Add files using upload-large-folder tool

corrections/veridah_manifest.json

@@ -0,0 +1,387 @@
+{
+  "version": "0.6.0",
+  "csv_source": "/wsu/home/go/go24/go2432/VerSeFusion/configs/veridah_corrections.csv",
+  "n_scans": 374,
+  "n_corrected": 14,
+  "n_passthrough": 360,
+  "by_correction_type": {
+    "t13_shift": 12,
+    "label_override": 2
+  },
+  "corrections": [
+    {
+      "series_id": "verse011",
+      "fid": "verse011",
+      "veridah_applied": false,
+      "correction_type": "advisory_only",
+      "remap": {},
+      "tltv": false,
+      "sr_left": false,
+      "sr_right": false,
+      "error": null
+    },
+    {
+      "series_id": "verse119",
+      "fid": "verse119",
+      "veridah_applied": false,
+      "correction_type": "advisory_only",
+      "remap": {},
+      "tltv": false,
+      "sr_left": false,
+      "sr_right": false,
+      "error": null
+    },
+    {
+      "series_id": "verse255",
+      "fid": "verse403_split-verse255",
+      "veridah_applied": false,
+      "correction_type": "advisory_only",
+      "remap": {},
+      "tltv": true,
+      "sr_left": false,
+      "sr_right": true,
+      "error": null
+    },
+    {
+      "series_id": "verse261",
+      "fid": "verse406_split-verse261",
+      "veridah_applied": false,
+      "correction_type": "advisory_only",
+      "remap": {},
+      "tltv": false,
+      "sr_left": false,
+      "sr_right": false,
+      "error": null
+    },
+    {
+      "series_id": "verse270",
+      "fid": "verse411_split-verse270",
+      "veridah_applied": false,
+      "correction_type": "advisory_only",
+      "remap": {},
+      "tltv": false,
+      "sr_left": false,
+      "sr_right": false,
+      "error": null
+    },
+    {
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+      "fid": "verse416_split-verse279",
+      "veridah_applied": false,
+      "correction_type": "advisory_only",
+      "remap": {},
+      "tltv": false,
+      "sr_left": false,
+      "sr_right": false,
+      "error": null
+    },
+    {
+      "series_id": "verse509",
+      "fid": "verse509_dir-iso",
+      "veridah_applied": true,
+      "correction_type": "t13_shift",
+      "remap": {
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+        "21": 20,
+        "22": 21,
+        "23": 22,
+        "24": 23,
+        "25": 24
+      },
+      "tltv": true,
+      "sr_left": true,
+      "sr_right": true,
+      "error": null
+    },
+    {
+      "series_id": "verse512",
+      "fid": "verse512_dir-iso",
+      "veridah_applied": true,
+      "correction_type": "t13_shift",
+      "remap": {
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+        "21": 20,
+        "22": 21,
+        "23": 22,
+        "24": 23
+      },
+      "tltv": true,
+      "sr_left": true,
+      "sr_right": true,
+      "error": null
+    },
+    {
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+      "fid": "verse513",
+      "veridah_applied": true,
+      "correction_type": "t13_shift",
+      "remap": {
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+        "21": 20,
+        "22": 21,
+        "23": 22,
+        "24": 23
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+      "tltv": true,
+      "sr_left": true,
+      "sr_right": true,
+      "error": null
+    },
+    {
+      "series_id": "verse542",
+      "fid": "verse542_dir-iso",
+      "veridah_applied": false,
+      "correction_type": "advisory_only",
+      "remap": {},
+      "tltv": true,
+      "sr_left": false,
+      "sr_right": false,
+      "error": null
+    },
+    {
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+      "fid": "verse557_dir-ax",
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+      "correction_type": "t13_shift",
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+        "21": 20,
+        "22": 21,
+        "23": 22,
+        "24": 23
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+      "sr_left": true,
+      "sr_right": true,
+      "error": null
+    },
+    {
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+      "fid": "verse559",
+      "veridah_applied": true,
+      "correction_type": "label_override",
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+        "21": 20,
+        "22": 21,
+        "23": 22,
+        "24": 23
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+      "tltv": true,
+      "sr_left": true,
+      "sr_right": true,
+      "error": null
+    },
+    {
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+      "fid": "verse560_dir-iso",
+      "veridah_applied": false,
+      "correction_type": "advisory_only",
+      "remap": {},
+      "tltv": false,
+      "sr_left": false,
+      "sr_right": false,
+      "error": null
+    },
+    {
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+      "fid": "verse576",
+      "veridah_applied": true,
+      "correction_type": "t13_shift",
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+        "21": 20,
+        "22": 21,
+        "23": 22,
+        "24": 23,
+        "25": 24
+      },
+      "tltv": true,
+      "sr_left": true,
+      "sr_right": true,
+      "error": null
+    },
+    {
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+      "fid": "verse587_dir-iso",
+      "veridah_applied": true,
+      "correction_type": "t13_shift",
+      "remap": {
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+        "21": 20,
+        "22": 21,
+        "23": 22,
+        "24": 23
+      },
+      "tltv": true,
+      "sr_left": true,
+      "sr_right": true,
+      "error": null
+    },
+    {
+      "series_id": "verse593",
+      "fid": "verse593_dir-sag",
+      "veridah_applied": true,
+      "correction_type": "t13_shift",
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+        "21": 20,
+        "22": 21,
+        "23": 22,
+        "24": 23,
+        "25": 24
+      },
+      "tltv": true,
+      "sr_left": true,
+      "sr_right": true,
+      "error": null
+    },
+    {
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+      "fid": "verse599_dir-iso",
+      "veridah_applied": true,
+      "correction_type": "t13_shift",
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+        "21": 20,
+        "22": 21,
+        "23": 22,
+        "24": 23
+      },
+      "tltv": true,
+      "sr_left": true,
+      "sr_right": true,
+      "error": null
+    },
+    {
+      "series_id": "verse606",
+      "fid": "verse606",
+      "veridah_applied": false,
+      "correction_type": "label_override",
+      "remap": {},
+      "tltv": true,
+      "sr_left": true,
+      "sr_right": false,
+      "error": "length_mismatch:mask=18,override=19"
+    },
+    {
+      "series_id": "verse613",
+      "fid": "verse613_dir-iso",
+      "veridah_applied": true,
+      "correction_type": "t13_shift",
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+        "21": 20,
+        "22": 21,
+        "23": 22,
+        "24": 23,
+        "25": 24
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+      "tltv": true,
+      "sr_left": true,
+      "sr_right": true,
+      "error": null
+    },
+    {
+      "series_id": "verse620",
+      "fid": "verse620_dir-iso",
+      "veridah_applied": true,
+      "correction_type": "t13_shift",
+      "remap": {
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+        "21": 20,
+        "22": 21,
+        "23": 22,
+        "24": 23,
+        "25": 24
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+      "tltv": true,
+      "sr_left": false,
+      "sr_right": true,
+      "error": null
+    },
+    {
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+      "fid": "verse623",
+      "veridah_applied": true,
+      "correction_type": "t13_shift",
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+        "21": 20,
+        "22": 21,
+        "23": 22,
+        "24": 23,
+        "25": 24
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+      "tltv": true,
+      "sr_left": true,
+      "sr_right": true,
+      "error": null
+    },
+    {
+      "series_id": "verse642",
+      "fid": "verse642_dir-sag",
+      "veridah_applied": true,
+      "correction_type": "label_override",
+      "remap": {
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+        "6": 7,
+        "7": 8,
+        "8": 9,
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+        "10": 11,
+        "11": 12,
+        "12": 13,
+        "13": 14,
+        "14": 15,
+        "15": 16,
+        "16": 17,
+        "17": 18,
+        "18": 19
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+      "tltv": false,
+      "sr_left": false,
+      "sr_right": false,
+      "error": null
+    },
+    {
+      "series_id": "verse757",
+      "fid": "verse757",
+      "veridah_applied": false,
+      "correction_type": "advisory_only",
+      "remap": {},
+      "tltv": false,
+      "sr_left": false,
+      "sr_right": false,
+      "error": null
+    },
+    {
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+      "fid": "verse765",
+      "veridah_applied": true,
+      "correction_type": "t13_shift",
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+        "23": 22,
+        "24": 23
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+      "tltv": true,
+      "sr_left": true,
+      "sr_right": true,
+      "error": null
+    },
+    {
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+      "fid": "verse803_dir-iso",
+      "veridah_applied": false,
+      "correction_type": "advisory_only",
+      "remap": {},
+      "tltv": false,
+      "sr_left": false,
+      "sr_right": false,
+      "error": null
+    }
+  ]
+}

manifest_summary.json

@@ -0,0 +1,44 @@
+{
+  "n_total": 374,
+  "n_patients": 355,
+  "splits": {
+    "training": 141,
+    "validation": 120,
+    "test": 113
+  },
+  "lstv_class": {
+    "normal": 306,
+    "lumbarization": 44,
+    "t13_supernumerary": 18,
+    "truncated": 6
+  },
+  "source_dataset": {
+    "verse20": 309,
+    "verse19": 65
+  },
+  "source_format": {
+    "miccai": 361,
+    "bids": 13
+  },
+  "veridah_applied": 14,
+  "lstv_per_split": {
+    "test": {
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+      "lumbarization": 15,
+      "t13_supernumerary": 8,
+      "truncated": 1
+    },
+    "training": {
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+      "lumbarization": 15,
+      "truncated": 2,
+      "t13_supernumerary": 4
+    },
+    "validation": {
+      "normal": 97,
+      "lumbarization": 14,
+      "t13_supernumerary": 6,
+      "truncated": 3
+    }
+  }
+}

scans/gl016/meta.json

@@ -0,0 +1,26 @@
+{
+  "series_id": "gl016",
+  "source_tag": "canonical",
+  "files": {
+    "ct": "ct.nii.gz",
+    "mask": "mask.nii.gz"
+  },
+  "orientation_axcodes": [
+    "P",
+    "I",
+    "R"
+  ],
+  "spacing_mm": [
+    0.3515619933605194,
+    1.25,
+    0.3515619933605194
+  ],
+  "shape": [
+    512,
+    180,
+    512
+  ],
+  "split": "training",
+  "patient_id": "gl016",
+  "source_format": "miccai"
+}

scans/verse596/meta.json

@@ -0,0 +1,26 @@
+{
+  "series_id": "verse596",
+  "source_tag": "canonical",
+  "files": {
+    "ct": "ct.nii.gz",
+    "mask": "mask.nii.gz"
+  },
+  "orientation_axcodes": [
+    "P",
+    "I",
+    "R"
+  ],
+  "spacing_mm": [
+    0.75,
+    1.0,
+    0.75
+  ],
+  "shape": [
+    512,
+    319,
+    512
+  ],
+  "split": "training",
+  "patient_id": "verse596",
+  "source_format": "miccai"
+}

scans/verse605/meta.json

@@ -0,0 +1,26 @@
+{
+  "series_id": "verse605",
+  "source_tag": "canonical",
+  "files": {
+    "ct": "ct.nii.gz",
+    "mask": "mask.nii.gz"
+  },
+  "orientation_axcodes": [
+    "P",
+    "I",
+    "R"
+  ],
+  "spacing_mm": [
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+    0.6248812675476074,
+    3.0
+  ],
+  "shape": [
+    512,
+    1053,
+    95
+  ],
+  "split": "training",
+  "patient_id": "verse605",
+  "source_format": "miccai"
+}

scans/verse612/meta.json

@@ -0,0 +1,26 @@
+{
+  "series_id": "verse612",
+  "source_tag": "canonical",
+  "files": {
+    "ct": "ct.nii.gz",
+    "mask": "mask.nii.gz"
+  },
+  "orientation_axcodes": [
+    "P",
+    "I",
+    "R"
+  ],
+  "spacing_mm": [
+    0.708984375,
+    0.9000015258789062,
+    0.708984375
+  ],
+  "shape": [
+    512,
+    482,
+    512
+  ],
+  "split": "validation",
+  "patient_id": "verse612",
+  "source_format": "miccai"
+}

scans/verse621/meta.json

@@ -0,0 +1,26 @@
+{
+  "series_id": "verse621",
+  "source_tag": "canonical",
+  "files": {
+    "ct": "ct.nii.gz",
+    "mask": "mask.nii.gz"
+  },
+  "orientation_axcodes": [
+    "P",
+    "I",
+    "R"
+  ],
+  "spacing_mm": [
+    0.7578125,
+    0.899993896484375,
+    0.7578125
+  ],
+  "shape": [
+    512,
+    582,
+    512
+  ],
+  "split": "validation",
+  "patient_id": "verse621",
+  "source_format": "miccai"
+}

scans/verse645/meta.json

@@ -0,0 +1,26 @@
+{
+  "series_id": "verse645",
+  "source_tag": "canonical",
+  "files": {
+    "ct": "ct.nii.gz",
+    "mask": "mask.nii.gz"
+  },
+  "orientation_axcodes": [
+    "P",
+    "I",
+    "R"
+  ],
+  "spacing_mm": [
+    0.62890625,
+    0.9000005722045898,
+    0.62890625
+  ],
+  "shape": [
+    512,
+    333,
+    512
+  ],
+  "split": "validation",
+  "patient_id": "verse645",
+  "source_format": "miccai"
+}

scans/verse646/meta.json

@@ -0,0 +1,26 @@
+{
+  "series_id": "verse646",
+  "source_tag": "canonical",
+  "files": {
+    "ct": "ct.nii.gz",
+    "mask": "mask.nii.gz"
+  },
+  "orientation_axcodes": [
+    "P",
+    "I",
+    "R"
+  ],
+  "spacing_mm": [
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+    0.8999999761581421,
+    0.873046875
+  ],
+  "shape": [
+    512,
+    755,
+    512
+  ],
+  "split": "training",
+  "patient_id": "verse646",
+  "source_format": "miccai"
+}

scans/verse648/meta.json

@@ -0,0 +1,26 @@
+{
+  "series_id": "verse648",
+  "source_tag": "canonical",
+  "files": {
+    "ct": "ct.nii.gz",
+    "mask": "mask.nii.gz"
+  },
+  "orientation_axcodes": [
+    "P",
+    "I",
+    "R"
+  ],
+  "spacing_mm": [
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+    0.9000005722045898,
+    0.9609375
+  ],
+  "shape": [
+    512,
+    240,
+    512
+  ],
+  "split": "test",
+  "patient_id": "verse648",
+  "source_format": "miccai"
+}

scans/verse649/meta.json

@@ -0,0 +1,26 @@
+{
+  "series_id": "verse649",
+  "source_tag": "canonical",
+  "files": {
+    "ct": "ct.nii.gz",
+    "mask": "mask.nii.gz"
+  },
+  "orientation_axcodes": [
+    "P",
+    "I",
+    "R"
+  ],
+  "spacing_mm": [
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+    0.5586923956871033,
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+  "shape": [
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+    162
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+  "split": "test",
+  "patient_id": "verse649",
+  "source_format": "miccai"
+}

scans/verse650/meta.json

@@ -0,0 +1,26 @@
+{
+  "series_id": "verse650",
+  "source_tag": "canonical",
+  "files": {
+    "ct": "ct.nii.gz",
+    "mask": "mask.nii.gz"
+  },
+  "orientation_axcodes": [
+    "P",
+    "I",
+    "R"
+  ],
+  "spacing_mm": [
+    0.630859375,
+    0.5999755859375,
+    0.630859375
+  ],
+  "shape": [
+    512,
+    532,
+    512
+  ],
+  "split": "test",
+  "patient_id": "verse650",
+  "source_format": "miccai"
+}

scans/verse651/meta.json

@@ -0,0 +1,26 @@
+{
+  "series_id": "verse651",
+  "source_tag": "canonical",
+  "files": {
+    "ct": "ct.nii.gz",
+    "mask": "mask.nii.gz"
+  },
+  "orientation_axcodes": [
+    "P",
+    "I",
+    "R"
+  ],
+  "spacing_mm": [
+    0.578125,
+    0.60009765625,
+    0.578125
+  ],
+  "shape": [
+    512,
+    339,
+    512
+  ],
+  "split": "test",
+  "patient_id": "verse651",
+  "source_format": "miccai"
+}

scans/verse700/meta.json

@@ -0,0 +1,26 @@
+{
+  "series_id": "verse700",
+  "source_tag": "canonical",
+  "files": {
+    "ct": "ct.nii.gz",
+    "mask": "mask.nii.gz"
+  },
+  "orientation_axcodes": [
+    "P",
+    "I",
+    "R"
+  ],
+  "spacing_mm": [
+    1.0100000389447523,
+    1.0099999596154745,
+    3.000040432997428
+  ],
+  "shape": [
+    560,
+    560,
+    152
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+  "split": "test",
+  "patient_id": "verse700",
+  "source_format": "miccai"
+}

scans/verse701/meta.json

@@ -0,0 +1,26 @@
+{
+  "series_id": "verse701",
+  "source_tag": "canonical",
+  "files": {
+    "ct": "ct.nii.gz",
+    "mask": "mask.nii.gz"
+  },
+  "orientation_axcodes": [
+    "P",
+    "I",
+    "R"
+  ],
+  "spacing_mm": [
+    0.7820000052452087,
+    0.7820000052452087,
+    3.0
+  ],
+  "shape": [
+    616,
+    616,
+    127
+  ],
+  "split": "validation",
+  "patient_id": "verse701",
+  "source_format": "miccai"
+}

scans/verse702/meta.json

@@ -0,0 +1,26 @@
+{
+  "series_id": "verse702",
+  "source_tag": "canonical",
+  "files": {
+    "ct": "ct.nii.gz",
+    "mask": "mask.nii.gz"
+  },
+  "orientation_axcodes": [
+    "P",
+    "I",
+    "R"
+  ],
+  "spacing_mm": [
+    0.8050000071525574,
+    0.8050000071525574,
+    3.0
+  ],
+  "shape": [
+    600,
+    600,
+    129
+  ],
+  "split": "test",
+  "patient_id": "verse702",
+  "source_format": "miccai"
+}

scans/verse703/meta.json

@@ -0,0 +1,26 @@
+{
+  "series_id": "verse703",
+  "source_tag": "canonical",
+  "files": {
+    "ct": "ct.nii.gz",
+    "mask": "mask.nii.gz"
+  },
+  "orientation_axcodes": [
+    "P",
+    "I",
+    "R"
+  ],
+  "spacing_mm": [
+    0.656000018119812,
+    0.800048828125,
+    0.656000018119812
+  ],
+  "shape": [
+    512,
+    581,
+    512
+  ],
+  "split": "validation",
+  "patient_id": "verse703",
+  "source_format": "miccai"
+}

scans/verse704/meta.json

@@ -0,0 +1,26 @@
+{
+  "series_id": "verse704",
+  "source_tag": "canonical",
+  "files": {
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+}

scans/verse705/meta.json

@@ -0,0 +1,26 @@
+{
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scans/verse706/meta.json

@@ -0,0 +1,26 @@
+{
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scans/verse707/meta.json

@@ -0,0 +1,26 @@
+{
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scans/verse708/meta.json

@@ -0,0 +1,26 @@
+{
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scans/verse709/meta.json

@@ -0,0 +1,26 @@
+{
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scans/verse753/meta.json

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+{
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scans/verse760/meta.json

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+{
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scans/verse766/meta.json

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+{
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scans/verse769/meta.json

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+{
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scans/verse801/meta.json

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+{
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scans/verse802/meta.json

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+{
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scans/verse803/meta.json

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+{
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scans/verse804/meta.json

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+{
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scans/verse806/meta.json

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+{
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scans/verse807/meta.json

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+{
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scans/verse808/meta.json

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+{
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scans/verse809/meta.json

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+{
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scans/verse810/meta.json

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+{
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scans/verse811/meta.json

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+{
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scans/verse813/meta.json

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+{
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scans/verse814/meta.json

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+{
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scans/verse815/meta.json

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+{
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scans/verse816/meta.json

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+{
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scans/verse817/meta.json

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+{
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scans/verse818/meta.json

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+{
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+}

scans/verse820/meta.json

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+{
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scans/verse821/meta.json

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+{
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+}

scans/verse823/meta.json

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+{
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+}

scans/verse824/meta.json

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+{
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+}

scans/verse825/meta.json

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+{
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+}

scans/verse826/meta.json

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+{
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+}

scans/verse833/meta.json

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+{
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+  ],
+  "split": "training",
+  "patient_id": "verse833",
+  "source_format": "miccai"
+}