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