Publish malecns-v1.0 (Fruit Fly Brain, 2026-09-13)

.gitattributes

@@ -58,3 +58,4 @@ saved_model/**/* filter=lfs diff=lfs merge=lfs -text
 # Video files - compressed
 *.mp4 filter=lfs diff=lfs merge=lfs -text
 *.webm filter=lfs diff=lfs merge=lfs -text
+artifacts/malecns-v1.0/edges.csv filter=lfs diff=lfs merge=lfs -text

artifacts/malecns-v1.0/PROVENANCE.md

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+# MaleCNS v1.0 — bounded measured artifact (Fruit Fly Brain)
+
+**Substrate**: MaleCNS v1.0 (adult male *Drosophila* CNS connectome), Janelia FlyEM.
+**License**: CC-BY-4.0 (Janelia). Attribution required.
+**Source**: https://male-cns.janelia.org/download/
+**Fetched**: 2026-09-13 by `scripts/fetch_malecns.py` (offline staging; not committed).
+
+## Files in this artifact
+
+| File | Rows / size | sha256 |
+| --- | --- | --- |
+| `edges.csv` (`pre,post,weight`) | 1,587,930 edges / 25.2 MB | `1893782015bc7bfc1524f9c8520580aafffb421c10cbb079e3d3cc66bf94a08f` |
+| `annotations.csv` (`root_id,cell_type,superclass`) | 283 KB | `b77d34254246446b1f43edb1616228d140b209e2db813fda583940fdd8b2725a` |
+| `neurotransmitters.csv` (`root_id,transmitter,confidence`) | 364 KB | `1a566c527121c748fb4c1997fbffdebfe59df6c76ab298b7ca5763104e17693e` |
+| `manifest.json` | provenance | — |
+
+- Bounded subset: **9,999 nodes / 1,587,930 edges**, selected by connected best-first
+  expansion from a deterministic seed set preferring CX / Kenyon_Cell / MBON / descending
+  classes (`max_neurons=10000`, `seed=0`). 15 self-loops retained.
+- Operator convention: `W[post, pre]`; weights are minconf-0.5 synapse counts.
+- The 1.05 GB raw connectivity and 43 MB neurotransmitter feathers are **not mirrored**
+  here; their exact URLs and sha256 are recorded in `manifest.json` (`sources`).
+
+## Reproduce / fetch
+
+```bash
+# Fetch the bounded artifact from this dataset (pinned revision):
+uv run --no-project --with huggingface_hub python scripts/hf_pull.py \
+  --repo nosuchstudios/fruit-fly-brain-runtime --revision <REVISION> \
+  --path-in-repo artifacts/malecns-v1.0 --dest /home/user/dev/hf/hf-stage/malecns
+```
+
+## Boundary (immutable)
+
+- MaleCNS is a **second measured substrate with a different ID namespace**: MaleCNS body IDs
+  are **not** FlyWire root IDs. Never join, map or compare neuron IDs across substrates;
+  compare only aggregate/graph-level statistics under matched nulls.
+- Weights are synapse counts, not signed effective weights; transmitter signs are
+  predictions (a prior), not ground truth.
+- No biological advantage, general memory, AGI or programming-expertise claim is made.

artifacts/malecns-v1.0/edges.csv

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+version https://git-lfs.github.com/spec/v1
+oid sha256:1893782015bc7bfc1524f9c8520580aafffb421c10cbb079e3d3cc66bf94a08f
+size 25207711

artifacts/malecns-v1.0/manifest.json

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+{
+  "annotations_path": "/home/user/dev/hf/hf-stage/malecns/annotations.csv",
+  "annotations_sha256": "b77d34254246446b1f43edb1616228d140b209e2db813fda583940fdd8b2725a",
+  "bounded": {
+    "max_neurons": 10000,
+    "max_selected_id": 1054499659,
+    "min_selected_id": 10001,
+    "mode": "bounded",
+    "n_edges": 1587930,
+    "n_seed_candidates": 8443,
+    "n_selected": 10000,
+    "rule": "Connected best-first expansion from a deterministic seed selection. Seeds prefer class CX / Kenyon_Cell / MBON and superclass containing 'descending'; otherwise a highest-degree sample. Neighbors are ranked by (degree desc, seed tie-break, id asc).",
+    "seed": 0
+  },
+  "dataset": "MaleCNS v1.0",
+  "degree_moments": {
+    "in_degree_max": 3224,
+    "in_strength": 1587930.0,
+    "n_edges": 1587930,
+    "n_nodes": 9999,
+    "out_degree_max": 2621,
+    "out_strength": 1587930.0,
+    "self_loops": 15
+  },
+  "edges_path": "/home/user/dev/hf/hf-stage/malecns/edges.csv",
+  "edges_sha256": "1893782015bc7bfc1524f9c8520580aafffb421c10cbb079e3d3cc66bf94a08f",
+  "id_namespace": "MaleCNS body IDs (NOT FlyWire root IDs)",
+  "license": "CC-BY-4.0",
+  "matrix_convention": "W[post, pre]",
+  "n_edges": 1587930,
+  "n_nodes": 9999,
+  "neurotransmitters_path": "/home/user/dev/hf/hf-stage/malecns/neurotransmitters.csv",
+  "neurotransmitters_sha256": "1a566c527121c748fb4c1997fbffdebfe59df6c76ab298b7ca5763104e17693e",
+  "output_bytes": {
+    "annotations.csv": 283053,
+    "edges.csv": 25207711,
+    "neurotransmitters.csv": 364160
+  },
+  "schema": "ffb-malecns-manifest-v1",
+  "self_loops": 15,
+  "source_url": "https://male-cns.janelia.org/download/",
+  "sources": {
+    "annotations": {
+      "bytes": 14483314,
+      "expected_license": "CC-BY-4.0",
+      "expected_sha256": "2177e246113e4cfbf1e7772ec37c6da1955ff22e8063d0b1f833101f99a9a3b2",
+      "gcs_uri": "gs://flyem-male-cns/v1.0/connectome-data/flat-connectome/body-annotations-male-cns-v1.0-minconf-0.5.feather",
+      "license": "CC-BY-4.0",
+      "license_matches_expected": true,
+      "name": "body-annotations-male-cns-v1.0-minconf-0.5.feather",
+      "repo": "gs://flyem-male-cns/v1.0/connectome-data/flat-connectome/",
+      "revision": "v1.0",
+      "role": "curated per-neuron annotations (classes, types, sides)",
+      "sha256": "2177e246113e4cfbf1e7772ec37c6da1955ff22e8063d0b1f833101f99a9a3b2",
+      "sha256_matches_expected": true,
+      "url": "https://storage.googleapis.com/flyem-male-cns/v1.0/connectome-data/flat-connectome/body-annotations-male-cns-v1.0-minconf-0.5.feather"
+    },
+    "connectivity": {
+      "bytes": 1051241946,
+      "expected_license": "CC-BY-4.0",
+      "expected_sha256": "e35da783d1c686b2b58b3b87cd6a403ae43bfcfba8bff28e08ef752c1a56afc1",
+      "gcs_uri": "gs://flyem-male-cns/v1.0/connectome-data/flat-connectome/connectome-weights-male-cns-v1.0-minconf-0.5.feather",
+      "license": "CC-BY-4.0",
+      "license_matches_expected": true,
+      "name": "connectome-weights-male-cns-v1.0-minconf-0.5.feather",
+      "repo": "gs://flyem-male-cns/v1.0/connectome-data/flat-connectome/",
+      "revision": "v1.0",
+      "role": "full directed segment-to-segment connection strengths (synapse counts)",
+      "sha256": "e35da783d1c686b2b58b3b87cd6a403ae43bfcfba8bff28e08ef752c1a56afc1",
+      "sha256_matches_expected": true,
+      "url": "https://storage.googleapis.com/flyem-male-cns/v1.0/connectome-data/flat-connectome/connectome-weights-male-cns-v1.0-minconf-0.5.feather"
+    },
+    "neurotransmitters": {
+      "bytes": 43282834,
+      "expected_license": "CC-BY-4.0",
+      "expected_sha256": "95c9289220663abeb3409f3ad9e5a7f8a53f8093f5139d15502cd08da8879621",
+      "gcs_uri": "gs://flyem-male-cns/v1.0/connectome-data/flat-connectome/body-neurotransmitters-male-cns-v1.0.feather",
+      "license": "CC-BY-4.0",
+      "license_matches_expected": true,
+      "name": "body-neurotransmitters-male-cns-v1.0.feather",
+      "repo": "gs://flyem-male-cns/v1.0/connectome-data/flat-connectome/",
+      "revision": "v1.0",
+      "role": "aggregate per-neuron neurotransmitter predictions",
+      "sha256": "95c9289220663abeb3409f3ad9e5a7f8a53f8093f5139d15502cd08da8879621",
+      "sha256_matches_expected": true,
+      "url": "https://storage.googleapis.com/flyem-male-cns/v1.0/connectome-data/flat-connectome/body-neurotransmitters-male-cns-v1.0.feather"
+    }
+  },
+  "staging_dir": "/home/user/dev/hf/hf-stage/malecns",
+  "warning": "MaleCNS is a SECOND measured substrate with a DIFFERENT ID namespace: MaleCNS body IDs are not FlyWire root IDs. Never join, map or compare neuron IDs across substrates; compare only aggregate/graph-level statistics under matched nulls.",
+  "weight_abs_sum": 8431025.0,
+  "weight_sum": 8431025.0
+}