91 lines
3.8 KiB
C++
91 lines
3.8 KiB
C++
// Copyright (2019-2024) Paul Scherrer Institute
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#include "HDF5DataFilePluginMX.h"
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#define RESERVE_IMAGES 1000
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HDF5DataFilePluginMX::HDF5DataFilePluginMX(size_t in_max_spots) : max_spots(in_max_spots) {}
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void HDF5DataFilePluginMX::OpenFile(HDF5File &data_file, const DataMessage &msg) {
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if (max_spots == 0)
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return;
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spot_x.reserve(max_spots * RESERVE_IMAGES);
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spot_y.reserve(max_spots * RESERVE_IMAGES);
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spot_int.reserve(max_spots * RESERVE_IMAGES);
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npeaks.reserve(RESERVE_IMAGES);
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strong_pixel_count.reserve(RESERVE_IMAGES);
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indexed.reserve(RESERVE_IMAGES);
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indexed_lattice.reserve(9 * RESERVE_IMAGES);
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indexing_drift_beam_center_x_pxl.reserve(RESERVE_IMAGES);
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indexing_drift_beam_center_y_pxl.reserve(RESERVE_IMAGES);
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indexing_drift_detector_distance_mm.reserve(RESERVE_IMAGES);
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}
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void HDF5DataFilePluginMX::Write(const DataMessage &msg, uint64_t image_number) {
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if (max_spots == 0)
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return;
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if (image_number >= max_image_number) {
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max_image_number = image_number;
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spot_x.resize(max_spots * (max_image_number + 1));
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spot_y.resize(max_spots * (max_image_number + 1));
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spot_int.resize(max_spots * (max_image_number + 1));
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npeaks.resize(max_image_number + 1);
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strong_pixel_count.resize(max_image_number + 1);
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indexed.resize(max_image_number + 1);
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indexed_lattice.resize((max_image_number + 1) * 9);
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indexing_drift_beam_center_x_pxl.resize(max_image_number + 1);
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indexing_drift_beam_center_y_pxl.resize(max_image_number + 1);
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indexing_drift_detector_distance_mm.resize(max_image_number + 1);
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}
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uint32_t spot_cnt = std::min(msg.spots.size(), max_spots);
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for (int i = 0; i < spot_cnt; i++) {
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spot_x[max_spots * image_number + i] = msg.spots[i].x;
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spot_y[max_spots * image_number + i] = msg.spots[i].y;
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spot_int[max_spots * image_number + i] = msg.spots[i].intensity;
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}
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npeaks[image_number] = spot_cnt;
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strong_pixel_count[image_number] = msg.strong_pixel_count;
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indexed[image_number] = msg.indexing_result;
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if (msg.indexing_lattice.size() == 9) {
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for (int i = 0; i < 9; i++)
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indexed_lattice[image_number * 9 + i] = msg.indexing_lattice[i];
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}
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if (msg.corr_beam_x_pxl) {
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indexing_drift_beam_center_x_pxl[image_number] = msg.corr_beam_x_pxl.value();
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indexing_drift_beam_center_y_pxl[image_number] = msg.corr_beam_y_pxl.value();
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indexing_drift_detector_distance_mm[image_number] = msg.corr_det_dist_mm.value();
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}
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}
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void HDF5DataFilePluginMX::WriteFinal(HDF5File &data_file) {
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HDF5Group(data_file, "/entry/MX").NXClass("NXcollection");
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if (!spot_x.empty()) {
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data_file.SaveVector("/entry/MX/peakXPosRaw", spot_x, {(hsize_t) (max_image_number + 1), max_spots});
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data_file.SaveVector("/entry/MX/peakYPosRaw", spot_y, {(hsize_t) (max_image_number + 1), max_spots});
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data_file.SaveVector("/entry/MX/peakTotalIntensity", spot_int, {(hsize_t) (max_image_number + 1), max_spots});
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data_file.SaveVector("/entry/MX/nPeaks", npeaks);
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data_file.SaveVector("/entry/MX/strongPixels", strong_pixel_count);
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}
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if (!indexed.empty())
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data_file.SaveVector("/entry/MX/imageIndexed", indexed);
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if (!indexed_lattice.empty())
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data_file.SaveVector("/entry/MX/latticeIndexed", indexed_lattice, {(hsize_t) (max_image_number + 1), 9});
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if (!indexing_drift_beam_center_x_pxl.empty()) {
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data_file.SaveVector("/entry/MX/indexingDriftBeamCenterX", indexing_drift_beam_center_x_pxl)->Units("pxl");
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data_file.SaveVector("/entry/MX/indexingDriftBeamCenterY", indexing_drift_beam_center_y_pxl)->Units("pxl");
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data_file.SaveVector("/entry/MX/indexingDriftDetectorDistance", indexing_drift_detector_distance_mm)->Units("mm");
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}
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}
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