| 1 | /* ======================================================================== *\
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| 2 | !
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| 3 | ! *
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| 4 | ! * This file is part of MARS, the MAGIC Analysis and Reconstruction
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| 5 | ! * Software. It is distributed to you in the hope that it can be a useful
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| 6 | ! * and timesaving tool in analysing Data of imaging Cerenkov telescopes.
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| 7 | ! * It is distributed WITHOUT ANY WARRANTY.
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| 8 | ! *
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| 9 | ! * Permission to use, copy, modify and distribute this software and its
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| 10 | ! * documentation for any purpose is hereby granted without fee,
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| 11 | ! * provided that the above copyright notice appear in all copies and
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| 12 | ! * that both that copyright notice and this permission notice appear
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| 13 | ! * in supporting documentation. It is provided "as is" without express
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| 14 | ! * or implied warranty.
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| 15 | ! *
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| 16 | !
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| 17 | !
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| 18 | ! Author(s): Oscar Blanch 12/2001 <mailto:blanch@ifae.es>
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| 19 | ! Author(s): Thomas Bretz 08/2002 <mailto:tbretz@astro.uni.wuerzburg.de>
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| 20 | !
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| 21 | ! Copyright: MAGIC Software Development, 2000-2003
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| 22 | !
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| 23 | !
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| 24 | \* ======================================================================== */
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| 25 |
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| 26 | /////////////////////////////////////////////////////////////////////////////
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| 27 | //
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| 28 | // MBadPixelsTreat
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| 29 | //
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| 30 | // You can use MBadPixelsTreat::SetUseInterpolation to replaced the
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| 31 | // bad pixels by the average of its neighbors instead of unmapping
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| 32 | // them. If you want to include the central pixel use
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| 33 | // MBadPixelsTreat::SetUseCentralPixel. The bad pixels are taken from
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| 34 | // an existing MBadPixelsCam.
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| 35 | //
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| 36 | // It check if there are enough neighbors to calculate the mean
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| 37 | // If not, unmap the pixel. The minimum number of good neighbors
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| 38 | // should be set using SetNumMinNeighbors
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| 39 | //
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| 40 | // Input Containers:
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| 41 | // MCerPhotEvt
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| 42 | // MPedPhotCam
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| 43 | // MBadPixelsCam
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| 44 | // [MGeomCam]
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| 45 | //
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| 46 | // Output Containers:
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| 47 | // MCerPhotEvt
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| 48 | //
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| 49 | /////////////////////////////////////////////////////////////////////////////
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| 50 | #include "MBadPixelsTreat.h"
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| 51 |
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| 52 | #include <fstream>
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| 53 |
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| 54 | #include <TArrayD.h>
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| 55 |
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| 56 | #include "MLog.h"
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| 57 | #include "MLogManip.h"
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| 58 |
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| 59 | #include "MParList.h"
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| 60 |
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| 61 | #include "MGeomPix.h"
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| 62 | #include "MGeomCam.h"
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| 63 |
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| 64 | #include "MCerPhotPix.h"
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| 65 | #include "MCerPhotEvt.h"
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| 66 |
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| 67 | #include "MPedPhotPix.h"
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| 68 | #include "MPedPhotCam.h"
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| 69 |
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| 70 | #include "MBadPixelsPix.h"
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| 71 | #include "MBadPixelsCam.h"
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| 72 |
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| 73 | ClassImp(MBadPixelsTreat);
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| 74 |
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| 75 | using namespace std;
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| 76 |
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| 77 | static const TString gsDefName = "MBadPixelsTreat";
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| 78 | static const TString gsDefTitle = "Task to treat bad pixels (interpolation, unmapping)";
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| 79 |
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| 80 | // --------------------------------------------------------------------------
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| 81 | //
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| 82 | // Default constructor.
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| 83 | //
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| 84 | MBadPixelsTreat::MBadPixelsTreat(const char *name, const char *title)
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| 85 | : fFlags(0), fNumMinNeighbors(3)
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| 86 | {
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| 87 | fName = name ? name : gsDefName.Data();
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| 88 | fTitle = title ? title : gsDefTitle.Data();
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| 89 | }
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| 90 |
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| 91 | // --------------------------------------------------------------------------
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| 92 | //
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| 93 | // - Try to find or create MBlindPixels in parameter list.
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| 94 | // - get the MCerPhotEvt from the parlist (abort if missing)
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| 95 | // - if no pixels are given by the user try to determin the starfield
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| 96 | // from the monte carlo run header.
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| 97 | //
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| 98 | Int_t MBadPixelsTreat::PreProcess (MParList *pList)
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| 99 | {
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| 100 | fBadPixels = (MBadPixelsCam*)pList->FindObject(AddSerialNumber("MBadPixelsCam"));
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| 101 | if (!fBadPixels)
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| 102 | {
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| 103 | *fLog << err << "MBadPixelsCam not found... aborting." << endl;
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| 104 | return kFALSE;
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| 105 | }
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| 106 |
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| 107 | fPedPhot = (MPedPhotCam*)pList->FindObject(AddSerialNumber("MPedPhotCam"));
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| 108 | if (!fPedPhot)
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| 109 | {
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| 110 | *fLog << err << "MPedPhotCam not found... aborting." << endl;
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| 111 | return kFALSE;
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| 112 | }
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| 113 |
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| 114 | fEvt = (MCerPhotEvt*)pList->FindObject(AddSerialNumber("MCerPhotEvt"));
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| 115 | if (!fEvt)
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| 116 | {
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| 117 | *fLog << err << "MCerPhotEvt not found... aborting." << endl;
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| 118 | return kFALSE;
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| 119 | }
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| 120 |
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| 121 | fGeomCam = (MGeomCam*)pList->FindObject(AddSerialNumber("MGeomCam"));
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| 122 | if (!fGeomCam && TESTBIT(fFlags, kUseInterpolation))
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| 123 | {
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| 124 | *fLog << err << "MGeomCam not found... can't use interpolation." << endl;
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| 125 | return kFALSE;
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| 126 | }
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| 127 |
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| 128 | return kTRUE;
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| 129 | }
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| 130 |
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| 131 | // --------------------------------------------------------------------------
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| 132 | //
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| 133 | // Replaces each pixel (signal, signal error, pedestal, pedestal rms)
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| 134 | // by the average of its surrounding pixels.
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| 135 | // If TESTBIT(fFlags, kUseCentralPixel) is set the central pixel is also
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| 136 | // included.
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| 137 | //
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| 138 | void MBadPixelsTreat::InterpolateSignal() const
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| 139 | {
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| 140 | const UShort_t entries = fGeomCam->GetNumPixels();
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| 141 |
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| 142 | //
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| 143 | // Create arrays (FIXME: Check if its possible to create it only once)
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| 144 | //
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| 145 | TArrayD nphot(entries);
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| 146 | TArrayD perr(entries);
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| 147 |
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| 148 | //
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| 149 | // Loop over all pixels
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| 150 | //
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| 151 | for (UShort_t i=0; i<entries; i++)
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| 152 | {
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| 153 | MCerPhotPix *pix = fEvt->GetPixById(i);
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| 154 |
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| 155 | //
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| 156 | // Check whether pixel with idx i is blind
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| 157 | //
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| 158 | if (pix && (*fBadPixels)[i].IsOK())
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| 159 | continue;
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| 160 |
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| 161 | //
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| 162 | // Get a pointer to this pixel. If it is not yet existing
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| 163 | // create a new entry for this pixel in MCerPhotEvt
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| 164 | //
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| 165 | if (!pix)
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| 166 | {
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| 167 | pix = fEvt->AddPixel(i, 0, 0);
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| 168 | (*fBadPixels)[i].SetUnsuitable(MBadPixelsPix::kUnsuitableEvt);
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| 169 | }
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| 170 |
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| 171 | //
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| 172 | // Get the corresponding geometry and pedestal
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| 173 | //
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| 174 | const MGeomPix &gpix = (*fGeomCam)[i];
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| 175 |
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| 176 | // Do Not-Use-Central-Pixel
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| 177 | const Bool_t nucp = !TESTBIT(fFlags, kUseCentralPixel);
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| 178 |
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| 179 | Int_t num = nucp ? 0 : 1;
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| 180 |
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| 181 | nphot[i] = nucp ? 0 : pix->GetNumPhotons();
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| 182 | perr[i] = nucp ? 0 : Pow2(pix->GetErrorPhot());
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| 183 |
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| 184 | //
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| 185 | // The values are rescaled to the small pixels area for the right comparison
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| 186 | //
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| 187 | const Double_t ratio = fGeomCam->GetPixRatio(i);
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| 188 |
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| 189 | nphot[i] *= ratio;
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| 190 | perr[i] *= ratio;
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| 191 |
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| 192 | //
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| 193 | // Loop over all its neighbors
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| 194 | //
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| 195 | const Int_t n = gpix.GetNumNeighbors();
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| 196 | for (int j=0; j<n; j++)
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| 197 | {
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| 198 | const UShort_t nidx = gpix.GetNeighbor(j);
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| 199 |
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| 200 | //
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| 201 | // Do not use blind neighbors
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| 202 | //
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| 203 | if ((*fBadPixels)[i].IsBad())
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| 204 | continue;
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| 205 |
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| 206 | //
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| 207 | // Check whether the neighbor has a signal stored
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| 208 | //
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| 209 | const MCerPhotPix *evtpix = fEvt->GetPixById(nidx);
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| 210 | if (!evtpix)
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| 211 | continue;
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| 212 |
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| 213 | //
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| 214 | // Get the geometry for the neighbor
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| 215 | //
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| 216 | const Double_t nratio = fGeomCam->GetPixRatio(nidx);
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| 217 |
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| 218 | //
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| 219 | //The error is calculated as the quadratic sum of the errors
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| 220 | //
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| 221 | nphot[i] += nratio*evtpix->GetNumPhotons();
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| 222 | perr[i] += nratio* Pow2(evtpix->GetErrorPhot());
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| 223 |
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| 224 | num++;
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| 225 | }
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| 226 |
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| 227 | //
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| 228 | // Now the mean is calculated and the values rescaled back
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| 229 | // to the pixel area
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| 230 | //
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| 231 | nphot[i] /= (num*ratio);
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| 232 | perr[i] = TMath::Sqrt(perr[i]/(num*ratio));
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| 233 |
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| 234 | // Check if there are enough neighbors to calculate the mean
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| 235 | // If not, unmap the pixel. The maximum number of blind neighbors
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| 236 | // should be 2
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| 237 | if (num<fNumMinNeighbors)
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| 238 | {
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| 239 | pix->SetPixelUnmapped();
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| 240 | continue;
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| 241 | }
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| 242 |
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| 243 | pix->Set(nphot[i], perr[i]);
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| 244 | }
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| 245 | }
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| 246 |
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| 247 | // --------------------------------------------------------------------------
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| 248 | //
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| 249 | void MBadPixelsTreat::InterpolatePedestals() const
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| 250 | {
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| 251 | const Int_t entries = fPedPhot->GetSize();
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| 252 |
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| 253 | // Create arrays (FIXME: Check if its possible to create it only once)
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| 254 | TArrayD ped(entries);
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| 255 | TArrayD rms(entries);
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| 256 |
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| 257 | //
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| 258 | // Loop over all pixels
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| 259 | //
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| 260 | for (UShort_t i=0; i<entries; i++)
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| 261 | {
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| 262 | //
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| 263 | // Check whether pixel with idx i is blind
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| 264 | //
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| 265 | if ((*fBadPixels)[i].IsOK())
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| 266 | continue;
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| 267 |
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| 268 | //
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| 269 | // Get the corresponding geometry and pedestal
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| 270 | //
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| 271 | const MGeomPix &gpix = (*fGeomCam)[i];
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| 272 | const MPedPhotPix &ppix = (*fPedPhot)[i];
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| 273 |
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| 274 | // Do Not-Use-Central-Pixel
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| 275 | const Bool_t nucp = !TESTBIT(fFlags, kUseCentralPixel);
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| 276 |
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| 277 | Int_t num = nucp ? 0 : 1;
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| 278 |
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| 279 | ped[i] = nucp ? 0 : ppix.GetMean();
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| 280 | rms[i] = nucp ? 0 : Pow2(ppix.GetRms());
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| 281 |
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| 282 | //
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| 283 | // The values are rescaled to the small pixels area for the right comparison
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| 284 | //
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| 285 | const Double_t ratio = fGeomCam->GetPixRatio(i);
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| 286 |
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| 287 | ped[i] *= ratio;
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| 288 | rms[i] *= ratio;
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| 289 |
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| 290 | //
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| 291 | // Loop over all its neighbors
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| 292 | //
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| 293 | const Int_t n = gpix.GetNumNeighbors();
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| 294 | for (int j=0; j<n; j++)
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| 295 | {
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| 296 | const UShort_t nidx = gpix.GetNeighbor(j);
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| 297 |
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| 298 | //
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| 299 | // Do not use blind neighbors
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| 300 | //
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| 301 | if ((*fBadPixels)[i].IsBad())
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| 302 | continue;
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| 303 |
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| 304 | //
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| 305 | // Get the geometry for the neighbor
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| 306 | //
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| 307 | const Double_t nratio = fGeomCam->GetPixRatio(nidx);
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| 308 | const MPedPhotPix &nppix = (*fPedPhot)[nidx];
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| 309 |
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| 310 | //
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| 311 | //The error is calculated as the quadratic sum of the errors
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| 312 | //
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| 313 | ped[i] += nratio*nppix.GetMean();
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| 314 | rms[i] += nratio*Pow2(nppix.GetRms());
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| 315 |
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| 316 | num++;
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| 317 | }
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| 318 |
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| 319 | // Check if there are enough neighbors to calculate the mean
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| 320 | // If not, unmap the pixel. The minimum number of good neighbors
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| 321 | // should be fNumMinNeighbors
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| 322 | if (num < fNumMinNeighbors)
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| 323 | {
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| 324 | MCerPhotPix *pix =fEvt->GetPixById(i);
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| 325 | if (!pix)
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| 326 | pix = fEvt->AddPixel(i, 0, 0);
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| 327 | pix->SetPixelUnmapped();
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| 328 | continue;
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| 329 | }
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| 330 |
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| 331 | //
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| 332 | // Now the mean is calculated and the values rescaled back
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| 333 | // to the pixel area
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| 334 | //
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| 335 | ped[i] /= (num*ratio);
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| 336 | rms[i] = TMath::Sqrt(rms[i]/(num*ratio));
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| 337 |
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| 338 | (*fPedPhot)[i].Set(ped[i], rms[i]);
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| 339 | }
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| 340 | }
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| 341 |
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| 342 | // --------------------------------------------------------------------------
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| 343 | //
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| 344 | // Replaces each pixel (signal, signal error, pedestal, pedestal rms)
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| 345 | // by the average of its surrounding pixels.
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| 346 | // If TESTBIT(fFlags, kUseCentralPixel) is set the central pixel is also
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| 347 | // included.
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| 348 | //
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| 349 | // NT: Informations about the interpolated pedestals are added.
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| 350 | // When the option Interpolated is called, the blind pixel with the new
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| 351 | // values of signal and fluttuation is included in the calculation of
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| 352 | // the Image Parameters.
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| 353 | //
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| 354 | /*
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| 355 | void MBadPixelsTreat::Interpolate() const
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| 356 | {
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| 357 | const UShort_t entries = fGeomCam->GetNumPixels();
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| 358 |
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| 359 | //
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| 360 | // Create arrays
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| 361 | //
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| 362 | TArrayD nphot(entries);
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| 363 | TArrayD perr(entries);
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| 364 | TArrayD ped(entries);
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| 365 | TArrayD pedrms(entries);
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| 366 |
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| 367 | //
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| 368 | // Loop over all pixels
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| 369 | //
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| 370 | for (UShort_t i=0; i<entries; i++)
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| 371 | {
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| 372 | MCerPhotPix *pix = fEvt->GetPixById(i);
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| 373 |
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| 374 | //
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| 375 | // Check whether pixel with idx i is blind
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| 376 | //
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| 377 | if (pix && (*fBadPixels)[i].IsOK())
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| 378 | continue;
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| 379 |
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| 380 | //
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| 381 | // Get a pointer to this pixel. If it is not yet existing
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| 382 | // create a new entry for this pixel in MCerPhotEvt
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| 383 | //
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| 384 | if (!pix)
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| 385 | {
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| 386 | pix = fEvt->AddPixel(i, 0, 0);
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| 387 | (*fBadPixels)[i].SetUnsuitable(MBadPixelsPix::kUnsuitableEvt);
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| 388 | }
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| 389 |
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| 390 | //
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| 391 | // Get the corresponding geometry and pedestal
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| 392 | //
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| 393 | const MGeomPix &gpix = (*fGeomCam)[i];
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| 394 | const MPedPhotPix &ppix = (*fPedPhot)[i];
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| 395 |
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| 396 | // Do Not-Use-Central-Pixel
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| 397 | const Bool_t nucp = !TESTBIT(fFlags, kUseCentralPixel);
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| 398 |
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| 399 | Int_t num = nucp ? 0 : 1;
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| 400 |
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| 401 | nphot[i] = nucp ? 0 : pix->GetNumPhotons();
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| 402 | ped[i] = nucp ? 0 : ppix.GetMean();
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| 403 | perr[i] = nucp ? 0 : Pow2(pix->GetErrorPhot());
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| 404 | pedrms[i] = nucp ? 0 : Pow2(ppix.GetRms());
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| 405 |
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| 406 | //
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| 407 | // The values are rescaled to the small pixels area for the right comparison
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| 408 | //
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| 409 | const Double_t ratio = fGeomCam->GetPixRatio(i);
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| 410 |
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| 411 | if (nucp)
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| 412 | {
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| 413 | nphot[i] *= ratio;
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| 414 | perr[i] *= ratio;
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| 415 | ped[i] *= ratio;
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| 416 | pedrms[i] *= ratio;
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| 417 | }
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| 418 |
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| 419 | //
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| 420 | // Loop over all its neighbors
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| 421 | //
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| 422 | const Int_t n = gpix.GetNumNeighbors();
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| 423 | for (int j=0; j<n; j++)
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| 424 | {
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| 425 | const UShort_t nidx = gpix.GetNeighbor(j);
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| 426 |
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| 427 | //
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| 428 | // Do not use blind neighbors
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| 429 | //
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| 430 | if ((*fBadPixels)[nidx].IsBad())
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| 431 | continue;
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| 432 |
|
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| 433 | //
|
|---|
| 434 | // Check whether the neighbor has a signal stored
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|---|
| 435 | //
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|---|
| 436 | const MCerPhotPix *evtpix = fEvt->GetPixById(nidx);
|
|---|
| 437 | if (!evtpix)
|
|---|
| 438 | continue;
|
|---|
| 439 |
|
|---|
| 440 | //
|
|---|
| 441 | // Get the geometry for the neighbor
|
|---|
| 442 | //
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|---|
| 443 | const Double_t nratio = fGeomCam->GetPixRatio(nidx);
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| 444 | MPedPhotPix &nppix = (*fPedPhot)[nidx];
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| 445 |
|
|---|
| 446 | //
|
|---|
| 447 | // The error is calculated as the quadratic sum of the errors
|
|---|
| 448 | //
|
|---|
| 449 | nphot[i] += nratio*evtpix->GetNumPhotons();
|
|---|
| 450 | ped[i] += nratio*nppix.GetMean();
|
|---|
| 451 | perr[i] += nratio*Pow2(evtpix->GetErrorPhot());
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|---|
| 452 | pedrms[i] += nratio*Pow2(nppix.GetRms());
|
|---|
| 453 |
|
|---|
| 454 | num++;
|
|---|
| 455 | }
|
|---|
| 456 |
|
|---|
| 457 | if (num<fNumMinNeighbors)
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|---|
| 458 | {
|
|---|
| 459 | pix->SetPixelUnmapped();
|
|---|
| 460 | nphot[i] = 0;
|
|---|
| 461 | ped[i] = 0;
|
|---|
| 462 | perr[i] = 0;
|
|---|
| 463 | pedrms[i] = 0;
|
|---|
| 464 | continue;
|
|---|
| 465 | }
|
|---|
| 466 |
|
|---|
| 467 | //
|
|---|
| 468 | // Now the mean is calculated and the values rescaled back to the pixel area
|
|---|
| 469 | //
|
|---|
| 470 | nphot[i] /= num*ratio;
|
|---|
| 471 | ped[i] /= num*ratio;
|
|---|
| 472 | perr[i] = TMath::Sqrt(perr[i]/(num*ratio));
|
|---|
| 473 | pedrms[i] = TMath::Sqrt(pedrms[i]/(num*ratio));
|
|---|
| 474 |
|
|---|
| 475 | }
|
|---|
| 476 |
|
|---|
| 477 | //
|
|---|
| 478 | // Now the new pixel values are calculated and can be replaced in
|
|---|
| 479 | // the corresponding containers
|
|---|
| 480 | //
|
|---|
| 481 | for (UShort_t i=0; i<entries; i++)
|
|---|
| 482 | {
|
|---|
| 483 | //
|
|---|
| 484 | // Do not use blind neighbors
|
|---|
| 485 | //
|
|---|
| 486 | if ((*fBadPixels)[i].IsOK())
|
|---|
| 487 | continue;
|
|---|
| 488 |
|
|---|
| 489 | //
|
|---|
| 490 | // It must exist, we have created it in the loop before.
|
|---|
| 491 | //
|
|---|
| 492 | fEvt->GetPixById(i)->Set(nphot[i], perr[i]);
|
|---|
| 493 | (*fPedPhot)[i].Set(ped[i], pedrms[i]);
|
|---|
| 494 | }
|
|---|
| 495 | }
|
|---|
| 496 | */
|
|---|
| 497 |
|
|---|
| 498 | // --------------------------------------------------------------------------
|
|---|
| 499 | //
|
|---|
| 500 | // Removes all blind pixels from the analysis by setting their state
|
|---|
| 501 | // to unused.
|
|---|
| 502 | //
|
|---|
| 503 | void MBadPixelsTreat::Unmap() const
|
|---|
| 504 | {
|
|---|
| 505 | const UShort_t entries = fEvt->GetNumPixels();
|
|---|
| 506 |
|
|---|
| 507 | //
|
|---|
| 508 | // remove the pixels in fPixelsIdx if they are set to be used,
|
|---|
| 509 | // (set them to 'unused' state)
|
|---|
| 510 | //
|
|---|
| 511 | for (UShort_t i=0; i<entries; i++)
|
|---|
| 512 | {
|
|---|
| 513 | MCerPhotPix &pix = (*fEvt)[i];
|
|---|
| 514 |
|
|---|
| 515 | if ((*fBadPixels)[pix.GetPixId()].IsBad())
|
|---|
| 516 | pix.SetPixelUnmapped();
|
|---|
| 517 | }
|
|---|
| 518 | }
|
|---|
| 519 |
|
|---|
| 520 | // --------------------------------------------------------------------------
|
|---|
| 521 | //
|
|---|
| 522 | // Interpolate Pedestals if kProcessRMS not set
|
|---|
| 523 | //
|
|---|
| 524 | Bool_t MBadPixelsTreat::ReInit(MParList *pList)
|
|---|
| 525 | {
|
|---|
| 526 | if (!TESTBIT(fFlags, kProcessRMS))
|
|---|
| 527 | InterpolatePedestals();
|
|---|
| 528 | return kTRUE;
|
|---|
| 529 | }
|
|---|
| 530 |
|
|---|
| 531 | // --------------------------------------------------------------------------
|
|---|
| 532 | //
|
|---|
| 533 | // Treat the blind pixels
|
|---|
| 534 | //
|
|---|
| 535 | Int_t MBadPixelsTreat::Process()
|
|---|
| 536 | {
|
|---|
| 537 | if (TESTBIT(fFlags, kUseInterpolation) && fGeomCam)
|
|---|
| 538 | {
|
|---|
| 539 | InterpolateSignal();
|
|---|
| 540 | if (TESTBIT(fFlags, kProcessRMS))
|
|---|
| 541 | InterpolatePedestals();
|
|---|
| 542 | }
|
|---|
| 543 | else
|
|---|
| 544 | Unmap();
|
|---|
| 545 |
|
|---|
| 546 | return kTRUE;
|
|---|
| 547 | }
|
|---|
| 548 |
|
|---|
| 549 | void MBadPixelsTreat::StreamPrimitive(ofstream &out) const
|
|---|
| 550 | {
|
|---|
| 551 | out << " MBadPixelsTreat " << GetUniqueName();
|
|---|
| 552 | if (fName!=gsDefName || fTitle!=gsDefTitle)
|
|---|
| 553 | {
|
|---|
| 554 | out << "(\"" << fName << "\"";
|
|---|
| 555 | if (fTitle!=gsDefTitle)
|
|---|
| 556 | out << ", \"" << fTitle << "\"";
|
|---|
| 557 | out <<")";
|
|---|
| 558 | }
|
|---|
| 559 | out << ";" << endl;
|
|---|
| 560 |
|
|---|
| 561 | if (TESTBIT(fFlags, kUseInterpolation))
|
|---|
| 562 | out << " " << GetUniqueName() << ".SetUseInterpolation();" << endl;
|
|---|
| 563 | if (TESTBIT(fFlags, kUseCentralPixel))
|
|---|
| 564 | out << " " << GetUniqueName() << ".SetUseCentralPixel();" << endl;
|
|---|
| 565 | }
|
|---|
