mirror of
https://github.com/slsdetectorgroup/slsDetectorPackage.git
synced 2025-04-22 22:40:02 +02:00
479 lines
15 KiB
C++
479 lines
15 KiB
C++
// SPDX-License-Identifier: LGPL-3.0-or-other
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// Copyright (C) 2021 Contributors to the SLS Detector Package
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// #include "sls/ansi.h"
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#include <iostream>
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#undef CORR
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#define C_GHOST 0.0004
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#define CM_ROWS 50
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#define RAWDATA
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#if !defined JFSTRX && !defined JFSTRXOLD && !defined JFSTRXCHIP1 && \
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!defined JFSTRXCHIP6
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#ifndef MODULE
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#include "jungfrauHighZSingleChipData.h"
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#endif
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#ifdef MODULE
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#include "jungfrauModuleData.h"
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#endif
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#endif
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#ifdef JFSTRX
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#include "jungfrauLGADStrixelsData_new.h"
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#endif
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#if defined JFSTRXCHIP1 || defined JFSTRXCHIP6
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#include "jungfrauLGADStrixelsDataSingleChip.h"
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#endif
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#ifdef JFSTRXOLD
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#include "jungfrauStrixelsHalfModuleOldDesign.h"
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#endif
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#include "multiThreadedCountingDetector.h"
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#include "singlePhotonDetector.h"
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#include <fstream>
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#include <map>
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#include <stdio.h>
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#include <sys/stat.h>
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#include <ctime>
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// using namespace std;
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int main(int argc, char *argv[]) {
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if (argc < 5) {
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std::cout
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<< "Usage is " << argv[0]
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<< "indir outdir fname(with formatting, no extension) fextension "
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"[runmin] [runmax] [pedfile (raw or tiff)] [threshold] "
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"[nframes] [xmin xmax ymin ymax] [gainmap]"
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<< std::endl;
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std::cout
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<< "threshold <0 means analog; threshold=0 means cluster finder; "
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"threshold>0 means photon counting"
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<< std::endl;
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std::cout
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<< "nframes <0 means sum everything; nframes=0 means one file per "
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"run; nframes>0 means one file every nframes"
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<< std::endl;
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return 1;
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}
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int fifosize = 1000;
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int nthreads = 10;
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int csize = 3; // 3
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int nsigma = 5;
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int nped = 10000;
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int cf = 0;
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double *gainmap = NULL;
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// float *gm;
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int ff, np;
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// cout << " data size is " << dsize;
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ifstream filebin;
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char *indir = argv[1];
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char *outdir = argv[2];
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char *fformat = argv[3];
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char *fext = argv[4];
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int runmin = 0;
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// cout << "argc is " << argc << endl;
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if (argc >= 6) {
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runmin = atoi(argv[5]);
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}
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int runmax = runmin;
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if (argc >= 7) {
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runmax = atoi(argv[6]);
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}
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char *pedfile = NULL;
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if (argc >= 8) {
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pedfile = argv[7];
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}
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double thr = 0;
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double thr1 = 1;
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if (argc >= 9) {
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thr = atof(argv[8]);
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}
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int nframes = 0;
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if (argc >= 10) {
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nframes = atoi(argv[9]);
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}
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char ffname[10000];
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char fname[10000];
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char imgfname[10000];
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char cfname[10000];
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// Define decoders...
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#if !defined JFSTRX && !defined JFSTRXOLD && !defined JFSTRXCHIP1 && \
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!defined JFSTRXCHIP6
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#ifndef MODULE
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jungfrauHighZSingleChipData *decoder = new jungfrauHighZSingleChipData();
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int nx = 256, ny = 256;
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#endif
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#ifdef MODULE
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jungfrauModuleData *decoder = new jungfrauModuleData();
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int nx = 1024, ny = 512;
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#endif
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#endif
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#ifdef JFSTRX
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cout << "Jungfrau strixel full module readout" << endl;
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// ROI
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uint16_t xxmin = 0;
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uint16_t xxmax = 0;
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uint16_t yymin = 0;
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uint16_t yymax = 0;
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#ifndef ALDO
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using header = sls::defs::sls_receiver_header;
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// check if there is a roi in the header
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typedef struct {
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uint16_t xmin;
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uint16_t xmax;
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uint16_t ymin;
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uint16_t ymax;
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} receiverRoi_compact;
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receiverRoi_compact croi;
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sprintf(ffname, "%s/%s.%s", indir, fformat, fext);
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sprintf(fname, (const char *)ffname, runmin);
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std::cout << "Reading header of file " << fname << " to check for ROI "
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<< std::endl;
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filebin.open((const char *)(fname), ios::in | ios::binary);
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if (filebin.is_open()) {
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header hbuffer;
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std::cout << "sizeof(header) = " << sizeof(header) << std::endl;
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if (filebin.read((char *)&hbuffer, sizeof(header))) {
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memcpy(&croi, &hbuffer.detHeader.detSpec1, 8);
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std::cout << "Read ROI [" << croi.xmin << ", " << croi.xmax << ", "
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<< croi.ymin << ", " << croi.ymax << "]" << std::endl;
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xxmin = croi.xmin;
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xxmax = croi.xmax;
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yymin = croi.ymin;
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yymax = croi.ymax;
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} else
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std::cout << "reading error" << std::endl;
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filebin.close();
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} else
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std::cout << "Could not open " << fname << " for reading " << std::endl;
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#endif
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jungfrauLGADStrixelsData *decoder =
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new jungfrauLGADStrixelsData(xxmin, xxmax, yymin, yymax);
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int nx = 1024 / 3, ny = 512 * 5;
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#endif
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#ifdef JFSTRXCHIP1
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std::cout << "Jungfrau strixel LGAD single chip 1" << std::endl;
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jungfrauLGADStrixelsDataSingleChip *decoder =
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new jungfrauLGADStrixelsDataSingleChip(1);
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int nx = 256 / 3, ny = 256 * 5;
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#endif
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#ifdef JFSTRXCHIP6
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std::cout << "Jungfrau strixel LGAD single chip 6" << std::endl;
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jungfrauLGADStrixelsDataSingleChip *decoder =
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new jungfrauLGADStrixelsDataSingleChip(6);
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int nx = 256 / 3, ny = 256 * 5;
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#endif
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#ifdef JFSTRXOLD
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std::cout << "Jungfrau strixels old design" << std::endl;
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jungfrauStrixelsHalfModuleOldDesign *decoder =
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new jungfrauStrixelsHalfModuleOldDesign();
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int nx = 1024 * 3, ny = 512 / 3;
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#endif
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decoder->getDetectorSize(nx, ny);
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std::cout << "Detector size is " << nx << " " << ny << std::endl;
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int xmin = 0, xmax = nx, ymin = 0, ymax = ny;
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if (argc >= 14) {
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xmin = atoi(argv[10]);
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xmax = atoi(argv[11]);
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ymin = atoi(argv[12]);
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ymax = atoi(argv[13]);
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}
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std::cout << xmin << " " << xmax << " " << ymin << " " << ymax << " "
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<< std::endl;
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char *gainfname = NULL;
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if (argc > 14) {
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gainfname = argv[14];
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std::cout << "Gain map file name is: " << gainfname << std::endl;
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}
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std::time_t end_time;
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FILE *of = NULL;
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std::cout << "input directory is " << indir << std::endl;
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std::cout << "output directory is " << outdir << std::endl;
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std::cout << "input file is " << fformat << std::endl;
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std::cout << "runmin is " << runmin << std::endl;
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std::cout << "runmax is " << runmax << std::endl;
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if (pedfile)
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std::cout << "pedestal file is " << pedfile << std::endl;
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if (thr > 0)
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std::cout << "threshold is " << thr << std::endl;
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std::cout << "Nframes is " << nframes << std::endl;
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// std::cout << "HHHEEEEEEEEEEEEEEEEEEEEEEERE!!!!!" << std::endl;
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uint32_t nnx, nny;
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singlePhotonDetector *filter = new singlePhotonDetector(
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decoder, 3, nsigma, 1, NULL, nped, 200, -1, -1, gainmap, NULL);
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if (gainfname) {
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if (filter->readGainMap(gainfname))
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std::cout << "using gain map " << gainfname << std::endl;
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else
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std::cout << "Could not open gain map " << gainfname << std::endl;
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} else
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thr = 0.15 * thr;
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filter->newDataSet();
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// int dsize = decoder->getDataSize();
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if (thr > 0) {
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std::cout << "threshold is " << thr << std::endl;
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filter->setThreshold(thr);
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cf = 0;
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} else
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cf = 1;
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filter->setROI(xmin, xmax, ymin, ymax);
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std::time(&end_time);
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std::cout << std::ctime(&end_time) << std::endl;
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char *buff;
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// multiThreadedAnalogDetector *mt=new
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// multiThreadedAnalogDetector(filter,nthreads,fifosize);
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multiThreadedCountingDetector *mt =
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new multiThreadedCountingDetector(filter, nthreads, fifosize);
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mt->setClusterSize(csize, csize);
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#ifndef ANALOG
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mt->setDetectorMode(ePhotonCounting);
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std::cout << "Counting!" << std::endl;
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if (thr > 0) {
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cf = 0;
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}
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#endif
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//{
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#ifdef ANALOG
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mt->setDetectorMode(eAnalog);
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std::cout << "Analog!" << std::endl;
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cf = 0;
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// thr1=thr;
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#endif
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// }
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mt->StartThreads();
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mt->popFree(buff);
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// cout << "mt " << endl;
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int ifr = 0;
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char froot[1000];
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double *ped = new double[nx * ny]; //, *ped1;
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int pos, pos1;
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if (pedfile) {
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if (string(pedfile).find(".dat") != std::string::npos) {
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pos1 = string(pedfile).rfind("/");
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strcpy(froot, pedfile + pos1);
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pos = string(froot).find(".dat");
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froot[pos] = '\0';
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}
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std::cout << "PEDESTAL " << std::endl;
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// sprintf(imgfname, "%s/pedestals.tiff", outdir);
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if (string(pedfile).find(".tif") == std::string::npos) {
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sprintf(fname, "%s", pedfile);
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std::cout << fname << std::endl;
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std::time(&end_time);
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std::cout << "aaa" << std::ctime(&end_time) << std::endl;
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mt->setFrameMode(ePedestal);
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// sprintf(fn,fformat,irun);
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filebin.open((const char *)(fname), ios::in | ios::binary);
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// //open file
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if (filebin.is_open()) {
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std::cout << "bbbb" << std::ctime(&end_time) << std::endl;
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ff = -1;
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while (decoder->readNextFrame(filebin, ff, np, buff)) {
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// if (np == 40) {
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if ((ifr + 1) % 100 == 0) {
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std::cout
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<< " ****"
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<< decoder->getValue(buff, 20, 20); // << endl;
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}
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mt->pushData(buff);
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mt->nextThread();
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mt->popFree(buff);
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ifr++;
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if (ifr % 100 == 0) {
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std::cout << " ****" << ifr << " " << ff << " " << np
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<< std::endl;
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} // else
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// cout << ifr << " " << ff << " " << np << endl;
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if (ifr >= 1000)
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break;
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ff = -1;
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}
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filebin.close();
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while (mt->isBusy()) {
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;
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}
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sprintf(imgfname, "%s/%s_ped.tiff", outdir, froot);
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mt->writePedestal(imgfname);
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sprintf(imgfname, "%s/%s_rms.tiff", outdir, froot);
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mt->writePedestalRMS(imgfname);
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} else
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std::cout << "Could not open pedestal file " << fname
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<< " for reading " << std::endl;
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} else {
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float *pp = ReadFromTiff(pedfile, nny, nnx);
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if (pp && (int)nnx == nx && (int)nny == ny) {
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for (int i = 0; i < nx * ny; i++) {
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ped[i] = pp[i];
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}
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delete[] pp;
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mt->setPedestal(ped);
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std::cout << "Pedestal set from tiff file " << pedfile
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<< std::endl;
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} else {
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std::cout << "Could not open pedestal tiff file " << pedfile
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<< " for reading " << std::endl;
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}
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}
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std::time(&end_time);
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std::cout << std::ctime(&end_time) << std::endl;
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}
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ifr = 0;
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int ifile = 0;
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mt->setFrameMode(eFrame);
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for (int irun = runmin; irun <= runmax; irun++) {
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std::cout << "DATA ";
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// sprintf(fn,fformat,irun);
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sprintf(ffname, "%s/%s.%s", indir, fformat, fext);
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sprintf(fname, (const char *)ffname, irun);
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sprintf(ffname, "%s/%s.tiff", outdir, fformat);
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sprintf(imgfname, (const char *)ffname, irun);
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sprintf(ffname, "%s/%s.clust", outdir, fformat);
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sprintf(cfname, (const char *)ffname, irun);
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std::cout << fname << " ";
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std::cout << imgfname << std::endl;
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std::time(&end_time);
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std::cout << std::ctime(&end_time) << std::endl;
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// cout << fname << " " << outfname << " " << imgfname << endl;
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filebin.open((const char *)(fname), ios::in | ios::binary);
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// //open file
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ifile = 0;
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if (filebin.is_open()) {
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if (thr <= 0 && cf != 0) { // cluster finder
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if (of == NULL) {
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of = fopen(cfname, "w");
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if (of) {
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mt->setFilePointer(of);
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std::cout << "file pointer set " << std::endl;
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} else {
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std::cout << "Could not open " << cfname
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<< " for writing " << std::endl;
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mt->setFilePointer(NULL);
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return 1;
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}
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}
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}
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// //while read frame
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ff = -1;
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ifr = 0;
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while (decoder->readNextFrame(filebin, ff, np, buff)) {
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// if (np == 40) {
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// //push
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if ((ifr + 1) % 100 == 0) {
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std::cout << " ****"
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<< decoder->getValue(buff, 20, 20); // << endl;
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}
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mt->pushData(buff);
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// // //pop
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mt->nextThread();
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mt->popFree(buff);
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ifr++;
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if (ifr % 100 == 0)
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std::cout << " " << ifr << " " << ff << std::endl;
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if (nframes > 0) {
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if (ifr % nframes == 0) {
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sprintf(ffname, "%s/%s_f%05d.tiff", outdir, fformat,
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ifile);
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sprintf(imgfname, (const char *)ffname, irun);
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mt->writeImage(imgfname, thr1);
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mt->clearImage();
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ifile++;
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}
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}
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// } else
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// cout << ifr << " " << ff << " " << np << endl;
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ff = -1;
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}
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std::cout << "--" << std::endl;
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filebin.close();
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while (mt->isBusy()) {
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;
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}
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if (nframes >= 0) {
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if (nframes > 0) {
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sprintf(ffname, "%s/%s_f%05d.tiff", outdir, fformat, ifile);
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sprintf(imgfname, (const char *)ffname, irun);
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} else {
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sprintf(ffname, "%s/%s.tiff", outdir, fformat);
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sprintf(imgfname, (const char *)ffname, irun);
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}
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std::cout << "Writing tiff to " << imgfname << " " << thr1
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<< std::endl;
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mt->writeImage(imgfname, thr1);
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mt->clearImage();
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if (of) {
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fclose(of);
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of = NULL;
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mt->setFilePointer(NULL);
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}
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}
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std::time(&end_time);
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std::cout << std::ctime(&end_time) << std::endl;
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} else
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std::cout << "Could not open " << fname << " for reading "
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<< std::endl;
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}
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if (nframes < 0) {
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sprintf(ffname, "%s/%s.tiff", outdir, fformat);
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strcpy(imgfname, ffname);
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std::cout << "Writing tiff to " << imgfname << " " << thr1 << std::endl;
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mt->writeImage(imgfname, thr1);
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}
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return 0;
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}
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