]>
Commit | Line | Data |
---|---|---|
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" | |
d2a409b2 | 33 | #include "TGridJobStatusList.h" |
34 | #include "TGridJobStatus.h" | |
c57f56b7 | 35 | #include "TFileMerger.h" |
36 | #include "AliAnalysisManager.h" | |
bb885a9e | 37 | #include "AliVEventHandler.h" |
38 | #include "AliAnalysisDataContainer.h" | |
c57f56b7 | 39 | #include "AliAnalysisAlien.h" |
40 | ||
41 | ClassImp(AliAnalysisAlien) | |
42 | ||
43 | //______________________________________________________________________________ | |
44 | AliAnalysisAlien::AliAnalysisAlien() | |
45 | :AliAnalysisGrid(), | |
46 | fGridJDL(NULL), | |
47 | fPrice(0), | |
48 | fTTL(0), | |
49 | fSplitMaxInputFileNumber(0), | |
50 | fMaxInitFailed(0), | |
51 | fMasterResubmitThreshold(0), | |
bb885a9e | 52 | fNtestFiles(0), |
319593fb | 53 | fNrunsPerMaster(0), |
16a4353c | 54 | fMaxMergeFiles(0), |
d2a409b2 | 55 | fNsubmitted(0), |
c57f56b7 | 56 | fRunNumbers(), |
57 | fExecutable(), | |
58 | fArguments(), | |
59 | fAnalysisMacro(), | |
60 | fAnalysisSource(), | |
61 | fAdditionalLibs(), | |
62 | fSplitMode(), | |
63 | fAPIVersion(), | |
64 | fROOTVersion(), | |
65 | fAliROOTVersion(), | |
66 | fUser(), | |
67 | fGridWorkingDir(), | |
68 | fGridDataDir(), | |
69 | fDataPattern(), | |
70 | fGridOutputDir(), | |
71 | fOutputArchive(), | |
72 | fOutputFiles(), | |
73 | fInputFormat(), | |
e7c71df0 | 74 | fDatasetName(), |
c57f56b7 | 75 | fJDLName(), |
bb885a9e | 76 | fMergeExcludes(), |
f965131e | 77 | fIncludePath(), |
bb885a9e | 78 | fCloseSE(), |
0df6ccf2 | 79 | fFriendChainName(), |
4e5c5506 | 80 | fInputFiles(0), |
81 | fPackages(0) | |
c57f56b7 | 82 | { |
83 | // Dummy ctor. | |
84 | SetDefaults(); | |
85 | } | |
86 | ||
87 | //______________________________________________________________________________ | |
88 | AliAnalysisAlien::AliAnalysisAlien(const char *name) | |
89 | :AliAnalysisGrid(name), | |
90 | fGridJDL(NULL), | |
91 | fPrice(0), | |
92 | fTTL(0), | |
93 | fSplitMaxInputFileNumber(0), | |
94 | fMaxInitFailed(0), | |
95 | fMasterResubmitThreshold(0), | |
bb885a9e | 96 | fNtestFiles(0), |
319593fb | 97 | fNrunsPerMaster(0), |
16a4353c | 98 | fMaxMergeFiles(0), |
d2a409b2 | 99 | fNsubmitted(0), |
c57f56b7 | 100 | fRunNumbers(), |
101 | fExecutable(), | |
102 | fArguments(), | |
103 | fAnalysisMacro(), | |
104 | fAnalysisSource(), | |
105 | fAdditionalLibs(), | |
106 | fSplitMode(), | |
107 | fAPIVersion(), | |
108 | fROOTVersion(), | |
109 | fAliROOTVersion(), | |
110 | fUser(), | |
111 | fGridWorkingDir(), | |
112 | fGridDataDir(), | |
113 | fDataPattern(), | |
114 | fGridOutputDir(), | |
115 | fOutputArchive(), | |
116 | fOutputFiles(), | |
117 | fInputFormat(), | |
e7c71df0 | 118 | fDatasetName(), |
c57f56b7 | 119 | fJDLName(), |
bb885a9e | 120 | fMergeExcludes(), |
f965131e | 121 | fIncludePath(), |
bb885a9e | 122 | fCloseSE(), |
0df6ccf2 | 123 | fFriendChainName(), |
4e5c5506 | 124 | fInputFiles(0), |
125 | fPackages(0) | |
c57f56b7 | 126 | { |
127 | // Default ctor. | |
128 | SetDefaults(); | |
129 | } | |
130 | ||
131 | //______________________________________________________________________________ | |
132 | AliAnalysisAlien::AliAnalysisAlien(const AliAnalysisAlien& other) | |
133 | :AliAnalysisGrid(other), | |
134 | fGridJDL(NULL), | |
135 | fPrice(other.fPrice), | |
136 | fTTL(other.fTTL), | |
137 | fSplitMaxInputFileNumber(other.fSplitMaxInputFileNumber), | |
138 | fMaxInitFailed(other.fMaxInitFailed), | |
139 | fMasterResubmitThreshold(other.fMasterResubmitThreshold), | |
bb885a9e | 140 | fNtestFiles(other.fNtestFiles), |
319593fb | 141 | fNrunsPerMaster(other.fNrunsPerMaster), |
16a4353c | 142 | fMaxMergeFiles(other.fMaxMergeFiles), |
d2a409b2 | 143 | fNsubmitted(other.fNsubmitted), |
c57f56b7 | 144 | fRunNumbers(other.fRunNumbers), |
145 | fExecutable(other.fExecutable), | |
146 | fArguments(other.fArguments), | |
147 | fAnalysisMacro(other.fAnalysisMacro), | |
148 | fAnalysisSource(other.fAnalysisSource), | |
149 | fAdditionalLibs(other.fAdditionalLibs), | |
150 | fSplitMode(other.fSplitMode), | |
151 | fAPIVersion(other.fAPIVersion), | |
152 | fROOTVersion(other.fROOTVersion), | |
153 | fAliROOTVersion(other.fAliROOTVersion), | |
154 | fUser(other.fUser), | |
155 | fGridWorkingDir(other.fGridWorkingDir), | |
156 | fGridDataDir(other.fGridDataDir), | |
157 | fDataPattern(other.fDataPattern), | |
158 | fGridOutputDir(other.fGridOutputDir), | |
159 | fOutputArchive(other.fOutputArchive), | |
160 | fOutputFiles(other.fOutputFiles), | |
161 | fInputFormat(other.fInputFormat), | |
e7c71df0 | 162 | fDatasetName(other.fDatasetName), |
c57f56b7 | 163 | fJDLName(other.fJDLName), |
bb885a9e | 164 | fMergeExcludes(other.fMergeExcludes), |
f965131e | 165 | fIncludePath(other.fIncludePath), |
bb885a9e | 166 | fCloseSE(other.fCloseSE), |
0df6ccf2 | 167 | fFriendChainName(other.fFriendChainName), |
4e5c5506 | 168 | fInputFiles(0), |
169 | fPackages(0) | |
c57f56b7 | 170 | { |
171 | // Copy ctor. | |
172 | fGridJDL = (TGridJDL*)gROOT->ProcessLine("new TAlienJDL()"); | |
a8739e8a | 173 | fRunRange[0] = other.fRunRange[0]; |
174 | fRunRange[1] = other.fRunRange[1]; | |
c57f56b7 | 175 | if (other.fInputFiles) { |
176 | fInputFiles = new TObjArray(); | |
177 | TIter next(other.fInputFiles); | |
178 | TObject *obj; | |
179 | while ((obj=next())) fInputFiles->Add(new TObjString(obj->GetName())); | |
180 | fInputFiles->SetOwner(); | |
181 | } | |
4e5c5506 | 182 | if (other.fPackages) { |
183 | fPackages = new TObjArray(); | |
184 | TIter next(other.fPackages); | |
185 | TObject *obj; | |
186 | while ((obj=next())) fPackages->Add(new TObjString(obj->GetName())); | |
187 | fPackages->SetOwner(); | |
188 | } | |
c57f56b7 | 189 | } |
190 | ||
191 | //______________________________________________________________________________ | |
192 | AliAnalysisAlien::~AliAnalysisAlien() | |
193 | { | |
194 | // Destructor. | |
195 | if (fGridJDL) delete fGridJDL; | |
196 | if (fInputFiles) delete fInputFiles; | |
4e5c5506 | 197 | if (fPackages) delete fPackages; |
c57f56b7 | 198 | } |
199 | ||
200 | //______________________________________________________________________________ | |
201 | AliAnalysisAlien &AliAnalysisAlien::operator=(const AliAnalysisAlien& other) | |
202 | { | |
203 | // Assignment. | |
204 | if (this != &other) { | |
205 | AliAnalysisGrid::operator=(other); | |
206 | fGridJDL = (TGridJDL*)gROOT->ProcessLine("new TAlienJDL()"); | |
207 | fPrice = other.fPrice; | |
208 | fTTL = other.fTTL; | |
209 | fSplitMaxInputFileNumber = other.fSplitMaxInputFileNumber; | |
210 | fMaxInitFailed = other.fMaxInitFailed; | |
211 | fMasterResubmitThreshold = other.fMasterResubmitThreshold; | |
bb885a9e | 212 | fNtestFiles = other.fNtestFiles; |
c57f56b7 | 213 | fRunNumbers = other.fRunNumbers; |
214 | fExecutable = other.fExecutable; | |
215 | fArguments = other.fArguments; | |
216 | fAnalysisMacro = other.fAnalysisMacro; | |
217 | fAnalysisSource = other.fAnalysisSource; | |
218 | fAdditionalLibs = other.fAdditionalLibs; | |
219 | fSplitMode = other.fSplitMode; | |
220 | fAPIVersion = other.fAPIVersion; | |
221 | fROOTVersion = other.fROOTVersion; | |
222 | fAliROOTVersion = other.fAliROOTVersion; | |
223 | fUser = other.fUser; | |
224 | fGridWorkingDir = other.fGridWorkingDir; | |
225 | fGridDataDir = other.fGridDataDir; | |
226 | fDataPattern = other.fDataPattern; | |
227 | fGridOutputDir = other.fGridOutputDir; | |
228 | fOutputArchive = other.fOutputArchive; | |
229 | fOutputFiles = other.fOutputFiles; | |
230 | fInputFormat = other.fInputFormat; | |
e7c71df0 | 231 | fDatasetName = other.fDatasetName; |
c57f56b7 | 232 | fJDLName = other.fJDLName; |
bb885a9e | 233 | fMergeExcludes = other.fMergeExcludes; |
f965131e | 234 | fIncludePath = other.fIncludePath; |
bb885a9e | 235 | fCloseSE = other.fCloseSE; |
0df6ccf2 | 236 | fFriendChainName = other.fFriendChainName; |
c57f56b7 | 237 | if (other.fInputFiles) { |
238 | fInputFiles = new TObjArray(); | |
239 | TIter next(other.fInputFiles); | |
240 | TObject *obj; | |
241 | while ((obj=next())) fInputFiles->Add(new TObjString(obj->GetName())); | |
242 | fInputFiles->SetOwner(); | |
243 | } | |
4e5c5506 | 244 | if (other.fPackages) { |
245 | fPackages = new TObjArray(); | |
246 | TIter next(other.fPackages); | |
247 | TObject *obj; | |
248 | while ((obj=next())) fPackages->Add(new TObjString(obj->GetName())); | |
249 | fPackages->SetOwner(); | |
250 | } | |
c57f56b7 | 251 | } |
252 | return *this; | |
253 | } | |
254 | ||
f965131e | 255 | //______________________________________________________________________________ |
256 | void AliAnalysisAlien::AddIncludePath(const char *path) | |
257 | { | |
258 | // Add include path in the remote analysis macro. | |
259 | TString p(path); | |
260 | if (p.Contains("-I")) fIncludePath += Form("%s ", path); | |
261 | else fIncludePath += Form("-I%s ", path); | |
262 | } | |
263 | ||
c57f56b7 | 264 | //______________________________________________________________________________ |
265 | void AliAnalysisAlien::AddRunNumber(Int_t run) | |
266 | { | |
267 | // Add a run number to the list of runs to be processed. | |
268 | if (fRunNumbers.Length()) fRunNumbers += " "; | |
269 | fRunNumbers += Form("%d", run); | |
270 | } | |
271 | ||
272 | //______________________________________________________________________________ | |
273 | void AliAnalysisAlien::AddDataFile(const char *lfn) | |
274 | { | |
275 | // Adds a data file to the input to be analysed. The file should be a valid LFN | |
276 | // or point to an existing file in the alien workdir. | |
277 | if (!fInputFiles) fInputFiles = new TObjArray(); | |
278 | fInputFiles->Add(new TObjString(lfn)); | |
279 | } | |
280 | ||
281 | //______________________________________________________________________________ | |
282 | Bool_t AliAnalysisAlien::Connect() | |
283 | { | |
284 | // Try to connect to AliEn. User needs a valid token and /tmp/gclient_env_$UID sourced. | |
285 | if (gGrid && gGrid->IsConnected()) return kTRUE; | |
286 | if (!gSystem->Getenv("alien_API_USER")) { | |
287 | Error("Connect", "Make sure you:\n 1. Have called: alien-token-init <username> today\n 2. Have sourced /tmp/gclient_env_%s", | |
288 | gSystem->Getenv("UID")); | |
289 | return kFALSE; | |
290 | } | |
291 | if (!gGrid) { | |
292 | Info("Connect", "Trying to connect to AliEn ..."); | |
293 | TGrid::Connect("alien://"); | |
294 | } | |
295 | if (!gGrid || !gGrid->IsConnected()) { | |
296 | Error("Connect", "Did not managed to connect to AliEn. Make sure you have a valid token."); | |
297 | return kFALSE; | |
298 | } | |
299 | fUser = gGrid->GetUser(); | |
300 | Info("Connect", "\n##### Connected to AliEn as user %s. Setting analysis user to <%s>", fUser.Data(), fUser.Data()); | |
301 | return kTRUE; | |
302 | } | |
303 | ||
304 | //______________________________________________________________________________ | |
305 | void AliAnalysisAlien::CdWork() | |
306 | { | |
307 | // Check validity of alien workspace. Create directory if possible. | |
308 | if (!Connect()) { | |
309 | Error("CdWork", "Alien connection required"); | |
310 | return; | |
311 | } | |
312 | TString homedir = gGrid->GetHomeDirectory(); | |
313 | TString workdir = homedir + fGridWorkingDir; | |
314 | if (!gGrid->Cd(workdir)) { | |
315 | gGrid->Cd(homedir); | |
316 | if (gGrid->Mkdir(workdir)) { | |
317 | gGrid->Cd(fGridWorkingDir); | |
318 | Info("CreateJDL", "\n##### Created alien working directory %s", fGridWorkingDir.Data()); | |
319 | } else { | |
320 | Warning("CreateJDL", "Working directory %s cannot be created.\n Using %s instead.", | |
321 | workdir.Data(), homedir.Data()); | |
322 | fGridWorkingDir = ""; | |
323 | } | |
324 | } | |
325 | } | |
326 | ||
327 | //______________________________________________________________________________ | |
328 | Bool_t AliAnalysisAlien::CheckInputData() | |
329 | { | |
330 | // Check validity of input data. If necessary, create xml files. | |
a8739e8a | 331 | if (!fInputFiles && !fRunNumbers.Length() && !fRunRange[0]) { |
d2a409b2 | 332 | if (!fGridDataDir.Length()) { |
333 | Error("CkeckInputData", "AliEn path to base data directory must be set.\n = Use: SetGridDataDir()"); | |
334 | return kFALSE; | |
335 | } | |
336 | Info("CheckInputData", "Analysis will make a single xml for base data directory %s",fGridDataDir.Data()); | |
337 | return kTRUE; | |
c57f56b7 | 338 | } |
339 | // Process declared files | |
340 | Bool_t is_collection = kFALSE; | |
341 | Bool_t is_xml = kFALSE; | |
342 | Bool_t use_tags = kFALSE; | |
343 | Bool_t checked = kFALSE; | |
344 | CdWork(); | |
345 | TString file; | |
346 | TString workdir = gGrid->GetHomeDirectory(); | |
347 | workdir += fGridWorkingDir; | |
348 | if (fInputFiles) { | |
349 | TObjString *objstr; | |
350 | TIter next(fInputFiles); | |
351 | while ((objstr=(TObjString*)next())) { | |
352 | file = workdir; | |
353 | file += "/"; | |
354 | file += objstr->GetString(); | |
355 | // Store full lfn path | |
356 | if (FileExists(file)) objstr->SetString(file); | |
357 | else { | |
358 | file = objstr->GetName(); | |
359 | if (!FileExists(objstr->GetName())) { | |
360 | Error("CheckInputData", "Data file %s not found or not in your working dir: %s", | |
361 | objstr->GetName(), workdir.Data()); | |
362 | return kFALSE; | |
363 | } | |
364 | } | |
365 | Bool_t iscoll, isxml, usetags; | |
366 | CheckDataType(file, iscoll, isxml, usetags); | |
367 | if (!checked) { | |
368 | checked = kTRUE; | |
369 | is_collection = iscoll; | |
370 | is_xml = isxml; | |
371 | use_tags = usetags; | |
372 | TObject::SetBit(AliAnalysisGrid::kUseTags, use_tags); | |
373 | } else { | |
374 | if ((iscoll != is_collection) || (isxml != is_xml) || (usetags != use_tags)) { | |
375 | Error("CheckInputData", "Some conflict was found in the types of inputs"); | |
376 | return kFALSE; | |
377 | } | |
378 | } | |
379 | } | |
380 | } | |
381 | // Process requested run numbers | |
a8739e8a | 382 | if (!fRunNumbers.Length() && !fRunRange[0]) return kTRUE; |
c57f56b7 | 383 | // Check validity of alien data directory |
384 | if (!fGridDataDir.Length()) { | |
385 | Error("CkeckInputData", "AliEn path to base data directory must be set.\n = Use: SetGridDataDir()"); | |
386 | return kFALSE; | |
387 | } | |
388 | if (!gGrid->Cd(fGridDataDir)) { | |
389 | Error("CheckInputData", "Data directory %s not existing.", fGridDataDir.Data()); | |
390 | return kFALSE; | |
391 | } | |
392 | if (is_collection) { | |
393 | Error("CheckInputData", "You are using raw AliEn collections as input. Cannot process run numbers."); | |
394 | return kFALSE; | |
395 | } | |
396 | ||
397 | if (checked && !is_xml) { | |
398 | Error("CheckInputData", "Cannot mix processing of full runs with non-xml files"); | |
399 | return kFALSE; | |
400 | } | |
401 | // Check validity of run number(s) | |
402 | TObjArray *arr; | |
403 | TObjString *os; | |
319593fb | 404 | Int_t nruns = 0; |
405 | TString schunk; | |
c57f56b7 | 406 | TString path; |
407 | if (!checked) { | |
408 | checked = kTRUE; | |
409 | use_tags = fDataPattern.Contains("tag"); | |
410 | TObject::SetBit(AliAnalysisGrid::kUseTags, use_tags); | |
411 | } | |
412 | if (use_tags != fDataPattern.Contains("tag")) { | |
413 | Error("CheckInputData", "Cannot mix input files using/not using tags"); | |
414 | return kFALSE; | |
415 | } | |
416 | if (fRunNumbers.Length()) { | |
a8739e8a | 417 | Info("CheckDataType", "Using supplied run numbers (run ranges are ignored)"); |
c57f56b7 | 418 | arr = fRunNumbers.Tokenize(" "); |
419 | TIter next(arr); | |
420 | while ((os=(TObjString*)next())) { | |
421 | path = Form("%s/%s ", fGridDataDir.Data(), os->GetString().Data()); | |
422 | if (!gGrid->Cd(path)) { | |
a8739e8a | 423 | Warning("CheckInputData", "Run number %s not found in path: %s", os->GetString().Data(), path.Data()); |
424 | continue; | |
c57f56b7 | 425 | } |
426 | path = Form("%s/%s.xml", workdir.Data(),os->GetString().Data()); | |
427 | TString msg = "\n##### file: "; | |
428 | msg += path; | |
429 | msg += " type: xml_collection;"; | |
430 | if (use_tags) msg += " using_tags: Yes"; | |
431 | else msg += " using_tags: No"; | |
432 | Info("CheckDataType", msg.Data()); | |
319593fb | 433 | if (fNrunsPerMaster<2) { |
d2a409b2 | 434 | AddDataFile(Form("%s.xml", os->GetString().Data())); |
319593fb | 435 | } else { |
436 | nruns++; | |
437 | if (((nruns-1)%fNrunsPerMaster) == 0) { | |
438 | schunk = os->GetString(); | |
439 | } | |
440 | if ((nruns%fNrunsPerMaster)!=0 && os!=arr->Last()) continue; | |
441 | schunk += Form("_%s.xml", os->GetString().Data()); | |
d2a409b2 | 442 | AddDataFile(schunk); |
319593fb | 443 | } |
c57f56b7 | 444 | } |
445 | delete arr; | |
a8739e8a | 446 | } else { |
447 | Info("CheckDataType", "Using run range [%d, %d]", fRunRange[0], fRunRange[1]); | |
448 | for (Int_t irun=fRunRange[0]; irun<=fRunRange[1]; irun++) { | |
449 | path = Form("%s/%d ", fGridDataDir.Data(), irun); | |
450 | if (!gGrid->Cd(path)) { | |
451 | Warning("CheckInputData", "Run number %d not found in path: %s", irun, path.Data()); | |
452 | continue; | |
453 | } | |
454 | path = Form("%s/%d.xml", workdir.Data(),irun); | |
455 | TString msg = "\n##### file: "; | |
456 | msg += path; | |
457 | msg += " type: xml_collection;"; | |
458 | if (use_tags) msg += " using_tags: Yes"; | |
459 | else msg += " using_tags: No"; | |
460 | Info("CheckDataType", msg.Data()); | |
319593fb | 461 | if (fNrunsPerMaster<2) { |
d2a409b2 | 462 | AddDataFile(Form("%d.xml",irun)); |
319593fb | 463 | } else { |
464 | nruns++; | |
465 | if (((nruns-1)%fNrunsPerMaster) == 0) { | |
466 | schunk = Form("%d", irun); | |
467 | } | |
468 | if ((nruns%fNrunsPerMaster)!=0 && irun != fRunRange[1]) continue; | |
469 | schunk += Form("_%d.xml", irun); | |
d2a409b2 | 470 | AddDataFile(schunk); |
319593fb | 471 | } |
a8739e8a | 472 | } |
c57f56b7 | 473 | } |
474 | return kTRUE; | |
475 | } | |
476 | ||
477 | //______________________________________________________________________________ | |
478 | Bool_t AliAnalysisAlien::CreateDataset(const char *pattern) | |
479 | { | |
480 | // Create dataset for the grid data directory + run number. | |
481 | if (TestBit(AliAnalysisGrid::kOffline)) return kFALSE; | |
482 | if (!Connect()) { | |
483 | Error("CreateDataset", "Cannot create dataset with no grid connection"); | |
484 | return kFALSE; | |
485 | } | |
486 | ||
487 | // Cd workspace | |
488 | CdWork(); | |
489 | TString workdir = gGrid->GetHomeDirectory(); | |
490 | workdir += fGridWorkingDir; | |
491 | ||
492 | // Compose the 'find' command arguments | |
493 | TString command; | |
494 | TString options = "-x collection "; | |
bb885a9e | 495 | if (TestBit(AliAnalysisGrid::kTest)) options += Form("-l %d ", fNtestFiles); |
c57f56b7 | 496 | TString conditions = ""; |
497 | ||
498 | TString file; | |
499 | TString path; | |
319593fb | 500 | Int_t nruns = 0; |
501 | TString schunk; | |
ab254fd1 | 502 | TGridCollection *cbase=0, *cadd=0; |
d2a409b2 | 503 | if (!fRunNumbers.Length() && !fRunRange[0]) { |
504 | if (fInputFiles && fInputFiles->GetEntries()) return kTRUE; | |
505 | // Make a single data collection from data directory. | |
506 | path = fGridDataDir; | |
507 | if (!gGrid->Cd(path)) { | |
508 | Error("CreateDataset", "Path to data directory %s not valid",fGridDataDir.Data()); | |
509 | return kFALSE; | |
510 | } | |
511 | CdWork(); | |
512 | if (TestBit(AliAnalysisGrid::kTest)) file = "wn.xml"; | |
513 | else file = Form("%s.xml", gSystem->BaseName(path)); | |
514 | if (gSystem->AccessPathName(file)) { | |
515 | command = "find "; | |
516 | command += options; | |
517 | command += path; | |
518 | command += " "; | |
519 | command += pattern; | |
520 | command += conditions; | |
521 | printf("command: %s\n", command.Data()); | |
522 | TGridResult *res = gGrid->Command(command); | |
523 | if (res) delete res; | |
524 | // Write standard output to file | |
525 | gROOT->ProcessLine(Form("gGrid->Stdout(); > %s", file.Data())); | |
526 | } | |
527 | if (!TestBit(AliAnalysisGrid::kTest) && !FileExists(file)) { | |
528 | // Copy xml file to alien space | |
529 | TFile::Cp(Form("file:%s",file.Data()), Form("alien://%s/%s",workdir.Data(), file.Data())); | |
530 | if (!FileExists(file)) { | |
531 | Error("CreateDataset", "Command %s did NOT succeed", command.Data()); | |
532 | return kFALSE; | |
533 | } | |
534 | // Update list of files to be processed. | |
535 | } | |
536 | AddDataFile(Form("%s/%s", workdir.Data(), file.Data())); | |
537 | return kTRUE; | |
538 | } | |
c57f56b7 | 539 | // Several runs |
a8739e8a | 540 | if (fRunNumbers.Length()) { |
541 | TObjArray *arr = fRunNumbers.Tokenize(" "); | |
542 | TObjString *os; | |
543 | TIter next(arr); | |
544 | while ((os=(TObjString*)next())) { | |
545 | path = Form("%s/%s ", fGridDataDir.Data(), os->GetString().Data()); | |
673d4fb3 | 546 | if (!gGrid->Cd(path)) continue; |
95e5b448 | 547 | CdWork(); |
a8739e8a | 548 | if (TestBit(AliAnalysisGrid::kTest)) file = "wn.xml"; |
549 | else file = Form("%s.xml", os->GetString().Data()); | |
319593fb | 550 | // If local collection file does not exist, create it via 'find' command. |
551 | if (gSystem->AccessPathName(file)) { | |
552 | command = "find "; | |
553 | command += options; | |
554 | command += path; | |
555 | command += pattern; | |
556 | command += conditions; | |
557 | TGridResult *res = gGrid->Command(command); | |
558 | if (res) delete res; | |
559 | // Write standard output to file | |
560 | gROOT->ProcessLine(Form("gGrid->Stdout(); > %s", file.Data())); | |
561 | } | |
a8739e8a | 562 | if (TestBit(AliAnalysisGrid::kTest)) break; |
319593fb | 563 | // Check if there is one run per master job. |
564 | if (fNrunsPerMaster<2) { | |
565 | if (FileExists(file)) { | |
566 | Info("CreateDataset", "\n##### Dataset %s exist. Skipping creation...", file.Data()); | |
567 | continue; | |
568 | } | |
569 | // Copy xml file to alien space | |
570 | TFile::Cp(Form("file:%s",file.Data()), Form("alien://%s/%s",workdir.Data(), file.Data())); | |
571 | if (!FileExists(file)) { | |
572 | Error("CreateDataset", "Command %s did NOT succeed", command.Data()); | |
573 | delete arr; | |
574 | return kFALSE; | |
575 | } | |
576 | } else { | |
577 | nruns++; | |
578 | if (((nruns-1)%fNrunsPerMaster) == 0) { | |
579 | schunk = os->GetString(); | |
580 | cbase = (TGridCollection*)gROOT->ProcessLine(Form("new TAlienCollection(\"%s\", 1000000);",file.Data())); | |
581 | } else { | |
582 | cadd = (TGridCollection*)gROOT->ProcessLine(Form("new TAlienCollection(\"%s\", 1000000);",file.Data())); | |
583 | printf(" Merging collection <%s> into masterjob input...\n", file.Data()); | |
584 | cbase->Add(cadd); | |
585 | delete cadd; | |
586 | } | |
587 | if ((nruns%fNrunsPerMaster)!=0 && os!=arr->Last()) { | |
588 | continue; | |
589 | } | |
590 | schunk += Form("_%s.xml", os->GetString().Data()); | |
591 | if (FileExists(schunk)) { | |
592 | Info("CreateDataset", "\n##### Dataset %s exist. Skipping creation...", schunk.Data()); | |
593 | continue; | |
594 | } | |
595 | printf("Exporting merged collection <%s> and copying to AliEn.\n", schunk.Data()); | |
596 | cbase->ExportXML(Form("file://%s", schunk.Data()),kFALSE,kFALSE, schunk, "Merged runs"); | |
597 | TFile::Cp(Form("file:%s",file.Data()), Form("alien://%s/%s",workdir.Data(), file.Data())); | |
598 | if (!FileExists(schunk)) { | |
599 | Error("CreateDataset", "Copy command did NOT succeed for %s", schunk.Data()); | |
600 | delete arr; | |
601 | return kFALSE; | |
602 | } | |
603 | } | |
a8739e8a | 604 | } |
605 | delete arr; | |
606 | } else { | |
607 | // Process a full run range. | |
608 | for (Int_t irun=fRunRange[0]; irun<=fRunRange[1]; irun++) { | |
609 | path = Form("%s/%d ", fGridDataDir.Data(), irun); | |
673d4fb3 | 610 | if (!gGrid->Cd(path)) continue; |
95e5b448 | 611 | CdWork(); |
a8739e8a | 612 | if (TestBit(AliAnalysisGrid::kTest)) file = "wn.xml"; |
613 | else file = Form("%d.xml", irun); | |
319593fb | 614 | if (FileExists(file) && fNrunsPerMaster<2 && !TestBit(AliAnalysisGrid::kTest)) { |
a8739e8a | 615 | Info("CreateDataset", "\n##### Dataset %s exist. Skipping creation...", file.Data()); |
616 | // gGrid->Rm(file); | |
617 | continue; | |
618 | } | |
319593fb | 619 | // If local collection file does not exist, create it via 'find' command. |
620 | if (gSystem->AccessPathName(file)) { | |
621 | command = "find "; | |
622 | command += options; | |
623 | command += path; | |
624 | command += pattern; | |
625 | command += conditions; | |
626 | TGridResult *res = gGrid->Command(command); | |
627 | if (res) delete res; | |
628 | // Write standard output to file | |
629 | gROOT->ProcessLine(Form("gGrid->Stdout(); > %s", file.Data())); | |
630 | } | |
a8739e8a | 631 | if (TestBit(AliAnalysisGrid::kTest)) break; |
319593fb | 632 | // Check if there is one run per master job. |
633 | if (fNrunsPerMaster<2) { | |
634 | if (FileExists(file)) { | |
635 | Info("CreateDataset", "\n##### Dataset %s exist. Skipping creation...", file.Data()); | |
636 | continue; | |
637 | } | |
638 | // Copy xml file to alien space | |
639 | TFile::Cp(Form("file:%s",file.Data()), Form("alien://%s/%s",workdir.Data(), file.Data())); | |
640 | if (!FileExists(file)) { | |
641 | Error("CreateDataset", "Command %s did NOT succeed", command.Data()); | |
642 | return kFALSE; | |
643 | } | |
644 | } else { | |
645 | nruns++; | |
95e5b448 | 646 | // Check if the collection for the chunk exist locally. |
647 | Int_t nchunk = (nruns-1)/fNrunsPerMaster; | |
648 | if (FileExists(fInputFiles->At(nchunk)->GetName())) continue; | |
319593fb | 649 | printf(" Merging collection <%s> into %d runs chunk...\n",file.Data(),fNrunsPerMaster); |
650 | if (((nruns-1)%fNrunsPerMaster) == 0) { | |
651 | schunk = Form("%d", irun); | |
652 | cbase = (TGridCollection*)gROOT->ProcessLine(Form("new TAlienCollection(\"%s\", 1000000);",file.Data())); | |
653 | } else { | |
654 | cadd = (TGridCollection*)gROOT->ProcessLine(Form("new TAlienCollection(\"%s\", 1000000);",file.Data())); | |
655 | cbase->Add(cadd); | |
656 | delete cadd; | |
657 | } | |
658 | if ((nruns%fNrunsPerMaster)!=0 && irun!=fRunRange[1]) { | |
659 | continue; | |
660 | } | |
661 | schunk += Form("_%d.xml", irun); | |
662 | if (FileExists(schunk)) { | |
663 | Info("CreateDataset", "\n##### Dataset %s exist. Skipping creation...", schunk.Data()); | |
664 | continue; | |
665 | } | |
666 | printf("Exporting merged collection <%s> and copying to AliEn.\n", schunk.Data()); | |
667 | cbase->ExportXML(Form("file://%s", schunk.Data()),kFALSE,kFALSE, schunk, "Merged runs"); | |
95e5b448 | 668 | if (FileExists(schunk)) { |
669 | Info("CreateDataset", "\n##### Dataset %s exist. Skipping copy...", schunk.Data()); | |
670 | continue; | |
671 | } | |
319593fb | 672 | TFile::Cp(Form("file:%s",schunk.Data()), Form("alien://%s/%s",workdir.Data(), schunk.Data())); |
673 | if (!FileExists(schunk)) { | |
674 | Error("CreateDataset", "Copy command did NOT succeed for %s", schunk.Data()); | |
675 | return kFALSE; | |
676 | } | |
677 | } | |
c57f56b7 | 678 | } |
a8739e8a | 679 | } |
c57f56b7 | 680 | return kTRUE; |
681 | } | |
682 | ||
683 | //______________________________________________________________________________ | |
684 | Bool_t AliAnalysisAlien::CreateJDL() | |
685 | { | |
686 | // Generate a JDL file according to current settings. The name of the file is | |
687 | // specified by fJDLName. | |
688 | Bool_t error = kFALSE; | |
689 | TObjArray *arr = 0; | |
690 | Bool_t copy = kTRUE; | |
691 | if (TestBit(AliAnalysisGrid::kOffline) || TestBit(AliAnalysisGrid::kTest)) copy = kFALSE; | |
692 | Bool_t generate = kTRUE; | |
693 | if (TestBit(AliAnalysisGrid::kTest) || TestBit(AliAnalysisGrid::kSubmit)) generate = kFALSE; | |
694 | if (!Connect()) { | |
695 | Error("CreateJDL", "Alien connection required"); | |
696 | return kFALSE; | |
697 | } | |
698 | // Check validity of alien workspace | |
699 | CdWork(); | |
700 | TString workdir = gGrid->GetHomeDirectory(); | |
701 | workdir += fGridWorkingDir; | |
702 | if (generate) { | |
703 | TObjString *os; | |
704 | if (!fInputFiles) { | |
705 | Error("CreateJDL()", "Define some input files for your analysis."); | |
706 | error = kTRUE; | |
707 | } | |
708 | // Compose list of input files | |
709 | // Check if output files were defined | |
710 | if (!fOutputFiles.Length()) { | |
711 | Error("CreateJDL", "You must define at least one output file"); | |
712 | error = kTRUE; | |
713 | } | |
714 | // Check if an output directory was defined and valid | |
715 | if (!fGridOutputDir.Length()) { | |
716 | Error("CreateJDL", "You must define AliEn output directory"); | |
717 | error = kTRUE; | |
718 | } else { | |
d2a409b2 | 719 | if (!fGridOutputDir.Contains("/")) fGridOutputDir = Form("%s/%s", workdir.Data(), fGridOutputDir.Data()); |
c57f56b7 | 720 | if (!gGrid->Cd(fGridOutputDir)) { |
721 | if (gGrid->Mkdir(fGridOutputDir)) { | |
722 | Info("CreateJDL", "\n##### Created alien output directory %s", fGridOutputDir.Data()); | |
723 | } else { | |
724 | Error("CreateJDL", "Could not create alien output directory %s", fGridOutputDir.Data()); | |
5513444a | 725 | // error = kTRUE; |
c57f56b7 | 726 | } |
727 | } | |
728 | gGrid->Cd(workdir); | |
729 | } | |
730 | // Exit if any error up to now | |
731 | if (error) return kFALSE; | |
732 | // Set JDL fields | |
733 | fGridJDL->SetValue("User", Form("\"%s\"", fUser.Data())); | |
734 | fGridJDL->SetExecutable(fExecutable); | |
735 | // fGridJDL->SetTTL((UInt_t)fTTL); | |
736 | fGridJDL->SetValue("TTL", Form("\"%d\"", fTTL)); | |
737 | if (fMaxInitFailed > 0) | |
738 | fGridJDL->SetValue("MaxInitFailed", Form("\"%d\"",fMaxInitFailed)); | |
739 | if (fSplitMaxInputFileNumber > 0) | |
740 | fGridJDL->SetValue("SplitMaxInputFileNumber", Form("\"%d\"", fSplitMaxInputFileNumber)); | |
741 | if (fSplitMode.Length()) | |
742 | fGridJDL->SetValue("Split", Form("\"%s\"", fSplitMode.Data())); | |
743 | // fGridJDL->SetSplitMode(fSplitMode, (UInt_t)fSplitMaxInputFileNumber); | |
744 | if (fAliROOTVersion.Length()) | |
745 | fGridJDL->AddToPackages("AliRoot", fAliROOTVersion); | |
746 | if (fROOTVersion.Length()) | |
747 | fGridJDL->AddToPackages("ROOT", fROOTVersion); | |
748 | if (fAPIVersion.Length()) | |
749 | fGridJDL->AddToPackages("APISCONFIG", fAPIVersion); | |
750 | fGridJDL->SetInputDataListFormat(fInputFormat); | |
751 | fGridJDL->SetInputDataList("wn.xml"); | |
c57f56b7 | 752 | fGridJDL->AddToInputSandbox(Form("LF:%s/%s", workdir.Data(), fAnalysisMacro.Data())); |
753 | fGridJDL->AddToInputSandbox(Form("LF:%s/analysis.root", workdir.Data())); | |
754 | if (IsUsingTags() && !gSystem->AccessPathName("ConfigureCuts.C")) | |
755 | fGridJDL->AddToInputSandbox(Form("LF:%s/ConfigureCuts.C", workdir.Data())); | |
756 | if (fAdditionalLibs.Length()) { | |
757 | arr = fAdditionalLibs.Tokenize(" "); | |
758 | TIter next(arr); | |
759 | while ((os=(TObjString*)next())) { | |
760 | if (os->GetString().Contains(".so")) continue; | |
761 | fGridJDL->AddToInputSandbox(Form("LF:%s/%s", workdir.Data(), os->GetString().Data())); | |
762 | } | |
763 | delete arr; | |
764 | } | |
4e5c5506 | 765 | if (fPackages) { |
766 | TIter next(fPackages); | |
767 | TObject *obj; | |
768 | while ((obj=next())) | |
769 | fGridJDL->AddToInputSandbox(Form("LF:%s/%s", workdir.Data(), obj->GetName())); | |
770 | } | |
c57f56b7 | 771 | if (fOutputArchive.Length()) { |
772 | arr = fOutputArchive.Tokenize(" "); | |
773 | TIter next(arr); | |
774 | while ((os=(TObjString*)next())) | |
43da816a | 775 | if (!os->GetString().Contains("@") && fCloseSE.Length()) |
776 | fGridJDL->AddToOutputArchive(Form("%s@%s",os->GetString().Data(), fCloseSE.Data())); | |
777 | else | |
778 | fGridJDL->AddToOutputArchive(os->GetString()); | |
c57f56b7 | 779 | delete arr; |
780 | } | |
c57f56b7 | 781 | arr = fOutputFiles.Tokenize(" "); |
782 | TIter next(arr); | |
43da816a | 783 | while ((os=(TObjString*)next())) { |
784 | if (!os->GetString().Contains("@") && fCloseSE.Length()) | |
785 | fGridJDL->AddToOutputSandbox(Form("%s@%s",os->GetString().Data(), fCloseSE.Data())); | |
786 | else | |
787 | fGridJDL->AddToOutputSandbox(os->GetString()); | |
788 | } | |
c57f56b7 | 789 | delete arr; |
790 | // fGridJDL->SetPrice((UInt_t)fPrice); | |
791 | fGridJDL->SetValue("Price", Form("\"%d\"", fPrice)); | |
792 | fGridJDL->SetValidationCommand(Form("%s/validate.sh", workdir.Data())); | |
793 | if (fMasterResubmitThreshold) fGridJDL->SetValue("MasterResubmitThreshold", Form("\"%d%%\"", fMasterResubmitThreshold)); | |
d2a409b2 | 794 | // Write a jdl with 2 input parameters: collection name and output dir name. |
795 | WriteJDL(copy); | |
c57f56b7 | 796 | } |
797 | // Copy jdl to grid workspace | |
a8739e8a | 798 | if (copy) { |
c57f56b7 | 799 | if (fAdditionalLibs.Length()) { |
e7c71df0 | 800 | arr = fAdditionalLibs.Tokenize(" "); |
c57f56b7 | 801 | TObjString *os; |
802 | TIter next(arr); | |
803 | while ((os=(TObjString*)next())) { | |
c57f56b7 | 804 | if (os->GetString().Contains(".so")) continue; |
4e5c5506 | 805 | Info("CreateJDL", "\n##### Copying dependency: <%s> to your alien workspace", os->GetString().Data()); |
c57f56b7 | 806 | if (FileExists(os->GetString())) gGrid->Rm(os->GetString()); |
807 | TFile::Cp(Form("file:%s",os->GetString().Data()), Form("alien://%s/%s", workdir.Data(), os->GetString().Data())); | |
808 | } | |
809 | delete arr; | |
810 | } | |
4e5c5506 | 811 | if (fPackages) { |
812 | TIter next(fPackages); | |
813 | TObject *obj; | |
814 | while ((obj=next())) { | |
815 | Info("CreateJDL", "\n##### Copying dependency: <%s> to your alien workspace", obj->GetName()); | |
816 | TFile::Cp(Form("file:%s",obj->GetName()), Form("alien://%s/%s", workdir.Data(), obj->GetName())); | |
817 | } | |
818 | } | |
c57f56b7 | 819 | } |
820 | return kTRUE; | |
821 | } | |
822 | ||
a8739e8a | 823 | //______________________________________________________________________________ |
d2a409b2 | 824 | Bool_t AliAnalysisAlien::WriteJDL(Bool_t copy) |
a8739e8a | 825 | { |
826 | // Writes one or more JDL's corresponding to findex. If findex is negative, | |
827 | // all run numbers are considered in one go (jdl). For non-negative indices | |
828 | // they correspond to the indices in the array fInputFiles. | |
829 | if (!fInputFiles) return kFALSE; | |
830 | TObjString *os; | |
a8739e8a | 831 | TString workdir = gGrid->GetHomeDirectory(); |
832 | workdir += fGridWorkingDir; | |
d2a409b2 | 833 | |
834 | if (!fRunNumbers.Length() && !fRunRange[0]) { | |
835 | // One jdl with no parameters in case input data is specified by name. | |
a8739e8a | 836 | TIter next(fInputFiles); |
837 | while ((os=(TObjString*)next())) | |
838 | fGridJDL->AddToInputDataCollection(Form("LF:%s,nodownload", os->GetString().Data())); | |
d2a409b2 | 839 | fGridJDL->SetOutputDirectory(Form("%s/#alien_counter_03i#", fGridOutputDir.Data())); |
a8739e8a | 840 | } else { |
d2a409b2 | 841 | // One jdl to be submitted with 2 input parameters: data collection name and output dir prefix |
842 | fGridJDL->AddToInputDataCollection(Form("LF:%s/$1,nodownload", workdir.Data())); | |
843 | fGridJDL->SetOutputDirectory(Form("%s/$2#alien_counter_03i#", fGridOutputDir.Data())); | |
a8739e8a | 844 | } |
845 | ||
846 | ||
847 | // Generate the JDL as a string | |
848 | TString sjdl = fGridJDL->Generate(); | |
849 | Int_t index; | |
850 | index = sjdl.Index("Executable"); | |
851 | if (index >= 0) sjdl.Insert(index, "\n# This is the startup script\n"); | |
852 | index = sjdl.Index("Split "); | |
853 | if (index >= 0) sjdl.Insert(index, "\n# We split per storage element\n"); | |
854 | index = sjdl.Index("SplitMaxInputFileNumber"); | |
855 | if (index >= 0) sjdl.Insert(index, "\n# We want each subjob to get maximum this number of input files\n"); | |
856 | index = sjdl.Index("InputDataCollection"); | |
857 | if (index >= 0) sjdl.Insert(index, "# Input xml collections\n"); | |
a8739e8a | 858 | index = sjdl.Index("InputFile"); |
859 | if (index >= 0) sjdl.Insert(index, "\n# List of input files to be uploaded to wn's\n"); | |
860 | index = sjdl.Index("InputDataList "); | |
861 | if (index >= 0) sjdl.Insert(index, "\n# Collection to be processed on wn\n"); | |
862 | index = sjdl.Index("InputDataListFormat"); | |
863 | if (index >= 0) sjdl.Insert(index, "\n# Format of input data\n"); | |
864 | index = sjdl.Index("Price"); | |
865 | if (index >= 0) sjdl.Insert(index, "\n# AliEn price for this job\n"); | |
866 | index = sjdl.Index("Requirements"); | |
867 | if (index >= 0) sjdl.Insert(index, "\n# Additional requirements for the computing element\n"); | |
868 | index = sjdl.Index("Packages"); | |
869 | if (index >= 0) sjdl.Insert(index, "\n# Packages to be used\n"); | |
870 | index = sjdl.Index("User ="); | |
871 | if (index >= 0) sjdl.Insert(index, "\n# AliEn user\n"); | |
872 | index = sjdl.Index("TTL"); | |
873 | if (index >= 0) sjdl.Insert(index, "\n# Time to live for the job\n"); | |
874 | index = sjdl.Index("OutputFile"); | |
875 | if (index >= 0) sjdl.Insert(index, "\n# List of output files to be registered\n"); | |
876 | index = sjdl.Index("OutputDir"); | |
877 | if (index >= 0) sjdl.Insert(index, "\n# Output directory\n"); | |
878 | index = sjdl.Index("OutputArchive"); | |
879 | if (index >= 0) sjdl.Insert(index, "\n# Files to be archived\n"); | |
880 | index = sjdl.Index("MaxInitFailed"); | |
881 | if (index >= 0) sjdl.Insert(index, "\n# Maximum number of first failing jobs to abort the master job\n"); | |
882 | index = sjdl.Index("MasterResubmitThreshold"); | |
883 | if (index >= 0) sjdl.Insert(index, "\n# Resubmit failed jobs until DONE rate reaches this percentage\n"); | |
884 | sjdl.ReplaceAll("ValidationCommand", "Validationcommand"); | |
885 | index = sjdl.Index("Validationcommand"); | |
886 | if (index >= 0) sjdl.Insert(index, "\n# Validation script to be run for each subjob\n"); | |
887 | sjdl.ReplaceAll("\"LF:", "\n \"LF:"); | |
888 | sjdl.ReplaceAll("(member", "\n (member"); | |
889 | sjdl.ReplaceAll("\",\"VO_", "\",\n \"VO_"); | |
890 | sjdl.ReplaceAll("{", "{\n "); | |
891 | sjdl.ReplaceAll("};", "\n};"); | |
892 | sjdl.ReplaceAll("{\n \n", "{\n"); | |
893 | sjdl.ReplaceAll("\n\n", "\n"); | |
894 | sjdl.ReplaceAll("OutputDirectory", "OutputDir"); | |
895 | sjdl += "JDLVariables = \n{\n \"Packages\",\n \"OutputDir\"\n};\n"; | |
896 | sjdl.Prepend("JobTag = \"Automatically generated analysis JDL\";\n"); | |
897 | index = sjdl.Index("JDLVariables"); | |
898 | if (index >= 0) sjdl.Insert(index, "\n# JDL variables\n"); | |
899 | // Write jdl to file | |
a8739e8a | 900 | ofstream out; |
d2a409b2 | 901 | out.open(fJDLName.Data(), ios::out); |
a8739e8a | 902 | if (out.bad()) { |
d2a409b2 | 903 | Error("CreateJDL", "Bad file name: %s", fJDLName.Data()); |
a8739e8a | 904 | return kFALSE; |
905 | } | |
906 | out << sjdl << endl; | |
907 | ||
908 | // Copy jdl to grid workspace | |
909 | if (!copy) { | |
910 | Info("CreateJDL", "\n##### You may want to review jdl:%s and analysis macro:%s before running in <submit> mode", fJDLName.Data(), fAnalysisMacro.Data()); | |
911 | } else { | |
d2a409b2 | 912 | Info("CreateJDL", "\n##### Copying JDL file <%s> to your AliEn output directory", fJDLName.Data()); |
913 | TString locjdl = Form("%s/%s", fGridOutputDir.Data(),fJDLName.Data()); | |
5513444a | 914 | if (TObject::TestBit(AliAnalysisGrid::kProductionMode)) |
b5fe9cba | 915 | locjdl = Form("%s/%s", workdir.Data(),fJDLName.Data()); |
d2a409b2 | 916 | if (FileExists(locjdl)) gGrid->Rm(locjdl); |
5513444a | 917 | TFile::Cp(Form("file:%s",fJDLName.Data()), Form("alien://%s", locjdl.Data())); |
a8739e8a | 918 | } |
919 | return kTRUE; | |
920 | } | |
921 | ||
c57f56b7 | 922 | //______________________________________________________________________________ |
5513444a | 923 | Bool_t AliAnalysisAlien::FileExists(const char *lfn) |
c57f56b7 | 924 | { |
925 | // Returns true if file exists. | |
5513444a | 926 | if (!gGrid) return kFALSE; |
c57f56b7 | 927 | TGridResult *res = gGrid->Ls(lfn); |
928 | if (!res) return kFALSE; | |
929 | TMap *map = dynamic_cast<TMap*>(res->At(0)); | |
930 | if (!map) { | |
931 | delete res; | |
932 | return kFALSE; | |
933 | } | |
934 | TObjString *objs = dynamic_cast<TObjString*>(map->GetValue("name")); | |
935 | if (!objs || !objs->GetString().Length()) { | |
936 | delete res; | |
937 | return kFALSE; | |
938 | } | |
939 | delete res; | |
940 | return kTRUE; | |
941 | } | |
942 | ||
943 | //______________________________________________________________________________ | |
944 | void AliAnalysisAlien::CheckDataType(const char *lfn, Bool_t &is_collection, Bool_t &is_xml, Bool_t &use_tags) | |
945 | { | |
946 | // Check input data type. | |
947 | is_collection = kFALSE; | |
948 | is_xml = kFALSE; | |
949 | use_tags = kFALSE; | |
950 | if (!gGrid) { | |
951 | Error("CheckDataType", "No connection to grid"); | |
952 | return; | |
953 | } | |
954 | is_collection = IsCollection(lfn); | |
955 | TString msg = "\n##### file: "; | |
956 | msg += lfn; | |
957 | if (is_collection) { | |
958 | msg += " type: raw_collection;"; | |
959 | // special treatment for collections | |
960 | is_xml = kFALSE; | |
961 | // check for tag files in the collection | |
962 | TGridResult *res = gGrid->Command(Form("listFilesFromCollection -z -v %s",lfn), kFALSE); | |
963 | if (!res) { | |
964 | msg += " using_tags: No (unknown)"; | |
965 | Info("CheckDataType", msg.Data()); | |
966 | return; | |
967 | } | |
968 | const char* typeStr = res->GetKey(0, "origLFN"); | |
969 | if (!typeStr || !strlen(typeStr)) { | |
970 | msg += " using_tags: No (unknown)"; | |
971 | Info("CheckDataType", msg.Data()); | |
972 | return; | |
973 | } | |
974 | TString file = typeStr; | |
975 | use_tags = file.Contains(".tag"); | |
976 | if (use_tags) msg += " using_tags: Yes"; | |
977 | else msg += " using_tags: No"; | |
978 | Info("CheckDataType", msg.Data()); | |
979 | return; | |
980 | } | |
981 | TString slfn(lfn); | |
982 | slfn.ToLower(); | |
983 | is_xml = slfn.Contains(".xml"); | |
984 | if (is_xml) { | |
985 | // Open xml collection and check if there are tag files inside | |
986 | msg += " type: xml_collection;"; | |
987 | TGridCollection *coll = (TGridCollection*)gROOT->ProcessLine(Form("TAlienCollection::Open(\"alien://%s\",1);",lfn)); | |
988 | if (!coll) { | |
989 | msg += " using_tags: No (unknown)"; | |
990 | Info("CheckDataType", msg.Data()); | |
991 | return; | |
992 | } | |
993 | TMap *map = coll->Next(); | |
994 | if (!map) { | |
995 | msg += " using_tags: No (unknown)"; | |
996 | Info("CheckDataType", msg.Data()); | |
997 | return; | |
998 | } | |
999 | map = (TMap*)map->GetValue(""); | |
1000 | TString file; | |
1001 | if (map && map->GetValue("name")) file = map->GetValue("name")->GetName(); | |
1002 | use_tags = file.Contains(".tag"); | |
1003 | delete coll; | |
1004 | if (use_tags) msg += " using_tags: Yes"; | |
1005 | else msg += " using_tags: No"; | |
1006 | Info("CheckDataType", msg.Data()); | |
1007 | return; | |
1008 | } | |
1009 | use_tags = slfn.Contains(".tag"); | |
1010 | if (slfn.Contains(".root")) msg += " type: root file;"; | |
1011 | else msg += " type: unhnown file;"; | |
1012 | if (use_tags) msg += " using_tags: Yes"; | |
1013 | else msg += " using_tags: No"; | |
1014 | Info("CheckDataType", msg.Data()); | |
1015 | } | |
1016 | ||
4e5c5506 | 1017 | //______________________________________________________________________________ |
1018 | void AliAnalysisAlien::EnablePackage(const char *package) | |
1019 | { | |
1020 | // Enables a par file supposed to exist in the current directory. | |
1021 | TString pkg(package); | |
1022 | pkg.ReplaceAll(".par", ""); | |
1023 | pkg += ".par"; | |
1024 | if (gSystem->AccessPathName(pkg)) { | |
1025 | Error("EnablePackage", "Package %s not found", pkg.Data()); | |
1026 | return; | |
1027 | } | |
1028 | if (!TObject::TestBit(AliAnalysisGrid::kUsePars)) | |
1029 | Info("EnablePackage", "AliEn plugin will use .par packages"); | |
1030 | TObject::SetBit(AliAnalysisGrid::kUsePars, kTRUE); | |
1031 | if (!fPackages) { | |
1032 | fPackages = new TObjArray(); | |
1033 | fPackages->SetOwner(); | |
1034 | } | |
1035 | fPackages->Add(new TObjString(pkg)); | |
1036 | } | |
1037 | ||
d2a409b2 | 1038 | //______________________________________________________________________________ |
1039 | const char *AliAnalysisAlien::GetJobStatus(Int_t jobidstart, Int_t lastid, Int_t &nrunning, Int_t &nwaiting, Int_t &nerror, Int_t &ndone) | |
1040 | { | |
1041 | // Get job status for all jobs with jobid>jobidstart. | |
1042 | static char mstatus[20]; | |
1043 | mstatus[0] = '\0'; | |
1044 | nrunning = 0; | |
1045 | nwaiting = 0; | |
1046 | nerror = 0; | |
1047 | ndone = 0; | |
1048 | TGridJobStatusList *list = gGrid->Ps(""); | |
1049 | if (!list) return mstatus; | |
1050 | Int_t nentries = list->GetSize(); | |
1051 | TGridJobStatus *status; | |
1052 | Int_t pid; | |
1053 | for (Int_t ijob=0; ijob<nentries; ijob++) { | |
1054 | status = (TGridJobStatus *)list->At(ijob); | |
1055 | pid = gROOT->ProcessLine(Form("atoi(((TAlienJobStatus*)0x%lx)->GetKey(\"queueId\"));", (ULong_t)status)); | |
1056 | if (pid<jobidstart) continue; | |
1057 | if (pid == lastid) { | |
1058 | gROOT->ProcessLine(Form("sprintf((char*)0x%lx,((TAlienJobStatus*)0x%lx)->GetKey(\"status\"));",(ULong_t)mstatus, (ULong_t)status)); | |
1059 | } | |
1060 | switch (status->GetStatus()) { | |
1061 | case TGridJobStatus::kWAITING: | |
1062 | nwaiting++; break; | |
1063 | case TGridJobStatus::kRUNNING: | |
1064 | nrunning++; break; | |
1065 | case TGridJobStatus::kABORTED: | |
1066 | case TGridJobStatus::kFAIL: | |
1067 | case TGridJobStatus::kUNKNOWN: | |
1068 | nerror++; break; | |
1069 | case TGridJobStatus::kDONE: | |
1070 | ndone++; | |
1071 | } | |
1072 | } | |
1073 | list->Delete(); | |
1074 | delete list; | |
1075 | return mstatus; | |
1076 | } | |
1077 | ||
c57f56b7 | 1078 | //______________________________________________________________________________ |
1079 | Bool_t AliAnalysisAlien::IsCollection(const char *lfn) const | |
1080 | { | |
1081 | // Returns true if file is a collection. Functionality duplicated from | |
1082 | // TAlien::Type() because we don't want to directly depend on TAlien. | |
1083 | if (!gGrid) { | |
1084 | Error("IsCollection", "No connection to grid"); | |
1085 | return kFALSE; | |
1086 | } | |
1087 | TGridResult *res = gGrid->Command(Form("type -z %s",lfn),kFALSE); | |
1088 | if (!res) return kFALSE; | |
1089 | const char* typeStr = res->GetKey(0, "type"); | |
1090 | if (!typeStr || !strlen(typeStr)) return kFALSE; | |
1091 | if (!strcmp(typeStr, "collection")) return kTRUE; | |
1092 | delete res; | |
1093 | return kFALSE; | |
1094 | } | |
1095 | ||
16a4353c | 1096 | //______________________________________________________________________________ |
1097 | void AliAnalysisAlien::Print(Option_t *) const | |
1098 | { | |
1099 | // Print current plugin settings. | |
1100 | printf("### AliEn analysis plugin current settings ###\n"); | |
1101 | printf("= Version of API requested: ____________________ %s\n", fAPIVersion.Data()); | |
1102 | printf("= Version of ROOT requested: ___________________ %s\n", fROOTVersion.Data()); | |
1103 | printf("= Version of AliRoot requested: ________________ %s\n", fAliROOTVersion.Data()); | |
1104 | if (fUser.Length()) | |
1105 | printf("= User running the plugin: _____________________ %s\n", fUser.Data()); | |
1106 | printf("= Grid workdir relative to user $HOME: _________ %s\n", fGridWorkingDir.Data()); | |
1107 | printf("= Grid output directory relative to workdir: ___ %s\n", fGridOutputDir.Data()); | |
1108 | printf("= Data base directory path requested: __________ %s\n", fGridDataDir.Data()); | |
1109 | printf("= Data search pattern: _________________________ %s\n", fDataPattern.Data()); | |
1110 | printf("= Input data format: ___________________________ %s\n", fInputFormat.Data()); | |
1111 | if (fRunNumbers.Length()) | |
1112 | printf("= Run numbers to be processed: _________________ %s\n", fRunNumbers.Data()); | |
1113 | if (fRunRange[0]) | |
1114 | printf("= Run range to be processed: ___________________ %d-%d\n", fRunRange[0], fRunRange[1]); | |
1115 | if (!fRunRange[0] && !fRunNumbers.Length()) { | |
1116 | TIter next(fInputFiles); | |
1117 | TObject *obj; | |
1118 | TString list; | |
1119 | while ((obj=next())) list += obj->GetName(); | |
1120 | printf("= Input files to be processed: _________________ %s\n", list.Data()); | |
1121 | } | |
1122 | if (TestBit(AliAnalysisGrid::kTest)) | |
1123 | printf("= Number of input files used in test mode: _____ %d\n", fNtestFiles); | |
1124 | printf("= List of output files to be registered: _______ %s\n", fOutputFiles.Data()); | |
1125 | printf("= List of outputs going to be archived: ________ %s\n", fOutputArchive.Data()); | |
1126 | printf("= List of outputs that should not be merged: ___ %s\n", fMergeExcludes.Data()); | |
1127 | printf("=====================================================================\n"); | |
1128 | printf("= Job price: ___________________________________ %d\n", fPrice); | |
1129 | printf("= Time to live (TTL): __________________________ %d\n", fTTL); | |
1130 | printf("= Max files per subjob: ________________________ %d\n", fSplitMaxInputFileNumber); | |
1131 | if (fMaxInitFailed>0) | |
1132 | printf("= Max number of subjob fails to kill: __________ %d\n", fMaxInitFailed); | |
1133 | if (fMasterResubmitThreshold>0) | |
1134 | printf("= Resubmit master job if failed subjobs >_______ %d\n", fMasterResubmitThreshold); | |
319593fb | 1135 | if (fNrunsPerMaster>0) |
1136 | printf("= Number of runs per master job: _______________ %d\n", fNrunsPerMaster); | |
16a4353c | 1137 | printf("= Number of files in one chunk to be merged: ___ %d\n", fMaxMergeFiles); |
1138 | printf("= Name of the generated execution script: ______ %s\n",fExecutable.Data()); | |
1139 | if (fArguments.Length()) | |
1140 | printf("= Arguments for the execution script: __________ %s\n",fArguments.Data()); | |
1141 | printf("= Name of the generated analysis macro: ________ %s\n",fAnalysisMacro.Data()); | |
1142 | printf("= User analysis files to be deployed: __________ %s\n",fAnalysisSource.Data()); | |
1143 | printf("= Additional libs to be loaded or souces to be compiled runtime: <%s>\n",fAdditionalLibs.Data()); | |
1144 | printf("= Master jobs split mode: ______________________ %s\n",fSplitMode.Data()); | |
1145 | if (fDatasetName) | |
1146 | printf("= Custom name for the dataset to be created: ___ %s\n", fDatasetName.Data()); | |
1147 | printf("= Name of the generated JDL: ___________________ %s\n", fJDLName.Data()); | |
1148 | if (fIncludePath.Data()) | |
1149 | printf("= Include path for runtime task compilation: ___ %s\n", fIncludePath.Data()); | |
1150 | if (fCloseSE.Length()) | |
1151 | printf("= Force job outputs to storage element: ________ %s\n", fCloseSE.Data()); | |
1152 | if (fFriendChainName.Length()) | |
1153 | printf("= Open friend chain file on worker: ____________ %s\n", fFriendChainName.Data()); | |
1154 | if (fPackages) { | |
1155 | TIter next(fPackages); | |
1156 | TObject *obj; | |
1157 | TString list; | |
1158 | while ((obj=next())) list += obj->GetName(); | |
1159 | printf("= Par files to be used: ________________________ %s\n", list.Data()); | |
1160 | } | |
1161 | } | |
1162 | ||
c57f56b7 | 1163 | //______________________________________________________________________________ |
1164 | void AliAnalysisAlien::SetDefaults() | |
1165 | { | |
1166 | // Set default values for everything. What cannot be filled will be left empty. | |
1167 | if (fGridJDL) delete fGridJDL; | |
1168 | fGridJDL = (TGridJDL*)gROOT->ProcessLine("new TAlienJDL()"); | |
1169 | fPrice = 1; | |
1170 | fTTL = 30000; | |
1171 | fSplitMaxInputFileNumber = 100; | |
1172 | fMaxInitFailed = 0; | |
1173 | fMasterResubmitThreshold = 0; | |
bb885a9e | 1174 | fNtestFiles = 10; |
a8739e8a | 1175 | fRunRange[0] = 0; |
1176 | fRunRange[1] = 0; | |
319593fb | 1177 | fNrunsPerMaster = 1; |
16a4353c | 1178 | fMaxMergeFiles = 100; |
c57f56b7 | 1179 | fRunNumbers = ""; |
1180 | fExecutable = "analysis.sh"; | |
1181 | fArguments = ""; | |
1182 | fAnalysisMacro = "myAnalysis.C"; | |
1183 | fAnalysisSource = ""; | |
1184 | fAdditionalLibs = ""; | |
1185 | fSplitMode = "se"; | |
1186 | fAPIVersion = ""; | |
1187 | fROOTVersion = ""; | |
1188 | fAliROOTVersion = ""; | |
1189 | fUser = ""; // Your alien user name | |
1190 | fGridWorkingDir = ""; | |
1191 | fGridDataDir = ""; // Can be like: /alice/sim/PDC_08a/LHC08c9/ | |
1192 | fDataPattern = "*AliESDs.root"; // Can be like: *AliESDs.root, */pass1/*AliESDs.root, ... | |
0df6ccf2 | 1193 | fFriendChainName = ""; |
c57f56b7 | 1194 | fGridOutputDir = "output"; |
1195 | fOutputArchive = "log_archive.zip:stdout,stderr root_archive.zip:*.root"; | |
1196 | fOutputFiles = ""; // Like "AliAODs.root histos.root" | |
1197 | fInputFormat = "xml-single"; | |
1198 | fJDLName = "analysis.jdl"; | |
bb885a9e | 1199 | fMergeExcludes = ""; |
c57f56b7 | 1200 | } |
1201 | ||
1202 | //______________________________________________________________________________ | |
1203 | Bool_t AliAnalysisAlien::MergeOutputs() | |
1204 | { | |
1205 | // Merge analysis outputs existing in the AliEn space. | |
1206 | if (TestBit(AliAnalysisGrid::kTest)) return kTRUE; | |
1207 | if (TestBit(AliAnalysisGrid::kOffline)) return kFALSE; | |
1208 | if (!Connect()) { | |
1209 | Error("MergeOutputs", "Cannot merge outputs without grid connection. Terminate will NOT be executed"); | |
1210 | return kFALSE; | |
1211 | } | |
1212 | // Get the output path | |
d2a409b2 | 1213 | if (!fGridOutputDir.Contains("/")) fGridOutputDir = Form("/%s/%s/%s", gGrid->GetHomeDirectory(), fGridWorkingDir.Data(), fGridOutputDir.Data()); |
1214 | if (!gGrid->Cd(fGridOutputDir)) { | |
c57f56b7 | 1215 | Error("MergeOutputs", "Grid output directory %s not found. Terminate() will NOT be executed", fGridOutputDir.Data()); |
1216 | return kFALSE; | |
1217 | } | |
1218 | if (!fOutputFiles.Length()) { | |
1219 | Error("MergeOutputs", "No output file names defined. Are you running the right AliAnalysisAlien configuration ?"); | |
1220 | return kFALSE; | |
1221 | } | |
1222 | TObjArray *list = fOutputFiles.Tokenize(" "); | |
1223 | TIter next(list); | |
1224 | TObjString *str; | |
1225 | TString command; | |
1226 | TString output_file; | |
16a4353c | 1227 | TString output_chunk; |
1228 | TString previous_chunk; | |
1229 | Int_t count_chunk = 0; | |
1230 | Int_t count_zero = fMaxMergeFiles; | |
c57f56b7 | 1231 | Bool_t merged = kTRUE; |
1232 | while((str=(TObjString*)next())) { | |
1233 | output_file = str->GetString(); | |
1234 | Int_t index = output_file.Index("@"); | |
1235 | if (index > 0) output_file.Remove(index); | |
319593fb | 1236 | // Skip already merged outputs |
1237 | if (!gSystem->AccessPathName(output_file)) { | |
1238 | Info("MergeOutputs", "Output file <%s> found. Not merging again.", output_file.Data()); | |
1239 | continue; | |
1240 | } | |
bb885a9e | 1241 | if (fMergeExcludes.Length() && |
1242 | fMergeExcludes.Contains(output_file.Data())) continue; | |
16a4353c | 1243 | // Perform a 'find' command in the output directory, looking for registered outputs |
d2a409b2 | 1244 | command = Form("find %s/ *%s", fGridOutputDir.Data(), output_file.Data()); |
c57f56b7 | 1245 | printf("command: %s\n", command.Data()); |
1246 | TGridResult *res = gGrid->Command(command); | |
1247 | if (!res) continue; | |
1248 | TFileMerger *fm = 0; | |
1249 | TIter nextmap(res); | |
ab254fd1 | 1250 | TMap *map = 0; |
16a4353c | 1251 | previous_chunk = ""; |
1252 | count_chunk = 0; | |
319593fb | 1253 | // Check if there is a merge operation to resume |
1254 | output_chunk = output_file; | |
1255 | output_chunk.ReplaceAll(".root", "_*.root"); | |
1256 | if (!gSystem->Exec(Form("ls %s", output_chunk.Data()))) { | |
1257 | while (1) { | |
1258 | for (Int_t counter=0; counter<fMaxMergeFiles; counter++) map = (TMap*)nextmap(); | |
1259 | if (!map) { | |
1260 | Error("MergeOutputs", "Cannot resume merging for <%s>, nentries=%d", output_file.Data(), res->GetSize()); | |
1261 | delete res; | |
1262 | return kFALSE; | |
1263 | } | |
1264 | output_chunk = output_file; | |
1265 | output_chunk.ReplaceAll(".root", Form("_%04d.root", count_chunk)); | |
1266 | printf("%s\n", output_chunk.Data()); | |
1267 | count_chunk++; | |
1268 | if (gSystem->AccessPathName(output_chunk)) continue; | |
1269 | // Merged file with chunks up to <count_chunk> found | |
1270 | printf("Resume merging of <%s> from <%s>\n", output_file.Data(), output_chunk.Data()); | |
1271 | previous_chunk = output_chunk; | |
1272 | break; | |
1273 | } | |
1274 | } | |
16a4353c | 1275 | count_zero = fMaxMergeFiles; |
c57f56b7 | 1276 | while ((map=(TMap*)nextmap())) { |
16a4353c | 1277 | // Loop 'find' results and get next LFN |
1278 | if (count_zero == fMaxMergeFiles) { | |
1279 | // First file in chunk - create file merger and add previous chunk if any. | |
1280 | fm = new TFileMerger(kFALSE); | |
1281 | fm->SetFastMethod(kTRUE); | |
1282 | if (previous_chunk.Length()) fm->AddFile(previous_chunk.Data()); | |
1283 | output_chunk = output_file; | |
1284 | output_chunk.ReplaceAll(".root", Form("_%04d.root", count_chunk)); | |
1285 | } | |
1286 | // If last file found, put merged results in the output file | |
1287 | if (map == res->Last()) output_chunk = output_file; | |
c57f56b7 | 1288 | TObjString *objs = dynamic_cast<TObjString*>(map->GetValue("turl")); |
1289 | if (!objs || !objs->GetString().Length()) { | |
16a4353c | 1290 | // Nothing found - skip this output |
c57f56b7 | 1291 | delete res; |
16a4353c | 1292 | delete fm; |
1293 | break; | |
1294 | } | |
1295 | // Add file to be merged and decrement chunk counter. | |
1296 | fm->AddFile(objs->GetString()); | |
1297 | count_zero--; | |
1298 | if (count_zero==0 || map == res->Last()) { | |
1299 | fm->OutputFile(output_chunk); | |
1300 | if (!fm->GetMergeList() || !fm->GetMergeList()->GetSize()) { | |
1301 | // Nothing found - skip this output | |
1302 | Warning("MergeOutputs", "No <%s> files found.", output_file.Data()); | |
1303 | delete res; | |
1304 | delete fm; | |
1305 | break; | |
1306 | } | |
1307 | // Merge the outputs, then go to next chunk | |
1308 | if (!fm->Merge()) { | |
1309 | Error("MergeOutputs", "Could not merge all <%s> files", output_file.Data()); | |
1310 | delete res; | |
1311 | delete fm; | |
1312 | merged = kFALSE; | |
1313 | break; | |
1314 | } else { | |
1315 | Info("MergeOutputs", "\n##### Merged %d output files to <%s>", fm->GetMergeList()->GetSize(), output_chunk.Data()); | |
319593fb | 1316 | gSystem->Unlink(previous_chunk); |
16a4353c | 1317 | } |
1318 | if (map == res->Last()) { | |
1319 | delete res; | |
1320 | delete fm; | |
1321 | break; | |
1322 | } | |
1323 | count_chunk++; | |
1324 | count_zero = fMaxMergeFiles; | |
1325 | previous_chunk = output_chunk; | |
c57f56b7 | 1326 | } |
c57f56b7 | 1327 | } |
c57f56b7 | 1328 | } |
1329 | if (!merged) { | |
1330 | Error("MergeOutputs", "Terminate() will NOT be executed"); | |
1331 | } | |
1332 | return merged; | |
1333 | } | |
1334 | ||
bb885a9e | 1335 | //______________________________________________________________________________ |
1336 | void AliAnalysisAlien::SetDefaultOutputs(Bool_t flag) | |
1337 | { | |
1338 | // Use the output files connected to output containers from the analysis manager | |
1339 | // rather than the files defined by SetOutputFiles | |
1340 | if (flag && !TObject::TestBit(AliAnalysisGrid::kDefaultOutputs)) | |
1341 | Info("SetDefaultOutputs", "Plugin will use the output files taken from \ | |
1342 | analysis manager"); | |
1343 | TObject::SetBit(AliAnalysisGrid::kDefaultOutputs, flag); | |
1344 | } | |
1345 | ||
c57f56b7 | 1346 | //______________________________________________________________________________ |
5513444a | 1347 | void AliAnalysisAlien::SetProductionMode(Bool_t flag) |
1348 | { | |
1349 | // If production mode is set, all required files are produced and copied to | |
1350 | // AliEn but the master jobs are not submitted. A file .prod containing all | |
1351 | // submit parameters is copied to the work directory. | |
1352 | if (flag && !TObject::TestBit(AliAnalysisGrid::kProductionMode)) | |
1353 | Info("SetProductionMode", "Plugin in production mode. Jobs are not submitted."); | |
1354 | TObject::SetBit(AliAnalysisGrid::kProductionMode, flag); | |
1355 | } | |
1356 | ||
1357 | //______________________________________________________________________________ | |
1358 | Bool_t AliAnalysisAlien::StartAnalysis(Long64_t /*nentries*/, Long64_t /*firstEntry*/) | |
c57f56b7 | 1359 | { |
1360 | // Start remote grid analysis. | |
1361 | ||
43da816a | 1362 | // Check if output files have to be taken from the analysis manager |
1363 | if (TestBit(AliAnalysisGrid::kDefaultOutputs)) { | |
1364 | AliAnalysisManager *mgr = AliAnalysisManager::GetAnalysisManager(); | |
1365 | if (!mgr || !mgr->IsInitialized()) { | |
1366 | Error("StartAnalysis", "You need an initialized analysis manager for this"); | |
5513444a | 1367 | return kFALSE; |
43da816a | 1368 | } |
1369 | fOutputFiles = ""; | |
1370 | TIter next(mgr->GetOutputs()); | |
1371 | AliAnalysisDataContainer *output; | |
1372 | while ((output=(AliAnalysisDataContainer*)next())) { | |
1373 | const char *filename = output->GetFileName(); | |
1374 | if (!(strcmp(filename, "default"))) { | |
1375 | if (!mgr->GetOutputEventHandler()) continue; | |
1376 | filename = mgr->GetOutputEventHandler()->GetOutputFileName(); | |
1377 | } | |
1378 | if (fOutputFiles.Length()) fOutputFiles += " "; | |
1379 | fOutputFiles += filename; | |
1380 | } | |
c07b9ce2 | 1381 | // Add extra files registered to the analysis manager |
1382 | if (mgr->GetExtraFiles().Length()) { | |
1383 | if (fOutputFiles.Length()) fOutputFiles += " "; | |
1384 | fOutputFiles += mgr->GetExtraFiles(); | |
1385 | } | |
43da816a | 1386 | } |
f7b1cbc2 | 1387 | // if (!fCloseSE.Length()) fCloseSE = gSystem->Getenv("alien_CLOSE_SE"); |
c57f56b7 | 1388 | if (TestBit(AliAnalysisGrid::kOffline)) { |
1389 | Info("StartAnalysis","\n##### OFFLINE MODE ##### Files to be used in GRID are produced but not copied \ | |
1390 | \n there nor any job run. You can revise the JDL and analysis \ | |
1391 | \n macro then run the same in \"submit\" mode."); | |
1392 | } else if (TestBit(AliAnalysisGrid::kTest)) { | |
1393 | Info("StartAnalysis","\n##### LOCAL MODE ##### Your analysis will be run locally on a subset of the requested \ | |
1394 | \n dataset."); | |
1395 | } else if (TestBit(AliAnalysisGrid::kSubmit)) { | |
1396 | Info("StartAnalysis","\n##### SUBMIT MODE ##### Files required by your analysis are copied to your grid working \ | |
1397 | \n space and job submitted."); | |
1398 | } else if (TestBit(AliAnalysisGrid::kMerge)) { | |
1399 | Info("StartAnalysis","\n##### MERGE MODE ##### The registered outputs of the analysis will be merged"); | |
5513444a | 1400 | return kTRUE; |
c57f56b7 | 1401 | } else { |
1402 | Info("StartAnalysis","\n##### FULL ANALYSIS MODE ##### Producing needed files and submitting your analysis job..."); | |
1403 | } | |
1404 | ||
1405 | if (!Connect()) { | |
1406 | Error("StartAnalysis", "Cannot start grid analysis without grid connection"); | |
5513444a | 1407 | return kFALSE; |
16a4353c | 1408 | } |
1409 | Print(); | |
c57f56b7 | 1410 | if (!CheckInputData()) { |
1411 | Error("StartAnalysis", "There was an error in preprocessing your requested input data"); | |
5513444a | 1412 | return kFALSE; |
c57f56b7 | 1413 | } |
1414 | CreateDataset(fDataPattern); | |
1415 | WriteAnalysisFile(); | |
1416 | WriteAnalysisMacro(); | |
1417 | WriteExecutable(); | |
1418 | WriteValidationScript(); | |
5513444a | 1419 | if (!CreateJDL()) return kFALSE; |
1420 | if (TestBit(AliAnalysisGrid::kOffline)) return kFALSE; | |
c57f56b7 | 1421 | if (TestBit(AliAnalysisGrid::kTest)) { |
1422 | // Locally testing the analysis | |
1423 | Info("StartAnalysis", "\n_______________________________________________________________________ \ | |
1424 | \n Running analysis script in a daughter shell as on a worker node \ | |
1425 | \n_______________________________________________________________________"); | |
1426 | TObjArray *list = fOutputFiles.Tokenize(" "); | |
1427 | TIter next(list); | |
1428 | TObjString *str; | |
1429 | TString output_file; | |
1430 | while((str=(TObjString*)next())) { | |
1431 | output_file = str->GetString(); | |
1432 | Int_t index = output_file.Index("@"); | |
1433 | if (index > 0) output_file.Remove(index); | |
43da816a | 1434 | if (!gSystem->AccessPathName(output_file)) gSystem->Exec(Form("rm %s", output_file.Data())); |
c57f56b7 | 1435 | } |
1436 | delete list; | |
1437 | gSystem->Exec(Form("bash %s 2>stderr", fExecutable.Data())); | |
1438 | gSystem->Exec("bash validate.sh"); | |
1439 | // gSystem->Exec("cat stdout"); | |
5513444a | 1440 | return kFALSE; |
c57f56b7 | 1441 | } |
5513444a | 1442 | // Check if submitting is managed by LPM manager |
1443 | if (TObject::TestBit(AliAnalysisGrid::kProductionMode)) { | |
1444 | TString prodfile = fJDLName; | |
1445 | prodfile.ReplaceAll(".jdl", ".prod"); | |
1446 | WriteProductionFile(prodfile); | |
1447 | Info("StartAnalysis", "Job submitting is managed by LPM. Rerun in terminate mode after jobs finished."); | |
1448 | return kFALSE; | |
1449 | } | |
a8739e8a | 1450 | // Submit AliEn job(s) |
d2a409b2 | 1451 | gGrid->Cd(fGridOutputDir); |
a8739e8a | 1452 | TGridResult *res; |
c57f56b7 | 1453 | TString jobID = ""; |
d2a409b2 | 1454 | if (!fRunNumbers.Length() && !fRunRange[0]) { |
dd74a515 | 1455 | // Submit a given xml or a set of runs |
a8739e8a | 1456 | res = gGrid->Command(Form("submit %s", fJDLName.Data())); |
1457 | printf("*************************** %s\n",Form("submit %s", fJDLName.Data())); | |
1458 | if (res) { | |
1459 | const char *cjobId = res->GetKey(0,"jobId"); | |
1460 | if (!cjobId) { | |
1461 | Error("StartAnalysis", "Your JDL %s could not be submitted", fJDLName.Data()); | |
5513444a | 1462 | return kFALSE; |
a8739e8a | 1463 | } else { |
1464 | Info("StartAnalysis", "\n_______________________________________________________________________ \ | |
1465 | \n##### Your JDL %s was successfully submitted. \nTHE JOB ID IS: %s \ | |
1466 | \n_______________________________________________________________________", | |
1467 | fJDLName.Data(), cjobId); | |
1468 | jobID = cjobId; | |
1469 | } | |
1470 | delete res; | |
1471 | } | |
1472 | } else { | |
d2a409b2 | 1473 | // Submit for a range of enumeration of runs. |
1474 | Submit(); | |
c57f56b7 | 1475 | } |
a8739e8a | 1476 | |
c57f56b7 | 1477 | Info("StartAnalysis", "\n#### STARTING AN ALIEN SHELL FOR YOU. EXIT WHEN YOUR JOB %s HAS FINISHED. #### \ |
1478 | \n You may exit at any time and terminate the job later using the option <terminate> \ | |
1479 | \n ##################################################################################", jobID.Data()); | |
bb885a9e | 1480 | gSystem->Exec("aliensh"); |
5513444a | 1481 | return kTRUE; |
c57f56b7 | 1482 | } |
1483 | ||
d2a409b2 | 1484 | //______________________________________________________________________________ |
1485 | void AliAnalysisAlien::Submit() | |
1486 | { | |
1487 | // Submit all master jobs. | |
1488 | Int_t nmasterjobs = fInputFiles->GetEntries(); | |
1489 | Long_t tshoot = gSystem->Now(); | |
1490 | if (!fNsubmitted) SubmitNext(); | |
1491 | while (fNsubmitted < nmasterjobs) { | |
1492 | Long_t now = gSystem->Now(); | |
1493 | if ((now-tshoot)>30000) { | |
1494 | tshoot = now; | |
1495 | SubmitNext(); | |
1496 | } | |
1497 | } | |
1498 | } | |
1499 | ||
1500 | //______________________________________________________________________________ | |
1501 | void AliAnalysisAlien::SubmitNext() | |
1502 | { | |
1503 | // Submit next bunch of master jobs if the queue is free. | |
1504 | static Bool_t iscalled = kFALSE; | |
1505 | static Int_t firstmaster = 0; | |
1506 | static Int_t lastmaster = 0; | |
1507 | static Int_t npermaster = 0; | |
1508 | if (iscalled) return; | |
1509 | iscalled = kTRUE; | |
1510 | Int_t nrunning=0, nwaiting=0, nerror=0, ndone=0; | |
1511 | Int_t ntosubmit = 0; | |
1512 | TGridResult *res; | |
1513 | TString jobID = ""; | |
1514 | if (!fNsubmitted) ntosubmit = 1; | |
1515 | else { | |
1516 | TString status = GetJobStatus(firstmaster, lastmaster, nrunning, nwaiting, nerror, ndone); | |
1517 | printf("=== master %d: %s\n", lastmaster, status.Data()); | |
1518 | // If last master not split, just return | |
1519 | if (status != "SPLIT") {iscalled = kFALSE; return;} | |
1520 | // No more than 100 waiting jobs | |
1521 | if (nwaiting>100) {iscalled = kFALSE; return;} | |
1522 | npermaster = (nrunning+nwaiting+nerror+ndone)/fNsubmitted; | |
1523 | if (npermaster) ntosubmit = (100-nwaiting)/npermaster; | |
1524 | printf("=== WAITING(%d) RUNNING(%d) DONE(%d) OTHER(%d) NperMaster=%d => to submit %d jobs\n", | |
1525 | nwaiting, nrunning, ndone, nerror, npermaster, ntosubmit); | |
1526 | } | |
1527 | Int_t nmasterjobs = fInputFiles->GetEntries(); | |
1528 | for (Int_t i=0; i<ntosubmit; i++) { | |
1529 | // Submit for a range of enumeration of runs. | |
1530 | if (fNsubmitted>=nmasterjobs) {iscalled = kFALSE; return;} | |
1531 | TString query; | |
1532 | query = Form("submit %s %s %03d", fJDLName.Data(), fInputFiles->At(fNsubmitted)->GetName(), fNsubmitted); | |
1533 | printf("********* %s\n",query.Data()); | |
1534 | res = gGrid->Command(query); | |
1535 | if (res) { | |
98ca124f | 1536 | TString cjobId1 = res->GetKey(0,"jobId"); |
1537 | if (!cjobId1.Length()) { | |
d2a409b2 | 1538 | Error("StartAnalysis", "Your JDL %s could not be submitted", fJDLName.Data()); |
1539 | iscalled = kFALSE; | |
1540 | return; | |
1541 | } else { | |
1542 | Info("StartAnalysis", "\n_______________________________________________________________________ \ | |
1543 | \n##### Your JDL %s submitted (%d to go). \nTHE JOB ID IS: %s \ | |
1544 | \n_______________________________________________________________________", | |
98ca124f | 1545 | fJDLName.Data(), nmasterjobs-fNsubmitted-1, cjobId1.Data()); |
d2a409b2 | 1546 | jobID += cjobId1; |
1547 | jobID += " "; | |
98ca124f | 1548 | lastmaster = cjobId1.Atoi(); |
d2a409b2 | 1549 | if (!firstmaster) firstmaster = lastmaster; |
1550 | fNsubmitted++; | |
1551 | } | |
1552 | delete res; | |
1553 | } | |
1554 | } | |
1555 | iscalled = kFALSE; | |
1556 | } | |
1557 | ||
c57f56b7 | 1558 | //______________________________________________________________________________ |
1559 | void AliAnalysisAlien::WriteAnalysisFile() | |
1560 | { | |
1561 | // Write current analysis manager into the file analysis.root | |
1562 | if (!TestBit(AliAnalysisGrid::kSubmit)) { | |
1563 | AliAnalysisManager *mgr = AliAnalysisManager::GetAnalysisManager(); | |
1564 | if (!mgr || !mgr->IsInitialized()) { | |
1565 | Error("WriteAnalysisFile", "You need an initialized analysis manager for this"); | |
1566 | return; | |
1567 | } | |
1568 | // Check analysis type | |
1569 | TObject *handler; | |
1570 | if (mgr->GetMCtruthEventHandler()) TObject::SetBit(AliAnalysisGrid::kUseMC); | |
1571 | handler = (TObject*)mgr->GetInputEventHandler(); | |
1572 | if (handler) { | |
1573 | if (handler->InheritsFrom("AliESDInputHandler")) TObject::SetBit(AliAnalysisGrid::kUseESD); | |
1574 | if (handler->InheritsFrom("AliAODInputHandler")) TObject::SetBit(AliAnalysisGrid::kUseAOD); | |
1575 | } | |
1576 | TDirectory *cdir = gDirectory; | |
1577 | TFile *file = TFile::Open("analysis.root", "RECREATE"); | |
1578 | if (file) { | |
1579 | mgr->Write(); | |
1580 | delete file; | |
1581 | } | |
1582 | if (cdir) cdir->cd(); | |
1583 | Info("WriteAnalysisFile", "\n##### Analysis manager: %s wrote to file <analysis.root>\n", mgr->GetName()); | |
1584 | } | |
1585 | Bool_t copy = kTRUE; | |
1586 | if (TestBit(AliAnalysisGrid::kOffline) || TestBit(AliAnalysisGrid::kTest)) copy = kFALSE; | |
1587 | if (copy) { | |
1588 | CdWork(); | |
1589 | TString workdir = gGrid->GetHomeDirectory(); | |
1590 | workdir += fGridWorkingDir; | |
1591 | Info("CreateJDL", "\n##### Copying file <analysis.root> containing your initialized analysis manager to your alien workspace"); | |
1592 | if (FileExists("analysis.root")) gGrid->Rm("analysis.root"); | |
1593 | TFile::Cp("file:analysis.root", Form("alien://%s/analysis.root", workdir.Data())); | |
1594 | } | |
1595 | } | |
1596 | ||
1597 | //______________________________________________________________________________ | |
1598 | void AliAnalysisAlien::WriteAnalysisMacro() | |
1599 | { | |
1600 | // Write the analysis macro that will steer the analysis in grid mode. | |
1601 | if (!TestBit(AliAnalysisGrid::kSubmit)) { | |
1602 | ofstream out; | |
1603 | out.open(fAnalysisMacro.Data(), ios::out); | |
1604 | if (!out.good()) { | |
1605 | Error("WriteAnalysisMacro", "could not open file %s for writing", fAnalysisMacro.Data()); | |
1606 | return; | |
1607 | } | |
1608 | TString func = fAnalysisMacro; | |
1609 | TString type = "ESD"; | |
1610 | TString comment = "// Analysis using "; | |
1611 | if (TObject::TestBit(AliAnalysisGrid::kUseESD)) comment += "ESD"; | |
1612 | if (TObject::TestBit(AliAnalysisGrid::kUseAOD)) { | |
1613 | type = "AOD"; | |
1614 | comment += "AOD"; | |
1615 | } | |
0df6ccf2 | 1616 | if (type!="AOD" && fFriendChainName!="") { |
1617 | Error("WriteAnalysisMacro", "Friend chain can be attached only to AOD"); | |
1618 | return; | |
1619 | } | |
c57f56b7 | 1620 | if (TObject::TestBit(AliAnalysisGrid::kUseMC)) comment += "/MC"; |
1621 | else comment += " data"; | |
1622 | out << "const char *anatype = \"" << type.Data() << "\";" << endl << endl; | |
1623 | func.ReplaceAll(".C", ""); | |
1624 | out << "void " << func.Data() << "()" << endl; | |
1625 | out << "{" << endl; | |
1626 | out << comment.Data() << endl; | |
1627 | out << "// Automatically generated analysis steering macro executed in grid subjobs" << endl << endl; | |
f7498086 | 1628 | out << " TStopwatch timer;" << endl; |
1629 | out << " timer.Start();" << endl << endl; | |
c57f56b7 | 1630 | out << "// load base root libraries" << endl; |
1631 | out << " gSystem->Load(\"libTree\");" << endl; | |
1632 | out << " gSystem->Load(\"libGeom\");" << endl; | |
1633 | out << " gSystem->Load(\"libVMC\");" << endl; | |
1634 | out << " gSystem->Load(\"libPhysics\");" << endl << endl; | |
57377eb5 | 1635 | out << "// Load analysis framework libraries" << endl; |
4e5c5506 | 1636 | if (!fPackages) { |
4e5c5506 | 1637 | out << " gSystem->Load(\"libSTEERBase\");" << endl; |
1638 | out << " gSystem->Load(\"libESD\");" << endl; | |
1639 | out << " gSystem->Load(\"libAOD\");" << endl; | |
1640 | out << " gSystem->Load(\"libANALYSIS\");" << endl; | |
57377eb5 | 1641 | out << " gSystem->Load(\"libANALYSISalice\");" << endl; |
1642 | out << " gSystem->Load(\"libCORRFW\");" << endl << endl; | |
4e5c5506 | 1643 | } else { |
4e5c5506 | 1644 | TIter next(fPackages); |
1645 | TObject *obj; | |
57377eb5 | 1646 | TString pkgname; |
1647 | Bool_t hasSTEERBase = kFALSE; | |
1648 | Bool_t hasESD = kFALSE; | |
1649 | Bool_t hasAOD = kFALSE; | |
1650 | Bool_t hasANALYSIS = kFALSE; | |
1651 | Bool_t hasANALYSISalice = kFALSE; | |
1652 | Bool_t hasCORRFW = kFALSE; | |
1653 | while ((obj=next())) { | |
1654 | pkgname = obj->GetName(); | |
4478e6f1 | 1655 | if (pkgname == "STEERBase" || |
1656 | pkgname == "STEERBase.par") hasSTEERBase = kTRUE; | |
1657 | if (pkgname == "ESD" || | |
1658 | pkgname == "ESD.par") hasESD = kTRUE; | |
1659 | if (pkgname == "AOD" || | |
1660 | pkgname == "AOD.par") hasAOD = kTRUE; | |
1661 | if (pkgname == "ANALYSIS" || | |
1662 | pkgname == "ANALYSIS.par") hasANALYSIS = kTRUE; | |
1663 | if (pkgname == "ANALYSISalice" || | |
1664 | pkgname == "ANALYSISalice.par") hasANALYSISalice = kTRUE; | |
1665 | if (pkgname == "CORRFW" || | |
1666 | pkgname == "CORRFW.par") hasCORRFW = kTRUE; | |
57377eb5 | 1667 | } |
1668 | if (!hasSTEERBase) out << " gSystem->Load(\"libSTEERBase\");" << endl; | |
1669 | else out << " if (!SetupPar(\"STEERBase\")) return;" << endl; | |
1670 | if (!hasESD) out << " gSystem->Load(\"libESD\");" << endl; | |
1671 | else out << " if (!SetupPar(\"ESD\")) return;" << endl; | |
1672 | if (!hasAOD) out << " gSystem->Load(\"libAOD\");" << endl; | |
1673 | else out << " if (!SetupPar(\"AOD\")) return;" << endl; | |
1674 | if (!hasANALYSIS) out << " gSystem->Load(\"libANALYSIS\");" << endl; | |
1675 | else out << " if (!SetupPar(\"ANALYSIS\")) return;" << endl; | |
1676 | if (!hasANALYSISalice) out << " gSystem->Load(\"libANALYSISalice\");" << endl; | |
1677 | else out << " if (!SetupPar(\"ANALYSISalice\")) return;" << endl; | |
1678 | if (!hasCORRFW) out << " gSystem->Load(\"libCORRFW\");" << endl << endl; | |
1679 | else out << " if (!SetupPar(\"CORRFW\")) return;" << endl << endl; | |
1680 | out << "// Compile other par packages" << endl; | |
1681 | next.Reset(); | |
fcc9bb6f | 1682 | while ((obj=next())) { |
1683 | pkgname = obj->GetName(); | |
4478e6f1 | 1684 | if (pkgname == "STEERBase" || |
1685 | pkgname == "STEERBase.par" || | |
1686 | pkgname == "ESD" || | |
1687 | pkgname == "ESD.par" || | |
1688 | pkgname == "AOD" || | |
1689 | pkgname == "AOD.par" || | |
1690 | pkgname == "ANALYSIS" || | |
1691 | pkgname == "ANALYSIS.par" || | |
1692 | pkgname == "ANALYSISalice" || | |
1693 | pkgname == "ANALYSISalice.par" || | |
1694 | pkgname == "CORRFW" || | |
1695 | pkgname == "CORRFW.par") continue; | |
4e5c5506 | 1696 | out << " if (!SetupPar(\"" << obj->GetName() << "\")) return;" << endl; |
fcc9bb6f | 1697 | } |
4e5c5506 | 1698 | } |
43da816a | 1699 | out << "// include path" << endl; |
1700 | if (fIncludePath.Length()) out << " gSystem->AddIncludePath(\"" << fIncludePath.Data() << "\");" << endl; | |
1701 | out << " gSystem->AddIncludePath(\"-I$ALICE_ROOT/include\");" << endl << endl; | |
6da75e0b | 1702 | if (fAdditionalLibs.Length()) { |
1703 | out << "// Add aditional AliRoot libraries" << endl; | |
1704 | TObjArray *list = fAdditionalLibs.Tokenize(" "); | |
1705 | TIter next(list); | |
1706 | TObjString *str; | |
1707 | while((str=(TObjString*)next())) { | |
1708 | if (str->GetString().Contains(".so")) | |
1709 | out << " gSystem->Load(\"" << str->GetString().Data() << "\");" << endl; | |
1710 | } | |
1711 | if (list) delete list; | |
1712 | } | |
1713 | out << endl; | |
c57f56b7 | 1714 | out << "// analysis source to be compiled at runtime (if any)" << endl; |
1715 | if (fAnalysisSource.Length()) { | |
1716 | TObjArray *list = fAnalysisSource.Tokenize(" "); | |
1717 | TIter next(list); | |
1718 | TObjString *str; | |
1719 | while((str=(TObjString*)next())) { | |
1720 | out << " gROOT->ProcessLine(\".L " << str->GetString().Data() << "+g\");" << endl; | |
1721 | } | |
1722 | if (list) delete list; | |
1723 | } | |
1724 | out << endl; | |
1725 | out << "// connect to AliEn and make the chain" << endl; | |
1726 | out << " if (!TGrid::Connect(\"alien://\")) return;" << endl; | |
1727 | if (IsUsingTags()) { | |
1728 | out << " TChain *chain = CreateChainFromTags(\"wn.xml\", anatype);" << endl << endl; | |
1729 | } else { | |
1730 | out << " TChain *chain = CreateChain(\"wn.xml\", anatype);" << endl << endl; | |
1731 | } | |
1732 | out << "// read the analysis manager from file" << endl; | |
1733 | out << " TFile *file = TFile::Open(\"analysis.root\");" << endl; | |
1734 | out << " if (!file) return;" << endl; | |
1735 | out << " TIter nextkey(file->GetListOfKeys());" << endl; | |
1736 | out << " AliAnalysisManager *mgr = 0;" << endl; | |
1737 | out << " TKey *key;" << endl; | |
1738 | out << " while ((key=(TKey*)nextkey())) {" << endl; | |
1739 | out << " if (!strcmp(key->GetClassName(), \"AliAnalysisManager\"))" << endl; | |
1740 | out << " mgr = (AliAnalysisManager*)file->Get(key->GetName());" << endl; | |
1741 | out << " };" << endl; | |
1742 | out << " if (!mgr) {" << endl; | |
1743 | out << " ::Error(\"" << func.Data() << "\", \"No analysis manager found in file analysis.root\");" << endl; | |
1744 | out << " return;" << endl; | |
1745 | out << " }" << endl << endl; | |
1746 | out << " mgr->PrintStatus();" << endl; | |
1747 | out << " mgr->StartAnalysis(\"localfile\", chain);" << endl; | |
f7498086 | 1748 | out << " timer.Stop();" << endl; |
1749 | out << " timer.Print();" << endl; | |
c57f56b7 | 1750 | out << "}" << endl << endl; |
1751 | if (IsUsingTags()) { | |
1752 | out << "TChain* CreateChainFromTags(const char *xmlfile, const char *type=\"ESD\")" << endl; | |
1753 | out << "{" << endl; | |
1754 | out << "// Create a chain using tags from the xml file." << endl; | |
1755 | out << " TAlienCollection* coll = TAlienCollection::Open(xmlfile);" << endl; | |
1756 | out << " if (!coll) {" << endl; | |
1757 | out << " ::Error(\"CreateChainFromTags\", \"Cannot create an AliEn collection from %s\", xmlfile);" << endl; | |
1758 | out << " return NULL;" << endl; | |
1759 | out << " }" << endl; | |
1760 | out << " TGridResult* tagResult = coll->GetGridResult(\"\",kFALSE,kFALSE);" << endl; | |
1761 | out << " AliTagAnalysis *tagAna = new AliTagAnalysis(type);" << endl; | |
1762 | out << " tagAna->ChainGridTags(tagResult);" << endl << endl; | |
1763 | out << " AliRunTagCuts *runCuts = new AliRunTagCuts();" << endl; | |
1764 | out << " AliLHCTagCuts *lhcCuts = new AliLHCTagCuts();" << endl; | |
1765 | out << " AliDetectorTagCuts *detCuts = new AliDetectorTagCuts();" << endl; | |
1766 | out << " AliEventTagCuts *evCuts = new AliEventTagCuts();" << endl; | |
1767 | out << " // Check if the cuts configuration file was provided" << endl; | |
1768 | out << " if (!gSystem->AccessPathName(\"ConfigureCuts.C\")) {" << endl; | |
1769 | out << " gROOT->LoadMacro(\"ConfigureCuts.C\");" << endl; | |
1770 | out << " ConfigureCuts(runCuts, lhcCuts, detCuts, evCuts);" << endl; | |
1771 | out << " }" << endl; | |
0df6ccf2 | 1772 | if (fFriendChainName=="") { |
1773 | out << " TChain *chain = tagAna->QueryTags(runCuts, lhcCuts, detCuts, evCuts);" << endl; | |
1774 | } else { | |
1775 | out << " TString tmpColl=\"tmpCollection.xml\";" << endl; | |
1776 | out << " tagAna->CreateXMLCollection(tmpColl.Data(),runCuts, lhcCuts, detCuts, evCuts);" << endl; | |
1777 | out << " TChain *chain = CreateChain(tmpColl.Data(),type);" << endl; | |
1778 | } | |
c57f56b7 | 1779 | out << " if (!chain || !chain->GetNtrees()) return NULL;" << endl; |
1780 | out << " chain->ls();" << endl; | |
1781 | out << " return chain;" << endl; | |
fcc9bb6f | 1782 | out << "}" << endl << endl; |
c57f56b7 | 1783 | if (gSystem->AccessPathName("ConfigureCuts.C")) { |
1784 | TString msg = "\n##### You may want to provide a macro ConfigureCuts.C with a method:\n"; | |
1785 | msg += " void ConfigureCuts(AliRunTagCuts *runCuts,\n"; | |
1786 | msg += " AliLHCTagCuts *lhcCuts,\n"; | |
1787 | msg += " AliDetectorTagCuts *detCuts,\n"; | |
1788 | msg += " AliEventTagCuts *evCuts)"; | |
1789 | Info("WriteAnalysisMacro", msg.Data()); | |
1790 | } | |
0df6ccf2 | 1791 | } |
1792 | if (!IsUsingTags() || fFriendChainName!="") { | |
fcc9bb6f | 1793 | out <<"//________________________________________________________________________________" << endl; |
c57f56b7 | 1794 | out << "TChain* CreateChain(const char *xmlfile, const char *type=\"ESD\")" << endl; |
1795 | out << "{" << endl; | |
1796 | out << "// Create a chain using url's from xml file" << endl; | |
1797 | out << " TString treename = type;" << endl; | |
1798 | out << " treename.ToLower();" << endl; | |
1799 | out << " treename += \"Tree\";" << endl; | |
e02fee64 | 1800 | out << " printf(\"***************************************\\n\");" << endl; |
1801 | out << " printf(\" Getting chain of trees %s\\n\", treename.Data());" << endl; | |
1802 | out << " printf(\"***************************************\\n\");" << endl; | |
c57f56b7 | 1803 | out << " TAlienCollection *coll = TAlienCollection::Open(xmlfile);" << endl; |
1804 | out << " if (!coll) {" << endl; | |
1805 | out << " ::Error(\"CreateChain\", \"Cannot create an AliEn collection from %s\", xmlfile);" << endl; | |
1806 | out << " return NULL;" << endl; | |
1807 | out << " }" << endl; | |
1808 | out << " TChain *chain = new TChain(treename);" << endl; | |
0df6ccf2 | 1809 | if(fFriendChainName!="") { |
1810 | out << " TChain *chainFriend = new TChain(treename);" << endl; | |
1811 | } | |
c57f56b7 | 1812 | out << " coll->Reset();" << endl; |
0df6ccf2 | 1813 | out << " while (coll->Next()) {" << endl; |
1814 | out << " chain->Add(coll->GetTURL(\"\"));" << endl; | |
1815 | if(fFriendChainName!="") { | |
1816 | out << " TString fileFriend=coll->GetTURL(\"\");" << endl; | |
1817 | out << " fileFriend.ReplaceAll(\"AliAOD.root\",\""<<fFriendChainName.Data()<<"\");" << endl; | |
1818 | out << " fileFriend.ReplaceAll(\"AliAODs.root\",\""<<fFriendChainName.Data()<<"\");" << endl; | |
1819 | out << " chainFriend->Add(fileFriend.Data());" << endl; | |
1820 | } | |
1821 | out << " }" << endl; | |
c57f56b7 | 1822 | out << " if (!chain->GetNtrees()) {" << endl; |
1823 | out << " ::Error(\"CreateChain\", \"No tree found from collection %s\", xmlfile);" << endl; | |
1824 | out << " return NULL;" << endl; | |
1825 | out << " }" << endl; | |
0df6ccf2 | 1826 | if(fFriendChainName!="") { |
1827 | out << " chain->AddFriend(chainFriend);" << endl; | |
1828 | } | |
c57f56b7 | 1829 | out << " return chain;" << endl; |
fcc9bb6f | 1830 | out << "}" << endl << endl; |
c57f56b7 | 1831 | } |
4e5c5506 | 1832 | if (fPackages) { |
fcc9bb6f | 1833 | out <<"//________________________________________________________________________________" << endl; |
4e5c5506 | 1834 | out << "Bool_t SetupPar(const char *package) {" << endl; |
1835 | out << "// Compile the package and set it up." << endl; | |
1836 | out << " TString pkgdir = package;" << endl; | |
1837 | out << " pkgdir.ReplaceAll(\".par\",\"\");" << endl; | |
fcc9bb6f | 1838 | out << " gSystem->Exec(Form(\"tar xvzf %s.par\", pkgdir.Data()));" << endl; |
4e5c5506 | 1839 | out << " TString cdir = gSystem->WorkingDirectory();" << endl; |
1840 | out << " gSystem->ChangeDirectory(pkgdir);" << endl; | |
1841 | out << " // Check for BUILD.sh and execute" << endl; | |
1842 | out << " if (!gSystem->AccessPathName(\"PROOF-INF/BUILD.sh\")) {" << endl; | |
1843 | out << " printf(\"*******************************\\n\");" << endl; | |
1844 | out << " printf(\"*** Building PAR archive ***\\n\");" << endl; | |
1845 | out << " printf(\"*******************************\\n\");" << endl; | |
1846 | out << " if (gSystem->Exec(\"PROOF-INF/BUILD.sh\")) {" << endl; | |
fcc9bb6f | 1847 | out << " ::Error(\"SetupPar\", \"Cannot build par archive %s\", pkgdir.Data());" << endl; |
4e5c5506 | 1848 | out << " gSystem->ChangeDirectory(cdir);" << endl; |
1849 | out << " return kFALSE;" << endl; | |
1850 | out << " }" << endl; | |
1851 | out << " } else {" << endl; | |
fcc9bb6f | 1852 | out << " ::Error(\"SetupPar\",\"Cannot access PROOF-INF/BUILD.sh for package %s\", pkgdir.Data());" << endl; |
4e5c5506 | 1853 | out << " gSystem->ChangeDirectory(cdir);" << endl; |
1854 | out << " return kFALSE;" << endl; | |
1855 | out << " }" << endl; | |
1856 | out << " // Check for SETUP.C and execute" << endl; | |
1857 | out << " if (!gSystem->AccessPathName(\"PROOF-INF/SETUP.C\")) {" << endl; | |
1858 | out << " printf(\"*******************************\\n\");" << endl; | |
1859 | out << " printf(\"*** Setup PAR archive ***\\n\");" << endl; | |
1860 | out << " printf(\"*******************************\\n\");" << endl; | |
1861 | out << " gROOT->Macro(\"PROOF-INF/SETUP.C\");" << endl; | |
1862 | out << " } else {" << endl; | |
fcc9bb6f | 1863 | out << " ::Error(\"SetupPar\",\"Cannot access PROOF-INF/SETUP.C for package %s\", pkgdir.Data());" << endl; |
4e5c5506 | 1864 | out << " gSystem->ChangeDirectory(cdir);" << endl; |
1865 | out << " return kFALSE;" << endl; | |
1866 | out << " }" << endl; | |
1867 | out << " // Restore original workdir" << endl; | |
1868 | out << " gSystem->ChangeDirectory(cdir);" << endl; | |
1869 | out << " return kTRUE;" << endl; | |
1870 | out << "}" << endl; | |
1871 | } | |
c57f56b7 | 1872 | Info("WriteAnalysisMacro", "\n##### Analysis macro to run on worker nodes <%s> written",fAnalysisMacro.Data()); |
1873 | } | |
1874 | Bool_t copy = kTRUE; | |
1875 | if (TestBit(AliAnalysisGrid::kOffline) || TestBit(AliAnalysisGrid::kTest)) copy = kFALSE; | |
1876 | if (copy) { | |
1877 | CdWork(); | |
1878 | TString workdir = gGrid->GetHomeDirectory(); | |
1879 | workdir += fGridWorkingDir; | |
1880 | if (FileExists(fAnalysisMacro)) gGrid->Rm(fAnalysisMacro); | |
1881 | if (IsUsingTags() && !gSystem->AccessPathName("ConfigureCuts.C")) { | |
1882 | if (FileExists("ConfigureCuts.C")) gGrid->Rm("ConfigureCuts.C"); | |
1883 | Info("WriteAnalysisMacro", "\n##### Copying cuts configuration macro: <ConfigureCuts.C> to your alien workspace"); | |
1884 | TFile::Cp("file:ConfigureCuts.C", Form("alien://%s/ConfigureCuts.C", workdir.Data())); | |
1885 | } | |
1886 | Info("WriteAnalysisMacro", "\n##### Copying analysis macro: <%s> to your alien workspace", fAnalysisMacro.Data()); | |
1887 | TFile::Cp(Form("file:%s",fAnalysisMacro.Data()), Form("alien://%s/%s", workdir.Data(), fAnalysisMacro.Data())); | |
1888 | } | |
1889 | } | |
1890 | ||
1891 | //______________________________________________________________________________ | |
1892 | void AliAnalysisAlien::WriteExecutable() | |
1893 | { | |
1894 | // Generate the alien executable script. | |
1895 | if (!TestBit(AliAnalysisGrid::kSubmit)) { | |
1896 | ofstream out; | |
1897 | out.open(fExecutable.Data(), ios::out); | |
1898 | if (out.bad()) { | |
5513444a | 1899 | Error("WriteExecutable", "Bad file name for executable: %s", fExecutable.Data()); |
c57f56b7 | 1900 | return; |
1901 | } | |
1902 | out << "#!/bin/bash" << endl; | |
1903 | out << "export GCLIENT_SERVER_LIST=\"pcapiserv04.cern.ch:10000|pcapiserv05.cern.ch:10000|pcapiserv06.cern.ch:10000|pcapiserv07.cern.ch:10000\"" << endl; | |
1904 | out << "echo \"=========================================\"" << endl; | |
1905 | out << "echo \"############## PATH : ##############\"" << endl; | |
1906 | out << "echo $PATH" << endl; | |
1907 | out << "echo \"############## LD_LIBRARY_PATH : ##############\"" << endl; | |
1908 | out << "echo $LD_LIBRARY_PATH" << endl; | |
1909 | out << "echo \"############## ROOTSYS : ##############\"" << endl; | |
1910 | out << "echo $ROOTSYS" << endl; | |
1911 | out << "echo \"############## which root : ##############\"" << endl; | |
1912 | out << "which root" << endl; | |
1913 | out << "echo \"############## ALICE_ROOT : ##############\"" << endl; | |
1914 | out << "echo $ALICE_ROOT" << endl; | |
1915 | out << "echo \"############## which aliroot : ##############\"" << endl; | |
1916 | out << "which aliroot" << endl; | |
1917 | out << "echo \"=========================================\"" << endl << endl; | |
1918 | // if (TestBit(AliAnalysisGrid::kTest)) out << "root "; | |
1919 | out << "root -b -q "; | |
1920 | out << fAnalysisMacro.Data() << endl << endl; | |
1921 | out << "echo \"======== " << fAnalysisMacro.Data() << " finished ========\"" << endl; | |
1922 | } | |
1923 | Bool_t copy = kTRUE; | |
1924 | if (TestBit(AliAnalysisGrid::kOffline) || TestBit(AliAnalysisGrid::kTest)) copy = kFALSE; | |
1925 | if (copy) { | |
1926 | CdWork(); | |
1927 | TString workdir = gGrid->GetHomeDirectory(); | |
1928 | workdir += fGridWorkingDir; | |
1929 | TString executable = Form("%s/bin/%s", gGrid->GetHomeDirectory(), fExecutable.Data()); | |
1930 | if (FileExists(executable)) gGrid->Rm(executable); | |
1931 | Info("CreateJDL", "\n##### Copying executable file <%s> to your AliEn bin directory", fExecutable.Data()); | |
1932 | TFile::Cp(Form("file:%s",fExecutable.Data()), Form("alien://%s", executable.Data())); | |
1933 | } | |
1934 | } | |
1935 | ||
1936 | //______________________________________________________________________________ | |
5513444a | 1937 | void AliAnalysisAlien::WriteProductionFile(const char *filename) const |
1938 | { | |
1939 | // Write the production file to be submitted by LPM manager. The format is: | |
1940 | // First line: full_path_to_jdl | |
1941 | // Next lines: full_path_to_dataset XXX (XXX is a string) | |
1942 | // To submit, one has to: submit jdl XXX for all lines | |
1943 | ofstream out; | |
1944 | out.open(filename, ios::out); | |
1945 | if (out.bad()) { | |
1946 | Error("WriteProductionFile", "Bad file name: %s", filename); | |
1947 | return; | |
1948 | } | |
1949 | TString workdir = gGrid->GetHomeDirectory(); | |
1950 | workdir += fGridWorkingDir; | |
1951 | TString locjdl = Form("%s/%s", workdir.Data(),fJDLName.Data()); | |
1952 | out << locjdl << endl; | |
1953 | Int_t nmasterjobs = fInputFiles->GetEntries(); | |
1954 | for (Int_t i=0; i<nmasterjobs; i++) { | |
b5fe9cba | 1955 | out << Form("%s", fInputFiles->At(i)->GetName()) << " " << Form("%03d", i) << endl; |
5513444a | 1956 | } |
1957 | Info("WriteProductionFile", "\n##### Copying production file <%s> to your work directory", filename); | |
1958 | TFile::Cp(Form("file:%s",filename), Form("alien://%s/%s", workdir.Data(),filename)); | |
1959 | } | |
1960 | ||
1961 | //______________________________________________________________________________ | |
c57f56b7 | 1962 | void AliAnalysisAlien::WriteValidationScript() |
1963 | { | |
1964 | // Generate the alien validation script. | |
1965 | // Generate the validation script | |
1966 | TObjString *os; | |
1967 | if (!Connect()) { | |
1968 | Error("WriteValidationScript", "Alien connection required"); | |
1969 | return; | |
1970 | } | |
1971 | TString out_stream = ""; | |
1972 | if (!TestBit(AliAnalysisGrid::kTest)) out_stream = " >> stdout"; | |
1973 | if (!TestBit(AliAnalysisGrid::kSubmit)) { | |
1974 | ofstream out; | |
1975 | out.open("validate.sh", ios::out); | |
1976 | out << "#!/bin/bash" << endl; | |
1977 | out << "##################################################" << endl; | |
1978 | out << "validateout=`dirname $0`" << endl; | |
1979 | out << "validatetime=`date`" << endl; | |
1980 | out << "validated=\"0\";" << endl; | |
1981 | out << "error=0" << endl; | |
1982 | out << "if [ -z $validateout ]" << endl; | |
1983 | out << "then" << endl; | |
1984 | out << " validateout=\".\"" << endl; | |
1985 | out << "fi" << endl << endl; | |
1986 | out << "cd $validateout;" << endl; | |
1987 | out << "validateworkdir=`pwd`;" << endl << endl; | |
1988 | out << "echo \"*******************************************************\"" << out_stream << endl; | |
1989 | out << "echo \"* Automatically generated validation script *\"" << out_stream << endl; | |
1990 | out << "" << endl; | |
1991 | out << "echo \"* Time: $validatetime \"" << out_stream << endl; | |
1992 | out << "echo \"* Dir: $validateout\"" << out_stream << endl; | |
1993 | out << "echo \"* Workdir: $validateworkdir\"" << out_stream << endl; | |
1994 | out << "echo \"* ----------------------------------------------------*\"" << out_stream << endl; | |
1995 | out << "ls -la ./" << out_stream << endl; | |
1996 | out << "echo \"* ----------------------------------------------------*\"" << out_stream << endl << endl; | |
1997 | out << "##################################################" << endl; | |
ebec370a | 1998 | |
1999 | out << "" << endl; | |
2000 | out << "parArch=`grep -Ei \"Cannot Build the PAR Archive\" stderr`" << endl; | |
2001 | out << "segViol=`grep -Ei \"Segmentation violation\" stderr`" << endl; | |
2002 | out << "segFault=`grep -Ei \"Segmentation fault\" stderr`" << endl; | |
2003 | out << "" << endl; | |
2004 | ||
2005 | out << "if [ ! -f stderr ] ; then" << endl; | |
2006 | out << " error=1" << endl; | |
2007 | out << " echo \"* ########## Job not validated - no stderr ###\" " << out_stream << endl; | |
2008 | out << " echo \"Error = $error\" " << out_stream << endl; | |
2009 | out << "fi" << endl; | |
2010 | ||
2011 | out << "if [ \"$parArch\" != \"\" ] ; then" << endl; | |
2012 | out << " error=1" << endl; | |
2013 | out << " echo \"* ########## Job not validated - PAR archive not built ###\" " << out_stream << endl; | |
2014 | out << " echo \"$parArch\" " << out_stream << endl; | |
2015 | out << " echo \"Error = $error\" " << out_stream << endl; | |
2016 | out << "fi" << endl; | |
2017 | ||
2018 | out << "if [ \"$segViol\" != \"\" ] ; then" << endl; | |
2019 | out << " error=1" << endl; | |
2020 | out << " echo \"* ########## Job not validated - Segment. violation ###\" " << out_stream << endl; | |
2021 | out << " echo \"$segViol\" " << out_stream << endl; | |
2022 | out << " echo \"Error = $error\" " << out_stream << endl; | |
2023 | out << "fi" << endl; | |
2024 | ||
2025 | out << "if [ \"$segFault\" != \"\" ] ; then" << endl; | |
2026 | out << " error=1" << endl; | |
2027 | out << " echo \"* ########## Job not validated - Segment. fault ###\" " << out_stream << endl; | |
2028 | out << " echo \"$segFault\" " << out_stream << endl; | |
2029 | out << " echo \"Error = $error\" " << out_stream << endl; | |
2030 | out << "fi" << endl; | |
2031 | ||
2032 | // Part dedicated to the specific analyses running into the train | |
2033 | ||
c57f56b7 | 2034 | TObjArray *arr = fOutputFiles.Tokenize(" "); |
2035 | TIter next1(arr); | |
2036 | TString output_file; | |
2037 | while ((os=(TObjString*)next1())) { | |
2038 | output_file = os->GetString(); | |
2039 | Int_t index = output_file.Index("@"); | |
2040 | if (index > 0) output_file.Remove(index); | |
2041 | out << "if ! [ -f " << output_file.Data() << " ] ; then" << endl; | |
2042 | out << " error=1" << endl; | |
2043 | out << " echo \"Output file(s) not found. Job FAILED !\"" << out_stream << endl; | |
2044 | out << " echo \"Output file(s) not found. Job FAILED !\" >> stderr" << endl; | |
2045 | out << "fi" << endl; | |
2046 | } | |
2047 | delete arr; | |
2048 | out << "if [ $error = 0 ] ; then" << endl; | |
2049 | out << " echo \"* ---------------- Job Validated ------------------*\"" << out_stream << endl; | |
2050 | out << "fi" << endl; | |
2051 | ||
2052 | out << "echo \"* ----------------------------------------------------*\"" << out_stream << endl; | |
2053 | out << "echo \"*******************************************************\"" << out_stream << endl; | |
2054 | out << "cd -" << endl; | |
2055 | out << "exit $error" << endl; | |
2056 | } | |
2057 | Bool_t copy = kTRUE; | |
2058 | if (TestBit(AliAnalysisGrid::kOffline) || TestBit(AliAnalysisGrid::kTest)) copy = kFALSE; | |
2059 | if (copy) { | |
2060 | CdWork(); | |
2061 | TString workdir = gGrid->GetHomeDirectory(); | |
2062 | workdir += fGridWorkingDir; | |
2063 | Info("CreateJDL", "\n##### Copying validation script <validate.sh> to your AliEn working space"); | |
2064 | if (FileExists("validate.sh")) gGrid->Rm("validate.sh"); | |
2065 | TFile::Cp("file:validate.sh", Form("alien://%s/validate.sh", workdir.Data())); | |
2066 | } | |
2067 | } |