S4Level2/src/S4Core.cpp

//
// Given a calibration and a data file this program create an ntuple with LEVEL2 S4 variables 
//
//
// 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>
//
// 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);
  //
  // Variables 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); // function definition with 2 parameters
  //  
  func->SetParameters(0.3,1.); // parameters initialization to 1
  func->SetParNames("m","q"); //parameter's name 
  fitpar->Fit(func,"qr"); //function fit 
  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[]){
  //
  // Set these to true to have a verbose output.
  //
  Bool_t debug = false;
  Bool_t verbose = false;
  //    
  // 
  // Output directory is the working directoy.
  //
  const char* outDir = gSystem->DirName(gSystem->DirName(file->GetPath()));
  //
  Int_t i = 0;
  TString processFolder = "S4Folder_"+run;
  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++;
    };
  };
  // 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	pam-rm2	1.11	// Given a calibration and a data file this program create an ntuple with LEVEL2 S4 variables
3			//
4			//
5	mocchiut	1.1	// C/C++ headers
6			//
7			#include <fstream>
8			#include <string.h>
9			#include <iostream>
10			#include <cstring>
11			#include <stdio.h>
12			//
13			// ROOT headers
14			//
15	mocchiut	1.4	#include <TGraph.h>
16			#include <TF1.h>
17	mocchiut	1.1	#include <TTree.h>
18			#include <TClassEdit.h>
19			#include <TObject.h>
20			#include <TList.h>
21	mocchiut	1.4	#include <TArrayI.h>
22			#include <TArrayD.h>
23	mocchiut	1.1	#include <TSystem.h>
24			#include <TSystemDirectory.h>
25			#include <TString.h>
26			#include <TFile.h>
27			#include <TClass.h>
28			#include <TSQLServer.h>
29			#include <TSQLRow.h>
30			#include <TSQLResult.h>
31			#include <TClonesArray.h>
32			#include <stdlib.h>
33			#include <math.h>
34			//
35	mocchiut	1.10	// RunInfo header
36			//
37			#include <RunInfo.h>
38			#include <GLTables.h>
39			//
40	mocchiut	1.1	// YODA headers
41			//
42			#include <PamelaRun.h>
43			#include <PscuHeader.h>
44			#include <PscuEvent.h>
45			#include <EventHeader.h>
46			#include <CalibS4Event.h>
47			#include <physics/S4/S4Event.h>
48			//
49			// This program headers
50			//
51			#include <S4Level2.h>
52			#include <S4Core.h>
53			#include <S4Verl2.h>
54	pam-rm2	1.11	//
55	mocchiut	1.1	using namespace std;
56	mocchiut	1.4	//
57			/*
58			* Fit function Received from Valeria Malvezzi 06/02/2006
59			*/
60			Double_t fitf(Double_t x, Double_t par){
61			Double_t fitval =(par[0]*x[0])+par[1];
62			return fitval;
63			}
64
65			/*
66			* Fit the S4 calibration with a straight line - Received from Valeria Malvezzi 06/02/2006
67			*/
68			TArrayD S4_paramfit(UInt_t atime, TSQLServer dbc){
69			//
70			TArrayD *parametri = new TArrayD(2);
71			//
72			GL_S4_CALIB *glS4calib = new GL_S4_CALIB();
73			//
74	mocchiut	1.8	if ( !dbc->IsConnected() ) throw -504;
75	mocchiut	1.4	glS4calib->Query_GL_S4_CALIB(atime, dbc);
76			//
77			GL_ROOT *glroot = new GL_ROOT();
78	mocchiut	1.8	if ( !dbc->IsConnected() ) throw -504;
79	mocchiut	1.4	glroot->Query_GL_ROOT(glS4calib->ID_ROOT_L0,dbc);
80			//
81			stringstream ftmpname;
82			ftmpname.str("");
83			ftmpname << glroot->PATH.Data() << "/";
84			ftmpname << glroot->NAME.Data();
85			//
86			TFile *file = 0;
87			file = new TFile(ftmpname.str().c_str());
88			//
89			if ( !file ) return(NULL);
90			//
91			TTree *tr = 0;
92			tr = (TTree*)file->Get("CalibS4");
93			if ( !tr ){
94			file->Close();
95			return(NULL);
96			};
97			//
98			pamela::CalibS4Event *S4CalibEvent = 0;
99			tr->SetBranchAddress("CalibS4", &S4CalibEvent);
100			if ( tr->GetEntries() < glS4calib->EV_ROOT ) return(NULL);
101			//
102			tr->GetEntry(glS4calib->EV_ROOT);
103			//
104	pam-rm2	1.11	// Variables initialization
105	mocchiut	1.4	//
106			Double_t mip[3]={1, 30, 300};
107			Double_t adc[3] = {0.,0.,0.};
108			//
109	pam-rm2	1.11	// Fit calibrations and find parameters to calibrate data
110	mocchiut	1.4	//
111			pamela::S4::S4Event *s4Record = 0;
112			//
113			for (Int_t j = 0; j < 4; j++){
114			for (Int_t i = 0; i < 128; i++){
115			s4Record = (pamela::S4::S4Event)S4CalibEvent->Records->At((j128 + i));
116			switch (j) {
117			case 0 :{
118			adc[0]=adc[0]+((s4Record->S4_DATA)-32);
119			break;
120			};
121			case 1 :{
122			adc[1]=adc[1]+((s4Record->S4_DATA)-32);
123			break;
124			};
125			case 3 :{
126			adc[2]=adc[2]+((s4Record->S4_DATA)-32);
127			break;
128			};
129			};
130			};
131			};
132			//
133			adc[0]=adc[0]/128;
134			adc[1]=adc[1]/128;
135			adc[2]=adc[2]/128;
136			// if ( IsDebug() ) printf(" adc1 = %g adc2 = %g adc3 = %g\n",adc[0],adc[1],adc[2]);
137			TGraph *fitpar = new TGraph (3, adc, mip);
138	pam-rm2	1.11	TF1 *func = new TF1("fitf", fitf, -1., 400., 2); // function definition with 2 parameters
139	mocchiut	1.4	//
140	pam-rm2	1.11	func->SetParameters(0.3,1.); // parameters initialization to 1
141			func->SetParNames("m","q"); //parameter's name
142			fitpar->Fit(func,"qr"); //function fit
143	mocchiut	1.4	parametri->AddAt(func->GetParameter(0),0);
144			parametri->AddAt(func->GetParameter(1),1);
145			// if ( parametri[0] < 0. \|\| parametri[0] > 0.5 \|\| parametri[1] < 0.7 \|\| parametri[1] > 1.1 ) valid = 0;
146			//
147			delete glroot;
148			delete glS4calib;
149			delete fitpar;
150			delete func;
151			file->Close();
152			//
153			return parametri;
154			};
155
156			//
157	mocchiut	1.1	// CORE ROUTINE
158			//
159			//
160	mocchiut	1.4	int S4Core(UInt_t run, TFile file, TSQLServer dbc, Int_t S4argc, char *S4argv[]){
161	mocchiut	1.1	//
162	pam-rm2	1.11	// Set these to true to have a verbose output.
163	mocchiut	1.1	//
164	mocchiut	1.4	Bool_t debug = false;
165			Bool_t verbose = false;
166	mocchiut	1.1	//
167	pam-rm2	1.11	//
168			// Output directory is the working directoy.
169			//
170			const char* outDir = gSystem->DirName(gSystem->DirName(file->GetPath()));
171			//
172			Int_t i = 0;
173	mocchiut	1.12	TString processFolder = "S4Folder_"+run;
174	mocchiut	1.1	if ( S4argc > 0 ){
175			i = 0;
176			while ( i < S4argc ){
177			if ( !strcmp(S4argv[i],"-processFolder") ) {
178			if ( S4argc < i+1 ){
179			throw -3;
180			};
181			processFolder = (TString)S4argv[i+1];
182			i++;
183			};
184			if ( (!strcmp(S4argv[i],"--debug")) \|\| (!strcmp(S4argv[i],"-g"))) {
185			verbose = true;
186			};
187			if ( (!strcmp(S4argv[i],"--verbose")) \|\| (!strcmp(S4argv[i],"-v"))) {
188			verbose = true;
189			};
190			i++;
191			};
192			};
193			// Variables for level2
194			//
195			TTree *S4tr = 0;
196	mocchiut	1.4	UInt_t nevents = 0;
197	mocchiut	1.1	//
198	pam-rm2	1.11	// Variables needed to reprocess data
199	mocchiut	1.1	//
200	mocchiut	1.9	Long64_t maxsize = 10000000000LL;
201			TTree::SetMaxTreeSize(maxsize);
202			//
203	mocchiut	1.1	TString S4version;
204			ItoRunInfo *runinfo = 0;
205	mocchiut	1.4	TArrayI *runlist = 0;
206	mocchiut	1.1	TTree *S4trclone = 0;
207			Bool_t reproc = false;
208			Bool_t reprocall = false;
209			UInt_t nobefrun = 0;
210			UInt_t noaftrun = 0;
211			UInt_t numbofrun = 0;
212			stringstream ftmpname;
213			TString fname;
214	mocchiut	1.4	UInt_t totfileentries = 0;
215			UInt_t idRun = 0;
216			Double_t ParamFit0 = 0.;
217			Double_t ParamFit1 = 0.;
218	mocchiut	1.1	//
219			// variables needed to handle error signals
220			//
221			Int_t code = 0;
222			Int_t sgnl;
223			//
224			// S4 level2 classes
225			//
226			S4Level2 *s4 = new S4Level2();
227			S4Level2 *s4clone = new S4Level2();
228			//
229			// define variables for opening and reading level0 file
230			//
231			TFile *l0File = 0;
232			TTree *l0tr = 0;
233			TBranch *l0head = 0;
234			TBranch *l0S4 =0;
235			pamela::S4::S4Event *l0s4e = 0;
236			pamela::EventHeader *eh = 0;
237	mocchiut	1.4	pamela::PscuHeader *ph = 0;
238	mocchiut	1.1	//
239			// Define other basic variables
240			//
241			UInt_t procev = 0;
242			stringstream file2;
243			stringstream file3;
244			stringstream qy;
245			Int_t totevent = 0;
246	mocchiut	1.4	UInt_t atime = 0;
247			// Int_t ei = 0;
248			UInt_t re = 0;
249	mocchiut	1.1	//
250			// Working filename
251			//
252			TString outputfile;
253			stringstream name;
254			name.str("");
255			name << outDir << "/";
256			//
257			// temporary file and folder
258			//
259			TFile *tempfile = 0;
260			TTree *tempS4 = 0;
261			stringstream tempname;
262			stringstream S4folder;
263			tempname.str("");
264			tempname << outDir;
265			tempname << "/" << processFolder.Data();
266			S4folder.str("");
267			S4folder << tempname.str().c_str();
268			gSystem->MakeDirectory(S4folder.str().c_str());
269			tempname << "/S4tree_run";
270			tempname << run << ".root";
271			//
272			// DB classes
273			//
274			GL_ROOT *glroot = new GL_ROOT();
275	mocchiut	1.4	GL_TIMESYNC *dbtime = 0;
276	mocchiut	1.1	//
277			// Let's start!
278			//
279			// 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
280			// if run != 0 we must process only that run but first we have to check if the tree MyDetector2 already exist in the file
281			// if it exists we are reprocessing data and we must delete that entries, if not we must create it.
282			//
283	mocchiut	1.4	if ( run == 0 ) reproc = true;
284	mocchiut	1.1	//
285			//
286			// Output file is "outputfile"
287			//
288			if ( !file->IsOpen() ){
289			//printf(" S4 - ERROR: cannot open file for writing\n");
290			throw -501;
291			};
292			//
293			// Retrieve GL_RUN variables from the level2 file
294			//
295			S4version = S4Info(false); // we should decide how to handle versioning system
296			//
297			// create an interface to RunInfo called "runinfo"
298			//
299			runinfo = new ItoRunInfo(file);
300			//
301			// open "Run" tree in level2 file, if not existing return an error (sngl != 0)
302			//
303			sgnl = 0;
304			sgnl = runinfo->Update(run,"S4",S4version);
305			if ( sgnl ){
306			//printf(" S4 - ERROR: RunInfo exited with non-zero status\n");
307			code = sgnl;
308			goto closeandexit;
309			} else {
310			sgnl = 0;
311			};
312			//
313			// number of events in the file BEFORE the first event of our run
314			//
315			nobefrun = runinfo->GetFirstEntry();
316			//
317			// total number of events in the file
318			//
319			totfileentries = runinfo->GetFileEntries();
320			//
321			// first file entry AFTER the last event of our run
322			//
323			noaftrun = runinfo->GetLastEntry() + 1;
324			//
325			// number of run to be processed
326			//
327			numbofrun = runinfo->GetNoRun();
328			//
329			// Try to access the S4 tree in the file, if it exists we are reprocessing data if not we are processing a new run
330			//
331			S4trclone = (TTree*)file->Get("S4");
332			//
333			if ( !S4trclone ){
334			//
335			// tree does not exist, we are not reprocessing
336			//
337			reproc = false;
338	mocchiut	1.4	if ( run == 0 ){
339	mocchiut	1.1	if (verbose) printf(" S4 - WARNING: you are reprocessing data but S4 tree does not exist!\n");
340			}
341	mocchiut	1.4	if ( runinfo->IsReprocessing() && run != 0 ) {
342	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");
343			}
344			} else {
345			//
346			// tree exists, we are reprocessing data. Are we reprocessing a single run or all the file?
347			//
348	mocchiut	1.9	S4trclone->SetAutoSave(900000000000000LL);
349	mocchiut	1.1	reproc = true;
350			//
351			// update versioning information
352			//
353			if (verbose) printf("\n Preparing the pre-processing...\n");
354			//
355	mocchiut	1.4	if ( run == 0 ){
356	mocchiut	1.1	//
357			// we are reprocessing all the file
358			// 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
359			//
360			reprocall = true;
361			//
362			if (verbose) printf("\n S4 - WARNING: Reprocessing all runs\n");
363			//
364			} else {
365			//
366			// 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
367			//
368			reprocall = false;
369			//
370	mocchiut	1.4	if (verbose) printf("\n S4 - WARNING: Reprocessing run number %u \n",run);
371	mocchiut	1.1	//
372			// copying old tree to a new file
373			//
374			tempfile = new TFile(tempname.str().c_str(),"RECREATE");
375			tempS4 = S4trclone->CloneTree(-1,"fast");
376			tempS4->SetName("S4-old");
377			tempfile->Write();
378			tempfile->Close();
379			}
380			//
381			// Delete the old tree from old file and memory
382			//
383			S4trclone->Delete("all");
384			//
385			if (verbose) printf(" ...done!\n");
386			//
387			};
388			//
389			// create mydetector tree mydect
390			//
391			file->cd();
392			S4tr = new TTree("S4-new","PAMELA Level2 S4 data");
393	mocchiut	1.9	S4tr->SetAutoSave(900000000000000LL);
394	mocchiut	1.1	S4tr->Branch("S4Level2","S4Level2",&s4);
395			//
396			if ( reproc && !reprocall ){
397			//
398			// open new file and retrieve also tree informations
399			//
400			tempfile = new TFile(tempname.str().c_str(),"READ");
401			S4trclone = (TTree*)tempfile->Get("S4-old");
402	mocchiut	1.9	S4trclone->SetAutoSave(900000000000000LL);
403	mocchiut	1.1	S4trclone->SetBranchAddress("S4Level2",&s4clone);
404			//
405			if ( nobefrun > 0 ){
406			if (verbose){
407			printf("\n Pre-processing: copying events from the old tree before the processed run\n");
408	mocchiut	1.4	printf(" Copying %u events in the file which are before the beginning of the run %u \n",nobefrun,run);
409	mocchiut	1.1	printf(" Start copying at event number 0, end copying at event number %u \n",nobefrun);
410			}
411			for (UInt_t j = 0; j < nobefrun; j++){
412			//
413			S4trclone->GetEntry(j);
414			//
415			// copy s4clone to mydec
416			//
417	mocchiut	1.2	s4->Clear();
418	mocchiut	1.4	//
419	mocchiut	1.1	memcpy(&s4,&s4clone,sizeof(s4clone));
420			//
421			// Fill entry in the new tree
422			//
423			S4tr->Fill();
424			//
425			};
426			if (verbose) printf(" Finished successful copying!\n");
427			};
428			};
429			//
430			// Get the list of run to be processed, if only one run has to be processed the list will contain one entry only.
431			//
432			runlist = runinfo->GetRunList();
433			//
434			// Loop over the run to be processed
435			//
436			for (UInt_t irun=0; irun < numbofrun; irun++){
437			//
438			// retrieve the first run ID to be processed using the RunInfo list
439			//
440			idRun = runlist->At(irun);
441			if (verbose){
442			printf("\n\n\n ####################################################################### \n");
443	mocchiut	1.4	printf(" PROCESSING RUN NUMBER %u \n",idRun);
444	mocchiut	1.1	printf(" ####################################################################### \n\n\n");
445			}
446			//
447	mocchiut	1.4	runinfo->ID_ROOT_L0 = 0;
448	mocchiut	1.1	//
449			// store in the runinfo class the GL_RUN variables for our run
450			//
451			sgnl = 0;
452			sgnl = runinfo->GetRunInfo(idRun);
453			if ( sgnl ){
454	mocchiut	1.4	if ( debug ) printf(" S4 - ERROR: RunInfo exited with non-zero status\n");
455	mocchiut	1.1	code = sgnl;
456			goto closeandexit;
457			} else {
458			sgnl = 0;
459			};
460			//
461	mocchiut	1.5	// now you can access that variables using the RunInfo class this way runinfo->ID_ROOT_L0
462	mocchiut	1.1	//
463	mocchiut	1.4	if ( runinfo->ID_ROOT_L0 == 0 ){
464			if ( debug ) printf("\n S4 - ERROR: no run with ID_RUN = %u \n\n Exiting... \n\n",idRun);
465	mocchiut	1.1	code = -5;
466			goto closeandexit;
467			};
468			//
469	mocchiut	1.4	// prepare the timesync for the db
470			//
471	mocchiut	1.8	if ( !dbc->IsConnected() ) throw -504;
472	mocchiut	1.4	dbtime = new GL_TIMESYNC(runinfo->ID_ROOT_L0,"ID",dbc);
473			//
474	mocchiut	1.1	// Search in the DB the path and name of the LEVEL0 file to be processed.
475			//
476	mocchiut	1.8	if ( !dbc->IsConnected() ) throw -504;
477	mocchiut	1.4	glroot->Query_GL_ROOT(runinfo->ID_ROOT_L0,dbc);
478	mocchiut	1.1	//
479			ftmpname.str("");
480			ftmpname << glroot->PATH.Data() << "/";
481			ftmpname << glroot->NAME.Data();
482			fname = ftmpname.str().c_str();
483			//
484			// print out informations
485			//
486	mocchiut	1.4	totevent = runinfo->NEVENTS;
487	mocchiut	1.1	if (verbose){
488			printf("\n LEVEL0 data file: %s \n",fname.Data());
489	mocchiut	1.4	printf(" RUN HEADER absolute time is: %u \n",runinfo->RUNHEADER_TIME);
490			printf(" RUN TRAILER absolute time is: %u \n",runinfo->RUNTRAILER_TIME);
491			printf(" %i events to be processed for run %u: from %u to %u \n\n",totevent,idRun,runinfo->EV_FROM,(runinfo->EV_FROM+totevent));
492	mocchiut	1.1	}
493			//
494			// Open Level0 file
495			//
496			l0File = new TFile(fname.Data());
497			if ( !l0File ) {
498	mocchiut	1.4	if ( debug ) printf(" S4 - ERROR: problems opening Level0 file\n");
499	mocchiut	1.1	code = -6;
500			goto closeandexit;
501			};
502	mocchiut	1.4	//
503	mocchiut	1.1	l0tr = (TTree*)l0File->Get("Physics");
504			if ( !l0tr ) {
505	mocchiut	1.4	if ( debug ) printf(" S4 - ERROR: no Physics tree in Level0 file\n");
506	mocchiut	1.1	l0File->Close();
507			code = -7;
508			goto closeandexit;
509			};
510			l0head = l0tr->GetBranch("Header");
511			if ( !l0head ) {
512	mocchiut	1.4	if ( debug ) printf(" S4 - ERROR: no Header branch in Level0 tree\n");
513	mocchiut	1.1	l0File->Close();
514			code = -8;
515			goto closeandexit;
516			};
517			l0S4 = l0tr->GetBranch("S4");
518			if ( !l0S4 ) {
519	mocchiut	1.4	if ( debug ) printf(" S4 - ERROR: no S4 branch in Level0 tree\n");
520	mocchiut	1.1	l0File->Close();
521			code = -503;
522			goto closeandexit;
523			};
524			//
525			l0tr->SetBranchAddress("S4", &l0s4e);
526			l0tr->SetBranchAddress("Header", &eh);
527			//
528	mocchiut	1.4	nevents = l0S4->GetEntries();
529	mocchiut	1.1	//
530			if ( nevents < 1 ) {
531	mocchiut	1.4	if ( debug ) printf(" S4 - ERROR: Level0 file is empty\n\n");
532	mocchiut	1.1	l0File->Close();
533			code = -11;
534			goto closeandexit;
535			};
536			//
537	mocchiut	1.5	if ( runinfo->EV_TO > nevents-1 ) {
538	mocchiut	1.4	if ( debug ) printf(" S4 - ERROR: too few entries in the S4 tree\n");
539	mocchiut	1.1	l0File->Close();
540			code = -12;
541			goto closeandexit;
542			};
543			//
544			// Check if we have to load parameter files (or calibration associated to runs and not to events)
545			// second query: which is the value of paramfit relative to the calibration?
546			//
547	mocchiut	1.4	TArrayD *params = 0;
548			params = S4_paramfit(runinfo->RUNHEADER_TIME, dbc);
549			if ( !params ){
550			code = -13;
551			goto closeandexit;
552			};
553			//
554			ParamFit0 = params->At(0);
555			ParamFit1 = params->At(1);
556	mocchiut	1.1	//
557			// run over all the events of the run
558			//
559			if (verbose) printf("\n Ready to start! \n\n Processed events: \n\n");
560			//
561	mocchiut	1.4	for ( re = runinfo->EV_FROM; re < (runinfo->EV_FROM+runinfo->NEVENTS); re++){
562	mocchiut	1.1	//
563			if ( procev%1000 == 0 && procev > 0 && verbose ) printf(" %iK \n",procev/1000);
564			//
565	mocchiut	1.4	l0head->GetEntry(re);
566	mocchiut	1.1	//
567			// absolute time of this event
568			//
569	mocchiut	1.4	ph = eh->GetPscuHeader();
570			atime = dbtime->DBabsTime(ph->GetOrbitalTime());
571	mocchiut	1.1	//
572			// paranoid check
573			//
574			if ( (atime > runinfo->RUNTRAILER_TIME) \|\| (atime < runinfo->RUNHEADER_TIME) ) {
575			if (verbose) printf(" S4 - WARNING: event at time outside the run time window, skipping it\n");
576			goto jumpev;
577			};
578			//
579			procev++;
580			//
581			// start processing
582			//
583	mocchiut	1.2	s4->Clear();
584	mocchiut	1.4	l0S4->GetEntry(re);
585	mocchiut	1.6	if (l0s4e->unpackError == 0){
586			s4->S4adc = l0s4e->S4_DATA;
587			//
588			if ((l0s4e->S4_DATA) > 31 ){
589			s4->S4calibrated = ParamFit0*((l0s4e->S4_DATA)-32)+ParamFit1;
590			}else{
591			s4->S4calibrated = 0;
592			}
593			};
594	mocchiut	1.4	//
595	mocchiut	1.7	s4->unpackError = l0s4e->unpackError;
596			//
597	mocchiut	1.1	S4tr->Fill();
598			//
599			//
600			jumpev:
601			debug = false;
602			//
603			};
604			//
605			// Here you may want to clear some variables before processing another run
606			//
607	mocchiut	1.4	delete dbtime;
608			if ( params ) delete params;
609			//
610	mocchiut	1.1	}; // process all the runs
611			//
612			if (verbose) printf("\n Finished processing data \n");
613			//
614			closeandexit:
615			//
616			// 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.
617			//
618			if ( !reprocall && reproc && code >= 0 ){
619			if ( totfileentries > noaftrun ){
620			if (verbose){
621			printf("\n Post-processing: copying events from the old tree after the processed run\n");
622			printf(" Copying %i events in the file which are after the end of the run %i \n",(int)(totfileentries-noaftrun),(int)run);
623			printf(" Start copying at event number %i end copying at event number %i \n",(int)noaftrun,(int)totfileentries);
624			}
625			for (UInt_t j = noaftrun; j < totfileentries; j++ ){
626			//
627			// Get entry from old tree
628			//
629			S4trclone->GetEntry(j);
630			//
631			// copy s4clone to s4
632			//
633	mocchiut	1.2	// s4 = new S4Level2();
634			s4->Clear();
635	mocchiut	1.1	memcpy(&s4,&s4clone,sizeof(s4clone));
636			//
637			// Fill entry in the new tree
638			//
639			S4tr->Fill();
640			};
641			if (verbose) printf(" Finished successful copying!\n");
642			};
643			};
644			//
645			// Close files, delete old tree(s), write and close level2 file
646			//
647			if ( l0File ) l0File->Close();
648			if ( tempfile ) tempfile->Close();
649			gSystem->Unlink(tempname.str().c_str());
650	mocchiut	1.4	//
651	mocchiut	1.1	if ( runinfo ) runinfo->Close();
652			if ( S4tr ) S4tr->SetName("S4");
653			if ( file ){
654			file->cd();
655			file->Write();
656			};
657			//
658			gSystem->Unlink(S4folder.str().c_str());
659			//
660			// the end
661			//
662			if (verbose) printf("\n Exiting...\n");
663	mocchiut	1.4	if ( S4tr ) S4tr->Delete();
664	mocchiut	1.3	//
665			if ( s4 ) delete s4;
666			if ( s4clone ) delete s4clone;
667			if ( glroot ) delete glroot;
668			if ( runinfo ) delete runinfo;
669			//
670	mocchiut	1.1	if(code < 0) throw code;
671			return(code);
672			}
673
674