{ "schema_version": 1, "method": "swin-unetr-mlx 0.2.5 SwinUNETR BTCV inference on one TCIA contrast CT, shown as axial slices with semi-transparent predicted labels", "runtime": { "package": "swin-unetr-mlx", "version": "0.2.5", "medmlx_core_version": "0.2.5", "mlx_version": "0.32.4", "python_version": "3.13.18", "macos_version": "27.2", "device": "Apple M5 Max GPU (Device(gpu, 0))", "precision": "float32", "entry_point": "swin_unetr_mlx.medmlx.run" }, "weights": { "repository": "MedMLX/swin-unetr-mlx", "file": "swinunetr.safetensors", "sha256": "629d0e51cd0763e278f76ede496e495611c8b523804316f7e8d9c1354df53a56", "matches_revision": "0052abb4bfb1c56bd7d52d5353267393399b8743", "identity": "file sha256 equals the Git LFS oid of swinunetr.safetensors at that Hugging Face revision; read from the local cache without changes", "upstream_bundle": "MONAI/swin_unetr_btcv_segmentation" }, "source": { "dataset": "HCC-TACE-Seg", "collection_doi": "10.7937/TCIA.5FNA-0924", "source_url": "https://www.cancerimagingarchive.net/collection/hcc-tace-seg/", "license": "CC BY 4.0", "case": "HCC_063", "study_instance_uid": "1.3.6.1.4.1.14519.5.2.1.1706.8374.318441467603028280579017661087", "series_instance_uid": "1.3.6.1.4.1.14519.5.2.1.1706.8374.125226904930109418407714368092", "series_number": 6, "series_description": "Recon 3: LIVER 2 PHASE (C/A/P)", "study_description": "CT C/A/P LIVER PR.", "contrast_bolus_agent": null, "contrast_bolus_route": "Oral & IV", "slice_thickness_mm": 2.5, "convolution_kernel": "STANDARD", "dicom_files": 99, "dicom_bytes": 52163298, "dicom_listing_sha256": "832b65475a7ea68760742860b41e5334775ec7a2528cec4d6d67963fc861f9d1", "dicom_listing_rule": "sha256 of \" \\n\" lines in GDCM slice order", "conversion": { "method": "SimpleITK ImageSeriesReader (GDCM) with rescale slope/intercept to HU, cast to int16 and written as gzip NIfTI by SimpleITK; read-back is voxel-identical. No resampling, reorientation or intensity change.", "simpleitk_version": "2.5.7", "size_xyz": [ 512, 512, 99 ], "spacing_mm_xyz": [ 0.859375, 0.859375, 2.5 ], "origin_lps_mm": [ -220.0, -260.0, -421.0 ], "direction_lps": [ 1.0, 0.0, 0.0, 0.0, 1.0, 0.0, 0.0, 0.0, 1.0 ], "hu_range": [ -2048, 1158 ] }, "ct_nifti_sha256": "5ed6ebe1e40f787b1afb9afff4ea61d530d9c1ecaaf8f2275a4a92762e38df61" }, "inference": { "preprocessing": "Runner defaults from the pinned MONAI bundle config: ITK read, RAS orientation, bilinear resampling to 1.5 x 1.5 x 2.0 mm, clip -175..250 HU and scale to [0, 1]; 96^3 sliding windows, batch 4, overlap 0.5, constant blending; softmax, inverse spacing and orientation, argmax on the input grid.", "labels_present": [ 0, 1, 2, 3, 4, 5, 6, 7, 8, 9, 10, 11, 12, 13 ], "network_input_shape": [ 294, 294, 124 ], "peak_mlx_bytes": 7427478344, "seconds": { "load_inputs_and_weights": 0.2961, "preprocess": 0.2801, "inference": 12.2542, "postprocess_and_write": 4.5856 }, "mask_nifti_sha256": "6192b7a0191af29e01797c926b1d08b4d880ae3b60cf7a4af0324f6d1d0a7d7a", "local_artifact": "dist/abdomen-scroll-demo/swin-unetr/ct/ct_trans.nii.gz" }, "label_map": { "0": "background", "1": "spleen", "2": "right kidney", "3": "left kidney", "4": "gallbladder", "5": "esophagus", "6": "liver", "7": "stomach", "8": "aorta", "9": "inferior vena cava", "10": "portal and splenic veins", "11": "pancreas", "12": "right adrenal gland", "13": "left adrenal gland" }, "display": { "renderer": "docs/hero/render_abdomen_scroll.py", "renderer_sha256": "2911309ad304c8a971719ea681dd12583d6ea11bdedce6443a4b0ccedaa6ba77", "orientation": "Axial, radiological display: patient right on image left, anterior at top; DICOM pixel rows and columns unflipped", "ct_window_hu": { "level": 40, "width": 400, "range": [ -160.0, 240.0 ] }, "overlay": { "mode": "fill", "alpha": 0.5, "outlines": false, "unlabelled": "plain grayscale CT" }, "palette_rgb": { "spleen": [ 70, 166, 160 ], "right kidney": [ 222, 142, 62 ], "left kidney": [ 222, 142, 62 ], "gallbladder": [ 218, 208, 92 ], "esophagus": [ 196, 116, 178 ], "liver": [ 190, 106, 120 ], "stomach": [ 148, 116, 204 ], "aorta": [ 214, 72, 66 ], "inferior vena cava": [ 72, 96, 196 ], "portal and splenic veins": [ 112, 178, 222 ], "pancreas": [ 122, 184, 102 ], "right adrenal gland": [ 232, 214, 162 ], "left adrenal gland": [ 232, 214, 162 ] }, "slice_range": { "rule": "longest contiguous run of axial slices where at least four of ['left kidney', 'liver', 'pancreas', 'right kidney', 'spleen', 'stomach'] each cover >= 100 mm^2 in the prediction", "first_index": 33, "last_index": 67, "slices": 35, "z_lps_mm": [ -338.5, -253.5 ], "index_convention": "SimpleITK array index, 0 = most inferior slice" }, "organs_in_range": { "spleen": { "label": 1, "slices": 31, "max_area_mm2": 4338.8 }, "right kidney": { "label": 2, "slices": 34, "max_area_mm2": 1967.4 }, "left kidney": { "label": 3, "slices": 35, "max_area_mm2": 2245.9 }, "gallbladder": { "label": 4, "slices": 18, "max_area_mm2": 209.0 }, "liver": { "label": 6, "slices": 35, "max_area_mm2": 16247.6 }, "stomach": { "label": 7, "slices": 35, "max_area_mm2": 8515.9 }, "aorta": { "label": 8, "slices": 35, "max_area_mm2": 426.9 }, "inferior vena cava": { "label": 9, "slices": 35, "max_area_mm2": 651.4 }, "portal and splenic veins": { "label": 10, "slices": 20, "max_area_mm2": 921.7 }, "pancreas": { "label": 11, "slices": 24, "max_area_mm2": 2645.4 }, "right adrenal gland": { "label": 12, "slices": 7, "max_area_mm2": 86.4 }, "left adrenal gland": { "label": 13, "slices": 13, "max_area_mm2": 200.1 } }, "poster": { "slice_index": 50, "z_lps_mm": -296.0, "rule": "in-range slice whose smallest core-organ area is largest; also the first video frame", "smallest_core_area_mm2": 1898.7 }, "body_mask": "largest 3D CT > -300 HU component, holes filled per axial slice; pixels outside it set to black; contains every displayed label", "source_crop_xyxy": [ -35, 76, 530, 443 ], "crop_rule": "union body bounding box over the range, 12-pixel margin, widened to 800:520; same crop for every frame; out-of-image area black", "display_resampling": "uniform Lanczos of the composited RGB panel", "label_editing": false, "interslice_interpolation": false, "frame_schedule": "cosine ping-pong: slice = first + round((n-1)(1 - cos(2*pi*k/frames + phase))/2), phase chosen so frame 0 is the poster slice; each frame is one whole real slice; seamless loop", "frames": 192 }, "encode": { "video": { "codec": "H.264 (libx264)", "preset": "veryslow", "crf": 28, "pix_fmt": "yuv420p", "color": "BT.709, limited range", "fps": 24, "seconds": 8, "size_px": [ 800, 520 ], "audio": false, "movflags": "+faststart", "ffmpeg": "ffmpeg version 7.1", "decoded_frames": 192, "outside_body_decoded_max_rgb": 0, "sha256": "f4d189a06a92f35c5302d7b08b67da922c284861debc40dc02a0d51f363b0296", "bytes": 687167 }, "poster": { "format": "WebP", "quality": 85, "method": 6, "size_px": [ 800, 520 ], "sha256": "91bb68656a3bb51e2624809c832fd29b5d60a2627c6bedcb51b8bcfca2cc3bb3", "bytes": 32976 } }, "outputs": { "video": "site/assets/hero/abdomen-scroll.mp4", "poster": "site/assets/hero/abdomen-scroll-poster.webp" }, "interpretation": "Automated organ labels on one public, de-identified case for a software visualization. Not reviewed, not a clinical finding and not a performance validation. HCC-TACE-Seg reference segmentations were not used." }