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c57f56b7 | 1 | /************************************************************************** |
2 | * Copyright(c) 1998-2007, ALICE Experiment at CERN, All rights reserved. * | |
3 | * * | |
4 | * Author: The ALICE Off-line Project. * | |
5 | * Contributors are mentioned in the code where appropriate. * | |
6 | * * | |
7 | * Permission to use, copy, modify and distribute this software and its * | |
8 | * documentation strictly for non-commercial purposes is hereby granted * | |
9 | * without fee, provided that the above copyright notice appears in all * | |
10 | * copies and that both the copyright notice and this permission notice * | |
11 | * appear in the supporting documentation. The authors make no claims * | |
12 | * about the suitability of this software for any purpose. It is * | |
13 | * provided "as is" without express or implied warranty. * | |
14 | **************************************************************************/ | |
15 | ||
16 | // Author: Mihaela Gheata, 01/09/2008 | |
17 | ||
18 | //============================================================================== | |
19 | // AliAnalysisAlien - AliEn utility class. Provides interface for creating | |
20 | // a personalized JDL, finding and creating a dataset. | |
21 | //============================================================================== | |
22 | ||
23 | #include "Riostream.h" | |
0f389141 | 24 | #include "TEnv.h" |
25 | #include "TError.h" | |
c57f56b7 | 26 | #include "TROOT.h" |
27 | #include "TSystem.h" | |
28 | #include "TFile.h" | |
29 | #include "TObjString.h" | |
30 | #include "TObjArray.h" | |
31 | #include "TGrid.h" | |
32 | #include "TGridResult.h" | |
33 | #include "TGridCollection.h" | |
34 | #include "TGridJDL.h" | |
d2a409b2 | 35 | #include "TGridJobStatusList.h" |
36 | #include "TGridJobStatus.h" | |
c57f56b7 | 37 | #include "TFileMerger.h" |
38 | #include "AliAnalysisManager.h" | |
bb885a9e | 39 | #include "AliVEventHandler.h" |
40 | #include "AliAnalysisDataContainer.h" | |
c57f56b7 | 41 | #include "AliAnalysisAlien.h" |
42 | ||
43 | ClassImp(AliAnalysisAlien) | |
44 | ||
45 | //______________________________________________________________________________ | |
46 | AliAnalysisAlien::AliAnalysisAlien() | |
47 | :AliAnalysisGrid(), | |
48 | fGridJDL(NULL), | |
0f389141 | 49 | fMergingJDL(NULL), |
c57f56b7 | 50 | fPrice(0), |
51 | fTTL(0), | |
52 | fSplitMaxInputFileNumber(0), | |
53 | fMaxInitFailed(0), | |
54 | fMasterResubmitThreshold(0), | |
bb885a9e | 55 | fNtestFiles(0), |
319593fb | 56 | fNrunsPerMaster(0), |
16a4353c | 57 | fMaxMergeFiles(0), |
d2a409b2 | 58 | fNsubmitted(0), |
a3e84053 | 59 | fProductionMode(0), |
cd11251e | 60 | fOutputToRunNo(0), |
0f389141 | 61 | fMergeViaJDL(0), |
62 | fFastReadOption(0), | |
e1c22e21 | 63 | fOverwriteMode(1), |
149d288c | 64 | fNreplicas(2), |
c57f56b7 | 65 | fRunNumbers(), |
66 | fExecutable(), | |
0a1c1f7f | 67 | fExecutableCommand(), |
c57f56b7 | 68 | fArguments(), |
631c0b05 | 69 | fExecutableArgs(), |
c57f56b7 | 70 | fAnalysisMacro(), |
71 | fAnalysisSource(), | |
d5c6455a | 72 | fAdditionalRootLibs(), |
c57f56b7 | 73 | fAdditionalLibs(), |
74 | fSplitMode(), | |
75 | fAPIVersion(), | |
76 | fROOTVersion(), | |
77 | fAliROOTVersion(), | |
648174cf | 78 | fExternalPackages(), |
c57f56b7 | 79 | fUser(), |
80 | fGridWorkingDir(), | |
81 | fGridDataDir(), | |
82 | fDataPattern(), | |
83 | fGridOutputDir(), | |
84 | fOutputArchive(), | |
85 | fOutputFiles(), | |
86 | fInputFormat(), | |
e7c71df0 | 87 | fDatasetName(), |
c57f56b7 | 88 | fJDLName(), |
bb885a9e | 89 | fMergeExcludes(), |
f965131e | 90 | fIncludePath(), |
bb885a9e | 91 | fCloseSE(), |
0df6ccf2 | 92 | fFriendChainName(), |
c6cb3634 | 93 | fJobTag(), |
648174cf | 94 | fOutputSingle(), |
5fce53f4 | 95 | fRunPrefix(), |
4e5c5506 | 96 | fInputFiles(0), |
97 | fPackages(0) | |
c57f56b7 | 98 | { |
99 | // Dummy ctor. | |
100 | SetDefaults(); | |
101 | } | |
102 | ||
103 | //______________________________________________________________________________ | |
104 | AliAnalysisAlien::AliAnalysisAlien(const char *name) | |
105 | :AliAnalysisGrid(name), | |
106 | fGridJDL(NULL), | |
0f389141 | 107 | fMergingJDL(NULL), |
c57f56b7 | 108 | fPrice(0), |
109 | fTTL(0), | |
110 | fSplitMaxInputFileNumber(0), | |
111 | fMaxInitFailed(0), | |
112 | fMasterResubmitThreshold(0), | |
bb885a9e | 113 | fNtestFiles(0), |
319593fb | 114 | fNrunsPerMaster(0), |
16a4353c | 115 | fMaxMergeFiles(0), |
d2a409b2 | 116 | fNsubmitted(0), |
a3e84053 | 117 | fProductionMode(0), |
cd11251e | 118 | fOutputToRunNo(0), |
0f389141 | 119 | fMergeViaJDL(0), |
120 | fFastReadOption(0), | |
e1c22e21 | 121 | fOverwriteMode(1), |
149d288c | 122 | fNreplicas(2), |
c57f56b7 | 123 | fRunNumbers(), |
124 | fExecutable(), | |
0a1c1f7f | 125 | fExecutableCommand(), |
c57f56b7 | 126 | fArguments(), |
631c0b05 | 127 | fExecutableArgs(), |
c57f56b7 | 128 | fAnalysisMacro(), |
129 | fAnalysisSource(), | |
d5c6455a | 130 | fAdditionalRootLibs(), |
c57f56b7 | 131 | fAdditionalLibs(), |
132 | fSplitMode(), | |
133 | fAPIVersion(), | |
134 | fROOTVersion(), | |
135 | fAliROOTVersion(), | |
648174cf | 136 | fExternalPackages(), |
c57f56b7 | 137 | fUser(), |
138 | fGridWorkingDir(), | |
139 | fGridDataDir(), | |
140 | fDataPattern(), | |
141 | fGridOutputDir(), | |
142 | fOutputArchive(), | |
143 | fOutputFiles(), | |
144 | fInputFormat(), | |
e7c71df0 | 145 | fDatasetName(), |
c57f56b7 | 146 | fJDLName(), |
bb885a9e | 147 | fMergeExcludes(), |
f965131e | 148 | fIncludePath(), |
bb885a9e | 149 | fCloseSE(), |
0df6ccf2 | 150 | fFriendChainName(), |
c6cb3634 | 151 | fJobTag(), |
648174cf | 152 | fOutputSingle(), |
5fce53f4 | 153 | fRunPrefix(), |
4e5c5506 | 154 | fInputFiles(0), |
155 | fPackages(0) | |
c57f56b7 | 156 | { |
157 | // Default ctor. | |
158 | SetDefaults(); | |
159 | } | |
160 | ||
161 | //______________________________________________________________________________ | |
162 | AliAnalysisAlien::AliAnalysisAlien(const AliAnalysisAlien& other) | |
163 | :AliAnalysisGrid(other), | |
164 | fGridJDL(NULL), | |
0f389141 | 165 | fMergingJDL(NULL), |
c57f56b7 | 166 | fPrice(other.fPrice), |
167 | fTTL(other.fTTL), | |
168 | fSplitMaxInputFileNumber(other.fSplitMaxInputFileNumber), | |
169 | fMaxInitFailed(other.fMaxInitFailed), | |
170 | fMasterResubmitThreshold(other.fMasterResubmitThreshold), | |
bb885a9e | 171 | fNtestFiles(other.fNtestFiles), |
319593fb | 172 | fNrunsPerMaster(other.fNrunsPerMaster), |
16a4353c | 173 | fMaxMergeFiles(other.fMaxMergeFiles), |
d2a409b2 | 174 | fNsubmitted(other.fNsubmitted), |
a3e84053 | 175 | fProductionMode(other.fProductionMode), |
cd11251e | 176 | fOutputToRunNo(other.fOutputToRunNo), |
0f389141 | 177 | fMergeViaJDL(other.fMergeViaJDL), |
178 | fFastReadOption(other.fFastReadOption), | |
179 | fOverwriteMode(other.fOverwriteMode), | |
149d288c | 180 | fNreplicas(other.fNreplicas), |
c57f56b7 | 181 | fRunNumbers(other.fRunNumbers), |
182 | fExecutable(other.fExecutable), | |
0a1c1f7f | 183 | fExecutableCommand(other.fExecutableCommand), |
c57f56b7 | 184 | fArguments(other.fArguments), |
631c0b05 | 185 | fExecutableArgs(other.fExecutableArgs), |
c57f56b7 | 186 | fAnalysisMacro(other.fAnalysisMacro), |
187 | fAnalysisSource(other.fAnalysisSource), | |
d5c6455a | 188 | fAdditionalRootLibs(other.fAdditionalRootLibs), |
c57f56b7 | 189 | fAdditionalLibs(other.fAdditionalLibs), |
190 | fSplitMode(other.fSplitMode), | |
191 | fAPIVersion(other.fAPIVersion), | |
192 | fROOTVersion(other.fROOTVersion), | |
193 | fAliROOTVersion(other.fAliROOTVersion), | |
648174cf | 194 | fExternalPackages(other.fExternalPackages), |
c57f56b7 | 195 | fUser(other.fUser), |
196 | fGridWorkingDir(other.fGridWorkingDir), | |
197 | fGridDataDir(other.fGridDataDir), | |
198 | fDataPattern(other.fDataPattern), | |
199 | fGridOutputDir(other.fGridOutputDir), | |
200 | fOutputArchive(other.fOutputArchive), | |
201 | fOutputFiles(other.fOutputFiles), | |
202 | fInputFormat(other.fInputFormat), | |
e7c71df0 | 203 | fDatasetName(other.fDatasetName), |
c57f56b7 | 204 | fJDLName(other.fJDLName), |
bb885a9e | 205 | fMergeExcludes(other.fMergeExcludes), |
f965131e | 206 | fIncludePath(other.fIncludePath), |
bb885a9e | 207 | fCloseSE(other.fCloseSE), |
0df6ccf2 | 208 | fFriendChainName(other.fFriendChainName), |
c6cb3634 | 209 | fJobTag(other.fJobTag), |
648174cf | 210 | fOutputSingle(other.fOutputSingle), |
5fce53f4 | 211 | fRunPrefix(other.fRunPrefix), |
4e5c5506 | 212 | fInputFiles(0), |
213 | fPackages(0) | |
c57f56b7 | 214 | { |
215 | // Copy ctor. | |
216 | fGridJDL = (TGridJDL*)gROOT->ProcessLine("new TAlienJDL()"); | |
0f389141 | 217 | fMergingJDL = (TGridJDL*)gROOT->ProcessLine("new TAlienJDL()"); |
a8739e8a | 218 | fRunRange[0] = other.fRunRange[0]; |
219 | fRunRange[1] = other.fRunRange[1]; | |
c57f56b7 | 220 | if (other.fInputFiles) { |
221 | fInputFiles = new TObjArray(); | |
222 | TIter next(other.fInputFiles); | |
223 | TObject *obj; | |
224 | while ((obj=next())) fInputFiles->Add(new TObjString(obj->GetName())); | |
225 | fInputFiles->SetOwner(); | |
226 | } | |
4e5c5506 | 227 | if (other.fPackages) { |
228 | fPackages = new TObjArray(); | |
229 | TIter next(other.fPackages); | |
230 | TObject *obj; | |
231 | while ((obj=next())) fPackages->Add(new TObjString(obj->GetName())); | |
232 | fPackages->SetOwner(); | |
233 | } | |
c57f56b7 | 234 | } |
235 | ||
236 | //______________________________________________________________________________ | |
237 | AliAnalysisAlien::~AliAnalysisAlien() | |
238 | { | |
239 | // Destructor. | |
240 | if (fGridJDL) delete fGridJDL; | |
0f389141 | 241 | if (fMergingJDL) delete fMergingJDL; |
c57f56b7 | 242 | if (fInputFiles) delete fInputFiles; |
4e5c5506 | 243 | if (fPackages) delete fPackages; |
c57f56b7 | 244 | } |
245 | ||
246 | //______________________________________________________________________________ | |
247 | AliAnalysisAlien &AliAnalysisAlien::operator=(const AliAnalysisAlien& other) | |
248 | { | |
249 | // Assignment. | |
250 | if (this != &other) { | |
251 | AliAnalysisGrid::operator=(other); | |
252 | fGridJDL = (TGridJDL*)gROOT->ProcessLine("new TAlienJDL()"); | |
0f389141 | 253 | fMergingJDL = (TGridJDL*)gROOT->ProcessLine("new TAlienJDL()"); |
c57f56b7 | 254 | fPrice = other.fPrice; |
255 | fTTL = other.fTTL; | |
256 | fSplitMaxInputFileNumber = other.fSplitMaxInputFileNumber; | |
257 | fMaxInitFailed = other.fMaxInitFailed; | |
258 | fMasterResubmitThreshold = other.fMasterResubmitThreshold; | |
bb885a9e | 259 | fNtestFiles = other.fNtestFiles; |
a3e84053 | 260 | fNrunsPerMaster = other.fNrunsPerMaster; |
261 | fMaxMergeFiles = other.fMaxMergeFiles; | |
262 | fNsubmitted = other.fNsubmitted; | |
263 | fProductionMode = other.fProductionMode; | |
cd11251e | 264 | fOutputToRunNo = other.fOutputToRunNo; |
0f389141 | 265 | fMergeViaJDL = other.fMergeViaJDL; |
266 | fFastReadOption = other.fFastReadOption; | |
267 | fOverwriteMode = other.fOverwriteMode; | |
149d288c | 268 | fNreplicas = other.fNreplicas; |
c57f56b7 | 269 | fRunNumbers = other.fRunNumbers; |
270 | fExecutable = other.fExecutable; | |
0a1c1f7f | 271 | fExecutableCommand = other.fExecutableCommand; |
c57f56b7 | 272 | fArguments = other.fArguments; |
631c0b05 | 273 | fExecutableArgs = other.fExecutableArgs; |
c57f56b7 | 274 | fAnalysisMacro = other.fAnalysisMacro; |
275 | fAnalysisSource = other.fAnalysisSource; | |
d5c6455a | 276 | fAdditionalRootLibs = other.fAdditionalRootLibs; |
c57f56b7 | 277 | fAdditionalLibs = other.fAdditionalLibs; |
278 | fSplitMode = other.fSplitMode; | |
279 | fAPIVersion = other.fAPIVersion; | |
280 | fROOTVersion = other.fROOTVersion; | |
281 | fAliROOTVersion = other.fAliROOTVersion; | |
648174cf | 282 | fExternalPackages = other.fExternalPackages; |
c57f56b7 | 283 | fUser = other.fUser; |
284 | fGridWorkingDir = other.fGridWorkingDir; | |
285 | fGridDataDir = other.fGridDataDir; | |
286 | fDataPattern = other.fDataPattern; | |
287 | fGridOutputDir = other.fGridOutputDir; | |
288 | fOutputArchive = other.fOutputArchive; | |
289 | fOutputFiles = other.fOutputFiles; | |
290 | fInputFormat = other.fInputFormat; | |
e7c71df0 | 291 | fDatasetName = other.fDatasetName; |
c57f56b7 | 292 | fJDLName = other.fJDLName; |
bb885a9e | 293 | fMergeExcludes = other.fMergeExcludes; |
f965131e | 294 | fIncludePath = other.fIncludePath; |
bb885a9e | 295 | fCloseSE = other.fCloseSE; |
0df6ccf2 | 296 | fFriendChainName = other.fFriendChainName; |
c6cb3634 | 297 | fJobTag = other.fJobTag; |
648174cf | 298 | fOutputSingle = other.fOutputSingle; |
5fce53f4 | 299 | fRunPrefix = other.fRunPrefix; |
c57f56b7 | 300 | if (other.fInputFiles) { |
301 | fInputFiles = new TObjArray(); | |
302 | TIter next(other.fInputFiles); | |
303 | TObject *obj; | |
304 | while ((obj=next())) fInputFiles->Add(new TObjString(obj->GetName())); | |
305 | fInputFiles->SetOwner(); | |
306 | } | |
4e5c5506 | 307 | if (other.fPackages) { |
308 | fPackages = new TObjArray(); | |
309 | TIter next(other.fPackages); | |
310 | TObject *obj; | |
311 | while ((obj=next())) fPackages->Add(new TObjString(obj->GetName())); | |
312 | fPackages->SetOwner(); | |
313 | } | |
c57f56b7 | 314 | } |
315 | return *this; | |
316 | } | |
317 | ||
f965131e | 318 | //______________________________________________________________________________ |
319 | void AliAnalysisAlien::AddIncludePath(const char *path) | |
320 | { | |
321 | // Add include path in the remote analysis macro. | |
322 | TString p(path); | |
323 | if (p.Contains("-I")) fIncludePath += Form("%s ", path); | |
324 | else fIncludePath += Form("-I%s ", path); | |
325 | } | |
326 | ||
c57f56b7 | 327 | //______________________________________________________________________________ |
328 | void AliAnalysisAlien::AddRunNumber(Int_t run) | |
329 | { | |
330 | // Add a run number to the list of runs to be processed. | |
331 | if (fRunNumbers.Length()) fRunNumbers += " "; | |
5fce53f4 | 332 | fRunNumbers += Form("%s%d", fRunPrefix.Data(), run); |
c57f56b7 | 333 | } |
334 | ||
ee75cfc3 | 335 | //______________________________________________________________________________ |
336 | void AliAnalysisAlien::AddRunNumber(const char* run) | |
337 | { | |
338 | // Add a run number to the list of runs to be processed. | |
339 | if (fRunNumbers.Length()) fRunNumbers += " "; | |
340 | fRunNumbers += run; | |
341 | } | |
342 | ||
c57f56b7 | 343 | //______________________________________________________________________________ |
344 | void AliAnalysisAlien::AddDataFile(const char *lfn) | |
345 | { | |
346 | // Adds a data file to the input to be analysed. The file should be a valid LFN | |
347 | // or point to an existing file in the alien workdir. | |
348 | if (!fInputFiles) fInputFiles = new TObjArray(); | |
349 | fInputFiles->Add(new TObjString(lfn)); | |
350 | } | |
648174cf | 351 | |
352 | //______________________________________________________________________________ | |
353 | void AliAnalysisAlien::AddExternalPackage(const char *package) | |
354 | { | |
355 | // Adds external packages w.r.t to the default ones (root,aliroot and gapi) | |
356 | if (fExternalPackages) fExternalPackages += " "; | |
357 | fExternalPackages += package; | |
358 | } | |
359 | ||
c57f56b7 | 360 | //______________________________________________________________________________ |
361 | Bool_t AliAnalysisAlien::Connect() | |
362 | { | |
363 | // Try to connect to AliEn. User needs a valid token and /tmp/gclient_env_$UID sourced. | |
364 | if (gGrid && gGrid->IsConnected()) return kTRUE; | |
c57f56b7 | 365 | if (!gGrid) { |
366 | Info("Connect", "Trying to connect to AliEn ..."); | |
367 | TGrid::Connect("alien://"); | |
368 | } | |
369 | if (!gGrid || !gGrid->IsConnected()) { | |
370 | Error("Connect", "Did not managed to connect to AliEn. Make sure you have a valid token."); | |
371 | return kFALSE; | |
372 | } | |
373 | fUser = gGrid->GetUser(); | |
374 | Info("Connect", "\n##### Connected to AliEn as user %s. Setting analysis user to <%s>", fUser.Data(), fUser.Data()); | |
375 | return kTRUE; | |
376 | } | |
377 | ||
378 | //______________________________________________________________________________ | |
379 | void AliAnalysisAlien::CdWork() | |
380 | { | |
381 | // Check validity of alien workspace. Create directory if possible. | |
382 | if (!Connect()) { | |
383 | Error("CdWork", "Alien connection required"); | |
384 | return; | |
385 | } | |
386 | TString homedir = gGrid->GetHomeDirectory(); | |
387 | TString workdir = homedir + fGridWorkingDir; | |
923e2ca5 | 388 | if (DirectoryExists(workdir)) { |
389 | gGrid->Cd(workdir); | |
390 | return; | |
391 | } | |
392 | // Work directory not existing - create it | |
393 | gGrid->Cd(homedir); | |
394 | if (gGrid->Mkdir(workdir)) { | |
395 | gGrid->Cd(fGridWorkingDir); | |
396 | Info("CreateJDL", "\n##### Created alien working directory %s", fGridWorkingDir.Data()); | |
397 | } else { | |
398 | Warning("CreateJDL", "Working directory %s cannot be created.\n Using %s instead.", | |
399 | workdir.Data(), homedir.Data()); | |
400 | fGridWorkingDir = ""; | |
401 | } | |
c57f56b7 | 402 | } |
403 | ||
348be253 | 404 | //______________________________________________________________________________ |
405 | Bool_t AliAnalysisAlien::CheckFileCopy(const char *alienpath) | |
406 | { | |
407 | // Check if file copying is possible. | |
408 | if (!Connect()) { | |
409 | Error("CheckFileCopy", "Not connected to AliEn. File copying cannot be tested."); | |
410 | return kFALSE; | |
411 | } | |
d3339be3 | 412 | Info("CheckFileCopy", "Checking possibility to copy files to your AliEn home directory... \ |
413 | \n +++ NOTE: You can disable this via: plugin->SetCheckCopy(kFALSE);"); | |
348be253 | 414 | // Check if alien_CLOSE_SE is defined |
415 | TString closeSE = gSystem->Getenv("alien_CLOSE_SE"); | |
416 | if (!closeSE.IsNull()) { | |
417 | Info("CheckFileCopy", "Your current close storage is pointing to: \ | |
418 | \n alien_CLOSE_SE = \"%s\"", closeSE.Data()); | |
419 | } else { | |
420 | Warning("CheckFileCopy", "Your current close storage is empty ! Depending on your location, file copying may fail."); | |
421 | } | |
422 | // Check if grid directory exists. | |
423 | if (!DirectoryExists(alienpath)) { | |
424 | Error("CheckFileCopy", "Alien path %s does not seem to exist", alienpath); | |
425 | return kFALSE; | |
426 | } | |
d3339be3 | 427 | TFile f("plugin_test_copy", "RECREATE"); |
348be253 | 428 | // User may not have write permissions to current directory |
429 | if (f.IsZombie()) { | |
430 | Error("CheckFileCopy", "Cannot create local test file. Do you have write access to current directory: <%s> ?", | |
431 | gSystem->WorkingDirectory()); | |
432 | return kFALSE; | |
433 | } | |
434 | f.Close(); | |
d3339be3 | 435 | if (FileExists(Form("alien://%s/%s",alienpath, f.GetName()))) gGrid->Rm(Form("alien://%s/%s",alienpath, f.GetName())); |
436 | if (!TFile::Cp(f.GetName(), Form("alien://%s/%s",alienpath, f.GetName()))) { | |
437 | Error("CheckFileCopy", "Cannot copy files to Alien destination: <%s> This may be temporary, or: \ | |
348be253 | 438 | \n# 1. Make sure you have write permissions there. If this is the case: \ |
439 | \n# 2. Check the storage availability at: http://alimonitor.cern.ch/stats?page=SE/table \ | |
440 | \n# Do: export alien_CLOSE_SE=\"working_disk_SE\" \ | |
441 | \n# To make this permanent put in in your .bashrc (in .alienshrc is not enough) \ | |
442 | \n# Redo token: rm /tmp/x509up_u$UID then: alien-token-init <username>", alienpath); | |
443 | gSystem->Unlink(f.GetName()); | |
444 | return kFALSE; | |
445 | } | |
446 | gSystem->Unlink(f.GetName()); | |
d3339be3 | 447 | gGrid->Rm(Form("%s%s",alienpath,f.GetName())); |
448 | Info("CheckFileCopy", "### ...SUCCESS ###"); | |
348be253 | 449 | return kTRUE; |
450 | } | |
451 | ||
c57f56b7 | 452 | //______________________________________________________________________________ |
453 | Bool_t AliAnalysisAlien::CheckInputData() | |
454 | { | |
455 | // Check validity of input data. If necessary, create xml files. | |
a8739e8a | 456 | if (!fInputFiles && !fRunNumbers.Length() && !fRunRange[0]) { |
d2a409b2 | 457 | if (!fGridDataDir.Length()) { |
458 | Error("CkeckInputData", "AliEn path to base data directory must be set.\n = Use: SetGridDataDir()"); | |
459 | return kFALSE; | |
460 | } | |
461 | Info("CheckInputData", "Analysis will make a single xml for base data directory %s",fGridDataDir.Data()); | |
462 | return kTRUE; | |
c57f56b7 | 463 | } |
464 | // Process declared files | |
465 | Bool_t is_collection = kFALSE; | |
466 | Bool_t is_xml = kFALSE; | |
467 | Bool_t use_tags = kFALSE; | |
468 | Bool_t checked = kFALSE; | |
469 | CdWork(); | |
470 | TString file; | |
471 | TString workdir = gGrid->GetHomeDirectory(); | |
472 | workdir += fGridWorkingDir; | |
473 | if (fInputFiles) { | |
474 | TObjString *objstr; | |
475 | TIter next(fInputFiles); | |
476 | while ((objstr=(TObjString*)next())) { | |
477 | file = workdir; | |
478 | file += "/"; | |
479 | file += objstr->GetString(); | |
480 | // Store full lfn path | |
481 | if (FileExists(file)) objstr->SetString(file); | |
482 | else { | |
483 | file = objstr->GetName(); | |
484 | if (!FileExists(objstr->GetName())) { | |
485 | Error("CheckInputData", "Data file %s not found or not in your working dir: %s", | |
486 | objstr->GetName(), workdir.Data()); | |
487 | return kFALSE; | |
488 | } | |
489 | } | |
490 | Bool_t iscoll, isxml, usetags; | |
491 | CheckDataType(file, iscoll, isxml, usetags); | |
492 | if (!checked) { | |
493 | checked = kTRUE; | |
494 | is_collection = iscoll; | |
495 | is_xml = isxml; | |
496 | use_tags = usetags; | |
497 | TObject::SetBit(AliAnalysisGrid::kUseTags, use_tags); | |
498 | } else { | |
499 | if ((iscoll != is_collection) || (isxml != is_xml) || (usetags != use_tags)) { | |
500 | Error("CheckInputData", "Some conflict was found in the types of inputs"); | |
501 | return kFALSE; | |
502 | } | |
503 | } | |
504 | } | |
505 | } | |
506 | // Process requested run numbers | |
a8739e8a | 507 | if (!fRunNumbers.Length() && !fRunRange[0]) return kTRUE; |
c57f56b7 | 508 | // Check validity of alien data directory |
509 | if (!fGridDataDir.Length()) { | |
510 | Error("CkeckInputData", "AliEn path to base data directory must be set.\n = Use: SetGridDataDir()"); | |
511 | return kFALSE; | |
512 | } | |
923e2ca5 | 513 | if (!DirectoryExists(fGridDataDir)) { |
c57f56b7 | 514 | Error("CheckInputData", "Data directory %s not existing.", fGridDataDir.Data()); |
515 | return kFALSE; | |
516 | } | |
517 | if (is_collection) { | |
518 | Error("CheckInputData", "You are using raw AliEn collections as input. Cannot process run numbers."); | |
519 | return kFALSE; | |
520 | } | |
521 | ||
522 | if (checked && !is_xml) { | |
523 | Error("CheckInputData", "Cannot mix processing of full runs with non-xml files"); | |
524 | return kFALSE; | |
525 | } | |
526 | // Check validity of run number(s) | |
527 | TObjArray *arr; | |
528 | TObjString *os; | |
319593fb | 529 | Int_t nruns = 0; |
904f9f5f | 530 | TString schunk, schunk2; |
c57f56b7 | 531 | TString path; |
532 | if (!checked) { | |
533 | checked = kTRUE; | |
534 | use_tags = fDataPattern.Contains("tag"); | |
535 | TObject::SetBit(AliAnalysisGrid::kUseTags, use_tags); | |
536 | } | |
537 | if (use_tags != fDataPattern.Contains("tag")) { | |
538 | Error("CheckInputData", "Cannot mix input files using/not using tags"); | |
539 | return kFALSE; | |
540 | } | |
541 | if (fRunNumbers.Length()) { | |
a8739e8a | 542 | Info("CheckDataType", "Using supplied run numbers (run ranges are ignored)"); |
c57f56b7 | 543 | arr = fRunNumbers.Tokenize(" "); |
544 | TIter next(arr); | |
545 | while ((os=(TObjString*)next())) { | |
546 | path = Form("%s/%s ", fGridDataDir.Data(), os->GetString().Data()); | |
923e2ca5 | 547 | if (!DirectoryExists(path)) { |
548 | Warning("CheckInputData", "Run number %s not found in path: <%s>", os->GetString().Data(), path.Data()); | |
a8739e8a | 549 | continue; |
c57f56b7 | 550 | } |
551 | path = Form("%s/%s.xml", workdir.Data(),os->GetString().Data()); | |
552 | TString msg = "\n##### file: "; | |
553 | msg += path; | |
554 | msg += " type: xml_collection;"; | |
555 | if (use_tags) msg += " using_tags: Yes"; | |
556 | else msg += " using_tags: No"; | |
557 | Info("CheckDataType", msg.Data()); | |
319593fb | 558 | if (fNrunsPerMaster<2) { |
d2a409b2 | 559 | AddDataFile(Form("%s.xml", os->GetString().Data())); |
319593fb | 560 | } else { |
561 | nruns++; | |
562 | if (((nruns-1)%fNrunsPerMaster) == 0) { | |
563 | schunk = os->GetString(); | |
564 | } | |
565 | if ((nruns%fNrunsPerMaster)!=0 && os!=arr->Last()) continue; | |
566 | schunk += Form("_%s.xml", os->GetString().Data()); | |
d2a409b2 | 567 | AddDataFile(schunk); |
319593fb | 568 | } |
c57f56b7 | 569 | } |
570 | delete arr; | |
a8739e8a | 571 | } else { |
572 | Info("CheckDataType", "Using run range [%d, %d]", fRunRange[0], fRunRange[1]); | |
573 | for (Int_t irun=fRunRange[0]; irun<=fRunRange[1]; irun++) { | |
5fce53f4 | 574 | path = Form("%s/%s%d ", fGridDataDir.Data(), fRunPrefix.Data(), irun); |
923e2ca5 | 575 | if (!DirectoryExists(path)) { |
576 | // Warning("CheckInputData", "Run number %d not found in path: <%s>", irun, path.Data()); | |
a8739e8a | 577 | continue; |
578 | } | |
5fce53f4 | 579 | path = Form("%s/%s%d.xml", workdir.Data(),fRunPrefix.Data(),irun); |
a8739e8a | 580 | TString msg = "\n##### file: "; |
581 | msg += path; | |
582 | msg += " type: xml_collection;"; | |
583 | if (use_tags) msg += " using_tags: Yes"; | |
584 | else msg += " using_tags: No"; | |
585 | Info("CheckDataType", msg.Data()); | |
319593fb | 586 | if (fNrunsPerMaster<2) { |
5fce53f4 | 587 | AddDataFile(Form("%s%d.xml",fRunPrefix.Data(),irun)); |
319593fb | 588 | } else { |
589 | nruns++; | |
590 | if (((nruns-1)%fNrunsPerMaster) == 0) { | |
5fce53f4 | 591 | schunk = Form("%s%d", fRunPrefix.Data(),irun); |
319593fb | 592 | } |
904f9f5f | 593 | schunk2 = Form("_%s%d.xml", fRunPrefix.Data(), irun); |
319593fb | 594 | if ((nruns%fNrunsPerMaster)!=0 && irun != fRunRange[1]) continue; |
904f9f5f | 595 | schunk += schunk2; |
d2a409b2 | 596 | AddDataFile(schunk); |
319593fb | 597 | } |
a8739e8a | 598 | } |
904f9f5f | 599 | if (!fInputFiles) { |
600 | schunk += schunk2; | |
601 | AddDataFile(schunk); | |
602 | } | |
c57f56b7 | 603 | } |
604 | return kTRUE; | |
605 | } | |
606 | ||
607 | //______________________________________________________________________________ | |
608 | Bool_t AliAnalysisAlien::CreateDataset(const char *pattern) | |
609 | { | |
610 | // Create dataset for the grid data directory + run number. | |
f9e1936d | 611 | if (TestBit(AliAnalysisGrid::kOffline)) return kTRUE; |
c57f56b7 | 612 | if (!Connect()) { |
613 | Error("CreateDataset", "Cannot create dataset with no grid connection"); | |
614 | return kFALSE; | |
615 | } | |
616 | ||
617 | // Cd workspace | |
618 | CdWork(); | |
619 | TString workdir = gGrid->GetHomeDirectory(); | |
620 | workdir += fGridWorkingDir; | |
621 | ||
622 | // Compose the 'find' command arguments | |
623 | TString command; | |
624 | TString options = "-x collection "; | |
bb885a9e | 625 | if (TestBit(AliAnalysisGrid::kTest)) options += Form("-l %d ", fNtestFiles); |
c57f56b7 | 626 | TString conditions = ""; |
627 | ||
628 | TString file; | |
629 | TString path; | |
319593fb | 630 | Int_t nruns = 0; |
904f9f5f | 631 | TString schunk, schunk2; |
ab254fd1 | 632 | TGridCollection *cbase=0, *cadd=0; |
d2a409b2 | 633 | if (!fRunNumbers.Length() && !fRunRange[0]) { |
634 | if (fInputFiles && fInputFiles->GetEntries()) return kTRUE; | |
635 | // Make a single data collection from data directory. | |
636 | path = fGridDataDir; | |
923e2ca5 | 637 | if (!DirectoryExists(path)) { |
d2a409b2 | 638 | Error("CreateDataset", "Path to data directory %s not valid",fGridDataDir.Data()); |
639 | return kFALSE; | |
640 | } | |
923e2ca5 | 641 | // CdWork(); |
d2a409b2 | 642 | if (TestBit(AliAnalysisGrid::kTest)) file = "wn.xml"; |
643 | else file = Form("%s.xml", gSystem->BaseName(path)); | |
0f389141 | 644 | if (gSystem->AccessPathName(file) || TestBit(AliAnalysisGrid::kTest) || fOverwriteMode) { |
d2a409b2 | 645 | command = "find "; |
646 | command += options; | |
647 | command += path; | |
648 | command += " "; | |
649 | command += pattern; | |
650 | command += conditions; | |
84fcd93f | 651 | printf("command: %s\n", command.Data()); |
d2a409b2 | 652 | TGridResult *res = gGrid->Command(command); |
653 | if (res) delete res; | |
654 | // Write standard output to file | |
655 | gROOT->ProcessLine(Form("gGrid->Stdout(); > %s", file.Data())); | |
d3339be3 | 656 | Bool_t has_grep = (gSystem->Exec("grep --version 2>/dev/null > /dev/null")==0)?kTRUE:kFALSE; |
657 | Bool_t null_file = kFALSE; | |
658 | if (!has_grep) { | |
659 | Warning("CreateDataset", "'grep' command not available on this system - cannot validate the result of the grid 'find' command"); | |
660 | } else { | |
661 | null_file = (gSystem->Exec(Form("grep /event %s 2>/dev/null > /dev/null",file.Data()))==0)?kFALSE:kTRUE; | |
defd7a3a | 662 | if (null_file) { |
663 | Error("CreateDataset","Dataset %s produced by the previous find command is empty !", file.Data()); | |
664 | return kFALSE; | |
665 | } | |
d3339be3 | 666 | } |
0f389141 | 667 | } |
668 | Bool_t fileExists = FileExists(file); | |
669 | if (!TestBit(AliAnalysisGrid::kTest) && (!fileExists || fOverwriteMode)) { | |
d2a409b2 | 670 | // Copy xml file to alien space |
0f389141 | 671 | if (fileExists) gGrid->Rm(file); |
d2a409b2 | 672 | TFile::Cp(Form("file:%s",file.Data()), Form("alien://%s/%s",workdir.Data(), file.Data())); |
673 | if (!FileExists(file)) { | |
674 | Error("CreateDataset", "Command %s did NOT succeed", command.Data()); | |
675 | return kFALSE; | |
676 | } | |
677 | // Update list of files to be processed. | |
678 | } | |
679 | AddDataFile(Form("%s/%s", workdir.Data(), file.Data())); | |
680 | return kTRUE; | |
681 | } | |
c57f56b7 | 682 | // Several runs |
d3339be3 | 683 | Bool_t null_result = kTRUE; |
a8739e8a | 684 | if (fRunNumbers.Length()) { |
685 | TObjArray *arr = fRunNumbers.Tokenize(" "); | |
686 | TObjString *os; | |
687 | TIter next(arr); | |
688 | while ((os=(TObjString*)next())) { | |
689 | path = Form("%s/%s ", fGridDataDir.Data(), os->GetString().Data()); | |
923e2ca5 | 690 | if (!DirectoryExists(path)) continue; |
691 | // CdWork(); | |
a8739e8a | 692 | if (TestBit(AliAnalysisGrid::kTest)) file = "wn.xml"; |
693 | else file = Form("%s.xml", os->GetString().Data()); | |
319593fb | 694 | // If local collection file does not exist, create it via 'find' command. |
d3339be3 | 695 | if (gSystem->AccessPathName(file) || TestBit(AliAnalysisGrid::kTest) || fOverwriteMode) { |
319593fb | 696 | command = "find "; |
697 | command += options; | |
698 | command += path; | |
699 | command += pattern; | |
700 | command += conditions; | |
701 | TGridResult *res = gGrid->Command(command); | |
702 | if (res) delete res; | |
703 | // Write standard output to file | |
704 | gROOT->ProcessLine(Form("gGrid->Stdout(); > %s", file.Data())); | |
d3339be3 | 705 | Bool_t has_grep = (gSystem->Exec("grep --version 2>/dev/null > /dev/null")==0)?kTRUE:kFALSE; |
706 | Bool_t null_file = kFALSE; | |
707 | if (!has_grep) { | |
708 | Warning("CreateDataset", "'grep' command not available on this system - cannot validate the result of the grid 'find' command"); | |
709 | } else { | |
710 | null_file = (gSystem->Exec(Form("grep /event %s 2>/dev/null > /dev/null",file.Data()))==0)?kFALSE:kTRUE; | |
defd7a3a | 711 | if (null_file) { |
712 | Warning("CreateDataset","Dataset %s produced by: <%s> is empty !", file.Data(), command.Data()); | |
713 | fRunNumbers.ReplaceAll(os->GetString().Data(), ""); | |
714 | continue; | |
715 | } | |
d3339be3 | 716 | } |
717 | null_result = kFALSE; | |
718 | } | |
a8739e8a | 719 | if (TestBit(AliAnalysisGrid::kTest)) break; |
319593fb | 720 | // Check if there is one run per master job. |
721 | if (fNrunsPerMaster<2) { | |
722 | if (FileExists(file)) { | |
0f389141 | 723 | if (fOverwriteMode) gGrid->Rm(file); |
724 | else { | |
725 | Info("CreateDataset", "\n##### Dataset %s exist. Skipping creation...", file.Data()); | |
726 | continue; | |
727 | } | |
319593fb | 728 | } |
729 | // Copy xml file to alien space | |
730 | TFile::Cp(Form("file:%s",file.Data()), Form("alien://%s/%s",workdir.Data(), file.Data())); | |
731 | if (!FileExists(file)) { | |
732 | Error("CreateDataset", "Command %s did NOT succeed", command.Data()); | |
733 | delete arr; | |
734 | return kFALSE; | |
735 | } | |
736 | } else { | |
737 | nruns++; | |
738 | if (((nruns-1)%fNrunsPerMaster) == 0) { | |
739 | schunk = os->GetString(); | |
740 | cbase = (TGridCollection*)gROOT->ProcessLine(Form("new TAlienCollection(\"%s\", 1000000);",file.Data())); | |
741 | } else { | |
742 | cadd = (TGridCollection*)gROOT->ProcessLine(Form("new TAlienCollection(\"%s\", 1000000);",file.Data())); | |
84fcd93f | 743 | printf(" Merging collection <%s> into masterjob input...\n", file.Data()); |
319593fb | 744 | cbase->Add(cadd); |
745 | delete cadd; | |
746 | } | |
747 | if ((nruns%fNrunsPerMaster)!=0 && os!=arr->Last()) { | |
748 | continue; | |
749 | } | |
750 | schunk += Form("_%s.xml", os->GetString().Data()); | |
0f389141 | 751 | if (FileExists(schunk)) { |
752 | if (fOverwriteMode) gGrid->Rm(file); | |
753 | else { | |
754 | Info("CreateDataset", "\n##### Dataset %s exist. Skipping creation...", schunk.Data()); | |
755 | continue; | |
756 | } | |
319593fb | 757 | } |
84fcd93f | 758 | printf("Exporting merged collection <%s> and copying to AliEn\n", schunk.Data()); |
319593fb | 759 | cbase->ExportXML(Form("file://%s", schunk.Data()),kFALSE,kFALSE, schunk, "Merged runs"); |
e95434bc | 760 | TFile::Cp(Form("file:%s",schunk.Data()), Form("alien://%s/%s",workdir.Data(), schunk.Data())); |
319593fb | 761 | if (!FileExists(schunk)) { |
762 | Error("CreateDataset", "Copy command did NOT succeed for %s", schunk.Data()); | |
763 | delete arr; | |
764 | return kFALSE; | |
765 | } | |
d3339be3 | 766 | } |
a8739e8a | 767 | } |
768 | delete arr; | |
d3339be3 | 769 | if (null_result) { |
770 | Error("CreateDataset", "No valid dataset corresponding to the query!"); | |
771 | return kFALSE; | |
772 | } | |
a8739e8a | 773 | } else { |
774 | // Process a full run range. | |
775 | for (Int_t irun=fRunRange[0]; irun<=fRunRange[1]; irun++) { | |
5fce53f4 | 776 | path = Form("%s/%s%d ", fGridDataDir.Data(), fRunPrefix.Data(), irun); |
923e2ca5 | 777 | if (!DirectoryExists(path)) continue; |
778 | // CdWork(); | |
a8739e8a | 779 | if (TestBit(AliAnalysisGrid::kTest)) file = "wn.xml"; |
5fce53f4 | 780 | else file = Form("%s%d.xml", fRunPrefix.Data(), irun); |
0f389141 | 781 | if (FileExists(file) && fNrunsPerMaster<2 && !TestBit(AliAnalysisGrid::kTest)) { |
782 | if (fOverwriteMode) gGrid->Rm(file); | |
783 | else { | |
784 | Info("CreateDataset", "\n##### Dataset %s exist. Skipping creation...", file.Data()); | |
785 | continue; | |
786 | } | |
a8739e8a | 787 | } |
319593fb | 788 | // If local collection file does not exist, create it via 'find' command. |
d3339be3 | 789 | if (gSystem->AccessPathName(file) || TestBit(AliAnalysisGrid::kTest) || fOverwriteMode) { |
319593fb | 790 | command = "find "; |
791 | command += options; | |
792 | command += path; | |
793 | command += pattern; | |
794 | command += conditions; | |
795 | TGridResult *res = gGrid->Command(command); | |
796 | if (res) delete res; | |
797 | // Write standard output to file | |
798 | gROOT->ProcessLine(Form("gGrid->Stdout(); > %s", file.Data())); | |
d3339be3 | 799 | Bool_t has_grep = (gSystem->Exec("grep --version 2>/dev/null > /dev/null")==0)?kTRUE:kFALSE; |
800 | Bool_t null_file = kFALSE; | |
801 | if (!has_grep) { | |
802 | Warning("CreateDataset", "'grep' command not available on this system - cannot validate the result of the grid 'find' command"); | |
803 | } else { | |
804 | null_file = (gSystem->Exec(Form("grep /event %s 2>/dev/null > /dev/null",file.Data()))==0)?kFALSE:kTRUE; | |
defd7a3a | 805 | if (null_file) { |
806 | Warning("CreateDataset","Dataset %s produced by: <%s> is empty !", file.Data(), command.Data()); | |
807 | continue; | |
808 | } | |
d3339be3 | 809 | } |
810 | null_result = kFALSE; | |
319593fb | 811 | } |
a8739e8a | 812 | if (TestBit(AliAnalysisGrid::kTest)) break; |
319593fb | 813 | // Check if there is one run per master job. |
814 | if (fNrunsPerMaster<2) { | |
815 | if (FileExists(file)) { | |
0f389141 | 816 | if (fOverwriteMode) gGrid->Rm(file); |
817 | else { | |
818 | Info("CreateDataset", "\n##### Dataset %s exist. Skipping creation...", file.Data()); | |
819 | continue; | |
820 | } | |
319593fb | 821 | } |
822 | // Copy xml file to alien space | |
823 | TFile::Cp(Form("file:%s",file.Data()), Form("alien://%s/%s",workdir.Data(), file.Data())); | |
824 | if (!FileExists(file)) { | |
825 | Error("CreateDataset", "Command %s did NOT succeed", command.Data()); | |
826 | return kFALSE; | |
827 | } | |
828 | } else { | |
829 | nruns++; | |
95e5b448 | 830 | // Check if the collection for the chunk exist locally. |
831 | Int_t nchunk = (nruns-1)/fNrunsPerMaster; | |
0f389141 | 832 | if (FileExists(fInputFiles->At(nchunk)->GetName())) { |
833 | if (fOverwriteMode) gGrid->Rm(fInputFiles->At(nchunk)->GetName()); | |
834 | else continue; | |
835 | } | |
84fcd93f | 836 | printf(" Merging collection <%s> into %d runs chunk...\n",file.Data(),fNrunsPerMaster); |
319593fb | 837 | if (((nruns-1)%fNrunsPerMaster) == 0) { |
904f9f5f | 838 | schunk = Form("%s%d", fRunPrefix.Data(), irun); |
319593fb | 839 | cbase = (TGridCollection*)gROOT->ProcessLine(Form("new TAlienCollection(\"%s\", 1000000);",file.Data())); |
840 | } else { | |
841 | cadd = (TGridCollection*)gROOT->ProcessLine(Form("new TAlienCollection(\"%s\", 1000000);",file.Data())); | |
842 | cbase->Add(cadd); | |
843 | delete cadd; | |
844 | } | |
904f9f5f | 845 | schunk2 = Form("%s_%s%d.xml", schunk.Data(), fRunPrefix.Data(), irun); |
846 | if ((nruns%fNrunsPerMaster)!=0 && irun!=fRunRange[1] && schunk2 != fInputFiles->Last()->GetName()) { | |
319593fb | 847 | continue; |
848 | } | |
904f9f5f | 849 | schunk = schunk2; |
319593fb | 850 | if (FileExists(schunk)) { |
0f389141 | 851 | if (fOverwriteMode) gGrid->Rm(schunk); |
852 | else { | |
853 | Info("CreateDataset", "\n##### Dataset %s exist. Skipping creation...", schunk.Data()); | |
854 | continue; | |
855 | } | |
319593fb | 856 | } |
84fcd93f | 857 | printf("Exporting merged collection <%s> and copying to AliEn.\n", schunk.Data()); |
319593fb | 858 | cbase->ExportXML(Form("file://%s", schunk.Data()),kFALSE,kFALSE, schunk, "Merged runs"); |
95e5b448 | 859 | if (FileExists(schunk)) { |
0f389141 | 860 | if (fOverwriteMode) gGrid->Rm(schunk); |
861 | else { | |
862 | Info("CreateDataset", "\n##### Dataset %s exist. Skipping copy...", schunk.Data()); | |
863 | continue; | |
864 | } | |
95e5b448 | 865 | } |
319593fb | 866 | TFile::Cp(Form("file:%s",schunk.Data()), Form("alien://%s/%s",workdir.Data(), schunk.Data())); |
867 | if (!FileExists(schunk)) { | |
868 | Error("CreateDataset", "Copy command did NOT succeed for %s", schunk.Data()); | |
869 | return kFALSE; | |
870 | } | |
871 | } | |
c57f56b7 | 872 | } |
d3339be3 | 873 | if (null_result) { |
874 | Error("CreateDataset", "No valid dataset corresponding to the query!"); | |
875 | return kFALSE; | |
876 | } | |
a8739e8a | 877 | } |
c57f56b7 | 878 | return kTRUE; |
879 | } | |
880 | ||
881 | //______________________________________________________________________________ | |
882 | Bool_t AliAnalysisAlien::CreateJDL() | |
883 | { | |
884 | // Generate a JDL file according to current settings. The name of the file is | |
885 | // specified by fJDLName. | |
886 | Bool_t error = kFALSE; | |
887 | TObjArray *arr = 0; | |
888 | Bool_t copy = kTRUE; | |
889 | if (TestBit(AliAnalysisGrid::kOffline) || TestBit(AliAnalysisGrid::kTest)) copy = kFALSE; | |
890 | Bool_t generate = kTRUE; | |
891 | if (TestBit(AliAnalysisGrid::kTest) || TestBit(AliAnalysisGrid::kSubmit)) generate = kFALSE; | |
892 | if (!Connect()) { | |
893 | Error("CreateJDL", "Alien connection required"); | |
894 | return kFALSE; | |
895 | } | |
896 | // Check validity of alien workspace | |
897 | CdWork(); | |
898 | TString workdir = gGrid->GetHomeDirectory(); | |
899 | workdir += fGridWorkingDir; | |
900 | if (generate) { | |
901 | TObjString *os; | |
902 | if (!fInputFiles) { | |
903 | Error("CreateJDL()", "Define some input files for your analysis."); | |
904 | error = kTRUE; | |
905 | } | |
906 | // Compose list of input files | |
907 | // Check if output files were defined | |
908 | if (!fOutputFiles.Length()) { | |
909 | Error("CreateJDL", "You must define at least one output file"); | |
910 | error = kTRUE; | |
911 | } | |
912 | // Check if an output directory was defined and valid | |
913 | if (!fGridOutputDir.Length()) { | |
914 | Error("CreateJDL", "You must define AliEn output directory"); | |
915 | error = kTRUE; | |
916 | } else { | |
d2a409b2 | 917 | if (!fGridOutputDir.Contains("/")) fGridOutputDir = Form("%s/%s", workdir.Data(), fGridOutputDir.Data()); |
923e2ca5 | 918 | if (!DirectoryExists(fGridOutputDir)) { |
c57f56b7 | 919 | if (gGrid->Mkdir(fGridOutputDir)) { |
920 | Info("CreateJDL", "\n##### Created alien output directory %s", fGridOutputDir.Data()); | |
921 | } else { | |
922 | Error("CreateJDL", "Could not create alien output directory %s", fGridOutputDir.Data()); | |
5513444a | 923 | // error = kTRUE; |
c57f56b7 | 924 | } |
925 | } | |
926 | gGrid->Cd(workdir); | |
927 | } | |
928 | // Exit if any error up to now | |
929 | if (error) return kFALSE; | |
930 | // Set JDL fields | |
0f389141 | 931 | if (!fUser.IsNull()) { |
932 | fGridJDL->SetValue("User", Form("\"%s\"", fUser.Data())); | |
933 | fMergingJDL->SetValue("User", Form("\"%s\"", fUser.Data())); | |
934 | } | |
935 | fGridJDL->SetExecutable(fExecutable, "This is the startup script"); | |
936 | TString mergeExec = fExecutable; | |
937 | mergeExec.ReplaceAll(".sh", "_merge.sh"); | |
938 | fMergingJDL->SetExecutable(mergeExec, "This is the startup script"); | |
939 | mergeExec.ReplaceAll(".sh", ".C"); | |
940 | fMergingJDL->AddToInputSandbox(Form("LF:%s/%s", workdir.Data(),mergeExec.Data()), "List of input files to be uploaded to workers"); | |
b5b9dee8 | 941 | if (!fArguments.IsNull()) |
942 | fGridJDL->SetArguments(fArguments, "Arguments for the executable command"); | |
1f0d1ca2 | 943 | fMergingJDL->SetArguments("$1"); |
944 | fGridJDL->SetValue("TTL", Form("\"%d\"",fTTL)); | |
945 | fGridJDL->SetDescription("TTL", Form("Time after which the job is killed (%d min.)", fTTL/60)); | |
946 | fMergingJDL->SetValue("TTL", Form("\"%d\"",fTTL)); | |
947 | fMergingJDL->SetDescription("TTL", Form("Time after which the job is killed (%d min.)", fTTL/60)); | |
948 | ||
0f389141 | 949 | if (fMaxInitFailed > 0) { |
c57f56b7 | 950 | fGridJDL->SetValue("MaxInitFailed", Form("\"%d\"",fMaxInitFailed)); |
0f389141 | 951 | fGridJDL->SetDescription("MaxInitFailed", "Maximum number of first failing jobs to abort the master job"); |
952 | } | |
953 | if (fSplitMaxInputFileNumber > 0) { | |
c57f56b7 | 954 | fGridJDL->SetValue("SplitMaxInputFileNumber", Form("\"%d\"", fSplitMaxInputFileNumber)); |
0f389141 | 955 | fGridJDL->SetDescription("SplitMaxInputFileNumber", "Maximum number of input files to be processed per subjob"); |
956 | } | |
957 | if (fSplitMode.Length()) { | |
c57f56b7 | 958 | fGridJDL->SetValue("Split", Form("\"%s\"", fSplitMode.Data())); |
0f389141 | 959 | fGridJDL->SetDescription("Split", "We split per SE or file"); |
960 | } | |
961 | if (!fAliROOTVersion.IsNull()) { | |
962 | fGridJDL->AddToPackages("AliRoot", fAliROOTVersion,"VO_ALICE", "List of requested packages"); | |
963 | fMergingJDL->AddToPackages("AliRoot", fAliROOTVersion, "VO_ALICE", "List of requested packages"); | |
964 | } | |
965 | if (!fROOTVersion.IsNull()) { | |
c57f56b7 | 966 | fGridJDL->AddToPackages("ROOT", fROOTVersion); |
0f389141 | 967 | fMergingJDL->AddToPackages("ROOT", fROOTVersion); |
968 | } | |
969 | if (!fAPIVersion.IsNull()) { | |
c57f56b7 | 970 | fGridJDL->AddToPackages("APISCONFIG", fAPIVersion); |
0f389141 | 971 | fMergingJDL->AddToPackages("APISCONFIG", fAPIVersion); |
972 | } | |
648174cf | 973 | if (!fExternalPackages.IsNull()) { |
974 | arr = fExternalPackages.Tokenize(" "); | |
975 | TIter next(arr); | |
976 | while ((os=(TObjString*)next())) { | |
977 | TString pkgname = os->GetString(); | |
978 | Int_t index = pkgname.Index("::"); | |
979 | TString pkgversion = pkgname(index+2, pkgname.Length()); | |
980 | pkgname.Remove(index); | |
981 | fGridJDL->AddToPackages(pkgname, pkgversion); | |
0f389141 | 982 | fMergingJDL->AddToPackages(pkgname, pkgversion); |
648174cf | 983 | } |
984 | delete arr; | |
985 | } | |
0f389141 | 986 | fGridJDL->SetInputDataListFormat(fInputFormat, "Format of input data"); |
987 | fGridJDL->SetInputDataList("wn.xml", "Collection name to be processed on each worker node"); | |
988 | fGridJDL->AddToInputSandbox(Form("LF:%s/%s", workdir.Data(), fAnalysisMacro.Data()), "List of input files to be uploaded to workers"); | |
f10e8481 | 989 | TString analysisFile = fExecutable; |
990 | analysisFile.ReplaceAll(".sh", ".root"); | |
991 | fGridJDL->AddToInputSandbox(Form("LF:%s/%s", workdir.Data(),analysisFile.Data())); | |
f866cba5 | 992 | fMergingJDL->AddToInputSandbox(Form("LF:%s/%s", workdir.Data(),analysisFile.Data())); |
c57f56b7 | 993 | if (IsUsingTags() && !gSystem->AccessPathName("ConfigureCuts.C")) |
994 | fGridJDL->AddToInputSandbox(Form("LF:%s/ConfigureCuts.C", workdir.Data())); | |
995 | if (fAdditionalLibs.Length()) { | |
996 | arr = fAdditionalLibs.Tokenize(" "); | |
997 | TIter next(arr); | |
998 | while ((os=(TObjString*)next())) { | |
999 | if (os->GetString().Contains(".so")) continue; | |
1000 | fGridJDL->AddToInputSandbox(Form("LF:%s/%s", workdir.Data(), os->GetString().Data())); | |
0f389141 | 1001 | fMergingJDL->AddToInputSandbox(Form("LF:%s/%s", workdir.Data(), os->GetString().Data())); |
c57f56b7 | 1002 | } |
1003 | delete arr; | |
1004 | } | |
4e5c5506 | 1005 | if (fPackages) { |
1006 | TIter next(fPackages); | |
1007 | TObject *obj; | |
0f389141 | 1008 | while ((obj=next())) { |
4e5c5506 | 1009 | fGridJDL->AddToInputSandbox(Form("LF:%s/%s", workdir.Data(), obj->GetName())); |
0f389141 | 1010 | fMergingJDL->AddToInputSandbox(Form("LF:%s/%s", workdir.Data(), obj->GetName())); |
1011 | } | |
4e5c5506 | 1012 | } |
c57f56b7 | 1013 | if (fOutputArchive.Length()) { |
1014 | arr = fOutputArchive.Tokenize(" "); | |
1015 | TIter next(arr); | |
0f389141 | 1016 | Bool_t first = kTRUE; |
1017 | const char *comment = "Files to be archived"; | |
1018 | const char *comment1 = comment; | |
1019 | while ((os=(TObjString*)next())) { | |
1020 | if (!first) comment = NULL; | |
1021 | if (!os->GetString().Contains("@") && fCloseSE.Length()) | |
1022 | fGridJDL->AddToOutputArchive(Form("%s@%s",os->GetString().Data(), fCloseSE.Data()), comment); | |
1023 | else | |
1024 | fGridJDL->AddToOutputArchive(os->GetString(), comment); | |
1025 | first = kFALSE; | |
1026 | } | |
c57f56b7 | 1027 | delete arr; |
0f389141 | 1028 | TString outputArchive = fOutputArchive; |
1029 | if (!fMergeExcludes.IsNull()) { | |
1030 | arr = fMergeExcludes.Tokenize(" "); | |
705adb3e | 1031 | TIter next1(arr); |
1032 | while ((os=(TObjString*)next1())) { | |
0f389141 | 1033 | outputArchive.ReplaceAll(Form("%s,",os->GetString().Data()),""); |
1034 | outputArchive.ReplaceAll(os->GetString(),""); | |
1035 | } | |
1036 | delete arr; | |
1037 | } | |
1038 | arr = outputArchive.Tokenize(" "); | |
705adb3e | 1039 | TIter next2(arr); |
0f389141 | 1040 | comment = comment1; |
1041 | first = kTRUE; | |
705adb3e | 1042 | while ((os=(TObjString*)next2())) { |
0f389141 | 1043 | if (!first) comment = NULL; |
1044 | if (!os->GetString().Contains("@") && fCloseSE.Length()) | |
1045 | fMergingJDL->AddToOutputArchive(Form("%s@%s",os->GetString().Data(), fCloseSE.Data()), comment); | |
1046 | else | |
1047 | fMergingJDL->AddToOutputArchive(os->GetString(), comment); | |
1048 | first = kFALSE; | |
1049 | } | |
1050 | delete arr; | |
c57f56b7 | 1051 | } |
149d288c | 1052 | arr = fOutputFiles.Tokenize(","); |
c57f56b7 | 1053 | TIter next(arr); |
0f389141 | 1054 | Bool_t first = kTRUE; |
1055 | const char *comment = "Files to be archived"; | |
1056 | const char *comment1 = comment; | |
43da816a | 1057 | while ((os=(TObjString*)next())) { |
e1eaf596 | 1058 | // Ignore ouputs in jdl that are also in outputarchive |
1059 | TString sout = os->GetString(); | |
1060 | if (sout.Index("@")>0) sout.Remove(sout.Index("@")); | |
1061 | if (fOutputArchive.Contains(sout)) continue; | |
0f389141 | 1062 | if (!first) comment = NULL; |
43da816a | 1063 | if (!os->GetString().Contains("@") && fCloseSE.Length()) |
0f389141 | 1064 | fGridJDL->AddToOutputSandbox(Form("%s@%s",os->GetString().Data(), fCloseSE.Data()), comment); |
43da816a | 1065 | else |
0f389141 | 1066 | fGridJDL->AddToOutputSandbox(os->GetString(), comment); |
1067 | first = kFALSE; | |
43da816a | 1068 | } |
c57f56b7 | 1069 | delete arr; |
0f389141 | 1070 | if (fOutputFiles.Length()) { |
1071 | TString outputFiles = fOutputFiles; | |
1072 | if (!fMergeExcludes.IsNull()) { | |
1073 | arr = fMergeExcludes.Tokenize(" "); | |
705adb3e | 1074 | TIter next1(arr); |
1075 | while ((os=(TObjString*)next1())) { | |
0f389141 | 1076 | outputFiles.ReplaceAll(Form("%s,",os->GetString().Data()),""); |
1077 | outputFiles.ReplaceAll(os->GetString(),""); | |
1078 | } | |
1079 | delete arr; | |
1080 | } | |
1081 | arr = outputFiles.Tokenize(" "); | |
705adb3e | 1082 | TIter next2(arr); |
0f389141 | 1083 | comment = comment1; |
1084 | first = kTRUE; | |
705adb3e | 1085 | while ((os=(TObjString*)next2())) { |
0f389141 | 1086 | // Ignore ouputs in jdl that are also in outputarchive |
1087 | TString sout = os->GetString(); | |
1088 | if (sout.Index("@")>0) sout.Remove(sout.Index("@")); | |
1089 | if (fOutputArchive.Contains(sout)) continue; | |
1090 | if (!first) comment = NULL; | |
1091 | if (!os->GetString().Contains("@") && fCloseSE.Length()) | |
1092 | fMergingJDL->AddToOutputSandbox(Form("%s@%s",os->GetString().Data(), fCloseSE.Data()), comment); | |
1093 | else | |
1094 | fMergingJDL->AddToOutputSandbox(os->GetString(), comment); | |
1095 | } | |
1096 | delete arr; | |
1097 | } | |
1098 | fGridJDL->SetPrice((UInt_t)fPrice, "AliEn price for this job"); | |
1099 | fMergingJDL->SetPrice((UInt_t)fPrice, "AliEn price for this job"); | |
0d5d317c | 1100 | TString validationScript = fExecutable; |
1101 | validationScript.ReplaceAll(".sh", "_validation.sh"); | |
0f389141 | 1102 | fGridJDL->SetValidationCommand(Form("%s/%s", workdir.Data(),validationScript.Data()), "Validation script to be run for each subjob"); |
1103 | validationScript = fExecutable; | |
1104 | validationScript.ReplaceAll(".sh", "_mergevalidation.sh"); | |
1105 | fMergingJDL->SetValidationCommand(Form("%s/%s", workdir.Data(),validationScript.Data()), "Validation script to be run for each subjob"); | |
1106 | if (fMasterResubmitThreshold) { | |
1107 | fGridJDL->SetValue("MasterResubmitThreshold", Form("\"%d%%\"", fMasterResubmitThreshold)); | |
1108 | fGridJDL->SetDescription("MasterResubmitThreshold", "Resubmit failed jobs until DONE rate reaches this percentage"); | |
1109 | } | |
d2a409b2 | 1110 | // Write a jdl with 2 input parameters: collection name and output dir name. |
1111 | WriteJDL(copy); | |
c57f56b7 | 1112 | } |
1113 | // Copy jdl to grid workspace | |
a8739e8a | 1114 | if (copy) { |
b5e4aaa7 | 1115 | // Check if an output directory was defined and valid |
1116 | if (!fGridOutputDir.Length()) { | |
1117 | Error("CreateJDL", "You must define AliEn output directory"); | |
1118 | return kFALSE; | |
1119 | } else { | |
1120 | if (!fGridOutputDir.Contains("/")) fGridOutputDir = Form("%s/%s", workdir.Data(), fGridOutputDir.Data()); | |
bb2e67a0 | 1121 | if (!fProductionMode && !DirectoryExists(fGridOutputDir)) { |
b5e4aaa7 | 1122 | if (gGrid->Mkdir(fGridOutputDir)) { |
1123 | Info("CreateJDL", "\n##### Created alien output directory %s", fGridOutputDir.Data()); | |
1124 | } else { | |
1125 | Error("CreateJDL", "Could not create alien output directory %s", fGridOutputDir.Data()); | |
1126 | return kFALSE; | |
1127 | } | |
1128 | } | |
1129 | gGrid->Cd(workdir); | |
1130 | } | |
648174cf | 1131 | if (TestBit(AliAnalysisGrid::kSubmit)) { |
0f389141 | 1132 | TString mergeJDLName = fExecutable; |
1133 | mergeJDLName.ReplaceAll(".sh", "_merge.jdl"); | |
648174cf | 1134 | TString locjdl = Form("%s/%s", fGridOutputDir.Data(),fJDLName.Data()); |
0f389141 | 1135 | TString locjdl1 = Form("%s/%s", fGridOutputDir.Data(),mergeJDLName.Data()); |
1136 | if (fProductionMode) { | |
648174cf | 1137 | locjdl = Form("%s/%s", workdir.Data(),fJDLName.Data()); |
0f389141 | 1138 | locjdl1 = Form("%s/%s", workdir.Data(),mergeJDLName.Data()); |
1139 | } | |
648174cf | 1140 | if (FileExists(locjdl)) gGrid->Rm(locjdl); |
0f389141 | 1141 | if (FileExists(locjdl1)) gGrid->Rm(locjdl1); |
1142 | Info("CreateJDL", "\n##### Copying JDL file <%s> to your AliEn output directory", fJDLName.Data()); | |
648174cf | 1143 | TFile::Cp(Form("file:%s",fJDLName.Data()), Form("alien://%s", locjdl.Data())); |
0f389141 | 1144 | if (fMergeViaJDL) { |
1145 | Info("CreateJDL", "\n##### Copying merging JDL file <%s> to your AliEn output directory", mergeJDLName.Data()); | |
1146 | TFile::Cp(Form("file:%s",mergeJDLName.Data()), Form("alien://%s", locjdl1.Data())); | |
1147 | } | |
648174cf | 1148 | } |
c57f56b7 | 1149 | if (fAdditionalLibs.Length()) { |
e7c71df0 | 1150 | arr = fAdditionalLibs.Tokenize(" "); |
c57f56b7 | 1151 | TObjString *os; |
1152 | TIter next(arr); | |
1153 | while ((os=(TObjString*)next())) { | |
c57f56b7 | 1154 | if (os->GetString().Contains(".so")) continue; |
4e5c5506 | 1155 | Info("CreateJDL", "\n##### Copying dependency: <%s> to your alien workspace", os->GetString().Data()); |
c57f56b7 | 1156 | if (FileExists(os->GetString())) gGrid->Rm(os->GetString()); |
1157 | TFile::Cp(Form("file:%s",os->GetString().Data()), Form("alien://%s/%s", workdir.Data(), os->GetString().Data())); | |
1158 | } | |
1159 | delete arr; | |
1160 | } | |
4e5c5506 | 1161 | if (fPackages) { |
1162 | TIter next(fPackages); | |
1163 | TObject *obj; | |
1164 | while ((obj=next())) { | |
fdbbc7be | 1165 | if (FileExists(obj->GetName())) gGrid->Rm(obj->GetName()); |
4e5c5506 | 1166 | Info("CreateJDL", "\n##### Copying dependency: <%s> to your alien workspace", obj->GetName()); |
1167 | TFile::Cp(Form("file:%s",obj->GetName()), Form("alien://%s/%s", workdir.Data(), obj->GetName())); | |
1168 | } | |
1169 | } | |
c57f56b7 | 1170 | } |
1171 | return kTRUE; | |
1172 | } | |
1173 | ||
a8739e8a | 1174 | //______________________________________________________________________________ |
d2a409b2 | 1175 | Bool_t AliAnalysisAlien::WriteJDL(Bool_t copy) |
a8739e8a | 1176 | { |
1177 | // Writes one or more JDL's corresponding to findex. If findex is negative, | |
1178 | // all run numbers are considered in one go (jdl). For non-negative indices | |
1179 | // they correspond to the indices in the array fInputFiles. | |
1180 | if (!fInputFiles) return kFALSE; | |
1181 | TObjString *os; | |
a8739e8a | 1182 | TString workdir = gGrid->GetHomeDirectory(); |
1183 | workdir += fGridWorkingDir; | |
d2a409b2 | 1184 | |
1185 | if (!fRunNumbers.Length() && !fRunRange[0]) { | |
1186 | // One jdl with no parameters in case input data is specified by name. | |
a8739e8a | 1187 | TIter next(fInputFiles); |
1188 | while ((os=(TObjString*)next())) | |
0f389141 | 1189 | fGridJDL->AddToInputDataCollection(Form("LF:%s,nodownload", os->GetString().Data()), "Input xml collections"); |
648174cf | 1190 | if (!fOutputSingle.IsNull()) |
0f389141 | 1191 | fGridJDL->SetOutputDirectory(Form("#alienfulldir#/../%s",fOutputSingle.Data()), "Output directory"); |
1192 | else { | |
1193 | fGridJDL->SetOutputDirectory(Form("%s/#alien_counter_03i#", fGridOutputDir.Data()), "Output directory"); | |
1194 | fMergingJDL->SetOutputDirectory(fGridOutputDir); | |
1195 | } | |
a8739e8a | 1196 | } else { |
d2a409b2 | 1197 | // One jdl to be submitted with 2 input parameters: data collection name and output dir prefix |
0f389141 | 1198 | fGridJDL->AddToInputDataCollection(Form("LF:%s/$1,nodownload", workdir.Data()), "Input xml collections"); |
cd11251e | 1199 | if (!fOutputSingle.IsNull()) { |
0f389141 | 1200 | if (!fOutputToRunNo) fGridJDL->SetOutputDirectory(Form("#alienfulldir#/%s",fOutputSingle.Data()), "Output directory"); |
1201 | else fGridJDL->SetOutputDirectory(Form("%s/$2",fGridOutputDir.Data()), "Output directory"); | |
cd11251e | 1202 | } else { |
0f389141 | 1203 | fGridJDL->SetOutputDirectory(Form("%s/$2/#alien_counter_03i#", fGridOutputDir.Data()), "Output directory"); |
1204 | fMergingJDL->SetOutputDirectory(Form("%s/$1", fGridOutputDir.Data()), "Output directory"); | |
cd11251e | 1205 | } |
a8739e8a | 1206 | } |
1207 | ||
1208 | ||
1209 | // Generate the JDL as a string | |
1210 | TString sjdl = fGridJDL->Generate(); | |
0f389141 | 1211 | TString sjdl1 = fMergingJDL->Generate(); |
a8739e8a | 1212 | Int_t index; |
a8739e8a | 1213 | sjdl.ReplaceAll("\"LF:", "\n \"LF:"); |
1214 | sjdl.ReplaceAll("(member", "\n (member"); | |
1215 | sjdl.ReplaceAll("\",\"VO_", "\",\n \"VO_"); | |
1216 | sjdl.ReplaceAll("{", "{\n "); | |
1217 | sjdl.ReplaceAll("};", "\n};"); | |
1218 | sjdl.ReplaceAll("{\n \n", "{\n"); | |
1219 | sjdl.ReplaceAll("\n\n", "\n"); | |
1220 | sjdl.ReplaceAll("OutputDirectory", "OutputDir"); | |
0f389141 | 1221 | sjdl1.ReplaceAll("\"LF:", "\n \"LF:"); |
1222 | sjdl1.ReplaceAll("(member", "\n (member"); | |
1223 | sjdl1.ReplaceAll("\",\"VO_", "\",\n \"VO_"); | |
1224 | sjdl1.ReplaceAll("{", "{\n "); | |
1225 | sjdl1.ReplaceAll("};", "\n};"); | |
1226 | sjdl1.ReplaceAll("{\n \n", "{\n"); | |
1227 | sjdl1.ReplaceAll("\n\n", "\n"); | |
1228 | sjdl1.ReplaceAll("OutputDirectory", "OutputDir"); | |
a8739e8a | 1229 | sjdl += "JDLVariables = \n{\n \"Packages\",\n \"OutputDir\"\n};\n"; |
f60ef0ba | 1230 | sjdl.Prepend(Form("Jobtag = {\n \"comment:%s\"\n};\n", fJobTag.Data())); |
a8739e8a | 1231 | index = sjdl.Index("JDLVariables"); |
1232 | if (index >= 0) sjdl.Insert(index, "\n# JDL variables\n"); | |
0f389141 | 1233 | sjdl1 += "JDLVariables = \n{\n \"Packages\",\n \"OutputDir\"\n};\n"; |
1234 | sjdl1.Prepend(Form("Jobtag = {\n \"comment:Merging_%s\"\n};\n", fJobTag.Data())); | |
1235 | index = sjdl1.Index("JDLVariables"); | |
1236 | if (index >= 0) sjdl1.Insert(index, "\n# JDL variables\n"); | |
a8739e8a | 1237 | // Write jdl to file |
a8739e8a | 1238 | ofstream out; |
d2a409b2 | 1239 | out.open(fJDLName.Data(), ios::out); |
a8739e8a | 1240 | if (out.bad()) { |
d2a409b2 | 1241 | Error("CreateJDL", "Bad file name: %s", fJDLName.Data()); |
a8739e8a | 1242 | return kFALSE; |
1243 | } | |
1244 | out << sjdl << endl; | |
0f389141 | 1245 | TString mergeJDLName = fExecutable; |
1246 | mergeJDLName.ReplaceAll(".sh", "_merge.jdl"); | |
1247 | if (fMergeViaJDL) { | |
1248 | ofstream out1; | |
1249 | out1.open(mergeJDLName.Data(), ios::out); | |
1250 | if (out.bad()) { | |
1251 | Error("CreateJDL", "Bad file name: %s", mergeJDLName.Data()); | |
1252 | return kFALSE; | |
1253 | } | |
1254 | out1 << sjdl1 << endl; | |
1255 | } | |
a8739e8a | 1256 | |
1257 | // Copy jdl to grid workspace | |
1258 | if (!copy) { | |
1259 | Info("CreateJDL", "\n##### You may want to review jdl:%s and analysis macro:%s before running in <submit> mode", fJDLName.Data(), fAnalysisMacro.Data()); | |
1260 | } else { | |
d2a409b2 | 1261 | TString locjdl = Form("%s/%s", fGridOutputDir.Data(),fJDLName.Data()); |
0f389141 | 1262 | TString locjdl1 = Form("%s/%s", fGridOutputDir.Data(),mergeJDLName.Data()); |
1263 | if (fProductionMode) { | |
b5fe9cba | 1264 | locjdl = Form("%s/%s", workdir.Data(),fJDLName.Data()); |
0f389141 | 1265 | locjdl1 = Form("%s/%s", workdir.Data(),mergeJDLName.Data()); |
1266 | } | |
d2a409b2 | 1267 | if (FileExists(locjdl)) gGrid->Rm(locjdl); |
0f389141 | 1268 | if (FileExists(locjdl1)) gGrid->Rm(locjdl1); |
1269 | Info("CreateJDL", "\n##### Copying JDL file <%s> to your AliEn output directory", fJDLName.Data()); | |
5513444a | 1270 | TFile::Cp(Form("file:%s",fJDLName.Data()), Form("alien://%s", locjdl.Data())); |
0f389141 | 1271 | if (fMergeViaJDL) { |
1272 | Info("CreateJDL", "\n##### Copying merging JDL file <%s> to your AliEn output directory", mergeJDLName.Data()); | |
1273 | TFile::Cp(Form("file:%s",mergeJDLName.Data()), Form("alien://%s", locjdl1.Data())); | |
1274 | } | |
a8739e8a | 1275 | } |
1276 | return kTRUE; | |
1277 | } | |
1278 | ||
c57f56b7 | 1279 | //______________________________________________________________________________ |
5513444a | 1280 | Bool_t AliAnalysisAlien::FileExists(const char *lfn) |
c57f56b7 | 1281 | { |
1282 | // Returns true if file exists. | |
5513444a | 1283 | if (!gGrid) return kFALSE; |
c57f56b7 | 1284 | TGridResult *res = gGrid->Ls(lfn); |
1285 | if (!res) return kFALSE; | |
1286 | TMap *map = dynamic_cast<TMap*>(res->At(0)); | |
1287 | if (!map) { | |
1288 | delete res; | |
1289 | return kFALSE; | |
1290 | } | |
1291 | TObjString *objs = dynamic_cast<TObjString*>(map->GetValue("name")); | |
1292 | if (!objs || !objs->GetString().Length()) { | |
1293 | delete res; | |
1294 | return kFALSE; | |
1295 | } | |
1296 | delete res; | |
1297 | return kTRUE; | |
1298 | } | |
1299 | ||
923e2ca5 | 1300 | //______________________________________________________________________________ |
1301 | Bool_t AliAnalysisAlien::DirectoryExists(const char *dirname) | |
1302 | { | |
1303 | // Returns true if directory exists. Can be also a path. | |
1304 | if (!gGrid) return kFALSE; | |
1305 | // Check if dirname is a path | |
1306 | TString dirstripped = dirname; | |
1307 | dirstripped = dirstripped.Strip(); | |
1308 | dirstripped = dirstripped.Strip(TString::kTrailing, '/'); | |
1309 | TString dir = gSystem->BaseName(dirstripped); | |
1310 | dir += "/"; | |
1311 | TString path = gSystem->DirName(dirstripped); | |
1312 | TGridResult *res = gGrid->Ls(path, "-F"); | |
1313 | if (!res) return kFALSE; | |
1314 | TIter next(res); | |
1315 | TMap *map; | |
1316 | TObject *obj; | |
1317 | while ((map=dynamic_cast<TMap*>(next()))) { | |
1318 | obj = map->GetValue("name"); | |
1319 | if (!obj) break; | |
1320 | if (dir == obj->GetName()) { | |
1321 | delete res; | |
1322 | return kTRUE; | |
1323 | } | |
1324 | } | |
1325 | delete res; | |
1326 | return kFALSE; | |
1327 | } | |
1328 | ||
c57f56b7 | 1329 | //______________________________________________________________________________ |
1330 | void AliAnalysisAlien::CheckDataType(const char *lfn, Bool_t &is_collection, Bool_t &is_xml, Bool_t &use_tags) | |
1331 | { | |
1332 | // Check input data type. | |
1333 | is_collection = kFALSE; | |
1334 | is_xml = kFALSE; | |
1335 | use_tags = kFALSE; | |
1336 | if (!gGrid) { | |
1337 | Error("CheckDataType", "No connection to grid"); | |
1338 | return; | |
1339 | } | |
1340 | is_collection = IsCollection(lfn); | |
1341 | TString msg = "\n##### file: "; | |
1342 | msg += lfn; | |
1343 | if (is_collection) { | |
1344 | msg += " type: raw_collection;"; | |
1345 | // special treatment for collections | |
1346 | is_xml = kFALSE; | |
1347 | // check for tag files in the collection | |
1348 | TGridResult *res = gGrid->Command(Form("listFilesFromCollection -z -v %s",lfn), kFALSE); | |
1349 | if (!res) { | |
1350 | msg += " using_tags: No (unknown)"; | |
1351 | Info("CheckDataType", msg.Data()); | |
1352 | return; | |
1353 | } | |
1354 | const char* typeStr = res->GetKey(0, "origLFN"); | |
1355 | if (!typeStr || !strlen(typeStr)) { | |
1356 | msg += " using_tags: No (unknown)"; | |
1357 | Info("CheckDataType", msg.Data()); | |
1358 | return; | |
1359 | } | |
1360 | TString file = typeStr; | |
1361 | use_tags = file.Contains(".tag"); | |
1362 | if (use_tags) msg += " using_tags: Yes"; | |
1363 | else msg += " using_tags: No"; | |
1364 | Info("CheckDataType", msg.Data()); | |
1365 | return; | |
1366 | } | |
1367 | TString slfn(lfn); | |
1368 | slfn.ToLower(); | |
1369 | is_xml = slfn.Contains(".xml"); | |
1370 | if (is_xml) { | |
1371 | // Open xml collection and check if there are tag files inside | |
1372 | msg += " type: xml_collection;"; | |
1373 | TGridCollection *coll = (TGridCollection*)gROOT->ProcessLine(Form("TAlienCollection::Open(\"alien://%s\",1);",lfn)); | |
1374 | if (!coll) { | |
1375 | msg += " using_tags: No (unknown)"; | |
1376 | Info("CheckDataType", msg.Data()); | |
1377 | return; | |
1378 | } | |
1379 | TMap *map = coll->Next(); | |
1380 | if (!map) { | |
1381 | msg += " using_tags: No (unknown)"; | |
1382 | Info("CheckDataType", msg.Data()); | |
1383 | return; | |
1384 | } | |
1385 | map = (TMap*)map->GetValue(""); | |
1386 | TString file; | |
1387 | if (map && map->GetValue("name")) file = map->GetValue("name")->GetName(); | |
1388 | use_tags = file.Contains(".tag"); | |
1389 | delete coll; | |
1390 | if (use_tags) msg += " using_tags: Yes"; | |
1391 | else msg += " using_tags: No"; | |
1392 | Info("CheckDataType", msg.Data()); | |
1393 | return; | |
1394 | } | |
1395 | use_tags = slfn.Contains(".tag"); | |
1396 | if (slfn.Contains(".root")) msg += " type: root file;"; | |
f866cba5 | 1397 | else msg += " type: unknown file;"; |
c57f56b7 | 1398 | if (use_tags) msg += " using_tags: Yes"; |
1399 | else msg += " using_tags: No"; | |
1400 | Info("CheckDataType", msg.Data()); | |
1401 | } | |
1402 | ||
4e5c5506 | 1403 | //______________________________________________________________________________ |
1404 | void AliAnalysisAlien::EnablePackage(const char *package) | |
1405 | { | |
1406 | // Enables a par file supposed to exist in the current directory. | |
1407 | TString pkg(package); | |
1408 | pkg.ReplaceAll(".par", ""); | |
1409 | pkg += ".par"; | |
1410 | if (gSystem->AccessPathName(pkg)) { | |
ebcdf05e | 1411 | Fatal("EnablePackage", "Package %s not found", pkg.Data()); |
4e5c5506 | 1412 | return; |
1413 | } | |
1414 | if (!TObject::TestBit(AliAnalysisGrid::kUsePars)) | |
1415 | Info("EnablePackage", "AliEn plugin will use .par packages"); | |
1416 | TObject::SetBit(AliAnalysisGrid::kUsePars, kTRUE); | |
1417 | if (!fPackages) { | |
1418 | fPackages = new TObjArray(); | |
1419 | fPackages->SetOwner(); | |
1420 | } | |
1421 | fPackages->Add(new TObjString(pkg)); | |
1422 | } | |
1423 | ||
d2a409b2 | 1424 | //______________________________________________________________________________ |
1425 | const char *AliAnalysisAlien::GetJobStatus(Int_t jobidstart, Int_t lastid, Int_t &nrunning, Int_t &nwaiting, Int_t &nerror, Int_t &ndone) | |
1426 | { | |
1427 | // Get job status for all jobs with jobid>jobidstart. | |
1428 | static char mstatus[20]; | |
1429 | mstatus[0] = '\0'; | |
1430 | nrunning = 0; | |
1431 | nwaiting = 0; | |
1432 | nerror = 0; | |
1433 | ndone = 0; | |
1434 | TGridJobStatusList *list = gGrid->Ps(""); | |
1435 | if (!list) return mstatus; | |
1436 | Int_t nentries = list->GetSize(); | |
1437 | TGridJobStatus *status; | |
1438 | Int_t pid; | |
1439 | for (Int_t ijob=0; ijob<nentries; ijob++) { | |
1440 | status = (TGridJobStatus *)list->At(ijob); | |
1441 | pid = gROOT->ProcessLine(Form("atoi(((TAlienJobStatus*)0x%lx)->GetKey(\"queueId\"));", (ULong_t)status)); | |
1442 | if (pid<jobidstart) continue; | |
1443 | if (pid == lastid) { | |
1444 | gROOT->ProcessLine(Form("sprintf((char*)0x%lx,((TAlienJobStatus*)0x%lx)->GetKey(\"status\"));",(ULong_t)mstatus, (ULong_t)status)); | |
1445 | } | |
1446 | switch (status->GetStatus()) { | |
1447 | case TGridJobStatus::kWAITING: | |
1448 | nwaiting++; break; | |
1449 | case TGridJobStatus::kRUNNING: | |
1450 | nrunning++; break; | |
1451 | case TGridJobStatus::kABORTED: | |
1452 | case TGridJobStatus::kFAIL: | |
1453 | case TGridJobStatus::kUNKNOWN: | |
1454 | nerror++; break; | |
1455 | case TGridJobStatus::kDONE: | |
1456 | ndone++; | |
1457 | } | |
1458 | } | |
1459 | list->Delete(); | |
1460 | delete list; | |
1461 | return mstatus; | |
1462 | } | |
1463 | ||
c57f56b7 | 1464 | //______________________________________________________________________________ |
1465 | Bool_t AliAnalysisAlien::IsCollection(const char *lfn) const | |
1466 | { | |
1467 | // Returns true if file is a collection. Functionality duplicated from | |
1468 | // TAlien::Type() because we don't want to directly depend on TAlien. | |
1469 | if (!gGrid) { | |
1470 | Error("IsCollection", "No connection to grid"); | |
1471 | return kFALSE; | |
1472 | } | |
1473 | TGridResult *res = gGrid->Command(Form("type -z %s",lfn),kFALSE); | |
1474 | if (!res) return kFALSE; | |
1475 | const char* typeStr = res->GetKey(0, "type"); | |
1476 | if (!typeStr || !strlen(typeStr)) return kFALSE; | |
1477 | if (!strcmp(typeStr, "collection")) return kTRUE; | |
1478 | delete res; | |
1479 | return kFALSE; | |
1480 | } | |
1481 | ||
fe2d7fc2 | 1482 | //______________________________________________________________________________ |
1483 | Bool_t AliAnalysisAlien::IsSingleOutput() const | |
1484 | { | |
1485 | // Check if single-ouput option is on. | |
1486 | return (!fOutputSingle.IsNull()); | |
1487 | } | |
1488 | ||
16a4353c | 1489 | //______________________________________________________________________________ |
1490 | void AliAnalysisAlien::Print(Option_t *) const | |
1491 | { | |
1492 | // Print current plugin settings. | |
84fcd93f | 1493 | printf("### AliEn analysis plugin current settings ###\n"); |
e1c22e21 | 1494 | printf("= OverwriteMode:________________________________ %d\n", fOverwriteMode); |
1495 | if (fOverwriteMode) { | |
1496 | printf("***** NOTE: Overwrite mode will overwrite the input generated datasets and partial results from previous analysis. \ | |
1497 | \n***** To disable, use: plugin->SetOverwriteMode(kFALSE);\n"); | |
1498 | } | |
348be253 | 1499 | printf("= Copy files to grid: __________________________ %s\n", (IsUseCopy())?"YES":"NO"); |
1500 | printf("= Check if files can be copied to grid: ________ %s\n", (IsCheckCopy())?"YES":"NO"); | |
84fcd93f | 1501 | printf("= Production mode:______________________________ %d\n", fProductionMode); |
1502 | printf("= Version of API requested: ____________________ %s\n", fAPIVersion.Data()); | |
1503 | printf("= Version of ROOT requested: ___________________ %s\n", fROOTVersion.Data()); | |
1504 | printf("= Version of AliRoot requested: ________________ %s\n", fAliROOTVersion.Data()); | |
16a4353c | 1505 | if (fUser.Length()) |
84fcd93f | 1506 | printf("= User running the plugin: _____________________ %s\n", fUser.Data()); |
1507 | printf("= Grid workdir relative to user $HOME: _________ %s\n", fGridWorkingDir.Data()); | |
1508 | printf("= Grid output directory relative to workdir: ___ %s\n", fGridOutputDir.Data()); | |
1509 | printf("= Data base directory path requested: __________ %s\n", fGridDataDir.Data()); | |
1510 | printf("= Data search pattern: _________________________ %s\n", fDataPattern.Data()); | |
1511 | printf("= Input data format: ___________________________ %s\n", fInputFormat.Data()); | |
16a4353c | 1512 | if (fRunNumbers.Length()) |
84fcd93f | 1513 | printf("= Run numbers to be processed: _________________ %s\n", fRunNumbers.Data()); |
16a4353c | 1514 | if (fRunRange[0]) |
5fce53f4 | 1515 | printf("= Run range to be processed: ___________________ %s%d-%s%d\n", fRunPrefix.Data(), fRunRange[0], fRunPrefix.Data(), fRunRange[1]); |
16a4353c | 1516 | if (!fRunRange[0] && !fRunNumbers.Length()) { |
1517 | TIter next(fInputFiles); | |
1518 | TObject *obj; | |
1519 | TString list; | |
1520 | while ((obj=next())) list += obj->GetName(); | |
84fcd93f | 1521 | printf("= Input files to be processed: _________________ %s\n", list.Data()); |
16a4353c | 1522 | } |
1523 | if (TestBit(AliAnalysisGrid::kTest)) | |
84fcd93f | 1524 | printf("= Number of input files used in test mode: _____ %d\n", fNtestFiles); |
1525 | printf("= List of output files to be registered: _______ %s\n", fOutputFiles.Data()); | |
1526 | printf("= List of outputs going to be archived: ________ %s\n", fOutputArchive.Data()); | |
1527 | printf("= List of outputs that should not be merged: ___ %s\n", fMergeExcludes.Data()); | |
1528 | printf("=====================================================================\n"); | |
1529 | printf("= Job price: ___________________________________ %d\n", fPrice); | |
1530 | printf("= Time to live (TTL): __________________________ %d\n", fTTL); | |
1531 | printf("= Max files per subjob: ________________________ %d\n", fSplitMaxInputFileNumber); | |
16a4353c | 1532 | if (fMaxInitFailed>0) |
84fcd93f | 1533 | printf("= Max number of subjob fails to kill: __________ %d\n", fMaxInitFailed); |
16a4353c | 1534 | if (fMasterResubmitThreshold>0) |
84fcd93f | 1535 | printf("= Resubmit master job if failed subjobs >_______ %d\n", fMasterResubmitThreshold); |
149d288c | 1536 | printf("= Number of replicas for the output files_______ %d\n", fNreplicas); |
319593fb | 1537 | if (fNrunsPerMaster>0) |
84fcd93f | 1538 | printf("= Number of runs per master job: _______________ %d\n", fNrunsPerMaster); |
1539 | printf("= Number of files in one chunk to be merged: ___ %d\n", fMaxMergeFiles); | |
b5b9dee8 | 1540 | printf("= Name of the generated execution script: ______ %s\n", fExecutable.Data()); |
1541 | printf("= Executable command: __________________________ %s\n", fExecutableCommand.Data()); | |
16a4353c | 1542 | if (fArguments.Length()) |
84fcd93f | 1543 | printf("= Arguments for the execution script: __________ %s\n",fArguments.Data()); |
631c0b05 | 1544 | if (fExecutableArgs.Length()) |
1545 | printf("= Arguments after macro name in executable______ %s\n",fExecutableArgs.Data()); | |
84fcd93f | 1546 | printf("= Name of the generated analysis macro: ________ %s\n",fAnalysisMacro.Data()); |
1547 | printf("= User analysis files to be deployed: __________ %s\n",fAnalysisSource.Data()); | |
1548 | printf("= Additional libs to be loaded or souces to be compiled runtime: <%s>\n",fAdditionalLibs.Data()); | |
1549 | printf("= Master jobs split mode: ______________________ %s\n",fSplitMode.Data()); | |
16a4353c | 1550 | if (fDatasetName) |
84fcd93f | 1551 | printf("= Custom name for the dataset to be created: ___ %s\n", fDatasetName.Data()); |
1552 | printf("= Name of the generated JDL: ___________________ %s\n", fJDLName.Data()); | |
16a4353c | 1553 | if (fIncludePath.Data()) |
84fcd93f | 1554 | printf("= Include path for runtime task compilation: ___ %s\n", fIncludePath.Data()); |
16a4353c | 1555 | if (fCloseSE.Length()) |
84fcd93f | 1556 | printf("= Force job outputs to storage element: ________ %s\n", fCloseSE.Data()); |
16a4353c | 1557 | if (fFriendChainName.Length()) |
84fcd93f | 1558 | printf("= Open friend chain file on worker: ____________ %s\n", fFriendChainName.Data()); |
16a4353c | 1559 | if (fPackages) { |
1560 | TIter next(fPackages); | |
1561 | TObject *obj; | |
1562 | TString list; | |
1563 | while ((obj=next())) list += obj->GetName(); | |
84fcd93f | 1564 | printf("= Par files to be used: ________________________ %s\n", list.Data()); |
16a4353c | 1565 | } |
1566 | } | |
1567 | ||
c57f56b7 | 1568 | //______________________________________________________________________________ |
1569 | void AliAnalysisAlien::SetDefaults() | |
1570 | { | |
1571 | // Set default values for everything. What cannot be filled will be left empty. | |
1572 | if (fGridJDL) delete fGridJDL; | |
1573 | fGridJDL = (TGridJDL*)gROOT->ProcessLine("new TAlienJDL()"); | |
0f389141 | 1574 | fMergingJDL = (TGridJDL*)gROOT->ProcessLine("new TAlienJDL()"); |
c57f56b7 | 1575 | fPrice = 1; |
1576 | fTTL = 30000; | |
1577 | fSplitMaxInputFileNumber = 100; | |
1578 | fMaxInitFailed = 0; | |
1579 | fMasterResubmitThreshold = 0; | |
bb885a9e | 1580 | fNtestFiles = 10; |
149d288c | 1581 | fNreplicas = 2; |
a8739e8a | 1582 | fRunRange[0] = 0; |
1583 | fRunRange[1] = 0; | |
319593fb | 1584 | fNrunsPerMaster = 1; |
16a4353c | 1585 | fMaxMergeFiles = 100; |
c57f56b7 | 1586 | fRunNumbers = ""; |
1587 | fExecutable = "analysis.sh"; | |
0a1c1f7f | 1588 | fExecutableCommand = "root -b -q"; |
c57f56b7 | 1589 | fArguments = ""; |
631c0b05 | 1590 | fExecutableArgs = ""; |
c57f56b7 | 1591 | fAnalysisMacro = "myAnalysis.C"; |
1592 | fAnalysisSource = ""; | |
1593 | fAdditionalLibs = ""; | |
1594 | fSplitMode = "se"; | |
1595 | fAPIVersion = ""; | |
1596 | fROOTVersion = ""; | |
1597 | fAliROOTVersion = ""; | |
1598 | fUser = ""; // Your alien user name | |
1599 | fGridWorkingDir = ""; | |
1600 | fGridDataDir = ""; // Can be like: /alice/sim/PDC_08a/LHC08c9/ | |
1601 | fDataPattern = "*AliESDs.root"; // Can be like: *AliESDs.root, */pass1/*AliESDs.root, ... | |
0df6ccf2 | 1602 | fFriendChainName = ""; |
c57f56b7 | 1603 | fGridOutputDir = "output"; |
149d288c | 1604 | fOutputArchive = "log_archive.zip:std*@disk=1 root_archive.zip:*.root@disk=2"; |
c57f56b7 | 1605 | fOutputFiles = ""; // Like "AliAODs.root histos.root" |
1606 | fInputFormat = "xml-single"; | |
1607 | fJDLName = "analysis.jdl"; | |
c6cb3634 | 1608 | fJobTag = "Automatically generated analysis JDL"; |
bb885a9e | 1609 | fMergeExcludes = ""; |
0f389141 | 1610 | fMergeViaJDL = 0; |
348be253 | 1611 | SetUseCopy(kTRUE); |
1612 | SetCheckCopy(kTRUE); | |
149d288c | 1613 | SetDefaultOutputs(kTRUE); |
e1c22e21 | 1614 | fOverwriteMode = 1; |
c57f56b7 | 1615 | } |
1616 | ||
0f389141 | 1617 | //______________________________________________________________________________ |
1618 | Bool_t AliAnalysisAlien::MergeOutput(const char *output, const char *basedir, Int_t nmaxmerge) | |
1619 | { | |
1620 | // Merge all registered outputs from basedir. | |
1621 | TString output_file = output; | |
1622 | TString command; | |
1623 | TString output_chunk; | |
1624 | TString previous_chunk = ""; | |
1625 | Int_t count_chunk = 0; | |
1626 | Int_t count_zero = nmaxmerge; | |
1627 | Bool_t merged = kTRUE; | |
1628 | Int_t index = output_file.Index("@"); | |
1629 | if (index > 0) output_file.Remove(index); | |
1630 | command = Form("find %s/ *%s", basedir, output_file.Data()); | |
1631 | printf("command: %s\n", command.Data()); | |
1632 | TGridResult *res = gGrid->Command(command); | |
1633 | if (!res) { | |
1634 | printf("Error: No result for the find command\n"); | |
1635 | return kFALSE; | |
1636 | } | |
1637 | ||
1638 | TFileMerger *fm = 0; | |
1639 | TIter nextmap(res); | |
1640 | TMap *map = 0; | |
1641 | // Check if there is a merge operation to resume | |
1642 | output_chunk = output_file; | |
1643 | output_chunk.ReplaceAll(".root", "_*.root"); | |
1644 | // Check for existent temporary merge files | |
e1c22e21 | 1645 | // Check overwrite mode and remove previous partial results if needed |
1646 | if (!gSystem->Exec(Form("ls %s 2>/dev/null", output_chunk.Data()))) { | |
0f389141 | 1647 | while (1) { |
1648 | // Skip as many input files as in a chunk | |
1649 | for (Int_t counter=0; counter<nmaxmerge; counter++) map = (TMap*)nextmap(); | |
1650 | if (!map) { | |
1651 | ::Error("MergeOutputs", "Cannot resume merging for <%s>, nentries=%d", output_file.Data(), res->GetSize()); | |
1652 | delete res; | |
1653 | return kFALSE; | |
1654 | } | |
1655 | output_chunk = output_file; | |
1656 | output_chunk.ReplaceAll(".root", Form("_%04d.root", count_chunk)); | |
1657 | count_chunk++; | |
1658 | if (gSystem->AccessPathName(output_chunk)) continue; | |
1659 | // Merged file with chunks up to <count_chunk> found | |
1660 | printf("Resume merging of <%s> from <%s>\n", output_file.Data(), output_chunk.Data()); | |
1661 | previous_chunk = output_chunk; | |
1662 | break; | |
1663 | } | |
1664 | } | |
1665 | count_zero = nmaxmerge; | |
1666 | ||
1667 | while ((map=(TMap*)nextmap())) { | |
1668 | // Loop 'find' results and get next LFN | |
1669 | if (count_zero == nmaxmerge) { | |
1670 | // First file in chunk - create file merger and add previous chunk if any. | |
1671 | fm = new TFileMerger(kFALSE); | |
1672 | fm->SetFastMethod(kTRUE); | |
1673 | if (previous_chunk.Length()) fm->AddFile(previous_chunk.Data()); | |
1674 | output_chunk = output_file; | |
1675 | output_chunk.ReplaceAll(".root", Form("_%04d.root", count_chunk)); | |
1676 | } | |
1677 | // If last file found, put merged results in the output file | |
1678 | if (map == res->Last()) output_chunk = output_file; | |
1679 | TObjString *objs = dynamic_cast<TObjString*>(map->GetValue("turl")); | |
1680 | if (!objs || !objs->GetString().Length()) { | |
1681 | // Nothing found - skip this output | |
1682 | delete res; | |
1683 | delete fm; | |
1684 | return kFALSE; | |
1685 | } | |
1686 | // Add file to be merged and decrement chunk counter. | |
1687 | fm->AddFile(objs->GetString()); | |
1688 | count_zero--; | |
1689 | if (count_zero==0 || map == res->Last()) { | |
1690 | fm->OutputFile(output_chunk); | |
1691 | if (!fm->GetMergeList() || !fm->GetMergeList()->GetSize()) { | |
1692 | // Nothing found - skip this output | |
1693 | ::Warning("MergeOutputs", "No <%s> files found.", output_file.Data()); | |
1694 | delete res; | |
1695 | delete fm; | |
1696 | return kFALSE; | |
1697 | } | |
1698 | // Merge the outputs, then go to next chunk | |
1699 | if (!fm->Merge()) { | |
1700 | ::Error("MergeOutputs", "Could not merge all <%s> files", output_file.Data()); | |
1701 | delete res; | |
1702 | delete fm; | |
1703 | merged = kFALSE; | |
1704 | return kFALSE; | |
1705 | } else { | |
1706 | ::Info("MergeOutputs", "\n##### Merged %d output files to <%s>", fm->GetMergeList()->GetSize(), output_chunk.Data()); | |
1707 | gSystem->Unlink(previous_chunk); | |
1708 | } | |
1709 | if (map == res->Last()) { | |
1710 | delete res; | |
1711 | delete fm; | |
1712 | break; | |
1713 | } | |
1714 | count_chunk++; | |
1715 | count_zero = nmaxmerge; | |
1716 | previous_chunk = output_chunk; | |
1717 | } | |
1718 | } | |
1719 | return merged; | |
1720 | } | |
1721 | ||
c57f56b7 | 1722 | //______________________________________________________________________________ |
1723 | Bool_t AliAnalysisAlien::MergeOutputs() | |
1724 | { | |
1725 | // Merge analysis outputs existing in the AliEn space. | |
1726 | if (TestBit(AliAnalysisGrid::kTest)) return kTRUE; | |
1727 | if (TestBit(AliAnalysisGrid::kOffline)) return kFALSE; | |
1728 | if (!Connect()) { | |
1729 | Error("MergeOutputs", "Cannot merge outputs without grid connection. Terminate will NOT be executed"); | |
1730 | return kFALSE; | |
0f389141 | 1731 | } |
c9e8f7fd | 1732 | if (fMergeViaJDL) { |
1733 | if (!TestBit(AliAnalysisGrid::kMerge)) { | |
1734 | Info("MergeOutputs", "### Re-run with <MergeViaJDL> option in terminate mode of the plugin to submit merging jobs ###"); | |
1735 | return kFALSE; | |
1736 | } | |
1737 | if (fProductionMode) { | |
1738 | Info("MergeOutputs", "### Merging will be submitted by LPM manager... ###"); | |
1739 | return kFALSE; | |
1740 | } | |
0f389141 | 1741 | Info("MergeOutputs", "Submitting merging JDL"); |
a03be957 | 1742 | if (!SubmitMerging()) return kFALSE; |
0f389141 | 1743 | Info("MergeOutputs", "### Re-run with <MergeViaJDL> off to collect results after merging jobs are done ###"); |
c9e8f7fd | 1744 | Info("MergeOutputs", "### The Terminate() method is executed by the merging jobs"); |
001cb79e | 1745 | return kFALSE; |
c57f56b7 | 1746 | } |
1747 | // Get the output path | |
d2a409b2 | 1748 | if (!fGridOutputDir.Contains("/")) fGridOutputDir = Form("/%s/%s/%s", gGrid->GetHomeDirectory(), fGridWorkingDir.Data(), fGridOutputDir.Data()); |
923e2ca5 | 1749 | if (!DirectoryExists(fGridOutputDir)) { |
c57f56b7 | 1750 | Error("MergeOutputs", "Grid output directory %s not found. Terminate() will NOT be executed", fGridOutputDir.Data()); |
1751 | return kFALSE; | |
1752 | } | |
1753 | if (!fOutputFiles.Length()) { | |
1754 | Error("MergeOutputs", "No output file names defined. Are you running the right AliAnalysisAlien configuration ?"); | |
1755 | return kFALSE; | |
0f389141 | 1756 | } |
1757 | // Check if fast read option was requested | |
e1c22e21 | 1758 | Info("MergeOutputs", "Started local merging of output files from: alien://%s \ |
1759 | \n======= overwrite mode = %d", fGridOutputDir.Data(), (Int_t)fOverwriteMode); | |
0f389141 | 1760 | if (fFastReadOption) { |
d3339be3 | 1761 | Warning("MergeOutputs", "You requested FastRead option. Using xrootd flags to reduce timeouts. This may skip some files that could be accessed ! \ |
1762 | \n+++ NOTE: To disable this option, use: plugin->SetFastReadOption(kFALSE)"); | |
1763 | gEnv->SetValue("XNet.ConnectTimeout",10); | |
1764 | gEnv->SetValue("XNet.RequestTimeout",10); | |
0f389141 | 1765 | gEnv->SetValue("XNet.MaxRedirectCount",2); |
d3339be3 | 1766 | gEnv->SetValue("XNet.ReconnectTimeout",10); |
0f389141 | 1767 | gEnv->SetValue("XNet.FirstConnectMaxCnt",1); |
c57f56b7 | 1768 | } |
149d288c | 1769 | TObjArray *list = fOutputFiles.Tokenize(","); |
c57f56b7 | 1770 | TIter next(list); |
1771 | TObjString *str; | |
c57f56b7 | 1772 | TString output_file; |
1773 | Bool_t merged = kTRUE; | |
1774 | while((str=(TObjString*)next())) { | |
1775 | output_file = str->GetString(); | |
1776 | Int_t index = output_file.Index("@"); | |
1777 | if (index > 0) output_file.Remove(index); | |
e1c22e21 | 1778 | TString output_chunk = output_file; |
1779 | output_chunk.ReplaceAll(".root", "_*.root"); | |
319593fb | 1780 | // Skip already merged outputs |
1781 | if (!gSystem->AccessPathName(output_file)) { | |
e1c22e21 | 1782 | if (fOverwriteMode) { |
1783 | Info("MergeOutputs", "Overwrite mode. Existing file %s was deleted.", output_file.Data()); | |
1784 | gSystem->Unlink(output_file); | |
1785 | if (!gSystem->Exec(Form("ls %s 2>/dev/null", output_chunk.Data()))) { | |
1786 | Info("MergeOutput", "Overwrite mode: partial merged files %s will removed", | |
1787 | output_chunk.Data()); | |
1788 | gSystem->Exec(Form("rm -f %s", output_chunk.Data())); | |
1789 | } | |
1790 | } else { | |
1791 | Info("MergeOutputs", "Output file <%s> found. Not merging again.", output_file.Data()); | |
1792 | continue; | |
1793 | } | |
1794 | } else { | |
1795 | if (!gSystem->Exec(Form("ls %s 2>/dev/null", output_chunk.Data()))) { | |
1796 | Info("MergeOutput", "Overwrite mode: partial merged files %s will removed", | |
1797 | output_chunk.Data()); | |
1798 | gSystem->Exec(Form("rm -f %s", output_chunk.Data())); | |
1799 | } | |
1800 | } | |
bb885a9e | 1801 | if (fMergeExcludes.Length() && |
1802 | fMergeExcludes.Contains(output_file.Data())) continue; | |
16a4353c | 1803 | // Perform a 'find' command in the output directory, looking for registered outputs |
0f389141 | 1804 | merged = MergeOutput(output_file, fGridOutputDir, fMaxMergeFiles); |
1805 | if (!merged) { | |
1806 | Error("MergeOutputs", "Terminate() will NOT be executed"); | |
1807 | return kFALSE; | |
1808 | } | |
c57f56b7 | 1809 | } |
0f389141 | 1810 | return kTRUE; |
c57f56b7 | 1811 | } |
1812 | ||
bb885a9e | 1813 | //______________________________________________________________________________ |
1814 | void AliAnalysisAlien::SetDefaultOutputs(Bool_t flag) | |
1815 | { | |
1816 | // Use the output files connected to output containers from the analysis manager | |
1817 | // rather than the files defined by SetOutputFiles | |
1818 | if (flag && !TObject::TestBit(AliAnalysisGrid::kDefaultOutputs)) | |
1819 | Info("SetDefaultOutputs", "Plugin will use the output files taken from \ | |
1820 | analysis manager"); | |
1821 | TObject::SetBit(AliAnalysisGrid::kDefaultOutputs, flag); | |
1822 | } | |
1823 | ||
149d288c | 1824 | //______________________________________________________________________________ |
1825 | void AliAnalysisAlien::SetOutputFiles(const char *list) | |
1826 | { | |
1827 | // Manually set the output files list. | |
1828 | // Removes duplicates. Not allowed if default outputs are not disabled. | |
1829 | if (TObject::TestBit(AliAnalysisGrid::kDefaultOutputs)) { | |
1830 | Fatal("SetOutputFiles", "You have to explicitly call SetDefaultOutputs(kFALSE) to manually set output files."); | |
1831 | return; | |
1832 | } | |
1833 | Info("SetOutputFiles", "Output file list is set manually - you are on your own."); | |
1834 | fOutputFiles = ""; | |
1835 | TString slist = list; | |
1836 | if (slist.Contains("@")) Warning("SetOutputFiles","The plugin does not allow explicit SE's. Please use: SetNumberOfReplicas() instead."); | |
1837 | TObjArray *arr = slist.Tokenize(" "); | |
1838 | TObjString *os; | |
1839 | TIter next(arr); | |
1840 | TString sout; | |
1841 | while ((os=(TObjString*)next())) { | |
1842 | sout = os->GetString(); | |
1843 | if (sout.Index("@")>0) sout.Remove(sout.Index("@")); | |
1844 | if (fOutputFiles.Contains(sout)) continue; | |
1845 | if (!fOutputFiles.IsNull()) fOutputFiles += ","; | |
1846 | fOutputFiles += sout; | |
1847 | } | |
1848 | delete arr; | |
1849 | } | |
1850 | ||
1851 | //______________________________________________________________________________ | |
1852 | void AliAnalysisAlien::SetOutputArchive(const char *list) | |
1853 | { | |
1854 | // Manually set the output archive list. Free text - you are on your own... | |
1855 | // Not allowed if default outputs are not disabled. | |
1856 | if (TObject::TestBit(AliAnalysisGrid::kDefaultOutputs)) { | |
1857 | Fatal("SetOutputArchive", "You have to explicitly call SetDefaultOutputs(kFALSE) to manually set the output archives."); | |
1858 | return; | |
1859 | } | |
1860 | Info("SetOutputArchive", "Output archive is set manually - you are on your own."); | |
1861 | fOutputArchive = list; | |
1862 | } | |
1863 | ||
1864 | //______________________________________________________________________________ | |
1865 | void AliAnalysisAlien::SetPreferedSE(const char */*se*/) | |
1866 | { | |
1867 | // Setting a prefered output SE is not allowed anymore. | |
1868 | Warning("SetPreferedSE", "Setting a preferential SE is not allowed anymore via the plugin. Use SetNumberOfReplicas() and SetDefaultOutputs()"); | |
1869 | } | |
1870 | ||
5513444a | 1871 | //______________________________________________________________________________ |
1872 | Bool_t AliAnalysisAlien::StartAnalysis(Long64_t /*nentries*/, Long64_t /*firstEntry*/) | |
c57f56b7 | 1873 | { |
1874 | // Start remote grid analysis. | |
1875 | ||
43da816a | 1876 | // Check if output files have to be taken from the analysis manager |
1877 | if (TestBit(AliAnalysisGrid::kDefaultOutputs)) { | |
1878 | AliAnalysisManager *mgr = AliAnalysisManager::GetAnalysisManager(); | |
1879 | if (!mgr || !mgr->IsInitialized()) { | |
1880 | Error("StartAnalysis", "You need an initialized analysis manager for this"); | |
5513444a | 1881 | return kFALSE; |
43da816a | 1882 | } |
1883 | fOutputFiles = ""; | |
1884 | TIter next(mgr->GetOutputs()); | |
1885 | AliAnalysisDataContainer *output; | |
1886 | while ((output=(AliAnalysisDataContainer*)next())) { | |
1887 | const char *filename = output->GetFileName(); | |
1888 | if (!(strcmp(filename, "default"))) { | |
1889 | if (!mgr->GetOutputEventHandler()) continue; | |
1890 | filename = mgr->GetOutputEventHandler()->GetOutputFileName(); | |
1891 | } | |
84fcd93f | 1892 | if (fOutputFiles.Contains(filename)) continue; |
149d288c | 1893 | if (fOutputFiles.Length()) fOutputFiles += ","; |
43da816a | 1894 | fOutputFiles += filename; |
1895 | } | |
c07b9ce2 | 1896 | // Add extra files registered to the analysis manager |
1897 | if (mgr->GetExtraFiles().Length()) { | |
149d288c | 1898 | if (fOutputFiles.Length()) fOutputFiles += ","; |
1899 | TString extra = mgr->GetExtraFiles(); | |
1900 | extra.ReplaceAll(" ", ","); | |
1901 | // Protection in case extra files do not exist (will it work?) | |
1902 | extra.ReplaceAll(".root", "*.root"); | |
1903 | fOutputFiles += extra; | |
84fcd93f | 1904 | } |
149d288c | 1905 | // Compose the output archive. |
1906 | fOutputArchive = "log_archive.zip:std*@disk=1 "; | |
1907 | fOutputArchive += Form("root_archive.zip:%s@disk=%d",fOutputFiles.Data(),fNreplicas); | |
43da816a | 1908 | } |
f7b1cbc2 | 1909 | // if (!fCloseSE.Length()) fCloseSE = gSystem->Getenv("alien_CLOSE_SE"); |
c57f56b7 | 1910 | if (TestBit(AliAnalysisGrid::kOffline)) { |
1911 | Info("StartAnalysis","\n##### OFFLINE MODE ##### Files to be used in GRID are produced but not copied \ | |
1912 | \n there nor any job run. You can revise the JDL and analysis \ | |
1913 | \n macro then run the same in \"submit\" mode."); | |
1914 | } else if (TestBit(AliAnalysisGrid::kTest)) { | |
1915 | Info("StartAnalysis","\n##### LOCAL MODE ##### Your analysis will be run locally on a subset of the requested \ | |
1916 | \n dataset."); | |
1917 | } else if (TestBit(AliAnalysisGrid::kSubmit)) { | |
1918 | Info("StartAnalysis","\n##### SUBMIT MODE ##### Files required by your analysis are copied to your grid working \ | |
1919 | \n space and job submitted."); | |
1920 | } else if (TestBit(AliAnalysisGrid::kMerge)) { | |
1921 | Info("StartAnalysis","\n##### MERGE MODE ##### The registered outputs of the analysis will be merged"); | |
0f389141 | 1922 | if (fMergeViaJDL) CheckInputData(); |
5513444a | 1923 | return kTRUE; |
c57f56b7 | 1924 | } else { |
1925 | Info("StartAnalysis","\n##### FULL ANALYSIS MODE ##### Producing needed files and submitting your analysis job..."); | |
1926 | } | |
1927 | ||
348be253 | 1928 | Print(); |
c57f56b7 | 1929 | if (!Connect()) { |
1930 | Error("StartAnalysis", "Cannot start grid analysis without grid connection"); | |
5513444a | 1931 | return kFALSE; |
16a4353c | 1932 | } |
348be253 | 1933 | if (IsCheckCopy()) CheckFileCopy(gGrid->GetHomeDirectory()); |
c57f56b7 | 1934 | if (!CheckInputData()) { |
1935 | Error("StartAnalysis", "There was an error in preprocessing your requested input data"); | |
5513444a | 1936 | return kFALSE; |
c57f56b7 | 1937 | } |
d3339be3 | 1938 | if (!CreateDataset(fDataPattern)) { |
1939 | TString serror; | |
1940 | if (!fRunNumbers.Length() && !fRunRange[0]) serror = Form("path to data directory: <%s>", fGridDataDir.Data()); | |
1941 | if (fRunNumbers.Length()) serror = "run numbers"; | |
1942 | if (fRunRange[0]) serror = Form("run range [%d, %d]", fRunRange[0], fRunRange[1]); | |
1943 | serror += Form("\n or data pattern <%s>", fDataPattern.Data()); | |
1944 | Error("StartAnalysis", "No data to process. Please fix %s in your plugin configuration.", serror.Data()); | |
1945 | return kFALSE; | |
1946 | } | |
c57f56b7 | 1947 | WriteAnalysisFile(); |
1948 | WriteAnalysisMacro(); | |
1949 | WriteExecutable(); | |
1950 | WriteValidationScript(); | |
0f389141 | 1951 | if (fMergeViaJDL) { |
1952 | WriteMergingMacro(); | |
1953 | WriteMergeExecutable(); | |
1954 | WriteValidationScript(kTRUE); | |
1955 | } | |
5513444a | 1956 | if (!CreateJDL()) return kFALSE; |
1957 | if (TestBit(AliAnalysisGrid::kOffline)) return kFALSE; | |
c57f56b7 | 1958 | if (TestBit(AliAnalysisGrid::kTest)) { |
1959 | // Locally testing the analysis | |
1960 | Info("StartAnalysis", "\n_______________________________________________________________________ \ | |
1961 | \n Running analysis script in a daughter shell as on a worker node \ | |
1962 | \n_______________________________________________________________________"); | |
149d288c | 1963 | TObjArray *list = fOutputFiles.Tokenize(","); |
c57f56b7 | 1964 | TIter next(list); |
1965 | TObjString *str; | |
1966 | TString output_file; | |
1967 | while((str=(TObjString*)next())) { | |
1968 | output_file = str->GetString(); | |
1969 | Int_t index = output_file.Index("@"); | |
1970 | if (index > 0) output_file.Remove(index); | |
43da816a | 1971 | if (!gSystem->AccessPathName(output_file)) gSystem->Exec(Form("rm %s", output_file.Data())); |
c57f56b7 | 1972 | } |
1973 | delete list; | |
1974 | gSystem->Exec(Form("bash %s 2>stderr", fExecutable.Data())); | |
0d5d317c | 1975 | TString validationScript = fExecutable; |
1976 | validationScript.ReplaceAll(".sh", "_validation.sh"); | |
1977 | gSystem->Exec(Form("bash %s",validationScript.Data())); | |
c57f56b7 | 1978 | // gSystem->Exec("cat stdout"); |
5513444a | 1979 | return kFALSE; |
c57f56b7 | 1980 | } |
5513444a | 1981 | // Check if submitting is managed by LPM manager |
a3e84053 | 1982 | if (fProductionMode) { |
5513444a | 1983 | TString prodfile = fJDLName; |
1984 | prodfile.ReplaceAll(".jdl", ".prod"); | |
1985 | WriteProductionFile(prodfile); | |
1986 | Info("StartAnalysis", "Job submitting is managed by LPM. Rerun in terminate mode after jobs finished."); | |
1987 | return kFALSE; | |
1988 | } | |
a8739e8a | 1989 | // Submit AliEn job(s) |
d2a409b2 | 1990 | gGrid->Cd(fGridOutputDir); |
a8739e8a | 1991 | TGridResult *res; |
c57f56b7 | 1992 | TString jobID = ""; |
d2a409b2 | 1993 | if (!fRunNumbers.Length() && !fRunRange[0]) { |
dd74a515 | 1994 | // Submit a given xml or a set of runs |
a8739e8a | 1995 | res = gGrid->Command(Form("submit %s", fJDLName.Data())); |
84fcd93f | 1996 | printf("*************************** %s\n",Form("submit %s", fJDLName.Data())); |
a8739e8a | 1997 | if (res) { |
1998 | const char *cjobId = res->GetKey(0,"jobId"); | |
1999 | if (!cjobId) { | |
a03be957 | 2000 | gGrid->Stdout(); |
2001 | gGrid->Stderr(); | |
a8739e8a | 2002 | Error("StartAnalysis", "Your JDL %s could not be submitted", fJDLName.Data()); |
5513444a | 2003 | return kFALSE; |
a8739e8a | 2004 | } else { |
2005 | Info("StartAnalysis", "\n_______________________________________________________________________ \ | |
2006 | \n##### Your JDL %s was successfully submitted. \nTHE JOB ID IS: %s \ | |
2007 | \n_______________________________________________________________________", | |
2008 | fJDLName.Data(), cjobId); | |
2009 | jobID = cjobId; | |
2010 | } | |
2011 | delete res; | |
a03be957 | 2012 | } else { |
2013 | Error("StartAnalysis", "No grid result after submission !!! Bailing out..."); | |
2014 | return kFALSE; | |
a8739e8a | 2015 | } |
2016 | } else { | |
d2a409b2 | 2017 | // Submit for a range of enumeration of runs. |
a03be957 | 2018 | if (!Submit()) return kFALSE; |
c57f56b7 | 2019 | } |
a8739e8a | 2020 | |
c57f56b7 | 2021 | Info("StartAnalysis", "\n#### STARTING AN ALIEN SHELL FOR YOU. EXIT WHEN YOUR JOB %s HAS FINISHED. #### \ |
2022 | \n You may exit at any time and terminate the job later using the option <terminate> \ | |
2023 | \n ##################################################################################", jobID.Data()); | |
bb885a9e | 2024 | gSystem->Exec("aliensh"); |
5513444a | 2025 | return kTRUE; |
c57f56b7 | 2026 | } |
2027 | ||
d2a409b2 | 2028 | //______________________________________________________________________________ |
a03be957 | 2029 | Bool_t AliAnalysisAlien::Submit() |
d2a409b2 | 2030 | { |
2031 | // Submit all master jobs. | |
2032 | Int_t nmasterjobs = fInputFiles->GetEntries(); | |
2033 | Long_t tshoot = gSystem->Now(); | |
a03be957 | 2034 | if (!fNsubmitted && !SubmitNext()) return kFALSE; |
d2a409b2 | 2035 | while (fNsubmitted < nmasterjobs) { |
2036 | Long_t now = gSystem->Now(); | |
2037 | if ((now-tshoot)>30000) { | |
2038 | tshoot = now; | |
a03be957 | 2039 | if (!SubmitNext()) return kFALSE; |
d2a409b2 | 2040 | } |
2041 | } | |
a03be957 | 2042 | return kTRUE; |
d2a409b2 | 2043 | } |
2044 | ||
0f389141 | 2045 | //______________________________________________________________________________ |
a03be957 | 2046 | Bool_t AliAnalysisAlien::SubmitMerging() |
0f389141 | 2047 | { |
2048 | // Submit all merging jobs. | |
2049 | if (!fGridOutputDir.Contains("/")) fGridOutputDir = Form("/%s/%s/%s", gGrid->GetHomeDirectory(), fGridWorkingDir.Data(), fGridOutputDir.Data()); | |
2050 | gGrid->Cd(fGridOutputDir); | |
2051 | TString mergeJDLName = fExecutable; | |
2052 | mergeJDLName.ReplaceAll(".sh", "_merge.jdl"); | |
2053 | Int_t ntosubmit = fInputFiles->GetEntries(); | |
2054 | printf("### Submitting %d merging jobs...\n", ntosubmit); | |
2055 | for (Int_t i=0; i<ntosubmit; i++) { | |
2056 | TString query; | |
f866cba5 | 2057 | TString runOutDir = gSystem->BaseName(fInputFiles->At(i)->GetName()); |
2058 | runOutDir.ReplaceAll(".xml", ""); | |
2059 | if (fOutputToRunNo) | |
2060 | query = Form("submit %s %s", mergeJDLName.Data(), runOutDir.Data()); | |
2061 | else | |
2062 | query = Form("submit %s %03d", mergeJDLName.Data(), i); | |
0f389141 | 2063 | printf("********* %s\n",query.Data()); |
2064 | TGridResult *res = gGrid->Command(query); | |
2065 | if (res) { | |
2066 | const char *cjobId = res->GetKey(0,"jobId"); | |
2067 | if (!cjobId) { | |
a03be957 | 2068 | gGrid->Stdout(); |
2069 | gGrid->Stderr(); | |
0f389141 | 2070 | Error("StartAnalysis", "Your JDL %s could not be submitted", mergeJDLName.Data()); |
a03be957 | 2071 | return kFALSE; |
0f389141 | 2072 | } else { |
2073 | Info("StartAnalysis", "\n_______________________________________________________________________ \ | |
2074 | \n##### Your JDL %s was successfully submitted. \nTHE JOB ID IS: %s \ | |
2075 | \n_______________________________________________________________________", | |
2076 | mergeJDLName.Data(), cjobId); | |
2077 | } | |
2078 | delete res; | |
a03be957 | 2079 | } else { |
2080 | Error("SubmitMerging", "No grid result after submission !!! Bailing out..."); | |
2081 | return kFALSE; | |
0f389141 | 2082 | } |
2083 | } | |
a03be957 | 2084 | if (!ntosubmit) return kTRUE; |
0f389141 | 2085 | Info("StartAnalysis", "\n#### STARTING AN ALIEN SHELL FOR YOU. EXIT WHEN YOUR MERGING JOBS HAVE FINISHED. #### \ |
2086 | \n You may exit at any time and terminate the job later using the option <terminate> but disabling SetMergeViaJDL\ | |
2087 | \n ##################################################################################"); | |
2088 | gSystem->Exec("aliensh"); | |
a03be957 | 2089 | return kTRUE; |
0f389141 | 2090 | } |
2091 | ||
d2a409b2 | 2092 | //______________________________________________________________________________ |
a03be957 | 2093 | Bool_t AliAnalysisAlien::SubmitNext() |
d2a409b2 | 2094 | { |
2095 | // Submit next bunch of master jobs if the queue is free. | |
2096 | static Bool_t iscalled = kFALSE; | |
2097 | static Int_t firstmaster = 0; | |
2098 | static Int_t lastmaster = 0; | |
2099 | static Int_t npermaster = 0; | |
a03be957 | 2100 | if (iscalled) return kTRUE; |
d2a409b2 | 2101 | iscalled = kTRUE; |
2102 | Int_t nrunning=0, nwaiting=0, nerror=0, ndone=0; | |
2103 | Int_t ntosubmit = 0; | |
2104 | TGridResult *res; | |
2105 | TString jobID = ""; | |
2106 | if (!fNsubmitted) ntosubmit = 1; | |
2107 | else { | |
2108 | TString status = GetJobStatus(firstmaster, lastmaster, nrunning, nwaiting, nerror, ndone); | |
84fcd93f | 2109 | printf("=== master %d: %s\n", lastmaster, status.Data()); |
d2a409b2 | 2110 | // If last master not split, just return |
a03be957 | 2111 | if (status != "SPLIT") {iscalled = kFALSE; return kTRUE;} |
d2a409b2 | 2112 | // No more than 100 waiting jobs |
a03be957 | 2113 | if (nwaiting>100) {iscalled = kFALSE; return kTRUE;} |
d2a409b2 | 2114 | npermaster = (nrunning+nwaiting+nerror+ndone)/fNsubmitted; |
2115 | if (npermaster) ntosubmit = (100-nwaiting)/npermaster; | |
7586eedc | 2116 | if (!ntosubmit) ntosubmit = 1; |
84fcd93f | 2117 | printf("=== WAITING(%d) RUNNING(%d) DONE(%d) OTHER(%d) NperMaster=%d => to submit %d jobs\n", |
d2a409b2 | 2118 | nwaiting, nrunning, ndone, nerror, npermaster, ntosubmit); |
2119 | } | |
2120 | Int_t nmasterjobs = fInputFiles->GetEntries(); | |
2121 | for (Int_t i=0; i<ntosubmit; i++) { | |
2122 | // Submit for a range of enumeration of runs. | |
a03be957 | 2123 | if (fNsubmitted>=nmasterjobs) {iscalled = kFALSE; return kTRUE;} |
d2a409b2 | 2124 | TString query; |
cd11251e | 2125 | TString runOutDir = gSystem->BaseName(fInputFiles->At(fNsubmitted)->GetName()); |
2126 | runOutDir.ReplaceAll(".xml", ""); | |
2127 | if (fOutputToRunNo) | |
2128 | query = Form("submit %s %s %s", fJDLName.Data(), fInputFiles->At(fNsubmitted)->GetName(), runOutDir.Data()); | |
2129 | else | |
2130 | query = Form("submit %s %s %03d", fJDLName.Data(), fInputFiles->At(fNsubmitted)->GetName(), fNsubmitted); | |
84fcd93f | 2131 | printf("********* %s\n",query.Data()); |
d2a409b2 | 2132 | res = gGrid->Command(query); |
2133 | if (res) { | |
98ca124f | 2134 | TString cjobId1 = res->GetKey(0,"jobId"); |
2135 | if (!cjobId1.Length()) { | |
d2a409b2 | 2136 | iscalled = kFALSE; |
a03be957 | 2137 | gGrid->Stdout(); |
2138 | gGrid->Stderr(); | |
2139 | Error("StartAnalysis", "Your JDL %s could not be submitted. The message was:", fJDLName.Data()); | |
2140 | return kFALSE; | |
d2a409b2 | 2141 | } else { |
2142 | Info("StartAnalysis", "\n_______________________________________________________________________ \ | |
2143 | \n##### Your JDL %s submitted (%d to go). \nTHE JOB ID IS: %s \ | |
2144 | \n_______________________________________________________________________", | |
98ca124f | 2145 | fJDLName.Data(), nmasterjobs-fNsubmitted-1, cjobId1.Data()); |
d2a409b2 | 2146 | jobID += cjobId1; |
2147 | jobID += " "; | |
98ca124f | 2148 | lastmaster = cjobId1.Atoi(); |
d2a409b2 | 2149 | if (!firstmaster) firstmaster = lastmaster; |
2150 | fNsubmitted++; | |
2151 | } | |
2152 | delete res; | |
a03be957 | 2153 | } else { |
2154 | Error("StartAnalysis", "No grid result after submission !!! Bailing out..."); | |
2155 | return kFALSE; | |
d2a409b2 | 2156 | } |
2157 | } | |
2158 | iscalled = kFALSE; | |
a03be957 | 2159 | return kTRUE; |
d2a409b2 | 2160 | } |
2161 | ||
c57f56b7 | 2162 | //______________________________________________________________________________ |
2163 | void AliAnalysisAlien::WriteAnalysisFile() | |
2164 | { | |
f10e8481 | 2165 | // Write current analysis manager into the file <analysisFile> |
2166 | TString analysisFile = fExecutable; | |
2167 | analysisFile.ReplaceAll(".sh", ".root"); | |
c57f56b7 | 2168 | if (!TestBit(AliAnalysisGrid::kSubmit)) { |
2169 | AliAnalysisManager *mgr = AliAnalysisManager::GetAnalysisManager(); | |
2170 | if (!mgr || !mgr->IsInitialized()) { | |
2171 | Error("WriteAnalysisFile", "You need an initialized analysis manager for this"); | |
2172 | return; | |
2173 | } | |
2174 | // Check analysis type | |
2175 | TObject *handler; | |
2176 | if (mgr->GetMCtruthEventHandler()) TObject::SetBit(AliAnalysisGrid::kUseMC); | |
2177 | handler = (TObject*)mgr->GetInputEventHandler(); | |
2178 | if (handler) { | |
2179 | if (handler->InheritsFrom("AliESDInputHandler")) TObject::SetBit(AliAnalysisGrid::kUseESD); | |
2180 | if (handler->InheritsFrom("AliAODInputHandler")) TObject::SetBit(AliAnalysisGrid::kUseAOD); | |
2181 | } | |
2182 | TDirectory *cdir = gDirectory; | |
f10e8481 | 2183 | TFile *file = TFile::Open(analysisFile, "RECREATE"); |
c57f56b7 | 2184 | if (file) { |
fe2d7fc2 | 2185 | // Skip task Terminate calls for the grid job |
2186 | mgr->SetSkipTerminate(kTRUE); | |
2187 | // Unless merging makes no sense | |
2188 | if (IsSingleOutput()) mgr->SetSkipTerminate(kFALSE); | |
c57f56b7 | 2189 | mgr->Write(); |
2190 | delete file; | |
fe2d7fc2 | 2191 | // Enable termination for local jobs |
2192 | mgr->SetSkipTerminate(kFALSE); | |
c57f56b7 | 2193 | } |
2194 | if (cdir) cdir->cd(); | |
f10e8481 | 2195 | Info("WriteAnalysisFile", "\n##### Analysis manager: %s wrote to file <%s>\n", mgr->GetName(),analysisFile.Data()); |
c57f56b7 | 2196 | } |
2197 | Bool_t copy = kTRUE; | |
2198 | if (TestBit(AliAnalysisGrid::kOffline) || TestBit(AliAnalysisGrid::kTest)) copy = kFALSE; | |
2199 | if (copy) { | |
2200 | CdWork(); | |
2201 | TString workdir = gGrid->GetHomeDirectory(); | |
2202 | workdir += fGridWorkingDir; | |
f10e8481 | 2203 | Info("CreateJDL", "\n##### Copying file <%s> containing your initialized analysis manager to your alien workspace", analysisFile.Data()); |
2204 | if (FileExists(analysisFile)) gGrid->Rm(analysisFile); | |
2205 | TFile::Cp(Form("file:%s",analysisFile.Data()), Form("alien://%s/%s", workdir.Data(),analysisFile.Data())); | |
c57f56b7 | 2206 | } |
2207 | } | |
2208 | ||
2209 | //______________________________________________________________________________ | |
2210 | void AliAnalysisAlien::WriteAnalysisMacro() | |
2211 | { | |
2212 | // Write the analysis macro that will steer the analysis in grid mode. | |
2213 | if (!TestBit(AliAnalysisGrid::kSubmit)) { | |
2214 | ofstream out; | |
2215 | out.open(fAnalysisMacro.Data(), ios::out); | |
2216 | if (!out.good()) { | |
2217 | Error("WriteAnalysisMacro", "could not open file %s for writing", fAnalysisMacro.Data()); | |
2218 | return; | |
2219 | } | |
5b273635 | 2220 | Bool_t hasSTEERBase = kFALSE; |
2221 | Bool_t hasESD = kFALSE; | |
2222 | Bool_t hasAOD = kFALSE; | |
2223 | Bool_t hasANALYSIS = kFALSE; | |
2224 | Bool_t hasANALYSISalice = kFALSE; | |
2225 | Bool_t hasCORRFW = kFALSE; | |
c57f56b7 | 2226 | TString func = fAnalysisMacro; |
2227 | TString type = "ESD"; | |
2228 | TString comment = "// Analysis using "; | |
2229 | if (TObject::TestBit(AliAnalysisGrid::kUseESD)) comment += "ESD"; | |
2230 | if (TObject::TestBit(AliAnalysisGrid::kUseAOD)) { | |
2231 | type = "AOD"; | |
2232 | comment += "AOD"; | |
2233 | } | |
0df6ccf2 | 2234 | if (type!="AOD" && fFriendChainName!="") { |
2235 | Error("WriteAnalysisMacro", "Friend chain can be attached only to AOD"); | |
2236 | return; | |
2237 | } | |
c57f56b7 | 2238 | if (TObject::TestBit(AliAnalysisGrid::kUseMC)) comment += "/MC"; |
2239 | else comment += " data"; | |
2240 | out << "const char *anatype = \"" << type.Data() << "\";" << endl << endl; | |
2241 | func.ReplaceAll(".C", ""); | |
2242 | out << "void " << func.Data() << "()" << endl; | |
2243 | out << "{" << endl; | |
2244 | out << comment.Data() << endl; | |
2245 | out << "// Automatically generated analysis steering macro executed in grid subjobs" << endl << endl; | |
f7498086 | 2246 | out << " TStopwatch timer;" << endl; |
2247 | out << " timer.Start();" << endl << endl; | |
c57f56b7 | 2248 | out << "// load base root libraries" << endl; |
2249 | out << " gSystem->Load(\"libTree\");" << endl; | |
2250 | out << " gSystem->Load(\"libGeom\");" << endl; | |
2251 | out << " gSystem->Load(\"libVMC\");" << endl; | |
2252 | out << " gSystem->Load(\"libPhysics\");" << endl << endl; | |
648174cf | 2253 | out << " gSystem->Load(\"libMinuit\");" << endl << endl; |
d5c6455a | 2254 | if (fAdditionalRootLibs.Length()) { |
47a4137d | 2255 | // in principle libtree /lib geom libvmc etc. can go into this list, too |
2256 | out << "// Add aditional libraries" << endl; | |
2257 | TObjArray *list = fAdditionalRootLibs.Tokenize(" "); | |
2258 | TIter next(list); | |
2259 | TObjString *str; | |
2260 | while((str=(TObjString*)next())) { | |
2261 | if (str->GetString().Contains(".so")) | |
2262 | out << " gSystem->Load(\"" << str->GetString().Data() << "\");" << endl; | |
d5c6455a | 2263 | } |
47a4137d | 2264 | if (list) delete list; |
d5c6455a | 2265 | } |
47a4137d | 2266 | out << "// include path" << endl; |
2267 | if (fIncludePath.Length()) out << " gSystem->AddIncludePath(\"" << fIncludePath.Data() << "\");" << endl; | |
2268 | out << " gSystem->AddIncludePath(\"-I$ALICE_ROOT/include\");" << endl << endl; | |
57377eb5 | 2269 | out << "// Load analysis framework libraries" << endl; |
4e5c5506 | 2270 | if (!fPackages) { |
4e5c5506 | 2271 | out << " gSystem->Load(\"libSTEERBase\");" << endl; |
2272 | out << " gSystem->Load(\"libESD\");" << endl; | |
2273 | out << " gSystem->Load(\"libAOD\");" << endl; | |
2274 | out << " gSystem->Load(\"libANALYSIS\");" << endl; | |
57377eb5 | 2275 | out << " gSystem->Load(\"libANALYSISalice\");" << endl; |
2276 | out << " gSystem->Load(\"libCORRFW\");" << endl << endl; | |
4e5c5506 | 2277 | } else { |
4e5c5506 | 2278 | TIter next(fPackages); |
2279 | TObject *obj; | |
57377eb5 | 2280 | TString pkgname; |
5b273635 | 2281 | TString setupPar = "AliAnalysisAlien::SetupPar"; |
57377eb5 | 2282 | while ((obj=next())) { |
2283 | pkgname = obj->GetName(); | |
4478e6f1 | 2284 | if (pkgname == "STEERBase" || |
2285 | pkgname == "STEERBase.par") hasSTEERBase = kTRUE; | |
2286 | if (pkgname == "ESD" || | |
2287 | pkgname == "ESD.par") hasESD = kTRUE; | |
2288 | if (pkgname == "AOD" || | |
2289 | pkgname == "AOD.par") hasAOD = kTRUE; | |
2290 | if (pkgname == "ANALYSIS" || | |
2291 | pkgname == "ANALYSIS.par") hasANALYSIS = kTRUE; | |
2292 | if (pkgname == "ANALYSISalice" || | |
2293 | pkgname == "ANALYSISalice.par") hasANALYSISalice = kTRUE; | |
2294 | if (pkgname == "CORRFW" || | |
2295 | pkgname == "CORRFW.par") hasCORRFW = kTRUE; | |
5b273635 | 2296 | } |
2297 | if (hasANALYSISalice) setupPar = "SetupPar"; | |
57377eb5 | 2298 | if (!hasSTEERBase) out << " gSystem->Load(\"libSTEERBase\");" << endl; |
5b273635 | 2299 | else out << " if (!" << setupPar << "(\"STEERBase\")) return;" << endl; |
57377eb5 | 2300 | if (!hasESD) out << " gSystem->Load(\"libESD\");" << endl; |
5b273635 | 2301 | else out << " if (!" << setupPar << "(\"ESD\")) return;" << endl; |
57377eb5 | 2302 | if (!hasAOD) out << " gSystem->Load(\"libAOD\");" << endl; |
5b273635 | 2303 | else out << " if (!" << setupPar << "(\"AOD\")) return;" << endl; |
57377eb5 | 2304 | if (!hasANALYSIS) out << " gSystem->Load(\"libANALYSIS\");" << endl; |
5b273635 | 2305 | else out << " if (!" << setupPar << "(\"ANALYSIS\")) return;" << endl; |
57377eb5 | 2306 | if (!hasANALYSISalice) out << " gSystem->Load(\"libANALYSISalice\");" << endl; |
5b273635 | 2307 | else out << " if (!" << setupPar << "(\"ANALYSISalice\")) return;" << endl; |
57377eb5 | 2308 | if (!hasCORRFW) out << " gSystem->Load(\"libCORRFW\");" << endl << endl; |
5b273635 | 2309 | else out << " if (!" << setupPar << "(\"CORRFW\")) return;" << endl << endl; |
57377eb5 | 2310 | out << "// Compile other par packages" << endl; |
2311 | next.Reset(); | |
fcc9bb6f | 2312 | while ((obj=next())) { |
2313 | pkgname = obj->GetName(); | |
4478e6f1 | 2314 | if (pkgname == "STEERBase" || |
2315 | pkgname == "STEERBase.par" || | |
2316 | pkgname == "ESD" || | |
2317 | pkgname == "ESD.par" || | |
2318 | pkgname == "AOD" || | |
2319 | pkgname == "AOD.par" || | |
2320 | pkgname == "ANALYSIS" || | |
2321 | pkgname == "ANALYSIS.par" || | |
2322 | pkgname == "ANALYSISalice" || | |
2323 | pkgname == "ANALYSISalice.par" || | |
2324 | pkgname == "CORRFW" || | |
2325 | pkgname == "CORRFW.par") continue; | |
5b273635 | 2326 | out << " if (!" << setupPar << "(\"" << obj->GetName() << "\")) return;" << endl; |
fcc9bb6f | 2327 | } |
4e5c5506 | 2328 | } |
6da75e0b | 2329 | if (fAdditionalLibs.Length()) { |
2330 | out << "// Add aditional AliRoot libraries" << endl; | |
2331 | TObjArray *list = fAdditionalLibs.Tokenize(" "); | |
2332 | TIter next(list); | |
2333 | TObjString *str; | |
2334 | while((str=(TObjString*)next())) { | |
2335 | if (str->GetString().Contains(".so")) | |
2336 | out << " gSystem->Load(\"" << str->GetString().Data() << "\");" << endl; | |
2337 | } | |
2338 | if (list) delete list; | |
2339 | } | |
2340 | out << endl; | |
c57f56b7 | 2341 | out << "// analysis source to be compiled at runtime (if any)" << endl; |
2342 | if (fAnalysisSource.Length()) { | |
2343 | TObjArray *list = fAnalysisSource.Tokenize(" "); | |
2344 | TIter next(list); | |
2345 | TObjString *str; | |
2346 | while((str=(TObjString*)next())) { | |
2347 | out << " gROOT->ProcessLine(\".L " << str->GetString().Data() << "+g\");" << endl; | |
2348 | } | |
2349 | if (list) delete list; | |
2350 | } | |
2351 | out << endl; | |
0f389141 | 2352 | if (fFastReadOption) { |
d3339be3 | 2353 | 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 !!! \ |
2354 | \n+++ NOTE: To disable this option, use: plugin->SetFastReadOption(kFALSE)"); | |
0f389141 | 2355 | out << "// fast xrootd reading enabled" << endl; |
2356 | out << " printf(\"!!! You requested FastRead option. Using xrootd flags to reduce timeouts. Note that this may skip some files that could be accessed !!!\");" << endl; | |
d3339be3 | 2357 | out << " gEnv->SetValue(\"XNet.ConnectTimeout\",10);" << endl; |
2358 | out << " gEnv->SetValue(\"XNet.RequestTimeout\",10);" << endl; | |
0f389141 | 2359 | out << " gEnv->SetValue(\"XNet.MaxRedirectCount\",2);" << endl; |
d3339be3 | 2360 | out << " gEnv->SetValue(\"XNet.ReconnectTimeout\",10);" << endl; |
0f389141 | 2361 | out << " gEnv->SetValue(\"XNet.FirstConnectMaxCnt\",1);" << endl << endl; |
2362 | } | |
c57f56b7 | 2363 | out << "// connect to AliEn and make the chain" << endl; |
2364 | out << " if (!TGrid::Connect(\"alien://\")) return;" << endl; | |
2365 | if (IsUsingTags()) { | |
2366 | out << " TChain *chain = CreateChainFromTags(\"wn.xml\", anatype);" << endl << endl; | |
2367 | } else { | |
76535c98 | 2368 | if(fFriendChainName!="AliAOD.VertexingHF.root") { |
2369 | out << " TChain *chain = CreateChain(\"wn.xml\", anatype);" << endl << endl; | |
2370 | } else { | |
2371 | out << " // Check if the macro to create the chain was provided" << endl; | |
2372 | out << " if (gSystem->AccessPathName(\"MakeAODInputChain.C\")) {" << endl; | |
2373 | out << " ::Error(\"" << func.Data() << "\", \"File MakeAODInputChain.C not provided. Aborting.\");" << endl; | |
2374 | out << " return;" << endl; | |
2375 | out << " }" << endl; | |
2376 | out << " gROOT->LoadMacro(\"MakeAODInputChain.C\");" << endl; | |
2377 | out << " TChain *chain = MakeAODInputChain(\"wn.xml\",\"none\");" << endl << endl; | |
2378 | } | |
c57f56b7 | 2379 | } |
2380 | out << "// read the analysis manager from file" << endl; | |
f10e8481 | 2381 | TString analysisFile = fExecutable; |
2382 | analysisFile.ReplaceAll(".sh", ".root"); | |
2383 | out << " TFile *file = TFile::Open(\"" << analysisFile << "\");" << endl; | |
c57f56b7 | 2384 | out << " if (!file) return;" << endl; |
2385 | out << " TIter nextkey(file->GetListOfKeys());" << endl; | |
2386 | out << " AliAnalysisManager *mgr = 0;" << endl; | |
2387 | out << " TKey *key;" << endl; | |
2388 | out << " while ((key=(TKey*)nextkey())) {" << endl; | |
2389 | out << " if (!strcmp(key->GetClassName(), \"AliAnalysisManager\"))" << endl; | |
2390 | out << " mgr = (AliAnalysisManager*)file->Get(key->GetName());" << endl; | |
2391 | out << " };" << endl; | |
2392 | out << " if (!mgr) {" << endl; | |
f10e8481 | 2393 | out << " ::Error(\"" << func.Data() << "\", \"No analysis manager found in file" << analysisFile <<"\");" << endl; |
c57f56b7 | 2394 | out << " return;" << endl; |
2395 | out << " }" << endl << endl; | |
2396 | out << " mgr->PrintStatus();" << endl; | |
52b6a92b | 2397 | if (AliAnalysisManager::GetAnalysisManager()) { |
f866cba5 | 2398 | if (AliAnalysisManager::GetAnalysisManager()->GetDebugLevel()>3) { |
52b6a92b | 2399 | out << " gEnv->SetValue(\"XNet.Debug\", \"1\");" << endl; |
de52b69c | 2400 | } else { |
2401 | out << " AliLog::SetGlobalLogLevel(AliLog::kError);" << endl; | |
52b6a92b | 2402 | } |
2403 | } | |
c57f56b7 | 2404 | out << " mgr->StartAnalysis(\"localfile\", chain);" << endl; |
f7498086 | 2405 | out << " timer.Stop();" << endl; |
2406 | out << " timer.Print();" << endl; | |
c57f56b7 | 2407 | out << "}" << endl << endl; |
2408 | if (IsUsingTags()) { | |
2409 | out << "TChain* CreateChainFromTags(const char *xmlfile, const char *type=\"ESD\")" << endl; | |
2410 | out << "{" << endl; | |
2411 | out << "// Create a chain using tags from the xml file." << endl; | |
2412 | out << " TAlienCollection* coll = TAlienCollection::Open(xmlfile);" << endl; | |
2413 | out << " if (!coll) {" << endl; | |
2414 | out << " ::Error(\"CreateChainFromTags\", \"Cannot create an AliEn collection from %s\", xmlfile);" << endl; | |
2415 | out << " return NULL;" << endl; | |
2416 | out << " }" << endl; | |
2417 | out << " TGridResult* tagResult = coll->GetGridResult(\"\",kFALSE,kFALSE);" << endl; | |
2418 | out << " AliTagAnalysis *tagAna = new AliTagAnalysis(type);" << endl; | |
2419 | out << " tagAna->ChainGridTags(tagResult);" << endl << endl; | |
2420 | out << " AliRunTagCuts *runCuts = new AliRunTagCuts();" << endl; | |
2421 | out << " AliLHCTagCuts *lhcCuts = new AliLHCTagCuts();" << endl; | |
2422 | out << " AliDetectorTagCuts *detCuts = new AliDetectorTagCuts();" << endl; | |
2423 | out << " AliEventTagCuts *evCuts = new AliEventTagCuts();" << endl; | |
2424 | out << " // Check if the cuts configuration file was provided" << endl; | |
2425 | out << " if (!gSystem->AccessPathName(\"ConfigureCuts.C\")) {" << endl; | |
2426 | out << " gROOT->LoadMacro(\"ConfigureCuts.C\");" << endl; | |
2427 | out << " ConfigureCuts(runCuts, lhcCuts, detCuts, evCuts);" << endl; | |
2428 | out << " }" << endl; | |
0df6ccf2 | 2429 | if (fFriendChainName=="") { |
2430 | out << " TChain *chain = tagAna->QueryTags(runCuts, lhcCuts, detCuts, evCuts);" << endl; | |
2431 | } else { | |
2432 | out << " TString tmpColl=\"tmpCollection.xml\";" << endl; | |
2433 | out << " tagAna->CreateXMLCollection(tmpColl.Data(),runCuts, lhcCuts, detCuts, evCuts);" << endl; | |
2434 | out << " TChain *chain = CreateChain(tmpColl.Data(),type);" << endl; | |
2435 | } | |
c57f56b7 | 2436 | out << " if (!chain || !chain->GetNtrees()) return NULL;" << endl; |
2437 | out << " chain->ls();" << endl; | |
2438 | out << " return chain;" << endl; | |
fcc9bb6f | 2439 | out << "}" << endl << endl; |
c57f56b7 | 2440 | if (gSystem->AccessPathName("ConfigureCuts.C")) { |
2441 | TString msg = "\n##### You may want to provide a macro ConfigureCuts.C with a method:\n"; | |
2442 | msg += " void ConfigureCuts(AliRunTagCuts *runCuts,\n"; | |
2443 | msg += " AliLHCTagCuts *lhcCuts,\n"; | |
2444 | msg += " AliDetectorTagCuts *detCuts,\n"; | |
2445 | msg += " AliEventTagCuts *evCuts)"; | |
2446 | Info("WriteAnalysisMacro", msg.Data()); | |
2447 | } | |
0df6ccf2 | 2448 | } |
2449 | if (!IsUsingTags() || fFriendChainName!="") { | |
fcc9bb6f | 2450 | out <<"//________________________________________________________________________________" << endl; |
c57f56b7 | 2451 | out << "TChain* CreateChain(const char *xmlfile, const char *type=\"ESD\")" << endl; |
2452 | out << "{" << endl; | |
2453 | out << "// Create a chain using url's from xml file" << endl; | |
2454 | out << " TString treename = type;" << endl; | |
2455 | out << " treename.ToLower();" << endl; | |
2456 | out << " treename += \"Tree\";" << endl; | |
e02fee64 | 2457 | out << " printf(\"***************************************\\n\");" << endl; |
2458 | out << " printf(\" Getting chain of trees %s\\n\", treename.Data());" << endl; | |
2459 | out << " printf(\"***************************************\\n\");" << endl; | |
c57f56b7 | 2460 | out << " TAlienCollection *coll = TAlienCollection::Open(xmlfile);" << endl; |
2461 | out << " if (!coll) {" << endl; | |
2462 | out << " ::Error(\"CreateChain\", \"Cannot create an AliEn collection from %s\", xmlfile);" << endl; | |
2463 | out << " return NULL;" << endl; | |
2464 | out << " }" << endl; | |
2465 | out << " TChain *chain = new TChain(treename);" << endl; | |
0df6ccf2 | 2466 | if(fFriendChainName!="") { |
2467 | out << " TChain *chainFriend = new TChain(treename);" << endl; | |
2468 | } | |
c57f56b7 | 2469 | out << " coll->Reset();" << endl; |
0df6ccf2 | 2470 | out << " while (coll->Next()) {" << endl; |
2471 | out << " chain->Add(coll->GetTURL(\"\"));" << endl; | |
2472 | if(fFriendChainName!="") { | |
2473 | out << " TString fileFriend=coll->GetTURL(\"\");" << endl; | |
2474 | out << " fileFriend.ReplaceAll(\"AliAOD.root\",\""<<fFriendChainName.Data()<<"\");" << endl; | |
2475 | out << " fileFriend.ReplaceAll(\"AliAODs.root\",\""<<fFriendChainName.Data()<<"\");" << endl; | |
2476 | out << " chainFriend->Add(fileFriend.Data());" << endl; | |
2477 | } | |
2478 | out << " }" << endl; | |
c57f56b7 | 2479 | out << " if (!chain->GetNtrees()) {" << endl; |
2480 | out << " ::Error(\"CreateChain\", \"No tree found from collection %s\", xmlfile);" << endl; | |
2481 | out << " return NULL;" << endl; | |
2482 | out << " }" << endl; | |
0df6ccf2 | 2483 | if(fFriendChainName!="") { |
2484 | out << " chain->AddFriend(chainFriend);" << endl; | |
2485 | } | |
c57f56b7 | 2486 | out << " return chain;" << endl; |
fcc9bb6f | 2487 | out << "}" << endl << endl; |
c57f56b7 | 2488 | } |
5b273635 | 2489 | if (hasANALYSISalice) { |
2490 | out <<"//________________________________________________________________________________" << endl; | |
2491 | out << "Bool_t SetupPar(const char *package) {" << endl; | |
2492 | out << "// Compile the package and set it up." << endl; | |
2493 | out << " TString pkgdir = package;" << endl; | |
2494 | out << " pkgdir.ReplaceAll(\".par\",\"\");" << endl; | |
2495 | out << " gSystem->Exec(Form(\"tar xvzf %s.par\", pkgdir.Data()));" << endl; | |
2496 | out << " TString cdir = gSystem->WorkingDirectory();" << endl; | |
2497 | out << " gSystem->ChangeDirectory(pkgdir);" << endl; | |
2498 | out << " // Check for BUILD.sh and execute" << endl; | |
2499 | out << " if (!gSystem->AccessPathName(\"PROOF-INF/BUILD.sh\")) {" << endl; | |
2500 | out << " printf(\"*******************************\\n\");" << endl; | |
2501 | out << " printf(\"*** Building PAR archive ***\\n\");" << endl; | |
2502 | out << " printf(\"*******************************\\n\");" << endl; | |
2503 | out << " if (gSystem->Exec(\"PROOF-INF/BUILD.sh\")) {" << endl; | |
2504 | out << " ::Error(\"SetupPar\", \"Cannot build par archive %s\", pkgdir.Data());" << endl; | |
2505 | out << " gSystem->ChangeDirectory(cdir);" << endl; | |
2506 | out << " return kFALSE;" << endl; | |
2507 | out << " }" << endl; | |
2508 | out << " } else {" << endl; | |
2509 | out << " ::Error(\"SetupPar\",\"Cannot access PROOF-INF/BUILD.sh for package %s\", pkgdir.Data());" << endl; | |
2510 | out << " gSystem->ChangeDirectory(cdir);" << endl; | |
2511 | out << " return kFALSE;" << endl; | |
2512 | out << " }" << endl; | |
2513 | out << " // Check for SETUP.C and execute" << endl; | |
2514 | out << " if (!gSystem->AccessPathName(\"PROOF-INF/SETUP.C\")) {" << endl; | |
2515 | out << " printf(\"*******************************\\n\");" << endl; | |
2516 | out << " printf(\"*** Setup PAR archive ***\\n\");" << endl; | |
2517 | out << " printf(\"*******************************\\n\");" << endl; | |
2518 | out << " gROOT->Macro(\"PROOF-INF/SETUP.C\");" << endl; | |
2519 | out << " } else {" << endl; | |
2520 | out << " ::Error(\"SetupPar\",\"Cannot access PROOF-INF/SETUP.C for package %s\", pkgdir.Data());" << endl; | |
2521 | out << " gSystem->ChangeDirectory(cdir);" << endl; | |
2522 | out << " return kFALSE;" << endl; | |
2523 | out << " }" << endl; | |
2524 | out << " // Restore original workdir" << endl; | |
2525 | out << " gSystem->ChangeDirectory(cdir);" << endl; | |
2526 | out << " return kTRUE;" << endl; | |
2527 | out << "}" << endl; | |
2528 | } | |
c57f56b7 | 2529 | Info("WriteAnalysisMacro", "\n##### Analysis macro to run on worker nodes <%s> written",fAnalysisMacro.Data()); |
2530 | } | |
2531 | Bool_t copy = kTRUE; | |
2532 | if (TestBit(AliAnalysisGrid::kOffline) || TestBit(AliAnalysisGrid::kTest)) copy = kFALSE; | |
2533 | if (copy) { | |
2534 | CdWork(); | |
2535 | TString workdir = gGrid->GetHomeDirectory(); | |
2536 | workdir += fGridWorkingDir; | |
2537 | if (FileExists(fAnalysisMacro)) gGrid->Rm(fAnalysisMacro); | |
2538 | if (IsUsingTags() && !gSystem->AccessPathName("ConfigureCuts.C")) { | |
2539 | if (FileExists("ConfigureCuts.C")) gGrid->Rm("ConfigureCuts.C"); | |
2540 | Info("WriteAnalysisMacro", "\n##### Copying cuts configuration macro: <ConfigureCuts.C> to your alien workspace"); | |
2541 | TFile::Cp("file:ConfigureCuts.C", Form("alien://%s/ConfigureCuts.C", workdir.Data())); | |
2542 | } | |
2543 | Info("WriteAnalysisMacro", "\n##### Copying analysis macro: <%s> to your alien workspace", fAnalysisMacro.Data()); | |
2544 | TFile::Cp(Form("file:%s",fAnalysisMacro.Data()), Form("alien://%s/%s", workdir.Data(), fAnalysisMacro.Data())); | |
2545 | } | |
2546 | } | |
2547 | ||
0f389141 | 2548 | //______________________________________________________________________________ |
2549 | void AliAnalysisAlien::WriteMergingMacro() | |
2550 | { | |
2551 | // Write a macro to merge the outputs per master job. | |
2552 | if (!fMergeViaJDL) return; | |
2553 | if (!fOutputFiles.Length()) { | |
2554 | Error("WriteMergingMacro", "No output file names defined. Are you running the right AliAnalysisAlien configuration ?"); | |
2555 | return; | |
2556 | } | |
2557 | TString mergingMacro = fExecutable; | |
2558 | mergingMacro.ReplaceAll(".sh","_merge.C"); | |
2559 | if (!fGridOutputDir.Contains("/")) fGridOutputDir = Form("/%s/%s/%s", gGrid->GetHomeDirectory(), fGridWorkingDir.Data(), fGridOutputDir.Data()); | |
2560 | if (!TestBit(AliAnalysisGrid::kSubmit)) { | |
2561 | ofstream out; | |
2562 | out.open(mergingMacro.Data(), ios::out); | |
2563 | if (!out.good()) { | |
2564 | Error("WriteMergingMacro", "could not open file %s for writing", fAnalysisMacro.Data()); | |
2565 | return; | |
2566 | } | |
5b273635 | 2567 | Bool_t hasSTEERBase = kFALSE; |
2568 | Bool_t hasESD = kFALSE; | |
2569 | Bool_t hasAOD = kFALSE; | |
2570 | Bool_t hasANALYSIS = kFALSE; | |
2571 | Bool_t hasANALYSISalice = kFALSE; | |
2572 | Bool_t hasCORRFW = kFALSE; | |
0f389141 | 2573 | TString func = mergingMacro; |
2574 | TString comment; | |
2575 | func.ReplaceAll(".C", ""); | |
2576 | out << "void " << func.Data() << "(const char *dir)" << endl; | |
2577 | out << "{" << endl; | |
2578 | out << "// Automatically generated merging macro executed in grid subjobs" << endl << endl; | |
2579 | out << " TStopwatch timer;" << endl; | |
2580 | out << " timer.Start();" << endl << endl; | |
2581 | out << "// load base root libraries" << endl; | |
2582 | out << " gSystem->Load(\"libTree\");" << endl; | |
2583 | out << " gSystem->Load(\"libGeom\");" << endl; | |
2584 | out << " gSystem->Load(\"libVMC\");" << endl; | |
2585 | out << " gSystem->Load(\"libPhysics\");" << endl << endl; | |
2586 | out << " gSystem->Load(\"libMinuit\");" << endl << endl; | |
2587 | if (fAdditionalRootLibs.Length()) { | |
2588 | // in principle libtree /lib geom libvmc etc. can go into this list, too | |
2589 | out << "// Add aditional libraries" << endl; | |
2590 | TObjArray *list = fAdditionalRootLibs.Tokenize(" "); | |
2591 | TIter next(list); | |
2592 | TObjString *str; | |
2593 | while((str=(TObjString*)next())) { | |
2594 | if (str->GetString().Contains(".so")) | |
2595 | out << " gSystem->Load(\"" << str->GetString().Data() << "\");" << endl; | |
2596 | } | |
2597 | if (list) delete list; | |
2598 | } | |
2599 | out << "// include path" << endl; | |
2600 | if (fIncludePath.Length()) out << " gSystem->AddIncludePath(\"" << fIncludePath.Data() << "\");" << endl; | |
2601 | out << " gSystem->AddIncludePath(\"-I$ALICE_ROOT/include\");" << endl << endl; | |
2602 | out << "// Load analysis framework libraries" << endl; | |
2603 | if (!fPackages) { | |
2604 | out << " gSystem->Load(\"libSTEERBase\");" << endl; | |
2605 | out << " gSystem->Load(\"libESD\");" << endl; | |
2606 | out << " gSystem->Load(\"libAOD\");" << endl; | |
2607 | out << " gSystem->Load(\"libANALYSIS\");" << endl; | |
2608 | out << " gSystem->Load(\"libANALYSISalice\");" << endl; | |
2609 | out << " gSystem->Load(\"libCORRFW\");" << endl << endl; | |
2610 | } else { | |
2611 | TIter next(fPackages); | |
2612 | TObject *obj; | |
2613 | TString pkgname; | |
5b273635 | 2614 | TString setupPar = "AliAnalysisAlien::SetupPar"; |
0f389141 | 2615 | while ((obj=next())) { |
2616 | pkgname = obj->GetName(); | |
2617 | if (pkgname == "STEERBase" || | |
2618 | pkgname == "STEERBase.par") hasSTEERBase = kTRUE; | |
2619 | if (pkgname == "ESD" || | |
2620 | pkgname == "ESD.par") hasESD = kTRUE; | |
2621 | if (pkgname == "AOD" || | |
2622 | pkgname == "AOD.par") hasAOD = kTRUE; | |
2623 | if (pkgname == "ANALYSIS" || | |
2624 | pkgname == "ANALYSIS.par") hasANALYSIS = kTRUE; | |
2625 | if (pkgname == "ANALYSISalice" || | |
2626 | pkgname == "ANALYSISalice.par") hasANALYSISalice = kTRUE; | |
2627 | if (pkgname == "CORRFW" || | |
2628 | pkgname == "CORRFW.par") hasCORRFW = kTRUE; | |
2629 | } | |
5b273635 | 2630 | if (hasANALYSISalice) setupPar = "SetupPar"; |
0f389141 | 2631 | if (!hasSTEERBase) out << " gSystem->Load(\"libSTEERBase\");" << endl; |
5b273635 | 2632 | else out << " if (!" << setupPar << "(\"STEERBase\")) return;" << endl; |
0f389141 | 2633 | if (!hasESD) out << " gSystem->Load(\"libESD\");" << endl; |
5b273635 | 2634 | else out << " if (!" << setupPar << "(\"ESD\")) return;" << endl; |
0f389141 | 2635 | if (!hasAOD) out << " gSystem->Load(\"libAOD\");" << endl; |
5b273635 | 2636 | else out << " if (!" << setupPar << "(\"AOD\")) return;" << endl; |
0f389141 | 2637 | if (!hasANALYSIS) out << " gSystem->Load(\"libANALYSIS\");" << endl; |
5b273635 | 2638 | else out << " if (!" << setupPar << "(\"ANALYSIS\")) return;" << endl; |
0f389141 | 2639 | if (!hasANALYSISalice) out << " gSystem->Load(\"libANALYSISalice\");" << endl; |
5b273635 | 2640 | else out << " if (!" << setupPar << "(\"ANALYSISalice\")) return;" << endl; |
0f389141 | 2641 | if (!hasCORRFW) out << " gSystem->Load(\"libCORRFW\");" << endl << endl; |
5b273635 | 2642 | else out << " if (!" << setupPar << "(\"CORRFW\")) return;" << endl << endl; |
0f389141 | 2643 | out << "// Compile other par packages" << endl; |
2644 | next.Reset(); | |
2645 | while ((obj=next())) { | |
2646 | pkgname = obj->GetName(); | |
2647 | if (pkgname == "STEERBase" || | |
2648 | pkgname == "STEERBase.par" || | |
2649 | pkgname == "ESD" || | |
2650 | pkgname == "ESD.par" || | |
2651 | pkgname == "AOD" || | |
2652 | pkgname == "AOD.par" || | |
2653 | pkgname == "ANALYSIS" || | |
2654 | pkgname == "ANALYSIS.par" || | |
2655 | pkgname == "ANALYSISalice" || | |
2656 | pkgname == "ANALYSISalice.par" || | |
2657 | pkgname == "CORRFW" || | |
2658 | pkgname == "CORRFW.par") continue; | |
5b273635 | 2659 | out << " if (!" << setupPar << "(\"" << obj->GetName() << "\")) return;" << endl; |
0f389141 | 2660 | } |
2661 | } | |
2662 | if (fAdditionalLibs.Length()) { | |
2663 | out << "// Add aditional AliRoot libraries" << endl; | |
2664 | TObjArray *list = fAdditionalLibs.Tokenize(" "); | |
2665 | TIter next(list); | |
2666 | TObjString *str; | |
2667 | while((str=(TObjString*)next())) { | |
2668 | if (str->GetString().Contains(".so")) | |
2669 | out << " gSystem->Load(\"" << str->GetString().Data() << "\");" << endl; | |
2670 | } | |
2671 | if (list) delete list; | |
2672 | } | |
2673 | out << endl; | |
2674 | out << "// Analysis source to be compiled at runtime (if any)" << endl; | |
2675 | if (fAnalysisSource.Length()) { | |
2676 | TObjArray *list = fAnalysisSource.Tokenize(" "); | |
2677 | TIter next(list); | |
2678 | TObjString *str; | |
2679 | while((str=(TObjString*)next())) { | |
2680 | out << " gROOT->ProcessLine(\".L " << str->GetString().Data() << "+g\");" << endl; | |
2681 | } | |
2682 | if (list) delete list; | |
2683 | } | |
149d288c | 2684 | out << endl; |
2685 | ||
0f389141 | 2686 | if (fFastReadOption) { |
2687 | 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 !!!"); | |
2688 | out << "// fast xrootd reading enabled" << endl; | |
2689 | out << " printf(\"!!! You requested FastRead option. Using xrootd flags to reduce timeouts. Note that this may skip some files that could be accessed !!!\");" << endl; | |
d3339be3 | 2690 | out << " gEnv->SetValue(\"XNet.ConnectTimeout\",10);" << endl; |
2691 | out << " gEnv->SetValue(\"XNet.RequestTimeout\",10);" << endl; | |
0f389141 | 2692 | out << " gEnv->SetValue(\"XNet.MaxRedirectCount\",2);" << endl; |
d3339be3 | 2693 | out << " gEnv->SetValue(\"XNet.ReconnectTimeout\",10);" << endl; |
0f389141 | 2694 | out << " gEnv->SetValue(\"XNet.FirstConnectMaxCnt\",1);" << endl << endl; |
2695 | } | |
2696 | out << "// Connect to AliEn" << endl; | |
2697 | out << " if (!TGrid::Connect(\"alien://\")) return;" << endl; | |
2698 | out << " TString outputDir = \"" << fGridOutputDir << "/\";" << endl; | |
2699 | out << " outputDir += dir;" << endl; | |
2700 | out << " TString outputFiles = \"" << fOutputFiles << "\";" << endl; | |
2701 | out << " TString mergeExcludes = \"" << fMergeExcludes << "\";" << endl; | |
1f0d1ca2 | 2702 | out << " mergeExcludes += \"" << AliAnalysisManager::GetAnalysisManager()->GetExtraFiles() << "\";" << endl; |
0f389141 | 2703 | out << " TObjArray *list = outputFiles.Tokenize(\" \");" << endl; |
2704 | out << " TIter *iter = new TIter(list);" << endl; | |
2705 | out << " TObjString *str;" << endl; | |
2706 | out << " TString output_file;" << endl; | |
2707 | out << " Bool_t merged = kTRUE;" << endl; | |
2708 | out << " while((str=(TObjString*)iter->Next())) {" << endl; | |
2709 | out << " output_file = str->GetString();" << endl; | |
2710 | out << " Int_t index = output_file.Index(\"@\");" << endl; | |
2711 | out << " if (index > 0) output_file.Remove(index);" << endl; | |
2712 | out << " // Skip already merged outputs" << endl; | |
2713 | out << " if (!gSystem->AccessPathName(output_file)) {" << endl; | |
2714 | out << " printf(\"Output file <%s> found. Not merging again.\",output_file.Data());" << endl; | |
2715 | out << " continue;" << endl; | |
2716 | out << " }" << endl; | |
2717 | out << " if (mergeExcludes.Contains(output_file.Data())) continue;" << endl; | |
2718 | out << " merged = AliAnalysisAlien::MergeOutput(output_file, outputDir, " << fMaxMergeFiles << ");" << endl; | |
2719 | out << " if (!merged) {" << endl; | |
2720 | out << " printf(\"ERROR: Cannot merge %s\\n\", output_file.Data());" << endl; | |
0f389141 | 2721 | out << " }" << endl; |
2722 | out << " }" << endl; | |
f866cba5 | 2723 | out << "// read the analysis manager from file" << endl; |
2724 | TString analysisFile = fExecutable; | |
2725 | analysisFile.ReplaceAll(".sh", ".root"); | |
2726 | out << " TFile *file = TFile::Open(\"" << analysisFile << "\");" << endl; | |
2727 | out << " if (!file) return;" << endl; | |
2728 | out << " TIter nextkey(file->GetListOfKeys());" << endl; | |
2729 | out << " AliAnalysisManager *mgr = 0;" << endl; | |
2730 | out << " TKey *key;" << endl; | |
2731 | out << " while ((key=(TKey*)nextkey())) {" << endl; | |
2732 | out << " if (!strcmp(key->GetClassName(), \"AliAnalysisManager\"))" << endl; | |
2733 | out << " mgr = (AliAnalysisManager*)file->Get(key->GetName());" << endl; | |
2734 | out << " };" << endl; | |
2735 | out << " if (!mgr) {" << endl; | |
2736 | out << " ::Error(\"" << func.Data() << "\", \"No analysis manager found in file" << analysisFile <<"\");" << endl; | |
2737 | out << " return;" << endl; | |
2738 | out << " }" << endl << endl; | |
b385fec0 | 2739 | out << " mgr->SetSkipTerminate(kFALSE);" << endl; |
f866cba5 | 2740 | out << " mgr->PrintStatus();" << endl; |
2741 | if (AliAnalysisManager::GetAnalysisManager()) { | |
2742 | if (AliAnalysisManager::GetAnalysisManager()->GetDebugLevel()>3) { | |
2743 | out << " gEnv->SetValue(\"XNet.Debug\", \"1\");" << endl; | |
2744 | } else { | |
2745 | out << " AliLog::SetGlobalLogLevel(AliLog::kError);" << endl; | |
2746 | } | |
2747 | } | |
2748 | out << " mgr->StartAnalysis(\"gridterminate\");" << endl; | |
0f389141 | 2749 | out << "}" << endl << endl; |
5b273635 | 2750 | if (hasANALYSISalice) { |
2751 | out <<"//________________________________________________________________________________" << endl; | |
2752 | out << "Bool_t SetupPar(const char *package) {" << endl; | |
2753 | out << "// Compile the package and set it up." << endl; | |
2754 | out << " TString pkgdir = package;" << endl; | |
2755 | out << " pkgdir.ReplaceAll(\".par\",\"\");" << endl; | |
2756 | out << " gSystem->Exec(Form(\"tar xvzf %s.par\", pkgdir.Data()));" << endl; | |
2757 | out << " TString cdir = gSystem->WorkingDirectory();" << endl; | |
2758 | out << " gSystem->ChangeDirectory(pkgdir);" << endl; | |
2759 | out << " // Check for BUILD.sh and execute" << endl; | |
2760 | out << " if (!gSystem->AccessPathName(\"PROOF-INF/BUILD.sh\")) {" << endl; | |
2761 | out << " printf(\"*******************************\\n\");" << endl; | |
2762 | out << " printf(\"*** Building PAR archive ***\\n\");" << endl; | |
2763 | out << " printf(\"*******************************\\n\");" << endl; | |
2764 | out << " if (gSystem->Exec(\"PROOF-INF/BUILD.sh\")) {" << endl; | |
2765 | out << " ::Error(\"SetupPar\", \"Cannot build par archive %s\", pkgdir.Data());" << endl; | |
2766 | out << " gSystem->ChangeDirectory(cdir);" << endl; | |
2767 | out << " return kFALSE;" << endl; | |
2768 | out << " }" << endl; | |
2769 | out << " } else {" << endl; | |
2770 | out << " ::Error(\"SetupPar\",\"Cannot access PROOF-INF/BUILD.sh for package %s\", pkgdir.Data());" << endl; | |
2771 | out << " gSystem->ChangeDirectory(cdir);" << endl; | |
2772 | out << " return kFALSE;" << endl; | |
2773 | out << " }" << endl; | |
2774 | out << " // Check for SETUP.C and execute" << endl; | |
2775 | out << " if (!gSystem->AccessPathName(\"PROOF-INF/SETUP.C\")) {" << endl; | |
2776 | out << " printf(\"*******************************\\n\");" << endl; | |
2777 | out << " printf(\"*** Setup PAR archive ***\\n\");" << endl; | |
2778 | out << " printf(\"*******************************\\n\");" << endl; | |
2779 | out << " gROOT->Macro(\"PROOF-INF/SETUP.C\");" << endl; | |
2780 | out << " } else {" << endl; | |
2781 | out << " ::Error(\"SetupPar\",\"Cannot access PROOF-INF/SETUP.C for package %s\", pkgdir.Data());" << endl; | |
2782 | out << " gSystem->ChangeDirectory(cdir);" << endl; | |
2783 | out << " return kFALSE;" << endl; | |
2784 | out << " }" << endl; | |
2785 | out << " // Restore original workdir" << endl; | |
2786 | out << " gSystem->ChangeDirectory(cdir);" << endl; | |
2787 | out << " return kTRUE;" << endl; | |
2788 | out << "}" << endl; | |
2789 | } | |
0f389141 | 2790 | } |
2791 | Bool_t copy = kTRUE; | |
2792 | if (TestBit(AliAnalysisGrid::kOffline) || TestBit(AliAnalysisGrid::kTest)) copy = kFALSE; | |
2793 | if (copy) { | |
2794 | CdWork(); | |
2795 | TString workdir = gGrid->GetHomeDirectory(); | |
2796 | workdir += fGridWorkingDir; | |
2797 | if (FileExists(mergingMacro)) gGrid->Rm(mergingMacro); | |
2798 | Info("WriteMergingMacro", "\n##### Copying merging macro: <%s> to your alien workspace", mergingMacro.Data()); | |
2799 | TFile::Cp(Form("file:%s",mergingMacro.Data()), Form("alien://%s/%s", workdir.Data(), mergingMacro.Data())); | |
2800 | } | |
2801 | } | |
2802 | ||
2803 | //______________________________________________________________________________ | |
2804 | Bool_t AliAnalysisAlien::SetupPar(const char *package) | |
2805 | { | |
2806 | // Compile the par file archive pointed by <package>. This must be present in the current durectory. | |
2807 | // Note that for loading the compiled library. The current directory should have precedence in | |
2808 | // LD_LIBRARY_PATH | |
2809 | TString pkgdir = package; | |
2810 | pkgdir.ReplaceAll(".par",""); | |
2811 | gSystem->Exec(Form("tar xvzf %s.par", pkgdir.Data())); | |
2812 | TString cdir = gSystem->WorkingDirectory(); | |
2813 | gSystem->ChangeDirectory(pkgdir); | |
2814 | // Check for BUILD.sh and execute | |
2815 | if (!gSystem->AccessPathName("PROOF-INF/BUILD.sh")) { | |
2816 | printf("**************************************************\n"); | |
2817 | printf("*** Building PAR archive %s\n", package); | |
2818 | printf("**************************************************\n"); | |
2819 | if (gSystem->Exec("PROOF-INF/BUILD.sh")) { | |
2820 | ::Error("SetupPar", "Cannot build par archive %s", pkgdir.Data()); | |
2821 | gSystem->ChangeDirectory(cdir); | |
2822 | return kFALSE; | |
2823 | } | |
2824 | } else { | |
2825 | ::Error("SetupPar","Cannot access PROOF-INF/BUILD.sh for package %s", pkgdir.Data()); | |
2826 | gSystem->ChangeDirectory(cdir); | |
2827 | return kFALSE; | |
2828 | } | |
2829 | // Check for SETUP.C and execute | |
2830 | if (!gSystem->AccessPathName("PROOF-INF/SETUP.C")) { | |
2831 | printf("**************************************************\n"); | |
2832 | printf("*** Setup PAR archive %s\n", package); | |
2833 | printf("**************************************************\n"); | |
2834 | gROOT->Macro("PROOF-INF/SETUP.C"); | |
2835 | printf("*** Loaded library: %s\n", gSystem->GetLibraries(pkgdir,"",kFALSE)); | |
2836 | } else { | |
2837 | ::Error("SetupPar","Cannot access PROOF-INF/SETUP.C for package %s", pkgdir.Data()); | |
2838 | gSystem->ChangeDirectory(cdir); | |
2839 | return kFALSE; | |
2840 | } | |
2841 | // Restore original workdir | |
2842 | gSystem->ChangeDirectory(cdir); | |
2843 | return kTRUE; | |
2844 | } | |
2845 | ||
c57f56b7 | 2846 | //______________________________________________________________________________ |
2847 | void AliAnalysisAlien::WriteExecutable() | |
2848 | { | |
2849 | // Generate the alien executable script. | |
2850 | if (!TestBit(AliAnalysisGrid::kSubmit)) { | |
2851 | ofstream out; | |
2852 | out.open(fExecutable.Data(), ios::out); | |
2853 | if (out.bad()) { | |
5513444a | 2854 | Error("WriteExecutable", "Bad file name for executable: %s", fExecutable.Data()); |
c57f56b7 | 2855 | return; |
2856 | } | |
2857 | out << "#!/bin/bash" << endl; | |
c57f56b7 | 2858 | out << "echo \"=========================================\"" << endl; |
2859 | out << "echo \"############## PATH : ##############\"" << endl; | |
2860 | out << "echo $PATH" << endl; | |
2861 | out << "echo \"############## LD_LIBRARY_PATH : ##############\"" << endl; | |
2862 | out << "echo $LD_LIBRARY_PATH" << endl; | |
2863 | out << "echo \"############## ROOTSYS : ##############\"" << endl; | |
2864 | out << "echo $ROOTSYS" << endl; | |
2865 | out << "echo \"############## which root : ##############\"" << endl; | |
2866 | out << "which root" << endl; | |
2867 | out << "echo \"############## ALICE_ROOT : ##############\"" << endl; | |
2868 | out << "echo $ALICE_ROOT" << endl; | |
2869 | out << "echo \"############## which aliroot : ##############\"" << endl; | |
2870 | out << "which aliroot" << endl; | |
9c5ddadc | 2871 | out << "echo \"############## system limits : ##############\"" << endl; |
2872 | out << "ulimit -a" << endl; | |
2873 | out << "echo \"############## memory : ##############\"" << endl; | |
2874 | out << "free -m" << endl; | |
c57f56b7 | 2875 | out << "echo \"=========================================\"" << endl << endl; |
74a53467 | 2876 | // Make sure we can properly compile par files |
2877 | if (TObject::TestBit(AliAnalysisGrid::kUsePars)) out << "export LD_LIBRARY_PATH=.:$LD_LIBRARY_PATH" << endl; | |
0a1c1f7f | 2878 | out << fExecutableCommand << " "; |
631c0b05 | 2879 | out << fAnalysisMacro.Data() << " " << fExecutableArgs.Data() << endl << endl; |
9c5ddadc | 2880 | out << "echo \"======== " << fAnalysisMacro.Data() << " finished with exit code: $? ========\"" << endl; |
2881 | out << "echo \"############## memory after: ##############\"" << endl; | |
2882 | out << "free -m" << endl; | |
c57f56b7 | 2883 | } |
2884 | Bool_t copy = kTRUE; | |
2885 | if (TestBit(AliAnalysisGrid::kOffline) || TestBit(AliAnalysisGrid::kTest)) copy = kFALSE; | |
2886 | if (copy) { | |
2887 | CdWork(); | |
2888 | TString workdir = gGrid->GetHomeDirectory(); | |
923e2ca5 | 2889 | TString bindir = Form("%s/bin", workdir.Data()); |
2890 | if (!DirectoryExists(bindir)) gGrid->Mkdir(bindir); | |
c57f56b7 | 2891 | workdir += fGridWorkingDir; |
2892 | TString executable = Form("%s/bin/%s", gGrid->GetHomeDirectory(), fExecutable.Data()); | |
2893 | if (FileExists(executable)) gGrid->Rm(executable); | |
2894 | Info("CreateJDL", "\n##### Copying executable file <%s> to your AliEn bin directory", fExecutable.Data()); | |
2895 | TFile::Cp(Form("file:%s",fExecutable.Data()), Form("alien://%s", executable.Data())); | |
2896 | } | |
2897 | } | |
2898 | ||
0f389141 | 2899 | //______________________________________________________________________________ |
2900 | void AliAnalysisAlien::WriteMergeExecutable() | |
2901 | { | |
2902 | // Generate the alien executable script for the merging job. | |
2903 | if (!fMergeViaJDL) return; | |
2904 | TString mergeExec = fExecutable; | |
2905 | mergeExec.ReplaceAll(".sh", "_merge.sh"); | |
2906 | if (!TestBit(AliAnalysisGrid::kSubmit)) { | |
2907 | ofstream out; | |
2908 | out.open(mergeExec.Data(), ios::out); | |
2909 | if (out.bad()) { | |
2910 | Error("WriteMergingExecutable", "Bad file name for executable: %s", mergeExec.Data()); | |
2911 | return; | |
2912 | } | |
2913 | out << "#!/bin/bash" << endl; | |
2914 | out << "echo \"=========================================\"" << endl; | |
2915 | out << "echo \"############## PATH : ##############\"" << endl; | |
2916 | out << "echo $PATH" << endl; | |
2917 | out << "echo \"############## LD_LIBRARY_PATH : ##############\"" << endl; | |
2918 | out << "echo $LD_LIBRARY_PATH" << endl; | |
2919 | out << "echo \"############## ROOTSYS : ##############\"" << endl; | |
2920 | out << "echo $ROOTSYS" << endl; | |
2921 | out << "echo \"############## which root : ##############\"" << endl; | |
2922 | out << "which root" << endl; | |
2923 | out << "echo \"############## ALICE_ROOT : ##############\"" << endl; | |
2924 | out << "echo $ALICE_ROOT" << endl; | |
2925 | out << "echo \"############## which aliroot : ##############\"" << endl; | |
2926 | out << "which aliroot" << endl; | |
2927 | out << "echo \"############## system limits : ##############\"" << endl; | |
2928 | out << "ulimit -a" << endl; | |
2929 | out << "echo \"############## memory : ##############\"" << endl; | |
2930 | out << "free -m" << endl; | |
2931 | out << "echo \"=========================================\"" << endl << endl; | |
2932 | // Make sure we can properly compile par files | |
2933 | if (TObject::TestBit(AliAnalysisGrid::kUsePars)) out << "export LD_LIBRARY_PATH=.:$LD_LIBRARY_PATH" << endl; | |
2934 | TString mergeMacro = fExecutable; | |
2935 | mergeMacro.ReplaceAll(".sh", "_merge.C"); | |
2936 | out << "export ARG=\"" << mergeMacro << "(\\\"$1\\\")\"" << endl; | |
2937 | out << fExecutableCommand << " " << "$ARG" << endl; | |
2938 | out << "echo \"======== " << mergeMacro.Data() << " finished with exit code: $? ========\"" << endl; | |
2939 | out << "echo \"############## memory after: ##############\"" << endl; | |
2940 | out << "free -m" << endl; | |
0f389141 | 2941 | } |
2942 | Bool_t copy = kTRUE; | |
2943 | if (TestBit(AliAnalysisGrid::kOffline) || TestBit(AliAnalysisGrid::kTest)) copy = kFALSE; | |
2944 | if (copy) { | |
2945 | CdWork(); | |
2946 | TString workdir = gGrid->GetHomeDirectory(); | |
2947 | TString bindir = Form("%s/bin", workdir.Data()); | |
2948 | if (!DirectoryExists(bindir)) gGrid->Mkdir(bindir); | |
2949 | workdir += fGridWorkingDir; | |
2950 | TString executable = Form("%s/bin/%s", gGrid->GetHomeDirectory(), mergeExec.Data()); | |
2951 | if (FileExists(executable)) gGrid->Rm(executable); | |
2952 | Info("CreateJDL", "\n##### Copying executable file <%s> to your AliEn bin directory", mergeExec.Data()); | |
2953 | TFile::Cp(Form("file:%s",mergeExec.Data()), Form("alien://%s", executable.Data())); | |
2954 | } | |
2955 | } | |
2956 | ||
c57f56b7 | 2957 | //______________________________________________________________________________ |
5513444a | 2958 | void AliAnalysisAlien::WriteProductionFile(const char *filename) const |
2959 | { | |
2960 | // Write the production file to be submitted by LPM manager. The format is: | |
f5e8c702 | 2961 | // First line: full_path_to_jdl estimated_no_subjobs_per_master |
5513444a | 2962 | // Next lines: full_path_to_dataset XXX (XXX is a string) |
2963 | // To submit, one has to: submit jdl XXX for all lines | |
2964 | ofstream out; | |
2965 | out.open(filename, ios::out); | |
2966 | if (out.bad()) { | |
2967 | Error("WriteProductionFile", "Bad file name: %s", filename); | |
2968 | return; | |
2969 | } | |
2970 | TString workdir = gGrid->GetHomeDirectory(); | |
2971 | workdir += fGridWorkingDir; | |
f5e8c702 | 2972 | Int_t njobspermaster = 1000*fNrunsPerMaster/fSplitMaxInputFileNumber; |
5513444a | 2973 | TString locjdl = Form("%s/%s", workdir.Data(),fJDLName.Data()); |
f5e8c702 | 2974 | out << locjdl << " " << njobspermaster << endl; |
5513444a | 2975 | Int_t nmasterjobs = fInputFiles->GetEntries(); |
2976 | for (Int_t i=0; i<nmasterjobs; i++) { | |
409b4ada | 2977 | TString runOutDir = gSystem->BaseName(fInputFiles->At(i)->GetName()); |
2978 | runOutDir.ReplaceAll(".xml", ""); | |
2979 | if (fOutputToRunNo) | |
2980 | out << Form("%s", fInputFiles->At(i)->GetName()) << " " << runOutDir << endl; | |
2981 | else | |
2982 | out << Form("%s", fInputFiles->At(i)->GetName()) << " " << Form("%03d", i) << endl; | |
5513444a | 2983 | } |
2984 | Info("WriteProductionFile", "\n##### Copying production file <%s> to your work directory", filename); | |
fdbbc7be | 2985 | if (FileExists(filename)) gGrid->Rm(filename); |
5513444a | 2986 | TFile::Cp(Form("file:%s",filename), Form("alien://%s/%s", workdir.Data(),filename)); |
2987 | } | |
2988 | ||
2989 | //______________________________________________________________________________ | |
0f389141 | 2990 | void AliAnalysisAlien::WriteValidationScript(Bool_t merge) |
c57f56b7 | 2991 | { |
2992 | // Generate the alien validation script. | |
2993 | // Generate the validation script | |
2994 | TObjString *os; | |
0d5d317c | 2995 | TString validationScript = fExecutable; |
0f389141 | 2996 | if (merge) validationScript.ReplaceAll(".sh", "_mergevalidation.sh"); |
2997 | else validationScript.ReplaceAll(".sh", "_validation.sh"); | |
c57f56b7 | 2998 | if (!Connect()) { |
2999 | Error("WriteValidationScript", "Alien connection required"); | |
3000 | return; | |
3001 | } | |
3002 | TString out_stream = ""; | |
3003 | if (!TestBit(AliAnalysisGrid::kTest)) out_stream = " >> stdout"; | |
3004 | if (!TestBit(AliAnalysisGrid::kSubmit)) { | |
3005 | ofstream out; | |
0d5d317c | 3006 | out.open(validationScript, ios::out); |
c57f56b7 | 3007 | out << "#!/bin/bash" << endl; |
3008 | out << "##################################################" << endl; | |
3009 | out << "validateout=`dirname $0`" << endl; | |
3010 | out << "validatetime=`date`" << endl; | |
3011 | out << "validated=\"0\";" << endl; | |
3012 | out << "error=0" << endl; | |
3013 | out << "if [ -z $validateout ]" << endl; | |
3014 | out << "then" << endl; | |
3015 | out << " validateout=\".\"" << endl; | |
3016 | out << "fi" << endl << endl; | |
3017 | out << "cd $validateout;" << endl; | |
3018 | out << "validateworkdir=`pwd`;" << endl << endl; | |
3019 | out << "echo \"*******************************************************\"" << out_stream << endl; | |
3020 | out << "echo \"* Automatically generated validation script *\"" << out_stream << endl; | |
3021 | out << "" << endl; | |
3022 | out << "echo \"* Time: $validatetime \"" << out_stream << endl; | |
3023 | out << "echo \"* Dir: $validateout\"" << out_stream << endl; | |
3024 | out << "echo \"* Workdir: $validateworkdir\"" << out_stream << endl; | |
3025 | out << "echo \"* ----------------------------------------------------*\"" << out_stream << endl; | |
3026 | out << "ls -la ./" << out_stream << endl; | |
3027 | out << "echo \"* ----------------------------------------------------*\"" << out_stream << endl << endl; | |
3028 | out << "##################################################" << endl; | |
ebec370a | 3029 | |
3030 | out << "" << endl; | |
3031 | out << "parArch=`grep -Ei \"Cannot Build the PAR Archive\" stderr`" << endl; | |
3032 | out << "segViol=`grep -Ei \"Segmentation violation\" stderr`" << endl; | |
3033 | out << "segFault=`grep -Ei \"Segmentation fault\" stderr`" << endl; | |
3034 | out << "" << endl; | |
3035 | ||
3036 | out << "if [ ! -f stderr ] ; then" << endl; | |
3037 | out << " error=1" << endl; | |
3038 | out << " echo \"* ########## Job not validated - no stderr ###\" " << out_stream << endl; | |
3039 | out << " echo \"Error = $error\" " << out_stream << endl; | |
3040 | out << "fi" << endl; | |
3041 | ||
3042 | out << "if [ \"$parArch\" != \"\" ] ; then" << endl; | |
3043 | out << " error=1" << endl; | |
3044 | out << " echo \"* ########## Job not validated - PAR archive not built ###\" " << out_stream << endl; | |
3045 | out << " echo \"$parArch\" " << out_stream << endl; | |
3046 | out << " echo \"Error = $error\" " << out_stream << endl; | |
3047 | out << "fi" << endl; | |
3048 | ||
3049 | out << "if [ \"$segViol\" != \"\" ] ; then" << endl; | |
3050 | out << " error=1" << endl; | |
3051 | out << " echo \"* ########## Job not validated - Segment. violation ###\" " << out_stream << endl; | |
3052 | out << " echo \"$segViol\" " << out_stream << endl; | |
3053 | out << " echo \"Error = $error\" " << out_stream << endl; | |
3054 | out << "fi" << endl; | |
3055 | ||
3056 | out << "if [ \"$segFault\" != \"\" ] ; then" << endl; | |
3057 | out << " error=1" << endl; | |
3058 | out << " echo \"* ########## Job not validated - Segment. fault ###\" " << out_stream << endl; | |
3059 | out << " echo \"$segFault\" " << out_stream << endl; | |
3060 | out << " echo \"Error = $error\" " << out_stream << endl; | |
3061 | out << "fi" << endl; | |
3062 | ||
3063 | // Part dedicated to the specific analyses running into the train | |
3064 | ||
149d288c | 3065 | TObjArray *arr = fOutputFiles.Tokenize(","); |
c57f56b7 | 3066 | TIter next1(arr); |
3067 | TString output_file; | |
5b9b4998 | 3068 | AliAnalysisManager *mgr = AliAnalysisManager::GetAnalysisManager(); |
3069 | TString extra = mgr->GetExtraFiles(); | |
c57f56b7 | 3070 | while ((os=(TObjString*)next1())) { |
3071 | output_file = os->GetString(); | |
3072 | Int_t index = output_file.Index("@"); | |
3073 | if (index > 0) output_file.Remove(index); | |
0f389141 | 3074 | if (merge && fMergeExcludes.Contains(output_file)) continue; |
5b9b4998 | 3075 | if (extra.Contains(output_file)) continue; |
c57f56b7 | 3076 | out << "if ! [ -f " << output_file.Data() << " ] ; then" << endl; |
3077 | out << " error=1" << endl; | |
3078 | out << " echo \"Output file(s) not found. Job FAILED !\"" << out_stream << endl; | |
3079 | out << " echo \"Output file(s) not found. Job FAILED !\" >> stderr" << endl; | |
3080 | out << "fi" << endl; | |
3081 | } | |
3082 | delete arr; | |
f866cba5 | 3083 | if (!merge) { |
3084 | out << "if ! [ -f outputs_valid ] ; then" << endl; | |
3085 | out << " error=1" << endl; | |
3086 | out << " echo \"Output files were not validated by the analysis manager\" >> stdout" << endl; | |
3087 | out << " echo \"Output files were not validated by the analysis manager\" >> stderr" << endl; | |
3088 | out << "fi" << endl; | |
3089 | } | |
923e2ca5 | 3090 | |
c57f56b7 | 3091 | out << "if [ $error = 0 ] ; then" << endl; |
3092 | out << " echo \"* ---------------- Job Validated ------------------*\"" << out_stream << endl; | |
149d288c | 3093 | if (!IsKeepLogs()) { |
3094 | out << " echo \"* === Logs std* will be deleted === \"" << endl; | |
3095 | out_stream = ""; | |
3096 | out << " rm -f std*" << endl; | |
3097 | } | |
c57f56b7 | 3098 | out << "fi" << endl; |
3099 | ||
3100 | out << "echo \"* ----------------------------------------------------*\"" << out_stream << endl; | |
3101 | out << "echo \"*******************************************************\"" << out_stream << endl; | |
3102 | out << "cd -" << endl; | |
3103 | out << "exit $error" << endl; | |
3104 | } | |
3105 | Bool_t copy = kTRUE; | |
3106 | if (TestBit(AliAnalysisGrid::kOffline) || TestBit(AliAnalysisGrid::kTest)) copy = kFALSE; | |
3107 | if (copy) { | |
3108 | CdWork(); | |
3109 | TString workdir = gGrid->GetHomeDirectory(); | |
3110 | workdir += fGridWorkingDir; | |
0d5d317c | 3111 | Info("CreateJDL", "\n##### Copying validation script <%s> to your AliEn working space", validationScript.Data()); |
3112 | if (FileExists(validationScript)) gGrid->Rm(validationScript); | |
3113 | TFile::Cp(Form("file:%s",validationScript.Data()), Form("alien://%s/%s", workdir.Data(),validationScript.Data())); | |
c57f56b7 | 3114 | } |
3115 | } |