Archive 3 checkpoints (1-3)

paper-releases/pbisc-diffusion/updates/20261015T143826Z-gene-context-selection-rationale/diffusion/metadata/NOTE.md

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+# PBISC-diffusion update 20261015T143826Z-gene-context-selection-rationale
+
+Documentation-only user-requested preservation of gene-context selection rationale: historical 2k/3k/6k vs final-floor6k lineage, exact curated 7k/8k selector, fixed budgets and limits on paper interpretation. No panel/config/manuscript/model changes.
+
+Payload states are recorded as supplied. Inference locations are pointers, not archived generated outputs.

paper-releases/pbisc-diffusion/updates/20261015T143826Z-gene-context-selection-rationale/diffusion/metadata/inference_locations.json

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+{
+  "locations": [],
+  "project_id": "pbisc-diffusion",
+  "update_id": "20261015T143826Z-gene-context-selection-rationale"
+}

paper-releases/pbisc-diffusion/updates/20261015T143826Z-gene-context-selection-rationale/diffusion/metadata/request.json

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+{
+  "assets": [
+    {
+      "host": "server_1",
+      "kind": "report",
+      "source": "/home/sj_server_1/PBISC/immun-pbmc-fm/model_8_sparse_data_diffusion/plans/rare_gene_context_expansion_20261015/SELECTION_RATIONALE.md",
+      "state": "completed"
+    },
+    {
+      "host": "server_1",
+      "kind": "report",
+      "source": "/home/sj_server_1/PBISC/immun-pbmc-fm/model_8_sparse_data_diffusion/plans/rare_gene_context_expansion_20261015/README.md",
+      "state": "completed"
+    },
+    {
+      "host": "server_1",
+      "kind": "report",
+      "source": "/home/sj_server_1/PBISC/immun-pbmc-fm/model_8_sparse_data_diffusion/plans/rare_gene_context_expansion_20261015/coordination/RATIONALE_PROVENANCE.json",
+      "state": "completed"
+    },
+    {
+      "host": "server_1",
+      "kind": "report",
+      "source": "/home/sj_server_1/PBISC/immun-pbmc-fm/model_8_sparse_data_diffusion/AGENTS.md",
+      "state": "completed"
+    },
+    {
+      "host": "server_1",
+      "kind": "document",
+      "source": "/home/sj_server_1/PBISC/immun-pbmc-fm/model_8_sparse_data_diffusion/ara/trace/exploration_tree.yaml",
+      "state": "completed"
+    },
+    {
+      "host": "server_1",
+      "kind": "document",
+      "source": "/home/sj_server_1/PBISC/immun-pbmc-fm/model_8_sparse_data_diffusion/ara/trace/sessions/2026-10-15_001.yaml",
+      "state": "completed"
+    },
+    {
+      "host": "server_1",
+      "kind": "document",
+      "source": "/home/sj_server_1/PBISC/immun-pbmc-fm/model_8_sparse_data_diffusion/ara/trace/pm_reasoning_log.yaml",
+      "state": "completed"
+    },
+    {
+      "host": "server_1",
+      "kind": "document",
+      "source": "/home/sj_server_1/PBISC/immun-pbmc-fm/model_8_sparse_data_diffusion/ara/trace/sessions/session_index.yaml",
+      "state": "completed"
+    }
+  ],
+  "inference_locations": [],
+  "project_id": "pbisc-diffusion",
+  "summary": "Documentation-only user-requested preservation of gene-context selection rationale: historical 2k/3k/6k vs final-floor6k lineage, exact curated 7k/8k selector, fixed budgets and limits on paper interpretation. No panel/config/manuscript/model changes."
+}