Record fresh LFS restore verification and final publication checksums

.gitattributes

@@ -1,3 +1,7 @@
 # Preserve historical source bytes and SHA-256 across platforms. No EOL conversion.
 * -text
 *.jsonl.gz binary
+artifacts/**/*.tar.zst filter=lfs diff=lfs merge=lfs -text
+artifacts/lfs-smoke/*.bin filter=lfs diff=lfs merge=lfs -text
+artifacts/public-resources-20261001/**/payload-*.bin filter=lfs diff=lfs merge=lfs -text
+artifacts/public-resources-20261001/**/*.jsonl.gz filter=lfs diff=lfs merge=lfs -text

.gitignore

@@ -34,3 +34,5 @@ id_ed25519*
 /registry/verification-runs/
 # Historical learned deltas/checkpoints are not source files.
 /models/learned/
+# Explicit publication exports only; original scientific directories stay ignored.
+!/artifacts/**/*.tar.zst

NOTICE.md

@@ -2,6 +2,14 @@
 
 本仓库整理既有项目，不改变原始数据和软件的权属。尚未为本项目原创代码选定统一公开许可证；不得将“可访问此 Git 仓库”等同于取得任意再分发授权。
 
+## 2026-10-01 公开资源发布补充
+
+用户已确认保留公开仓库，仅上传明确允许公开再分发的资源。[MaleCNS 官方下载页](https://male-cns.janelia.org/download/)已核实指向 [CC BY 4.0](https://creativecommons.org/licenses/by/4.0/)。据此，独立发布分支现在归档其已下载的数据及明确标注变更来源的既有派生数据；Cell Type Explorer、visualpathways、DoOR.data 和 Shiu 作者模型源码按各自原许可处理。作者署名、固定 commit、许可证据 SHA、排除项和恢复方法见 [本次发布说明](registry/publication-20261001/README.md)。FlyVis 不明确许可的资源、活动实验、环境和凭据不纳入。
+
+下表保留初始化时的历史审查状态，不代表本次已核实许可仍然未知。新发布只在 `artifacts/` 增加只读快照，不覆盖原始数据或此前冻结索引；不为整个仓库补授统一许可证。
+
+## 初始化审查记录（2026-09-29）
+
 | 外部资源 | 冻结副本中的许可证据 | 本仓库处理 |
 |---|---|---|
 | MaleCNS v1.0 官方数据 | 来源文件、原下载脚本和校验清单；统一再分发许可本次未确证 | 只登记路径、来源、大小、SHA-256；不上传数据 |

artifacts/public-resources-20261001/celltype-explorer/catalog.json

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+{
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+  "archive_format": "tar.pax+zstd",
+  "archive_sha256": "2366caef95fb5ad038639a6ae2ad25139a14c42492bc19640c20af46fefa0bc7",
+  "chunk_bytes": 67108864,
+  "chunks": [
+    {
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+      "index": 0,
+      "path": "payload-000000.bin",
+      "sha256": "6f5830463b8a0077ae89e550ca45275d57cf7e81813c42bf66f89d13a42c03ee"
+    },
+    {
+      "bytes": 10862890,
+      "index": 1,
+      "path": "payload-000001.bin",
+      "sha256": "6b80b0133af06279bd30561f35042b679bd392b9236ee519d1e7ed9c4e85fb6a"
+    }
+  ],
+  "exclusion_records": 1,
+  "exclusions": {
+    "bytes": 144,
+    "sha256": "c1bca109b61e53327fa7e01128a411d8ea328972593168c3ad6e1202dfdddc9c"
+  },
+  "group_id": "celltype-explorer",
+  "license": {
+    "evidence_file": "LICENSE",
+    "evidence_sha256": "9ba9550ad48438d0836ddab3da480b3b69ffa0aac7b7878b5a0039e7ab429411",
+    "upstream": "CC-BY-4.0",
+    "url": "https://creativecommons.org/licenses/by/4.0/"
+  },
+  "members": {
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+    "sha256": "8a51d3b4138bad12a520f8d1a12d54673416017d15fd1b1bcc49ed385da005bb"
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+  "plan_sha256": "a20a61821c504e8315171a5fd14afbac011b934709af344045175bdda9fcba71",
+  "provenance": {
+    "attribution": "Reiser Lab and Male CNS Cell Type Explorer contributors; retain upstream notices",
+    "changes": "Unchanged pinned working-tree file bytes; .git, environments, caches and credentials excluded. A source snapshot, not a full Git clone.",
+    "commit": "789cc6c105798ce2fd70ba85dab394f90899616b",
+    "repository": "https://github.com/reiserlab/celltype-explorer-drosophila-male-cns"
+  },
+  "schema": "lfs-publication-group-v1",
+  "secret_scan": "UTF-8 files <=2 MiB, known binary suffixes excluded; fail closed on matching rules",
+  "source_bytes": 3957079583,
+  "source_files": 8973,
+  "source_paths": [
+    "experiments/phase4f-retinotopic-vision/external-resources/celltype-explorer"
+  ],
+  "source_root": "/data/digital-drosophila",
+  "verification_scope": "content snapshot, not a license grant or nested-archive secret audit"
+}

artifacts/public-resources-20261001/door-data/catalog.json

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+{
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+  "chunk_bytes": 67108864,
+  "chunks": [
+    {
+      "bytes": 901984,
+      "index": 0,
+      "path": "payload-000000.bin",
+      "sha256": "64d415a1ea9f5c2fe09005ce1c2bb27eb45510fad27ad3c39cf0001e6f525fd1"
+    }
+  ],
+  "exclusion_records": 1,
+  "exclusions": {
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+    "sha256": "82627a482fd6adfc3abf4f83a30158fd8371b4532f425f7eb3b03044eb7e1367"
+  },
+  "group_id": "door-data",
+  "license": {
+    "evidence_file": "DESCRIPTION",
+    "evidence_sha256": "27db2a92eb651d67969de94959990d51668a5857a33c4750a3b6ef49c5880504",
+    "upstream": "CC-BY-SA-4.0",
+    "url": "https://creativecommons.org/licenses/by-sa/4.0/"
+  },
+  "members": {
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+    "sha256": "ef13db49577b3b3d1c7c31aab117d911a2decc5a80ead66b6a350c43d16374b4"
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+  "plan_sha256": "a20a61821c504e8315171a5fd14afbac011b934709af344045175bdda9fcba71",
+  "provenance": {
+    "attribution": "Daniel Münch, C. Giovanni Galizia, Shouwen Ma, Martin Strauch, Anja Nissler; see upstream DESCRIPTION and data-source references",
+    "changes": "Unchanged pinned data package; .git omitted. ShareAlike terms remain attached to this package, not asserted over unrelated repository content.",
+    "commit": "eea72d64b42a4e91dafe822cf0b5204de33f8d34",
+    "papers": [
+      "https://doi.org/10.1038/srep21841",
+      "https://doi.org/10.1093/chemse/bjq042"
+    ],
+    "repository": "https://github.com/ropensci/DoOR.data",
+    "version": "2.0.1"
+  },
+  "schema": "lfs-publication-group-v1",
+  "secret_scan": "UTF-8 files <=2 MiB, known binary suffixes excluded; fail closed on matching rules",
+  "source_bytes": 6534522,
+  "source_files": 189,
+  "source_paths": [
+    "experiments/phase4l-olfactory-grounding/external-resources/DoOR.data"
+  ],
+  "source_root": "/data/digital-drosophila",
+  "verification_scope": "content snapshot, not a license grant or nested-archive secret audit"
+}

artifacts/public-resources-20261001/malecns-processed/catalog.json

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+  "chunk_bytes": 67108864,
+  "chunks": [
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+    {
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+    },
+    {
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+    {
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+    {
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+    {
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+      "path": "payload-000005.bin",
+      "sha256": "4f82611c41e868faa6ea06d7bd275df90f712e3f5eb14296117e39c3bf6c95c0"
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+    {
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+      "path": "payload-000006.bin",
+      "sha256": "4cbfb164c194db8c54eadef4d039240d98b0f5be8e20e4005be08bd2d2f6ab5d"
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+    {
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+    {
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+  "license": {
+    "derived_data": "CC-BY-4.0",
+    "local_scripts_reports": "Project-authored processing and provenance; no new blanket software license",
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+    "canonical_synaptic_weight_sum": 124177617,
+    "changes": "Existing Phase 3 all-body and Phase 3B neuron-only tables, index mappings, CSR and audit reports, copied byte-for-byte. These were previously derived by filtering/reindexing official data, not new preprocessing. Phase 3 historical outputs are not the approved SNN input; use neuron-only for current runtime.",
+    "dataset": "male-cns:v1.0",
+    "source_page": "https://male-cns.janelia.org/download/"
+  },
+  "schema": "lfs-publication-group-v1",
+  "secret_scan": "UTF-8 files <=2 MiB, known binary suffixes excluded; fail closed on matching rules",
+  "source_bytes": 1140025370,
+  "source_files": 64,
+  "source_paths": [
+    "datasets/male-cns-v1.0/processed"
+  ],
+  "source_root": "/data/digital-drosophila",
+  "verification_scope": "content snapshot, not a license grant or nested-archive secret audit"
+}

artifacts/public-resources-20261001/malecns-raw-core/catalog.json

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+    "changes": "Data file bytes unchanged; archival compression and path manifest only. Download logs excluded.",
+    "source_page": "https://male-cns.janelia.org/download/",
+    "source_prefix": "gs://flyem-male-cns/v1.0/connectome-data/flat-connectome/",
+    "version": "male-cns:v1.0"
+  },
+  "schema": "lfs-publication-group-v1",
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+  "source_bytes": 1207032031,
+  "source_files": 17,
+  "source_paths": [
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+    "datasets/male-cns-v1.0/raw/connectivity",
+    "datasets/male-cns-v1.0/raw/_manifests"
+  ],
+  "source_root": "/data/digital-drosophila",
+  "verification_scope": "content snapshot, not a license grant or nested-archive secret audit"
+}

artifacts/public-resources-20261001/malecns-swc/catalog.json

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+}

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+}