << endl; |
a2f5fc01 | 4795 | out << "echo \"* Time: $validatetime \"" << outStream << endl; |
4796 | out << "echo \"* Dir: $validateout\"" << outStream << endl; | |
4797 | out << "echo \"* Workdir: $validateworkdir\"" << outStream << endl; | |
4798 | out << "echo \"* ----------------------------------------------------*\"" << outStream << endl; | |
4799 | out << "ls -la ./" << outStream << endl; | |
4800 | out << "echo \"* ----------------------------------------------------*\"" << outStream << endl << endl; | |
c57f56b7 | 4801 | out << "##################################################" << endl; |
ebec370a | 4802 | out << "" << endl; |
4803 | ||
4804 | out << "if [ ! -f stderr ] ; then" << endl; | |
4805 | out << " error=1" << endl; | |
a2f5fc01 | 4806 | out << " echo \"* ########## Job not validated - no stderr ###\" " << outStream << endl; |
4807 | out << " echo \"Error = $error\" " << outStream << endl; | |
ebec370a | 4808 | out << "fi" << endl; |
4809 | ||
b34c9f51 | 4810 | out << "parArch=`grep -Ei \"Cannot Build the PAR Archive\" stderr`" << endl; |
4811 | out << "segViol=`grep -Ei \"Segmentation violation\" stderr`" << endl; | |
4812 | out << "segFault=`grep -Ei \"Segmentation fault\" stderr`" << endl; | |
4813 | out << "glibcErr=`grep -Ei \"*** glibc detected ***\" stderr`" << endl; | |
4814 | out << "" << endl; | |
4815 | ||
ebec370a | 4816 | out << "if [ \"$parArch\" != \"\" ] ; then" << endl; |
4817 | out << " error=1" << endl; | |
a2f5fc01 | 4818 | out << " echo \"* ########## Job not validated - PAR archive not built ###\" " << outStream << endl; |
4819 | out << " echo \"$parArch\" " << outStream << endl; | |
4820 | out << " echo \"Error = $error\" " << outStream << endl; | |
ebec370a | 4821 | out << "fi" << endl; |
4822 | ||
4823 | out << "if [ \"$segViol\" != \"\" ] ; then" << endl; | |
4824 | out << " error=1" << endl; | |
a2f5fc01 | 4825 | out << " echo \"* ########## Job not validated - Segment. violation ###\" " << outStream << endl; |
4826 | out << " echo \"$segViol\" " << outStream << endl; | |
4827 | out << " echo \"Error = $error\" " << outStream << endl; | |
ebec370a | 4828 | out << "fi" << endl; |
4829 | ||
4830 | out << "if [ \"$segFault\" != \"\" ] ; then" << endl; | |
4831 | out << " error=1" << endl; | |
a2f5fc01 | 4832 | out << " echo \"* ########## Job not validated - Segment. fault ###\" " << outStream << endl; |
4833 | out << " echo \"$segFault\" " << outStream << endl; | |
4834 | out << " echo \"Error = $error\" " << outStream << endl; | |
ebec370a | 4835 | out << "fi" << endl; |
4836 | ||
b34c9f51 | 4837 | out << "if [ \"$glibcErr\" != \"\" ] ; then" << endl; |
4838 | out << " error=1" << endl; | |
a2f5fc01 | 4839 | out << " echo \"* ########## Job not validated - *** glibc detected *** ###\" " << outStream << endl; |
4840 | out << " echo \"$glibcErr\" " << outStream << endl; | |
4841 | out << " echo \"Error = $error\" " << outStream << endl; | |
b34c9f51 | 4842 | out << "fi" << endl; |
4843 | ||
ebec370a | 4844 | // Part dedicated to the specific analyses running into the train |
4845 | ||
d3b18c4c | 4846 | TString outputFiles = fOutputFiles; |
4847 | if (merge && !fTerminateFiles.IsNull()) { | |
4848 | outputFiles += ","; | |
4849 | outputFiles += fTerminateFiles; | |
4850 | } | |
4851 | TObjArray *arr = outputFiles.Tokenize(","); | |
c57f56b7 | 4852 | TIter next1(arr); |
a2f5fc01 | 4853 | TString outputFile; |
bbd88db8 | 4854 | while (!merge && (os=(TObjString*)next1())) { |
4855 | // No need to validate outputs produced by merging since the merging macro does this | |
a2f5fc01 | 4856 | outputFile = os->GetString(); |
4857 | Int_t index = outputFile.Index("@"); | |
4858 | if (index > 0) outputFile.Remove(index); | |
bbd88db8 | 4859 | if (fTerminateFiles.Contains(outputFile)) continue; |
a2f5fc01 | 4860 | if (outputFile.Contains("*")) continue; |
4861 | out << "if ! [ -f " << outputFile.Data() << " ] ; then" << endl; | |
c57f56b7 | 4862 | out << " error=1" << endl; |
7c2cd90a | 4863 | out << " echo \"Output file " << outputFile << " not found. Job FAILED !\"" << outStream << endl; |
4864 | out << " echo \"Output file " << outputFile << " not found. Job FAILED !\" >> stderr" << endl; | |
c57f56b7 | 4865 | out << "fi" << endl; |
4866 | } | |
4867 | delete arr; | |
7c2cd90a | 4868 | out << "if ! [ -f outputs_valid ] ; then" << endl; |
4869 | out << " error=1" << endl; | |
4870 | out << " echo \"Output files were not validated by the analysis manager\" >> stdout" << endl; | |
4871 | out << " echo \"Output files were not validated by the analysis manager\" >> stderr" << endl; | |
4872 | out << "fi" << endl; | |
923e2ca5 | 4873 | |
c57f56b7 | 4874 | out << "if [ $error = 0 ] ; then" << endl; |
a2f5fc01 | 4875 | out << " echo \"* ---------------- Job Validated ------------------*\"" << outStream << endl; |
149d288c | 4876 | if (!IsKeepLogs()) { |
4877 | out << " echo \"* === Logs std* will be deleted === \"" << endl; | |
a2f5fc01 | 4878 | outStream = ""; |
149d288c | 4879 | out << " rm -f std*" << endl; |
4880 | } | |
c57f56b7 | 4881 | out << "fi" << endl; |
4882 | ||
a2f5fc01 | 4883 | out << "echo \"* ----------------------------------------------------*\"" << outStream << endl; |
4884 | out << "echo \"*******************************************************\"" << outStream << endl; | |
c57f56b7 | 4885 | out << "cd -" << endl; |
4886 | out << "exit $error" << endl; | |
4887 | } | |
4888 | Bool_t copy = kTRUE; | |
d3b18c4c | 4889 | if (fProductionMode || TestBit(AliAnalysisGrid::kOffline) || TestBit(AliAnalysisGrid::kTest)) copy = kFALSE; |
c57f56b7 | 4890 | if (copy) { |
4891 | CdWork(); | |
4892 | TString workdir = gGrid->GetHomeDirectory(); | |
4893 | workdir += fGridWorkingDir; | |
d3b18c4c | 4894 | Info("WriteValidationScript", "\n##### Copying validation script <%s> to your AliEn working space", validationScript.Data()); |
0d5d317c | 4895 | if (FileExists(validationScript)) gGrid->Rm(validationScript); |
6c395669 | 4896 | // TFile::Cp(Form("file:%s",validationScript.Data()), Form("alien://%s/%s", workdir.Data(),validationScript.Data())); |
4897 | if (!copyLocal2Alien("WriteValidationScript", validationScript.Data(), | |
4898 | Form("%s/%s",workdir.Data(), validationScript.Data()))) Fatal("","Terminating"); | |
c57f56b7 | 4899 | } |
4900 | } |