A specific threshold-based pixel clustering algorithm. More...

#include <Phase2ITPixelThresholdClusterizer.h>

Inheritance diagram for Phase2ITPixelThresholdClusterizer:

Public Member Functions
void	clusterizeDetUnit (const edm::DetSet< PixelDigi > &input, const PixelGeomDetUnit *pixDet, const std::vector< short > &badChannels, edmNew::DetSetVector< Phase2ITPixelCluster >::FastFiller &output)
	Cluster pixels. This method operates on a matrix of pixels and finds the largest contiguous cluster around each seed pixel. Input and output data stored in DetSet. More...

	Phase2ITPixelThresholdClusterizer (edm::ParameterSet const &conf)

	~Phase2ITPixelThresholdClusterizer ()

Public Member Functions inherited from Phase2ITPixelClusterizerBase
void	setSiPixelGainCalibrationService (SiPixelGainCalibrationServiceBase *in)

virtual	~Phase2ITPixelClusterizerBase ()

Private Member Functions
int	calibrate (int adc, int col, int row)

void	clear_buffer (DigiIterator begin, DigiIterator end)
	Clear the internal buffer array. More...

void	copy_to_buffer (DigiIterator begin, DigiIterator end)
	Copy adc counts from PixelDigis into the buffer, identify seeds. More...

Phase2ITPixelCluster	make_cluster (const Phase2ITPixelCluster::PixelPos &pix, edmNew::DetSetVector< Phase2ITPixelCluster >::FastFiller &output)
	The actual clustering algorithm: group the neighboring pixels around the seed. More...

bool	setup (const PixelGeomDetUnit *pixDet)
	Private helper methods: More...

Private Attributes
bool	bufferAlreadySet

edm::ParameterSet	conf_

bool	dead_flag

uint32_t	detid_

bool	doMissCalibrate

bool	doSplitClusters

Phase2ITPixelArrayBuffer	theBuffer
	Data storage. More...

std::vector< Phase2ITPixelCluster >	theClusters

float	theClusterThreshold

float	theClusterThresholdInNoiseUnits

int	theConversionFactor

int	theFirstStack_

int	theNumOfCols

int	theNumOfRows
	Geometry-related information. More...

int	theOffset

int	thePixelThreshold

float	thePixelThresholdInNoiseUnits
	Clustering-related quantities: More...

std::vector< Phase2ITPixelCluster::PixelPos >	theSeeds

int	theSeedThreshold

float	theSeedThresholdInNoiseUnits

int	theStackADC_

Additional Inherited Members
Public Types inherited from Phase2ITPixelClusterizerBase
typedef edm::DetSet< PixelDigi >::const_iterator	DigiIterator

Protected Attributes inherited from Phase2ITPixelClusterizerBase
SiPixelGainCalibrationServiceBase *	theSiPixelGainCalibrationService_

Detailed Description

A specific threshold-based pixel clustering algorithm.

An explicit threshold-based clustering algorithm.

General logic of Phase2ITPixelThresholdClusterizer:

The clusterization is performed on a matrix with size equal to the size of the pixel detector, each cell containing the ADC count of the corresponding pixel. The matrix is reset after each clusterization.

The search starts from seed pixels, i.e. pixels with sufficiently large amplitudes, found at the time of filling of the matrix and stored in a Phase2ITPixelArrayBuffer.

Translate the pixel charge to electrons, we are suppose to do the calibrations ADC->electrons here. Modify the thresholds to be in electrons, convert adc to electrons. d.k. 20/3/06 Get rid of the noiseVector. d.k. 28/3/06

A threshold-based clustering algorithm which clusters SiPixelDigis into Phase2ITPixelClusters for each DetUnit. The algorithm is straightforward and purely topological: the clustering process starts with seed pixels and continues by adding adjacent pixels above the pixel threshold. Once the cluster is made, it has to be above the cluster threshold as well.

The clusterization is performed on a matrix with size equal to the size of the pixel detector, each cell containing the ADC count of the corresponding pixel. The matrix is reset after each clusterization.

The search starts from seed pixels, i.e. pixels with sufficiently large amplitudes, found at the time of filling of the matrix and stored in a

At this point the noise and dead channels are ignored, but soon they won't be.

Phase2ITPixelCluster contains a barycenter, but it should be noted that information is largely useless. One must use a PositionEstimator class to compute the RecHit position and its error for every given cluster.

Author: Original code by Danek Kotlinski (PSI). Ported to CMSSW by Petar Maksimovic (JHU). DetSetVector data container implemented by V.Chiochia (Uni Zurich)

Sets the Phase2ITPixelArrayBuffer dimensions and pixel thresholds. Makes clusters and stores them in theCache if the option useCache has been set.

Definition at line 56 of file Phase2ITPixelThresholdClusterizer.h.

Constructor & Destructor Documentation

Phase2ITPixelThresholdClusterizer::Phase2ITPixelThresholdClusterizer ( edm::ParameterSet const & conf )

Constructor: Initilize the buffer to hold pixels from a detector module. (old comment: This is a vector of 44k ints, stays valid all the time.)

Definition at line 45 of file Phase2ITPixelThresholdClusterizer.cc.

References edm::ParameterSet::getParameter().

                                 :
     conf_(conf), bufferAlreadySet(false), theNumOfRows(0), theNumOfCols(0), detid_(0) 
 {
   // Get thresholds in electrons
   thePixelThreshold   = 
     conf_.getParameter<int>("ChannelThreshold");
   theSeedThreshold    = 
     conf_.getParameter<int>("SeedThreshold");
   theClusterThreshold = 
     conf_.getParameter<double>("ClusterThreshold");
   theConversionFactor = 
     conf_.getParameter<int>("VCaltoElectronGain");
   theOffset = 
     conf_.getParameter<int>("VCaltoElectronOffset");
   if ( conf_.exists("AdcFullScaleStack") ) theStackADC_=conf_.getParameter<int>("AdcFullScaleStack");
   else 
     theStackADC_=255;
   if ( conf_.exists("FirstStackLayer") ) theFirstStack_=conf_.getParameter<int>("FirstStackLayer");
   else
     theFirstStack_=5;
   
   // Get the constants for the miss-calibration studies
   doMissCalibrate=conf_.getUntrackedParameter<bool>("MissCalibrate",true); 
   doSplitClusters = conf.getParameter<bool>("SplitClusters");
   theBuffer.setSize( theNumOfRows, theNumOfCols );
 }

Phase2ITPixelThresholdClusterizer::~Phase2ITPixelThresholdClusterizer ( )

Definition at line 72 of file Phase2ITPixelThresholdClusterizer.cc.

72 {}

Member Function Documentation

int Phase2ITPixelThresholdClusterizer::calibrate	(	int	adc,
		int	col,
		int	row
	)

private

Definition at line 247 of file Phase2ITPixelThresholdClusterizer.cc.

References ecalMGPA::adc(), Clusterizer1DCommons::add(), Phase2ITPixelCluster::PixelPos::col(), constexpr, genericTrackCleaner_cfi::electrons, relativeConstraints::empty, muonCSCDigis_cfi::gain, createfilelist::int, PXBDetId::layer(), min(), AlCaHLTBitMon_ParallelJobs::p, muonCSCDigis_cfi::pedestal, lhef::pop(), Phase2ITPixelCluster::PixelPos::row(), x(), TrackerOfflineValidation_Dqm_cff::xmin, and Phase2TrackerMonitorDigi_cff::ymin.

 {
   int electrons = 0;
   int layer= 0;
   if (DetId(detid_).subdetId()==1){ layer = PXBDetId(detid_).layer();}
 
   if ( doMissCalibrate ) 
     {
       // do not perform calibration if pixel is dead!
       
       if ( !theSiPixelGainCalibrationService_->isDead(detid_,col,row) && 
        !theSiPixelGainCalibrationService_->isNoisy(detid_,col,row) )
     {
       
       // Linear approximation of the TANH response
       // Pixel(0,0,0)
       //const float gain = 2.95; // 1 ADC = 2.95 VCALs (1/0.339)
       //const float pedestal = -83.; // -28/0.339
       // Roc-0 average
       //const float gain = 1./0.357; // 1 ADC = 2.80 VCALs 
       //const float pedestal = -28.2 * gain; // -79.
       
       float DBgain     = theSiPixelGainCalibrationService_->getGain(detid_, col, row);
       float DBpedestal = theSiPixelGainCalibrationService_->getPedestal(detid_, col, row) * DBgain;
       
       
       // Roc-6 average
       //const float gain = 1./0.313; // 1 ADC = 3.19 VCALs 
       //const float pedestal = -6.2 * gain; // -19.8
       // 
       float vcal = adc * DBgain - DBpedestal;
       
       // atanh calibration 
       // Roc-6 average
       //const float p0 = 0.00492;
       //const float p1 = 1.998;
       //const float p2 = 90.6;
       //const float p3 = 134.1; 
       // Roc-6 average
       //const float p0 = 0.00382;
       //const float p1 = 0.886;
       //const float p2 = 112.7;
       //const float p3 = 113.0; 
       //float vcal = ( atanh( (adc-p3)/p2) + p1)/p0;
       
       electrons = int( vcal * theConversionFactor + theOffset); 
     }
     }
   else 
     { // No misscalibration in the digitizer
       // Simple (default) linear gain 
       const float gain = 135.; // 1 ADC = 135 electrons
       const float pedestal = 0.; //
       electrons = int(adc * gain + pedestal);
       if (layer>=theFirstStack_) {
     if (theStackADC_==1&&adc==1)
       {
         electrons = int(255*135); // Arbitrarily use overflow value.
       }
     if (theStackADC_>1&&theStackADC_!=255&&adc>=1)
       {
         const float gain = 135.; // 1 ADC = 135 electrons
         electrons = int((adc-1) * gain * 255/float(theStackADC_-1));
       }
       }
     }
   
   return electrons;
 }

void Phase2ITPixelThresholdClusterizer::clear_buffer	(	DigiIterator	begin,
		DigiIterator	end
	)

private

Clear the internal buffer array.

Pixels which are not part of recognized clusters are NOT ERASED during the cluster finding. Erase them now.

TO DO: ask Danek... wouldn't it be faster to simply memcopy() zeros into the whole buffer array?

Definition at line 172 of file Phase2ITPixelThresholdClusterizer.cc.

References end.

 {
   for(DigiIterator di = begin; di != end; ++di ) 
     {
       theBuffer.set_adc( di->row(), di->column(), 0 );   // reset pixel adc to 0
     }
 }

void Phase2ITPixelThresholdClusterizer::clusterizeDetUnit	(	const edm::DetSet< PixelDigi > &	input,
		const PixelGeomDetUnit *	pixDet,
		const std::vector< short > &	badChannels,
		edmNew::DetSetVector< Phase2ITPixelCluster >::FastFiller &	output
	)

virtual

Cluster pixels. This method operates on a matrix of pixels and finds the largest contiguous cluster around each seed pixel. Input and output data stored in DetSet.

Implements Phase2ITPixelClusterizerBase.

Definition at line 112 of file Phase2ITPixelThresholdClusterizer.cc.

References begin, edm::DetSet< T >::begin(), Phase2ITPixelCluster::charge(), edm::DetSet< T >::detId(), end, edm::DetSet< T >::end(), mps_fire::i, eostools::move(), edmNew::DetSetVector< T >::FastFiller::push_back(), and GeneralSetup::setup().

                                                                                                                {
   
   DigiIterator begin = input.begin();
   DigiIterator end   = input.end();
   
   // Do not bother for empty detectors
   //if (begin == end) cout << " Phase2ITPixelThresholdClusterizer::clusterizeDetUnit - No digis to clusterize";
   
   //  Set up the clusterization on this DetId.
   if ( !setup(pixDet) ) 
     return;
   
   detid_ = input.detId();
   
   //  Copy PixelDigis to the buffer array; select the seed pixels
   //  on the way, and store them in theSeeds.
   copy_to_buffer(begin, end);
   
   //  Loop over all seeds.  TO DO: wouldn't using iterators be faster?
   //  edm::LogError("Phase2ITPixelThresholdClusterizer") <<  "Starting clusterizing" << endl;
   for (unsigned int i = 0; i < theSeeds.size(); i++) 
     {
       
       // Gavril : The charge of seeds that were already inlcuded in clusters is set to 1 electron
       // so we don't want to call "make_cluster" for these cases 
       if ( theBuffer(theSeeds[i]) >= theSeedThreshold ) 
     {  // Is this seed still valid?
       //  Make a cluster around this seed
       Phase2ITPixelCluster && cluster = make_cluster( theSeeds[i] , output);
       
       //  Check if the cluster is above threshold  
       // (TO DO: one is signed, other unsigned, gcc warns...)
       if ( cluster.charge() >= theClusterThreshold) 
         {
           // std::cout << "putting in this cluster " << i << " " << cluster.charge() << " " << cluster.pixelADC().size() << endl;
           output.push_back( std::move(cluster) );
         }
     }
     }
   
   // Erase the seeds.
   theSeeds.clear();
   
   //  Need to clean unused pixels from the buffer array.
   clear_buffer(begin, end);
   
 }

void Phase2ITPixelThresholdClusterizer::copy_to_buffer	(	DigiIterator	begin,
		DigiIterator	end
	)

private

Copy adc counts from PixelDigis into the buffer, identify seeds.

Definition at line 183 of file Phase2ITPixelThresholdClusterizer.cc.

References ecalMGPA::adc(), begin, cuy::col, metsig::electron, end, muonCSCDigis_cfi::gain, mps_fire::i, recoMuon::in, createfilelist::int, PXBDetId::layer(), muonCSCDigis_cfi::pedestal, and DetId::subdetId().

 {
 #ifdef PIXELREGRESSION
   static std::atomic<int> s_ic=0;
   in ic = ++s_ic;
   if (ic==1) {
     // std::cout << (doMissCalibrate ? "VI from db" : "VI linear") << std::endl;
   }
 #endif
   int electron[end-begin];
   if ( doMissCalibrate ) {
     (*theSiPixelGainCalibrationService_).calibrate(detid_,begin,end,theConversionFactor, theOffset,electron);
   } else {
     int layer = (DetId(detid_).subdetId()==1) ? PXBDetId(detid_).layer() : 0;
     int i=0;
     for(DigiIterator di = begin; di != end; ++di) {
       auto adc = di->adc();
       const float gain = 135.; // 1 ADC = 135 electrons
       const float pedestal = 0.; //
       electron[i] = int(adc * gain + pedestal);
       if (layer>=theFirstStack_) {
     if (theStackADC_==1&&adc==1) {
       electron[i] = int(255*135); // Arbitrarily use overflow value.
     }
     if (theStackADC_>1&&theStackADC_!=255&&adc>=1){
       const float gain = 135.; // 1 ADC = 135 electrons
       electron[i] = int((adc-1) * gain * 255/float(theStackADC_-1));
     }
       }
       ++i;
     }
     assert(i==(end-begin));
   }
 
   int i=0;
 #ifdef PIXELREGRESSION
   static std::atomic<int> eqD=0;
 #endif
   for(DigiIterator di = begin; di != end; ++di) {
     int row = di->row();
     int col = di->column();
     int adc = electron[i++];
 #ifdef PIXELREGRESSION
     int adcOld = calibrate(di->adc(),col,row);
     //assert(adc==adcOld);
     if (adc!=adcOld) {
       LogWarning("Phase2ITPixelThresholdClusterizer") << eqD  <<' '<< ic  <<' '<< end-begin <<' '<< i <<' '<< di->adc() <<' ' << adc <<' '<< adcOld;
     }  else { 
       ++eqD;
     }
 
 #endif
     if ( adc >= thePixelThreshold) {
       theBuffer.set_adc( row, col, adc);
       if ( adc >= theSeedThreshold) theSeeds.push_back( Phase2ITPixelCluster::PixelPos(row,col) );
     }
   }
   assert(i==(end-begin));
 
 }

Phase2ITPixelCluster Phase2ITPixelThresholdClusterizer::make_cluster	(	const Phase2ITPixelCluster::PixelPos &	pix,
		edmNew::DetSetVector< Phase2ITPixelCluster >::FastFiller &	output
	)

private

The actual clustering algorithm: group the neighboring pixels around the seed.

Definition at line 353 of file Phase2ITPixelThresholdClusterizer.cc.

References Phase2ITPixelCluster::add(), EnergyCorrector::c, Phase2ITPixelCluster::charge(), Phase2ITPixelCluster::PixelPos::col(), mps_fire::i, hpstanc_transforms::max, min(), Phase2ITPixelCluster::pixels(), edmNew::DetSetVector< T >::FastFiller::push_back(), alignCSCRings::r, and Phase2ITPixelCluster::PixelPos::row().

 {
   
   //First we acquire the seeds for the clusters
   int seed_adc;
   stack<Phase2ITPixelCluster::PixelPos, vector<Phase2ITPixelCluster::PixelPos> > dead_pixel_stack;
   
   //The individual modules have been loaded into a buffer.
   //After each pixel has been considered by the clusterizer, we set the adc count to 1
   //to mark that we have already considered it.
   //The only difference between dead/noisy pixels and standard ones is that for dead/noisy pixels,
   //We consider the charge of the pixel to always be zero.
 
   seed_adc = theBuffer(pix.row(), pix.col());
   theBuffer.set_adc( pix, 1);
   
   AccretionCluster acluster;
   acluster.add(pix, seed_adc);
   
   //Here we search all pixels adjacent to all pixels in the cluster.
   bool dead_flag = false;
   while ( ! acluster.empty()) 
     {
       //This is the standard algorithm to find and add a pixel
       auto curInd = acluster.top(); acluster.pop();
       for ( auto c = std::max(0,int(acluster.y[curInd])-1); c < std::min(int(acluster.y[curInd])+2,theBuffer.columns()) ; ++c) {
     for ( auto r = std::max(0,int(acluster.x[curInd])-1); r < std::min(int(acluster.x[curInd])+2,theBuffer.rows()); ++r)  {
       if ( theBuffer(r,c) >= thePixelThreshold) {
         Phase2ITPixelCluster::PixelPos newpix(r,c);
         if (!acluster.add( newpix, theBuffer(r,c))) goto endClus;
         theBuffer.set_adc( newpix, 1);
       }
          
 
           /* //Commenting out the addition of dead pixels to the cluster until further testing -- dfehling 06/09
           //Check on the bounds of the module; this is to keep the isDead and isNoisy modules from returning errors 
           else if(r>= 0 && c >= 0 && (r <= (theNumOfRows-1.)) && (c <= (theNumOfCols-1.))){ 
           //Check for dead/noisy pixels check that the buffer is not -1 (already considered).  Check whether we want to split clusters separated by dead pixels or not.
           if((theSiPixelGainCalibrationService_->isDead(detid_,c,r) || theSiPixelGainCalibrationService_->isNoisy(detid_,c,r)) && theBuffer(r,c) != 1){
           
           //If a pixel is dead or noisy, check to see if we want to split the clusters or not.  
           //Push it into a dead pixel stack in case we want to split the clusters.  Otherwise add it to the cluster.
           //If we are splitting the clusters, we will iterate over the dead pixel stack later.
           
           Phase2ITPixelCluster::PixelPos newpix(r,c);
           if(!doSplitClusters){
           
           cluster.add(newpix, theBuffer(r,c));}
           else if(doSplitClusters){
           dead_pixel_stack.push(newpix);
           dead_flag = true;}
           
           theBuffer.set_adc(newpix, 1);
           } 
           
           }
           */
         
 
 
         }
     }
       
     }  // while accretion
  endClus:
   Phase2ITPixelCluster cluster(acluster.isize,acluster.adc, acluster.x,acluster.y, acluster.xmin,acluster.ymin);
   //Here we split the cluster, if the flag to do so is set and we have found a dead or noisy pixel.
   
   if (dead_flag && doSplitClusters) 
     {
       //Set the first cluster equal to the existing cluster.
       Phase2ITPixelCluster first_cluster = cluster;
       bool have_second_cluster = false;
       while ( !dead_pixel_stack.empty() )
     {
       //consider each found dead pixel
       Phase2ITPixelCluster::PixelPos deadpix = dead_pixel_stack.top(); dead_pixel_stack.pop();
       theBuffer.set_adc(deadpix, 1);
      
       //Clusterize the split cluster using the dead pixel as a seed
       Phase2ITPixelCluster second_cluster = make_cluster(deadpix, output);
       
       //If both clusters would normally have been found by the clusterizer, put them into output
       if ( second_cluster.charge() >= theClusterThreshold && 
            first_cluster.charge() >= theClusterThreshold )
         {
           output.push_back( second_cluster );
           have_second_cluster = true;   
         }
       
       //We also want to keep the merged cluster in data and let the RecHit algorithm decide which set to keep
       //This loop adds the second cluster to the first.
       const std::vector<Phase2ITPixelCluster::Pixel>& branch_pixels = second_cluster.pixels();
       for ( unsigned int i = 0; i<branch_pixels.size(); i++)
         {
           int temp_x = branch_pixels[i].x;
           int temp_y = branch_pixels[i].y;
           int temp_adc = branch_pixels[i].adc;
           Phase2ITPixelCluster::PixelPos newpix(temp_x, temp_y);
           cluster.add(newpix, temp_adc);}
     }
       
       //Remember to also add the first cluster if we added the second one.
       if ( first_cluster.charge() >= theClusterThreshold && have_second_cluster) 
     {
       output.push_back( first_cluster );
     }
     }
   
   return cluster;
 }

bool Phase2ITPixelThresholdClusterizer::setup ( const PixelGeomDetUnit * pixDet )

private

Private helper methods:

Prepare the Clusterizer to work on a particular DetUnit. Re-init the size of the panel/plaquette (so update nrows and ncols),

Definition at line 78 of file Phase2ITPixelThresholdClusterizer.cc.

References trackingPlots::ncols, PixelTopology::ncolumns(), PixelTopology::nrows(), and PixelGeomDetUnit::specificTopology().

 {
   // Cache the topology.
   const PixelTopology & topol = pixDet->specificTopology();
   
   // Get the new sizes.
   int nrows = topol.nrows();      // rows in x
   int ncols = topol.ncolumns();   // cols in y
   
   theNumOfRows = nrows;  // Set new sizes
   theNumOfCols = ncols;
   
   if ( nrows > theBuffer.rows() || 
        ncols > theBuffer.columns() ) 
     { // change only when a larger is needed
       //if( nrows != theNumOfRows || ncols != theNumOfCols ) {
       //cout << " Phase2ITPixelThresholdClusterizer: pixel buffer redefined to " 
       // << nrows << " * " << ncols << endl;      
       //theNumOfRows = nrows;  // Set new sizes
       //theNumOfCols = ncols;
       // Resize the buffer
       theBuffer.setSize(nrows,ncols);  // Modify
       bufferAlreadySet = true;
     }
   
   return true;   
 }