PAMELA%20software/PamelaDigitizer/Pamelagp2Digits.cxx

/////////////////////////////////////////////////////////////////////////
//      Program to convert an gpamela ntuple to pamela raw data (.pam).
//      A root file containing the ntuple is also produced.
//      The conversion is done using a slightly patched version of
//      Rene Brun's h2root.
//
//      Created : Jan Conrad (conrad@particle.kth.se)
//      Modified: Silvio Orsi (silvio.orsi@roma2.infn.it)
//
//
//  HOWTO (RECOMMENDED):
//  ./ Pamelagp2Digits filename.his
//  It generates filename.pam (PAMELA raw data) and filename.gp.root (sim info)
//  
//  NB: more details are present in the file HOW-TO.TXT
//
//  HOWTO (only for testing purposes)
//  Pamelagp2Digits hbook_filename root_filename  raw_filename compress tolower
//  - If the 2nd and 3rd parameters are missing the names are generated from the hbook file name. 
//  - The following flags are from h2root and default values are used: 
//    if compress is missing (or = 1) the ROOT file will be compressed
//    if compress = 0 the ROOT file will not be compressed.
//    if tolower is missing (or = 1) ntuple column names are converted to lower case
//                but the first character is converted to upper case.
//    if tolower = 2 same as tolower=1 except that the first character is also
//                convertex to lower case
//
//  MODIFICATIONS:
//
//  v. 1.3 (S.Orsi, Roma2, 11 October 2007)
//  - TOF: + changes and major corrections in ADC and TDC (W.Menn, D.Campana, S.Orsi)
//         + flag DEBUG added (default: DEBUG=false; if true, print on screem some messages to debug)
//  - AC: + shift register filled; 
//        + minor bugs fixed
//        + counters increment by 1 at each event (they were constant before)
//  - S4: + minor bugs fixed (S.Borisov)
//        + the routine DigitizeS4() is now inserted in the code. For DV versions earlier than October 2007, the option "-S4" is still needed because S4 calibration is not present
//  - corrected severe bug that caused yoda to process only part of large data files (file.pam). S4 data were written to file even if the DigitizeS4() routine was not called. Previous versions of the digitizer should have crashed always, but unexpectedly worked on small files.
//  - file HOW-TO-DIGIT.TXT written (mainly by S.Bottai): contains information on how to run the chain from the DB creation to DarthVader through Digitizer, yoda and YodaProfiler
//  - digitizer version numbers modified according to CVS repository (v1.00->v1.1, v1.01->v1.2)
//  - some flags (LDFLAGS) in the Makefile have been changed; they are needed on some machines (e.g. pamelatov.roma2.infn.it), but give errors on others (e.g. pamelaws02.na.infn.it). See Makefile for details if the compilation fails due to library errors)
//
//  v. 1.2 (S.Orsi, Roma2, 28 September 2007)
//  - TOF TDC inserted (to be tuned)
//  - improved tracker dEdx, tracker saturation inserted (S.Bottai)
//  - S4 routine inserted in code (not in read-out)
//  - bugs with packet length corrected
//  - small bugs fixed
//  - NB: Run DarthVader with the options: "DarthVader -zerofill -idRun 1 -ALL +RUN +CAL [ --no-crosstalk ] +TRK +TOF +AC +TRG +ND" or  "DarthVader -zerofill -idRun 1 +CAL [ --no-crosstalk ] -S4", i.e. without S4
// 
//  v. 1.1 (S.Orsi, Roma2, 13 September 2007)
//  - trigger (dummy), tof (preliminary, adc only), ND (preliminary) inserted
//  - various changes and bug fixes
//  - padding increased (fPADbuffer=64, fPadding = padbytes+64) 
//
//  v. beta (J.Conrad, KTH, 2006)
//  - compiles; includes pscu, calo, trk, ac; not present on cvs
//
/////////////////////////////////////////////////////////////////////////

#include <stdlib.h>
#include <string.h>
#include <ctype.h>
#include "Riostream.h"
#include "TFile.h"
#include "TDirectory.h"
#include "TTree.h"
#include "TLeafI.h"
#include "TH1.h"
#include "TH2.h"
#include "TProfile.h"
#include "TGraph.h"
#include "TMath.h"
#include "Digitizer.h"

int Error;   //to be removed soon

//  Define the names of the Fortran common blocks for the different OSs

#ifndef WIN32
#define PAWC_SIZE 5000000
#  define pawc pawc_
#  define quest quest_
#  define hcbits hcbits_
#  define hcbook hcbook_
#  define rzcl rzcl_
int pawc[PAWC_SIZE];
int quest[100];
int hcbits[37];
int hcbook[51];
int rzcl[11];
#else
// on windows /pawc/ must have the same length as in libPacklib.a !!
#define PAWC_SIZE 2000000
#  define pawc   PAWC
#  define quest  QUEST
#  define hcbits HCBITS
#  define hcbook HCBOOK
#  define rzcl   RZCL
extern "C" int pawc[PAWC_SIZE];
extern "C" int quest[100];
extern "C" int hcbits[37];
extern "C" int hcbook[51];
extern "C" int rzcl[11];
#endif

int *iq, *lq;
float *q;
char idname[128];
int nentries;
char chtitl[128];
int ncx,ncy,nwt,idb;
int lcont, lcid, lcdir;
float xmin,xmax,ymin,ymax;
const Int_t kMIN1 = 7;
const Int_t kMAX1 = 8;

#if defined __linux
//On linux Fortran wants this, so we give to it!
int xargv=0;
int xargc=0;
void MAIN__() {}
#endif

//  Define the names of the Fortran subroutine and functions for the different OSs

#ifndef WIN32
# define hlimit  hlimit_
# define hropen  hropen_
# define hrin    hrin_
# define hnoent  hnoent_
# define hgive   hgive_
# define hgiven  hgiven_
# define hprntu  hprntu_
# define hgnpar  hgnpar_
# define hgnf    hgnf_
# define hgnt    hgnt_
# define rzink   rzink_
# define hdcofl  hdcofl_
# define hmaxim  hmaxim_
# define hminim  hminim_
# define hdelet  hdelet_
# define hntvar2 hntvar2_
# define hbname  hbname_
# define hbnamc  hbnamc_
# define hbnam   hbnam_
# define hi      hi_
# define hie     hie_
# define hif     hif_
# define hij     hij_
# define hix     hix_
# define hijxy   hijxy_
# define hije    hije_
# define hcdir   hcdir_
# define zitoh   zitoh_
# define uhtoc   uhtoc_

# define type_of_call
# define DEFCHAR  const char*
# define PASSCHAR(string) string
#else
# define hlimit  HLIMIT
# define hropen  HROPEN
# define hrin    HRIN
# define hnoent  HNOENT
# define hgive   HGIVE
# define hgiven  HGIVEN
# define hprntu  HPRNTU
# define hgnpar  HGNPAR
# define hgnf    HGNF
# define hgnt    HGNT
# define rzink   RZINK
# define hdcofl  HDCOFL
# define hmaxim  HMAXIM
# define hminim  HMINIM
# define hdelet  HDELET
# define hntvar2 HNTVAR2
# define hbname  HBNAME
# define hbnamc  HBNAMC
# define hbnam   HBNAM
# define hi      HI
# define hie     HIE
# define hif     HIF
# define hij     HIJ
# define hix     HIX
# define hijxy   HIJXY
# define hije    HIJE
# define hcdir   HCDIR
# define zitoh   ZITOH
# define uhtoc   UHTOC
# define type_of_call  _stdcall
# define DEFCHAR  const char*, const int
# define PASSCHAR(string) string, strlen(string)
#endif

extern "C" void  type_of_call hlimit(const int&);
#ifndef WIN32
extern "C" void  type_of_call hropen(const int&,DEFCHAR,DEFCHAR,DEFCHAR,
                        const int&,const int&,const int,const int,const int);
#else
extern "C" void  type_of_call hropen(const int&,DEFCHAR,DEFCHAR,DEFCHAR,
                        const int&,const int&);
#endif

extern "C" void  type_of_call hrin(const int&,const int&,const int&);
extern "C" void  type_of_call hnoent(const int&,const int&);
#ifndef WIN32
extern "C" void  type_of_call hgive(const int&,DEFCHAR,const int&,const float&,const float&,
   const int&,const float&,const float&,const int&,const int&,const int);
#else
extern "C" void  type_of_call hgive(const int&,DEFCHAR,const int&,const float&,const float&,
   const int&,const float&,const float&,const int&,const int&);
#endif

#ifndef WIN32
extern "C" void  type_of_call hgiven(const int&,DEFCHAR,const int&,DEFCHAR,
   const float&,const float&,const int,const int);
#else
extern "C" void  type_of_call hgiven(const int&,DEFCHAR,const int&,DEFCHAR,
   const float&,const float&);
#endif

#ifndef WIN32
extern "C" void  type_of_call hntvar2(const int&,const int&,DEFCHAR,DEFCHAR,DEFCHAR,int&,int&,int&,int&,int&,const int,const int, const int);
#else
extern "C" void  type_of_call hntvar2(const int&,const int&,DEFCHAR,DEFCHAR,DEFCHAR,int&,int&,int&,int&,int&);
#endif

#ifndef WIN32
extern "C" void  type_of_call hbnam(const int&,DEFCHAR,const int&,DEFCHAR,const int&,const int, const int);
#else
extern "C" void  type_of_call hbnam(const int&,DEFCHAR,const int&,DEFCHAR,const int&);
#endif

extern "C" void  type_of_call hprntu(const int&);
extern "C" void  type_of_call hgnpar(const int&,const char *,const int);
extern "C" void  type_of_call hgnf(const int&,const int&,const float&,const int&);
extern "C" void  type_of_call hgnt(const int&,const int&,const int&);
extern "C" void  type_of_call rzink(const int&,const int&,const char *,const int);
extern "C" void  type_of_call hdcofl();
extern "C" void  type_of_call hmaxim(const int&,const float&);
extern "C" void  type_of_call hminim(const int&,const float&);
extern "C" void  type_of_call hdelet(const int&);
extern "C" float type_of_call hi(const int&,const int&);
extern "C" float type_of_call hie(const int&,const int&);
extern "C" float type_of_call hif(const int&,const int&);
extern "C" float type_of_call hij(const int&,const int&,const int&);
extern "C" void  type_of_call hix(const int&,const int&,const float&);
extern "C" void  type_of_call hijxy(const int&,const int&,const int&,const float&,const float&);
extern "C" float type_of_call hije(const int&,const int&,const int&);
#ifndef WIN32
extern "C" void  type_of_call hcdir(DEFCHAR,DEFCHAR ,const int,const int);
#else
extern "C" void  type_of_call hcdir(DEFCHAR,DEFCHAR);
#endif

extern "C" void  type_of_call zitoh(const int&,const int&,const int&);
#ifndef WIN32
extern "C" void  type_of_call uhtoc(const int&,const int&,DEFCHAR,int&,const int);
#else
extern "C" void  type_of_call uhtoc(const int&,const int&,DEFCHAR,int&);
#endif

extern void convert_directory(const char*, char* file_raw);
extern void convert_1d(Int_t id);
extern void convert_cwn(Int_t id,char* file_raw);


Int_t golower  = 1;
Int_t bufsize  = 64000;
Int_t optcwn = 1;


int main(int argc, char **argv)

{
  if (argc < 2) {
     printf("Error: Pamelagp2Digits \n");
     printf("Pamelagp2Digits file.hbook file.root file.pam [compress] [tolower] [lrecl] [bufsize] [optcwn] \n");
     printf("      if file.root is not given  it will be = file.root\n");
     printf("      compress = 1 by default (use 0 for no compression)\n");
     printf("      tolower  = 1 by default (use 0 to keep case of column names)\n");
     printf("      lrecl =0 by default (must be specified if >8092)\n");
     printf("      bufsize = 8000 by default (branch buffer size)\n");
     printf("      for cwn ntuple only: optcwn  = 1 (default)  1-byte int -> char, 2-byte int -> short, (use 0 to keep 4-byte int) \n");
     return 1;
  }

  lq = &pawc[9];
  iq = &pawc[17];
  void *qq = iq;
   q = (float*)qq;
  char *file_in=argv[1];
  char *file_out = " ";
  char *file_raw;

  Int_t compress = 1;
  int ier=0, record_size=0;

  if (argc > 8) {
    optcwn = atoi(argv[8]);
  }
  if (argc > 7) {
    bufsize = atoi(argv[7]);
  }
  if (argc > 6) {
    record_size = atoi(argv[6]);
  }
  if (argc > 5) {
    golower = atoi(argv[5]);
  }
  if (argc > 4) {
    compress = atoi(argv[4]);
  }

  if (argc > 3) {
    file_raw=argv[3];
  } else {
    file_raw= new char[2000];
    strcpy(file_raw,file_in);
    char *dot = strrchr(file_raw,'.');
    if (dot) strcpy(dot+1,"pam");
    else     strcat(file_out,".pam");
  }

  if (argc > 2) {
    file_out=argv[2];
  } else {
    file_out= new char[2000];
    strcpy(file_out,file_in);
    char *dot = strrchr(file_out,'.');
    if (dot) strcpy(dot+1,"gp.root");     //modified S.Orsi 09/'07
    else     strcat(file_out,".gp.root");
  }


#if defined(_HIUX_SOURCE) && !defined(__GNUC__)
  hf_fint((char *)NULL);
#endif


  int pawc_size = PAWC_SIZE;
  hlimit(pawc_size);

  int lun = 10;
#ifndef WIN32
  hropen(lun,PASSCHAR("example"),PASSCHAR(file_in),PASSCHAR("p"),record_size,ier,7,strlen(file_in),1);
#else
  hropen(lun,PASSCHAR("example"),PASSCHAR(file_in),PASSCHAR("p"),record_size,ier);
#endif

  if (ier) printf (" Error on hropen was %d \n", ier);
  if (quest[0]) {
     printf("Error cannot open input file: %s\n",file_in);
     return 1;
  }

  char root_file_title[2000];

  TFile* hfile= TFile::Open(file_out,"RECREATE",root_file_title,compress);
  
  if (!hfile) {
     printf("Error: can't open output file: %s \n",file_out);
     return 1;
  }

  convert_directory("//example",file_raw);

  //hfile->Write();
  //hfile->ls();

  hfile->Close();
  delete hfile;
  return(0);
}

 
//____________________________________________________________________________
void convert_directory(const char *dir, char* file_raw)
{


  printf(" Converting directory %s\n",dir);
  Int_t id;
//  Int_t nastycase=0;
//  Int_t nastyprint=0;
//  Int_t idold = 0;
  for (Int_t key=1;key<1000000;key++) {
     int z0 = 0;
     rzink(key,z0,"S",1);
     if (quest[0]) break;
     if (quest[13] & 8) {
        continue;
//        if (!nastyprint) {
//           printf("Found nasty Hbook case!! You had an Hbook error message\n");
//           printf(" when creating the file (too many records)\n");
//           printf(" Hbook file should have been created with a bigger LRECL\n");
//           printf(" ROOT will try to recover\n");
//           nastyprint = 1;
//        }
//        nastycase  = 1;
     }
     id = quest[20];
//     if (id == idold && nastycase) continue;
//     nastycase  = 0;
//     idold = id;
     int i999 = 999;
     hrin(id,i999,0);
     if (quest[0]) {
        printf("Error cannot read ID = %d\n",id);
        break;
     }
     hdcofl();
     lcid  = hcbook[10];
     lcont = lq[lcid-1];
     if (hcbits[3]) {
        convert_cwn(id,file_raw);
        hdelet(id);
        continue;
     }
     
     if (hcbits[0]) {
       convert_1d(id);
        hdelet(id);
        continue;
     }
    
  }

// converting subdirectories of this directory
  const Int_t kKLS = 26;
  const Int_t kKNSD = 23;
  lcdir = rzcl[2];
  Int_t ls = iq[lcdir+kKLS];
  Int_t ndir = iq[lcdir+kKNSD];
  Int_t nch=16;
  Int_t ihdir[4];
  Int_t ncw = 4;
  TDirectory *cursav = gDirectory;
  Int_t i;
  char chdir[17];
  char hbookdir[17];
  for (Int_t k=0;k<ndir;k++) {
     lcdir = rzcl[2];
     zitoh(iq[lcdir+ls+7*k],ihdir[0],ncw);
     for (i=0;i<17;i++) chdir[i] = 0;
#ifndef WIN32
     uhtoc(ihdir[0],ncw,chdir,nch ,16);
#else
     uhtoc(ihdir[0],ncw,chdir,16,nch);
#endif
     strcpy(hbookdir,chdir);
     for (i=16;i>0;i--) {
        if (chdir[i] == 0) continue;
        if (chdir[i] != ' ') break;
        chdir[i] = 0;
     }
#ifndef WIN32
     hcdir(PASSCHAR(hbookdir),PASSCHAR(" "),16,1);
#else
     hcdir(PASSCHAR(hbookdir),PASSCHAR(" "));
#endif
     TDirectory *newdir = new TDirectory(chdir,chdir);
     newdir->cd();
     convert_directory(chdir, file_raw);
#ifndef WIN32
     hcdir(PASSCHAR("\\"),PASSCHAR(" "),1,1);
#else
     hcdir(PASSCHAR("\\"),PASSCHAR(" "));
#endif
     newdir->Write();
     cursav->cd();
  }
}

//____________________________________________________________________________
  void convert_1d(Int_t id)
{
  if (id > 0) sprintf(idname,"h%d",id);
  else        sprintf(idname,"h_%d",-id);
  hnoent(id,nentries);
#ifndef WIN32
  hgive(id,chtitl,ncx,xmin,xmax,ncy,ymin,ymax,nwt,idb,80);
#else
  hgive(id,chtitl,80,ncx,xmin,xmax,ncy,ymin,ymax,nwt,idb);
#endif
  chtitl[4*nwt] = 0;
  TH1F *h1;
  Int_t i;
  if (hcbits[5]) {
     Int_t lbins = lq[lcid-2];
     Double_t *xbins = new Double_t[ncx+1];
     for (i=0;i<=ncx;i++) xbins[i] = q[lbins+i+1];
     h1 = new TH1F(idname,chtitl,ncx,xbins);
     delete [] xbins;
  } else {
     h1 = new TH1F(idname,chtitl,ncx,xmin,xmax);
  }
  if (hcbits[8]) h1->Sumw2();
  TGraph *gr = 0;
  if (hcbits[11]) {
     gr = new TGraph(ncx);
     h1->GetListOfFunctions()->Add(gr);
  }

  Float_t x;
  for (i=0;i<=ncx+1;i++) {
     x = h1->GetBinCenter(i);
     h1->Fill(x,hi(id,i));
     if (hcbits[8]) h1->SetBinError(i,hie(id,i));
     if (gr && i>0 && i<=ncx) gr->SetPoint(i,x,hif(id,i));
  }
  Float_t ymin, ymax;
  if (hcbits[19]) {
     ymax = q[lcid+kMAX1];
     h1->SetMaximum(ymax);
  }
  if (hcbits[20]) {
     ymin = q[lcid+kMIN1];
     h1->SetMinimum(ymin);
  }
  h1->SetEntries(nentries);
  h1->Write();
  delete h1;
}
//____________________________________________________________________________
  void convert_cwn(Int_t id,char* file_raw)
{
  const int kNchar=9;
  int nvar;
  int ier=0;
  int i,j;
  int nsub,itype,isize,ielem;
  char *chtag_out;
  float *x;
  float rmin[1000], rmax[1000];

  if (id > 0) sprintf(idname,"h%d",id);
  else        sprintf(idname,"h_%d",-id);
  hnoent(id,nentries);
  printf(" Converting CWN with ID= %d, nentries = %d\n",id,nentries);
  nvar=0;
#ifndef WIN32
  hgiven(id,chtitl,nvar,PASSCHAR(""),rmin[0],rmax[0],80,0);
#else
  hgiven(id,chtitl,80,nvar,PASSCHAR(""),rmin[0],rmax[0]);
#endif


  chtag_out = new char[nvar*kNchar+1];
  Int_t *charflag = new Int_t[nvar];
  Int_t *lenchar  = new Int_t[nvar];
  Int_t *boolflag = new Int_t[nvar];
  Int_t *lenbool  = new Int_t[nvar];
  UChar_t *boolarr = new UChar_t[10000];
  x = new float[nvar];
  char *bigbuf = new char[2500000];

  chtag_out[nvar*kNchar]=0;
  for (i=0;i<80;i++)chtitl[i]=0;
#ifndef WIN32
  hgiven(id,chtitl,nvar,chtag_out,rmin[0],rmax[0],80,kNchar);
#else
  hgiven(id,chtitl,80,nvar,chtag_out,kNchar,rmin[0],rmax[0]);
#endif
#ifndef WIN32
  hbnam(id,PASSCHAR(" "),bigbuf[0],PASSCHAR("$CLEAR"),0,1,6);
#else
  hbnam(id,PASSCHAR(" "),bigbuf[0],PASSCHAR("$CLEAR"),0);
#endif

  Int_t bufpos = 0;
  Int_t isachar = 0;
  Int_t isabool = 0;
  char fullname[1024];
  char name[512];
  char block[512];
  char oldblock[512];
  Int_t nbits = 0;
  strcpy(oldblock,"OLDBLOCK");
  Int_t oldischar = -1;
  for (i=80;i>0;i--) {if (chtitl[i] == ' ') chtitl[i] = 0; }
  TTree *tree = new TTree(idname,chtitl);
  for(i=0; i<nvar;i++) {
     memset(name,' ',sizeof(name));
     name[sizeof(name)-1] = 0;
     memset(block,' ',sizeof(block));
     block[sizeof(block)-1] = 0;
     memset(fullname,' ',sizeof(fullname));
     fullname[sizeof(fullname)-1]=0;
#ifndef WIN32
     hntvar2(id,i+1,PASSCHAR(name),PASSCHAR(fullname),PASSCHAR(block),nsub,itype,isize,nbits,ielem,512,1024,512);
#else
     hntvar2(id,i+1,PASSCHAR(name),PASSCHAR(fullname),PASSCHAR(block),nsub,itype,isize,nbits,ielem);
#endif
     
     for (j=510;j>0;j--) {
       if(golower) name[j] = tolower(name[j]);
       if (name[j] == ' ') name[j] = 0;
     }
     if (golower == 2) name[0] = tolower(name[0]);
     
     for (j=1022;j>0;j--) {
        if(golower && fullname[j-1] != '[') fullname[j] = tolower(fullname[j]);
        // convert also character after [, if golower == 2
        if (golower == 2) fullname[j] = tolower(fullname[j]);
        if (fullname[j] == ' ') fullname[j] = 0;
     }
     // convert also first character, if golower == 2
     if (golower == 2) fullname[0] = tolower(fullname[0]);
     for (j=510;j>0;j--) {
        if (block[j] == ' ') block[j] = 0;
        else break;
     }
     if (itype == 1) {
       if( isize == 4 )     strcat(fullname,"/F");
       else if( isize == 8) strcat(fullname,"/D");
     }
     
     
     // add support for 1-byte (Char_t) and 2-byte (Short_t) integers  
     Int_t nBytesUsed = 4; // default for integers
     
     if( itype == 2 )  
       {
         if( optcwn == 1 ) 
           { 
             if( nbits > 16 ) 
               {
                 strcat(fullname,"/I");
               }
             else 
               {
                 if( nbits > 8 )
                   { 
                     strcat(fullname,"/S");
                     nBytesUsed = 2;
                   }
                 else
                   {
                     strcat(fullname,"/B");
                     nBytesUsed = 1;
                   }
               }
           }
         else 
           {
             strcat(fullname,"/I");
           }
       }
     
     // add support for 1-byte (UChar_t) and 2-byte (UShort_t) integers  
     if ( itype == 3 ) 
       {
         if(  optcwn == 1 ) 
           { 
             if( nbits > 16) 
               {
                 strcat(fullname,"/i");
               }
             else
               {   
                 if( nbits > 8 )
                   {
                     strcat(fullname,"/s");
                     nBytesUsed = 2;
                   }
                 else
                   {
                     strcat(fullname,"/b");
                     nBytesUsed = 1;
                   }
               }
           }
         else 
           {
             strcat(fullname,"/i");
           }
       }
     
     
     // if (itype == 4) strcat(fullname,"/i");
      if (itype == 4) strcat(fullname,"/b");
     if (itype == 5) strcat(fullname,"/C");
     //printf("Creating branch:%s, block:%s, fullname:%s, nsub=%d, itype=%d, isize=%d, ielem=%d\n",name,block,fullname,nsub,itype,isize,ielem);
     Int_t ischar;
     if (itype == 5) ischar = 1;
     else            ischar = 0;
     if (ischar != oldischar || strcmp(oldblock,block) != 0) {
        strcpy(oldblock,block);
        oldischar = ischar;
        Int_t lblock   = strlen(block);
        Long_t add= (Long_t)&bigbuf[bufpos];
#ifndef WIN32
        hbnam(id,PASSCHAR(block),add,PASSCHAR("$SET"),ischar,lblock,4);
#else
        hbnam(id,PASSCHAR(block),add,PASSCHAR("$SET"),ischar);
#endif

     }
     TBranch *branch = tree->Branch(name,(void*)&bigbuf[bufpos],fullname,bufsize);
     boolflag[i] = -10;
     charflag[i] = 0;
     if (itype == 4) {isabool++; boolflag[i] = bufpos; lenbool[i] = ielem;}
     bufpos += isize*ielem;
     if (ischar) {isachar++; charflag[i] = bufpos-1; lenchar[i] = isize*ielem;}
     TObjArray *ll= branch->GetListOfLeaves();
     TLeaf *leaf = (TLeaf*)ll->UncheckedAt(0);
     if (!leaf) continue;
     TLeafI *leafcount = (TLeafI*)leaf->GetLeafCount();
     if (leafcount) {
        if (leafcount->GetMaximum() <= 0) leafcount->SetMaximum(ielem);
     }
  }
  Int_t cf,l;
  for(i=1;i<=nentries;i++) {
     hgnt(id,i,ier);
     if (isabool) { // if column is boolean
        for (j=0;j<nvar;j++) {
           cf = boolflag[j];
           if (cf >-1) {
              for (l=0;l<lenbool[j];l++) {
#ifdef R__BYTESWAP
                 boolarr[l] = (UChar_t)bigbuf[cf+4*l];
#else
                 boolarr[l] = (UChar_t)bigbuf[cf+4*l+3];
#endif
              }
              memcpy(&bigbuf[cf],boolarr,lenbool[j]);
           }
        }
     }
     if (isachar) { // if column is character, set terminator
        for (j=0;j<nvar;j++) {
           cf = charflag[j];
           if (cf) {
              bigbuf[cf] = '\0';
              if (bigbuf[cf-1] != ' ') continue;
              bigbuf[cf-1] = '\0';
              if (bigbuf[cf-2] != ' ') continue;
              bigbuf[cf-2] = '\0';
           }
        }
     }

    // if optimizing cwn ntuple then look up bufpos and adjust integers to be shorts or chars
    if(  optcwn == 1 ) 
      { 
        bufpos = 0;
        for(int k=0; k<nvar;k++) 
          {
#ifndef WIN32
            hntvar2(id,k+1,PASSCHAR(name),PASSCHAR(fullname),PASSCHAR(block),nsub,itype,isize,nbits,ielem,32,64,32);
#else
            hntvar2(id,k+1,PASSCHAR(name),PASSCHAR(fullname),PASSCHAR(block),nsub,itype,isize,nbits,ielem);
#endif
            
            Int_t nBytesUsed = 4; // default for integers
            
            if ( itype == 2 || itype == 3) 
              {
                if( nbits > 16) 
                  {
                    // do nothing for integers of 4 byte
                  }
                else
                  {   
                    if( nbits > 8 )
                      {
                        nBytesUsed = 2;
                      }
                    else
                      {
                        nBytesUsed = 1;
                      }
                  }
              }
            
            if(nBytesUsed == 1)
              {
                
                for(Int_t index = 0; index < ielem; index++)
                  {
                    // shift all chars with data to be one after another
                    bigbuf[bufpos + index*nBytesUsed ] =  bigbuf[bufpos + index * isize];
                  }
              } 
            else
              {
                if(nBytesUsed == 2)
                  {
                    
                    for(Int_t index = 0; index < ielem; index++)
                      {
                        // shift all shorts ( 2 chars) with data to be one after another 
                        bigbuf[bufpos + index*nBytesUsed ] =  bigbuf[bufpos + index * isize];
                        bigbuf[bufpos + index*nBytesUsed+1 ] =  bigbuf[bufpos + index * isize+1];
                      }
                  }
              }
            bufpos += isize*ielem;
          }
      }

     tree->Fill();
  }

  tree->Write();

  std::cout << "Invoking Digitizer" << endl << flush;

  Digitizer* dig = new Digitizer(tree,file_raw);
  dig->Loop();
  dig->Close();

  std::cout << "Finished" << endl << flush;

}

