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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" | |
24 | #include "TROOT.h" | |
25 | #include "TSystem.h" | |
26 | #include "TFile.h" | |
27 | #include "TObjString.h" | |
28 | #include "TObjArray.h" | |
29 | #include "TGrid.h" | |
30 | #include "TGridResult.h" | |
31 | #include "TGridCollection.h" | |
32 | #include "TGridJDL.h" | |
33 | #include "TFileMerger.h" | |
34 | #include "AliAnalysisManager.h" | |
bb885a9e | 35 | #include "AliVEventHandler.h" |
36 | #include "AliAnalysisDataContainer.h" | |
c57f56b7 | 37 | #include "AliAnalysisAlien.h" |
38 | ||
39 | ClassImp(AliAnalysisAlien) | |
40 | ||
41 | //______________________________________________________________________________ | |
42 | AliAnalysisAlien::AliAnalysisAlien() | |
43 | :AliAnalysisGrid(), | |
44 | fGridJDL(NULL), | |
45 | fPrice(0), | |
46 | fTTL(0), | |
47 | fSplitMaxInputFileNumber(0), | |
48 | fMaxInitFailed(0), | |
49 | fMasterResubmitThreshold(0), | |
bb885a9e | 50 | fNtestFiles(0), |
c57f56b7 | 51 | fRunNumbers(), |
52 | fExecutable(), | |
53 | fArguments(), | |
54 | fAnalysisMacro(), | |
55 | fAnalysisSource(), | |
56 | fAdditionalLibs(), | |
57 | fSplitMode(), | |
58 | fAPIVersion(), | |
59 | fROOTVersion(), | |
60 | fAliROOTVersion(), | |
61 | fUser(), | |
62 | fGridWorkingDir(), | |
63 | fGridDataDir(), | |
64 | fDataPattern(), | |
65 | fGridOutputDir(), | |
66 | fOutputArchive(), | |
67 | fOutputFiles(), | |
68 | fInputFormat(), | |
e7c71df0 | 69 | fDatasetName(), |
c57f56b7 | 70 | fJDLName(), |
bb885a9e | 71 | fMergeExcludes(), |
f965131e | 72 | fIncludePath(), |
bb885a9e | 73 | fCloseSE(), |
0df6ccf2 | 74 | fFriendChainName(), |
4e5c5506 | 75 | fInputFiles(0), |
76 | fPackages(0) | |
c57f56b7 | 77 | { |
78 | // Dummy ctor. | |
79 | SetDefaults(); | |
80 | } | |
81 | ||
82 | //______________________________________________________________________________ | |
83 | AliAnalysisAlien::AliAnalysisAlien(const char *name) | |
84 | :AliAnalysisGrid(name), | |
85 | fGridJDL(NULL), | |
86 | fPrice(0), | |
87 | fTTL(0), | |
88 | fSplitMaxInputFileNumber(0), | |
89 | fMaxInitFailed(0), | |
90 | fMasterResubmitThreshold(0), | |
bb885a9e | 91 | fNtestFiles(0), |
c57f56b7 | 92 | fRunNumbers(), |
93 | fExecutable(), | |
94 | fArguments(), | |
95 | fAnalysisMacro(), | |
96 | fAnalysisSource(), | |
97 | fAdditionalLibs(), | |
98 | fSplitMode(), | |
99 | fAPIVersion(), | |
100 | fROOTVersion(), | |
101 | fAliROOTVersion(), | |
102 | fUser(), | |
103 | fGridWorkingDir(), | |
104 | fGridDataDir(), | |
105 | fDataPattern(), | |
106 | fGridOutputDir(), | |
107 | fOutputArchive(), | |
108 | fOutputFiles(), | |
109 | fInputFormat(), | |
e7c71df0 | 110 | fDatasetName(), |
c57f56b7 | 111 | fJDLName(), |
bb885a9e | 112 | fMergeExcludes(), |
f965131e | 113 | fIncludePath(), |
bb885a9e | 114 | fCloseSE(), |
0df6ccf2 | 115 | fFriendChainName(), |
4e5c5506 | 116 | fInputFiles(0), |
117 | fPackages(0) | |
c57f56b7 | 118 | { |
119 | // Default ctor. | |
120 | SetDefaults(); | |
121 | } | |
122 | ||
123 | //______________________________________________________________________________ | |
124 | AliAnalysisAlien::AliAnalysisAlien(const AliAnalysisAlien& other) | |
125 | :AliAnalysisGrid(other), | |
126 | fGridJDL(NULL), | |
127 | fPrice(other.fPrice), | |
128 | fTTL(other.fTTL), | |
129 | fSplitMaxInputFileNumber(other.fSplitMaxInputFileNumber), | |
130 | fMaxInitFailed(other.fMaxInitFailed), | |
131 | fMasterResubmitThreshold(other.fMasterResubmitThreshold), | |
bb885a9e | 132 | fNtestFiles(other.fNtestFiles), |
c57f56b7 | 133 | fRunNumbers(other.fRunNumbers), |
134 | fExecutable(other.fExecutable), | |
135 | fArguments(other.fArguments), | |
136 | fAnalysisMacro(other.fAnalysisMacro), | |
137 | fAnalysisSource(other.fAnalysisSource), | |
138 | fAdditionalLibs(other.fAdditionalLibs), | |
139 | fSplitMode(other.fSplitMode), | |
140 | fAPIVersion(other.fAPIVersion), | |
141 | fROOTVersion(other.fROOTVersion), | |
142 | fAliROOTVersion(other.fAliROOTVersion), | |
143 | fUser(other.fUser), | |
144 | fGridWorkingDir(other.fGridWorkingDir), | |
145 | fGridDataDir(other.fGridDataDir), | |
146 | fDataPattern(other.fDataPattern), | |
147 | fGridOutputDir(other.fGridOutputDir), | |
148 | fOutputArchive(other.fOutputArchive), | |
149 | fOutputFiles(other.fOutputFiles), | |
150 | fInputFormat(other.fInputFormat), | |
e7c71df0 | 151 | fDatasetName(other.fDatasetName), |
c57f56b7 | 152 | fJDLName(other.fJDLName), |
bb885a9e | 153 | fMergeExcludes(other.fMergeExcludes), |
f965131e | 154 | fIncludePath(other.fIncludePath), |
bb885a9e | 155 | fCloseSE(other.fCloseSE), |
0df6ccf2 | 156 | fFriendChainName(other.fFriendChainName), |
4e5c5506 | 157 | fInputFiles(0), |
158 | fPackages(0) | |
c57f56b7 | 159 | { |
160 | // Copy ctor. | |
161 | fGridJDL = (TGridJDL*)gROOT->ProcessLine("new TAlienJDL()"); | |
162 | if (other.fInputFiles) { | |
163 | fInputFiles = new TObjArray(); | |
164 | TIter next(other.fInputFiles); | |
165 | TObject *obj; | |
166 | while ((obj=next())) fInputFiles->Add(new TObjString(obj->GetName())); | |
167 | fInputFiles->SetOwner(); | |
168 | } | |
4e5c5506 | 169 | if (other.fPackages) { |
170 | fPackages = new TObjArray(); | |
171 | TIter next(other.fPackages); | |
172 | TObject *obj; | |
173 | while ((obj=next())) fPackages->Add(new TObjString(obj->GetName())); | |
174 | fPackages->SetOwner(); | |
175 | } | |
c57f56b7 | 176 | } |
177 | ||
178 | //______________________________________________________________________________ | |
179 | AliAnalysisAlien::~AliAnalysisAlien() | |
180 | { | |
181 | // Destructor. | |
182 | if (fGridJDL) delete fGridJDL; | |
183 | if (fInputFiles) delete fInputFiles; | |
4e5c5506 | 184 | if (fPackages) delete fPackages; |
c57f56b7 | 185 | } |
186 | ||
187 | //______________________________________________________________________________ | |
188 | AliAnalysisAlien &AliAnalysisAlien::operator=(const AliAnalysisAlien& other) | |
189 | { | |
190 | // Assignment. | |
191 | if (this != &other) { | |
192 | AliAnalysisGrid::operator=(other); | |
193 | fGridJDL = (TGridJDL*)gROOT->ProcessLine("new TAlienJDL()"); | |
194 | fPrice = other.fPrice; | |
195 | fTTL = other.fTTL; | |
196 | fSplitMaxInputFileNumber = other.fSplitMaxInputFileNumber; | |
197 | fMaxInitFailed = other.fMaxInitFailed; | |
198 | fMasterResubmitThreshold = other.fMasterResubmitThreshold; | |
bb885a9e | 199 | fNtestFiles = other.fNtestFiles; |
c57f56b7 | 200 | fRunNumbers = other.fRunNumbers; |
201 | fExecutable = other.fExecutable; | |
202 | fArguments = other.fArguments; | |
203 | fAnalysisMacro = other.fAnalysisMacro; | |
204 | fAnalysisSource = other.fAnalysisSource; | |
205 | fAdditionalLibs = other.fAdditionalLibs; | |
206 | fSplitMode = other.fSplitMode; | |
207 | fAPIVersion = other.fAPIVersion; | |
208 | fROOTVersion = other.fROOTVersion; | |
209 | fAliROOTVersion = other.fAliROOTVersion; | |
210 | fUser = other.fUser; | |
211 | fGridWorkingDir = other.fGridWorkingDir; | |
212 | fGridDataDir = other.fGridDataDir; | |
213 | fDataPattern = other.fDataPattern; | |
214 | fGridOutputDir = other.fGridOutputDir; | |
215 | fOutputArchive = other.fOutputArchive; | |
216 | fOutputFiles = other.fOutputFiles; | |
217 | fInputFormat = other.fInputFormat; | |
e7c71df0 | 218 | fDatasetName = other.fDatasetName; |
c57f56b7 | 219 | fJDLName = other.fJDLName; |
bb885a9e | 220 | fMergeExcludes = other.fMergeExcludes; |
f965131e | 221 | fIncludePath = other.fIncludePath; |
bb885a9e | 222 | fCloseSE = other.fCloseSE; |
0df6ccf2 | 223 | fFriendChainName = other.fFriendChainName; |
c57f56b7 | 224 | if (other.fInputFiles) { |
225 | fInputFiles = new TObjArray(); | |
226 | TIter next(other.fInputFiles); | |
227 | TObject *obj; | |
228 | while ((obj=next())) fInputFiles->Add(new TObjString(obj->GetName())); | |
229 | fInputFiles->SetOwner(); | |
230 | } | |
4e5c5506 | 231 | if (other.fPackages) { |
232 | fPackages = new TObjArray(); | |
233 | TIter next(other.fPackages); | |
234 | TObject *obj; | |
235 | while ((obj=next())) fPackages->Add(new TObjString(obj->GetName())); | |
236 | fPackages->SetOwner(); | |
237 | } | |
c57f56b7 | 238 | } |
239 | return *this; | |
240 | } | |
241 | ||
f965131e | 242 | //______________________________________________________________________________ |
243 | void AliAnalysisAlien::AddIncludePath(const char *path) | |
244 | { | |
245 | // Add include path in the remote analysis macro. | |
246 | TString p(path); | |
247 | if (p.Contains("-I")) fIncludePath += Form("%s ", path); | |
248 | else fIncludePath += Form("-I%s ", path); | |
249 | } | |
250 | ||
c57f56b7 | 251 | //______________________________________________________________________________ |
252 | void AliAnalysisAlien::AddRunNumber(Int_t run) | |
253 | { | |
254 | // Add a run number to the list of runs to be processed. | |
255 | if (fRunNumbers.Length()) fRunNumbers += " "; | |
256 | fRunNumbers += Form("%d", run); | |
257 | } | |
258 | ||
259 | //______________________________________________________________________________ | |
260 | void AliAnalysisAlien::AddDataFile(const char *lfn) | |
261 | { | |
262 | // Adds a data file to the input to be analysed. The file should be a valid LFN | |
263 | // or point to an existing file in the alien workdir. | |
264 | if (!fInputFiles) fInputFiles = new TObjArray(); | |
265 | fInputFiles->Add(new TObjString(lfn)); | |
266 | } | |
267 | ||
268 | //______________________________________________________________________________ | |
269 | Bool_t AliAnalysisAlien::Connect() | |
270 | { | |
271 | // Try to connect to AliEn. User needs a valid token and /tmp/gclient_env_$UID sourced. | |
272 | if (gGrid && gGrid->IsConnected()) return kTRUE; | |
273 | if (!gSystem->Getenv("alien_API_USER")) { | |
274 | Error("Connect", "Make sure you:\n 1. Have called: alien-token-init <username> today\n 2. Have sourced /tmp/gclient_env_%s", | |
275 | gSystem->Getenv("UID")); | |
276 | return kFALSE; | |
277 | } | |
278 | if (!gGrid) { | |
279 | Info("Connect", "Trying to connect to AliEn ..."); | |
280 | TGrid::Connect("alien://"); | |
281 | } | |
282 | if (!gGrid || !gGrid->IsConnected()) { | |
283 | Error("Connect", "Did not managed to connect to AliEn. Make sure you have a valid token."); | |
284 | return kFALSE; | |
285 | } | |
286 | fUser = gGrid->GetUser(); | |
287 | Info("Connect", "\n##### Connected to AliEn as user %s. Setting analysis user to <%s>", fUser.Data(), fUser.Data()); | |
288 | return kTRUE; | |
289 | } | |
290 | ||
291 | //______________________________________________________________________________ | |
292 | void AliAnalysisAlien::CdWork() | |
293 | { | |
294 | // Check validity of alien workspace. Create directory if possible. | |
295 | if (!Connect()) { | |
296 | Error("CdWork", "Alien connection required"); | |
297 | return; | |
298 | } | |
299 | TString homedir = gGrid->GetHomeDirectory(); | |
300 | TString workdir = homedir + fGridWorkingDir; | |
301 | if (!gGrid->Cd(workdir)) { | |
302 | gGrid->Cd(homedir); | |
303 | if (gGrid->Mkdir(workdir)) { | |
304 | gGrid->Cd(fGridWorkingDir); | |
305 | Info("CreateJDL", "\n##### Created alien working directory %s", fGridWorkingDir.Data()); | |
306 | } else { | |
307 | Warning("CreateJDL", "Working directory %s cannot be created.\n Using %s instead.", | |
308 | workdir.Data(), homedir.Data()); | |
309 | fGridWorkingDir = ""; | |
310 | } | |
311 | } | |
312 | } | |
313 | ||
314 | //______________________________________________________________________________ | |
315 | Bool_t AliAnalysisAlien::CheckInputData() | |
316 | { | |
317 | // Check validity of input data. If necessary, create xml files. | |
318 | if (!fInputFiles && !fRunNumbers.Length()) { | |
319 | Error("CheckInputData", "You have to specify either a set of run numbers or some existing grid files. Use AddRunNumber()/AddDataFile()."); | |
320 | return kFALSE; | |
321 | } | |
322 | // Process declared files | |
323 | Bool_t is_collection = kFALSE; | |
324 | Bool_t is_xml = kFALSE; | |
325 | Bool_t use_tags = kFALSE; | |
326 | Bool_t checked = kFALSE; | |
327 | CdWork(); | |
328 | TString file; | |
329 | TString workdir = gGrid->GetHomeDirectory(); | |
330 | workdir += fGridWorkingDir; | |
331 | if (fInputFiles) { | |
332 | TObjString *objstr; | |
333 | TIter next(fInputFiles); | |
334 | while ((objstr=(TObjString*)next())) { | |
335 | file = workdir; | |
336 | file += "/"; | |
337 | file += objstr->GetString(); | |
338 | // Store full lfn path | |
339 | if (FileExists(file)) objstr->SetString(file); | |
340 | else { | |
341 | file = objstr->GetName(); | |
342 | if (!FileExists(objstr->GetName())) { | |
343 | Error("CheckInputData", "Data file %s not found or not in your working dir: %s", | |
344 | objstr->GetName(), workdir.Data()); | |
345 | return kFALSE; | |
346 | } | |
347 | } | |
348 | Bool_t iscoll, isxml, usetags; | |
349 | CheckDataType(file, iscoll, isxml, usetags); | |
350 | if (!checked) { | |
351 | checked = kTRUE; | |
352 | is_collection = iscoll; | |
353 | is_xml = isxml; | |
354 | use_tags = usetags; | |
355 | TObject::SetBit(AliAnalysisGrid::kUseTags, use_tags); | |
356 | } else { | |
357 | if ((iscoll != is_collection) || (isxml != is_xml) || (usetags != use_tags)) { | |
358 | Error("CheckInputData", "Some conflict was found in the types of inputs"); | |
359 | return kFALSE; | |
360 | } | |
361 | } | |
362 | } | |
363 | } | |
364 | // Process requested run numbers | |
365 | if (!fRunNumbers.Length()) return kTRUE; | |
366 | // Check validity of alien data directory | |
367 | if (!fGridDataDir.Length()) { | |
368 | Error("CkeckInputData", "AliEn path to base data directory must be set.\n = Use: SetGridDataDir()"); | |
369 | return kFALSE; | |
370 | } | |
371 | if (!gGrid->Cd(fGridDataDir)) { | |
372 | Error("CheckInputData", "Data directory %s not existing.", fGridDataDir.Data()); | |
373 | return kFALSE; | |
374 | } | |
375 | if (is_collection) { | |
376 | Error("CheckInputData", "You are using raw AliEn collections as input. Cannot process run numbers."); | |
377 | return kFALSE; | |
378 | } | |
379 | ||
380 | if (checked && !is_xml) { | |
381 | Error("CheckInputData", "Cannot mix processing of full runs with non-xml files"); | |
382 | return kFALSE; | |
383 | } | |
384 | // Check validity of run number(s) | |
385 | TObjArray *arr; | |
386 | TObjString *os; | |
387 | TString path; | |
388 | if (!checked) { | |
389 | checked = kTRUE; | |
390 | use_tags = fDataPattern.Contains("tag"); | |
391 | TObject::SetBit(AliAnalysisGrid::kUseTags, use_tags); | |
392 | } | |
393 | if (use_tags != fDataPattern.Contains("tag")) { | |
394 | Error("CheckInputData", "Cannot mix input files using/not using tags"); | |
395 | return kFALSE; | |
396 | } | |
397 | if (fRunNumbers.Length()) { | |
398 | arr = fRunNumbers.Tokenize(" "); | |
399 | TIter next(arr); | |
400 | while ((os=(TObjString*)next())) { | |
401 | path = Form("%s/%s ", fGridDataDir.Data(), os->GetString().Data()); | |
402 | if (!gGrid->Cd(path)) { | |
403 | Error("CheckInputData", "Run number %s not found in path: %s", os->GetString().Data(), path.Data()); | |
404 | return kFALSE; | |
405 | } | |
406 | path = Form("%s/%s.xml", workdir.Data(),os->GetString().Data()); | |
407 | TString msg = "\n##### file: "; | |
408 | msg += path; | |
409 | msg += " type: xml_collection;"; | |
410 | if (use_tags) msg += " using_tags: Yes"; | |
411 | else msg += " using_tags: No"; | |
412 | Info("CheckDataType", msg.Data()); | |
413 | AddDataFile(path); | |
414 | } | |
415 | delete arr; | |
416 | } | |
417 | return kTRUE; | |
418 | } | |
419 | ||
420 | //______________________________________________________________________________ | |
421 | Bool_t AliAnalysisAlien::CreateDataset(const char *pattern) | |
422 | { | |
423 | // Create dataset for the grid data directory + run number. | |
424 | if (TestBit(AliAnalysisGrid::kOffline)) return kFALSE; | |
425 | if (!Connect()) { | |
426 | Error("CreateDataset", "Cannot create dataset with no grid connection"); | |
427 | return kFALSE; | |
428 | } | |
429 | ||
430 | // Cd workspace | |
431 | CdWork(); | |
432 | TString workdir = gGrid->GetHomeDirectory(); | |
433 | workdir += fGridWorkingDir; | |
434 | ||
435 | // Compose the 'find' command arguments | |
436 | TString command; | |
437 | TString options = "-x collection "; | |
bb885a9e | 438 | if (TestBit(AliAnalysisGrid::kTest)) options += Form("-l %d ", fNtestFiles); |
c57f56b7 | 439 | TString conditions = ""; |
440 | ||
441 | TString file; | |
442 | TString path; | |
443 | if (!fRunNumbers.Length()) return kTRUE; | |
444 | // Several runs | |
445 | TObjArray *arr = fRunNumbers.Tokenize(" "); | |
446 | TObjString *os; | |
447 | TIter next(arr); | |
448 | while ((os=(TObjString*)next())) { | |
449 | path = Form("%s/%s ", fGridDataDir.Data(), os->GetString().Data()); | |
1535db97 | 450 | if (TestBit(AliAnalysisGrid::kTest)) file = "wn.xml"; |
451 | else file = Form("%s.xml", os->GetString().Data()); | |
452 | if (FileExists(file) && !TestBit(AliAnalysisGrid::kTest)) { | |
c57f56b7 | 453 | Info("CreateDataset", "\n##### Removing previous dataset %s", file.Data()); |
454 | gGrid->Rm(file); | |
455 | } | |
456 | command = "find "; | |
457 | command += options; | |
458 | command += path; | |
459 | command += pattern; | |
1535db97 | 460 | // conditions = Form(" > %s", file.Data()); |
c57f56b7 | 461 | command += conditions; |
462 | TGridResult *res = gGrid->Command(command); | |
463 | if (res) delete res; | |
1535db97 | 464 | // Write standard output to file |
465 | gROOT->ProcessLine(Form("gGrid->Stdout(); > %s", file.Data())); | |
466 | if (TestBit(AliAnalysisGrid::kTest)) break; | |
467 | // Copy xml file to alien space | |
468 | TFile::Cp(Form("file:%s",file.Data()), Form("alien://%s/%s",workdir.Data(), file.Data())); | |
c57f56b7 | 469 | if (!FileExists(file)) { |
470 | Error("CreateDataset", "Command %s did NOT succeed", command.Data()); | |
471 | delete arr; | |
472 | return kFALSE; | |
473 | } | |
c57f56b7 | 474 | } |
475 | delete arr; | |
c57f56b7 | 476 | return kTRUE; |
477 | } | |
478 | ||
479 | //______________________________________________________________________________ | |
480 | Bool_t AliAnalysisAlien::CreateJDL() | |
481 | { | |
482 | // Generate a JDL file according to current settings. The name of the file is | |
483 | // specified by fJDLName. | |
484 | Bool_t error = kFALSE; | |
485 | TObjArray *arr = 0; | |
486 | Bool_t copy = kTRUE; | |
487 | if (TestBit(AliAnalysisGrid::kOffline) || TestBit(AliAnalysisGrid::kTest)) copy = kFALSE; | |
488 | Bool_t generate = kTRUE; | |
489 | if (TestBit(AliAnalysisGrid::kTest) || TestBit(AliAnalysisGrid::kSubmit)) generate = kFALSE; | |
490 | if (!Connect()) { | |
491 | Error("CreateJDL", "Alien connection required"); | |
492 | return kFALSE; | |
493 | } | |
494 | // Check validity of alien workspace | |
495 | CdWork(); | |
496 | TString workdir = gGrid->GetHomeDirectory(); | |
497 | workdir += fGridWorkingDir; | |
498 | if (generate) { | |
499 | TObjString *os; | |
500 | if (!fInputFiles) { | |
501 | Error("CreateJDL()", "Define some input files for your analysis."); | |
502 | error = kTRUE; | |
503 | } | |
504 | // Compose list of input files | |
505 | // Check if output files were defined | |
506 | if (!fOutputFiles.Length()) { | |
507 | Error("CreateJDL", "You must define at least one output file"); | |
508 | error = kTRUE; | |
509 | } | |
510 | // Check if an output directory was defined and valid | |
511 | if (!fGridOutputDir.Length()) { | |
512 | Error("CreateJDL", "You must define AliEn output directory"); | |
513 | error = kTRUE; | |
514 | } else { | |
515 | if (!gGrid->Cd(fGridOutputDir)) { | |
516 | if (gGrid->Mkdir(fGridOutputDir)) { | |
517 | Info("CreateJDL", "\n##### Created alien output directory %s", fGridOutputDir.Data()); | |
518 | } else { | |
519 | Error("CreateJDL", "Could not create alien output directory %s", fGridOutputDir.Data()); | |
520 | error = kTRUE; | |
521 | } | |
522 | } | |
523 | gGrid->Cd(workdir); | |
524 | } | |
525 | // Exit if any error up to now | |
526 | if (error) return kFALSE; | |
527 | // Set JDL fields | |
528 | fGridJDL->SetValue("User", Form("\"%s\"", fUser.Data())); | |
529 | fGridJDL->SetExecutable(fExecutable); | |
530 | // fGridJDL->SetTTL((UInt_t)fTTL); | |
531 | fGridJDL->SetValue("TTL", Form("\"%d\"", fTTL)); | |
532 | if (fMaxInitFailed > 0) | |
533 | fGridJDL->SetValue("MaxInitFailed", Form("\"%d\"",fMaxInitFailed)); | |
534 | if (fSplitMaxInputFileNumber > 0) | |
535 | fGridJDL->SetValue("SplitMaxInputFileNumber", Form("\"%d\"", fSplitMaxInputFileNumber)); | |
536 | if (fSplitMode.Length()) | |
537 | fGridJDL->SetValue("Split", Form("\"%s\"", fSplitMode.Data())); | |
538 | // fGridJDL->SetSplitMode(fSplitMode, (UInt_t)fSplitMaxInputFileNumber); | |
539 | if (fAliROOTVersion.Length()) | |
540 | fGridJDL->AddToPackages("AliRoot", fAliROOTVersion); | |
541 | if (fROOTVersion.Length()) | |
542 | fGridJDL->AddToPackages("ROOT", fROOTVersion); | |
543 | if (fAPIVersion.Length()) | |
544 | fGridJDL->AddToPackages("APISCONFIG", fAPIVersion); | |
545 | fGridJDL->SetInputDataListFormat(fInputFormat); | |
546 | fGridJDL->SetInputDataList("wn.xml"); | |
547 | if (fInputFiles) { | |
548 | TIter next(fInputFiles); | |
549 | while ((os=(TObjString*)next())) | |
550 | fGridJDL->AddToInputDataCollection(Form("LF:%s,nodownload", os->GetString().Data())); | |
551 | } | |
552 | fGridJDL->AddToInputSandbox(Form("LF:%s/%s", workdir.Data(), fAnalysisMacro.Data())); | |
553 | fGridJDL->AddToInputSandbox(Form("LF:%s/analysis.root", workdir.Data())); | |
554 | if (IsUsingTags() && !gSystem->AccessPathName("ConfigureCuts.C")) | |
555 | fGridJDL->AddToInputSandbox(Form("LF:%s/ConfigureCuts.C", workdir.Data())); | |
556 | if (fAdditionalLibs.Length()) { | |
557 | arr = fAdditionalLibs.Tokenize(" "); | |
558 | TIter next(arr); | |
559 | while ((os=(TObjString*)next())) { | |
560 | if (os->GetString().Contains(".so")) continue; | |
561 | fGridJDL->AddToInputSandbox(Form("LF:%s/%s", workdir.Data(), os->GetString().Data())); | |
562 | } | |
563 | delete arr; | |
564 | } | |
4e5c5506 | 565 | if (fPackages) { |
566 | TIter next(fPackages); | |
567 | TObject *obj; | |
568 | while ((obj=next())) | |
569 | fGridJDL->AddToInputSandbox(Form("LF:%s/%s", workdir.Data(), obj->GetName())); | |
570 | } | |
c57f56b7 | 571 | if (fOutputArchive.Length()) { |
572 | arr = fOutputArchive.Tokenize(" "); | |
573 | TIter next(arr); | |
574 | while ((os=(TObjString*)next())) | |
43da816a | 575 | if (!os->GetString().Contains("@") && fCloseSE.Length()) |
576 | fGridJDL->AddToOutputArchive(Form("%s@%s",os->GetString().Data(), fCloseSE.Data())); | |
577 | else | |
578 | fGridJDL->AddToOutputArchive(os->GetString()); | |
c57f56b7 | 579 | delete arr; |
580 | } | |
581 | fGridJDL->SetOutputDirectory(Form("%s/%s/#alien_counter_03i#", workdir.Data(), fGridOutputDir.Data())); | |
582 | arr = fOutputFiles.Tokenize(" "); | |
583 | TIter next(arr); | |
43da816a | 584 | while ((os=(TObjString*)next())) { |
585 | if (!os->GetString().Contains("@") && fCloseSE.Length()) | |
586 | fGridJDL->AddToOutputSandbox(Form("%s@%s",os->GetString().Data(), fCloseSE.Data())); | |
587 | else | |
588 | fGridJDL->AddToOutputSandbox(os->GetString()); | |
589 | } | |
c57f56b7 | 590 | delete arr; |
591 | // fGridJDL->SetPrice((UInt_t)fPrice); | |
592 | fGridJDL->SetValue("Price", Form("\"%d\"", fPrice)); | |
593 | fGridJDL->SetValidationCommand(Form("%s/validate.sh", workdir.Data())); | |
594 | if (fMasterResubmitThreshold) fGridJDL->SetValue("MasterResubmitThreshold", Form("\"%d%%\"", fMasterResubmitThreshold)); | |
595 | // Generate the JDL as a string | |
596 | TString sjdl = fGridJDL->Generate(); | |
597 | Int_t index; | |
598 | index = sjdl.Index("Executable"); | |
599 | if (index >= 0) sjdl.Insert(index, "\n# This is the startup script\n"); | |
600 | index = sjdl.Index("Split "); | |
601 | if (index >= 0) sjdl.Insert(index, "\n# We split per storage element\n"); | |
602 | index = sjdl.Index("SplitMaxInputFileNumber"); | |
603 | if (index >= 0) sjdl.Insert(index, "\n# We want each subjob to get maximum this number of input files\n"); | |
604 | index = sjdl.Index("InputDataCollection"); | |
605 | if (index >= 0) sjdl.Insert(index, "# Input xml collections\n"); | |
606 | index = sjdl.Index("InputFile"); | |
607 | if (index >= 0) sjdl.Insert(index, "\n# List of input files to be uploaded to wn's\n"); | |
608 | index = sjdl.Index("InputDataList "); | |
609 | if (index >= 0) sjdl.Insert(index, "\n# Collection to be processed on wn\n"); | |
610 | index = sjdl.Index("InputDataListFormat"); | |
611 | if (index >= 0) sjdl.Insert(index, "\n# Format of input data\n"); | |
612 | index = sjdl.Index("Price"); | |
613 | if (index >= 0) sjdl.Insert(index, "\n# AliEn price for this job\n"); | |
614 | index = sjdl.Index("Requirements"); | |
615 | if (index >= 0) sjdl.Insert(index, "\n# Additional requirements for the computing element\n"); | |
616 | index = sjdl.Index("Packages"); | |
617 | if (index >= 0) sjdl.Insert(index, "\n# Packages to be used\n"); | |
3b0a0119 | 618 | index = sjdl.Index("User ="); |
c57f56b7 | 619 | if (index >= 0) sjdl.Insert(index, "\n# AliEn user\n"); |
620 | index = sjdl.Index("TTL"); | |
621 | if (index >= 0) sjdl.Insert(index, "\n# Time to live for the job\n"); | |
622 | index = sjdl.Index("OutputFile"); | |
623 | if (index >= 0) sjdl.Insert(index, "\n# List of output files to be registered\n"); | |
624 | index = sjdl.Index("OutputDir"); | |
625 | if (index >= 0) sjdl.Insert(index, "\n# Output directory\n"); | |
626 | index = sjdl.Index("OutputArchive"); | |
627 | if (index >= 0) sjdl.Insert(index, "\n# Files to be archived\n"); | |
628 | index = sjdl.Index("MaxInitFailed"); | |
629 | if (index >= 0) sjdl.Insert(index, "\n# Maximum number of first failing jobs to abort the master job\n"); | |
630 | index = sjdl.Index("MasterResubmitThreshold"); | |
631 | if (index >= 0) sjdl.Insert(index, "\n# Resubmit failed jobs until DONE rate reaches this percentage\n"); | |
632 | sjdl.ReplaceAll("ValidationCommand", "Validationcommand"); | |
633 | index = sjdl.Index("Validationcommand"); | |
634 | if (index >= 0) sjdl.Insert(index, "\n# Validation script to be run for each subjob\n"); | |
635 | sjdl.ReplaceAll("\"LF:", "\n \"LF:"); | |
636 | sjdl.ReplaceAll("(member", "\n (member"); | |
637 | sjdl.ReplaceAll("\",\"VO_", "\",\n \"VO_"); | |
638 | sjdl.ReplaceAll("{", "{\n "); | |
639 | sjdl.ReplaceAll("};", "\n};"); | |
640 | sjdl.ReplaceAll("{\n \n", "{\n"); | |
641 | sjdl.ReplaceAll("\n\n", "\n"); | |
642 | sjdl.ReplaceAll("OutputDirectory", "OutputDir"); | |
643 | sjdl += "JDLVariables = \n{\n \"Packages\",\n \"OutputDir\"\n};\n"; | |
644 | sjdl.Prepend("JobTag = \"Automatically generated analysis JDL\";\n"); | |
645 | index = sjdl.Index("JDLVariables"); | |
646 | if (index >= 0) sjdl.Insert(index, "\n# JDL variables\n"); | |
647 | // Write jdl to file | |
648 | ofstream out; | |
649 | out.open(fJDLName.Data(), ios::out); | |
650 | if (out.bad()) { | |
651 | Error("CreateJDL", "Bad file name: %s", fJDLName.Data()); | |
652 | return kFALSE; | |
653 | } | |
654 | out << sjdl << endl; | |
655 | } | |
656 | // Copy jdl to grid workspace | |
657 | if (!copy) { | |
658 | Info("CreateJDL", "\n##### You may want to review jdl:%s and analysis macro:%s before running in <submit> mode", fJDLName.Data(), fAnalysisMacro.Data()); | |
659 | } else { | |
660 | Info("CreateJDL", "\n##### Copying JDL file <%s> to your AliEn working space", fJDLName.Data()); | |
661 | if (FileExists(fJDLName)) gGrid->Rm(fJDLName); | |
662 | TFile::Cp(Form("file:%s",fJDLName.Data()), Form("alien://%s/%s", workdir.Data(), fJDLName.Data())); | |
663 | if (fAdditionalLibs.Length()) { | |
e7c71df0 | 664 | arr = fAdditionalLibs.Tokenize(" "); |
c57f56b7 | 665 | TObjString *os; |
666 | TIter next(arr); | |
667 | while ((os=(TObjString*)next())) { | |
c57f56b7 | 668 | if (os->GetString().Contains(".so")) continue; |
4e5c5506 | 669 | Info("CreateJDL", "\n##### Copying dependency: <%s> to your alien workspace", os->GetString().Data()); |
c57f56b7 | 670 | if (FileExists(os->GetString())) gGrid->Rm(os->GetString()); |
671 | TFile::Cp(Form("file:%s",os->GetString().Data()), Form("alien://%s/%s", workdir.Data(), os->GetString().Data())); | |
672 | } | |
673 | delete arr; | |
674 | } | |
4e5c5506 | 675 | if (fPackages) { |
676 | TIter next(fPackages); | |
677 | TObject *obj; | |
678 | while ((obj=next())) { | |
679 | Info("CreateJDL", "\n##### Copying dependency: <%s> to your alien workspace", obj->GetName()); | |
680 | TFile::Cp(Form("file:%s",obj->GetName()), Form("alien://%s/%s", workdir.Data(), obj->GetName())); | |
681 | } | |
682 | } | |
c57f56b7 | 683 | } |
684 | return kTRUE; | |
685 | } | |
686 | ||
687 | //______________________________________________________________________________ | |
688 | Bool_t AliAnalysisAlien::FileExists(const char *lfn) const | |
689 | { | |
690 | // Returns true if file exists. | |
691 | if (!gGrid) { | |
692 | Error("FileExists", "No connection to grid"); | |
693 | return kFALSE; | |
694 | } | |
695 | TGridResult *res = gGrid->Ls(lfn); | |
696 | if (!res) return kFALSE; | |
697 | TMap *map = dynamic_cast<TMap*>(res->At(0)); | |
698 | if (!map) { | |
699 | delete res; | |
700 | return kFALSE; | |
701 | } | |
702 | TObjString *objs = dynamic_cast<TObjString*>(map->GetValue("name")); | |
703 | if (!objs || !objs->GetString().Length()) { | |
704 | delete res; | |
705 | return kFALSE; | |
706 | } | |
707 | delete res; | |
708 | return kTRUE; | |
709 | } | |
710 | ||
711 | //______________________________________________________________________________ | |
712 | void AliAnalysisAlien::CheckDataType(const char *lfn, Bool_t &is_collection, Bool_t &is_xml, Bool_t &use_tags) | |
713 | { | |
714 | // Check input data type. | |
715 | is_collection = kFALSE; | |
716 | is_xml = kFALSE; | |
717 | use_tags = kFALSE; | |
718 | if (!gGrid) { | |
719 | Error("CheckDataType", "No connection to grid"); | |
720 | return; | |
721 | } | |
722 | is_collection = IsCollection(lfn); | |
723 | TString msg = "\n##### file: "; | |
724 | msg += lfn; | |
725 | if (is_collection) { | |
726 | msg += " type: raw_collection;"; | |
727 | // special treatment for collections | |
728 | is_xml = kFALSE; | |
729 | // check for tag files in the collection | |
730 | TGridResult *res = gGrid->Command(Form("listFilesFromCollection -z -v %s",lfn), kFALSE); | |
731 | if (!res) { | |
732 | msg += " using_tags: No (unknown)"; | |
733 | Info("CheckDataType", msg.Data()); | |
734 | return; | |
735 | } | |
736 | const char* typeStr = res->GetKey(0, "origLFN"); | |
737 | if (!typeStr || !strlen(typeStr)) { | |
738 | msg += " using_tags: No (unknown)"; | |
739 | Info("CheckDataType", msg.Data()); | |
740 | return; | |
741 | } | |
742 | TString file = typeStr; | |
743 | use_tags = file.Contains(".tag"); | |
744 | if (use_tags) msg += " using_tags: Yes"; | |
745 | else msg += " using_tags: No"; | |
746 | Info("CheckDataType", msg.Data()); | |
747 | return; | |
748 | } | |
749 | TString slfn(lfn); | |
750 | slfn.ToLower(); | |
751 | is_xml = slfn.Contains(".xml"); | |
752 | if (is_xml) { | |
753 | // Open xml collection and check if there are tag files inside | |
754 | msg += " type: xml_collection;"; | |
755 | TGridCollection *coll = (TGridCollection*)gROOT->ProcessLine(Form("TAlienCollection::Open(\"alien://%s\",1);",lfn)); | |
756 | if (!coll) { | |
757 | msg += " using_tags: No (unknown)"; | |
758 | Info("CheckDataType", msg.Data()); | |
759 | return; | |
760 | } | |
761 | TMap *map = coll->Next(); | |
762 | if (!map) { | |
763 | msg += " using_tags: No (unknown)"; | |
764 | Info("CheckDataType", msg.Data()); | |
765 | return; | |
766 | } | |
767 | map = (TMap*)map->GetValue(""); | |
768 | TString file; | |
769 | if (map && map->GetValue("name")) file = map->GetValue("name")->GetName(); | |
770 | use_tags = file.Contains(".tag"); | |
771 | delete coll; | |
772 | if (use_tags) msg += " using_tags: Yes"; | |
773 | else msg += " using_tags: No"; | |
774 | Info("CheckDataType", msg.Data()); | |
775 | return; | |
776 | } | |
777 | use_tags = slfn.Contains(".tag"); | |
778 | if (slfn.Contains(".root")) msg += " type: root file;"; | |
779 | else msg += " type: unhnown file;"; | |
780 | if (use_tags) msg += " using_tags: Yes"; | |
781 | else msg += " using_tags: No"; | |
782 | Info("CheckDataType", msg.Data()); | |
783 | } | |
784 | ||
4e5c5506 | 785 | //______________________________________________________________________________ |
786 | void AliAnalysisAlien::EnablePackage(const char *package) | |
787 | { | |
788 | // Enables a par file supposed to exist in the current directory. | |
789 | TString pkg(package); | |
790 | pkg.ReplaceAll(".par", ""); | |
791 | pkg += ".par"; | |
792 | if (gSystem->AccessPathName(pkg)) { | |
793 | Error("EnablePackage", "Package %s not found", pkg.Data()); | |
794 | return; | |
795 | } | |
796 | if (!TObject::TestBit(AliAnalysisGrid::kUsePars)) | |
797 | Info("EnablePackage", "AliEn plugin will use .par packages"); | |
798 | TObject::SetBit(AliAnalysisGrid::kUsePars, kTRUE); | |
799 | if (!fPackages) { | |
800 | fPackages = new TObjArray(); | |
801 | fPackages->SetOwner(); | |
802 | } | |
803 | fPackages->Add(new TObjString(pkg)); | |
804 | } | |
805 | ||
c57f56b7 | 806 | //______________________________________________________________________________ |
807 | Bool_t AliAnalysisAlien::IsCollection(const char *lfn) const | |
808 | { | |
809 | // Returns true if file is a collection. Functionality duplicated from | |
810 | // TAlien::Type() because we don't want to directly depend on TAlien. | |
811 | if (!gGrid) { | |
812 | Error("IsCollection", "No connection to grid"); | |
813 | return kFALSE; | |
814 | } | |
815 | TGridResult *res = gGrid->Command(Form("type -z %s",lfn),kFALSE); | |
816 | if (!res) return kFALSE; | |
817 | const char* typeStr = res->GetKey(0, "type"); | |
818 | if (!typeStr || !strlen(typeStr)) return kFALSE; | |
819 | if (!strcmp(typeStr, "collection")) return kTRUE; | |
820 | delete res; | |
821 | return kFALSE; | |
822 | } | |
823 | ||
824 | //______________________________________________________________________________ | |
825 | void AliAnalysisAlien::SetDefaults() | |
826 | { | |
827 | // Set default values for everything. What cannot be filled will be left empty. | |
828 | if (fGridJDL) delete fGridJDL; | |
829 | fGridJDL = (TGridJDL*)gROOT->ProcessLine("new TAlienJDL()"); | |
830 | fPrice = 1; | |
831 | fTTL = 30000; | |
832 | fSplitMaxInputFileNumber = 100; | |
833 | fMaxInitFailed = 0; | |
834 | fMasterResubmitThreshold = 0; | |
bb885a9e | 835 | fNtestFiles = 10; |
c57f56b7 | 836 | fRunNumbers = ""; |
837 | fExecutable = "analysis.sh"; | |
838 | fArguments = ""; | |
839 | fAnalysisMacro = "myAnalysis.C"; | |
840 | fAnalysisSource = ""; | |
841 | fAdditionalLibs = ""; | |
842 | fSplitMode = "se"; | |
843 | fAPIVersion = ""; | |
844 | fROOTVersion = ""; | |
845 | fAliROOTVersion = ""; | |
846 | fUser = ""; // Your alien user name | |
847 | fGridWorkingDir = ""; | |
848 | fGridDataDir = ""; // Can be like: /alice/sim/PDC_08a/LHC08c9/ | |
849 | fDataPattern = "*AliESDs.root"; // Can be like: *AliESDs.root, */pass1/*AliESDs.root, ... | |
0df6ccf2 | 850 | fFriendChainName = ""; |
c57f56b7 | 851 | fGridOutputDir = "output"; |
852 | fOutputArchive = "log_archive.zip:stdout,stderr root_archive.zip:*.root"; | |
853 | fOutputFiles = ""; // Like "AliAODs.root histos.root" | |
854 | fInputFormat = "xml-single"; | |
855 | fJDLName = "analysis.jdl"; | |
bb885a9e | 856 | fMergeExcludes = ""; |
c57f56b7 | 857 | } |
858 | ||
859 | //______________________________________________________________________________ | |
860 | Bool_t AliAnalysisAlien::MergeOutputs() | |
861 | { | |
862 | // Merge analysis outputs existing in the AliEn space. | |
863 | if (TestBit(AliAnalysisGrid::kTest)) return kTRUE; | |
864 | if (TestBit(AliAnalysisGrid::kOffline)) return kFALSE; | |
865 | if (!Connect()) { | |
866 | Error("MergeOutputs", "Cannot merge outputs without grid connection. Terminate will NOT be executed"); | |
867 | return kFALSE; | |
868 | } | |
869 | // Get the output path | |
870 | TString output = Form("/%s/%s/%s", gGrid->GetHomeDirectory(), fGridWorkingDir.Data(), fGridOutputDir.Data()); | |
871 | if (!gGrid->Cd(output)) output = Form("/%s/%s", gGrid->GetHomeDirectory(), fGridOutputDir.Data()); | |
872 | if (!gGrid->Cd(output)) { | |
873 | Error("MergeOutputs", "Grid output directory %s not found. Terminate() will NOT be executed", fGridOutputDir.Data()); | |
874 | return kFALSE; | |
875 | } | |
876 | if (!fOutputFiles.Length()) { | |
877 | Error("MergeOutputs", "No output file names defined. Are you running the right AliAnalysisAlien configuration ?"); | |
878 | return kFALSE; | |
879 | } | |
880 | TObjArray *list = fOutputFiles.Tokenize(" "); | |
881 | TIter next(list); | |
882 | TObjString *str; | |
883 | TString command; | |
884 | TString output_file; | |
885 | Bool_t merged = kTRUE; | |
886 | while((str=(TObjString*)next())) { | |
887 | output_file = str->GetString(); | |
888 | Int_t index = output_file.Index("@"); | |
889 | if (index > 0) output_file.Remove(index); | |
bb885a9e | 890 | if (fMergeExcludes.Length() && |
891 | fMergeExcludes.Contains(output_file.Data())) continue; | |
c57f56b7 | 892 | command = Form("find %s/ *%s", output.Data(), output_file.Data()); |
893 | printf("command: %s\n", command.Data()); | |
894 | TGridResult *res = gGrid->Command(command); | |
895 | if (!res) continue; | |
896 | TFileMerger *fm = 0; | |
897 | TIter nextmap(res); | |
898 | TMap *map; | |
899 | while ((map=(TMap*)nextmap())) { | |
900 | TObjString *objs = dynamic_cast<TObjString*>(map->GetValue("turl")); | |
901 | if (!objs || !objs->GetString().Length()) { | |
902 | delete res; | |
903 | continue; | |
904 | } | |
905 | if (!fm) { | |
906 | fm = new TFileMerger(kFALSE); | |
907 | fm->SetFastMethod(kTRUE); | |
908 | fm->OutputFile(output_file); | |
909 | } | |
910 | fm->AddFile(objs->GetString()); | |
911 | } | |
912 | if (!fm || !fm->GetMergeList() || !fm->GetMergeList()->GetSize()) { | |
913 | Warning("MergeOutputs", "No <%s> files found.", output_file.Data()); | |
914 | merged = kFALSE; | |
915 | delete res; | |
916 | continue; | |
917 | } | |
918 | if (!fm->Merge()) { | |
919 | Error("MergeOutputs", "Could not merge all <%s> files", output_file.Data()); | |
920 | merged = kFALSE; | |
921 | } else { | |
922 | Info("MergeOutputs", "\n##### Merged %d output files <%s>", fm->GetMergeList()->GetSize(), output_file.Data()); | |
923 | } | |
924 | delete fm; | |
925 | delete res; | |
926 | } | |
927 | if (!merged) { | |
928 | Error("MergeOutputs", "Terminate() will NOT be executed"); | |
929 | } | |
930 | return merged; | |
931 | } | |
932 | ||
bb885a9e | 933 | //______________________________________________________________________________ |
934 | void AliAnalysisAlien::SetDefaultOutputs(Bool_t flag) | |
935 | { | |
936 | // Use the output files connected to output containers from the analysis manager | |
937 | // rather than the files defined by SetOutputFiles | |
938 | if (flag && !TObject::TestBit(AliAnalysisGrid::kDefaultOutputs)) | |
939 | Info("SetDefaultOutputs", "Plugin will use the output files taken from \ | |
940 | analysis manager"); | |
941 | TObject::SetBit(AliAnalysisGrid::kDefaultOutputs, flag); | |
942 | } | |
943 | ||
c57f56b7 | 944 | //______________________________________________________________________________ |
945 | void AliAnalysisAlien::StartAnalysis(Long64_t /*nentries*/, Long64_t /*firstEntry*/) | |
946 | { | |
947 | // Start remote grid analysis. | |
948 | ||
43da816a | 949 | // Check if output files have to be taken from the analysis manager |
950 | if (TestBit(AliAnalysisGrid::kDefaultOutputs)) { | |
951 | AliAnalysisManager *mgr = AliAnalysisManager::GetAnalysisManager(); | |
952 | if (!mgr || !mgr->IsInitialized()) { | |
953 | Error("StartAnalysis", "You need an initialized analysis manager for this"); | |
954 | return; | |
955 | } | |
956 | fOutputFiles = ""; | |
957 | TIter next(mgr->GetOutputs()); | |
958 | AliAnalysisDataContainer *output; | |
959 | while ((output=(AliAnalysisDataContainer*)next())) { | |
960 | const char *filename = output->GetFileName(); | |
961 | if (!(strcmp(filename, "default"))) { | |
962 | if (!mgr->GetOutputEventHandler()) continue; | |
963 | filename = mgr->GetOutputEventHandler()->GetOutputFileName(); | |
964 | } | |
965 | if (fOutputFiles.Length()) fOutputFiles += " "; | |
966 | fOutputFiles += filename; | |
967 | } | |
c07b9ce2 | 968 | // Add extra files registered to the analysis manager |
969 | if (mgr->GetExtraFiles().Length()) { | |
970 | if (fOutputFiles.Length()) fOutputFiles += " "; | |
971 | fOutputFiles += mgr->GetExtraFiles(); | |
972 | } | |
43da816a | 973 | } |
f7b1cbc2 | 974 | // if (!fCloseSE.Length()) fCloseSE = gSystem->Getenv("alien_CLOSE_SE"); |
c57f56b7 | 975 | if (TestBit(AliAnalysisGrid::kOffline)) { |
976 | Info("StartAnalysis","\n##### OFFLINE MODE ##### Files to be used in GRID are produced but not copied \ | |
977 | \n there nor any job run. You can revise the JDL and analysis \ | |
978 | \n macro then run the same in \"submit\" mode."); | |
979 | } else if (TestBit(AliAnalysisGrid::kTest)) { | |
980 | Info("StartAnalysis","\n##### LOCAL MODE ##### Your analysis will be run locally on a subset of the requested \ | |
981 | \n dataset."); | |
982 | } else if (TestBit(AliAnalysisGrid::kSubmit)) { | |
983 | Info("StartAnalysis","\n##### SUBMIT MODE ##### Files required by your analysis are copied to your grid working \ | |
984 | \n space and job submitted."); | |
985 | } else if (TestBit(AliAnalysisGrid::kMerge)) { | |
986 | Info("StartAnalysis","\n##### MERGE MODE ##### The registered outputs of the analysis will be merged"); | |
987 | return; | |
988 | } else { | |
989 | Info("StartAnalysis","\n##### FULL ANALYSIS MODE ##### Producing needed files and submitting your analysis job..."); | |
990 | } | |
991 | ||
992 | if (!Connect()) { | |
993 | Error("StartAnalysis", "Cannot start grid analysis without grid connection"); | |
994 | return; | |
995 | } | |
996 | if (!CheckInputData()) { | |
997 | Error("StartAnalysis", "There was an error in preprocessing your requested input data"); | |
998 | return; | |
999 | } | |
1000 | CreateDataset(fDataPattern); | |
1001 | WriteAnalysisFile(); | |
1002 | WriteAnalysisMacro(); | |
1003 | WriteExecutable(); | |
1004 | WriteValidationScript(); | |
1005 | if (!CreateJDL()) return; | |
1006 | if (TestBit(AliAnalysisGrid::kOffline)) return; | |
1007 | if (TestBit(AliAnalysisGrid::kTest)) { | |
1008 | // Locally testing the analysis | |
1009 | Info("StartAnalysis", "\n_______________________________________________________________________ \ | |
1010 | \n Running analysis script in a daughter shell as on a worker node \ | |
1011 | \n_______________________________________________________________________"); | |
1012 | TObjArray *list = fOutputFiles.Tokenize(" "); | |
1013 | TIter next(list); | |
1014 | TObjString *str; | |
1015 | TString output_file; | |
1016 | while((str=(TObjString*)next())) { | |
1017 | output_file = str->GetString(); | |
1018 | Int_t index = output_file.Index("@"); | |
1019 | if (index > 0) output_file.Remove(index); | |
43da816a | 1020 | if (!gSystem->AccessPathName(output_file)) gSystem->Exec(Form("rm %s", output_file.Data())); |
c57f56b7 | 1021 | } |
1022 | delete list; | |
1023 | gSystem->Exec(Form("bash %s 2>stderr", fExecutable.Data())); | |
1024 | gSystem->Exec("bash validate.sh"); | |
1025 | // gSystem->Exec("cat stdout"); | |
1026 | return; | |
1027 | } | |
1028 | // Submit AliEn job | |
1029 | CdWork(); | |
1030 | TGridResult *res = gGrid->Command(Form("submit %s", fJDLName.Data())); | |
0df6ccf2 | 1031 | printf("*************************** %s\n",Form("submit %s", fJDLName.Data())); |
c57f56b7 | 1032 | TString jobID = ""; |
1033 | if (res) { | |
1034 | const char *cjobId = res->GetKey(0,"jobId"); | |
1035 | if (!cjobId) { | |
1036 | Error("StartAnalysis", "Your JDL %s could not be submitted", fJDLName.Data()); | |
1037 | return; | |
1038 | } else { | |
1039 | Info("StartAnalysis", "\n_______________________________________________________________________ \ | |
1040 | \n##### Your JDL %s was successfully submitted. \nTHE JOB ID IS: %s \ | |
1041 | \n_______________________________________________________________________", | |
1042 | fJDLName.Data(), cjobId); | |
1043 | jobID = cjobId; | |
1044 | } | |
1045 | delete res; | |
1046 | } | |
1047 | Info("StartAnalysis", "\n#### STARTING AN ALIEN SHELL FOR YOU. EXIT WHEN YOUR JOB %s HAS FINISHED. #### \ | |
1048 | \n You may exit at any time and terminate the job later using the option <terminate> \ | |
1049 | \n ##################################################################################", jobID.Data()); | |
bb885a9e | 1050 | //gGrid->Shell(); |
1051 | gSystem->Exec("aliensh"); | |
c57f56b7 | 1052 | } |
1053 | ||
1054 | //______________________________________________________________________________ | |
1055 | void AliAnalysisAlien::WriteAnalysisFile() | |
1056 | { | |
1057 | // Write current analysis manager into the file analysis.root | |
1058 | if (!TestBit(AliAnalysisGrid::kSubmit)) { | |
1059 | AliAnalysisManager *mgr = AliAnalysisManager::GetAnalysisManager(); | |
1060 | if (!mgr || !mgr->IsInitialized()) { | |
1061 | Error("WriteAnalysisFile", "You need an initialized analysis manager for this"); | |
1062 | return; | |
1063 | } | |
1064 | // Check analysis type | |
1065 | TObject *handler; | |
1066 | if (mgr->GetMCtruthEventHandler()) TObject::SetBit(AliAnalysisGrid::kUseMC); | |
1067 | handler = (TObject*)mgr->GetInputEventHandler(); | |
1068 | if (handler) { | |
1069 | if (handler->InheritsFrom("AliESDInputHandler")) TObject::SetBit(AliAnalysisGrid::kUseESD); | |
1070 | if (handler->InheritsFrom("AliAODInputHandler")) TObject::SetBit(AliAnalysisGrid::kUseAOD); | |
1071 | } | |
1072 | TDirectory *cdir = gDirectory; | |
1073 | TFile *file = TFile::Open("analysis.root", "RECREATE"); | |
1074 | if (file) { | |
1075 | mgr->Write(); | |
1076 | delete file; | |
1077 | } | |
1078 | if (cdir) cdir->cd(); | |
1079 | Info("WriteAnalysisFile", "\n##### Analysis manager: %s wrote to file <analysis.root>\n", mgr->GetName()); | |
1080 | } | |
1081 | Bool_t copy = kTRUE; | |
1082 | if (TestBit(AliAnalysisGrid::kOffline) || TestBit(AliAnalysisGrid::kTest)) copy = kFALSE; | |
1083 | if (copy) { | |
1084 | CdWork(); | |
1085 | TString workdir = gGrid->GetHomeDirectory(); | |
1086 | workdir += fGridWorkingDir; | |
1087 | Info("CreateJDL", "\n##### Copying file <analysis.root> containing your initialized analysis manager to your alien workspace"); | |
1088 | if (FileExists("analysis.root")) gGrid->Rm("analysis.root"); | |
1089 | TFile::Cp("file:analysis.root", Form("alien://%s/analysis.root", workdir.Data())); | |
1090 | } | |
1091 | } | |
1092 | ||
1093 | //______________________________________________________________________________ | |
1094 | void AliAnalysisAlien::WriteAnalysisMacro() | |
1095 | { | |
1096 | // Write the analysis macro that will steer the analysis in grid mode. | |
1097 | if (!TestBit(AliAnalysisGrid::kSubmit)) { | |
1098 | ofstream out; | |
1099 | out.open(fAnalysisMacro.Data(), ios::out); | |
1100 | if (!out.good()) { | |
1101 | Error("WriteAnalysisMacro", "could not open file %s for writing", fAnalysisMacro.Data()); | |
1102 | return; | |
1103 | } | |
1104 | TString func = fAnalysisMacro; | |
1105 | TString type = "ESD"; | |
1106 | TString comment = "// Analysis using "; | |
1107 | if (TObject::TestBit(AliAnalysisGrid::kUseESD)) comment += "ESD"; | |
1108 | if (TObject::TestBit(AliAnalysisGrid::kUseAOD)) { | |
1109 | type = "AOD"; | |
1110 | comment += "AOD"; | |
1111 | } | |
0df6ccf2 | 1112 | if (type!="AOD" && fFriendChainName!="") { |
1113 | Error("WriteAnalysisMacro", "Friend chain can be attached only to AOD"); | |
1114 | return; | |
1115 | } | |
c57f56b7 | 1116 | if (TObject::TestBit(AliAnalysisGrid::kUseMC)) comment += "/MC"; |
1117 | else comment += " data"; | |
1118 | out << "const char *anatype = \"" << type.Data() << "\";" << endl << endl; | |
1119 | func.ReplaceAll(".C", ""); | |
1120 | out << "void " << func.Data() << "()" << endl; | |
1121 | out << "{" << endl; | |
1122 | out << comment.Data() << endl; | |
1123 | out << "// Automatically generated analysis steering macro executed in grid subjobs" << endl << endl; | |
f7498086 | 1124 | out << " TStopwatch timer;" << endl; |
1125 | out << " timer.Start();" << endl << endl; | |
c57f56b7 | 1126 | out << "// load base root libraries" << endl; |
1127 | out << " gSystem->Load(\"libTree\");" << endl; | |
1128 | out << " gSystem->Load(\"libGeom\");" << endl; | |
1129 | out << " gSystem->Load(\"libVMC\");" << endl; | |
1130 | out << " gSystem->Load(\"libPhysics\");" << endl << endl; | |
57377eb5 | 1131 | out << "// Load analysis framework libraries" << endl; |
4e5c5506 | 1132 | if (!fPackages) { |
4e5c5506 | 1133 | out << " gSystem->Load(\"libSTEERBase\");" << endl; |
1134 | out << " gSystem->Load(\"libESD\");" << endl; | |
1135 | out << " gSystem->Load(\"libAOD\");" << endl; | |
1136 | out << " gSystem->Load(\"libANALYSIS\");" << endl; | |
57377eb5 | 1137 | out << " gSystem->Load(\"libANALYSISalice\");" << endl; |
1138 | out << " gSystem->Load(\"libCORRFW\");" << endl << endl; | |
4e5c5506 | 1139 | } else { |
4e5c5506 | 1140 | TIter next(fPackages); |
1141 | TObject *obj; | |
57377eb5 | 1142 | TString pkgname; |
1143 | Bool_t hasSTEERBase = kFALSE; | |
1144 | Bool_t hasESD = kFALSE; | |
1145 | Bool_t hasAOD = kFALSE; | |
1146 | Bool_t hasANALYSIS = kFALSE; | |
1147 | Bool_t hasANALYSISalice = kFALSE; | |
1148 | Bool_t hasCORRFW = kFALSE; | |
1149 | while ((obj=next())) { | |
1150 | pkgname = obj->GetName(); | |
4478e6f1 | 1151 | if (pkgname == "STEERBase" || |
1152 | pkgname == "STEERBase.par") hasSTEERBase = kTRUE; | |
1153 | if (pkgname == "ESD" || | |
1154 | pkgname == "ESD.par") hasESD = kTRUE; | |
1155 | if (pkgname == "AOD" || | |
1156 | pkgname == "AOD.par") hasAOD = kTRUE; | |
1157 | if (pkgname == "ANALYSIS" || | |
1158 | pkgname == "ANALYSIS.par") hasANALYSIS = kTRUE; | |
1159 | if (pkgname == "ANALYSISalice" || | |
1160 | pkgname == "ANALYSISalice.par") hasANALYSISalice = kTRUE; | |
1161 | if (pkgname == "CORRFW" || | |
1162 | pkgname == "CORRFW.par") hasCORRFW = kTRUE; | |
57377eb5 | 1163 | } |
1164 | if (!hasSTEERBase) out << " gSystem->Load(\"libSTEERBase\");" << endl; | |
1165 | else out << " if (!SetupPar(\"STEERBase\")) return;" << endl; | |
1166 | if (!hasESD) out << " gSystem->Load(\"libESD\");" << endl; | |
1167 | else out << " if (!SetupPar(\"ESD\")) return;" << endl; | |
1168 | if (!hasAOD) out << " gSystem->Load(\"libAOD\");" << endl; | |
1169 | else out << " if (!SetupPar(\"AOD\")) return;" << endl; | |
1170 | if (!hasANALYSIS) out << " gSystem->Load(\"libANALYSIS\");" << endl; | |
1171 | else out << " if (!SetupPar(\"ANALYSIS\")) return;" << endl; | |
1172 | if (!hasANALYSISalice) out << " gSystem->Load(\"libANALYSISalice\");" << endl; | |
1173 | else out << " if (!SetupPar(\"ANALYSISalice\")) return;" << endl; | |
1174 | if (!hasCORRFW) out << " gSystem->Load(\"libCORRFW\");" << endl << endl; | |
1175 | else out << " if (!SetupPar(\"CORRFW\")) return;" << endl << endl; | |
1176 | out << "// Compile other par packages" << endl; | |
1177 | next.Reset(); | |
fcc9bb6f | 1178 | while ((obj=next())) { |
1179 | pkgname = obj->GetName(); | |
4478e6f1 | 1180 | if (pkgname == "STEERBase" || |
1181 | pkgname == "STEERBase.par" || | |
1182 | pkgname == "ESD" || | |
1183 | pkgname == "ESD.par" || | |
1184 | pkgname == "AOD" || | |
1185 | pkgname == "AOD.par" || | |
1186 | pkgname == "ANALYSIS" || | |
1187 | pkgname == "ANALYSIS.par" || | |
1188 | pkgname == "ANALYSISalice" || | |
1189 | pkgname == "ANALYSISalice.par" || | |
1190 | pkgname == "CORRFW" || | |
1191 | pkgname == "CORRFW.par") continue; | |
4e5c5506 | 1192 | out << " if (!SetupPar(\"" << obj->GetName() << "\")) return;" << endl; |
fcc9bb6f | 1193 | } |
4e5c5506 | 1194 | } |
43da816a | 1195 | out << "// include path" << endl; |
1196 | if (fIncludePath.Length()) out << " gSystem->AddIncludePath(\"" << fIncludePath.Data() << "\");" << endl; | |
1197 | out << " gSystem->AddIncludePath(\"-I$ALICE_ROOT/include\");" << endl << endl; | |
6da75e0b | 1198 | if (fAdditionalLibs.Length()) { |
1199 | out << "// Add aditional AliRoot libraries" << endl; | |
1200 | TObjArray *list = fAdditionalLibs.Tokenize(" "); | |
1201 | TIter next(list); | |
1202 | TObjString *str; | |
1203 | while((str=(TObjString*)next())) { | |
1204 | if (str->GetString().Contains(".so")) | |
1205 | out << " gSystem->Load(\"" << str->GetString().Data() << "\");" << endl; | |
1206 | } | |
1207 | if (list) delete list; | |
1208 | } | |
1209 | out << endl; | |
c57f56b7 | 1210 | out << "// analysis source to be compiled at runtime (if any)" << endl; |
1211 | if (fAnalysisSource.Length()) { | |
1212 | TObjArray *list = fAnalysisSource.Tokenize(" "); | |
1213 | TIter next(list); | |
1214 | TObjString *str; | |
1215 | while((str=(TObjString*)next())) { | |
1216 | out << " gROOT->ProcessLine(\".L " << str->GetString().Data() << "+g\");" << endl; | |
1217 | } | |
1218 | if (list) delete list; | |
1219 | } | |
1220 | out << endl; | |
1221 | out << "// connect to AliEn and make the chain" << endl; | |
1222 | out << " if (!TGrid::Connect(\"alien://\")) return;" << endl; | |
1223 | if (IsUsingTags()) { | |
1224 | out << " TChain *chain = CreateChainFromTags(\"wn.xml\", anatype);" << endl << endl; | |
1225 | } else { | |
1226 | out << " TChain *chain = CreateChain(\"wn.xml\", anatype);" << endl << endl; | |
1227 | } | |
1228 | out << "// read the analysis manager from file" << endl; | |
1229 | out << " TFile *file = TFile::Open(\"analysis.root\");" << endl; | |
1230 | out << " if (!file) return;" << endl; | |
1231 | out << " TIter nextkey(file->GetListOfKeys());" << endl; | |
1232 | out << " AliAnalysisManager *mgr = 0;" << endl; | |
1233 | out << " TKey *key;" << endl; | |
1234 | out << " while ((key=(TKey*)nextkey())) {" << endl; | |
1235 | out << " if (!strcmp(key->GetClassName(), \"AliAnalysisManager\"))" << endl; | |
1236 | out << " mgr = (AliAnalysisManager*)file->Get(key->GetName());" << endl; | |
1237 | out << " };" << endl; | |
1238 | out << " if (!mgr) {" << endl; | |
1239 | out << " ::Error(\"" << func.Data() << "\", \"No analysis manager found in file analysis.root\");" << endl; | |
1240 | out << " return;" << endl; | |
1241 | out << " }" << endl << endl; | |
1242 | out << " mgr->PrintStatus();" << endl; | |
1243 | out << " mgr->StartAnalysis(\"localfile\", chain);" << endl; | |
f7498086 | 1244 | out << " timer.Stop();" << endl; |
1245 | out << " timer.Print();" << endl; | |
c57f56b7 | 1246 | out << "}" << endl << endl; |
1247 | if (IsUsingTags()) { | |
1248 | out << "TChain* CreateChainFromTags(const char *xmlfile, const char *type=\"ESD\")" << endl; | |
1249 | out << "{" << endl; | |
1250 | out << "// Create a chain using tags from the xml file." << endl; | |
1251 | out << " TAlienCollection* coll = TAlienCollection::Open(xmlfile);" << endl; | |
1252 | out << " if (!coll) {" << endl; | |
1253 | out << " ::Error(\"CreateChainFromTags\", \"Cannot create an AliEn collection from %s\", xmlfile);" << endl; | |
1254 | out << " return NULL;" << endl; | |
1255 | out << " }" << endl; | |
1256 | out << " TGridResult* tagResult = coll->GetGridResult(\"\",kFALSE,kFALSE);" << endl; | |
1257 | out << " AliTagAnalysis *tagAna = new AliTagAnalysis(type);" << endl; | |
1258 | out << " tagAna->ChainGridTags(tagResult);" << endl << endl; | |
1259 | out << " AliRunTagCuts *runCuts = new AliRunTagCuts();" << endl; | |
1260 | out << " AliLHCTagCuts *lhcCuts = new AliLHCTagCuts();" << endl; | |
1261 | out << " AliDetectorTagCuts *detCuts = new AliDetectorTagCuts();" << endl; | |
1262 | out << " AliEventTagCuts *evCuts = new AliEventTagCuts();" << endl; | |
1263 | out << " // Check if the cuts configuration file was provided" << endl; | |
1264 | out << " if (!gSystem->AccessPathName(\"ConfigureCuts.C\")) {" << endl; | |
1265 | out << " gROOT->LoadMacro(\"ConfigureCuts.C\");" << endl; | |
1266 | out << " ConfigureCuts(runCuts, lhcCuts, detCuts, evCuts);" << endl; | |
1267 | out << " }" << endl; | |
0df6ccf2 | 1268 | if (fFriendChainName=="") { |
1269 | out << " TChain *chain = tagAna->QueryTags(runCuts, lhcCuts, detCuts, evCuts);" << endl; | |
1270 | } else { | |
1271 | out << " TString tmpColl=\"tmpCollection.xml\";" << endl; | |
1272 | out << " tagAna->CreateXMLCollection(tmpColl.Data(),runCuts, lhcCuts, detCuts, evCuts);" << endl; | |
1273 | out << " TChain *chain = CreateChain(tmpColl.Data(),type);" << endl; | |
1274 | } | |
c57f56b7 | 1275 | out << " if (!chain || !chain->GetNtrees()) return NULL;" << endl; |
1276 | out << " chain->ls();" << endl; | |
1277 | out << " return chain;" << endl; | |
fcc9bb6f | 1278 | out << "}" << endl << endl; |
c57f56b7 | 1279 | if (gSystem->AccessPathName("ConfigureCuts.C")) { |
1280 | TString msg = "\n##### You may want to provide a macro ConfigureCuts.C with a method:\n"; | |
1281 | msg += " void ConfigureCuts(AliRunTagCuts *runCuts,\n"; | |
1282 | msg += " AliLHCTagCuts *lhcCuts,\n"; | |
1283 | msg += " AliDetectorTagCuts *detCuts,\n"; | |
1284 | msg += " AliEventTagCuts *evCuts)"; | |
1285 | Info("WriteAnalysisMacro", msg.Data()); | |
1286 | } | |
0df6ccf2 | 1287 | } |
1288 | if (!IsUsingTags() || fFriendChainName!="") { | |
fcc9bb6f | 1289 | out <<"//________________________________________________________________________________" << endl; |
c57f56b7 | 1290 | out << "TChain* CreateChain(const char *xmlfile, const char *type=\"ESD\")" << endl; |
1291 | out << "{" << endl; | |
1292 | out << "// Create a chain using url's from xml file" << endl; | |
1293 | out << " TString treename = type;" << endl; | |
1294 | out << " treename.ToLower();" << endl; | |
1295 | out << " treename += \"Tree\";" << endl; | |
e02fee64 | 1296 | out << " printf(\"***************************************\\n\");" << endl; |
1297 | out << " printf(\" Getting chain of trees %s\\n\", treename.Data());" << endl; | |
1298 | out << " printf(\"***************************************\\n\");" << endl; | |
c57f56b7 | 1299 | out << " TAlienCollection *coll = TAlienCollection::Open(xmlfile);" << endl; |
1300 | out << " if (!coll) {" << endl; | |
1301 | out << " ::Error(\"CreateChain\", \"Cannot create an AliEn collection from %s\", xmlfile);" << endl; | |
1302 | out << " return NULL;" << endl; | |
1303 | out << " }" << endl; | |
1304 | out << " TChain *chain = new TChain(treename);" << endl; | |
0df6ccf2 | 1305 | if(fFriendChainName!="") { |
1306 | out << " TChain *chainFriend = new TChain(treename);" << endl; | |
1307 | } | |
c57f56b7 | 1308 | out << " coll->Reset();" << endl; |
0df6ccf2 | 1309 | out << " while (coll->Next()) {" << endl; |
1310 | out << " chain->Add(coll->GetTURL(\"\"));" << endl; | |
1311 | if(fFriendChainName!="") { | |
1312 | out << " TString fileFriend=coll->GetTURL(\"\");" << endl; | |
1313 | out << " fileFriend.ReplaceAll(\"AliAOD.root\",\""<<fFriendChainName.Data()<<"\");" << endl; | |
1314 | out << " fileFriend.ReplaceAll(\"AliAODs.root\",\""<<fFriendChainName.Data()<<"\");" << endl; | |
1315 | out << " chainFriend->Add(fileFriend.Data());" << endl; | |
1316 | } | |
1317 | out << " }" << endl; | |
c57f56b7 | 1318 | out << " if (!chain->GetNtrees()) {" << endl; |
1319 | out << " ::Error(\"CreateChain\", \"No tree found from collection %s\", xmlfile);" << endl; | |
1320 | out << " return NULL;" << endl; | |
1321 | out << " }" << endl; | |
0df6ccf2 | 1322 | if(fFriendChainName!="") { |
1323 | out << " chain->AddFriend(chainFriend);" << endl; | |
1324 | } | |
c57f56b7 | 1325 | out << " return chain;" << endl; |
fcc9bb6f | 1326 | out << "}" << endl << endl; |
c57f56b7 | 1327 | } |
4e5c5506 | 1328 | if (fPackages) { |
fcc9bb6f | 1329 | out <<"//________________________________________________________________________________" << endl; |
4e5c5506 | 1330 | out << "Bool_t SetupPar(const char *package) {" << endl; |
1331 | out << "// Compile the package and set it up." << endl; | |
1332 | out << " TString pkgdir = package;" << endl; | |
1333 | out << " pkgdir.ReplaceAll(\".par\",\"\");" << endl; | |
fcc9bb6f | 1334 | out << " gSystem->Exec(Form(\"tar xvzf %s.par\", pkgdir.Data()));" << endl; |
4e5c5506 | 1335 | out << " TString cdir = gSystem->WorkingDirectory();" << endl; |
1336 | out << " gSystem->ChangeDirectory(pkgdir);" << endl; | |
1337 | out << " // Check for BUILD.sh and execute" << endl; | |
1338 | out << " if (!gSystem->AccessPathName(\"PROOF-INF/BUILD.sh\")) {" << endl; | |
1339 | out << " printf(\"*******************************\\n\");" << endl; | |
1340 | out << " printf(\"*** Building PAR archive ***\\n\");" << endl; | |
1341 | out << " printf(\"*******************************\\n\");" << endl; | |
1342 | out << " if (gSystem->Exec(\"PROOF-INF/BUILD.sh\")) {" << endl; | |
fcc9bb6f | 1343 | out << " ::Error(\"SetupPar\", \"Cannot build par archive %s\", pkgdir.Data());" << endl; |
4e5c5506 | 1344 | out << " gSystem->ChangeDirectory(cdir);" << endl; |
1345 | out << " return kFALSE;" << endl; | |
1346 | out << " }" << endl; | |
1347 | out << " } else {" << endl; | |
fcc9bb6f | 1348 | out << " ::Error(\"SetupPar\",\"Cannot access PROOF-INF/BUILD.sh for package %s\", pkgdir.Data());" << endl; |
4e5c5506 | 1349 | out << " gSystem->ChangeDirectory(cdir);" << endl; |
1350 | out << " return kFALSE;" << endl; | |
1351 | out << " }" << endl; | |
1352 | out << " // Check for SETUP.C and execute" << endl; | |
1353 | out << " if (!gSystem->AccessPathName(\"PROOF-INF/SETUP.C\")) {" << endl; | |
1354 | out << " printf(\"*******************************\\n\");" << endl; | |
1355 | out << " printf(\"*** Setup PAR archive ***\\n\");" << endl; | |
1356 | out << " printf(\"*******************************\\n\");" << endl; | |
1357 | out << " gROOT->Macro(\"PROOF-INF/SETUP.C\");" << endl; | |
1358 | out << " } else {" << endl; | |
fcc9bb6f | 1359 | out << " ::Error(\"SetupPar\",\"Cannot access PROOF-INF/SETUP.C for package %s\", pkgdir.Data());" << endl; |
4e5c5506 | 1360 | out << " gSystem->ChangeDirectory(cdir);" << endl; |
1361 | out << " return kFALSE;" << endl; | |
1362 | out << " }" << endl; | |
1363 | out << " // Restore original workdir" << endl; | |
1364 | out << " gSystem->ChangeDirectory(cdir);" << endl; | |
1365 | out << " return kTRUE;" << endl; | |
1366 | out << "}" << endl; | |
1367 | } | |
c57f56b7 | 1368 | Info("WriteAnalysisMacro", "\n##### Analysis macro to run on worker nodes <%s> written",fAnalysisMacro.Data()); |
1369 | } | |
1370 | Bool_t copy = kTRUE; | |
1371 | if (TestBit(AliAnalysisGrid::kOffline) || TestBit(AliAnalysisGrid::kTest)) copy = kFALSE; | |
1372 | if (copy) { | |
1373 | CdWork(); | |
1374 | TString workdir = gGrid->GetHomeDirectory(); | |
1375 | workdir += fGridWorkingDir; | |
1376 | if (FileExists(fAnalysisMacro)) gGrid->Rm(fAnalysisMacro); | |
1377 | if (IsUsingTags() && !gSystem->AccessPathName("ConfigureCuts.C")) { | |
1378 | if (FileExists("ConfigureCuts.C")) gGrid->Rm("ConfigureCuts.C"); | |
1379 | Info("WriteAnalysisMacro", "\n##### Copying cuts configuration macro: <ConfigureCuts.C> to your alien workspace"); | |
1380 | TFile::Cp("file:ConfigureCuts.C", Form("alien://%s/ConfigureCuts.C", workdir.Data())); | |
1381 | } | |
1382 | Info("WriteAnalysisMacro", "\n##### Copying analysis macro: <%s> to your alien workspace", fAnalysisMacro.Data()); | |
1383 | TFile::Cp(Form("file:%s",fAnalysisMacro.Data()), Form("alien://%s/%s", workdir.Data(), fAnalysisMacro.Data())); | |
1384 | } | |
1385 | } | |
1386 | ||
1387 | //______________________________________________________________________________ | |
1388 | void AliAnalysisAlien::WriteExecutable() | |
1389 | { | |
1390 | // Generate the alien executable script. | |
1391 | if (!TestBit(AliAnalysisGrid::kSubmit)) { | |
1392 | ofstream out; | |
1393 | out.open(fExecutable.Data(), ios::out); | |
1394 | if (out.bad()) { | |
1395 | Error("CreateJDL", "Bad file name for executable: %s", fExecutable.Data()); | |
1396 | return; | |
1397 | } | |
1398 | out << "#!/bin/bash" << endl; | |
1399 | out << "export GCLIENT_SERVER_LIST=\"pcapiserv04.cern.ch:10000|pcapiserv05.cern.ch:10000|pcapiserv06.cern.ch:10000|pcapiserv07.cern.ch:10000\"" << endl; | |
1400 | out << "echo \"=========================================\"" << endl; | |
1401 | out << "echo \"############## PATH : ##############\"" << endl; | |
1402 | out << "echo $PATH" << endl; | |
1403 | out << "echo \"############## LD_LIBRARY_PATH : ##############\"" << endl; | |
1404 | out << "echo $LD_LIBRARY_PATH" << endl; | |
1405 | out << "echo \"############## ROOTSYS : ##############\"" << endl; | |
1406 | out << "echo $ROOTSYS" << endl; | |
1407 | out << "echo \"############## which root : ##############\"" << endl; | |
1408 | out << "which root" << endl; | |
1409 | out << "echo \"############## ALICE_ROOT : ##############\"" << endl; | |
1410 | out << "echo $ALICE_ROOT" << endl; | |
1411 | out << "echo \"############## which aliroot : ##############\"" << endl; | |
1412 | out << "which aliroot" << endl; | |
1413 | out << "echo \"=========================================\"" << endl << endl; | |
1414 | // if (TestBit(AliAnalysisGrid::kTest)) out << "root "; | |
1415 | out << "root -b -q "; | |
1416 | out << fAnalysisMacro.Data() << endl << endl; | |
1417 | out << "echo \"======== " << fAnalysisMacro.Data() << " finished ========\"" << endl; | |
1418 | } | |
1419 | Bool_t copy = kTRUE; | |
1420 | if (TestBit(AliAnalysisGrid::kOffline) || TestBit(AliAnalysisGrid::kTest)) copy = kFALSE; | |
1421 | if (copy) { | |
1422 | CdWork(); | |
1423 | TString workdir = gGrid->GetHomeDirectory(); | |
1424 | workdir += fGridWorkingDir; | |
1425 | TString executable = Form("%s/bin/%s", gGrid->GetHomeDirectory(), fExecutable.Data()); | |
1426 | if (FileExists(executable)) gGrid->Rm(executable); | |
1427 | Info("CreateJDL", "\n##### Copying executable file <%s> to your AliEn bin directory", fExecutable.Data()); | |
1428 | TFile::Cp(Form("file:%s",fExecutable.Data()), Form("alien://%s", executable.Data())); | |
1429 | } | |
1430 | } | |
1431 | ||
1432 | //______________________________________________________________________________ | |
1433 | void AliAnalysisAlien::WriteValidationScript() | |
1434 | { | |
1435 | // Generate the alien validation script. | |
1436 | // Generate the validation script | |
1437 | TObjString *os; | |
1438 | if (!Connect()) { | |
1439 | Error("WriteValidationScript", "Alien connection required"); | |
1440 | return; | |
1441 | } | |
1442 | TString out_stream = ""; | |
1443 | if (!TestBit(AliAnalysisGrid::kTest)) out_stream = " >> stdout"; | |
1444 | if (!TestBit(AliAnalysisGrid::kSubmit)) { | |
1445 | ofstream out; | |
1446 | out.open("validate.sh", ios::out); | |
1447 | out << "#!/bin/bash" << endl; | |
1448 | out << "##################################################" << endl; | |
1449 | out << "validateout=`dirname $0`" << endl; | |
1450 | out << "validatetime=`date`" << endl; | |
1451 | out << "validated=\"0\";" << endl; | |
1452 | out << "error=0" << endl; | |
1453 | out << "if [ -z $validateout ]" << endl; | |
1454 | out << "then" << endl; | |
1455 | out << " validateout=\".\"" << endl; | |
1456 | out << "fi" << endl << endl; | |
1457 | out << "cd $validateout;" << endl; | |
1458 | out << "validateworkdir=`pwd`;" << endl << endl; | |
1459 | out << "echo \"*******************************************************\"" << out_stream << endl; | |
1460 | out << "echo \"* Automatically generated validation script *\"" << out_stream << endl; | |
1461 | out << "" << endl; | |
1462 | out << "echo \"* Time: $validatetime \"" << out_stream << endl; | |
1463 | out << "echo \"* Dir: $validateout\"" << out_stream << endl; | |
1464 | out << "echo \"* Workdir: $validateworkdir\"" << out_stream << endl; | |
1465 | out << "echo \"* ----------------------------------------------------*\"" << out_stream << endl; | |
1466 | out << "ls -la ./" << out_stream << endl; | |
1467 | out << "echo \"* ----------------------------------------------------*\"" << out_stream << endl << endl; | |
1468 | out << "##################################################" << endl; | |
ebec370a | 1469 | |
1470 | out << "" << endl; | |
1471 | out << "parArch=`grep -Ei \"Cannot Build the PAR Archive\" stderr`" << endl; | |
1472 | out << "segViol=`grep -Ei \"Segmentation violation\" stderr`" << endl; | |
1473 | out << "segFault=`grep -Ei \"Segmentation fault\" stderr`" << endl; | |
1474 | out << "" << endl; | |
1475 | ||
1476 | out << "if [ ! -f stderr ] ; then" << endl; | |
1477 | out << " error=1" << endl; | |
1478 | out << " echo \"* ########## Job not validated - no stderr ###\" " << out_stream << endl; | |
1479 | out << " echo \"Error = $error\" " << out_stream << endl; | |
1480 | out << "fi" << endl; | |
1481 | ||
1482 | out << "if [ \"$parArch\" != \"\" ] ; then" << endl; | |
1483 | out << " error=1" << endl; | |
1484 | out << " echo \"* ########## Job not validated - PAR archive not built ###\" " << out_stream << endl; | |
1485 | out << " echo \"$parArch\" " << out_stream << endl; | |
1486 | out << " echo \"Error = $error\" " << out_stream << endl; | |
1487 | out << "fi" << endl; | |
1488 | ||
1489 | out << "if [ \"$segViol\" != \"\" ] ; then" << endl; | |
1490 | out << " error=1" << endl; | |
1491 | out << " echo \"* ########## Job not validated - Segment. violation ###\" " << out_stream << endl; | |
1492 | out << " echo \"$segViol\" " << out_stream << endl; | |
1493 | out << " echo \"Error = $error\" " << out_stream << endl; | |
1494 | out << "fi" << endl; | |
1495 | ||
1496 | out << "if [ \"$segFault\" != \"\" ] ; then" << endl; | |
1497 | out << " error=1" << endl; | |
1498 | out << " echo \"* ########## Job not validated - Segment. fault ###\" " << out_stream << endl; | |
1499 | out << " echo \"$segFault\" " << out_stream << endl; | |
1500 | out << " echo \"Error = $error\" " << out_stream << endl; | |
1501 | out << "fi" << endl; | |
1502 | ||
1503 | // Part dedicated to the specific analyses running into the train | |
1504 | ||
c57f56b7 | 1505 | TObjArray *arr = fOutputFiles.Tokenize(" "); |
1506 | TIter next1(arr); | |
1507 | TString output_file; | |
1508 | while ((os=(TObjString*)next1())) { | |
1509 | output_file = os->GetString(); | |
1510 | Int_t index = output_file.Index("@"); | |
1511 | if (index > 0) output_file.Remove(index); | |
1512 | out << "if ! [ -f " << output_file.Data() << " ] ; then" << endl; | |
1513 | out << " error=1" << endl; | |
1514 | out << " echo \"Output file(s) not found. Job FAILED !\"" << out_stream << endl; | |
1515 | out << " echo \"Output file(s) not found. Job FAILED !\" >> stderr" << endl; | |
1516 | out << "fi" << endl; | |
1517 | } | |
1518 | delete arr; | |
1519 | out << "if [ $error = 0 ] ; then" << endl; | |
1520 | out << " echo \"* ---------------- Job Validated ------------------*\"" << out_stream << endl; | |
1521 | out << "fi" << endl; | |
1522 | ||
1523 | out << "echo \"* ----------------------------------------------------*\"" << out_stream << endl; | |
1524 | out << "echo \"*******************************************************\"" << out_stream << endl; | |
1525 | out << "cd -" << endl; | |
1526 | out << "exit $error" << endl; | |
1527 | } | |
1528 | Bool_t copy = kTRUE; | |
1529 | if (TestBit(AliAnalysisGrid::kOffline) || TestBit(AliAnalysisGrid::kTest)) copy = kFALSE; | |
1530 | if (copy) { | |
1531 | CdWork(); | |
1532 | TString workdir = gGrid->GetHomeDirectory(); | |
1533 | workdir += fGridWorkingDir; | |
1534 | Info("CreateJDL", "\n##### Copying validation script <validate.sh> to your AliEn working space"); | |
1535 | if (FileExists("validate.sh")) gGrid->Rm("validate.sh"); | |
1536 | TFile::Cp("file:validate.sh", Form("alien://%s/validate.sh", workdir.Data())); | |
1537 | } | |
1538 | } |