396 lines
19 KiB
Python
396 lines
19 KiB
Python
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import os
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import numpy as np
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from ROOT import TH1D, TH2D, TCanvas, TF1, TFile
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from multiprocessing import Pool
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from array import array
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import h5py
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from multiprocessing import Pool
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import aare
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_cfg = {} ### global config
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_aduToKev3DMap = None ### global caliFile
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_pedestalAduFrame = None ### global pedestalAduFrame
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_noiseEneFrame = None ### global noiseEneFrame
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nChunks = 16
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clusterSize2Photon = 7
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def init(cfg):
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global _cfg
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global _aduToKev3DMap
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_cfg = cfg
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_aduToKev3DMap = cfg['caliFile']
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Roi = cfg['Roi']
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global nChunks
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nChunks = _cfg.get('NChunks', 16)
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def convertAduFrameToEnergyFrame(aduFrame):
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if _aduToKev3DMap is None:
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return aduFrame
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NX, NY = _cfg['NX'], _cfg['NY']
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if _aduToKev3DMap.shape[0] == 1640:
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idxFrame = (np.abs(aduFrame//10)).astype(np.int32)
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idxFrame[idxFrame > _aduToKev3DMap.shape[0]-2] = _aduToKev3DMap.shape[0]-2
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NY, NX = _aduToKev3DMap.shape[1:3]
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_energyFrame0 = _aduToKev3DMap[idxFrame, np.arange(NY).reshape(-1, 1), np.arange(NX)]
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_energyFrame1 = _aduToKev3DMap[idxFrame+1, np.arange(NY).reshape(-1, 1), np.arange(NX)]
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energyFrame = _energyFrame0 + (_energyFrame1 - _energyFrame0)/10 * (np.abs(aduFrame) - idxFrame*10)
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energyFrame *= np.sign(aduFrame)
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else:
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aduPerBin = 10
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nExtraBins = 1000 // aduPerBin
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idxFrame = (aduFrame//aduPerBin).astype(np.int32) + nExtraBins
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idxFrame[idxFrame > _aduToKev3DMap.shape[0]-2] = _aduToKev3DMap.shape[0]-2
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NY, NX = _aduToKev3DMap.shape[1:3]
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_energyFrame0 = _aduToKev3DMap[idxFrame, np.arange(NY).reshape(-1, 1), np.arange(NX)]
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_energyFrame1 = _aduToKev3DMap[idxFrame+1, np.arange(NY).reshape(-1, 1), np.arange(NX)]
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energyFrame = _energyFrame0 + (_energyFrame1 - _energyFrame0)/aduPerBin * (aduFrame - (idxFrame-nExtraBins)*aduPerBin)
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if 'energyScalingFactor' in _cfg:
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energyFrame *= _cfg['energyScalingFactor']
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return energyFrame
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def bookHistograms(energy, suffix='', energyBinWidth=0.1, isMC=False):
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histMaxEnergy = energy * 5.5
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nEnergyBins = int(histMaxEnergy // energyBinWidth)
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roi_x0, roi_x1, roi_y0, roi_y1 = _cfg['Roi'][0], _cfg['Roi'][1], _cfg['Roi'][2], _cfg['Roi'][3]
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roi_width = roi_x1 - roi_x0
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roi_height = roi_y1 - roi_y0
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interpolationBins = 10
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histograms = {}
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histograms['h1_ClusterEnergy'] = TH1D(
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f'h1_ClusterEnergy{suffix}', f'h1_ClusterEnergy{suffix}', nEnergyBins, -1, histMaxEnergy
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)
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histograms['h1_ClusterEnergy'].SetTitle('Cluster Energy;Energy [keV];Counts')
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histograms['h1_PixelEnergy'] = TH1D(
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f'h1_PixelEnergy{suffix}', f'h1_PixelEnergy{suffix}', nEnergyBins, -1, histMaxEnergy
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)
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histograms['h1_PixelEnergy'].SetTitle('Pixel Energy;Energy [keV];Counts')
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histograms['h1_1PhotonClusterSize'] = TH1D(
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f'h1_1PhotonClusterSize{suffix}', f'h1_1PhotonClusterSize{suffix}', 30, 0, 30
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)
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histograms['h1_1PhotonClusterSize'].SetTitle('1-Photon Cluster Size;Cluster Size [pixel];Counts')
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histograms['h1_1PhotonClusterDiameterX'] = TH1D(
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f'h1_1PhotonClusterDiameterX{suffix}', f'h1_1PhotonClusterDiameterX{suffix}', 10, 0, 10
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)
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histograms['h1_1PhotonClusterDiameterX'].SetTitle('1-Photon Cluster Diameter X;Cluster Diameter X [pixel];Counts')
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histograms['h1_1PhotonClusterDiameterY'] = TH1D(
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f'h1_1PhotonClusterDiameterY{suffix}', f'h1_1PhotonClusterDiameterY{suffix}', 10, 0, 10
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)
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histograms['h1_1PhotonClusterDiameterY'].SetTitle('1-Photon Cluster Diameter Y;Cluster Diameter Y [pixel];Counts')
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histograms['h1_1PhotonClusterPixelEnergy'] = TH1D(
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f'h1_1PhotonClusterPixelEnergy{suffix}', f'h1_1PhotonClusterPixelEnergy{suffix}', nEnergyBins, -1, energy*1.5
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)
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histograms['h1_1PhotonClusterPixelEnergy'].SetTitle('1-Photon Cluster Pixel Energy;Energy [keV];Counts')
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histograms['h1_1PhotonClusterEnergy'] = TH1D(
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f'h1_1PhotonClusterEnergy{suffix}', f'h1_1PhotonClusterEnergy{suffix}', nEnergyBins, -1, energy*1.5
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)
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histograms['h1_1PhotonClusterEnergy'].SetTitle('1-Photon Cluster Energy;Energy [keV];Counts')
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histograms['h1_1PhotonEta_X'] = TH1D(
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f'h1_1PhotonEta_X{suffix}', f'h1_1PhotonEta_X{suffix}', 100, -0.5, 0.5
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)
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histograms['h1_1PhotonEta_X'].SetTitle('1-Photon Eta X;Eta X;Counts')
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histograms['h1_1PhotonEta_Y'] = TH1D(
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f'h1_1PhotonEta_Y{suffix}', f'h1_1PhotonEta_Y{suffix}', 100, -0.5, 0.5
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)
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histograms['h1_1PhotonEta_Y'].SetTitle('1-Photon Eta Y;Eta Y;Counts')
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histograms['h1_2PhotonClusterSize'] = TH1D(
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f'h1_2PhotonClusterSize{suffix}', f'h1_2PhotonClusterSize{suffix}', 30, 0, 30
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)
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histograms['h1_2PhotonClusterSize'].SetTitle('2-Photon Cluster Size;Cluster Size [pixel];Counts')
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histograms['h1_2PhotonClusterDiameterX'] = TH1D(
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f'h1_2PhotonClusterDiameterX{suffix}', f'h1_2PhotonClusterDiameterX{suffix}', 10, 0, 10
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)
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histograms['h1_2PhotonClusterDiameterX'].SetTitle('2-Photon Cluster Diameter X;Cluster Diameter X [pixel];Counts')
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histograms['h1_2PhotonClusterDiameterY'] = TH1D(
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f'h1_2PhotonClusterDiameterY{suffix}', f'h1_2PhotonClusterDiameterY{suffix}', 10, 0, 10
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)
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histograms['h1_2PhotonClusterDiameterY'].SetTitle('2-Photon Cluster Diameter Y;Cluster Diameter Y [pixel];Counts')
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histograms['h1_2PhotonClusterPixelEnergy'] = TH1D(
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f'h1_2PhotonClusterPixelEnergy{suffix}', f'h1_2PhotonClusterPixelEnergy{suffix}', nEnergyBins, -1, energy*2.5
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)
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histograms['h1_2PhotonClusterPixelEnergy'].SetTitle('2-Photon Cluster Pixel Energy;Energy [keV];Counts')
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histograms['h2_HitsSumFrame'] = TH2D(
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f'h2_HitsSumFrame{suffix}', f'h2_HitsSumFrame{suffix}', roi_width, roi_x0, roi_x1, roi_height, roi_y0, roi_y1
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)
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histograms['h2_HitsSumFrame'].SetTitle('Hits Sum Frame;X [pixel];Y [pixel];Energy Sum [keV]')
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histograms['h2_1PhotonSumFrame'] = TH2D(
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f'h2_1PhotonSumFrame{suffix}', f'h2_1PhotonSumFrame{suffix}', roi_width, roi_x0, roi_x1, roi_height, roi_y0, roi_y1
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)
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histograms['h2_1PhotonSumFrame'].SetTitle('1-Photon Hits Sum Frame;X [pixel];Y [pixel];Energy Sum [keV]')
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histograms['h2_2PhotonSumSample'] = TH2D(
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f'h2_2PhotonSumSample{suffix}', f'h2_2PhotonSumSample{suffix}', clusterSize2Photon, 0, clusterSize2Photon, clusterSize2Photon, 0, clusterSize2Photon
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)
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histograms['h2_2PhotonSumSample'].SetTitle('2-Photon Sum Sample;Sum Sample;Counts')
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histograms['h2_2PhotonSumFrame'] = TH2D(
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f'h2_2PhotonSumFrame{suffix}', f'h2_2PhotonSumFrame{suffix}', roi_width, roi_x0, roi_x1, roi_height, roi_y0, roi_y1
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)
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histograms['h2_2PhotonSumFrame'].SetTitle('2-Photon Hits Sum Frame;X [pixel];Y [pixel];Energy Sum [keV]')
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histograms['h2_ClusterSizeVsEnergy'] = TH2D(
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f'h2_ClusterSizeVsEnergy{suffix}', f'h2_ClusterSizeVsEnergy{suffix}', nEnergyBins, -1, histMaxEnergy, 30, 0, 30
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)
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histograms['h2_ClusterSizeVsEnergy'].SetTitle('Cluster Size vs Energy;Energy [keV];Cluster Size [pixel]')
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histograms['h2_DiameterVsEnergy'] = TH2D(
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f'h2_DiameterVsEnergy{suffix}', f'h2_DiameterVsEnergy{suffix}', nEnergyBins, -1, histMaxEnergy, 10, 0, 10
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)
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histograms['h2_DiameterVsEnergy'].SetTitle('Cluster Diameter vs Energy;Energy [keV];Cluster Diameter [pixel]')
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for hist in histograms.values():
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hist.SetDirectory(0)
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return histograms
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def _processFrames(idxChunk): ### for both single and double photon events, using
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startFrame, endFrame = _cfg['NFrame'] * idxChunk // nChunks, min(_cfg['NFrame'] * (idxChunk + 1) // nChunks, _cfg['NFrame'])
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print(f'Processing frames from {startFrame} to {endFrame}...')
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Energy = _cfg['energy']
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selectionRange = _cfg['selectionRange']
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signalFileNames = _cfg['signalFileNames']
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NX = _cfg['NX']
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NY = _cfg['NY']
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headerSize = _cfg['headerSize']
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Roi = _cfg['Roi']
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nFramePerFile = os.path.getsize(f'{signalFileNames[0]}') // (NX * NY + 56) // 2
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_hists = bookHistograms(Energy, f'_{idxChunk}')
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### create a cluster finder
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nxROI = Roi[1] - Roi[0]
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nyROI = Roi[3] - Roi[2]
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CF = aare.VarClusterFinder((nxROI, nyROI), 5) ### arg1: frame size, arg2: threshold
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CF.set_peripheralThresholdFactor(3)
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CF.set_noiseMap(_noiseEneFrame)
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if 'writeClusters' in _cfg and _cfg['writeClusters'] == True:
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h5_1Photon_file = h5py.File(f'{_cfg["outputFolder"]}/1Photon_CS3_chunk{idxChunk}.h5', 'w')
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dset_1Photon_clusters = h5_1Photon_file.create_dataset(
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'clusters', (0, 3, 3), maxshape=(None, 3, 3), dtype='f4',
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chunks=True, compression='gzip'
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)
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dset_1photon_refs = h5_1Photon_file.create_dataset(
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'referencePoint', (0, 2), maxshape=(None, 2), dtype='i4',
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chunks=True
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)
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cluster_1Photon_list = []
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refpoint_1Photon_list = []
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h5_2Photon_file = h5py.File(f'{_cfg["outputFolder"]}/2Photon_CS{clusterSize2Photon}_chunk{idxChunk}.h5', 'w')
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dset_2Photon_clusters = h5_2Photon_file.create_dataset(
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'clusters', (0, clusterSize2Photon, clusterSize2Photon), maxshape=(None, clusterSize2Photon, clusterSize2Photon), dtype='f4',
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chunks=True, compression='gzip'
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)
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dset_2Photon_refs = h5_2Photon_file.create_dataset(
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'referencePoint', (0, 2), maxshape=(None, 2), dtype='i4',
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chunks=True
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)
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cluster_2Photon_list = []
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refpoint_2Photon_list = []
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def flush_h5_buffer():
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old_len = dset_1Photon_clusters.shape[0]
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new_len = old_len + len(cluster_1Photon_list)
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dset_1Photon_clusters.resize((new_len, 3, 3))
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dset_1photon_refs.resize((new_len, 2))
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dset_1Photon_clusters[old_len:new_len] = cluster_1Photon_list
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dset_1photon_refs[old_len:new_len] = refpoint_1Photon_list
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cluster_1Photon_list.clear()
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refpoint_1Photon_list.clear()
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old_len = dset_2Photon_clusters.shape[0]
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new_len = old_len + len(cluster_2Photon_list)
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dset_2Photon_clusters.resize((new_len, clusterSize2Photon, clusterSize2Photon))
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dset_2Photon_refs.resize((new_len, 2))
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dset_2Photon_clusters[old_len:new_len] = cluster_2Photon_list
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dset_2Photon_refs[old_len:new_len] = refpoint_2Photon_list
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cluster_2Photon_list.clear()
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refpoint_2Photon_list.clear()
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for idxFrame in range(startFrame, endFrame):
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idxFile, idxFrame = divmod(idxFrame, nFramePerFile)
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try:
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if 'nFiber' in _cfg and _cfg['nFiber'] == 2:
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offset = (headerSize + idxFrame * (NX * NY//2 + headerSize)) * 2
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fileName1 = signalFileNames[idxFile]
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fileName2 = fileName1.replace('d0', 'd1')
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_signalAduFrame1 = np.fromfile(f'{fileName1}', dtype=np.uint16, offset=offset, count=NX * NY //2).astype(np.int32).reshape(NY//2, NX)
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_signalAduFrame2 = np.fromfile(f'{fileName2}', dtype=np.uint16, offset=offset, count=NX * NY //2).astype(np.int32).reshape(NY//2, NX)
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signalAduFrame = np.concatenate([_signalAduFrame1, _signalAduFrame2], axis=0)
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del _signalAduFrame1, _signalAduFrame2
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else:
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offset = (headerSize + idxFrame * (NX * NY + headerSize)) * 2
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signalAduFrame = np.fromfile(f'{signalFileNames[idxFile]}', dtype=np.uint16, offset=offset, count=NX * NY).astype(np.int32).reshape(NX, NY)
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except Exception as e:
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print(f'Error reading frame {idxFrame} from file {signalFileNames[idxFile]}: {e}, stop processing this chunk ({startFrame}-{endFrame})')
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return _hists
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signalAduFrame = signalAduFrame - _pedestalAduFrame
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signalEneFrame = convertAduFrameToEnergyFrame(signalAduFrame)
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CF.find_clusters_X(signalEneFrame[Roi[2]:Roi[3], Roi[0]:Roi[1]])
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clusters = CF.hits()
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for idxCluster in range(len(clusters)):
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clusterSize = clusters['size'][idxCluster]
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energy = clusters['energy'][idxCluster]
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_hists['h1_ClusterEnergy'].Fill(energy)
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xs = clusters['cols'][idxCluster][:clusterSize]
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ys = clusters['rows'][idxCluster][:clusterSize]
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enes = clusters['enes'][idxCluster][:clusterSize]
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### single photon events
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if Energy - selectionRange < energy < Energy + selectionRange:
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for i in range(len(xs)):
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_hists['h2_1PhotonSumFrame'].Fill(xs[i]+Roi[0], ys[i]+Roi[2], enes[i])
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_hists['h1_1PhotonClusterSize'].Fill(clusterSize)
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diameterX = max(xs) - min(xs) + 1
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diameterY = max(ys) - min(ys) + 1
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_hists['h1_1PhotonClusterDiameterX'].Fill(diameterX)
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_hists['h1_1PhotonClusterDiameterY'].Fill(diameterY)
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_hists['h1_1PhotonClusterEnergy'].Fill(energy)
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maxX, maxY = clusters['col'][idxCluster], clusters['row'][idxCluster]
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ref_x = maxX - 1 ### refered to the lower-left corner of the cluster
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ref_y = maxY - 1
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cluster_1Photon = np.zeros((3, 3), dtype=np.float32)
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for i in range(len(xs)):
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x_rel = xs[i] - int(ref_x)
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y_rel = ys[i] - int(ref_y)
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_hists['h1_1PhotonClusterPixelEnergy'].Fill(enes[i])
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if 0 <= x_rel < 3 and 0 <= y_rel < 3:
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cluster_1Photon[y_rel, x_rel] = enes[i]
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if 'writeClusters' in _cfg and _cfg['writeClusters'] == True:
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cluster_1Photon_list.append(cluster_1Photon)
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refpoint_1Photon_list.append([int(ref_x)+Roi[0], int(ref_y)+Roi[2]])
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sumEne = np.sum(cluster_1Photon)
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### calculate eta
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projectedX = np.sum(cluster_1Photon, axis=0)
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etaX = (projectedX[2] - projectedX[0]) / sumEne
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projectedY = np.sum(cluster_1Photon, axis=1)
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etaY = (projectedY[2] - projectedY[0]) / sumEne
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_hists['h1_1PhotonEta_X'].Fill(etaX)
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_hists['h1_1PhotonEta_Y'].Fill(etaY)
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### double photon events
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if 2 * Energy - selectionRange < energy < 2 * Energy + selectionRange:
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for i in range(len(xs)):
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_hists['h2_2PhotonSumFrame'].Fill(xs[i]+Roi[0], ys[i]+Roi[2], enes[i])
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_hists['h1_2PhotonClusterPixelEnergy'].Fill(enes[i])
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_hists['h1_2PhotonClusterSize'].Fill(clusterSize)
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diameterX = max(xs) - min(xs) + 1
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diameterY = max(ys) - min(ys) + 1
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_hists['h1_2PhotonClusterDiameterX'].Fill(diameterX)
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_hists['h1_2PhotonClusterDiameterY'].Fill(diameterY)
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ref_x = (min(xs) + max(xs)) // 2 - (clusterSize2Photon // 2) ### refered to the lower-left corner of the cluster
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ref_y = (min(ys) + max(ys)) // 2 - (clusterSize2Photon // 2)
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cluster_2Photon = np.zeros((clusterSize2Photon, clusterSize2Photon), dtype=np.float32)
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for i in range(len(xs)):
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x_rel = xs[i] - int(ref_x)
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y_rel = ys[i] - int(ref_y)
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if 0 <= x_rel < clusterSize2Photon and 0 <= y_rel < clusterSize2Photon:
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cluster_2Photon[y_rel, x_rel] = enes[i]
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_hists['h2_2PhotonSumSample'].Fill(x_rel, y_rel, enes[i])
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if 'writeClusters' in _cfg and _cfg['writeClusters'] == True:
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cluster_2Photon_list.append(cluster_2Photon)
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refpoint_2Photon_list.append([int(ref_x)+Roi[0], int(ref_y)+Roi[2]])
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_hists['h2_ClusterSizeVsEnergy'].Fill(energy, clusterSize)
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_diameterX = max(xs) - min(xs) + 1
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_diameterY = max(ys) - min(ys) + 1
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_diameter = max(_diameterX, _diameterY)
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_hists['h2_DiameterVsEnergy'].Fill(energy, _diameter)
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for i in range(len(xs)):
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_hists['h1_PixelEnergy'].Fill(enes[i])
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_hists['h2_HitsSumFrame'].Fill(xs[i]+Roi[0], ys[i]+Roi[2], enes[i])
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if 'writeClusters' in _cfg and _cfg['writeClusters'] == True:
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flush_h5_buffer()
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h5_1Photon_file.close()
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h5_2Photon_file.close()
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return _hists
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def process():
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import os
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os.makedirs(_cfg['outputFolder'], exist_ok=True)
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with Pool(_cfg['NThread'], maxtasksperchild=1) as p:
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results = p.map(_processFrames, range(nChunks))
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global hists
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hists = bookHistograms(_cfg['energy'])
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for h in hists.values():
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h.SetDirectory(0)
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for _hists in results:
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for key in hists.keys():
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hists[key].Add(_hists[key])
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del _hists
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outputTFileName = f'/home/xie_x1/MLXID/DataProcess/Results/{_cfg["runName"]}.root'
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outputTFile = TFile(outputTFileName, 'RECREATE')
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for hist in hists.values():
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hist.Write()
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outputTFile.Close()
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def getPedestalAndNoise():
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NX, NY = _cfg['NX'], _cfg['NY']
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pedestalFileName = _cfg['pedestalFileName']
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if 'nFiber' in _cfg and _cfg['nFiber'] == 2:
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pedestalFileName2 = pedestalFileName.replace('d0', 'd1')
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_pedestalAduFrames1 = np.fromfile(f'{pedestalFileName}', dtype=np.uint16).astype(np.int32)
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_pedestalAduFrames1 = _pedestalAduFrames1.reshape(-1, NX * NY //2 + 56)
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_pedestalAduFrames1 = _pedestalAduFrames1[:, 56:].reshape(-1, NY//2, NX)
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_pedestalAduFrames2 = np.fromfile(f'{pedestalFileName2}', dtype=np.uint16).astype(np.int32)
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_pedestalAduFrames2 = _pedestalAduFrames2.reshape(-1, NX * NY //2 + 56)
|
|
_pedestalAduFrames2 = _pedestalAduFrames2[:, 56:].reshape(-1, NY//2, NX)
|
|
pedestalAduFrames = np.concatenate([_pedestalAduFrames1, _pedestalAduFrames2], axis=1)
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|
del _pedestalAduFrames1, _pedestalAduFrames2
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else:
|
|
pedestalAduFrames = np.fromfile(f'{pedestalFileName}', dtype=np.uint16).astype(np.int32)
|
|
pedestalAduFrames = pedestalAduFrames.reshape(-1, NX * NY + 56)
|
|
pedestalAduFrames = pedestalAduFrames[:, 56:].reshape(-1, NX, NY)
|
|
|
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pedestalAduFrames = pedestalAduFrames[pedestalAduFrames.shape[0]//10:] # skip the first 10% frames
|
|
global _pedestalAduFrame, _noiseEneFrame
|
|
_pedestalAduFrame = np.mean(pedestalAduFrames, axis=0)
|
|
noiseAduFrame = np.std(pedestalAduFrames, axis=0, ddof=1)
|
|
with Pool(16) as p:
|
|
pedestalEneFrames = p.map(convertAduFrameToEnergyFrame, pedestalAduFrames)
|
|
_noiseEneFrame = np.std(pedestalEneFrames, axis=0, ddof=1)
|
|
print(f'Average noise = {np.mean(_noiseEneFrame):.3f} keV; {np.mean(noiseAduFrame):.3f} ADU')
|
|
del pedestalAduFrames, pedestalEneFrames
|
|
|
|
def getPedestalAndNoise_simplified():
|
|
NX, NY = _cfg['NX'], _cfg['NY']
|
|
pedestalFileName = _cfg['pedestalFileName']
|
|
pedestalAduFrames = np.fromfile(f'{pedestalFileName}', dtype=np.uint16).astype(np.int32)
|
|
pedestalAduFrames = pedestalAduFrames.reshape(-1, NX * NY + 56)
|
|
pedestalAduFrames = pedestalAduFrames[:, 56:].reshape(-1, NX, NY)
|
|
pedestalAduFrames = pedestalAduFrames[pedestalAduFrames.shape[0]//10:] # skip the first 10% frames
|
|
global _pedestalAduFrame, _noiseEneFrame
|
|
_pedestalAduFrame = np.mean(pedestalAduFrames, axis=0)
|
|
noiseAduFrame = np.std(pedestalAduFrames, axis=0, ddof=1)
|
|
_noiseEneFrame = convertAduFrameToEnergyFrame(noiseAduFrame)
|
|
|
|
print(f'Average noise = {np.mean(_noiseEneFrame):.3f} keV; {np.mean(noiseAduFrame):.3f} ADU')
|
|
del pedestalAduFrames
|