[u/mrichter/AliRoot.git] / ITS / AliITSPreprocessorSPD.cxx

///////////////////////////////////////////////
//  Author: Henrik Tydesjo                   //
//  Preprocessor Class for the SPD           //
//                                           //
///////////////////////////////////////////////

#include "AliITSPreprocessorSPD.h"
#include "AliITSCalibrationSPD.h"
#include "AliITSOnlineCalibrationSPDhandler.h"
#include "AliCDBEntry.h"
#include "AliCDBMetaData.h"
#include "AliShuttleInterface.h"
#include "AliLog.h"
#include <TTimeStamp.h>
#include <TObjString.h>
#include <TSystem.h>
#include <fstream>

/* $Id$ */

ClassImp(AliITSPreprocessorSPD)

//______________________________________________________________________________________________
AliITSPreprocessorSPD::AliITSPreprocessorSPD(AliShuttleInterface* shuttle) :
  AliPreprocessor("SPD", shuttle), fIdList()
{
  // constructor
  AddRunType("DAQ_MIN_TH_SCAN");
  AddRunType("DAQ_MEAN_TH_SCAN");
  AddRunType("DAQ_GEN_DAC_SCAN");
  AddRunType("DAQ_UNIFORMITY_SCAN");
  AddRunType("DAQ_NOISY_PIX_SCAN");
  AddRunType("DAQ_PIX_DELAY_SCAN");
  AddRunType("DAQ_FO_UNIF_SCAN");
  AddRunType("PHYSICS");

  fIdList.SetOwner(kTRUE);
}

//______________________________________________________________________________________________
AliITSPreprocessorSPD::~AliITSPreprocessorSPD()
{
  // destructor
}

//______________________________________________________________________________________________
void AliITSPreprocessorSPD::Initialize(Int_t run, UInt_t startTime,
	UInt_t endTime)
{
  // initialize
  AliPreprocessor::Initialize(run, startTime, endTime);

  AliInfo(Form("\n\tRun %d \n\tStartTime %s \n\tEndTime %s", run,
	       TTimeStamp(startTime).AsString(),
	       TTimeStamp(endTime).AsString()));
}

//______________________________________________________________________________________________
UInt_t AliITSPreprocessorSPD::Process(TMap* /*dcsAliasMap*/)
{
  // Do the actual preprocessing


  // *** GET RUN TYPE ***

  TString runType = GetRunType();


  fIdList.Clear();
  UInt_t nrEqForScan  = 0;
  //  UInt_t nrEqForPhysN = 0;
  //  UInt_t nrEqForPhysD = 0;

  // ******************************************************************************************** //
  // *** GET THE FILE IDs FOR DEBUGGING *** //
  if (runType == "DAQ_MIN_TH_SCAN" || 
      runType == "DAQ_MEAN_TH_SCAN" || 
      runType == "DAQ_GEN_DAC_SCAN" || 
      runType == "DAQ_UNIFORMITY_SCAN" || 
      runType == "DAQ_NOISY_PIX_SCAN" || 
      runType == "DAQ_PIX_DELAY_SCAN" || 
      runType == "DAQ_FO_UNIF_SCAN" || 
      runType == "PHYSICS") {
    TString idListId = "SPD_id_list";
    TList* list = GetFileSources(kDAQ,idListId.Data());
    UInt_t nrIdFiles = 0;
    if (list) {
      TListIter *iter = new TListIter(list);
      while (TObjString* fileNameEntry = (TObjString*) iter->Next()) {
	TString fileName = GetFile(kDAQ, idListId.Data(), fileNameEntry->GetString().Data());
	if (fileName.IsNull()) {
	  Log(Form("GetFile failed to retrieve file %s.",fileNameEntry->GetString().Data()));
	  return 1;
	}
	nrIdFiles++;
	ifstream idFile;
	idFile.open(fileName.Data(), ifstream::in);
	if (idFile.fail()) {
	  Log(Form("Could not open file (%s) for reading.",fileName.Data()));
	  return 1;
	}
	else {
	  while(1) {
	    Char_t id[50];
	    idFile >> id;
	    if (idFile.eof()) break;
	    // Add id to the list;
	    fIdList.AddLast(new TObjString(id));
	  }
	}
	idFile.close();
      }
      delete iter;
    }
    if (nrIdFiles==0) {
      Log("Failed to retrieve any id list file.");
      return 1;
    }
  }


  // ******************************************************************************************** //
  // *** REFERENCE DATA *** //

  // Standalone runs:
  if (runType == "DAQ_MIN_TH_SCAN" ||
      runType == "DAQ_MEAN_TH_SCAN" ||
      runType == "DAQ_GEN_DAC_SCAN" || 
      runType == "DAQ_UNIFORMITY_SCAN" ||
      runType == "DAQ_NOISY_PIX_SCAN" ||
      runType == "DAQ_PIX_DELAY_SCAN" ||
      runType == "DAQ_FO_UNIF_SCAN") {
    // Store the scan container files as reference data (0 or 1 file for each equipment)
    for (UInt_t eq=0; eq<20; eq++) {
      TString id = Form("SPD_ref_scan_%d",eq);
      TList* list = GetFileSources(kDAQ,id.Data()); // (the id should be unique, so always 1 file)
      if (list) {
	TObjString* fileNameEntry = (TObjString*) list->First();
	if (fileNameEntry!=NULL) {
	  nrEqForScan++;
	  TString fileName = GetFile(kDAQ, id, fileNameEntry->GetString().Data());
	  if (fileName.IsNull()) {
	    Log(Form("GetFile failed to retrieve file %s.",fileNameEntry->GetString().Data()));
	    return 1;
	  }
	  if (!RemoveIdFromList(id.Data())) {
	    Log(Form("Warning: Retrieved file with id %s, that was not in the id list!",id.Data()));
	  }
	  TString refCAT = Form("SPD_ref_scan_eq_%d",eq);
	  if (!StoreReferenceFile(fileName.Data(),refCAT.Data())) {
	    Log(Form("Failed to store reference file %s.",fileName.Data()));
	    return 1;
	  }
	}
      }
    }
  }

  // Physics runs (online monitoring):
  if (runType == "PHYSICS") {
    // Store the phys "per run" container files as reference data
    if (!StoreRefFromTarForId("SPD_ref_phys")) return 1;
    // Store the phys "dead" container files as reference data
    if (!StoreRefFromTarForId("SPD_ref_phys_dead")) return 1;
  }


// *** OLD CODE NOT TARED
//    for (UInt_t eq=0; eq<20; eq++) {
//      TString id = Form("SPD_ref_phys_%d",eq);
//      TList* list = GetFileSources(kDAQ,id.Data()); // (the id should be unique, so always 1 file)
//      if (list) {
//	TObjString* fileNameEntry = (TObjString*) list->First();
//	if (fileNameEntry!=NULL) {
//	  nrEqForPhysN++;
//	  TString fileName = GetFile(kDAQ, id, fileNameEntry->GetString().Data());
//	  if (fileName.IsNull()) {
//	    Log(Form("GetFile failed to retrieve file %s.",fileNameEntry->GetString().Data()));
//	    return 1;
//	  }
//	  if (!RemoveIdFromList(id.Data())) {
//	    Log(Form("Warning: Retrieved file with id %s, that was not in the id list!",id.Data()));
//	  }
//	  TString refCAT = Form("SPD_ref_phys_eq_%d",eq);
//	  if (!StoreReferenceFile(fileName.Data(),refCAT.Data())) {
//	    Log(Form("Failed to store reference file %s.",fileName.Data()));
//	    return 1;
//	  }
//	}
//      }
//    }
// ***

// *** OLD CODE NOT TARED
//    // Store the phys "dead" container files as reference data (0 or 1 file for each equipment)
//    for (UInt_t eq=0; eq<20; eq++) {
//      TString id = Form("SPD_ref_phys_dead_%d",eq);
//      TList* list = GetFileSources(kDAQ,id.Data()); // (the id should be unique, so always 1 file)
//      if (list) {
//	TObjString* fileNameEntry = (TObjString*) list->First();
//	if (fileNameEntry!=NULL) {
//	  nrEqForPhysD++;
//	  TString fileName = GetFile(kDAQ, id, fileNameEntry->GetString().Data());
//	  if (fileName.IsNull()) {
//	    Log(Form("GetFile failed to retrieve file %s.",fileNameEntry->GetString().Data()));
//	    return 1;
//	  }
//	  if (!RemoveIdFromList(id.Data())) {
//	    Log(Form("Warning: Retrieved file with id %s, that was not in the id list!",id.Data()));
//	  }
//	  TString refCAT = Form("SPD_ref_phys_dead_eq_%d",eq);
//	  if (!StoreReferenceFile(fileName.Data(),refCAT.Data())) {
//	    Log(Form("Failed to store reference file %s.",fileName.Data()));
//	    return 1;
//	  }
//	}
//      }
//    }
//  }
// ***

  // ******************************************************************************************** //


  // *** NOISY AND DEAD DATA *** //

  // Standalone runs:
  if (runType == "DAQ_NOISY_PIX_SCAN") {
    // Retrieve and unpack tared calibration files from FXS
    TString id = "SPD_scan_noisy";
    TList* list = GetFileSources(kDAQ,id.Data());
    if (list) {
      UInt_t index = 0;
      while (list->At(index)!=NULL) {
	TObjString* fileNameEntry = (TObjString*) list->At(index);
	TString fileName = GetFile(kDAQ, id.Data(), fileNameEntry->GetString().Data());
	if (fileName.IsNull()) {
	  Log(Form("GetFile failed to retrieve file %s.",fileNameEntry->GetString().Data()));
	  return 1;
	}
	if (!RemoveIdFromList("SPD_scan_noisy")) {
	  Log(Form("Warning: Retrieved file with id %s, that was not in the id list!",id.Data()));
	}
	TString command = Form("tar -xf %s",fileName.Data());
	gSystem->Exec(command.Data());
	index++;
      }
    }
    // Create new database entries
    TObjArray* spdEntryNoisy = new TObjArray(240);
    spdEntryNoisy->SetOwner(kTRUE);
    for(UInt_t module=0; module<240; module++){
      AliITSCalibrationSPD* calObj = new AliITSCalibrationSPD();
      spdEntryNoisy->Add(calObj);
    }
    // Add noisy from the copied FXS files
    AliITSOnlineCalibrationSPDhandler* handler = new AliITSOnlineCalibrationSPDhandler();
    TString fileLoc = ".";
    handler->SetFileLocation(fileLoc.Data());
    handler->ReadNoisyFromFiles();
    for (Int_t module=0; module<240; module++) {
      ((AliITSCalibrationSPD*) spdEntryNoisy->At(module)) -> SetNrBad( handler->GetNrNoisy(module) );
      ((AliITSCalibrationSPD*) spdEntryNoisy->At(module)) -> SetBadList( handler->GetNoisyArray(module) );
    }
    delete handler;
    // Store the new calibration objects in OCDB
    Log("Noisy lists (scan) will be stored...");
    AliCDBMetaData metaData;
    metaData.SetBeamPeriod(0);
    metaData.SetResponsible("Henrik Tydesjo");
    metaData.SetComment("Created by SPD PreProcessor");
    // validity for this run until infinity
    if (!Store("Calib", "SPDNoisy", spdEntryNoisy, &metaData, 0, kTRUE)) {
      Log("Failed to store calibration data.");
      return 1;
    }
    Log("Database updated.");
    delete spdEntryNoisy;
  }

  // Physics runs (online monitoring):
  else if (runType == "PHYSICS") {

    // Noisy pixels:
    // Read noisy from previous calibration
    AliCDBEntry* cdbEntry = GetFromOCDB("Calib", "SPDNoisy");
    TObjArray* spdEntryNoisy;
    if(cdbEntry) {
      spdEntryNoisy = (TObjArray*)cdbEntry->GetObject();
      if(!spdEntryNoisy) return 1;
    }
    else {
      Log("Old calibration not found in database. This is required for further processing.");
      return 1;
    }
    AliITSOnlineCalibrationSPDhandler* handOld = new AliITSOnlineCalibrationSPDhandler();
    handOld->ReadNoisyFromCalibObj(spdEntryNoisy);
    // Retrieve and unpack tared calibration files from FXS
    TString idN = "SPD_phys_noisy";
    TList* listN = GetFileSources(kDAQ,idN.Data());
    if (listN) {
      UInt_t index = 0;
      while (listN->At(index)!=NULL) {
	TObjString* fileNameEntry = (TObjString*) listN->At(index);
	TString fileName = GetFile(kDAQ, idN.Data(), fileNameEntry->GetString().Data());
	if (fileName.IsNull()) {
	  Log(Form("GetFile failed to retrieve file %s.",fileNameEntry->GetString().Data()));
	  return 1;
	}
	if (!RemoveIdFromList(idN.Data())) {
	  Log(Form("Warning: Retrieved file with id %s, that was not in the id list!",idN.Data()));
	}
	TString command = Form("tar -xf %s",fileName.Data());
	gSystem->Exec(command.Data());
	index++;
      }
    }
    AliITSOnlineCalibrationSPDhandler* handNew = new AliITSOnlineCalibrationSPDhandler();
    handNew->SetFileLocation(".");
    handNew->ReadNoisyFromFiles();
    // add the new list to the old one
    UInt_t nrNewNoisy = handOld->AddNoisyFrom(handNew);
    // If new noisy pixels were found: Update calibration objects
    if (nrNewNoisy>0) {
      for (Int_t module=0; module<240; module++) {
	((AliITSCalibrationSPD*) spdEntryNoisy->At(module)) -> SetNrBad( handOld->GetNrNoisy(module) );
	((AliITSCalibrationSPD*) spdEntryNoisy->At(module)) -> SetBadList( handOld->GetNoisyArray(module) );
      }
      // Store the new calibration objects in OCDB
      Log("Noisy lists (phys) will be stored...");
      AliCDBMetaData metaData;
      metaData.SetBeamPeriod(0);
      metaData.SetResponsible("Henrik Tydesjo");
      metaData.SetComment("Created by SPD PreProcessor");  
      // validity for this run only
      if (!Store("Calib", "SPDNoisy", spdEntryNoisy, &metaData, 0, kFALSE)) {
	Log("Failed to store calibration data.");
	return 1;
      }
      Log("Database updated.");
    }
    delete handNew;

    // Dead pixels:
    // Retrieve and unpack tared calibration files from FXS
    TString idD = "SPD_phys_dead";
    TList* listD = GetFileSources(kDAQ,idD.Data());
    UInt_t nrPhysDeadFiles = 0;
    if (listD) {
      UInt_t index = 0;
      while (listD->At(index)!=NULL) {
	TObjString* fileNameEntry = (TObjString*) listD->At(index);
	TString fileName = GetFile(kDAQ, idD.Data(), fileNameEntry->GetString().Data());
	if (fileName.IsNull()) {
	  Log(Form("GetFile failed to retrieve file %s.",fileNameEntry->GetString().Data()));
	  return 1;
	}
	nrPhysDeadFiles++;
	if (!RemoveIdFromList("SPD_phys_dead")) {
	  Log(Form("Warning: Retrieved file with id %s, that was not in the id list!",idD.Data()));
	}
	TString command = Form("tar -xf %s",fileName.Data());
	gSystem->Exec(command.Data());
	index++;
      }
    }
    if (nrPhysDeadFiles==0) {
      Log(Form("Could not find files with id %s. Should be present for each run.",idD.Data()));
      return 1;
    }
    // Create new database entries
    TObjArray* spdEntryDead = new TObjArray(240);
    spdEntryDead->SetOwner(kTRUE);
    for(UInt_t module=0; module<240; module++){
      AliITSCalibrationSPD* calObj = new AliITSCalibrationSPD();
      spdEntryDead->Add(calObj);
    }
    // Add dead from the copied FXS files
    handOld->SetFileLocation(".");
    handOld->ReadDeadFromFiles();
    for (Int_t module=0; module<240; module++) {
      ((AliITSCalibrationSPD*) spdEntryDead->At(module)) -> SetNrBad( handOld->GetNrDead(module) );
      ((AliITSCalibrationSPD*) spdEntryDead->At(module)) -> SetBadList( handOld->GetDeadArray(module) );
    }
    delete handOld;
    // Store the new calibration objects in OCDB
    Log("Dead lists (phys) will be stored...");
    AliCDBMetaData metaData;
    metaData.SetBeamPeriod(0);
    metaData.SetResponsible("Henrik Tydesjo");
    metaData.SetComment("Created by SPD PreProcessor");
    // validity for this run only
    if (!Store("Calib", "SPDDead", spdEntryDead, &metaData, 0, kFALSE)) {
      Log("Failed to store calibration data.");
      return 1;
    }
    Log("Database updated.");
    delete spdEntryDead;

  }


  // check that there are no ids left in the list:
  if (fIdList.First()!=NULL) {
    TString logMessage = "";
    TListIter *iter = new TListIter(&fIdList);
    while (TObjString *st = (TObjString*)iter->Next()) {
      logMessage.Append(st->GetString());
      logMessage.Append(" ");
    }
    delete iter;
    Log(Form("Files with the following ids were never retrieved: %s.",logMessage.Data()));
    return 1;
  }

  fIdList.Clear();

  return 0; // 0 means success

}
//_________________________________________________________________________________________
Bool_t AliITSPreprocessorSPD::RemoveIdFromList(const Char_t *id) {
  // removes id from the list of ids
  Bool_t found = kFALSE;
  TListIter *iter = new TListIter(&fIdList);
  while (TObjString *st = (TObjString*)iter->Next()) {
    if (st->GetString().CompareTo(id)==0) {
      fIdList.Remove(st);
      found = kTRUE;
      break;
    }
  }
  delete iter;
  return found;
}
//_________________________________________________________________________________________
Bool_t AliITSPreprocessorSPD::StoreRefFromTarForId(const Char_t *id) {
  // store reference files from tar file for the id given (this is just to not duplicate code)
  TList* list = GetFileSources(kDAQ,id);
  if (list) {
    UInt_t index = 0;
    while (list->At(index)!=NULL) {
      TObjString* fileNameEntry = (TObjString*) list->At(index);
      TString fileName = GetFile(kDAQ, id, fileNameEntry->GetString().Data());
      if (fileName.IsNull()) {
	Log(Form("GetFile failed to retrieve file %s.",fileNameEntry->GetString().Data()));
	return kFALSE;
      }
      if (!RemoveIdFromList(id)) {
	Log(Form("Warning: Retrieved file with id %s, that was not in the id list!",id));
      }
      // get the file names from the tar file
      //      TString pwd = gSystem->pwd();
      //      TString tempFileName = Form("%s/tempTar.txt",pwd.Data());
      TString tempFileName = "tempTar.txt";
      TString command = Form("tar -tf %s > %s",fileName.Data(),tempFileName.Data());
      gSystem->Exec(command.Data());
      TList fList;
      ifstream tempFile;
      tempFile.open(tempFileName.Data(), ifstream::in);
      if (tempFile.fail()) {
	Log(Form("Could not open file (%s) for reading.",tempFileName.Data()));
	return kFALSE;
      }
      else {
	while(1) {
	  Char_t fileN[100];
	  tempFile >> fileN;
	  if (tempFile.eof()) break;
	  fList.AddLast(new TObjString(fileN));
	}
      }
      // close and remove temp file
      tempFile.close();
      command = Form("rm -f %s",tempFileName.Data());
      gSystem->Exec(command.Data());
      // unpack
      command = Form("tar -xf %s",fileName.Data());
      gSystem->Exec(command.Data());
      // store each file
      UInt_t index2 = 0;
      while (fList.At(index2)!=NULL) {
	TString eqFileName = ((TObjString*)fList.At(index2))->GetString();
	// get eq id
	TString eqStr = eqFileName.Data();
	UInt_t len = eqStr.Length();
	eqStr.Replace(0,len-7,"",0);
	eqStr.ReplaceAll("_",1,"",0);
	eqStr.ReplaceAll(".root",5,"",0);
	Int_t eqId = eqStr.Atoi();
	if (eqId>=0 && eqId<20) {
	  TString refCAT = Form("%s_eq_%d",id,eqId);
	  if (!StoreReferenceFile(eqFileName.Data(),refCAT.Data())) {
	    Log(Form("Failed to store reference file %s.",eqFileName.Data()));
	    return kFALSE;
	  }
	}
	else {
	  Log(Form("Eq ID %d out of bounds for file %s",eqId,eqFileName.Data()));
	  fList.Clear();
	  return kFALSE;
	}
	index2++;
      }
      fList.Clear();
      index++;
    }
  }
  return kTRUE;
}
Commit	Line	Data
b15de2d2	1	///////////////////////////////////////////////
	2	// Author: Henrik Tydesjo //
	3	// Preprocessor Class for the SPD //
	4	// //
	5	///////////////////////////////////////////////
3f0e013c	6
3f0e013c	7	#include "AliITSPreprocessorSPD.h"
b15de2d2	8	#include "AliITSCalibrationSPD.h"
b15de2d2	9	#include "AliITSOnlineCalibrationSPDhandler.h"
03fc6773	10	#include "AliCDBEntry.h"
b15de2d2	11	#include "AliCDBMetaData.h"
03fc6773	12	#include "AliShuttleInterface.h"
b15de2d2	13	#include "AliLog.h"
03fc6773	14	#include <TTimeStamp.h>
	15	#include <TObjString.h>
	16	#include <TSystem.h>
4f88491f	17	#include <fstream>
	18
	19	/* $Id$ */
3f0e013c	20
b15de2d2	21	ClassImp(AliITSPreprocessorSPD)
3f0e013c	22
b15de2d2	23	//______________________________________________________________________________________________
b15de2d2	24	AliITSPreprocessorSPD::AliITSPreprocessorSPD(AliShuttleInterface* shuttle) :
4f88491f	25	AliPreprocessor("SPD", shuttle), fIdList()
3f0e013c	26	{
b15de2d2	27	// constructor
b2435c94	28	AddRunType("DAQ_MIN_TH_SCAN");
b2435c94	29	AddRunType("DAQ_MEAN_TH_SCAN");
ad07f1ab	30	AddRunType("DAQ_GEN_DAC_SCAN");
b2435c94	31	AddRunType("DAQ_UNIFORMITY_SCAN");
	32	AddRunType("DAQ_NOISY_PIX_SCAN");
	33	AddRunType("DAQ_PIX_DELAY_SCAN");
	34	AddRunType("DAQ_FO_UNIF_SCAN");
	35	AddRunType("PHYSICS");
	36
4f88491f	37	fIdList.SetOwner(kTRUE);
3f0e013c	38	}
3f0e013c	39
b15de2d2	40	//______________________________________________________________________________________________
b15de2d2	41	AliITSPreprocessorSPD::~AliITSPreprocessorSPD()
3f0e013c	42	{
b15de2d2	43	// destructor
3f0e013c	44	}
3f0e013c	45
b15de2d2	46	//______________________________________________________________________________________________
	47	void AliITSPreprocessorSPD::Initialize(Int_t run, UInt_t startTime,
	48	UInt_t endTime)
3f0e013c	49	{
b15de2d2	50	// initialize
b15de2d2	51	AliPreprocessor::Initialize(run, startTime, endTime);
3f0e013c	52
b15de2d2	53	AliInfo(Form("\n\tRun %d \n\tStartTime %s \n\tEndTime %s", run,
	54	TTimeStamp(startTime).AsString(),
	55	TTimeStamp(endTime).AsString()));
3f0e013c	56	}
fcf95fc7	57
b15de2d2	58	//______________________________________________________________________________________________
0c0426a2	59	UInt_t AliITSPreprocessorSPD::Process(TMap* /dcsAliasMap/)
fcf95fc7	60	{
b15de2d2	61	// Do the actual preprocessing
fcf95fc7	62
03fc6773	63
53ae21ce	64	// * GET RUN TYPE *
ad18504e	65
ad18504e	66	TString runType = GetRunType();
03fc6773	67
4f88491f	68
4f88491f	69	fIdList.Clear();
6727e2db	70	UInt_t nrEqForScan = 0;
4f88491f	71	// UInt_t nrEqForPhysN = 0;
	72	// UInt_t nrEqForPhysD = 0;
	73
	74	// ******************************************************************************************** //
	75	// * GET THE FILE IDs FOR DEBUGGING * //
	76	if (runType == "DAQ_MIN_TH_SCAN" \|\|
	77	runType == "DAQ_MEAN_TH_SCAN" \|\|
ad07f1ab	78	runType == "DAQ_GEN_DAC_SCAN" \|\|
4f88491f	79	runType == "DAQ_UNIFORMITY_SCAN" \|\|
	80	runType == "DAQ_NOISY_PIX_SCAN" \|\|
	81	runType == "DAQ_PIX_DELAY_SCAN" \|\|
	82	runType == "DAQ_FO_UNIF_SCAN" \|\|
	83	runType == "PHYSICS") {
	84	TString idListId = "SPD_id_list";
	85	TList* list = GetFileSources(kDAQ,idListId.Data());
	86	UInt_t nrIdFiles = 0;
	87	if (list) {
	88	TListIter *iter = new TListIter(list);
	89	while (TObjString* fileNameEntry = (TObjString*) iter->Next()) {
	90	TString fileName = GetFile(kDAQ, idListId.Data(), fileNameEntry->GetString().Data());
	91	if (fileName.IsNull()) {
	92	Log(Form("GetFile failed to retrieve file %s.",fileNameEntry->GetString().Data()));
	93	return 1;
	94	}
	95	nrIdFiles++;
	96	ifstream idFile;
	97	idFile.open(fileName.Data(), ifstream::in);
	98	if (idFile.fail()) {
	99	Log(Form("Could not open file (%s) for reading.",fileName.Data()));
	100	return 1;
	101	}
	102	else {
	103	while(1) {
	104	Char_t id[50];
	105	idFile >> id;
	106	if (idFile.eof()) break;
	107	// Add id to the list;
	108	fIdList.AddLast(new TObjString(id));
	109	}
	110	}
	111	idFile.close();
	112	}
	113	delete iter;
	114	}
	115	if (nrIdFiles==0) {
	116	Log("Failed to retrieve any id list file.");
	117	return 1;
	118	}
	119	}
	120
ad18504e	121
6727e2db	122	// ******************************************************************************************** //
53ae21ce	123	// * REFERENCE DATA * //
	124
	125	// Standalone runs:
	126	if (runType == "DAQ_MIN_TH_SCAN" \|\|
	127	runType == "DAQ_MEAN_TH_SCAN" \|\|
ad07f1ab	128	runType == "DAQ_GEN_DAC_SCAN" \|\|
53ae21ce	129	runType == "DAQ_UNIFORMITY_SCAN" \|\|
	130	runType == "DAQ_NOISY_PIX_SCAN" \|\|
	131	runType == "DAQ_PIX_DELAY_SCAN" \|\|
	132	runType == "DAQ_FO_UNIF_SCAN") {
6727e2db	133	// Store the scan container files as reference data (0 or 1 file for each equipment)
53ae21ce	134	for (UInt_t eq=0; eq<20; eq++) {
6727e2db	135	TString id = Form("SPD_ref_scan_%d",eq);
53ae21ce	136	TList* list = GetFileSources(kDAQ,id.Data()); // (the id should be unique, so always 1 file)
	137	if (list) {
	138	TObjString* fileNameEntry = (TObjString*) list->First();
	139	if (fileNameEntry!=NULL) {
6727e2db	140	nrEqForScan++;
53ae21ce	141	TString fileName = GetFile(kDAQ, id, fileNameEntry->GetString().Data());
4f88491f	142	if (fileName.IsNull()) {
	143	Log(Form("GetFile failed to retrieve file %s.",fileNameEntry->GetString().Data()));
	144	return 1;
	145	}
	146	if (!RemoveIdFromList(id.Data())) {
	147	Log(Form("Warning: Retrieved file with id %s, that was not in the id list!",id.Data()));
	148	}
6727e2db	149	TString refCAT = Form("SPD_ref_scan_eq_%d",eq);
53ae21ce	150	if (!StoreReferenceFile(fileName.Data(),refCAT.Data())) {
	151	Log(Form("Failed to store reference file %s.",fileName.Data()));
	152	return 1;
	153	}
0c0426a2	154	}
	155	}
	156	}
	157	}
03fc6773	158
53ae21ce	159	// Physics runs (online monitoring):
53ae21ce	160	if (runType == "PHYSICS") {
4f88491f	161	// Store the phys "per run" container files as reference data
	162	if (!StoreRefFromTarForId("SPD_ref_phys")) return 1;
	163	// Store the phys "dead" container files as reference data
	164	if (!StoreRefFromTarForId("SPD_ref_phys_dead")) return 1;
53ae21ce	165	}
03fc6773	166
4f88491f	167
	168	// *** OLD CODE NOT TARED
	169	// for (UInt_t eq=0; eq<20; eq++) {
	170	// TString id = Form("SPD_ref_phys_%d",eq);
	171	// TList* list = GetFileSources(kDAQ,id.Data()); // (the id should be unique, so always 1 file)
	172	// if (list) {
	173	// TObjString* fileNameEntry = (TObjString*) list->First();
	174	// if (fileNameEntry!=NULL) {
	175	// nrEqForPhysN++;
	176	// TString fileName = GetFile(kDAQ, id, fileNameEntry->GetString().Data());
	177	// if (fileName.IsNull()) {
	178	// Log(Form("GetFile failed to retrieve file %s.",fileNameEntry->GetString().Data()));
	179	// return 1;
	180	// }
	181	// if (!RemoveIdFromList(id.Data())) {
	182	// Log(Form("Warning: Retrieved file with id %s, that was not in the id list!",id.Data()));
	183	// }
	184	// TString refCAT = Form("SPD_ref_phys_eq_%d",eq);
	185	// if (!StoreReferenceFile(fileName.Data(),refCAT.Data())) {
	186	// Log(Form("Failed to store reference file %s.",fileName.Data()));
	187	// return 1;
	188	// }
	189	// }
	190	// }
	191	// }
	192	// ***
	193
	194	// *** OLD CODE NOT TARED
	195	// // Store the phys "dead" container files as reference data (0 or 1 file for each equipment)
	196	// for (UInt_t eq=0; eq<20; eq++) {
	197	// TString id = Form("SPD_ref_phys_dead_%d",eq);
	198	// TList* list = GetFileSources(kDAQ,id.Data()); // (the id should be unique, so always 1 file)
	199	// if (list) {
	200	// TObjString* fileNameEntry = (TObjString*) list->First();
	201	// if (fileNameEntry!=NULL) {
	202	// nrEqForPhysD++;
	203	// TString fileName = GetFile(kDAQ, id, fileNameEntry->GetString().Data());
	204	// if (fileName.IsNull()) {
	205	// Log(Form("GetFile failed to retrieve file %s.",fileNameEntry->GetString().Data()));
	206	// return 1;
	207	// }
	208	// if (!RemoveIdFromList(id.Data())) {
	209	// Log(Form("Warning: Retrieved file with id %s, that was not in the id list!",id.Data()));
	210	// }
	211	// TString refCAT = Form("SPD_ref_phys_dead_eq_%d",eq);
	212	// if (!StoreReferenceFile(fileName.Data(),refCAT.Data())) {
	213	// Log(Form("Failed to store reference file %s.",fileName.Data()));
	214	// return 1;
	215	// }
	216	// }
	217	// }
	218	// }
	219	// }
	220	// ***
	221
6727e2db	222	// ******************************************************************************************** //
03fc6773	223
03fc6773	224
53ae21ce	225	// * NOISY AND DEAD DATA * //
03fc6773	226
6727e2db	227	// Standalone runs:
	228	if (runType == "DAQ_NOISY_PIX_SCAN") {
	229	// Retrieve and unpack tared calibration files from FXS
4f88491f	230	TString id = "SPD_scan_noisy";
4f88491f	231	TList* list = GetFileSources(kDAQ,id.Data());
6727e2db	232	if (list) {
	233	UInt_t index = 0;
	234	while (list->At(index)!=NULL) {
	235	TObjString* fileNameEntry = (TObjString*) list->At(index);
4f88491f	236	TString fileName = GetFile(kDAQ, id.Data(), fileNameEntry->GetString().Data());
	237	if (fileName.IsNull()) {
	238	Log(Form("GetFile failed to retrieve file %s.",fileNameEntry->GetString().Data()));
	239	return 1;
	240	}
	241	if (!RemoveIdFromList("SPD_scan_noisy")) {
	242	Log(Form("Warning: Retrieved file with id %s, that was not in the id list!",id.Data()));
	243	}
6727e2db	244	TString command = Form("tar -xf %s",fileName.Data());
	245	gSystem->Exec(command.Data());
	246	index++;
	247	}
	248	}
	249	// Create new database entries
	250	TObjArray* spdEntryNoisy = new TObjArray(240);
	251	spdEntryNoisy->SetOwner(kTRUE);
	252	for(UInt_t module=0; module<240; module++){
	253	AliITSCalibrationSPD* calObj = new AliITSCalibrationSPD();
	254	spdEntryNoisy->Add(calObj);
	255	}
	256	// Add noisy from the copied FXS files
	257	AliITSOnlineCalibrationSPDhandler* handler = new AliITSOnlineCalibrationSPDhandler();
	258	TString fileLoc = ".";
	259	handler->SetFileLocation(fileLoc.Data());
	260	handler->ReadNoisyFromFiles();
	261	for (Int_t module=0; module<240; module++) {
	262	((AliITSCalibrationSPD*) spdEntryNoisy->At(module)) -> SetNrBad( handler->GetNrNoisy(module) );
	263	((AliITSCalibrationSPD*) spdEntryNoisy->At(module)) -> SetBadList( handler->GetNoisyArray(module) );
	264	}
	265	delete handler;
	266	// Store the new calibration objects in OCDB
	267	Log("Noisy lists (scan) will be stored...");
	268	AliCDBMetaData metaData;
	269	metaData.SetBeamPeriod(0);
	270	metaData.SetResponsible("Henrik Tydesjo");
	271	metaData.SetComment("Created by SPD PreProcessor");
	272	// validity for this run until infinity
	273	if (!Store("Calib", "SPDNoisy", spdEntryNoisy, &metaData, 0, kTRUE)) {
	274	Log("Failed to store calibration data.");
	275	return 1;
	276	}
	277	Log("Database updated.");
	278	delete spdEntryNoisy;
	279	}
	280
	281	// Physics runs (online monitoring):
	282	else if (runType == "PHYSICS") {
	283
	284	// Noisy pixels:
	285	// Read noisy from previous calibration
	286	AliCDBEntry* cdbEntry = GetFromOCDB("Calib", "SPDNoisy");
	287	TObjArray* spdEntryNoisy;
53ae21ce	288	if(cdbEntry) {
6727e2db	289	spdEntryNoisy = (TObjArray*)cdbEntry->GetObject();
6727e2db	290	if(!spdEntryNoisy) return 1;
03fc6773	291	}
53ae21ce	292	else {
53ae21ce	293	Log("Old calibration not found in database. This is required for further processing.");
0c0426a2	294	return 1;
0c0426a2	295	}
6727e2db	296	AliITSOnlineCalibrationSPDhandler* handOld = new AliITSOnlineCalibrationSPDhandler();
	297	handOld->ReadNoisyFromCalibObj(spdEntryNoisy);
	298	// Retrieve and unpack tared calibration files from FXS
4f88491f	299	TString idN = "SPD_phys_noisy";
4f88491f	300	TList* listN = GetFileSources(kDAQ,idN.Data());
6727e2db	301	if (listN) {
	302	UInt_t index = 0;
	303	while (listN->At(index)!=NULL) {
	304	TObjString* fileNameEntry = (TObjString*) listN->At(index);
4f88491f	305	TString fileName = GetFile(kDAQ, idN.Data(), fileNameEntry->GetString().Data());
	306	if (fileName.IsNull()) {
	307	Log(Form("GetFile failed to retrieve file %s.",fileNameEntry->GetString().Data()));
	308	return 1;
	309	}
	310	if (!RemoveIdFromList(idN.Data())) {
	311	Log(Form("Warning: Retrieved file with id %s, that was not in the id list!",idN.Data()));
	312	}
6727e2db	313	TString command = Form("tar -xf %s",fileName.Data());
	314	gSystem->Exec(command.Data());
	315	index++;
53ae21ce	316	}
6727e2db	317	}
	318	AliITSOnlineCalibrationSPDhandler* handNew = new AliITSOnlineCalibrationSPDhandler();
	319	handNew->SetFileLocation(".");
	320	handNew->ReadNoisyFromFiles();
	321	// add the new list to the old one
	322	UInt_t nrNewNoisy = handOld->AddNoisyFrom(handNew);
	323	// If new noisy pixels were found: Update calibration objects
	324	if (nrNewNoisy>0) {
53ae21ce	325	for (Int_t module=0; module<240; module++) {
6727e2db	326	((AliITSCalibrationSPD*) spdEntryNoisy->At(module)) -> SetNrBad( handOld->GetNrNoisy(module) );
6727e2db	327	((AliITSCalibrationSPD*) spdEntryNoisy->At(module)) -> SetBadList( handOld->GetNoisyArray(module) );
53ae21ce	328	}
6727e2db	329	// Store the new calibration objects in OCDB
	330	Log("Noisy lists (phys) will be stored...");
	331	AliCDBMetaData metaData;
	332	metaData.SetBeamPeriod(0);
	333	metaData.SetResponsible("Henrik Tydesjo");
	334	metaData.SetComment("Created by SPD PreProcessor");
	335	// validity for this run only
	336	if (!Store("Calib", "SPDNoisy", spdEntryNoisy, &metaData, 0, kFALSE)) {
	337	Log("Failed to store calibration data.");
	338	return 1;
53ae21ce	339	}
6727e2db	340	Log("Database updated.");
53ae21ce	341	}
6727e2db	342	delete handNew;
53ae21ce	343
6727e2db	344	// Dead pixels:
6727e2db	345	// Retrieve and unpack tared calibration files from FXS
4f88491f	346	TString idD = "SPD_phys_dead";
	347	TList* listD = GetFileSources(kDAQ,idD.Data());
	348	UInt_t nrPhysDeadFiles = 0;
6727e2db	349	if (listD) {
	350	UInt_t index = 0;
	351	while (listD->At(index)!=NULL) {
	352	TObjString* fileNameEntry = (TObjString*) listD->At(index);
4f88491f	353	TString fileName = GetFile(kDAQ, idD.Data(), fileNameEntry->GetString().Data());
	354	if (fileName.IsNull()) {
	355	Log(Form("GetFile failed to retrieve file %s.",fileNameEntry->GetString().Data()));
	356	return 1;
	357	}
	358	nrPhysDeadFiles++;
	359	if (!RemoveIdFromList("SPD_phys_dead")) {
	360	Log(Form("Warning: Retrieved file with id %s, that was not in the id list!",idD.Data()));
	361	}
6727e2db	362	TString command = Form("tar -xf %s",fileName.Data());
	363	gSystem->Exec(command.Data());
	364	index++;
	365	}
53ae21ce	366	}
4f88491f	367	if (nrPhysDeadFiles==0) {
	368	Log(Form("Could not find files with id %s. Should be present for each run.",idD.Data()));
	369	return 1;
	370	}
6727e2db	371	// Create new database entries
	372	TObjArray* spdEntryDead = new TObjArray(240);
	373	spdEntryDead->SetOwner(kTRUE);
	374	for(UInt_t module=0; module<240; module++){
	375	AliITSCalibrationSPD* calObj = new AliITSCalibrationSPD();
	376	spdEntryDead->Add(calObj);
	377	}
	378	// Add dead from the copied FXS files
	379	handOld->SetFileLocation(".");
	380	handOld->ReadDeadFromFiles();
	381	for (Int_t module=0; module<240; module++) {
	382	((AliITSCalibrationSPD*) spdEntryDead->At(module)) -> SetNrBad( handOld->GetNrDead(module) );
	383	((AliITSCalibrationSPD*) spdEntryDead->At(module)) -> SetBadList( handOld->GetDeadArray(module) );
	384	}
	385	delete handOld;
	386	// Store the new calibration objects in OCDB
	387	Log("Dead lists (phys) will be stored...");
	388	AliCDBMetaData metaData;
	389	metaData.SetBeamPeriod(0);
	390	metaData.SetResponsible("Henrik Tydesjo");
	391	metaData.SetComment("Created by SPD PreProcessor");
	392	// validity for this run only
	393	if (!Store("Calib", "SPDDead", spdEntryDead, &metaData, 0, kFALSE)) {
	394	Log("Failed to store calibration data.");
	395	return 1;
	396	}
	397	Log("Database updated.");
	398	delete spdEntryDead;
53ae21ce	399
03fc6773	400	}
03fc6773	401
03fc6773	402
4f88491f	403	// check that there are no ids left in the list:
	404	if (fIdList.First()!=NULL) {
	405	TString logMessage = "";
	406	TListIter *iter = new TListIter(&fIdList);
	407	while (TObjString st = (TObjString)iter->Next()) {
	408	logMessage.Append(st->GetString());
	409	logMessage.Append(" ");
	410	}
	411	delete iter;
	412	Log(Form("Files with the following ids were never retrieved: %s.",logMessage.Data()));
	413	return 1;
	414	}
	415
	416	fIdList.Clear();
	417
53ae21ce	418	return 0; // 0 means success
03fc6773	419
fcf95fc7	420	}
4f88491f	421	//_________________________________________________________________________________________
	422	Bool_t AliITSPreprocessorSPD::RemoveIdFromList(const Char_t *id) {
	423	// removes id from the list of ids
	424	Bool_t found = kFALSE;
	425	TListIter *iter = new TListIter(&fIdList);
	426	while (TObjString st = (TObjString)iter->Next()) {
	427	if (st->GetString().CompareTo(id)==0) {
	428	fIdList.Remove(st);
	429	found = kTRUE;
	430	break;
	431	}
	432	}
	433	delete iter;
	434	return found;
	435	}
	436	//_________________________________________________________________________________________
	437	Bool_t AliITSPreprocessorSPD::StoreRefFromTarForId(const Char_t *id) {
	438	// store reference files from tar file for the id given (this is just to not duplicate code)
	439	TList* list = GetFileSources(kDAQ,id);
	440	if (list) {
	441	UInt_t index = 0;
	442	while (list->At(index)!=NULL) {
	443	TObjString* fileNameEntry = (TObjString*) list->At(index);
	444	TString fileName = GetFile(kDAQ, id, fileNameEntry->GetString().Data());
	445	if (fileName.IsNull()) {
	446	Log(Form("GetFile failed to retrieve file %s.",fileNameEntry->GetString().Data()));
	447	return kFALSE;
	448	}
	449	if (!RemoveIdFromList(id)) {
	450	Log(Form("Warning: Retrieved file with id %s, that was not in the id list!",id));
	451	}
	452	// get the file names from the tar file
	453	// TString pwd = gSystem->pwd();
	454	// TString tempFileName = Form("%s/tempTar.txt",pwd.Data());
	455	TString tempFileName = "tempTar.txt";
	456	TString command = Form("tar -tf %s > %s",fileName.Data(),tempFileName.Data());
	457	gSystem->Exec(command.Data());
	458	TList fList;
	459	ifstream tempFile;
	460	tempFile.open(tempFileName.Data(), ifstream::in);
	461	if (tempFile.fail()) {
	462	Log(Form("Could not open file (%s) for reading.",tempFileName.Data()));
	463	return kFALSE;
	464	}
	465	else {
	466	while(1) {
	467	Char_t fileN[100];
	468	tempFile >> fileN;
	469	if (tempFile.eof()) break;
	470	fList.AddLast(new TObjString(fileN));
	471	}
	472	}
	473	// close and remove temp file
	474	tempFile.close();
	475	command = Form("rm -f %s",tempFileName.Data());
	476	gSystem->Exec(command.Data());
	477	// unpack
	478	command = Form("tar -xf %s",fileName.Data());
	479	gSystem->Exec(command.Data());
	480	// store each file
	481	UInt_t index2 = 0;
	482	while (fList.At(index2)!=NULL) {
8f02666b	483	TString eqFileName = ((TObjString*)fList.At(index2))->GetString();
4f88491f	484	// get eq id
8f02666b	485	TString eqStr = eqFileName.Data();
4f88491f	486	UInt_t len = eqStr.Length();
	487	eqStr.Replace(0,len-7,"",0);
	488	eqStr.ReplaceAll("_",1,"",0);
	489	eqStr.ReplaceAll(".root",5,"",0);
	490	Int_t eqId = eqStr.Atoi();
	491	if (eqId>=0 && eqId<20) {
	492	TString refCAT = Form("%s_eq_%d",id,eqId);
8f02666b	493	if (!StoreReferenceFile(eqFileName.Data(),refCAT.Data())) {
8f02666b	494	Log(Form("Failed to store reference file %s.",eqFileName.Data()));
4f88491f	495	return kFALSE;
	496	}
	497	}
	498	else {
8f02666b	499	Log(Form("Eq ID %d out of bounds for file %s",eqId,eqFileName.Data()));
4f88491f	500	fList.Clear();
	501	return kFALSE;
	502	}
	503	index2++;
	504	}
	505	fList.Clear();
	506	index++;
	507	}
	508	}
	509	return kTRUE;
	510	}