{
  "sample_uid": "f034_simulation_data2_770bee21__sample_000031",
  "sample_name": "f034_simulation_data2_770bee21__sample_000031",
  "original_sample_name": "sample_000031",
  "original_sample_id": "000031",
  "selection_rank": 6,
  "pool_index": 1286,
  "source_index": 34,
  "source_file_name": "simulation_data2.hdf5",
  "source_file": "/gpfs/scratch/ailab/ai4physic/c30_small/simulation_data2.hdf5",
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    "profile": "pretrain_physical_noise_for_ptyrad_intensity",
    "note": "Applied Poisson + charge sharing + read noise + nonnegative clamp; skipped pretrain sqrt/z-score so PtyRAD receives nonnegative intensities.",
    "sample_seed": 20260630,
    "dose_per_area_e_per_angstrom2": 662363.7659548009,
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    "charge_sharing_weak_threshold": 20,
    "charge_sharing_radius": 2,
    "charge_sharing_image_chunk_size": 256,
    "charge_sharing_event_chunk_size": 100000,
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  "ideal_potential_shape": [
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  "metadata": {
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    "C12": -26.86164093017578,
    "C21": 336.6799011230469,
    "C23": -121.27379608154297,
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    "C56": 13698078.0,
    "chromatic": 14631543.0,
    "crystal_type": "Cubic",
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    "ideal_potential_num_slices": 7,
    "material_id": "mp-961650",
    "material_key": "material_1658",
    "num_probes": 10,
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    "full_2d_shape": [
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    "canonical_center_crop_pixels": 64,
    "canonical_shape": [
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    "valid_scan_intervals": 15,
    "phase_build_extent_angstrom": 15.9,
    "phase_build_pixels": 128,
    "phase_pixel_size_angstrom": 0.12421875,
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    "valid_shape_before_resize": [
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    "resized_to_target_shape": true,
    "final_shape": [
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  "groundtruth_note": "Ground truth was center-cropped/resized to exactly match PtyRAD fov='crop' phase shape.",
  "reconstruction_phase": {
    "object_phase_shape": [
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    "phase_reduction": "single object mode, single slice: arr[0, 0]",
    "source": "ptyrad.analysis.Analyzer.get_object_phase",
    "fov": "crop",
    "fov_info": {
      "fov_bbox_ymin_ymax_xmin_xmax": [
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      "probe_shape": [
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      "crop_shape": [
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      "crop_rule": "center positions = crop_pos + probe_shape // 2; bbox bounds are inclusive"
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      "dk": 0.0390625,
      "meas_Npix": 128,
      "simu_Npix": 128,
      "slice_thickness": 20.0
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  "metric_shape": [
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}