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diff --git a/app/PrepareGENIE.cxx b/app/PrepareGENIE.cxx
index 8196e5e..f5aa8ec 100644
--- a/app/PrepareGENIE.cxx
+++ b/app/PrepareGENIE.cxx
@@ -1,938 +1,938 @@
#include "FitLogger.h"
#include "PlotUtils.h"
#include "TFile.h"
#include "TH1D.h"
#include "TTree.h"
#include <stdio.h>
#include <stdlib.h>
#ifdef __GENIE_ENABLED__
#ifdef GENIE_PRE_R3
#include "Conventions/Units.h"
#include "GHEP/GHepParticle.h"
#include "PDG/PDGUtils.h"
#else
#include "Framework/Conventions/Units.h"
#include "Framework/GHEP/GHepParticle.h"
#include "Framework/ParticleData/PDGUtils.h"
#endif
#endif
std::string gInputFiles = "";
std::string gOutputFile = "";
std::string gFluxFile = "";
std::string gTarget = "";
double MonoEnergy;
int gNEvents = -999;
bool IsMonoE = false;
void PrintOptions();
void ParseOptions(int argc, char *argv[]);
void RunGENIEPrepareMono(std::string input, std::string target,
std::string output);
void RunGENIEPrepare(std::string input, std::string flux, std::string target,
std::string output);
int main(int argc, char *argv[]) {
ParseOptions(argc, argv);
if (IsMonoE) {
RunGENIEPrepareMono(gInputFiles, gTarget, gOutputFile);
} else {
RunGENIEPrepare(gInputFiles, gFluxFile, gTarget, gOutputFile);
}
}
void RunGENIEPrepareMono(std::string input, std::string target,
std::string output) {
NUIS_LOG(FIT, "Running GENIE Prepare in mono energetic with E = " << MonoEnergy
<< " GeV");
// Setup TTree
TChain *tn = new TChain("gtree");
tn->AddFile(input.c_str());
if (tn->GetFile() == NULL) {
tn->Print();
NUIS_ERR(FTL, "gtree not located in GENIE file: " << input);
NUIS_ABORT("Check your inputs, they may need to be completely regenerated!");
throw;
}
int nevt = tn->GetEntries();
if (gNEvents != -999) {
NUIS_LOG(FIT, "Overriding number of events by user from " << nevt << " to "
<< gNEvents);
nevt = gNEvents;
}
NtpMCEventRecord *genientpl = NULL;
tn->SetBranchAddress("gmcrec", &genientpl);
// Have the TH1D go from MonoEnergy/2 to MonoEnergy/2
TH1D *fluxhist =
new TH1D("flux", "flux", 1000, MonoEnergy / 2., MonoEnergy * 2.);
fluxhist->Fill(MonoEnergy);
fluxhist->Scale(1, "width");
// Make Event Hist
TH1D *eventhist = (TH1D *)fluxhist->Clone();
eventhist->Reset();
TH1D *xsechist = (TH1D *)eventhist->Clone();
// Create maps
std::map<std::string, TH1D *> modexsec;
std::map<std::string, TH1D *> modecount;
std::vector<std::string> genieids;
std::vector<std::string> targetids;
std::vector<std::string> interids;
// Loop over all events
for (int i = 0; i < nevt; i++) {
tn->GetEntry(i);
StopTalking();
EventRecord &event = *(genientpl->event);
GHepParticle *neu = event.Probe();
StartTalking();
// Get XSec From Spline
GHepRecord genie_record = static_cast<GHepRecord>(event);
double xsec = (genie_record.XSec() / (1E-38 * genie::units::cm2));
// Parse Interaction String
std::string mode = genie_record.Summary()->AsString();
std::vector<std::string> modevec = GeneralUtils::ParseToStr(mode, ";");
std::string targ = (modevec[0] + ";" + modevec[1]);
std::string inter = mode;
// Fill lists of Unique IDS
if (std::find(targetids.begin(), targetids.end(), targ) ==
targetids.end()) {
targetids.push_back(targ);
}
if (std::find(interids.begin(), interids.end(), inter) == interids.end()) {
interids.push_back(inter);
}
// Create entries Mode Maps
if (modexsec.find(mode) == modexsec.end()) {
genieids.push_back(mode);
modexsec[mode] = (TH1D *)xsechist->Clone();
modecount[mode] = (TH1D *)xsechist->Clone();
modexsec[mode]->GetYaxis()->SetTitle(
"d#sigma/dE_{#nu} #times 10^{-38} (events weighted by #sigma)");
modecount[mode]->GetYaxis()->SetTitle("Number of events in file");
}
// Fill XSec Histograms
modexsec[mode]->Fill(neu->E(), xsec);
modecount[mode]->Fill(neu->E());
// Fill total event hist
eventhist->Fill(neu->E());
// Clear Event
genientpl->Clear();
size_t freq = nevt / 20;
if (freq && !(i % freq)) {
NUIS_LOG(FIT, "Processed "
<< i << "/" << nevt << " GENIE events (E: " << neu->E()
<< " GeV, xsec: " << xsec << " E-38 cm^2/nucleon)");
}
}
NUIS_LOG(FIT, "Processed all events");
TFile *outputfile;
// If no output is specified just append to the file
if (!gOutputFile.length()) {
tn->GetEntry(0);
outputfile = tn->GetFile();
outputfile->cd();
} else {
outputfile = new TFile(gOutputFile.c_str(), "RECREATE");
outputfile->cd();
NUIS_LOG(FIT, "Cloning input vector to output file: " << gOutputFile);
TTree *cloneTree = tn->CloneTree(-1, "fast");
cloneTree->SetDirectory(outputfile);
cloneTree->Write();
NUIS_LOG(FIT, "Cloning input nova_wgts to output file: " << gOutputFile);
// ***********************************
// ***********************************
// FUDGE FOR NOVA MINERVA WORKSHOP
// Also check for the nova_wgts tree from Jeremy
TChain *nova_chain = new TChain("nova_wgts");
nova_chain->AddFile(input.c_str());
TTree *nova_tree = nova_chain->GetTree();
if (!nova_tree) {
NUIS_LOG(FIT, "Could not find nova_wgts tree in " << gOutputFile);
} else {
NUIS_LOG(FIT, "Found nova_wgts tree in " << gOutputFile);
}
if (nova_tree) {
nova_tree->SetDirectory(outputfile);
nova_tree->Write();
}
NUIS_LOG(FIT, "Done cloning tree.");
}
NUIS_LOG(FIT, "Getting splines in mono-energetic...");
// Save each of the reconstructed splines to file
std::map<std::string, TH1D *> modeavg;
TDirectory *inddir = (TDirectory *)outputfile->Get("IndividualGENIESplines");
if (!inddir)
inddir = (TDirectory *)outputfile->mkdir("IndividualGENIESplines");
inddir->cd();
// Loop over GENIE ID's and get MEC count
int MECcount = 0;
bool MECcorrect = FitPar::Config().GetParB("CorrectGENIEMECNorm");
for (UInt_t i = 0; i < genieids.size(); i++) {
if (genieids[i].find("MEC") != std::string::npos) {
MECcount++;
}
}
NUIS_LOG(FIT, "Found " << MECcount << " repeated MEC instances.");
for (UInt_t i = 0; i < genieids.size(); i++) {
std::string mode = genieids[i];
modexsec[mode]->Write((mode + "_summed_xsec").c_str(), TObject::kOverwrite);
modecount[mode]->Write((mode + "_summed_evt").c_str(), TObject::kOverwrite);
// Form extra avg xsec map -> Reconstructed spline
modeavg[mode] = (TH1D *)modexsec[mode]->Clone();
modeavg[mode]->GetYaxis()->SetTitle(
"#sigma (E_{#nu}) #times 10^{-38} (cm^{2}/target)");
modeavg[mode]->Divide(modecount[mode]);
if (MECcorrect && (mode.find("MEC") != std::string::npos)) {
modeavg[mode]->Scale(1.0 / double(MECcount));
}
modeavg[mode]->Write((mode + "_rec_spline").c_str(), TObject::kOverwrite);
}
TDirectory *targdir = (TDirectory *)outputfile->Get("TargetGENIESplines");
if (!targdir)
targdir = (TDirectory *)outputfile->mkdir("TargetGENIESplines");
targdir->cd();
NUIS_LOG(FIT, "Getting Target Splines");
// For each target save a total spline
std::map<std::string, TH1D *> targetsplines;
for (uint i = 0; i < targetids.size(); i++) {
std::string targ = targetids[i];
NUIS_LOG(FIT, "Getting target " << i << ": " << targ);
targetsplines[targ] = (TH1D *)xsechist->Clone();
targetsplines[targ]->GetYaxis()->SetTitle(
"#sigma (E_{#nu}) #times 10^{-38} (cm^{2}/target)");
NUIS_LOG(FIT, "Created target spline for " << targ);
for (uint j = 0; j < genieids.size(); j++) {
std::string mode = genieids[j];
if (mode.find(targ) != std::string::npos) {
NUIS_LOG(FIT, " Mode " << mode << " contains " << targ << " target");
targetsplines[targ]->Add(modeavg[mode]);
NUIS_LOG(FIT,
"Finished with Mode " << mode << " " << modeavg[mode]->Integral());
}
}
NUIS_LOG(FIT, "Saving target spline:" << targ);
targetsplines[targ]->Write(("Total_" + targ).c_str(), TObject::kOverwrite);
}
NUIS_LOG(FIT, "Getting total splines");
// Now we have each of the targets we need to create a total cross-section.
int totalnucl = 0;
// Get the targets specified by the user, separated by commas
// This has structure target1[fraction1], target2[fraction2]
std::vector<std::string> targprs = GeneralUtils::ParseToStr(target, ",");
std::vector<std::string> targ_list;
std::vector<std::string> frac_list;
// Chop up the target string which has format
// TARGET1[fraction1],TARGET2[fraction2]
// std::cout << "Targets: " << std::endl;
// Loop over the vector of strings "TARGET1[fraction1]" "TARGET2[fraction2]"
for (std::vector<std::string>::iterator it = targprs.begin();
it != targprs.end(); ++it) {
// Cut into "TARGET1" and "fraction1]"
std::vector<std::string> targind = GeneralUtils::ParseToStr(*it, "[");
// std::cout << " " << *it << std::endl;
// Cut into "TARGET1" and "fraction1"
for (std::vector<std::string>::iterator jt = targind.begin();
jt != targind.end(); ++jt) {
if ((*jt).find("]") != std::string::npos) {
(*jt) = (*jt).substr(0, (*jt).find("]"));
//*jt = "hello";
frac_list.push_back(*jt);
// Won't find bracket for target
} else {
targ_list.push_back(*jt);
}
}
}
targprs = targ_list;
std::vector<double> targ_fractions;
double minimum = 1.0;
for (std::vector<std::string>::iterator it = frac_list.begin();
it != frac_list.end(); it++) {
// std::cout << " " << *it << std::endl;
double frac = std::atof((*it).c_str());
targ_fractions.push_back(frac);
if (frac < minimum)
minimum = frac;
}
std::vector<double>::iterator it = targ_fractions.begin();
std::vector<std::string>::iterator jt = targ_list.begin();
double scaling = 0;
for (; it != targ_fractions.end(); it++, jt++) {
// First get the mass number from the targ_list
int nucl = atoi((*jt).c_str());
nucl = (nucl % 10000) / 10;
// Gets the relative portions right
*it = (*it) / minimum;
// Scale relative the atomic mass
//(*it) *= (double(nucl)/(*it));
double tempscaling = double(nucl) / (*it);
if (tempscaling > scaling)
scaling = tempscaling;
}
it = targ_fractions.begin();
for (; it != targ_fractions.end(); it++) {
// Round the scaling to nearest integer and multiply
*it *= int(scaling + 0.5);
// Round to nearest integer
*it = int(*it + 0.5);
totalnucl += *it;
}
if (totalnucl == 0) {
NUIS_ABORT("Didn't find any nucleons in input file. Did you really specify the "
"target ratios?\ne.g. TARGET1[fraction1],TARGET2[fraction2]");
}
TH1D *totalxsec = (TH1D *)xsechist->Clone();
for (uint i = 0; i < targprs.size(); i++) {
std::string targpdg = targprs[i];
// Check that we found the user requested target in GENIE
bool FoundTarget = false;
for (std::map<std::string, TH1D *>::iterator iter = targetsplines.begin();
iter != targetsplines.end(); iter++) {
std::string targstr = iter->first;
TH1D *xsec = iter->second;
// Match the user targets to the targets found in GENIE
if (targstr.find(targpdg) != std::string::npos) {
FoundTarget = true;
NUIS_LOG(FIT, "Adding target spline "
<< targstr << " Integral = " << xsec->Integral("width"));
totalxsec->Add(xsec);
// int nucl = atoi(targpdg.c_str());
// totalnucl += int((nucl % 10000) / 10);
}
}
// Check that targets were all found
if (!FoundTarget) {
NUIS_ERR(WRN, "Didn't find target "
<< targpdg
<< " in the list of targets recorded by GENIE");
NUIS_ERR(WRN, " The list of targets you requested is: ");
for (uint i = 0; i < targprs.size(); ++i)
NUIS_ERR(WRN, " " << targprs[i]);
NUIS_ERR(WRN, " The list of targets found in GENIE is: ");
for (std::map<std::string, TH1D *>::iterator iter = targetsplines.begin();
iter != targetsplines.end(); iter++)
NUIS_ERR(WRN, " " << iter->first);
}
}
outputfile->cd();
totalxsec->GetYaxis()->SetTitle(
"#sigma (E_{#nu}) #times 10^{-38} (cm^{2}/nucleon)");
totalxsec->Write("nuisance_xsec", TObject::kOverwrite);
eventhist = (TH1D *)fluxhist->Clone();
eventhist->Multiply(totalxsec);
eventhist->GetYaxis()->SetTitle(
(std::string("Event rate (N = #sigma #times #Phi) #times 10^{-38} "
"(cm^{2}/nucleon) #times ") +
eventhist->GetYaxis()->GetTitle())
.c_str());
NUIS_LOG(FIT, "Dividing by Total Nucl = " << totalnucl);
eventhist->Scale(1.0 / double(totalnucl));
eventhist->Write("nuisance_events", TObject::kOverwrite);
fluxhist->Write("nuisance_flux", TObject::kOverwrite);
NUIS_LOG(FIT, "Inclusive XSec Per Nucleon = " << eventhist->Integral("width") *
1E-38 /
fluxhist->Integral("width"));
NUIS_LOG(FIT, "XSec Hist Integral = " << totalxsec->Integral("width"));
outputfile->Close();
return;
}
void RunGENIEPrepare(std::string input, std::string flux, std::string target,
std::string output) {
NUIS_LOG(FIT, "Running GENIE Prepare with flux...");
// Get Flux Hist
std::vector<std::string> fluxvect = GeneralUtils::ParseToStr(flux, ",");
TH1 *fluxhist = NULL;
if (fluxvect.size() == 3) {
double from = GeneralUtils::StrToDbl(fluxvect[0]);
double to = GeneralUtils::StrToDbl(fluxvect[1]);
double step = GeneralUtils::StrToDbl(fluxvect[2]);
int nstep = ceil((to - from) / step);
to = from + step * nstep;
NUIS_LOG(FIT, "Generating flat flux histogram from "
<< from << " to " << to << " with bins " << step
<< " wide (NBins = " << nstep << ").");
fluxhist =
new TH1D("spectrum", ";E_{#nu} (GeV);Count (A.U.)", nstep, from, to);
for (Int_t bi_it = 1; bi_it < fluxhist->GetXaxis()->GetNbins(); ++bi_it) {
fluxhist->SetBinContent(bi_it, 1.0 / double(step * nstep));
}
fluxhist->SetDirectory(0);
} else if (fluxvect.size() == 2) {
TFile *fluxfile = new TFile(fluxvect[0].c_str(), "READ");
if (!fluxfile->IsZombie()) {
fluxhist = dynamic_cast<TH1 *>(fluxfile->Get(fluxvect[1].c_str()));
if (!fluxhist) {
NUIS_ERR(FTL, "Couldn't find histogram named: \""
<< fluxvect[1] << "\" in file: \"" << fluxvect[0]);
throw;
}
fluxhist->SetDirectory(0);
}
} else if (fluxvect.size() == 1) {
MonoEnergy = GeneralUtils::StrToDbl(fluxvect[0]);
RunGENIEPrepareMono(input, target, output);
return;
} else {
NUIS_LOG(FTL, "Bad flux specification: \"" << flux << "\".");
throw;
}
// Setup TTree
TChain *tn = new TChain("gtree");
std::string first_file = "";
if (input.find_first_of(',') != std::string::npos) {
std::vector<std::string> inputvect = GeneralUtils::ParseToStr(input, ",");
for (size_t iv_it = 0; iv_it < inputvect.size(); ++iv_it) {
tn->AddFile(inputvect[iv_it].c_str());
NUIS_LOG(FIT, "Added input file: " << inputvect[iv_it]);
if (!first_file.length()) {
first_file = inputvect[iv_it];
}
}
} else { // The Add form can accept wildcards.
tn->Add(input.c_str());
first_file = input;
}
if (tn->GetFile() == NULL) {
tn->Print();
NUIS_ERR(FTL, "gtree not located in GENIE file: " << input);
NUIS_ABORT("Check your inputs, they may need to be completely regenerated!");
throw;
}
int nevt = tn->GetEntries();
if (gNEvents != -999) {
NUIS_LOG(FIT, "Overriding number of events by user from " << nevt << " to "
<< gNEvents);
nevt = gNEvents;
}
if (!nevt) {
NUIS_ABORT("Couldn't load any events from input specification: \""
<< input.c_str() << "\"");
} else {
NUIS_LOG(FIT, "Found " << nevt << " input entries in " << input);
}
NtpMCEventRecord *genientpl = NULL;
tn->SetBranchAddress("gmcrec", &genientpl);
// Make Event and xsec Hist
TH1D *eventhist = (TH1D *)fluxhist->Clone();
eventhist->SetDirectory(NULL);
eventhist->Reset();
TH1D *xsechist = (TH1D *)eventhist->Clone();
xsechist->SetDirectory(NULL);
// Create maps
std::map<std::string, TH1D *> modexsec;
std::map<std::string, TH1D *> modecount;
std::vector<std::string> genieids;
std::vector<std::string> targetids;
std::vector<std::string> interids;
// Loop over all events
for (int i = 0; i < nevt; i++) {
tn->GetEntry(i);
// Hussssch GENIE
StopTalking();
// Get the event
EventRecord &event = *(genientpl->event);
// Get the neutrino
GHepParticle *neu = event.Probe();
StartTalking();
// Get XSec From Spline
// Get the GHepRecord
GHepRecord genie_record = static_cast<GHepRecord>(event);
double xsec = (genie_record.XSec() / (1E-38 * genie::units::cm2));
// Parse Interaction String
std::string mode = genie_record.Summary()->AsString();
std::vector<std::string> modevec = GeneralUtils::ParseToStr(mode, ";");
std::string targ = (modevec[0] + ";" + modevec[1]);
std::string inter = mode;
// Get target nucleus
// Alternative ways of getting the summaries
// GHepParticle *target = genie_record.TargetNucleus();
// int pdg = target->Pdg();
// Fill lists of Unique IDS (neutrino and target)
if (std::find(targetids.begin(), targetids.end(), targ) ==
targetids.end()) {
targetids.push_back(targ);
}
// The full interaction list
if (std::find(interids.begin(), interids.end(), inter) == interids.end()) {
interids.push_back(inter);
}
// Create entries Mode Maps
if (modexsec.find(mode) == modexsec.end()) {
genieids.push_back(mode);
modexsec[mode] = (TH1D *)xsechist->Clone();
modecount[mode] = (TH1D *)xsechist->Clone();
modexsec[mode]->SetDirectory(NULL);
modecount[mode]->SetDirectory(NULL);
modexsec[mode]->GetYaxis()->SetTitle(
"d#sigma/dE_{#nu} #times 10^{-38} (events weighted by #sigma)");
modecount[mode]->GetYaxis()->SetTitle("Number of events in file");
}
// Fill XSec Histograms
modexsec[mode]->Fill(neu->E(), xsec);
modecount[mode]->Fill(neu->E());
// Fill total event hist
eventhist->Fill(neu->E());
if (i % (nevt / 20) == 0) {
NUIS_LOG(FIT, "Processed "
<< i << "/" << nevt << " GENIE events (E: " << neu->E()
<< " GeV, xsec: " << xsec << " E-38 cm^2/nucleon)");
}
// Clear Event
genientpl->Clear();
}
NUIS_LOG(FIT, "Processed all events");
// Once event loop is done we can start saving stuff into the file
TFile *outputfile;
if (!gOutputFile.length()) {
// Shut the chain;
delete tn;
outputfile = new TFile(first_file.c_str(), "UPDATE");
} else {
outputfile = new TFile(gOutputFile.c_str(), "RECREATE");
outputfile->cd();
NUIS_LOG(FIT, "Cloning input vector to output file: " << gOutputFile);
TTree *cloneTree = tn->CloneTree(-1, "fast");
cloneTree->SetDirectory(outputfile);
cloneTree->Write();
// ********************************
// CLUDGE KLUDGE KLUDGE FOR NOVA
NUIS_LOG(FIT, "Cloning input nova_wgts to output file: " << gOutputFile);
// Also check for the nova_wgts tree from Jeremy
TChain *nova_chain = new TChain("nova_wgts");
nova_chain->AddFile(input.c_str());
TTree *nova_tree = nova_chain->CloneTree(-1, "fast");
if (!nova_tree) {
NUIS_LOG(FIT, "Could not find nova_wgts tree in " << input);
} else {
NUIS_LOG(FIT, "Found nova_wgts tree in " << input);
nova_tree->SetDirectory(outputfile);
nova_tree->Write();
}
NUIS_LOG(FIT, "Done cloning tree.");
}
NUIS_LOG(FIT, "Getting splines...");
// Save each of the reconstructed splines to file
std::map<std::string, TH1D *> modeavg;
TDirectory *inddir = (TDirectory *)outputfile->Get("IndividualGENIESplines");
if (!inddir)
inddir = (TDirectory *)outputfile->mkdir("IndividualGENIESplines");
inddir->cd();
// Loop over GENIE ID's and get MEC count
int MECcount = 0;
bool MECcorrect = FitPar::Config().GetParB("CorrectGENIEMECNorm");
for (UInt_t i = 0; i < genieids.size(); i++) {
if (genieids[i].find("MEC") != std::string::npos) {
MECcount++;
}
}
NUIS_LOG(FIT, "Found " << MECcount << " repeated MEC instances.");
for (UInt_t i = 0; i < genieids.size(); i++) {
std::string mode = genieids[i];
modexsec[mode]->Write((mode + "_summed_xsec").c_str(), TObject::kOverwrite);
modecount[mode]->Write((mode + "_summed_evt").c_str(), TObject::kOverwrite);
// Form extra avg xsec map -> Reconstructed spline
modeavg[mode] = (TH1D *)modexsec[mode]->Clone();
modeavg[mode]->GetYaxis()->SetTitle(
"#sigma (E_{#nu}) #times 10^{-38} (cm^{2}/target)");
modeavg[mode]->Divide(modecount[mode]);
if (MECcorrect && (mode.find("MEC") != std::string::npos)) {
modeavg[mode]->Scale(1.0 / double(MECcount));
}
modeavg[mode]->Write((mode + "_rec_spline").c_str(), TObject::kOverwrite);
}
TDirectory *targdir = (TDirectory *)outputfile->Get("TargetGENIESplines");
if (!targdir)
targdir = (TDirectory *)outputfile->mkdir("TargetGENIESplines");
targdir->cd();
NUIS_LOG(FIT, "Getting Target Splines");
// For each target save a total spline
std::map<std::string, TH1D *> targetsplines;
for (uint i = 0; i < targetids.size(); i++) {
std::string targ = targetids[i];
NUIS_LOG(FIT, "Getting target " << i << ": " << targ);
targetsplines[targ] = (TH1D *)xsechist->Clone();
targetsplines[targ]->GetYaxis()->SetTitle(
"#sigma (E_{#nu}) #times 10^{-38} (cm^{2}/target)");
NUIS_LOG(FIT, "Created target spline for " << targ);
for (uint j = 0; j < genieids.size(); j++) {
std::string mode = genieids[j];
// Look at all matching modes/targets
if (mode.find(targ) != std::string::npos) {
NUIS_LOG(FIT, " Mode " << mode << " contains " << targ << " target");
targetsplines[targ]->Add(modeavg[mode]);
NUIS_LOG(FIT,
"Finished with Mode " << mode << " " << modeavg[mode]->Integral());
}
}
NUIS_LOG(FIT, "Saving target spline: " << targ);
targetsplines[targ]->Write(("Total_" + targ).c_str(), TObject::kOverwrite);
}
NUIS_LOG(FIT, "Getting total splines");
// Now we have each of the targets we need to create a total cross-section.
int totalnucl = 0;
// This has structure target1[fraction1], target2[fraction2]
std::vector<std::string> targprs = GeneralUtils::ParseToStr(target, ",");
std::vector<std::string> targ_list;
std::vector<std::string> frac_list;
// Chop up the target string which has format
// TARGET1[fraction1],TARGET2[fraction2]
// std::cout << "Targets: " << std::endl;
// Loop over the vector of strings "TARGET1[fraction1]" "TARGET2[fraction2]"
for (std::vector<std::string>::iterator it = targprs.begin();
it != targprs.end(); ++it) {
// Cut into "TARGET1" and "fraction1]"
std::vector<std::string> targind = GeneralUtils::ParseToStr(*it, "[");
// std::cout << " " << *it << std::endl;
// Cut into "TARGET1" and "fraction1"
for (std::vector<std::string>::iterator jt = targind.begin();
jt != targind.end(); ++jt) {
if ((*jt).find("]") != std::string::npos) {
(*jt) = (*jt).substr(0, (*jt).find("]"));
//*jt = "hello";
frac_list.push_back(*jt);
// Won't find bracket for target
} else {
targ_list.push_back(*jt);
}
}
}
targprs = targ_list;
std::vector<double> targ_fractions;
double minimum = 1.0;
for (std::vector<std::string>::iterator it = frac_list.begin();
it != frac_list.end(); it++) {
// std::cout << " " << *it << std::endl;
double frac = std::atof((*it).c_str());
targ_fractions.push_back(frac);
if (frac < minimum)
minimum = frac;
}
std::vector<double>::iterator it = targ_fractions.begin();
std::vector<std::string>::iterator jt = targ_list.begin();
double scaling = 0;
for (; it != targ_fractions.end(); it++, jt++) {
// First get the mass number from the targ_list
int nucl = atoi((*jt).c_str());
nucl = (nucl % 10000) / 10;
// Gets the relative portions right
*it = (*it) / minimum;
// Scale relative the atomic mass
//(*it) *= (double(nucl)/(*it));
double tempscaling = double(nucl) / (*it);
if (tempscaling > scaling)
scaling = tempscaling;
}
it = targ_fractions.begin();
for (; it != targ_fractions.end(); it++) {
// Round the scaling to nearest integer and multiply
*it *= int(scaling + 0.5);
// Round to nearest integer
*it = int(*it + 0.5);
totalnucl += *it;
}
if (totalnucl == 0) {
NUIS_ABORT("Didn't find any nucleons in input file. Did you really specify the "
"target ratios?\ne.g. TARGET1[fraction1],TARGET2[fraction2]");
}
TH1D *totalxsec = (TH1D *)xsechist->Clone();
// Loop over the specified targets by the user
for (uint i = 0; i < targprs.size(); i++) {
std::string targpdg = targprs[i];
// Check that we found the user requested target in GENIE
bool FoundTarget = false;
for (std::map<std::string, TH1D *>::iterator iter = targetsplines.begin();
iter != targetsplines.end(); iter++) {
std::string targstr = iter->first;
TH1D *xsec = iter->second;
// Match the user targets to the targets found in GENIE
if (targstr.find(targpdg) != std::string::npos) {
FoundTarget = true;
NUIS_LOG(FIT, "Adding target spline "
<< targstr << " Integral = " << xsec->Integral("width"));
totalxsec->Add(xsec);
// int nucl = atoi(targpdg.c_str());
// totalnucl += int((nucl % 10000) / 10);
}
} // Looped over target splines
// Check that targets were all found
if (!FoundTarget) {
NUIS_ERR(WRN, "Didn't find target "
<< targpdg
<< " in the list of targets recorded by GENIE");
NUIS_ERR(WRN, " The list of targets you requested is: ");
for (uint i = 0; i < targprs.size(); ++i)
NUIS_ERR(WRN, " " << targprs[i]);
NUIS_ERR(WRN, " The list of targets found in GENIE is: ");
for (std::map<std::string, TH1D *>::iterator iter = targetsplines.begin();
iter != targetsplines.end(); iter++)
NUIS_ERR(WRN, " " << iter->first);
}
}
outputfile->cd();
totalxsec->GetYaxis()->SetTitle(
"#sigma (E_{#nu}) #times 10^{-38} (cm^{2}/nucleon)");
totalxsec->Write("nuisance_xsec", TObject::kOverwrite);
eventhist = (TH1D *)fluxhist->Clone();
eventhist->Multiply(totalxsec);
eventhist->GetYaxis()->SetTitle(
(std::string("Event rate (N = #sigma #times #Phi) #times 10^{-38} "
"(cm^{2}/nucleon) #times ") +
eventhist->GetYaxis()->GetTitle())
.c_str());
NUIS_LOG(FIT, "Dividing by Total Nucl = " << totalnucl);
eventhist->Scale(1.0 / double(totalnucl));
eventhist->Write("nuisance_events", TObject::kOverwrite);
fluxhist->Write("nuisance_flux", TObject::kOverwrite);
NUIS_LOG(FIT, "Inclusive XSec Per Nucleon = " << eventhist->Integral("width") *
1E-38 /
fluxhist->Integral("width"));
NUIS_LOG(FIT, "XSec Hist Integral = " << totalxsec->Integral());
outputfile->Close();
return;
};
void PrintOptions() {
std::cout << "PrepareGENIEEvents NUISANCE app. " << std::endl
<< "Takes GHep Outputs and prepares events for NUISANCE."
<< std::endl
<< std::endl
<< "PrepareGENIE [-h,-help,--h,--help] [-i "
"inputfile1.root,inputfile2.root,inputfile3.root,...] "
<< "[-f flux_root_file.root,flux_hist_name] [-t "
"target1[frac1],target2[frac2],...]"
<< "[-n number_of_events (experimental)]" << std::endl
<< std::endl;
std::cout << "Prepare Mode [Default] : Takes a single GHep file, "
"reconstructs the original GENIE splines, "
<< " and creates a duplicate file that also contains the flux, "
"event rate, and xsec predictions that NUISANCE needs. "
<< std::endl;
std::cout << "Following options are required for Prepare Mode:" << std::endl;
std::cout << " [ -i inputfile.root ] : Reads in a single GHep input file "
"that needs the xsec calculation ran on it. "
<< std::endl;
std::cout << " [ -f flux_file.root,hist_name ] : Path to root file "
"containing the flux histogram the GHep records were generated "
"with."
<< " A simple method is to point this to the flux histogram genie "
"generatrs '-f /path/to/events/input-flux.root,spectrum'. "
<< std::endl;
std::cout << " [ -f elow,ehigh,estep ] : Energy range specification when no "
"flux file was used."
<< std::endl;
std::cout << " [ -t target ] : Target that GHepRecords were generated with. "
- "Comma seperated list. E.g. for CH2 "
- "target=1000060120,1000010010,1000010010"
+ "Comma seperated list with fractions. E.g. for CH2 "
+ "target=1000060120[0.923076],1000010010[0.076924]"
<< std::endl;
std::cout << " [ -o outputfile.root ] : File to write prepared input file to."
<< std::endl;
std::cout << " [ -m Mono_E_nu_GeV ] : Run in mono-energetic mode with m GeV "
"neutrino energy."
<< std::endl;
std::cout << " [ -n number_of_evt ] : Run with a reduced number of events "
"for debugging purposes"
<< std::endl;
}
void ParseOptions(int argc, char *argv[]) {
bool flagopt = false;
// If No Arguments print commands
for (int i = 1; i < argc; ++i) {
if (!std::strcmp(argv[i], "-h")) {
flagopt = true;
break;
}
if (i + 1 != argc) {
// Cardfile
if (!std::strcmp(argv[i], "-h")) {
flagopt = true;
break;
} else if (!std::strcmp(argv[i], "-i")) {
gInputFiles = argv[i + 1];
++i;
} else if (!std::strcmp(argv[i], "-o")) {
gOutputFile = argv[i + 1];
++i;
} else if (!std::strcmp(argv[i], "-f")) {
gFluxFile = argv[i + 1];
++i;
} else if (!std::strcmp(argv[i], "-t")) {
gTarget = argv[i + 1];
++i;
} else if (!std::strcmp(argv[i], "-n")) {
gNEvents = GeneralUtils::StrToInt(argv[i + 1]);
++i;
} else if (!std::strcmp(argv[i], "-m")) {
MonoEnergy = GeneralUtils::StrToDbl(argv[i + 1]);
IsMonoE = true;
++i;
} else {
NUIS_ERR(FTL, "ERROR: unknown command line option given! - '"
<< argv[i] << " " << argv[i + 1] << "'");
PrintOptions();
break;
}
}
}
if (gInputFiles == "" && !flagopt) {
NUIS_ERR(FTL, "No input file(s) specified!");
flagopt = true;
}
if (gFluxFile == "" && !flagopt && !IsMonoE) {
NUIS_ERR(FTL, "No flux input specified for Prepare Mode");
flagopt = true;
}
if (gTarget == "" && !flagopt) {
NUIS_ERR(FTL, "No target specified for Prepare Mode");
flagopt = true;
}
if (gTarget.find("[") == std::string::npos ||
gTarget.find("]") == std::string::npos) {
NUIS_ERR(FTL, "Didn't specify target ratios in Prepare Mode");
NUIS_ERR(FTL, "Are you sure you gave it as -t "
"\"TARGET1[fraction1],TARGET2[fraction]\"?");
flagopt = true;
}
if (argc < 1 || flagopt) {
PrintOptions();
exit(-1);
}
return;
}

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