Record validated remote loading and immutable development code provenance

evaluation/remote_validation.json

@@ -0,0 +1,93 @@
+{
+  "status": "passed",
+  "hub_sha": "26451080545fd06a2122e55e8afb8f2b4eac80e8",
+  "configs": [
+    {
+      "config": "recordings",
+      "streaming": false,
+      "rows": 264,
+      "status": "passed"
+    },
+    {
+      "config": "recordings",
+      "streaming": true,
+      "rows": null,
+      "status": "passed"
+    },
+    {
+      "config": "detections",
+      "streaming": false,
+      "rows": 420470,
+      "status": "passed"
+    },
+    {
+      "config": "detections",
+      "streaming": true,
+      "rows": null,
+      "status": "passed"
+    },
+    {
+      "config": "tracks",
+      "streaming": false,
+      "rows": 420470,
+      "status": "passed"
+    },
+    {
+      "config": "tracks",
+      "streaming": true,
+      "rows": null,
+      "status": "passed"
+    },
+    {
+      "config": "posture",
+      "streaming": false,
+      "rows": 6400,
+      "status": "passed"
+    },
+    {
+      "config": "posture",
+      "streaming": true,
+      "rows": null,
+      "status": "passed"
+    },
+    {
+      "config": "anatomy",
+      "streaming": false,
+      "rows": 292,
+      "status": "passed"
+    },
+    {
+      "config": "anatomy",
+      "streaming": true,
+      "rows": null,
+      "status": "passed"
+    },
+    {
+      "config": "perturbations",
+      "streaming": false,
+      "rows": 739193,
+      "status": "passed"
+    },
+    {
+      "config": "perturbations",
+      "streaming": true,
+      "rows": null,
+      "status": "passed"
+    },
+    {
+      "config": "verification",
+      "streaming": false,
+      "rows": 739193,
+      "status": "passed"
+    },
+    {
+      "config": "verification",
+      "streaming": true,
+      "rows": null,
+      "status": "passed"
+    }
+  ],
+  "fresh_environment": true,
+  "remote_snapshot_sha256_files": 82,
+  "source_workspace_required": false
+}

metadata/assembly_counts.json

@@ -1,6 +1,6 @@
 {
   "version": "0.1.0-alpha.1",
-  "assembled_at": "2026-10-07T21:27:29.161109-04:00",
+  "assembled_at": "2026-10-07T21:32:05.000162-04:00",
   "inventory_recordings": 264,
   "wormid_inventory_assets": 118,
   "ingested": {

metadata/assembly_manifest.json

@@ -217,6 +217,11 @@
       "bytes": 4861,
       "sha256": "18c9dff89e7b8e94b0fbcef936666be8bda6e1319814f5596f0e6d7439073935"
     },
+    {
+      "path": "evaluation/remote_validation.json",
+      "bytes": 1791,
+      "sha256": "477d50f99c4665594088a0e496ba8220adae7406928e7280d393fc326fd23109"
+    },
     {
       "path": "evaluation/risk_coverage/clean.parquet",
       "bytes": 180696,
@@ -275,7 +280,7 @@
     {
       "path": "metadata/assembly_counts.json",
       "bytes": 1667,
-      "sha256": "ccc3dd60a6ca4182f56c49c52dcfef673e6025a7884d7fb7009b82b0e12d108e"
+      "sha256": "da9ef7a55e398b41d623cd58cd49f81b2d57839d35ae1fddeff23cfb8631cf40"
     },
     {
       "path": "metadata/client_manifest.json",
@@ -287,6 +292,11 @@
       "bytes": 488272,
       "sha256": "e91c0f3f6ab7a379c8b24ecb11a474fd44bf1a54c87256831a71865912cad2e5"
     },
+    {
+      "path": "metadata/development_code.json",
+      "bytes": 211,
+      "sha256": "67977a3183a04f4e1059636dc19d2a87ddef54aab0456e629f30fa4ce59d11d6"
+    },
     {
       "path": "metadata/hub_before.json",
       "bytes": 501,
@@ -389,8 +399,8 @@
     },
     {
       "path": "src/cell_tracking/data/wormtrack_verify/assembly.py",
-      "bytes": 27894,
-      "sha256": "832403b7c7c939a6daf0aa705f902c455e6b1c705365d30b0777ddf75d78f1eb"
+      "bytes": 28494,
+      "sha256": "f4c0d7ed2664442621f86233b35b46c8ef6e8dddf674c78fdd5e28fe9677086a"
     },
     {
       "path": "src/cell_tracking/data/wormtrack_verify/client.py",
@@ -399,8 +409,8 @@
     },
     {
       "path": "src/cell_tracking/data/wormtrack_verify/inventory.py",
-      "bytes": 2636,
-      "sha256": "8f48cc975fa617c7eeee023e50d71e12991304097a7a6acc11ff1cfd0082a10b"
+      "bytes": 4091,
+      "sha256": "d147019c38cbbd7a8556dfaf331948286335794e37102e512ccda8297d5d5134"
     },
     {
       "path": "src/cell_tracking/evaluation/__init__.py",

metadata/development_code.json

@@ -0,0 +1,6 @@
+{
+  "repository": "https://github.com/akgohain/cell-tracking",
+  "code_commit": "695880f9d93aad1b5dd649f4ad10c762c03b92d6",
+  "branch": "codex/wormtrack-verify-pilot",
+  "no_external_pretrained_weights": true
+}

src/cell_tracking/data/wormtrack_verify/assembly.py

@@ -475,6 +475,24 @@ def build(workspace, destination):
         components.setdefault(rid, {})["anatomy"] = table(
             root, f"data/anatomy/{rid}.parquet", cloud
         )
+        chars = group["ID_labels"][()]
+        ends = group["ID_labels_index"][()]
+        start, names = 0, []
+        for end in ends:
+            names.append(b"".join(chars[start:end]).decode())
+            start = end
+        table(
+            root,
+            "metadata/optional_neuronal_names.parquet",
+            pd.DataFrame(
+                {
+                    "recording_id": rid,
+                    "source_neuron_id": ids.astype(str),
+                    "biological_name": names,
+                    "used_in_primary_evaluation": False,
+                }
+            ),
+        )
         recording(rid).update(
             qc_status="reference_cloud_validated", voxel_size_um=json.dumps(spacing[()].tolist())
         )

src/cell_tracking/data/wormtrack_verify/inventory.py

@@ -31,6 +31,7 @@ def inventory(workspace):
     """
     out = Path(workspace) / "audit"
     out.mkdir(parents=True, exist_ok=True)
+    asset_provenance = {}
     for identifier in DANDI_COHORTS:
         base = f"https://api.dandiarchive.org/api/dandisets/{identifier}/versions/"
         versions = requests.get(base, timeout=60)
@@ -53,6 +54,17 @@ def inventory(workspace):
         (out / f"dandi-{identifier}-assets.json").write_text(
             json.dumps({"version": version, "assets": assets}, indent=2)
         )
+        for asset in assets:
+            response = requests.get(
+                f"https://api.dandiarchive.org/api/assets/{asset['asset_id']}/", timeout=60
+            )
+            response.raise_for_status()
+            value = response.json()
+            asset_provenance[asset["asset_id"]] = {
+                key: value.get(key)
+                for key in ["digest", "wasAttributedTo", "wasGeneratedBy", "datePublished"]
+            }
+    (out / "dandi-asset-provenance.json").write_text(json.dumps(asset_provenance, indent=2))
     for identifier in ZENODO:
         response = requests.get(f"https://zenodo.org/api/records/{identifier}", timeout=60)
         response.raise_for_status()
@@ -64,3 +76,27 @@ def inventory(workspace):
     response = requests.get(url, timeout=60)
     response.raise_for_status()
     (out / "wormid-tracking-split.csv").write_text(response.text)
+
+
+def snapshot_hub(workspace, repo_id="pytc/trackingBench"):
+    """Record the immutable Hub state before edits; does not publish or expose tokens."""
+    from huggingface_hub import HfApi, hf_hub_download
+
+    api = HfApi()
+    info = api.dataset_info(repo_id, files_metadata=True)
+    readme = Path(
+        hf_hub_download(repo_id, "README.md", repo_type="dataset", revision=info.sha)
+    ).read_text()
+    snapshot = {
+        "repo_id": repo_id,
+        "sha": info.sha,
+        "private": info.private,
+        "card": info.card_data.to_dict() if info.card_data else {},
+        "readme": readme,
+        "files": [
+            {"path": f.rfilename, "size": f.size, "blob_id": f.blob_id} for f in info.siblings
+        ],
+    }
+    Path(workspace).mkdir(parents=True, exist_ok=True)
+    (Path(workspace) / "hub-before.json").write_text(json.dumps(snapshot, indent=2))
+    return snapshot