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File indexing completed on 2025-10-13 08:38:07

 #ifdef __MACH__
 #include <mach/mach.h>
 #endif
 
 #include <iostream>
 #include <fstream>
 #include <string>
 #include <random>
 #include <ctime>
 #include <cstdlib>
 #include <vector>
 #include <algorithm>
 #include <numeric>
 #include <stdexcept>
 #include <chrono>
 #include <cmath>
 #include <random>
 #include <tuple>
 #include <sys/resource.h>
 
 #include <HepMC3/ReaderFactory.h>
 #include <HepMC3/WriterAscii.h>
 #include "HepMC3/WriterRootTree.h"
 #include "HepMC3/GenRunInfo.h"
 #include "HepMC3/GenEvent.h"
 #include "HepMC3/Print.h"
 
 #include "argparse/argparse.hpp"
 
 using std::cout;
 using std::cerr;
 using std::endl;
 using std::string;
 
 
 // =============================================================
 /**
     Combine signal and up to four background HEPMC files.
     
     Typical usage:
     ./SignalBackgroundMerger --signalFile dis.hepmc3.tree.root --signalFreq 0 \
             --bgFile hgas.hepmc3.tree.root 2000 0 2000 \
         --bgFile egastouschk.hepmc3.tree.root 20 0 3000 \
             --bgFile egascouloumb.hepmc3.tree.root 20 0 4000 \
         --bgFile egasbrems.hepmc3.tree.root 20 0 5000 \
             --bgFile synrad.hepmc3.tree.root 25 0 6000
 **/    
 
 struct BackgroundConfig {
     std::string file;
     double frequency=0;
     int skip=0;
     int status=0;
 } ;
 
 class SignalBackgroundMerger {
 
 private:
   // more private data at the end; pulling these more complicated objects up for readability
   std::shared_ptr<HepMC3::Reader> sigAdapter;
   double sigFreq = 0;
   int sigStatus = 0;
   std::map<std::string, std::shared_ptr<HepMC3::Reader>> freqAdapters;
   std::map<std::string, double> freqs;
   std::map<std::string, int> baseStatuses;
 
   std::map<std::string,
       std::tuple<std::vector<HepMC3::GenEvent>,
               std::piecewise_constant_distribution<>,
               double>
        > weightDict;
 
   // just keep count of some numbers, could be more sophisticated
   typedef struct{
     long eventCount;
     long particleCount;
   } stats;
   std::map<std::string, stats > infoDict;
 
 public:
 
   SignalBackgroundMerger(int argc, char* argv[]) {
     auto t0 = std::chrono::high_resolution_clock::now();
 
     // Parse arguments, print banner, open files, initialize rng
     digestArgs(argc, argv);
     rng.seed( rngSeed );
     banner();
     if (outputFile != "" ) {
       outputFileName = outputFile;
     } else {
       outputFileName = nameGen();
     }
     std::cout << "\n==================================================================\n";
     cout << "Writing to " << outputFileName << endl;
 
     PrepData ( signalFile, signalFreq, signalSkip, signalStatus, true );
     for (const auto& bg : backgroundFiles) {
     PrepData ( bg.file, bg.frequency, bg.skip, bg.status, false );
     }
     
     
     auto t1 = std::chrono::high_resolution_clock::now();
     std::cout << "Initiation time: " << std::round(std::chrono::duration<double, std::chrono::seconds::period>(t1 - t0).count()) << " sec" << std::endl;
     std::cout << "\n==================================================================\n" << std::endl;
 
   }
 
   // Helper to parse raw strings into BackgroundConfig structs
   std::vector<BackgroundConfig>
   parse_backgrounds(const std::vector<std::string> &raw_args_list) {
     std::vector<BackgroundConfig> backgrounds;
     auto is_pure_integer = [](const std::string &str) {
       if (str.empty()) return false;
       for (char c : str) {
         if (!std::isdigit(c)) return false;
       }
       return true;
     };
       
     // Group strings into sets of 2-4 arguments per background
     for (size_t i = 0; i < raw_args_list.size();) {
       // Determine how many arguments this background has
       size_t args_count = 2; // minimum
 
       // Look ahead to see if next strings can be parsed as numbers (skip/status)
       if (i + 2 < raw_args_list.size() && is_pure_integer(raw_args_list[i + 2])) {
           args_count = 3;
 
           if (i + 3 < raw_args_list.size() && is_pure_integer(raw_args_list[i + 3])) {
               args_count = 4;
           }
       }
 
       // Ensure we don't go beyond the vector bounds
       if (i + args_count > raw_args_list.size()) {
         args_count = raw_args_list.size() - i;
       }
 
       if (args_count < 2) {
         throw std::runtime_error("Background file " +
                                  std::to_string(backgrounds.size()) +
                                  " must have at least 2 arguments");
       }
 
       try {
         BackgroundConfig bg;
         bg.file = raw_args_list[i];
         bg.frequency = std::stod(raw_args_list[i + 1]);
         bg.skip = (args_count > 2) ? std::stoi(raw_args_list[i + 2]) : 0;
         bg.status = (args_count > 3) ? std::stoi(raw_args_list[i + 3]) : 0;
         backgrounds.push_back(bg);
       } catch (const std::exception &e) {
         throw std::runtime_error("Error parsing background file " +
                                  std::to_string(backgrounds.size()) + ": " +
                                  e.what());
       }
 
       i += args_count;
     }
 
     return backgrounds;
   }
 
   void merge(){
     auto t1 = std::chrono::high_resolution_clock::now();
 
     // Open output file
     std::shared_ptr<HepMC3::Writer> f;
     if (rootFormat)
       f = std::make_shared<HepMC3::WriterRootTree>(outputFileName);
     else
       f = std::make_shared<HepMC3::WriterAscii>(outputFileName);
     
     // Slice loop
     int i = 0;
     for (i = 0; i<nSlices; ++i ) {
       if (i % 1000 == 0 || verbose ) squawk(i);
       auto hepSlice = mergeSlice(i);
       if (!hepSlice) {
     std::cout << "Exhausted signal source." << std::endl;
     break;
       }
       hepSlice->set_event_number(i);
       f->write_event(*hepSlice);
     }
     std::cout << "Finished all requested slices." << std::endl;
 
     int slicesDone = i;
     auto t2 = std::chrono::high_resolution_clock::now();
 
     std::cout << "Slice loop time: " << std::round(std::chrono::duration<double, std::chrono::minutes::period>(t2 - t1).count()) << " min" << std::endl;
     std::cout << " -- " << std::round(std::chrono::duration<double, std::chrono::microseconds::period>(t2 - t1).count() / i) << " us / slice" << std::endl;
 
     for (auto info : infoDict) {
       std::cout << "From " << info.first << std::endl;
       std::cout << "  placed " << info.second.eventCount << " events" << std::endl; 
       std::cout << "  --> on average " << std::setprecision(3) << info.second.eventCount / float(nSlices) << std::endl;
       std::cout << "  placed " << info.second.particleCount << " final state particles" << std::endl;
       std::cout << "  --> on average " << std::setprecision(3) << info.second.particleCount / float(nSlices) << std::endl;
       
     }
 
     struct rusage r_usage;
     getrusage(RUSAGE_SELF, &r_usage);
 
     // NOTE: Reported in kB on Linux, bytes in Mac/Darwin
     // Could try to explicitly catch __linux__ as well
     // Unclear in BSD, I've seen conflicting reports
 #ifdef __MACH__
     float mbsize = 1024 * 1024;
 #else // Linux
     float mbsize = 1024;
 #endif
   
 
     std::cout << endl << "Maximum Resident Memory " << r_usage.ru_maxrss / mbsize << " MB" << std::endl;
     // clean up, close all files
     sigAdapter->close();
     for (auto& it : freqAdapters) {
       it.second->close();
     }
     f->close();
     
   }
   
   // ---------------------------------------------------------------------------
   void digestArgs(int argc, char* argv[]) {
     // Handle the command line tedium
     // ArgumentParser is meant to be used in a single function.
     // ArgumentParser internally uses std::string_views,
     // references, iterators, etc.
     // Many of these elements become invalidated after a copy or move.
     argparse::ArgumentParser args ("Merge signal events with up to four background sources.");
     
     args.add_argument("-i", "--signalFile")
       .default_value(std::string("root://dtn-eic.jlab.org//volatile/eic/EPIC/EVGEN/SIDIS/pythia6-eic/1.0.0/10x100/q2_0to1/pythia_ep_noradcor_10x100_q2_0.000000001_1.0_run1.ab.hepmc3.tree.root"))
       .help("Name of the HEPMC file with the signal events");
     
     args.add_argument("-sf", "--signalFreq")
       .default_value(0.0)
       .scan<'g', double>()
       .help("Signal frequency in kHz. Default is 0 to have exactly one signal event per slice. Set to the estimated DIS rate to randomize.");
 
     args.add_argument("-S", "--signalSkip")
       .default_value(0)
     .scan<'i', int>()
     .help("Number of signals events to skip. Default is 0.");
 
     args.add_argument("-St", "--signalStatus")
       .default_value(0)
     .scan<'i', int>()
     .help("Apply shift on particle generatorStatus code for signal. Default is 0. ");
 
     args.add_argument("-b","--bgFile")
       .nargs(2,4)
       .append()
       .help("Tuple with name of the HEPMC file with background events, background frequency in kHz, number of background events to skip (default 0), shift on particle generatorStatus code (default 0).");
     
     args.add_argument("-o", "--outputFile")
       .default_value(std::string("bgmerged.hepmc3.tree.root"))
       .help("Specify the output file name. By default bgmerged.hepmc3.tree.root is used");
 
     args.add_argument("-r", "--rootFormat")
       .default_value(true)
       .implicit_value(true)
       .help("Use hepmc.root output format, default is true.");
     
     args.add_argument("-w", "--intWindow")
       .default_value(2000.0)
       .scan<'g', double>()
       .help("Length of the integration window in nanoseconds. Default is 2000.");
     
     args.add_argument("-N", "--nSlices")
       .default_value(10000)
       .scan<'i', int>()
       .help("Number of sampled time slices ('events'). Default is 10000. If set to -1, all events in the signal file will be used and background files cycled as needed.");
     
     args.add_argument("--squashTime")
       .default_value(false)
       .implicit_value(true)
       .help("Integration is performed but no time information is associated to vertices.");
     
     args.add_argument("--rngSeed")
       .default_value(0)
       .action([](const std::string& value) { return std::stoi(value); })
       .help("Random seed, default is None");
     
     args.add_argument("-v", "--verbose")
       .default_value(false)
       .implicit_value(true)
       .help("Display details for every slice.");
     
     try {
       args.parse_args(argc, argv);
     }
     catch (const std::runtime_error& err) {
       std::cout << err.what() << std::endl;
       std::cout << args;
       exit(EXIT_FAILURE);
     }
     // Access arguments using args.get method
     signalFile = args.get<std::string>("--signalFile");
     signalFreq = args.get<double>("--signalFreq");
     signalSkip = args.get<int>("--signalSkip");
     signalStatus = args.get<int>("--signalStatus");
     backgroundFiles = parse_backgrounds(args.get<std::vector<std::string>>("--bgFile"));
     outputFile = args.get<std::string>("--outputFile");
     rootFormat = args.get<bool>("--rootFormat");
     intWindow  = args.get<double>("--intWindow");
     nSlices    = args.get<int>("--nSlices");
     squashTime = args.get<bool>("--squashTime");
     rngSeed    = args.get<int>("--rngSeed");
     verbose    = args.get<bool>("--verbose");
 
     
   }
   
   // ---------------------------------------------------------------------------
   void banner() {
     // Print banner
     std::cout << "==================================================================" << std::endl;
     std::cout << "=== EPIC HEPMC MERGER ===" << std::endl;
     std::cout << "authors: Benjamen Sterwerf* (bsterwerf@berkeley.edu), Kolja Kauder** (kkauder@bnl.gov), Reynier Cruz-Torres***" << std::endl;
     std::cout << "* University of California, Berkeley" << std::endl;
     std::cout << "** Brookhaven National Laboratory" << std::endl;
     std::cout << "*** formerly Lawrence Berkeley National Laboratory" << std::endl;
     std::cout << "\nFor more information, run \n./signal_background_merger --help" << std::endl;
 
     std::string statusMessage = "Shifting all particle status codes from this source by ";
     std::vector<int> statusList_stable, statusList_decay;
 
     std::cout << "Number of Slices:" << nSlices << endl;
     std::string freqTerm = signalFreq > 0 ? std::to_string(signalFreq) + " kHz" : "(one event per time slice)";
     std::string statusTerm = signalStatus > 0 ? statusMessage + std::to_string(signalStatus): "";
     if (signalStatus>0){
       statusList_stable.push_back(signalStatus+1);
       statusList_decay.push_back(signalStatus+2);
     }
     std::cout << "Signal events file and frequency:\n";
     std::cout << "\t- " << signalFile << "\t" << freqTerm << "\n" << statusTerm << "\n";
     
     std::cout << "\nBackground files and their respective frequencies:\n";
 
     for (const auto& bg : backgroundFiles) {
       if (!bg.file.empty()) {
         freqTerm = bg.frequency > 0 ? std::to_string(bg.frequency) + " kHz" : "(from weights)";
         statusTerm = bg.status > 0 ? statusMessage + std::to_string(bg.status) : "";
         std::cout << "\t- " << bg.file << "\t" << freqTerm << "\n" << statusTerm << "\n";
         if (bg.status>0){
           statusList_stable.push_back(bg.status+1);
           statusList_decay.push_back(bg.status+2);
         }
       }
     }
     
     auto join = [](const std::vector<int>& vec) {
         return std::accumulate(vec.begin(), vec.end(), std::string(),
             [](const std::string& a, int b) {
                 return a.empty() ? std::to_string(b) : a + " " + std::to_string(b);
             });
     };
     std::string stableStatuses = join(statusList_stable);
     std::string decayStatuses = join(statusList_decay);
     std::string message = "\n!!!Attention!!!\n To proceed the shifted particles statuses in DD4hep, please add the following options to ddsim:\n"
                           "--physics.alternativeStableStatuses=\"" + stableStatuses + 
                           "\"  --physics.alternativeDecayStatuses=\"" + decayStatuses + "\"\n";
     std::cout << message<<std::endl;           
   }
   
   // ---------------------------------------------------------------------------  
   void PrepData(const std::string& fileName, double freq, int skip=0, int baseStatus=0, bool signal=false) {
     if (fileName.empty()) return;
 
     cout << "Prepping " << fileName << endl;
     std::shared_ptr<HepMC3::Reader> adapter;
     try {
       adapter = HepMC3::deduce_reader(fileName);
       if (!adapter) {
         throw std::runtime_error("Failed to open file");
       }
     } catch (const std::runtime_error& e) {
       std::cerr << "Opening " << fileName << " failed: " << e.what() << std::endl;
       exit(EXIT_FAILURE);
     }
     
     infoDict[fileName] = {0,0};
 
     if (signal) {
       sigAdapter = adapter;
       sigFreq = freq;
       sigStatus = baseStatus;
       sigAdapter->skip(skip);
       return;
     }
 
     // Now catch the weighted case
     if (freq <= 0) {
       std::cout << "Reading in all events from " << fileName << std::endl;
       std::vector<HepMC3::GenEvent> events;
       std::vector<double> weights;
 
       while(!adapter->failed()) {
         HepMC3::GenEvent evt(HepMC3::Units::GEV,HepMC3::Units::MM);
         adapter->read_event(evt);
 
         // remove events with 0 weight - note that this does change avgRate = <weight> (by a little)
         if (double w=evt.weight() > 0){
           events.push_back(evt);
           weights.push_back(evt.weight());
           }
       }
       adapter->close();
       
       double avgRate = 0.0;
       for ( auto w : weights ){ avgRate += w;}
       avgRate /= weights.size();
       avgRate *= 1e-9; // convert to 1/ns == GHz
       std::cout << "Average rate is " << avgRate << " GHz" << std::endl;
 
       std::vector<int> indices (weights.size());
       std::iota (std::begin(indices), std::end(indices), 0); // [ 0 , ... , N ] <- draw randomly from this
       
       // Replacing python's compact toPlace = self.rng.choice( a=events, size=nEvents, p=probs, replace=False )
       // is tricky. Possibly more elegant or faster versions exist,
       // https://stackoverflow.com/questions/42926209/equivalent-function-to-numpy-random-choice-in-c
       // we'll do it rather bluntly, since the need for this code should go away soon with new SR infrastructure
       // https://stackoverflow.com/questions/1761626/weighted-random-numbers
       // Normalizing is not necessary for this method 
       // for ( auto& w : weights ) {
       //    w /= avgRate;
       // }
       std::piecewise_constant_distribution<> weightedDist(std::begin(indices),std::end(indices),
                               std::begin(weights));
       weightDict[fileName] = { std::make_tuple(events, weightedDist, avgRate) };
 
       return;
     }
 
     // Not signal and not weighted --> prepare frequency backgrounds
     adapter->skip(skip);
     freqAdapters[fileName] = adapter;
     freqs[fileName] = freq;
     baseStatuses[fileName] = baseStatus;
   }
 
    // ---------------------------------------------------------------------------
   bool hasEnding (std::string const &fullString, std::string const &ending) {
     if (fullString.length() >= ending.length()) {
       return (0 == fullString.compare (fullString.length() - ending.length(), ending.length(), ending));
     } else {
       return false;
     }
   }
   
   // ---------------------------------------------------------------------------
   std::string nameGen() {
     // Generate a name for the output file
     // It's too simplistic for input with directories
     std::string name = signalFile;
     if (nSlices > 0) {
         size_t pos = name.find(".hepmc");
         if (pos != std::string::npos) {
       name.replace(pos, 6, "_n_" + std::to_string(nSlices) + ".hepmc");
         }
     }
 
     if ( rootFormat && !hasEnding(name,".root")){
       name.append(".root");
     }
     name = "bgmerged_" + name;
 
     return name;
   }
 
   // ---------------------------------------------------------------------------
   void squawk(int i) {
 
     // More fine-grained info about current usage
 #ifdef __MACH__
     task_basic_info_data_t info;
     mach_msg_type_number_t size = sizeof(info);
     kern_return_t kerr = task_info(mach_task_self(),
                                    TASK_BASIC_INFO,
                                    (task_info_t)&info,
                                    &size);
 
     long memory_usage = -1;
     if (kerr == KERN_SUCCESS) {
       memory_usage = info.resident_size  / 1024 / 1024;
     }
 #else // Linux
     std::ifstream statm("/proc/self/statm");
     long size, resident, share, text, lib, data, dt;
     statm >> size >> resident >> share >> text >> lib >> data >> dt;
     statm.close();
 
     long page_size = sysconf(_SC_PAGESIZE);  // in case x86-64 is configured to use 2MB pages
     long memory_usage = resident * page_size  / 1024 / 1024 ;    
 #endif
   
     
     std::cout << "Working on slice " << i + 1 << std::endl;
     std::cout << "Current memory usage: " << memory_usage << " MB" << std::endl;
 
   }
   // ---------------------------------------------------------------------------
 
   std::unique_ptr<HepMC3::GenEvent> mergeSlice(int i) {
     auto hepSlice = std::make_unique<HepMC3::GenEvent>(HepMC3::Units::GEV, HepMC3::Units::MM);
     
     addFreqEvents(signalFile, sigAdapter, sigFreq, hepSlice, signalStatus, true);
     
     for (const auto& freqBgs : freqAdapters) {
       auto fileName=freqBgs.first;
       addFreqEvents(fileName, freqAdapters[fileName], freqs[fileName], hepSlice, baseStatuses[fileName], false);
     }
     
     for (const auto& fileName : weightDict) {
       addWeightedEvents(fileName.first, hepSlice, baseStatuses[fileName.first]);
     }
 
     return hepSlice;
   };
 
   // ---------------------------------------------------------------------------
 
   void addFreqEvents(std::string fileName, std::shared_ptr<HepMC3::Reader>& adapter, const double freq,
              std::unique_ptr<HepMC3::GenEvent>& hepSlice, int baseStatus = 0, bool signal = false) {
 
     // First, create a timeline
     // Signals can be different
     std::vector<double> timeline;
 
     std::uniform_real_distribution<> uni(0, intWindow);
     if (freq == 0){
       if (!signal) {
         std::cerr << "frequency can't be 0 for background files" << std::endl;
         exit(EXIT_FAILURE);
       }
       // exactly one signal event, at an arbitrary point
       timeline.push_back(uni(rng));
     } else {
       // Generate poisson-distributed times to place events
       timeline = poissonTimes(freq, intWindow);
     }
     
     if ( verbose) std::cout << "Placing " << timeline.size() << " events from " << fileName << std::endl;
 
     if (timeline.empty()) return;
     long particleCount = 0;
 
     // Insert events at all specified locations
     for (double time : timeline) {
       if(adapter->failed()) {
       try{
         if (signal) { // Exhausted signal events
             throw std::ifstream::failure("EOF");
           } else { // background file reached its end, reset to the start
             std::cout << "Cycling back to the start of " << fileName << std::endl;
             adapter->close();
             adapter = HepMC3::deduce_reader(fileName);
           }
         } catch (std::ifstream::failure& e) {
             continue; // just need to suppress the error
         }
       }
 
       HepMC3::GenEvent inevt;
       adapter->read_event(inevt);
       if (signal && (signalFreq == 0.0)){
         hepSlice->weights() = inevt.weights();
       }
 
       if (squashTime) time = 0;
       particleCount += insertHepmcEvent( inevt, hepSlice, time, baseStatus, signal);
     }
 
     infoDict[fileName].eventCount += timeline.size();
     infoDict[fileName].particleCount += particleCount;
 
 
     return;
   }
 
   // ---------------------------------------------------------------------------
 
   void addWeightedEvents(std::string fileName, std::unique_ptr<HepMC3::GenEvent>& hepSlice, int baseStatus=0, bool signal = false) {
     auto& [events, weightedDist, avgRate ] = weightDict[fileName];
 
     // How many events? Assume Poisson distribution
     int nEvents;
     std::poisson_distribution<> d( intWindow * avgRate );
 
     // Small SR files may not have enough photons (example or test files). Could use them all or reroll
     // Choosing the latter, neither is physical
     while (true) {
       nEvents = d(rng);
       if (nEvents > events.size()) {
           std::cout << "WARNING: Trying to place " << nEvents << " events from " << fileName
                   << " but the file doesn't have enough. Rerolling, but this is not physical." << std::endl;
         continue;
       }
       break;
     }
 
     if (verbose) std::cout << "Placing " << nEvents << " events from " << fileName << std::endl;
     
     // Get randomized event indices
     // Note: Could change to drawing without replacing ( if ( not in toPLace) ...) , not worth the effort
     std::vector<HepMC3::GenEvent> toPlace(nEvents);
     for ( auto& e : toPlace ){
       auto i = static_cast<int> (weightedDist(rng));
       e = events.at(i);
     }
     
     // Place at random times
     std::vector<double> timeline;
     std::uniform_real_distribution<> uni(0, intWindow);
     long particleCount = 0;
     if (!squashTime) {
       for ( auto& e : toPlace ){
           double time = squashTime ? 0 : uni(rng);
         particleCount += insertHepmcEvent( e, hepSlice, time, baseStatus, signal);
       }
     }
 
     infoDict[fileName].eventCount += nEvents;
     infoDict[fileName].particleCount += particleCount;
 
     return;
 }
 
   // ---------------------------------------------------------------------------
   long insertHepmcEvent( const HepMC3::GenEvent& inevt,
              std::unique_ptr<HepMC3::GenEvent>& hepSlice, double time=0, int baseStatus=0, bool signal = false) {
     // Unit conversion
     double timeHepmc = c_light * time;
     
     std::vector<HepMC3::GenParticlePtr> particles;
     std::vector<HepMC3::GenVertexPtr> vertices;
 
     // Stores the vertices of the event inside a vertex container. These vertices are in increasing order
     // so we can index them with [abs(vertex_id)-1]
     for (auto& vertex : inevt.vertices()) {
       HepMC3::FourVector position = vertex->position();
       position.set_t(position.t() + timeHepmc);
       auto v1 = std::make_shared<HepMC3::GenVertex>(position);
       vertices.push_back(v1);
     }
       
     // copies the particles and attaches them to their corresponding vertices
     long finalParticleCount = 0;
     for (auto& particle : inevt.particles()) {
       HepMC3::FourVector momentum = particle->momentum();
       int status = particle->status();
       if (status == 1 ) finalParticleCount++;
       int pid = particle->pid();
       status += baseStatus;
       auto p1 = std::make_shared<HepMC3::GenParticle> (momentum, pid, status);
       p1->set_generated_mass(particle->generated_mass());
       particles.push_back(p1);
       // since the beam particles do not have a production vertex they cannot be attached to a production vertex
       if (particle->production_vertex()->id() < 0) {
           int production_vertex = particle->production_vertex()->id();
           vertices[abs(production_vertex) - 1]->add_particle_out(p1);
           hepSlice->add_particle(p1);
       }
     
       // Adds particles with an end vertex to their end vertices
       if (particle->end_vertex()) {
           int end_vertex = particle->end_vertex()->id();
           vertices.at(abs(end_vertex) - 1)->add_particle_in(p1);    
       }
     }
 
     // Adds the vertices with the attached particles to the event
     for (auto& vertex : vertices) {
       hepSlice->add_vertex(vertex);
     }
     
     return finalParticleCount;
   }
 
   // ---------------------------------------------------------------------------
 
   std::vector<double> poissonTimes(double mu, double endTime) {
     std::exponential_distribution<> exp(mu);
     
     double t = 0;
     std::vector<double> ret;
     while (true) {
       double delt = exp(rng)*1e6;
       // cout << delt <<endl;
       t += delt;
       if (t >= endTime) {
     break;
       }
       ret.push_back(t);
     }
     return ret;
 }
   // ---------------------------------------------------------------------------
 
   
   // private:
   std::mt19937 rng;
   string signalFile;
   double signalFreq;
   int signalSkip;
   int signalStatus;
   std::vector<BackgroundConfig> backgroundFiles;  
   string outputFile;
   string outputFileName;
   bool rootFormat;
   double intWindow;
   int nSlices; // should be long, but argparse cannot read that
   bool squashTime;
   int rngSeed;  // should be unsigned, but argparse cannot read that
   bool verbose;
   
   const double c_light = 299.792458; // speed of light = 299.792458 mm/ns to get mm  
 };
 
 // =============================================================
 int main(int argc, char* argv[]) {
 
   auto t0 = std::chrono::high_resolution_clock::now();
   // Create an instance of SignalBackgroundMerger
   SignalBackgroundMerger sbm (argc, argv);
 
 
   sbm.merge();
 
   std::cout << "\n==================================================================\n";
   std::cout << "Overall running time: " << std::round(std::chrono::duration<double, std::chrono::minutes::period>(std::chrono::high_resolution_clock::now() - t0).count()) << " min" << std::endl;
   
   return EXIT_SUCCESS;
 }

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