S4Level2/src/S4Core.cpp

//
// C/C++ headers
//
#include <fstream>
#include <string.h>
#include <iostream>
#include <cstring>
#include <stdio.h>
//
// ROOT headers
//
#include <TGraph.h>
#include <TF1.h>
#include <TTree.h>
#include <TClassEdit.h>
#include <TObject.h>
#include <TList.h>
#include <TArrayI.h>
#include <TArrayD.h>
#include <TSystem.h>
#include <TSystemDirectory.h>
#include <TString.h>
#include <TFile.h>
#include <TClass.h>
#include <TSQLServer.h>
#include <TSQLRow.h>
#include <TSQLResult.h>
#include <TClonesArray.h>
#include <stdlib.h>
#include <math.h>
//
// RunInfo header
//
#include <RunInfo.h>
#include <GLTables.h>
//
// YODA headers
//
#include <PamelaRun.h>
#include <PscuHeader.h>
#include <PscuEvent.h>
#include <EventHeader.h>
#include <CalibS4Event.h>
#include <physics/S4/S4Event.h>
//#include <yodaUtility.h>

//
// This program headers
//
#include <S4Level2.h>
#include <S4Core.h>
#include <S4Verl2.h>

using namespace std;

//
//
//
/*
 * Fit function Received from Valeria Malvezzi 06/02/2006
 */
Double_t fitf(Double_t *x, Double_t *par){  
  Double_t fitval =(par[0]*x[0])+par[1];
  return fitval;
}

/*
 * Fit the S4 calibration with a straight line - Received from Valeria Malvezzi 06/02/2006
 */
TArrayD *S4_paramfit(UInt_t atime, TSQLServer *dbc){      
  //  
  TArrayD *parametri = new TArrayD(2);
  //
  GL_S4_CALIB *glS4calib = new GL_S4_CALIB();
  //
  if ( !dbc->IsConnected() ) throw -504;
  glS4calib->Query_GL_S4_CALIB(atime, dbc);
  //
  GL_ROOT *glroot = new GL_ROOT();
  if ( !dbc->IsConnected() ) throw -504;
  glroot->Query_GL_ROOT(glS4calib->ID_ROOT_L0,dbc);
  //
  stringstream ftmpname;
  ftmpname.str("");
  ftmpname << glroot->PATH.Data() << "/";
  ftmpname << glroot->NAME.Data();
  //
  TFile *file = 0;
  file = new TFile(ftmpname.str().c_str());
  //
  if ( !file ) return(NULL);
  //
  TTree *tr = 0;
  tr = (TTree*)file->Get("CalibS4");
  if ( !tr ){
    file->Close();
    return(NULL);
  };
  //
  pamela::CalibS4Event *S4CalibEvent = 0;
  tr->SetBranchAddress("CalibS4", &S4CalibEvent);
  if ( tr->GetEntries() < glS4calib->EV_ROOT ) return(NULL);
  //
  tr->GetEntry(glS4calib->EV_ROOT);
  //
  //----------- variable initialization -------------------------------------------------
  //
  Double_t mip[3]={1, 30, 300};
  Double_t adc[3] = {0.,0.,0.};
  //
  //------------ Fit calibrations and find parameters to calibrate data ------------------
  //
  pamela::S4::S4Event  *s4Record = 0; 
  //
  for (Int_t j = 0; j < 4; j++){
    for (Int_t i = 0; i < 128; i++){
      s4Record = (pamela::S4::S4Event*)S4CalibEvent->Records->At((j*128 + i));
      switch (j) {
      case 0 :{
        adc[0]=adc[0]+((s4Record->S4_DATA)-32);
        break;
      };
      case 1 :{
        adc[1]=adc[1]+((s4Record->S4_DATA)-32);
        break;
      };
      case 3 :{
        adc[2]=adc[2]+((s4Record->S4_DATA)-32);
        break;
      };
      };
    };
  };
  //
  adc[0]=adc[0]/128;
  adc[1]=adc[1]/128;
  adc[2]=adc[2]/128;  
  //  if ( IsDebug() ) printf(" adc1 = %g adc2 = %g adc3 = %g\n",adc[0],adc[1],adc[2]);
  TGraph *fitpar = new TGraph (3, adc, mip);
  TF1 *func = new TF1("fitf", fitf, -1., 400., 2); // definizione della funzione, 2 = num. parametri
  //  TF1 *func = new TF1("fitf", fitf, -0., 1000., 2); // definizione della funzione, 2 = num. parametri
  //  
  func->SetParameters(0.3,1.);        //inizializzazione dei parametri a 1
  func->SetParNames("m","q");      //definisce il nome dei parametri
  fitpar->Fit(func,"qr");          //fitta fitpar con la funzione func nel range definito nella funzione
  //fitpar->Fit(func,"r");          //fitta fitpar con la funzione func nel range definito nella funzione
  parametri->AddAt(func->GetParameter(0),0);
  parametri->AddAt(func->GetParameter(1),1); 
  //  if ( parametri[0] < 0. || parametri[0] > 0.5 || parametri[1] < 0.7 || parametri[1] > 1.1 ) valid = 0;
  //
  delete glroot;
  delete glS4calib;
  delete fitpar;
  delete func;
  file->Close();
  // 
  return parametri;
};

//
// CORE ROUTINE
//
//
int S4Core(UInt_t run, TFile *file, TSQLServer *dbc, Int_t S4argc, char *S4argv[]){
  Int_t i = 0;
  //
  TString processFolder = "S4Folder";
  //
  Bool_t debug = false;
  //
  Bool_t verbose = false;
  //    
  if ( S4argc > 0 ){
    i = 0;
    while ( i < S4argc ){
      if ( !strcmp(S4argv[i],"-processFolder") ) {
        if ( S4argc < i+1 ){
          throw -3;
        };
        processFolder = (TString)S4argv[i+1];
        i++;
      };
      if ( (!strcmp(S4argv[i],"--debug")) || (!strcmp(S4argv[i],"-g"))) {
        verbose = true;
      };
      if ( (!strcmp(S4argv[i],"--verbose")) || (!strcmp(S4argv[i],"-v"))) {
        verbose = true;
      };
      i++;
    };
  };
  // 
  const char* outDir = gSystem->DirName(gSystem->DirName(file->GetPath()));
  //
  // Variables for level2 
  //
  TTree *S4tr = 0;
  UInt_t nevents = 0;
  //
  // variables needed to reprocess data
  //
  Long64_t maxsize = 10000000000LL;  
  TTree::SetMaxTreeSize(maxsize);
  //
  TString S4version;
  ItoRunInfo *runinfo = 0;
  TArrayI *runlist = 0;
  TTree *S4trclone = 0;
  Bool_t reproc = false;
  Bool_t reprocall = false;
  UInt_t nobefrun = 0;
  UInt_t noaftrun = 0;
  UInt_t numbofrun = 0;
  stringstream ftmpname;
  TString fname;
  UInt_t totfileentries = 0;
  UInt_t idRun = 0;
  Double_t  ParamFit0 =  0.; 
  Double_t  ParamFit1 =  0.; 
  //
  // variables needed to handle error signals
  //
  Int_t code = 0;
  Int_t sgnl;
  //
  // S4 level2 classes
  //
  S4Level2 *s4 = new S4Level2();
  S4Level2 *s4clone = new S4Level2();
  //
  // define variables for opening and reading level0 file
  //
  TFile *l0File = 0;
  TTree *l0tr = 0;
  TBranch *l0head = 0;
  TBranch *l0S4 =0;
  pamela::S4::S4Event  *l0s4e = 0;
  pamela::EventHeader *eh = 0;
  pamela::PscuHeader *ph = 0;
  //
  // Define other basic variables
  // 
  UInt_t procev = 0;
  stringstream file2;
  stringstream file3;
  stringstream qy;
  Int_t totevent = 0;
  UInt_t atime = 0;
  //  Int_t ei = 0; 
  UInt_t re = 0;
  //
  // Working filename
  //
  TString outputfile;
  stringstream name;
  name.str("");
  name << outDir << "/";
  //
  // temporary file and folder
  //
  TFile *tempfile = 0;
  TTree *tempS4 = 0;
  stringstream tempname;
  stringstream S4folder;
  tempname.str("");
  tempname << outDir;
  tempname << "/" << processFolder.Data();
  S4folder.str("");
  S4folder << tempname.str().c_str();
  gSystem->MakeDirectory(S4folder.str().c_str());
  tempname << "/S4tree_run";
  tempname << run << ".root";  
  //
  // DB classes
  //
  GL_ROOT *glroot = new GL_ROOT();
  GL_TIMESYNC *dbtime = 0;
  //
  // Let's start!
  //
  // As a first thing we must check what we have to do: if run = 0 we must process all events in the file has been passed
  // if run != 0 we must process only that run but first we have to check if the tree MyDetector2 already exist in the file
  // if it exists we are reprocessing data and we must delete that entries, if not we must create it.
  // 
  if ( run == 0 )  reproc = true;
  //
  //
  // Output file is "outputfile"
  //
  if ( !file->IsOpen() ){
    //printf(" S4 - ERROR: cannot open file for writing\n");
    throw -501;    
  };
  //
  // Retrieve GL_RUN variables from the level2 file
  //  
  S4version = S4Info(false); // we should decide how to handle versioning system
  //
  // create an interface to RunInfo called "runinfo"
  //
  runinfo = new ItoRunInfo(file);
  //
  // open "Run" tree in level2 file, if not existing return an error (sngl != 0)
  //
  sgnl = 0;
  sgnl = runinfo->Update(run,"S4",S4version);
  if ( sgnl ){
    //printf(" S4 - ERROR: RunInfo exited with non-zero status\n");
    code = sgnl;
    goto closeandexit;
  } else {
    sgnl = 0;
  };
  //
  // number of events in the file BEFORE the first event of our run
  //
  nobefrun = runinfo->GetFirstEntry();
  //
  // total number of events in the file 
  //
  totfileentries = runinfo->GetFileEntries();
  //
  // first file entry AFTER the last event of our run
  //
  noaftrun = runinfo->GetLastEntry() + 1;
  //
  // number of run to be processed
  //
  numbofrun = runinfo->GetNoRun();
  //
  // Try to access the S4 tree in the file, if it exists we are reprocessing data if not we are processing a new run
  //
  S4trclone = (TTree*)file->Get("S4");
  //
  if ( !S4trclone ){
    //
    // tree does not exist, we are not reprocessing
    //
    reproc = false;
    if ( run == 0 ){ 
      if (verbose) printf(" S4 - WARNING: you are reprocessing data but S4 tree does not exist!\n");
    }
    if ( runinfo->IsReprocessing() && run != 0 ) {
      if (verbose) printf(" S4 - WARNING: it seems you are not reprocessing data but S4\n versioning information already exists in RunInfo.\n");
    }
  } else {
    //
    // tree exists, we are reprocessing data. Are we reprocessing a single run or all the file?
    //
    S4trclone->SetAutoSave(900000000000000LL);
    reproc = true;
    //
    // update versioning information 
    //
    if (verbose) printf("\n Preparing the pre-processing...\n");
    //
    if ( run == 0 ){
      //
      // we are reprocessing all the file
      // if we are reprocessing everything we don't need to copy any old event and we can just work with the new tree and delete the old one immediately
      //
      reprocall = true;
      //
      if (verbose)  printf("\n S4 - WARNING: Reprocessing all runs\n");
      //
    } else {
      //
      // we are reprocessing a single run, we must copy to the new tree the events in the file which preceed the first event of the run
      //
      reprocall = false;
      //
      if (verbose) printf("\n S4 - WARNING: Reprocessing run number %u \n",run);
      //
      // copying old tree to a new file
      //
      tempfile = new TFile(tempname.str().c_str(),"RECREATE");
      tempS4 = S4trclone->CloneTree(-1,"fast");
      tempS4->SetName("S4-old");
      tempfile->Write();
      tempfile->Close();  
    }
    //
    // Delete the old tree from old file and memory
    //
    S4trclone->Delete("all");
    //
    if (verbose) printf(" ...done!\n");
    //
  };
  //
  // create mydetector tree mydect
  // 
  file->cd();
  S4tr = new TTree("S4-new","PAMELA Level2 S4 data");
  S4tr->SetAutoSave(900000000000000LL);
  S4tr->Branch("S4Level2","S4Level2",&s4);
  //
  if ( reproc && !reprocall ){
    //
    //  open new file and retrieve also tree informations
    //
    tempfile = new TFile(tempname.str().c_str(),"READ");
    S4trclone = (TTree*)tempfile->Get("S4-old");
    S4trclone->SetAutoSave(900000000000000LL);
    S4trclone->SetBranchAddress("S4Level2",&s4clone);
    //      
    if ( nobefrun > 0 ){
      if (verbose){
        printf("\n Pre-processing: copying events from the old tree before the processed run\n");   
        printf(" Copying %u events in the file which are before the beginning of the run %u \n",nobefrun,run);
        printf(" Start copying at event number 0, end copying at event number %u \n",nobefrun);
      }
      for (UInt_t j = 0; j < nobefrun; j++){
        //
        S4trclone->GetEntry(j);   
        //
        // copy s4clone to mydec
        //
        s4->Clear();
        //
        memcpy(&s4,&s4clone,sizeof(s4clone));
        //
        // Fill entry in the new tree
        //
        S4tr->Fill();
        //
      };
      if (verbose) printf(" Finished successful copying!\n");
    };          
  };
  //
  // Get the list of run to be processed, if only one run has to be processed the list will contain one entry only.
  //
  runlist = runinfo->GetRunList();
  //
  // Loop over the run to be processed
  //
  for (UInt_t irun=0; irun < numbofrun; irun++){
    //
    // retrieve the first run ID to be processed using the RunInfo list
    //
    idRun = runlist->At(irun);
    if (verbose){
      printf("\n\n\n ####################################################################### \n");
      printf("                    PROCESSING RUN NUMBER %u \n",idRun);
      printf(" ####################################################################### \n\n\n");
    }
    //
    runinfo->ID_ROOT_L0 = 0;
    //
    // store in the runinfo class the GL_RUN variables for our run
    //
    sgnl = 0;
    sgnl = runinfo->GetRunInfo(idRun);
    if ( sgnl ){
      if ( debug ) printf(" S4 - ERROR: RunInfo exited with non-zero status\n");
      code = sgnl;
      goto closeandexit;
    } else {
      sgnl = 0;
    };
    //
    // now you can access that variables using the RunInfo class this way runinfo->ID_ROOT_L0
    //
    if ( runinfo->ID_ROOT_L0 == 0 ){
      if ( debug ) printf("\n S4 - ERROR: no run with ID_RUN = %u \n\n Exiting... \n\n",idRun);
      code = -5;
      goto closeandexit;    
    };
    //
    // prepare the timesync for the db
    //
    if ( !dbc->IsConnected() ) throw -504;
    dbtime = new GL_TIMESYNC(runinfo->ID_ROOT_L0,"ID",dbc);
    //
    // Search in the DB the path and name of the LEVEL0 file to be processed.
    //
    if ( !dbc->IsConnected() ) throw -504;
    glroot->Query_GL_ROOT(runinfo->ID_ROOT_L0,dbc);
    //
    ftmpname.str("");
    ftmpname << glroot->PATH.Data() << "/";
    ftmpname << glroot->NAME.Data();
    fname = ftmpname.str().c_str();
    //
    // print out informations
    //
    totevent = runinfo->NEVENTS;
    if (verbose){
      printf("\n LEVEL0 data file: %s \n",fname.Data());
      printf(" RUN HEADER absolute time is:  %u \n",runinfo->RUNHEADER_TIME);
      printf(" RUN TRAILER absolute time is: %u \n",runinfo->RUNTRAILER_TIME);
      printf(" %i events to be processed for run %u: from %u to %u \n\n",totevent,idRun,runinfo->EV_FROM,(runinfo->EV_FROM+totevent));
    }
    //
    // Open Level0 file
    //
    l0File = new TFile(fname.Data());
    if ( !l0File ) {
      if ( debug ) printf(" S4 - ERROR: problems opening  Level0 file\n");
      code = -6;
      goto closeandexit;
    };
    //
    l0tr = (TTree*)l0File->Get("Physics");
    if ( !l0tr ) {
      if ( debug ) printf(" S4 - ERROR: no Physics tree in Level0 file\n");
      l0File->Close();
      code = -7;
      goto closeandexit;
    };
    l0head = l0tr->GetBranch("Header");
    if ( !l0head ) {
      if ( debug ) printf(" S4 - ERROR: no Header branch in Level0 tree\n");
      l0File->Close();
      code = -8;
      goto closeandexit;    
    };
    l0S4 = l0tr->GetBranch("S4");
    if ( !l0S4 ) {
      if ( debug ) printf(" S4 - ERROR: no S4 branch in Level0 tree\n");
      l0File->Close();
      code = -503;
      goto closeandexit;
    };
    //
    l0tr->SetBranchAddress("S4", &l0s4e);
    l0tr->SetBranchAddress("Header", &eh); 
    //
    nevents = l0S4->GetEntries();
    //
    if ( nevents < 1 ) {
      if ( debug ) printf(" S4 - ERROR: Level0 file is empty\n\n");
      l0File->Close();
      code = -11;
      goto closeandexit;
    };
    //
    if ( runinfo->EV_TO > nevents-1 ) {
      if ( debug ) printf(" S4 - ERROR: too few entries in the S4 tree\n");
      l0File->Close();
      code = -12;
      goto closeandexit;
    };
    //
    // Check if we have to load parameter files (or calibration associated to runs and not to events)
    // second query: which is the value of paramfit relative to the calibration?
    //
    TArrayD *params = 0;
    params = S4_paramfit(runinfo->RUNHEADER_TIME, dbc);
    if ( !params ){
      code = -13;
      goto closeandexit;
    };
    //
    ParamFit0 = params->At(0);
    ParamFit1 = params->At(1);
    //
    // run over all the events of the run
    //
    if (verbose) printf("\n Ready to start! \n\n Processed events: \n\n");
    //
    for ( re = runinfo->EV_FROM; re < (runinfo->EV_FROM+runinfo->NEVENTS); re++){
      //
      if ( procev%1000 == 0 && procev > 0 && verbose ) printf(" %iK \n",procev/1000);   
      //
      l0head->GetEntry(re);
      //
      // absolute time of this event
      //
      ph = eh->GetPscuHeader();
      atime = dbtime->DBabsTime(ph->GetOrbitalTime());  
      //
      // paranoid check
      //
      if ( (atime > runinfo->RUNTRAILER_TIME) || (atime < runinfo->RUNHEADER_TIME)  ) {
        if (verbose) printf(" S4 - WARNING: event at time outside the run time window, skipping it\n");
        goto jumpev;
      };
      //
      procev++;
      //
      // start processing
      //
      s4->Clear();
      l0S4->GetEntry(re);
      if (l0s4e->unpackError == 0){
        s4->S4adc = l0s4e->S4_DATA;
        //
        if ((l0s4e->S4_DATA) > 31 ){
          s4->S4calibrated = ParamFit0*((l0s4e->S4_DATA)-32)+ParamFit1;
        }else{
          s4->S4calibrated = 0;
        }
      };
      //
      s4->unpackError = l0s4e->unpackError;
      //
      S4tr->Fill();
      //    
      //
    jumpev:
      debug = false;
      //
    };
    //
    // Here you may want to clear some variables before processing another run  
    //
    delete dbtime;
    if ( params ) delete params;
    //
  }; // process all the runs
  //
  if (verbose) printf("\n Finished processing data \n");
  //
 closeandexit:
  //
  // we have finished processing the run(s). If we processed a single run now we must copy all the events after our run from the old tree to the new one and delete the old tree.
  //
  if ( !reprocall && reproc && code >= 0 ){
    if ( totfileentries > noaftrun ){
      if (verbose){
        printf("\n Post-processing: copying events from the old tree after the processed run\n");   
        printf(" Copying %i events in the file which are after the end of the run %i \n",(int)(totfileentries-noaftrun),(int)run);
        printf(" Start copying at event number %i end copying at event number %i \n",(int)noaftrun,(int)totfileentries);
      }
      for (UInt_t j = noaftrun; j < totfileentries; j++ ){
        //
        // Get entry from old tree
        //
        S4trclone->GetEntry(j);   
        //
        // copy s4clone to s4
        //
        //      s4 = new S4Level2();
        s4->Clear();
        memcpy(&s4,&s4clone,sizeof(s4clone));
        //
        // Fill entry in the new tree
        //
        S4tr->Fill();
      };
      if (verbose) printf(" Finished successful copying!\n");
    };
  };
  //
  // Close files, delete old tree(s), write and close level2 file 
  //
  if ( l0File ) l0File->Close();
  if ( tempfile ) tempfile->Close();            
  gSystem->Unlink(tempname.str().c_str());
  //
  if ( runinfo ) runinfo->Close();    
  if ( S4tr ) S4tr->SetName("S4");    
  if ( file ){
    file->cd();
    file->Write();
  };
  //
  gSystem->Unlink(S4folder.str().c_str());
  //
  // the end
  //
  if (verbose) printf("\n Exiting...\n");
  if ( S4tr ) S4tr->Delete();
  //
  if ( s4 ) delete s4;
  if ( s4clone ) delete s4clone;
  if ( glroot ) delete glroot;
  if ( runinfo ) delete runinfo; 
  //
  if(code < 0)  throw code;
  return(code);
}


1	mocchiut	1.1	//
2			// C/C++ headers
3			//
4			#include <fstream>
5			#include <string.h>
6			#include <iostream>
7			#include <cstring>
8			#include <stdio.h>
9			//
10			// ROOT headers
11			//
12	mocchiut	1.4	#include <TGraph.h>
13			#include <TF1.h>
14	mocchiut	1.1	#include <TTree.h>
15			#include <TClassEdit.h>
16			#include <TObject.h>
17			#include <TList.h>
18	mocchiut	1.4	#include <TArrayI.h>
19			#include <TArrayD.h>
20	mocchiut	1.1	#include <TSystem.h>
21			#include <TSystemDirectory.h>
22			#include <TString.h>
23			#include <TFile.h>
24			#include <TClass.h>
25			#include <TSQLServer.h>
26			#include <TSQLRow.h>
27			#include <TSQLResult.h>
28			#include <TClonesArray.h>
29			#include <stdlib.h>
30			#include <math.h>
31			//
32	mocchiut	1.10	// RunInfo header
33			//
34			#include <RunInfo.h>
35			#include <GLTables.h>
36			//
37	mocchiut	1.1	// YODA headers
38			//
39			#include <PamelaRun.h>
40			#include <PscuHeader.h>
41			#include <PscuEvent.h>
42			#include <EventHeader.h>
43			#include <CalibS4Event.h>
44			#include <physics/S4/S4Event.h>
45			//#include <yodaUtility.h>
46	mocchiut	1.10
47	mocchiut	1.1	//
48			// This program headers
49			//
50			#include <S4Level2.h>
51			#include <S4Core.h>
52			#include <S4Verl2.h>
53
54			using namespace std;
55
56			//
57	mocchiut	1.4	//
58			//
59			/*
60			* Fit function Received from Valeria Malvezzi 06/02/2006
61			*/
62			Double_t fitf(Double_t x, Double_t par){
63			Double_t fitval =(par[0]*x[0])+par[1];
64			return fitval;
65			}
66
67			/*
68			* Fit the S4 calibration with a straight line - Received from Valeria Malvezzi 06/02/2006
69			*/
70			TArrayD S4_paramfit(UInt_t atime, TSQLServer dbc){
71			//
72			TArrayD *parametri = new TArrayD(2);
73			//
74			GL_S4_CALIB *glS4calib = new GL_S4_CALIB();
75			//
76	mocchiut	1.8	if ( !dbc->IsConnected() ) throw -504;
77	mocchiut	1.4	glS4calib->Query_GL_S4_CALIB(atime, dbc);
78			//
79			GL_ROOT *glroot = new GL_ROOT();
80	mocchiut	1.8	if ( !dbc->IsConnected() ) throw -504;
81	mocchiut	1.4	glroot->Query_GL_ROOT(glS4calib->ID_ROOT_L0,dbc);
82			//
83			stringstream ftmpname;
84			ftmpname.str("");
85			ftmpname << glroot->PATH.Data() << "/";
86			ftmpname << glroot->NAME.Data();
87			//
88			TFile *file = 0;
89			file = new TFile(ftmpname.str().c_str());
90			//
91			if ( !file ) return(NULL);
92			//
93			TTree *tr = 0;
94			tr = (TTree*)file->Get("CalibS4");
95			if ( !tr ){
96			file->Close();
97			return(NULL);
98			};
99			//
100			pamela::CalibS4Event *S4CalibEvent = 0;
101			tr->SetBranchAddress("CalibS4", &S4CalibEvent);
102			if ( tr->GetEntries() < glS4calib->EV_ROOT ) return(NULL);
103			//
104			tr->GetEntry(glS4calib->EV_ROOT);
105			//
106			//----------- variable initialization -------------------------------------------------
107			//
108			Double_t mip[3]={1, 30, 300};
109			Double_t adc[3] = {0.,0.,0.};
110			//
111			//------------ Fit calibrations and find parameters to calibrate data ------------------
112			//
113			pamela::S4::S4Event *s4Record = 0;
114			//
115			for (Int_t j = 0; j < 4; j++){
116			for (Int_t i = 0; i < 128; i++){
117			s4Record = (pamela::S4::S4Event)S4CalibEvent->Records->At((j128 + i));
118			switch (j) {
119			case 0 :{
120			adc[0]=adc[0]+((s4Record->S4_DATA)-32);
121			break;
122			};
123			case 1 :{
124			adc[1]=adc[1]+((s4Record->S4_DATA)-32);
125			break;
126			};
127			case 3 :{
128			adc[2]=adc[2]+((s4Record->S4_DATA)-32);
129			break;
130			};
131			};
132			};
133			};
134			//
135			adc[0]=adc[0]/128;
136			adc[1]=adc[1]/128;
137			adc[2]=adc[2]/128;
138			// if ( IsDebug() ) printf(" adc1 = %g adc2 = %g adc3 = %g\n",adc[0],adc[1],adc[2]);
139			TGraph *fitpar = new TGraph (3, adc, mip);
140			TF1 *func = new TF1("fitf", fitf, -1., 400., 2); // definizione della funzione, 2 = num. parametri
141			// TF1 *func = new TF1("fitf", fitf, -0., 1000., 2); // definizione della funzione, 2 = num. parametri
142			//
143			func->SetParameters(0.3,1.); //inizializzazione dei parametri a 1
144			func->SetParNames("m","q"); //definisce il nome dei parametri
145			fitpar->Fit(func,"qr"); //fitta fitpar con la funzione func nel range definito nella funzione
146			//fitpar->Fit(func,"r"); //fitta fitpar con la funzione func nel range definito nella funzione
147			parametri->AddAt(func->GetParameter(0),0);
148			parametri->AddAt(func->GetParameter(1),1);
149			// if ( parametri[0] < 0. \|\| parametri[0] > 0.5 \|\| parametri[1] < 0.7 \|\| parametri[1] > 1.1 ) valid = 0;
150			//
151			delete glroot;
152			delete glS4calib;
153			delete fitpar;
154			delete func;
155			file->Close();
156			//
157			return parametri;
158			};
159
160			//
161	mocchiut	1.1	// CORE ROUTINE
162			//
163			//
164	mocchiut	1.4	int S4Core(UInt_t run, TFile file, TSQLServer dbc, Int_t S4argc, char *S4argv[]){
165	mocchiut	1.1	Int_t i = 0;
166			//
167			TString processFolder = "S4Folder";
168			//
169	mocchiut	1.4	Bool_t debug = false;
170	mocchiut	1.1	//
171	mocchiut	1.4	Bool_t verbose = false;
172	mocchiut	1.1	//
173			if ( S4argc > 0 ){
174			i = 0;
175			while ( i < S4argc ){
176			if ( !strcmp(S4argv[i],"-processFolder") ) {
177			if ( S4argc < i+1 ){
178			throw -3;
179			};
180			processFolder = (TString)S4argv[i+1];
181			i++;
182			};
183			if ( (!strcmp(S4argv[i],"--debug")) \|\| (!strcmp(S4argv[i],"-g"))) {
184			verbose = true;
185			};
186			if ( (!strcmp(S4argv[i],"--verbose")) \|\| (!strcmp(S4argv[i],"-v"))) {
187			verbose = true;
188			};
189			i++;
190			};
191			};
192	mocchiut	1.4	//
193	mocchiut	1.1	const char* outDir = gSystem->DirName(gSystem->DirName(file->GetPath()));
194	mocchiut	1.4	//
195	mocchiut	1.1	// Variables for level2
196			//
197			TTree *S4tr = 0;
198	mocchiut	1.4	UInt_t nevents = 0;
199	mocchiut	1.1	//
200			// variables needed to reprocess data
201			//
202	mocchiut	1.9	Long64_t maxsize = 10000000000LL;
203			TTree::SetMaxTreeSize(maxsize);
204			//
205	mocchiut	1.1	TString S4version;
206			ItoRunInfo *runinfo = 0;
207	mocchiut	1.4	TArrayI *runlist = 0;
208	mocchiut	1.1	TTree *S4trclone = 0;
209			Bool_t reproc = false;
210			Bool_t reprocall = false;
211			UInt_t nobefrun = 0;
212			UInt_t noaftrun = 0;
213			UInt_t numbofrun = 0;
214			stringstream ftmpname;
215			TString fname;
216	mocchiut	1.4	UInt_t totfileentries = 0;
217			UInt_t idRun = 0;
218			Double_t ParamFit0 = 0.;
219			Double_t ParamFit1 = 0.;
220	mocchiut	1.1	//
221			// variables needed to handle error signals
222			//
223			Int_t code = 0;
224			Int_t sgnl;
225			//
226			// S4 level2 classes
227			//
228			S4Level2 *s4 = new S4Level2();
229			S4Level2 *s4clone = new S4Level2();
230			//
231			// define variables for opening and reading level0 file
232			//
233			TFile *l0File = 0;
234			TTree *l0tr = 0;
235			TBranch *l0head = 0;
236			TBranch *l0S4 =0;
237			pamela::S4::S4Event *l0s4e = 0;
238			pamela::EventHeader *eh = 0;
239	mocchiut	1.4	pamela::PscuHeader *ph = 0;
240	mocchiut	1.1	//
241			// Define other basic variables
242			//
243			UInt_t procev = 0;
244			stringstream file2;
245			stringstream file3;
246			stringstream qy;
247			Int_t totevent = 0;
248	mocchiut	1.4	UInt_t atime = 0;
249			// Int_t ei = 0;
250			UInt_t re = 0;
251	mocchiut	1.1	//
252			// Working filename
253			//
254			TString outputfile;
255			stringstream name;
256			name.str("");
257			name << outDir << "/";
258			//
259			// temporary file and folder
260			//
261			TFile *tempfile = 0;
262			TTree *tempS4 = 0;
263			stringstream tempname;
264			stringstream S4folder;
265			tempname.str("");
266			tempname << outDir;
267			tempname << "/" << processFolder.Data();
268			S4folder.str("");
269			S4folder << tempname.str().c_str();
270			gSystem->MakeDirectory(S4folder.str().c_str());
271			tempname << "/S4tree_run";
272			tempname << run << ".root";
273			//
274			// DB classes
275			//
276			GL_ROOT *glroot = new GL_ROOT();
277	mocchiut	1.4	GL_TIMESYNC *dbtime = 0;
278	mocchiut	1.1	//
279			// Let's start!
280			//
281			// As a first thing we must check what we have to do: if run = 0 we must process all events in the file has been passed
282			// if run != 0 we must process only that run but first we have to check if the tree MyDetector2 already exist in the file
283			// if it exists we are reprocessing data and we must delete that entries, if not we must create it.
284			//
285	mocchiut	1.4	if ( run == 0 ) reproc = true;
286	mocchiut	1.1	//
287			//
288			// Output file is "outputfile"
289			//
290			if ( !file->IsOpen() ){
291			//printf(" S4 - ERROR: cannot open file for writing\n");
292			throw -501;
293			};
294			//
295			// Retrieve GL_RUN variables from the level2 file
296			//
297			S4version = S4Info(false); // we should decide how to handle versioning system
298			//
299			// create an interface to RunInfo called "runinfo"
300			//
301			runinfo = new ItoRunInfo(file);
302			//
303			// open "Run" tree in level2 file, if not existing return an error (sngl != 0)
304			//
305			sgnl = 0;
306			sgnl = runinfo->Update(run,"S4",S4version);
307			if ( sgnl ){
308			//printf(" S4 - ERROR: RunInfo exited with non-zero status\n");
309			code = sgnl;
310			goto closeandexit;
311			} else {
312			sgnl = 0;
313			};
314			//
315			// number of events in the file BEFORE the first event of our run
316			//
317			nobefrun = runinfo->GetFirstEntry();
318			//
319			// total number of events in the file
320			//
321			totfileentries = runinfo->GetFileEntries();
322			//
323			// first file entry AFTER the last event of our run
324			//
325			noaftrun = runinfo->GetLastEntry() + 1;
326			//
327			// number of run to be processed
328			//
329			numbofrun = runinfo->GetNoRun();
330			//
331			// Try to access the S4 tree in the file, if it exists we are reprocessing data if not we are processing a new run
332			//
333			S4trclone = (TTree*)file->Get("S4");
334			//
335			if ( !S4trclone ){
336			//
337			// tree does not exist, we are not reprocessing
338			//
339			reproc = false;
340	mocchiut	1.4	if ( run == 0 ){
341	mocchiut	1.1	if (verbose) printf(" S4 - WARNING: you are reprocessing data but S4 tree does not exist!\n");
342			}
343	mocchiut	1.4	if ( runinfo->IsReprocessing() && run != 0 ) {
344	mocchiut	1.1	if (verbose) printf(" S4 - WARNING: it seems you are not reprocessing data but S4\n versioning information already exists in RunInfo.\n");
345			}
346			} else {
347			//
348			// tree exists, we are reprocessing data. Are we reprocessing a single run or all the file?
349			//
350	mocchiut	1.9	S4trclone->SetAutoSave(900000000000000LL);
351	mocchiut	1.1	reproc = true;
352			//
353			// update versioning information
354			//
355			if (verbose) printf("\n Preparing the pre-processing...\n");
356			//
357	mocchiut	1.4	if ( run == 0 ){
358	mocchiut	1.1	//
359			// we are reprocessing all the file
360			// if we are reprocessing everything we don't need to copy any old event and we can just work with the new tree and delete the old one immediately
361			//
362			reprocall = true;
363			//
364			if (verbose) printf("\n S4 - WARNING: Reprocessing all runs\n");
365			//
366			} else {
367			//
368			// we are reprocessing a single run, we must copy to the new tree the events in the file which preceed the first event of the run
369			//
370			reprocall = false;
371			//
372	mocchiut	1.4	if (verbose) printf("\n S4 - WARNING: Reprocessing run number %u \n",run);
373	mocchiut	1.1	//
374			// copying old tree to a new file
375			//
376			tempfile = new TFile(tempname.str().c_str(),"RECREATE");
377			tempS4 = S4trclone->CloneTree(-1,"fast");
378			tempS4->SetName("S4-old");
379			tempfile->Write();
380			tempfile->Close();
381			}
382			//
383			// Delete the old tree from old file and memory
384			//
385			S4trclone->Delete("all");
386			//
387			if (verbose) printf(" ...done!\n");
388			//
389			};
390			//
391			// create mydetector tree mydect
392			//
393			file->cd();
394			S4tr = new TTree("S4-new","PAMELA Level2 S4 data");
395	mocchiut	1.9	S4tr->SetAutoSave(900000000000000LL);
396	mocchiut	1.1	S4tr->Branch("S4Level2","S4Level2",&s4);
397			//
398			if ( reproc && !reprocall ){
399			//
400			// open new file and retrieve also tree informations
401			//
402			tempfile = new TFile(tempname.str().c_str(),"READ");
403			S4trclone = (TTree*)tempfile->Get("S4-old");
404	mocchiut	1.9	S4trclone->SetAutoSave(900000000000000LL);
405	mocchiut	1.1	S4trclone->SetBranchAddress("S4Level2",&s4clone);
406			//
407			if ( nobefrun > 0 ){
408			if (verbose){
409			printf("\n Pre-processing: copying events from the old tree before the processed run\n");
410	mocchiut	1.4	printf(" Copying %u events in the file which are before the beginning of the run %u \n",nobefrun,run);
411	mocchiut	1.1	printf(" Start copying at event number 0, end copying at event number %u \n",nobefrun);
412			}
413			for (UInt_t j = 0; j < nobefrun; j++){
414			//
415			S4trclone->GetEntry(j);
416			//
417			// copy s4clone to mydec
418			//
419	mocchiut	1.2	s4->Clear();
420	mocchiut	1.4	//
421	mocchiut	1.1	memcpy(&s4,&s4clone,sizeof(s4clone));
422			//
423			// Fill entry in the new tree
424			//
425			S4tr->Fill();
426			//
427			};
428			if (verbose) printf(" Finished successful copying!\n");
429			};
430			};
431			//
432			// Get the list of run to be processed, if only one run has to be processed the list will contain one entry only.
433			//
434			runlist = runinfo->GetRunList();
435			//
436			// Loop over the run to be processed
437			//
438			for (UInt_t irun=0; irun < numbofrun; irun++){
439			//
440			// retrieve the first run ID to be processed using the RunInfo list
441			//
442			idRun = runlist->At(irun);
443			if (verbose){
444			printf("\n\n\n ####################################################################### \n");
445	mocchiut	1.4	printf(" PROCESSING RUN NUMBER %u \n",idRun);
446	mocchiut	1.1	printf(" ####################################################################### \n\n\n");
447			}
448			//
449	mocchiut	1.4	runinfo->ID_ROOT_L0 = 0;
450	mocchiut	1.1	//
451			// store in the runinfo class the GL_RUN variables for our run
452			//
453			sgnl = 0;
454			sgnl = runinfo->GetRunInfo(idRun);
455			if ( sgnl ){
456	mocchiut	1.4	if ( debug ) printf(" S4 - ERROR: RunInfo exited with non-zero status\n");
457	mocchiut	1.1	code = sgnl;
458			goto closeandexit;
459			} else {
460			sgnl = 0;
461			};
462			//
463	mocchiut	1.5	// now you can access that variables using the RunInfo class this way runinfo->ID_ROOT_L0
464	mocchiut	1.1	//
465	mocchiut	1.4	if ( runinfo->ID_ROOT_L0 == 0 ){
466			if ( debug ) printf("\n S4 - ERROR: no run with ID_RUN = %u \n\n Exiting... \n\n",idRun);
467	mocchiut	1.1	code = -5;
468			goto closeandexit;
469			};
470			//
471	mocchiut	1.4	// prepare the timesync for the db
472			//
473	mocchiut	1.8	if ( !dbc->IsConnected() ) throw -504;
474	mocchiut	1.4	dbtime = new GL_TIMESYNC(runinfo->ID_ROOT_L0,"ID",dbc);
475			//
476	mocchiut	1.1	// Search in the DB the path and name of the LEVEL0 file to be processed.
477			//
478	mocchiut	1.8	if ( !dbc->IsConnected() ) throw -504;
479	mocchiut	1.4	glroot->Query_GL_ROOT(runinfo->ID_ROOT_L0,dbc);
480	mocchiut	1.1	//
481			ftmpname.str("");
482			ftmpname << glroot->PATH.Data() << "/";
483			ftmpname << glroot->NAME.Data();
484			fname = ftmpname.str().c_str();
485			//
486			// print out informations
487			//
488	mocchiut	1.4	totevent = runinfo->NEVENTS;
489	mocchiut	1.1	if (verbose){
490			printf("\n LEVEL0 data file: %s \n",fname.Data());
491	mocchiut	1.4	printf(" RUN HEADER absolute time is: %u \n",runinfo->RUNHEADER_TIME);
492			printf(" RUN TRAILER absolute time is: %u \n",runinfo->RUNTRAILER_TIME);
493			printf(" %i events to be processed for run %u: from %u to %u \n\n",totevent,idRun,runinfo->EV_FROM,(runinfo->EV_FROM+totevent));
494	mocchiut	1.1	}
495			//
496			// Open Level0 file
497			//
498			l0File = new TFile(fname.Data());
499			if ( !l0File ) {
500	mocchiut	1.4	if ( debug ) printf(" S4 - ERROR: problems opening Level0 file\n");
501	mocchiut	1.1	code = -6;
502			goto closeandexit;
503			};
504	mocchiut	1.4	//
505	mocchiut	1.1	l0tr = (TTree*)l0File->Get("Physics");
506			if ( !l0tr ) {
507	mocchiut	1.4	if ( debug ) printf(" S4 - ERROR: no Physics tree in Level0 file\n");
508	mocchiut	1.1	l0File->Close();
509			code = -7;
510			goto closeandexit;
511			};
512			l0head = l0tr->GetBranch("Header");
513			if ( !l0head ) {
514	mocchiut	1.4	if ( debug ) printf(" S4 - ERROR: no Header branch in Level0 tree\n");
515	mocchiut	1.1	l0File->Close();
516			code = -8;
517			goto closeandexit;
518			};
519			l0S4 = l0tr->GetBranch("S4");
520			if ( !l0S4 ) {
521	mocchiut	1.4	if ( debug ) printf(" S4 - ERROR: no S4 branch in Level0 tree\n");
522	mocchiut	1.1	l0File->Close();
523			code = -503;
524			goto closeandexit;
525			};
526			//
527			l0tr->SetBranchAddress("S4", &l0s4e);
528			l0tr->SetBranchAddress("Header", &eh);
529			//
530	mocchiut	1.4	nevents = l0S4->GetEntries();
531	mocchiut	1.1	//
532			if ( nevents < 1 ) {
533	mocchiut	1.4	if ( debug ) printf(" S4 - ERROR: Level0 file is empty\n\n");
534	mocchiut	1.1	l0File->Close();
535			code = -11;
536			goto closeandexit;
537			};
538			//
539	mocchiut	1.5	if ( runinfo->EV_TO > nevents-1 ) {
540	mocchiut	1.4	if ( debug ) printf(" S4 - ERROR: too few entries in the S4 tree\n");
541	mocchiut	1.1	l0File->Close();
542			code = -12;
543			goto closeandexit;
544			};
545			//
546			// Check if we have to load parameter files (or calibration associated to runs and not to events)
547			// second query: which is the value of paramfit relative to the calibration?
548			//
549	mocchiut	1.4	TArrayD *params = 0;
550			params = S4_paramfit(runinfo->RUNHEADER_TIME, dbc);
551			if ( !params ){
552			code = -13;
553			goto closeandexit;
554			};
555			//
556			ParamFit0 = params->At(0);
557			ParamFit1 = params->At(1);
558	mocchiut	1.1	//
559			// run over all the events of the run
560			//
561			if (verbose) printf("\n Ready to start! \n\n Processed events: \n\n");
562			//
563	mocchiut	1.4	for ( re = runinfo->EV_FROM; re < (runinfo->EV_FROM+runinfo->NEVENTS); re++){
564	mocchiut	1.1	//
565			if ( procev%1000 == 0 && procev > 0 && verbose ) printf(" %iK \n",procev/1000);
566			//
567	mocchiut	1.4	l0head->GetEntry(re);
568	mocchiut	1.1	//
569			// absolute time of this event
570			//
571	mocchiut	1.4	ph = eh->GetPscuHeader();
572			atime = dbtime->DBabsTime(ph->GetOrbitalTime());
573	mocchiut	1.1	//
574			// paranoid check
575			//
576			if ( (atime > runinfo->RUNTRAILER_TIME) \|\| (atime < runinfo->RUNHEADER_TIME) ) {
577			if (verbose) printf(" S4 - WARNING: event at time outside the run time window, skipping it\n");
578			goto jumpev;
579			};
580			//
581			procev++;
582			//
583			// start processing
584			//
585	mocchiut	1.2	s4->Clear();
586	mocchiut	1.4	l0S4->GetEntry(re);
587	mocchiut	1.6	if (l0s4e->unpackError == 0){
588			s4->S4adc = l0s4e->S4_DATA;
589			//
590			if ((l0s4e->S4_DATA) > 31 ){
591			s4->S4calibrated = ParamFit0*((l0s4e->S4_DATA)-32)+ParamFit1;
592			}else{
593			s4->S4calibrated = 0;
594			}
595			};
596	mocchiut	1.4	//
597	mocchiut	1.7	s4->unpackError = l0s4e->unpackError;
598			//
599	mocchiut	1.1	S4tr->Fill();
600			//
601			//
602			jumpev:
603			debug = false;
604			//
605			};
606			//
607			// Here you may want to clear some variables before processing another run
608			//
609	mocchiut	1.4	delete dbtime;
610			if ( params ) delete params;
611			//
612	mocchiut	1.1	}; // process all the runs
613			//
614			if (verbose) printf("\n Finished processing data \n");
615			//
616			closeandexit:
617			//
618			// we have finished processing the run(s). If we processed a single run now we must copy all the events after our run from the old tree to the new one and delete the old tree.
619			//
620			if ( !reprocall && reproc && code >= 0 ){
621			if ( totfileentries > noaftrun ){
622			if (verbose){
623			printf("\n Post-processing: copying events from the old tree after the processed run\n");
624			printf(" Copying %i events in the file which are after the end of the run %i \n",(int)(totfileentries-noaftrun),(int)run);
625			printf(" Start copying at event number %i end copying at event number %i \n",(int)noaftrun,(int)totfileentries);
626			}
627			for (UInt_t j = noaftrun; j < totfileentries; j++ ){
628			//
629			// Get entry from old tree
630			//
631			S4trclone->GetEntry(j);
632			//
633			// copy s4clone to s4
634			//
635	mocchiut	1.2	// s4 = new S4Level2();
636			s4->Clear();
637	mocchiut	1.1	memcpy(&s4,&s4clone,sizeof(s4clone));
638			//
639			// Fill entry in the new tree
640			//
641			S4tr->Fill();
642			};
643			if (verbose) printf(" Finished successful copying!\n");
644			};
645			};
646			//
647			// Close files, delete old tree(s), write and close level2 file
648			//
649			if ( l0File ) l0File->Close();
650			if ( tempfile ) tempfile->Close();
651			gSystem->Unlink(tempname.str().c_str());
652	mocchiut	1.4	//
653	mocchiut	1.1	if ( runinfo ) runinfo->Close();
654			if ( S4tr ) S4tr->SetName("S4");
655			if ( file ){
656			file->cd();
657			file->Write();
658			};
659			//
660			gSystem->Unlink(S4folder.str().c_str());
661			//
662			// the end
663			//
664			if (verbose) printf("\n Exiting...\n");
665	mocchiut	1.4	if ( S4tr ) S4tr->Delete();
666	mocchiut	1.3	//
667			if ( s4 ) delete s4;
668			if ( s4clone ) delete s4clone;
669			if ( glroot ) delete glroot;
670			if ( runinfo ) delete runinfo;
671			//
672	mocchiut	1.1	if(code < 0) throw code;
673			return(code);
674			}
675
676