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File indexing completed on 2025-12-17 09:21:59

 #include "PHG4InttHitReco.h"
 
 #include <intt/CylinderGeomIntt.h>
 
 #include <g4detectors/PHG4CylinderGeom.h>  // for PHG4CylinderGeom
 #include <g4detectors/PHG4CylinderGeomContainer.h>
 
 #include <g4tracking/TrkrTruthTrack.h>
 #include <g4tracking/TrkrTruthTrackContainerv1.h>
 
 #include <trackbase/ClusHitsVerbosev1.h>
 #include <trackbase/InttDefs.h>
 #include <trackbase/TrkrClusterContainer.h>
 #include <trackbase/TrkrClusterContainerv4.h>
 #include <trackbase/TrkrClusterv4.h>
 #include <trackbase/TrkrDefs.h>
 #include <trackbase/TrkrHit.h>  // for TrkrHit
 #include <trackbase/TrkrHitSet.h>
 #include <trackbase/TrkrHitSetContainer.h>
 #include <trackbase/TrkrHitSetContainerv1.h>
 #include <trackbase/TrkrHitTruthAssoc.h>
 #include <trackbase/TrkrHitTruthAssocv1.h>
 #include <trackbase/TrkrHitv2.h>  // for TrkrHit
 
 #include <phparameter/PHParameterInterface.h>  // for PHParameterInterface
 
 #include <g4main/PHG4Hit.h>
 #include <g4main/PHG4HitContainer.h>
 #include <g4main/PHG4TruthInfoContainer.h>
 #include <g4main/PHG4Utils.h>
 
 #include <cdbobjects/CDBTTree.h>
 
 #include <ffamodules/CDBInterface.h>
 
 #include <fun4all/Fun4AllReturnCodes.h>
 #include <fun4all/SubsysReco.h>  // for SubsysReco
 
 #include <phool/PHCompositeNode.h>
 #include <phool/PHIODataNode.h>
 #include <phool/PHNode.h>  // for PHNode
 #include <phool/PHNodeIterator.h>
 #include <phool/PHObject.h>  // for PHObject
 #include <phool/getClass.h>
 #include <phool/phool.h>  // for PHWHERE
 #include <phool/sphenix_constants.h>
 
 #include <TSystem.h>
 
 #include <algorithm>
 #include <cassert>
 #include <cmath>
 #include <cstdlib>
 #include <iostream>
 #include <filesystem>
 #include <map>      // for _Rb_tree_const_it...
 #include <memory>   // for allocator_traits<...
 #include <set>
 #include <utility>  // for pair, swap, make_...
 #include <vector>   // for vector
 
 // update to make sure to clusterize clusters in loopers
 
 PHG4InttHitReco::PHG4InttHitReco(const std::string &name)
   : SubsysReco(name)
   , PHParameterInterface(name)
   , m_Detector("INTT")
   , m_Tmin(NAN)
   , m_Tmax(NAN)
   , m_crossingPeriod(NAN)
   , m_LocalOutVec(gsl_vector_alloc(3)), m_PathVec(gsl_vector_alloc(3)), m_SegmentVec(gsl_vector_alloc(3)), m_truth_hits{new TrkrHitSetContainerv1}
 {
   InitializeParameters();
 
   m_HitNodeName = "G4HIT_" + m_Detector;
   m_CellNodeName = "G4CELL_" + m_Detector;
   m_GeoNodeName = "CYLINDERGEOM_" + m_Detector;
   
   
   
 }
 
 PHG4InttHitReco::~PHG4InttHitReco()
 {
   gsl_vector_free(m_LocalOutVec);
   gsl_vector_free(m_PathVec);
   gsl_vector_free(m_SegmentVec);
   delete m_truth_hits;
 }
 
 int PHG4InttHitReco::InitRun(PHCompositeNode *topNode)
 {
   PHNodeIterator iter(topNode);
 
   // Looking for the DST node
   PHCompositeNode *dstNode;
   dstNode = dynamic_cast<PHCompositeNode *>(iter.findFirst("PHCompositeNode", "DST"));
   if (!dstNode)
   {
     std::cout << PHWHERE << "DST Node missing, exiting." << std::endl;
     gSystem->Exit(1);
     exit(1);
   }
 
   PHCompositeNode *runNode;
   runNode = dynamic_cast<PHCompositeNode *>(iter.findFirst("PHCompositeNode", "RUN"));
   if (!runNode)
   {
     std::cout << Name() << "RUN Node missing, exiting." << std::endl;
     gSystem->Exit(1);
     exit(1);
   }
   PHCompositeNode *parNode = dynamic_cast<PHCompositeNode *>(iter.findFirst("PHCompositeNode", "PAR"));
   if (!parNode)
   {
     std::cout << Name() << "PAR Node missing, exiting." << std::endl;
     gSystem->Exit(1);
     exit(1);
   }
   std::string paramnodename = "G4CELLPARAM_" + m_Detector;
 
   PHNodeIterator runiter(runNode);
   PHCompositeNode *RunDetNode = dynamic_cast<PHCompositeNode *>(runiter.findFirst("PHCompositeNode", m_Detector));
   if (!RunDetNode)
   {
     RunDetNode = new PHCompositeNode(m_Detector);
     runNode->addNode(RunDetNode);
   }
 
   PHG4HitContainer *g4hit = findNode::getClass<PHG4HitContainer>(topNode, m_HitNodeName);
   if (!g4hit)
   {
     std::cout << "Could not locate g4 hit node " << m_HitNodeName << std::endl;
     exit(1);
   }
 
   auto *hitsetcontainer = findNode::getClass<TrkrHitSetContainer>(topNode, "TRKR_HITSET");
   if (!hitsetcontainer)
   {
     PHNodeIterator dstiter(dstNode);
     PHCompositeNode *DetNode = dynamic_cast<PHCompositeNode *>(dstiter.findFirst("PHCompositeNode", "TRKR"));
     if (!DetNode)
     {
       DetNode = new PHCompositeNode("TRKR");
       dstNode->addNode(DetNode);
     }
 
     hitsetcontainer = new TrkrHitSetContainerv1;
     PHIODataNode<PHObject> *newNode = new PHIODataNode<PHObject>(hitsetcontainer, "TRKR_HITSET", "PHObject");
     DetNode->addNode(newNode);
   }
 
   auto *hittruthassoc = findNode::getClass<TrkrHitTruthAssoc>(topNode, "TRKR_HITTRUTHASSOC");
   if (!hittruthassoc)
   {
     PHNodeIterator dstiter(dstNode);
     PHCompositeNode *DetNode = dynamic_cast<PHCompositeNode *>(dstiter.findFirst("PHCompositeNode", "TRKR"));
     if (!DetNode)
     {
       DetNode = new PHCompositeNode("TRKR");
       dstNode->addNode(DetNode);
     }
 
     hittruthassoc = new TrkrHitTruthAssocv1;
     PHIODataNode<PHObject> *newNode = new PHIODataNode<PHObject>(hittruthassoc, "TRKR_HITTRUTHASSOC", "PHObject");
     DetNode->addNode(newNode);
   }
 
   PHG4CylinderGeomContainer *geo = findNode::getClass<PHG4CylinderGeomContainer>(topNode, m_GeoNodeName);
   if (!geo)
   {
     std::cout << "Could not locate geometry node " << m_GeoNodeName << std::endl;
     exit(1);
   }
 
   if (Verbosity() > 0)
   {
     geo->identify();
   }
 
   UpdateParametersWithMacro();
   SaveToNodeTree(RunDetNode, paramnodename);
   // save this to the parNode for use
   PHNodeIterator parIter(parNode);
   PHCompositeNode *ParDetNode = dynamic_cast<PHCompositeNode *>(parIter.findFirst("PHCompositeNode", m_Detector));
   if (!ParDetNode)
   {
     ParDetNode = new PHCompositeNode(m_Detector);
     parNode->addNode(ParDetNode);
   }
   PutOnParNode(ParDetNode, m_GeoNodeName);
   m_Tmin = get_double_param("tmin");
   m_Tmax = get_double_param("tmax");
   m_crossingPeriod = get_double_param("beam_crossing_period");
 
   // get the nodes for the truth clustering
   m_truthtracks = findNode::getClass<TrkrTruthTrackContainer>(topNode, "TRKR_TRUTHTRACKCONTAINER");
   if (!m_truthtracks)
   {
     PHNodeIterator dstiter(dstNode);
     m_truthtracks = new TrkrTruthTrackContainerv1();
     auto *newNode = new PHIODataNode<PHObject>(m_truthtracks, "TRKR_TRUTHTRACKCONTAINER", "PHObject");
     dstNode->addNode(newNode);
   }
 
   m_truthclusters = findNode::getClass<TrkrClusterContainer>(topNode, "TRKR_TRUTHCLUSTERCONTAINER");
   if (!m_truthclusters)
   {
     m_truthclusters = new TrkrClusterContainerv4;
     auto *newNode = new PHIODataNode<PHObject>(m_truthclusters, "TRKR_TRUTHCLUSTERCONTAINER", "PHObject");
     dstNode->addNode(newNode);
   }
 
   m_truthinfo = findNode::getClass<PHG4TruthInfoContainer>(topNode, "G4TruthInfo");
   if (!m_truthinfo)
   {
     std::cout << PHWHERE << " PHG4TruthInfoContainer node not found on node tree" << std::endl;
     assert(m_truthinfo);
   }
 
   // get cluster hits verbose (the hit and energy) information
   if (record_ClusHitsVerbose)
   {
     // get the node
     mClusHitsVerbose = findNode::getClass<ClusHitsVerbosev1>(topNode, "Trkr_TruthClusHitsVerbose");
     if (!mClusHitsVerbose)
     {
       PHNodeIterator dstiter(dstNode);
       auto *DetNode = dynamic_cast<PHCompositeNode *>(dstiter.findFirst("PHCompositeNode", "TRKR"));
       if (!DetNode)
       {
         DetNode = new PHCompositeNode("TRKR");
         dstNode->addNode(DetNode);
       }
       mClusHitsVerbose = new ClusHitsVerbosev1();
       auto *newNode = new PHIODataNode<PHObject>(mClusHitsVerbose, "Trkr_TruthClusHitsVerbose", "PHObject");
       DetNode->addNode(newNode);
     }
   }
 
   //Check for the hot channel map file
   bool m_useLocalHitMaskFile = m_localHotStripFileName.empty() ? false : true;
   std::string hotStripFile;
   if (m_useLocalHitMaskFile)
   {
     hotStripFile = m_localHotStripFileName;
   }
   else // use CDB file
   {
     hotStripFile = std::filesystem::exists(m_hotStripFileName) ? m_hotStripFileName : CDBInterface::instance()->getUrl(m_hotStripFileName);
   }
 
   std::cout << "PHG4InttHitReco::InitRun - Use local hot channel map file: " << m_useLocalHitMaskFile << std::endl
             << "PHG4InttHitReco::InitRun - Hot channel map file: " << hotStripFile << std::endl;
 
   if (std::filesystem::exists(hotStripFile))
   {
     CDBTTree cdbttree(hotStripFile);
     cdbttree.LoadCalibrations();
 
     m_HotChannelSet.clear();
     uint64_t N = cdbttree.GetSingleIntValue("size");
     for (uint64_t n = 0; n < N; ++n)
     {
       //C++ designated initializers only available with -std=c++20
       //Just going to build the struct normally
       InttNameSpace::RawData_s rawHotChannel;
       rawHotChannel.felix_server = cdbttree.GetIntValue(n, "felix_server");
       rawHotChannel.felix_channel = cdbttree.GetIntValue(n, "felix_channel");
       rawHotChannel.chip = cdbttree.GetIntValue(n, "chip");
       rawHotChannel.channel = cdbttree.GetIntValue(n, "channel");
 
       m_HotChannelSet.insert(rawHotChannel);
     }
   }
 
   if (Verbosity() > 0)
   {
     std::cout<<"INTT simulation BadChannelMap : size = "<<m_HotChannelSet.size()<<"  ";
     std::cout<<(( !m_HotChannelSet.empty() ) ? "Hot channel map loaded " : "Hot channel map is not loaded");
     std::cout<<std::endl;
   }
 
   return Fun4AllReturnCodes::EVENT_OK;
 }
 
 int PHG4InttHitReco::process_event(PHCompositeNode *topNode)
 {
   PHG4HitContainer *g4hit = findNode::getClass<PHG4HitContainer>(topNode, m_HitNodeName);
   if (!g4hit)
   {
     std::cout << "Could not locate g4 hit node " << m_HitNodeName << std::endl;
     exit(1);
   }
 
   // Get the TrkrHitSetContainer node
   auto *hitsetcontainer = findNode::getClass<TrkrHitSetContainer>(topNode, "TRKR_HITSET");
   if (!hitsetcontainer)
   {
     std::cout << "Could not locate TRKR_HITSET node, quit! " << std::endl;
     exit(1);
   }
 
   // Get the TrkrHitTruthAssoc node
   auto *hittruthassoc = findNode::getClass<TrkrHitTruthAssoc>(topNode, "TRKR_HITTRUTHASSOC");
   if (!hittruthassoc)
   {
     std::cout << "Could not locate TRKR_HITTRUTHASSOC node, quit! " << std::endl;
     exit(1);
   }
 
   PHG4CylinderGeomContainer *geo = findNode::getClass<PHG4CylinderGeomContainer>(topNode, m_GeoNodeName);
   if (!geo)
   {
     std::cout << "Could not locate geometry node " << m_GeoNodeName << std::endl;
     exit(1);
   }
   // loop over all of the layers in the hit container
   // we need the geometry object for this layer
   if (Verbosity() > 2)
   {
     std::cout << " PHG4InttHitReco: Loop over hits" << std::endl;
   }
   PHG4HitContainer::ConstRange hit_begin_end = g4hit->getHits();
 
   for (PHG4HitContainer::ConstIterator hiter = hit_begin_end.first; hiter != hit_begin_end.second; ++hiter)
   {
     const int sphxlayer = hiter->second->get_detid();
     CylinderGeomIntt *layergeom = dynamic_cast<CylinderGeomIntt *>(geo->GetLayerGeom(sphxlayer));
 
     // checking ADC timing integration window cut
     // uses default values for now
     // these should depend on layer radius
     if (hiter->second->get_t(0) > m_Tmax)
     {
       continue;
     }
     if (hiter->second->get_t(1) < m_Tmin)
     {
       continue;
     }
 
     truthcheck_g4hit(hiter->second, topNode);
 
     float time = (hiter->second->get_t(0) + hiter->second->get_t(1)) / 2.0;
 
     // I made this (small) diffusion up for now, we will get actual values for the Intt later
     double diffusion_width = 5.0e-04;  // diffusion radius 5 microns, in cm
 
     const int ladder_z_index = hiter->second->get_ladder_z_index();
     const int ladder_phi_index = hiter->second->get_ladder_phi_index();
 
     // What we have is a hit in the sensor. We have not yet assigned the strip(s) that were hit, we do that here
     //========================================================================
 
     // initialize them. In case find_strip_index_values does not set them we can pick this up
     int strip_y_index_in = -99999;
     int strip_z_index_in = -99999;
     int strip_y_index_out = -99999;
     int strip_z_index_out = -99999;
 
     layergeom->find_strip_index_values(ladder_z_index, hiter->second->get_local_y(0), hiter->second->get_local_z(0), strip_y_index_in, strip_z_index_in);
     layergeom->find_strip_index_values(ladder_z_index, hiter->second->get_local_y(1), hiter->second->get_local_z(1), strip_y_index_out, strip_z_index_out);
     if (strip_y_index_in == -99999 ||
         strip_z_index_in == -99999 ||
         strip_y_index_out == -99999 ||
         strip_z_index_out == -99999)
     {
       std::cout << "setting of strip indices failed" << std::endl;
       std::cout << "strip_y_index_in: " << strip_y_index_in << std::endl;
       std::cout << "strip_z_index_in: " << strip_z_index_in << std::endl;
       std::cout << "strip_y_index_out: " << strip_y_index_out << std::endl;
       std::cout << "strip_z_index_out: " << strip_y_index_out << std::endl;
       gSystem->Exit(1);
       exit(1);
     }
     if (Verbosity() > 5)
     {
       // check to see if we get back the positions from these strip index values
       double check_location[3] = {-1, -1, -1};
       layergeom->find_strip_center_localcoords(ladder_z_index, strip_y_index_in, strip_z_index_in, check_location);
       std::cout << " G4 entry location = " << hiter->second->get_local_x(0) << "  " << hiter->second->get_local_y(0) << "  " << hiter->second->get_local_z(0) << std::endl;
       std::cout << " Check entry location = " << check_location[0] << "  " << check_location[1] << "  " << check_location[2] << std::endl;
       layergeom->find_strip_center_localcoords(ladder_z_index, strip_y_index_out, strip_z_index_out, check_location);
       std::cout << " G4 exit location = " << hiter->second->get_local_x(1) << " " << hiter->second->get_local_y(1) << "  " << hiter->second->get_local_z(1) << std::endl;
       std::cout << " Check exit location = " << check_location[0] << "  " << check_location[1] << "  " << check_location[2] << std::endl;
     }
 
     // Now we find how many strips were crossed by this track, and divide the energy between them
     int minstrip_z = strip_z_index_in;
     int maxstrip_z = strip_z_index_out;
     if (minstrip_z > maxstrip_z)
     {
       std::swap(minstrip_z, maxstrip_z);
     }
 
     int minstrip_y = strip_y_index_in;
     int maxstrip_y = strip_y_index_out;
     if (minstrip_y > maxstrip_y)
     {
       std::swap(minstrip_y, maxstrip_y);
     }
 
     // Use an algorithm similar to the one for the MVTX pixels, since it facilitates adding charge diffusion
     // for now we assume small charge diffusion
     std::vector<int> vybin;
     std::vector<int> vzbin;
     // std::vector<double> vlen;
     std::vector<std::pair<double, double> > venergy;
 
     //====================================================
     // Beginning of charge sharing implementation
     //    Find tracklet line inside sensor
     //    Divide tracklet line into n segments (vary n until answer stabilizes)
     //    Find centroid of each segment
     //    Diffuse charge at each centroid
     //    Apportion charge between neighboring pixels
     //    Add the pixel energy contributions from different track segments together
     //====================================================
 
     // skip this hit if it involves an unreasonable  number of pixels
     // this skips it if either the xbin or ybin range traversed is greater than 8 (for 8 adding two pixels at each end makes the range 12)
     if (maxstrip_y - minstrip_y > 12 || maxstrip_z - minstrip_z > 12)
     {
       continue;
     }
     // this hit is skipped above if this dimensioning would be exceeded
     double stripenergy[13][13] = {};  // init to 0
     double stripeion[13][13] = {};    // init to 0
 
     int nsegments = 10;
     // Loop over track segments and diffuse charge at each segment location, collect energy in pixels
     // Get the entry point of the hit in sensor local coordinates
     gsl_vector_set(m_PathVec, 0, hiter->second->get_local_x(0));
     gsl_vector_set(m_PathVec, 1, hiter->second->get_local_y(0));
     gsl_vector_set(m_PathVec, 2, hiter->second->get_local_z(0));
     gsl_vector_set(m_LocalOutVec, 0, hiter->second->get_local_x(1));
     gsl_vector_set(m_LocalOutVec, 1, hiter->second->get_local_y(1));
     gsl_vector_set(m_LocalOutVec, 2, hiter->second->get_local_z(1));
     gsl_vector_sub(m_PathVec, m_LocalOutVec);
     for (int i = 0; i < nsegments; i++)
     {
       // Find the tracklet segment location
       // If there are n segments of equal length, we want 2*n intervals
       // The 1st segment is centered at interval 1, the 2nd at interval 3, the nth at interval 2n -1
       double interval = 2 * (double) i + 1;
       double frac = interval / (double) (2 * nsegments);
       gsl_vector_memcpy(m_SegmentVec, m_PathVec);
       gsl_vector_scale(m_SegmentVec, frac);
       gsl_vector_add(m_SegmentVec, m_LocalOutVec);
       // Caculate the charge diffusion over this drift distance
       // increases from diffusion width_min to diffusion_width_max
       double diffusion_radius = diffusion_width;
 
       if (Verbosity() > 5)
       {
         std::cout << " segment " << i
                   << " interval " << interval
                   << " frac " << frac
                   << " local_in.X " << hiter->second->get_local_x(0)
                   << " local_in.Z " << hiter->second->get_local_z(0)
                   << " local_in.Y " << hiter->second->get_local_y(0)
                   << " pathvec.X " << gsl_vector_get(m_PathVec, 0)
                   << " pathvec.Z " << gsl_vector_get(m_PathVec, 2)
                   << " pathvec.Y " << gsl_vector_get(m_PathVec, 1)
                   << " segvec.X " << gsl_vector_get(m_SegmentVec, 0)
                   << " segvec.Z " << gsl_vector_get(m_SegmentVec, 2)
                   << " segvec.Y " << gsl_vector_get(m_SegmentVec, 1) << std::endl
                   << " diffusion_radius " << diffusion_radius
                   << std::endl;
       }
 
       // Now find the area of overlap of the diffusion circle with each pixel and apportion the energy
       for (int iz = minstrip_z; iz <= maxstrip_z; iz++)
       {
         for (int iy = minstrip_y; iy <= maxstrip_y; iy++)
         {
           // Find the pixel corners for this pixel number
           double location[3] = {-1, -1, -1};
           layergeom->find_strip_center_localcoords(ladder_z_index, iy, iz, location);
           // note that (y1,z1) is the top left corner, (y2,z2) is the bottom right corner of the pixel - circle_rectangle_intersection expects this ordering
           int type = (ladder_z_index == 0 || ladder_z_index == 2) ? 0 : 1; // ladder ID 0 and 2 are type-A (1.6 cm), ladder ID 1 and 3 are type-B (2.0 cm)
           double y1 = location[1] - layergeom->get_strip_y_spacing() / 2.0;
           double y2 = location[1] + layergeom->get_strip_y_spacing() / 2.0;
           double z1 = location[2] + layergeom->get_strip_z_spacing(type) / 2.0;
           double z2 = location[2] - layergeom->get_strip_z_spacing(type) / 2.0;
 
           if (Verbosity() > 5)
           {
             std::cout << PHWHERE << " ladder_z_index " << ladder_z_index  << " strip size in z (from CylinderGeomIntt) " << fabs(z1 - z2) << " strip size in y (from CylinderGeomIntt) " << fabs(y1 - y2) << std::endl;
           }
 
           // here m_SegmentVec.1 (Y) and m_SegmentVec.2 (Z) are the center of the circle, and diffusion_radius is the circle radius
           // circle_rectangle_intersection returns the overlap area of the circle and the pixel. It is very fast if there is no overlap.
           double striparea_frac = PHG4Utils::circle_rectangle_intersection(y1, z1, y2, z2, gsl_vector_get(m_SegmentVec, 1), gsl_vector_get(m_SegmentVec, 2), diffusion_radius) / (M_PI * (diffusion_radius * diffusion_radius));
           // assume that the energy is deposited uniformly along the tracklet length, so that this segment gets the fraction 1/nsegments of the energy
           stripenergy[iy - minstrip_y][iz - minstrip_z] += striparea_frac * hiter->second->get_edep() / (float) nsegments;
           if (hiter->second->has_property(PHG4Hit::prop_eion))
           {
             stripeion[iy - minstrip_y][iz - minstrip_z] += striparea_frac * hiter->second->get_eion() / (float) nsegments;
           }
           if (Verbosity() > 5)
           {
             std::cout << "    strip y index " << iy << " strip z index  " << iz
                       << " strip area fraction of circle " << striparea_frac << " accumulated pixel energy " << stripenergy[iy - minstrip_y][iz - minstrip_z]
                       << std::endl;
           }
         }
       }
     }  // end loop over segments
     // now we have the energy deposited in each pixel, summed over all tracklet segments. We make a vector of all pixels with non-zero energy deposited
 
     for (int iz = minstrip_z; iz <= maxstrip_z; iz++)
     {
       for (int iy = minstrip_y; iy <= maxstrip_y; iy++)
       {
         if (stripenergy[iy - minstrip_y][iz - minstrip_z] > 0.0)
         {
           vybin.push_back(iy);
           vzbin.push_back(iz);
           std::pair<double, double> tmppair = std::make_pair(stripenergy[iy - minstrip_y][iz - minstrip_z], stripeion[iy - minstrip_y][iz - minstrip_z]);
           venergy.push_back(tmppair);
           if (Verbosity() > 1)
           {
             std::cout << " Added ybin " << iy << " zbin " << iz << " to vectors with energy " << stripenergy[iy - minstrip_y][iz - minstrip_z] << std::endl;
           }
         }
       }
     }
 
     //===================================
     // End of charge sharing implementation
     //===================================
 
     InttNameSpace::RawData_s raw;
     InttNameSpace::Offline_s ofl;
 
     for (unsigned int i1 = 0; i1 < vybin.size(); i1++)  // loop over all fired cells
     {
       // We add the Intt TrkrHitsets directly to the node using hitsetcontainer
 
       // Get the hit crossing
       int crossing = (int) (round(time / m_crossingPeriod));
       // crossing has to fit into 5 bits
       crossing = std::max(crossing, -512);
       crossing = std::min(crossing, 511);
       // We need to create the TrkrHitSet if not already made - each TrkrHitSet should correspond to a sensor for the Intt ?
       // The hitset key includes the layer, the ladder_z_index (sensors numbered 0-3) and  ladder_phi_index (azimuthal location of ladder) for this hit
       TrkrDefs::hitsetkey hitsetkey = InttDefs::genHitSetKey(sphxlayer, ladder_z_index, ladder_phi_index, crossing);
 
       // Use existing hitset or add new one if needed
       TrkrHitSetContainer::Iterator hitsetit = hitsetcontainer->findOrAddHitSet(hitsetkey);
 
       // generate the key for this hit
       TrkrDefs::hitkey hitkey = InttDefs::genHitKey(vzbin[i1], vybin[i1]);
       // See if this hit already exists and is not a raw hit
       ofl.layer = sphxlayer;
       ofl.ladder_z = ladder_z_index;
       ofl.ladder_phi = ladder_phi_index;
       ofl.strip_x = vybin[i1]; //vzbin is the col
       ofl.strip_y = vzbin[i1]; //vybin is the row
       raw = InttNameSpace::ToRawData(ofl);
 
       double hit_energy = venergy[i1].first * TrkrDefs::InttEnergyScaleup;
       addtruthhitset(hitsetkey, hitkey, hit_energy);
 
       if (m_HotChannelSet.contains(raw))
       { //We still want the truth hit
         continue;
       }
 
       TrkrHit *hit = hitsetit->second->getHit(hitkey);
       if (!hit)
       {
         // Otherwise, create a new one
         hit = new TrkrHitv2();
         hitsetit->second->addHitSpecificKey(hitkey, hit);
       }
 
       // Either way, add the energy to it
       if (Verbosity() > 2)
       {
         std::cout << "add energy " << venergy[i1].first << " to intthit " << std::endl;
       }
 
       hit->addEnergy(hit_energy);
 
       // Add this hit to the association map
       hittruthassoc->addAssoc(hitsetkey, hitkey, hiter->first);
 
       if (Verbosity() > 2)
       {
         std::cout << "PHG4InttHitReco: added hit wirh hitsetkey " << hitsetkey << " hitkey " << hitkey << " g4hitkey " << hiter->first << " energy " << hit->getEnergy() << std::endl;
       }
     }
   }  // end loop over g4hits
 
   // print the list of entries in the association table
   if (Verbosity() > 0)
   {
     std::cout << "From PHG4InttHitReco: " << std::endl;
     hitsetcontainer->identify();
     hittruthassoc->identify();
   }
 
   if (m_is_emb)
   {
     cluster_truthhits(topNode);  // the last track was truth -- make it's clusters
     prior_g4hit = nullptr;
   }
 
   end_event_truthcluster(topNode);
   return Fun4AllReturnCodes::EVENT_OK;
 }  // end process_event
 
 void PHG4InttHitReco::SetDefaultParameters()
 {
   // if we ever need separate timing windows, don't patch around here!
   // use PHParameterContainerInterface which
   // provides for multiple layers/detector types
   set_default_double_param("tmax", 7020.0);  // max upper time window for extended readout
   set_default_double_param("tmin", -20.0);   // min lower time window for extended readout
   set_default_double_param("beam_crossing_period", sphenix_constants::time_between_crossings);
 
   return;
 }
 
 void PHG4InttHitReco::truthcheck_g4hit(PHG4Hit *g4hit, PHCompositeNode *topNode)
 {
   if (g4hit == nullptr)
   {
     return;
   }
   int new_trkid = g4hit->get_trkid();
 
   bool is_new_track = (new_trkid != m_trkid);
   if (Verbosity() > 5)
   {
     std::cout << PHWHERE << std::endl
               << " -> Checking status of PHG4Hit. Track id(" << new_trkid << ")" << std::endl;
   }
   if (!is_new_track)
   {
     // check to see if it is an embedded track that meets the looper condition:
     if (m_is_emb)
     {
       if (prior_g4hit != nullptr && (std::abs(prior_g4hit->get_x(0) - g4hit->get_x(0)) > max_g4hitstep || std::abs(prior_g4hit->get_y(0) - g4hit->get_y(0)) > max_g4hitstep))
       {
         // this is a looper track -- cluster hits up to this point already
         cluster_truthhits(topNode);
       }
       prior_g4hit = g4hit;
     }
     return;
   }
   // <- STATUS: this is a new track
   if (Verbosity() > 2)
   {
     std::cout << PHWHERE << std::endl
               << " -> Found new embedded track with id: " << new_trkid << std::endl;
   }
   if (m_is_emb)
   {
     // cluster the old track
     cluster_truthhits(topNode);  // cluster m_truth_hits and add m_current_track
     m_current_track = nullptr;
     prior_g4hit = nullptr;
   }
   m_trkid = new_trkid;
   m_is_emb = m_truthinfo->isEmbeded(m_trkid);
   if (m_is_emb)
   {
     m_current_track = m_truthtracks->getTruthTrack(m_trkid, m_truthinfo);
     prior_g4hit = g4hit;
   }
 }
 
 void PHG4InttHitReco::end_event_truthcluster(PHCompositeNode *topNode)
 {
   if (m_is_emb)
   {
     cluster_truthhits(topNode);  // cluster m_truth_hits and add m_current_track
     m_current_track = nullptr;
     m_trkid = -1;
     m_is_emb = false;
   }
   m_hitsetkey_cnt.clear();
 }
 
 void PHG4InttHitReco::addtruthhitset(
     TrkrDefs::hitsetkey hitsetkey,
     TrkrDefs::hitkey hitkey,
     float neffelectrons)
 {
   if (!m_is_emb)
   {
     return;
   }
   TrkrHitSetContainer::Iterator hitsetit = m_truth_hits->findOrAddHitSet(hitsetkey);
   // See if this hit already exists
   TrkrHit *hit = nullptr;
   hit = hitsetit->second->getHit(hitkey);
   if (!hit)
   {
     // create a new one
     hit = new TrkrHitv2();
     hitsetit->second->addHitSpecificKey(hitkey, hit);
   }
   // Either way, add the energy to it  -- adc values will be added at digitization
   hit->addEnergy(neffelectrons);
 }
 
 void PHG4InttHitReco::cluster_truthhits(PHCompositeNode *topNode)
 {
   // -----------------------------------------------
   // Digitize, adapted from g4intt/PHG4InttDigitizer
   // -----------------------------------------------
   //
   // Note: not using digitization, because as currently implemented, the SvtxTrack clusters
   // don't use the adc weighting from the digitization code anyway.
   //
   // don't use the dead map for truth tracks
   /* TrkrHitSetContainer::ConstRange hitset_range = m_truth_hits->getHitSets(TrkrDefs::TrkrId::inttId); */
   /* for (TrkrHitSetContainer::ConstIterator hitset_iter = hitset_range.first; */
   /*      hitset_iter != hitset_range.second; */
   /*      ++hitset_iter) */
   /* { */
   /*   // we have an itrator to one TrkrHitSet for the intt from the trkrHitSetContainer */
   /*   // get the hitset key so we can find the layer */
   /*   TrkrDefs::hitsetkey hitsetkey = hitset_iter->first; */
   /*   const int layer = TrkrDefs::getLayer(hitsetkey); */
   /*   const int ladder_phi = InttDefs::getLadderPhiId(hitsetkey); */
   /*   const int ladder_z = InttDefs::getLadderZId(hitsetkey); */
 
   /*   if (Verbosity() > 1) */
   /*   { */
   /*     std::cout << "PHG4InttDigitizer: found hitset with key: " << hitsetkey << " in layer " << layer << std::endl; */
   /*   } */
   /*   // get all of the hits from this hitset */
   /*   TrkrHitSet *hitset = hitset_iter->second; */
   /*   TrkrHitSet::ConstRange hit_range = hitset->getHits(); */
   /*   /1* std::set<TrkrDefs::hitkey> dead_hits;  // hits on dead channel *1/ // no dead channels implemented */
   /*   for (TrkrHitSet::ConstIterator hit_iter = hit_range.first; */
   /*        hit_iter != hit_range.second; */
   /*        ++hit_iter) */
   /*   { */
   /*     // ++m_nCells; // not really used by PHG4InttDigitizer */
 
   /*     TrkrHit *hit = hit_iter->second; */
   /*     TrkrDefs::hitkey hitkey = hit_iter->first; */
   /*     int strip_col = InttDefs::getCol(hitkey);  // strip z index */
   /*     int strip_row = InttDefs::getRow(hitkey);  // strip phi index */
 
   /*     // FIXME need energy scales here */
   /*     if (_energy_scale.count(layer) > 1) */
   /*     { */
   /*       assert(!"Error: _energy_scale has two or more keys."); */
   /*     } */
   /*     const float mip_e = _energy_scale[layer]; */
 
   /*     std::vector<std::pair<double, double> > vadcrange = _max_fphx_adc[layer]; */
 
   /*     int adc = 0; */
   /*     for (unsigned int irange = 0; irange < vadcrange.size(); ++irange) */
   /*     { */
   /*       if (hit->getEnergy() / TrkrDefs::InttEnergyScaleup >= vadcrange[irange].first * */
   /*           (double) mip_e && hit->getEnergy() / TrkrDefs::InttEnergyScaleup */
   /*           < vadcrange[irange].second * (double) mip_e) */
   /*       { */
   /*         adc = (unsigned short) irange; */
   /*       } */
   /*     } */
   /*     hit->setAdc(adc); */
 
   /*     if (Verbosity() > 2) */
   /*     { */
   /*       std::cout << "PHG4InttDigitizer: found hit with layer " << layer << " ladder_z " << ladder_z << " ladder_phi " << ladder_phi */
   /*                 << " strip_col " << strip_col << " strip_row " << strip_row << " adc " << hit->getAdc() << std::endl; */
   /*     } */
   /*   }  // end loop over hits in this hitset */
 
   /* // remove hits on dead channel in TRKR_HITSET and TRKR_HITTRUTHASSOC */
   /* for (const auto &key : dead_hits) */
   /* { */
   /*   if (Verbosity() > 2) */
   /*   { */
   /*     std::cout << " PHG4InttDigitizer: remove hit with key: " << key << std::endl; */
   /*   } */
   /*   hitset->removeHit(key); */
   /* } */
   /* }  // end loop over hitsets */
 
   // -----------------------------------------------
   // Cluster, adapted from intt/InttClusterizer
   // -----------------------------------------------
   if (Verbosity() > 1)
   {
     std::cout << "Clustering truth clusters" << std::endl;
   }
 
   //-----------
   // Clustering
   //-----------
   // get the geometry node
   PHG4CylinderGeomContainer *geom_container = findNode::getClass<PHG4CylinderGeomContainer>(topNode, "CYLINDERGEOM_INTT");
   if (!geom_container)
   {
     return;
   }
 
   // loop over the InttHitSet objects
   TrkrHitSetContainer::ConstRange hitsetrange =
       m_truth_hits->getHitSets(TrkrDefs::TrkrId::inttId);  // from TruthClusterizerBase
 
   for (TrkrHitSetContainer::ConstIterator hitsetitr = hitsetrange.first;
        hitsetitr != hitsetrange.second; ++hitsetitr)
   {
     // Each hitset contains only hits that are clusterizable - i.e. belong to a single sensor
     TrkrHitSet *hitset = hitsetitr->second;
     TrkrDefs::hitsetkey hitsetkey = hitset->getHitSetKey();
 
     // cluster this hitset; all pixels in it are, by definition, part of the same clusters
 
     if (Verbosity() > 1)
     {
       std::cout << "InttClusterizer found hitsetkey " << hitsetitr->first << std::endl;
     }
     if (Verbosity() > 2)
     {
       hitset->identify();
     }
 
     // we have a single hitset, get the info that identifies the sensor
 
     if (Verbosity() > 2)
     {
       std::cout << "Filling cluster with hitsetkey " << ((int) hitsetkey) << std::endl;
     }
 
     // get the bunch crossing number from the hitsetkey
     /* short int crossing = InttDefs::getTimeBucketId(hitset->getHitSetKey()); */
 
     // determine the size of the cluster in phi and z, useful for track fitting the cluster
     std::set<int> phibins;
     std::set<int> zbins;
 
     // determine the cluster position...
     double xlocalsum = 0.0;
     double ylocalsum = 0.0;
     double zlocalsum = 0.0;
     unsigned int clus_adc = 0.0;
     unsigned nhits = 0;
 
     // aggregate the adc values
     double sum_adc{0};
     TrkrHitSet::ConstRange hitrangei = hitset->getHits();
     for (auto ihit = hitrangei.first; ihit != hitrangei.second; ++ihit)
     {
       sum_adc += ihit->second->getAdc();
     }
 
     // tune this energy threshold in the same maner of the MVTX, namely to get the same kind of pixel sizes
     // as the SvtxTrack clusters
     /* const double threshold = sum_adc * m_truth_pixelthreshold; */
     const double threshold = sum_adc * m_pixel_thresholdrat;       // FIXME -- tune this as needed
     std::map<int, unsigned int> m_iphi;
     std::map<int, unsigned int> m_it;
     std::map<int, unsigned int> m_iphiCut;
     std::map<int, unsigned int> m_itCut;  // FIXME
 
     int layer = TrkrDefs::getLayer(hitsetkey);
     CylinderGeomIntt *geom = dynamic_cast<CylinderGeomIntt *>(geom_container->GetLayerGeom(layer));
 
     int ladder_z_index = InttDefs::getLadderZId(hitsetkey);
 
     for (auto ihit = hitrangei.first; ihit != hitrangei.second; ++ihit)
     {
       int col = InttDefs::getCol(ihit->first);
       int row = InttDefs::getRow(ihit->first);
       auto adc = ihit->second->getAdc();
 
       if (mClusHitsVerbose)
       {
         std::map<int, unsigned int> &m_phi = (adc < threshold) ? m_iphiCut : m_iphi;
         std::map<int, unsigned int> &m_z = (adc < threshold) ? m_itCut : m_it;
 
         auto pnew = m_phi.try_emplace(row, adc);
         if (!pnew.second)
         {
           pnew.first->second += adc;
         }
 
         pnew = m_z.try_emplace(col, adc);
         if (!pnew.second)
         {
           pnew.first->second += adc;
         }
       }
       if (adc < threshold)
       {
         continue;
       }
 
       clus_adc += adc;
       zbins.insert(col);
       phibins.insert(row);
 
       // now get the positions from the geometry
       double local_hit_location[3] = {0., 0., 0.};
 
       geom->find_strip_center_localcoords(ladder_z_index, row, col, local_hit_location); //NOLINT(readability-suspicious-call-argument)
 
       xlocalsum += local_hit_location[0];
       ylocalsum += local_hit_location[1];
       zlocalsum += local_hit_location[2];
 
       ++nhits;
 
       if (Verbosity() > 6)
       {
         std::cout << "  From  geometry object: hit x " << local_hit_location[0]
                   << " hit y " << local_hit_location[1] << " hit z " << local_hit_location[2] << std::endl;
         std::cout << "     nhits " << nhits << " clusx  = " << xlocalsum / nhits << " clusy "
                   << ylocalsum / nhits << " clusz " << zlocalsum / nhits << std::endl;
       }
       // NOTE:
       /* if (_make_e_weights[layer]) */  // these values are all false by default
       /* if ( false ) // the current implementation of the code does not weight by adc values */
       /*              // therefore the default here is to use use adc to cut the outliers and nothing else */
       /* { */
       /*   xlocalsum += local_hit_location[0] * (double) hit_adc; */
       /*   ylocalsum += local_hit_location[1] * (double) hit_adc; */
       /*   zlocalsum += local_hit_location[2] * (double) hit_adc; */
       /* } */
       /* else */
       /* { */
       /* } */
       /* if(hit_adc > clus_maxadc) clus_maxadc = hit_adc; */  // FIXME: do we want this value to be set?
       /* clus_energy += hit_adc; */
     }
     if (mClusHitsVerbose)
     {
       if (Verbosity() > 10)
       {
         for (auto &hit : m_iphi)
         {
           std::cout << " m_phi(" << hit.first << " : " << hit.second << ") " << std::endl;
         }
       }
       for (auto &hit : m_iphi)
       {
         mClusHitsVerbose->addPhiHit(hit.first, (float) hit.second);
       }
       for (auto &hit : m_it)
       {
         mClusHitsVerbose->addZHit(hit.first, (float) hit.second);
       }
       for (auto &hit : m_iphiCut)
       {
         mClusHitsVerbose->addPhiCutHit(hit.first, (float) hit.second);
       }
       for (auto &hit : m_itCut)
       {
         mClusHitsVerbose->addZCutHit(hit.first, (float) hit.second);
       }
     }
 
     // add this cluster-hit association to the association map of (clusterkey,hitkey)
     if (Verbosity() > 2)
     {
       std::cout << "  nhits = " << nhits << std::endl;
     }
 
     /* static const float invsqrt12 = 1./sqrt(12); */
     // scale factors (phi direction)
     /*
        they corresponds to clusters of size 1 and 2 in phi
        other clusters, which are very few and pathological, get a scale factor of 1
        These scale factors are applied to produce cluster pulls with width unity
        */
 
     /* float phierror = pitch * invsqrt12; */
 
     /* static constexpr std::array<double, 3> scalefactors_phi = {{ 0.85, 0.4, 0.33 }}; */
     /* if( phibins.size() == 1 && layer < 5) phierror*=scalefactors_phi[0]; */
     /* else if( phibins.size() == 2 && layer < 5) phierror*=scalefactors_phi[1]; */
     /* else if( phibins.size() == 2 && layer > 4) phierror*=scalefactors_phi[2]; */
     /* // z error. All clusters have a z-size of 1. */
     /* const float zerror = length * invsqrt12; */
     if (nhits == 0)
     {
       continue;
     }
 
     double cluslocaly = ylocalsum / nhits;
     double cluslocalz = zlocalsum / nhits;
 
     // if (_make_e_weights[layer]) // FIXME: this is always false for now
     /* { */
     /*   cluslocaly = ylocalsum / (double) clus_adc; */
     /*   cluslocalz = zlocalsum / (double) clus_adc; */
     /* } */
     /* else */
     /* { */
     /* } */
     if (m_cluster_version == 4)
     {
       auto clus = std::make_unique<TrkrClusterv4>();
       clus->setAdc(clus_adc);
       clus->setPhiSize(phibins.size());
       clus->setZSize(1);
 
       if (Verbosity() > 10)
       {
         clus->identify();
       }
 
       clus->setLocalX(cluslocaly);
       clus->setLocalY(cluslocalz);
       // silicon has a 1-1 map between hitsetkey and surfaces. So set to 0
       clus->setSubSurfKey(0);
 
       m_hitsetkey_cnt.try_emplace(hitsetkey, 0);
       unsigned int &cnt = m_hitsetkey_cnt[hitsetkey];
       TrkrDefs::cluskey ckey = TrkrDefs::genClusKey(hitsetkey, cnt);
       m_truthclusters->addClusterSpecifyKey(ckey, clus.release());
       m_current_track->addCluster(ckey);
       if (mClusHitsVerbose)
       {
         mClusHitsVerbose->push_hits(ckey);
         if (Verbosity() > 10)
         {
           std::cout << " ClusHitsVerbose.size (in INTT): "
                     << mClusHitsVerbose->getMap().size() << std::endl;
         }
       }
       ++cnt;
     }  // end loop over hitsets
   }
 
   m_truth_hits->Reset();
   prior_g4hit = nullptr;
   return;
 }

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