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skimmer.C
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skimmer.C
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/******************************************************************************
* Program: TPC Phase I data skimmer
* Author: Michael Hedges
* Purpose: Skim Igal's BASF2 output for relevant data to be stored in BEAST
* global ntuples for analysis
******************************************************************************/
#define skimmer_cxx
#include "skimmer.h"
#include <TH2.h>
#include <TStyle.h>
#include <TCanvas.h>
#include <iostream>
#include <stddef.h>
#include <stdlib.h>
#include <stdio.h>
#include <string.h>
#include <inttypes.h>
#include <algorithm>
#include <iostream>
#include <algorithm>
#include <vector>
#include <sys/time.h>
#include "TROOT.h"
#include "TGraph2D.h"
#include "TMath.h"
#include <TVector3.h>
#include <TVirtualFitter.h>
#define DEBUG 0
#define NROWS 336
#define NCOLS 80
#define NPERFILE 1000
#define ARRSIZE 2400
float weight[3] = {1., 1., 1.};
int iTPC=0;
TGraph2D *m_gr;
void skimmer::fitTrack() {
/* Find long aspect of track */
int x_max_index, y_max_index;
int x_min_index, y_min_index;
double *x_vals, *y_vals, *z_vals;
int npoints;
npoints = m_gr->GetN();
x_vals = m_gr->GetX(); y_vals = m_gr->GetY(); z_vals = m_gr->GetZ();
for (int ii=0; ii<npoints; ii++){
if ( x_vals[ii] == m_gr->GetXmax() )
x_max_index = ii;
else if ( x_vals[ii] == m_gr->GetXmin() )
x_min_index = ii;
if ( y_vals[ii] == m_gr->GetYmax() )
y_max_index = ii;
else if ( y_vals[ii] == m_gr->GetYmin() )
y_min_index = ii;
}
int p_min_idx = 0, p_max_idx = 0;
if ( ( m_gr->GetXmax() - m_gr->GetXmin() ) >=
( m_gr->GetYmax() - m_gr->GetYmin() ) ) {
p_min_idx = x_min_index;
p_max_idx = x_max_index;
} else {
p_min_idx = y_min_index;
p_max_idx = y_max_index;
}
// start fit track
TVirtualFitter::SetDefaultFitter("Minuit");
TVirtualFitter *min = TVirtualFitter::Fitter(0, 5); // Fitting with theta and phi
min -> SetObjectFit(m_gr);
min -> SetFCN(SumDistance2);
// MAKE QUIET
double p1=-1;
min->ExecuteCommand("SET PRINTOUT",&p1, 1);
double arglist[6] = {-1, 0, 0, 0, 0, 0};
TVector3 temp_vector3 (x_vals[p_max_idx]-x_vals[p_min_idx],
y_vals[p_max_idx]-y_vals[p_min_idx],
z_vals[p_max_idx]-z_vals[p_min_idx]);
double init_theta = temp_vector3.Theta();
double init_phi = temp_vector3.Phi();
double pStart[5] = {x_vals[p_min_idx], y_vals[p_min_idx], z_vals[p_min_idx],
init_theta, init_phi};
min -> SetParameter(0, "x0", pStart[0], 0.01, 0, 0);
min -> SetParameter(1, "y0", pStart[1], 0.01, 0, 0);
min -> SetParameter(2, "z0", pStart[2], 0.01, 0, 0);
min -> SetParameter(3, "theta", pStart[3], 0.0001, 0, 0);
min -> SetParameter(4, "phi", pStart[4], 0.0001, 0, 0);
arglist[0] = 1000; // number of function calls
arglist[1] = 0.01; // tolerance
min -> ExecuteCommand("MIGRAD", arglist, 2);
for (int iPar = 0; iPar < 5; iPar++){
par_fit[iPar] = min -> GetParameter(iPar);
par_fit_err[iPar] = min -> GetParError(iPar);
}
phi = par_fit[4]*180./3.14159;
theta = par_fit[3]*180./3.14159;
getTrackInfo();
double amin, edm, errdef;
int npar, nparx;
min -> GetStats(amin, edm, errdef, npar, nparx);
chi2 = amin/(double)(npoints-npar);
/* Second arg comes from defs in constants.h */
delete min;
}
void skimmer::SumDistance2(int &, double *, double & sum, double * par, int ) {
TGraph2D * m_gr = dynamic_cast<TGraph2D*>( (TVirtualFitter::GetFitter())->GetObjectFit() );
//assert (m_gr != 0);
double * px = m_gr->GetX();
double * py = m_gr->GetY();
double * pz = m_gr->GetZ();
int np = m_gr->GetN();
sum = 0;
for (int i = 0; i < np; ++i) {
double d = distance2(px[i],py[i],pz[i],par);
sum += d;
}
}
double skimmer::distance2(double px,double py,double pz, double *p) {
TVector3 xp(px,py,pz);
TVector3 x0(p[0], p[1], p[2]);
TVector3 u (TMath::Sin(p[3])*TMath::Cos(p[4]), TMath::Sin(p[3])*TMath::Sin(p[4]), TMath::Cos(p[3]));
double coeff = u*(xp-x0);
TVector3 n = xp - x0 - coeff * u;
double dx = n.x();
double dy = n.y();
double dz = n.z();
double d2_x = TMath::Power(dx/weight[0], 2);
double d2_y = TMath::Power(dy/weight[1], 2);
double d2_z = TMath::Power(dz/weight[2], 2);
double d2 = d2_x + d2_y + d2_z;
return d2;
}
void skimmer::getTrackInfo(){
// Get track length
TVector3 fit_position(par_fit[0], par_fit[1], par_fit[2]);
TVector3 unit_direction(TMath::Sin(par_fit[3])*TMath::Cos(par_fit[4]), TMath::Sin(par_fit[3])*TMath::Sin(par_fit[4]), TMath::Cos(par_fit[3]));
float t_const = -1e-10;
float x_point = fit_position.x() + t_const * unit_direction.x();
float y_point = fit_position.y() + t_const * unit_direction.y();
float z_point = fit_position.z() + t_const * unit_direction.z();
TVector3 initial_position(x_point, y_point, z_point);
float min_distance = 1e+30;
float max_distance = -1e+30;
float distance = 0.0;
double * X = m_gr->GetX();
double * Y = m_gr->GetY();
double * Z = m_gr->GetZ();
int ipoints = m_gr->GetN();
for (unsigned int iPoint = 0; iPoint < ipoints; iPoint++){
TVector3 position (X[iPoint], Y[iPoint], Z[iPoint]);
TVector3 position_vect = position - initial_position;
distance = unit_direction * position_vect;
if (distance < min_distance) min_distance = distance;
if (distance > max_distance) max_distance = distance;
}
t_length = max_distance - min_distance;
// Get impact parameters
// x=0 x=end y=0 y=end
float end_positions[4] = {0.0, 250. * 80., 0.0, 50. * 336.};
for (int iPos = 0; iPos < 4; iPos++){
t_const = 0.0;
if ( iPos < 2 ) t_const = (end_positions[iPos]-fit_position.X())/unit_direction.X();
else t_const = (end_positions[iPos]-fit_position.Y())/unit_direction.Y();
// it might need to change
if ( iPos < 2 ) impact_pars[iPos] = y_point;
else impact_pars[iPos] = x_point;
}
}
void skimmer::getHitside(){
// Get Hitside information. This is a 4 digit number. 1111 is all edges, 0 is
// no edges. Order is top, bottom, right, left. 11 is alpha from sources.
int cut_dim = 500; //um (it should be 250*integer)
int set_edge_row_up = 335-cut_dim/250*5, set_edge_row_dw = cut_dim/250*5;
int set_edge_col_up = 79-cut_dim/250, set_edge_col_dw = cut_dim/250;
int c_row_up = 0, c_row_dw = 0, c_col_up = 0, c_col_dw = 0;
int c_row_up_col_up = 0, c_row_up_col_dw = 0, c_row_dw_col_up = 0, c_row_dw_col_dw = 0;
int c_inside = 0;
int ncorners = 0;
int check_edge = 0, nhits_edge = 0;
int icol, irow;
int nedges;
for (int iPoint = 0; iPoint < npoints; iPoint++){
check_edge = 0;
icol = col[iPoint];
irow = row[iPoint];
if ( irow > set_edge_row_up ) {
c_row_up = 1;
check_edge = 1;
}
if ( irow < set_edge_row_dw ) {
c_row_dw = 1;
check_edge = 1;
}
if ( icol > set_edge_col_up ) {
c_col_up = 1;
check_edge = 1;
}
if ( icol < set_edge_col_dw ) {
c_col_dw = 1;
check_edge = 1;
}
if ( check_edge == 1) nhits_edge += 1;
if ( irow > set_edge_row_up && icol > set_edge_col_up )
c_row_up_col_up = 1;
if ( irow > set_edge_row_up && icol < set_edge_col_dw )
c_row_up_col_dw = 1;
if ( irow < set_edge_row_dw && icol > set_edge_col_up )
c_row_dw_col_up = 1;
if ( irow < set_edge_row_dw && icol < set_edge_col_dw )
c_row_dw_col_dw = 1;
if (! ( irow < set_edge_row_dw || irow > set_edge_row_up || icol < set_edge_col_dw || icol > set_edge_col_up ) )
c_inside = 1;
}
nedges = c_row_up + c_row_dw +c_col_up + c_col_dw;
ncorners = c_row_up_col_up + c_row_up_col_dw + c_row_dw_col_up + c_row_dw_col_dw;
nedges = nedges - ncorners;
if ( c_inside == 1 ){
if ( c_row_up_col_up+c_row_dw_col_up > 1 ||
c_row_up_col_dw+c_row_dw_col_dw > 1 ||
c_row_dw_col_up+c_row_dw_col_dw > 1 ||
c_row_up_col_up+c_row_up_col_dw > 1 )
nedges += 1;
}
if ( nedges >= 2 && c_inside == 1){
nedges = 2;
}
hitside = (unsigned short)(c_row_up*1000 + c_row_dw*100 + c_col_up*10 + c_col_dw);
}
//
void skimmer::Loop(TString FileName, TString OutputName)
{
TFile df(FileName,"READ");
// Get the TTree
TTree *dtr = (TTree*)df.Get("tree");
TFile *ofile = new TFile(OutputName, "RECREATE");
TTree *tr = new TTree("tr","TPC Event Data");
//// Initialize the TTree
Init(dtr);
//// Activate all TBranches
dtr->SetBranchStatus("*",1);
//// Make new TTree with relevant data
tr->Branch("event",&event,"event/I");
tr->Branch("npoints",&npoints,"npoints/I");
tr->Branch("row",&row,"row[npoints]/I");
tr->Branch("col",&col,"col[npoints]/I");
tr->Branch("bcid",&bcid,"bcid[npoints]/I");
tr->Branch("tot",&tot,"tot[npoints]/I");
tr->Branch("tstamp",&tstamp,"tstamp/D");
tr->Branch("tot_sum",&tot_sum,"tot_sum/I");
tr->Branch("sum_e",&sum_e,"sum_e/F");
tr->Branch("time_range",&time_range,"time_range/I");
tr->Branch("chi2",&chi2,"chi2/F");
tr->Branch("t_length",&t_length,"t_length/D");
tr->Branch("de_dx",&de_dx,"de_dx/D");
tr->Branch("theta",&theta,"theta/D");
tr->Branch("phi",&phi,"phi/D");
tr->Branch("par_fit",&par_fit,"par_fit[6]/D");
tr->Branch("par_fit_err",&par_fit_err,"par_fit_err[6]/D");
tr->Branch("hitside",&hitside,"hitside/s");
tr->Branch("impact_pars",&impact_pars,"impact_pars[4]/F");
tr->Branch("top_alpha",&top_alpha,"top_alpha/I");
tr->Branch("bottom_alpha",&bottom_alpha,"bottom_alpha/I");
tr->Branch("xray",&xray,"xray/I");
tr->Branch("neutron",&neutron,"neutron/I");
tr->Branch("proton",&proton,"proton/I");
tr->Branch("other",&other,"other/I");
tr->Branch("vectors",&vectors,"vectors[npoints][3]/D");
tr->Branch("c_vector",&c_vector,"c_vector[3]/D");
tr->Branch("c_rms",&c_rms,"c_rms/D");
tr->Branch("distances",&distances,"distances[npoints]/D");
tr->Branch("detnb",&detnb,"detnb/I");
int nentries = dtr->GetEntriesFast();
cout << "\n\n\n" << "Number of entries = " << nentries << "\n\n\n" << endl;
for (Long64_t jentry=0; jentry<nentries;jentry++) {
event = jentry;
detnb = MicrotpcMetaHits_m_detNb[0];
neutron = 0;
top_alpha = 0;
bottom_alpha = 0;
xray = 0;
other = 0;
proton = 0;
m_gr = new TGraph2D();
if (jentry %1000 == 0) cout << "\n\n\n\nEvent Counter: " << jentry << endl;
Long64_t ientry = LoadTree(jentry);
getentry = dtr->GetEntry(jentry);
npoints = MicrotpcMetaHits_m_pixNb[0];
tstamp = MicrotpcMetaHits_m_ts_start[0][0];
time_range = MicrotpcRecoTracks_m_time_range[0];
sum_e = MicrotpcRecoTracks_m_esum[0];
xray= MicrotpcRecoTracks_m_partID[0][0];
double x,y,z;
tot_sum = 0;
for (int pixn=0; pixn<npoints;pixn++) {
col[pixn]=static_cast<int>(MicrotpcDataHits_m_column[pixn]);
x = static_cast<double>(col[pixn]*250.0);
row[pixn]=static_cast<int>(MicrotpcDataHits_m_row[pixn]);
y = static_cast<double>(row[pixn]*50.0);
bcid[pixn]=static_cast<int>(MicrotpcDataHits_m_BCID[pixn]);
z = static_cast<double>(bcid[pixn]*250.0);
tot[pixn]=MicrotpcDataHits_m_TOT[pixn];
tot_sum += tot[pixn];
vectors[pixn][0] = x;
vectors[pixn][1] = y;
vectors[pixn][2] = z;
c_vector[0] += x;
c_vector[1] += y;
c_vector[2] += z;
}
c_vector[0] /= npoints;
c_vector[1] /= npoints;
c_vector[2] /= npoints;
TVector3 centroid(c_vector[0],c_vector[1],c_vector[2]);
// Calculate RMS of points from centroid
double c_rms2 = 0.0;
for (int i=0; i<npoints;i++){
x = vectors[i][0];
y = vectors[i][1];
z = vectors[i][2];
TVector3 temp(x,y,z);
c_rms2 += (centroid - temp).Mag2();
// Get the distance from the centroid
TVector3 t(centroid - temp);
distances[i]=t.Mag();
}
c_rms2 /= npoints;
c_rms = TMath::Power(c_rms2, 0.5);
getHitside();
//Call fitter
if ((hitside == 11 || hitside == 0) && (npoints > 20 && tot_sum > 25)){
if (hitside == 11 && MicrotpcRecoTracks_m_partID[0][4] == 1) top_alpha = 1;
else if (hitside == 11 && MicrotpcRecoTracks_m_partID[0][3] == 1) bottom_alpha = 1;
double x2,y2,z2;
double sigma;
for (int i = 0; i < npoints; ++i) {
// Reject outliers of distance/c_rms > 4 sigma
sigma = distances[i]/c_rms;
if (sigma > 4.0) {
tot_sum -= tot[i];
}
else if (sigma < 4.0) {
// Calculate x, y, z positions in microns
x2 = static_cast<double>(col[i]*250.0);
y2 = static_cast<double>(row[i]*50.0);
z2 = static_cast<double>(bcid[i]*250.0);
int n1 = m_gr->GetN();
m_gr->SetPoint(n1, x2, y2, z2);
}
}
fitTrack();
de_dx = tot_sum/t_length;
if (de_dx > 0.08 && hitside == 0) neutron = 1;
else if (de_dx < 0.08 && npoints >= 40) proton = 1;
}
else {
other = 1;
// Reset fit variables to 0 if track is not passed to fit function
chi2 = 0.;
theta = 0.;
phi = 0.;
for (int m=0; m<5; m++){
par_fit[m] = 0.;
par_fit_err[m] = 0.;
}
for (int n=0; n<4; n++){
impact_pars[n] = 0.;
}
}
//Fill tree
tr->Fill();
//Delete track
m_gr->Delete();
//if (jentry > 5000) break;
}
tr->Write();
ofile->Write();
ofile->Close();
}
int main(int argc, char * argv[])
{
skimmer s;
s.Loop(argv[1], argv[2]);
return 1;
}