{
  "file": "SGH_synthetic_01.png",
  "assigned_category": "H. pylori organisms with gastritis",
  "internal_category": "hpylori_gastritis",
  "sha256": "8256f681c7faf0df12a71949bd39dd1a90152066633cade2dbb56bb778aeb69a",
  "width": 4096,
  "height": 2048,
  "mode": "RGB",
  "um_per_px": 0.25,
  "arm": "f3 B_si3_donor",
  "package": "f3",
  "package_path": "[local]/f3",
  "run_id": "f3b_si3_hpylori_gastritis_s11_across",
  "source_png": "[local]/hpylori_gastritis_s11_across.png",
  "source_sha256": "1160d00794a7ba383c713306e6888bb8c387b665dd9e4e9a22ced679ad38d2c8",
  "cartoon_stem": "hpylori_gastritis_s11_across",
  "cartoon_set": "a1",
  "cartoon_seed": "11",
  "cut": "across",
  "provenance_class": "procedural-layout",
  "provenance_class_meaning": "F3 coarse (5-channel) structure adapter conditioned on the procedural drawing's label map; the layout in the image is the procedural drawing's, and the appearance comes from one donor field's tokens",
  "donor_fields": [
    "hiesd-28f9b423__hpylori_gastritis__34688_2112__mpp0.25.png"
  ],
  "n_donor_fields": 1,
  "token_source": "donor",
  "token_assignment_file": "",
  "token_assignment_sha256": "",
  "token_assignment_windows": null,
  "token_assignment_donor_fields": null,
  "token_patchbag_seed_base": null,
  "token_patchbag_library": null,
  "adapter_checkpoint": "[local]/step_003000",
  "adapter_sha256": "e49b6e1f02a6e44ed4d4d7a6cffbefac05af103850dfef671f910b88a643fa2d",
  "adapter_scale": 1.0,
  "adapter_cond_channels": 5,
  "adapter_label_groups": [
    [
      0
    ],
    [
      1
    ],
    [
      2,
      3,
      4
    ],
    [
      5,
      6
    ],
    [
      7,
      8
    ]
  ],
  "label_map": "[local]/hpylori_gastritis_s11_across_labels.png",
  "generator_seed": 51003,
  "start_index": 3,
  "steps": 20,
  "guidance_scale": 1.5,
  "windows": 21,
  "pass1_reference": "[local]/hpylori_gastritis_s11_across.png",
  "pass1_reference_sha256": "e15a33b8208ed1696a64e22fe3220556e4f74457b13591b2ab7864b6f66f60d9",
  "parent_run_id": "f3b_fromnoise_hpylori_gastritis_s11_across",
  "parent_arm": "B_fromnoise",
  "parent_seed": 51001,
  "parent_tokens": "hiesd-28f9b423__hpylori_gastritis__34688_2112__mpp0.25.png",
  "instruments": {
    "envelope_D_mahalanobis": 3.848737467310962,
    "inside_heldout_band": 1,
    "pct_vs_heldout": 33.33333333333333,
    "ring_with_lumen_fraction": 0.9014084507042254,
    "ring_inside_real_range": 1,
    "ring_count": 71.0,
    "ring_density_per_mm2": 139.91177019261846,
    "median_ring_area_um2": 353.77777777777777,
    "laplacian_abs_mean": 20.445941925048828,
    "str_nuc_density_per_mm2": 6229.138032593756,
    "nuc_density_per_mm2": 8282.382677740497,
    "nuc_area_median_um2": 21.333333333333332,
    "pale_tissue_fraction": 0.2944093971663816,
    "layout_iou_lumen": 0.3045057618679391
  },
  "screens_at_selection_time": {
    "_note": "the numbers the selection rule used, measured on the pre-overlay source PNG in its own package's evaluation; screens/ re-runs both screens on the ten final (post-overlay) files",
    "phikon_max_cosine": 0.8967874050140381,
    "copy_margin_0.95_minus_max": 0.05321259498596187,
    "ncc_max": 0.4565,
    "ncc_pairs": 1,
    "ncc_flagged_windows": 0,
    "own_source_fraction": 1.0
  },
  "window_seam_check": {
    "_note": "mean absolute horizontal gradient per column; value at the 1024-window boundaries (x=512,1024,...) divided by the median of the 32 columns around each, and the same statistic 256 px off-boundary as a null. Real held-out fields have no windows at all and sit at 0.948-1.005.",
    "at_window_boundaries_median": 0.9765134431916739,
    "off_boundary_null_median": 1.0002588223676045,
    "max": 1.1343407736032165
  },
  "real_heldout_reference_for_comparison": "hiesd-0d55cc29__hpylori_gastritis__118720_7424__mpp0.25.png",
  "eye_check": "Groups of epithelial cells with pale granular cytoplasm and dark, mostly ovoid nuclei that in places form a single row along the edge of a cell group; small irregular clear spaces between the groups read as pit lumina rather than as open gland lumina. Between the groups a dense scatter of small round dark nuclei reads as inflamed lamina propria (stromal nuclear density 6229/mm2 against a real held-out 4588 - the only final that is above real on that axis). No surface epithelium in the crop; a wide pale lumen exists elsewhere on the canvas at (2475,0) and that is where the overlay put its rods. Spot-checked at (600,1300) and (3200,300): glands with granular pale cytoplasm, and a lymphocyte-rich field with small clear spaces. No tiling, no repeated motif, no seam (window-boundary column ratio 0.977 against an off-boundary null of 1.000). Against the real crop: the real field has one broad columnar band with a clean basal nuclear row, red cells in vessels and much finer fibrillar stroma; this one is more crowded and its epithelium is less polarised.",
  "organisms": {
    "renderer": "research/sgh-synthetic-histopathology/scripts/pixcell_hp_stage.py --renderer surface",
    "renderer_version": "surface-mucus-v3",
    "seed": 7301,
    "requested": 90,
    "placed": 90,
    "sidecar": "[local]/SGH_synthetic_01__hp-stage-records.json",
    "pre_overlay_png": "[local]/SGH_synthetic_01__pre-overlay.png",
    "pre_overlay_sha256": "1160d00794a7ba383c713306e6888bb8c387b665dd9e4e9a22ced679ad38d2c8",
    "surface_diagnostic": {
      "lumen_frac": 0.23025715351104736,
      "components": 34278,
      "max_component_px": 44154,
      "components_ge_20000": 2
    },
    "procedural": true,
    "note": null,
    "eye_check": "Cluster at (2635,125), 6 rods of the 90 placed. At 2x, faint grey-violet curved rods 10-18 px long lie inside a pale pit lumen and along its epithelial rim, in the orientation the renderer intends (roughly parallel to the nearest dark surface). They read as an overlay rather than as objects in the mucus: every rod has the same colour and edge softness and none is partly obscured by mucus or out of focus."
  },
  "publication_note": "Research candidate, not clinically verified. Local paths omitted; original image SHA-256 unchanged."
}