Archive 2 checkpoints (1-2)

paper-releases/20260928/diffusion/README.md

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+# PBISC paper data and evidence archive — 2026-09-28
+
+This private release preserves the data, exact generation inputs, and paper evidence accompanying the [155 new PBISC checkpoints](https://huggingface.co/junidude14/PBISC/tree/paper-20260928/paper-releases/20260928/diffusion). It does not establish public redistribution rights for cohort material.
+
+| Content | Location in this release |
+|---|---|
+| Five cohorts: features, 6k counts, full-gene counts, cell metadata, folds, QC and masks | `data/cohorts/` and `data/source_provenance/` |
+| Final floor01 6k gene selection and leakage audit | `data/panel/` |
+| Frozen f01common scANVI/scVI and gene map | `data/annotator/` |
+| Donor/calibration references | `data/calibration/` |
+| 216 exact condition NPZs and 15 small manifests | `data/inference_inputs/` |
+| Paper manuscript, code, figures, score tables, training RUN/config/history/logs | `metadata/paper-support-and-provenance.tar` and `.tar.index.json` |
+| Full manifests, source-state diffs, transfer receipts, tools and local-use guide | `metadata/release-records.tar` and `.tar.index.json` |
+
+The core data bundle is 404 files / 24,051,856,481 bytes. The exact-input addendum is 231 files / 3,059,027,546 bytes. Paper-support and training provenance comprise 4,899 indexed tar members / 296,071,268 source bytes. Tar members retain their bundle-relative paths and each has a SHA-256 in the adjacent index. They are also preserved as individually browsable files in the independent server_2 archive.
+
+Start with [MODEL_INDEX.csv](MODEL_INDEX.csv), [inference-locations.csv](inference-locations.csv), and [legacy-inference-locations.csv](legacy-inference-locations.csv). The main locator has 478 observed files, including 367 completed generation receipts; the legacy supplement has 296 file locations. Counts are host/path records, not independent experiments. Existing large inference payloads remain at the recorded hosts and were not regenerated. Recorded output hashes were taken from existing receipts, rather than freshly rehashing all large inference files.
+
+All 411 main-catalog entries naming a condition resolve to an archived exact input. Thirty historical server_2 input paths resolve by SHA-256 to server_1 copies; original fields and current-location fields are both preserved. All 367 completed generation receipts resolve their checkpoint SHA to a model in the paper archive.
+
+The full independent archive is `spark-0110:/home/sj_server_2/PBISC/paper-release-20260928/`. Its local-use README and experiment guide are included in `release-records.tar`. The completed fixed scSemi external baseline remains separately preserved at the location recorded in the guides. Active scSemi observations are timestamped snapshots and are not reported as completed outcomes.
+
+Use [RELEASE_LOCK.json](RELEASE_LOCK.json) for immutable payload revisions, [VERIFIED_PAYLOADS.json](VERIFIED_PAYLOADS.json) for the verification boundary, and [BUNDLE_SHA256SUMS](BUNDLE_SHA256SUMS) for archive members. The `paper-20260928` tag includes the publication records that follow those payload commits. Existing `data-v1` and `diffusion-v1` releases are preserved.
+
+Keep donor folds, QC eligibility, feature units, and measured/valid masks together. Ji uses whole-blood bulk to PBMC scRNA. Unproven pairing and excluded rows remain labeled as such. LoRA weights are merged full checkpoints, with cohort/fold/draw protocols retained; they are not a single all-donor adapter.

paper-releases/20260928/diffusion/RELEASE_LOCK.json

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+{
+  "schema": "pbisc.paper.release-lock.v1",
+  "release_id": "paper-release-20260928",
+  "payloads_verified_at": "2026-09-28T13:13:22.494065+00:00",
+  "status": "payloads_verified",
+  "hf_model": {
+    "gated": "auto",
+    "private": false,
+    "repo_id": "junidude14/PBISC",
+    "revision": "94cce8f5475fd69fbeae9c8bd51824ab15dcd812"
+  },
+  "hf_dataset_payload": {
+    "gated": false,
+    "private": true,
+    "repo_id": "junidude14/PBISC-data",
+    "revision": "9639735c9d641614e9652a1767938ad04a767b64"
+  },
+  "release_tag": "paper-20260928",
+  "dataset_visibility": "private",
+  "archive_host": "spark-0110",
+  "archive_root": "/home/sj_server_2/PBISC/paper-release-20260928",
+  "archive_files": 5693,
+  "archive_payload_bytes": 78199680458,
+  "new_model_files": 155,
+  "existing_parent_models": 4,
+  "new_model_bytes": 47059529671,
+  "core_data_files": 404,
+  "condition_input_files": 231,
+  "indexed_metadata_files": 4899,
+  "metadata_package": {
+    "bytes": 301137920,
+    "index": {
+      "bytes": 1677766,
+      "member_count": 4899,
+      "remote_path": "paper-releases/20260928/diffusion/metadata/paper-support-and-provenance.tar.index.json",
+      "sha256": "7dd73eb49387dd6efe2ef85fb142f29a2d0df153f749da163165cc7e4ef96339"
+    },
+    "members": 4899,
+    "remote_archive_stat": {
+      "dev": 66306,
+      "ino": 3015968,
+      "mtime_ns": 1790601046791717678,
+      "size": 301137920
+    },
+    "remote_path": "paper-releases/20260928/diffusion/metadata/paper-support-and-provenance.tar",
+    "sha256": "79c8c412b388207775ac159935e8b67e386aa8e016b7c6e7034c58f3d2fc70f9"
+  },
+  "inference_locations": {
+    "main": "inference-locations.csv",
+    "main_rows": 478,
+    "legacy": "legacy-inference-locations.csv",
+    "legacy_rows": 296,
+    "new_inference_runs": 0,
+    "output_hashes": "existing receipts; not freshly rehashed"
+  },
+  "note": "Payload commit IDs are immutable. The matching release tag also includes later release records; the local HF_PUBLICATION_RECEIPT.json records that final commit without a self-referential lock.",
+  "indexes": {
+    "BUNDLE_SHA256SUMS": {
+      "sha256": "217ec646b2dd91639cd1e16ba99834ad6fd8791b2cf631461a25d6fc61991d1c",
+      "bytes": 873743
+    },
+    "COMBINED_ASSET_INDEX.json": {
+      "sha256": "f54f191203ea4271aee9f52cc7807972987c9d3183c416aff3f65305458dd191",
+      "bytes": 8236244
+    },
+    "inference-locations.csv": {
+      "sha256": "45120e08081612da2f54f551e027db04f08da78e01f0607de5c46fceba56312a",
+      "bytes": 678313
+    },
+    "legacy-inference-locations.csv": {
+      "sha256": "6ceb6f361e75d0bb8492741945fe79ffa3e8b82d7edb7f248eeac4b5329613b6",
+      "bytes": 296981
+    }
+  }
+}