Archive 4 checkpoints (1-4)

paper-releases/pbisc-diffusion/updates/20261015T121654Z-x1-nine-core40-deck/diffusion/dataset/server_1/model8/presentations/2026-09-30--paper-summary--r00/data/x1_priority_20261015/builds/20261015T120743086141Z/sources/82328094470e907a/status.json

@@ -0,0 +1,13 @@
+{
+  "schema": "pbisc.paper.strict-statistics.v1",
+  "support_sha256": "84d7e7a40992a7f24ceb5017c7534e2897d89246de9747c0a683442ad506e155",
+  "bootstrap_unit": "unique_donor_all_visits_and_draws",
+  "bootstrap_replicates": 2000,
+  "draws": [
+    "fold1_n5"
+  ],
+  "disease_deg": {
+    "status": "not_applicable",
+    "reason": "no case/control contrast"
+  }
+}

paper-releases/pbisc-diffusion/updates/20261015T121654Z-x1-nine-core40-deck/diffusion/dataset/server_1/model8/presentations/2026-09-30--paper-summary--r00/data/x1_priority_20261015/builds/20261015T120743086141Z/sources/8cb0c8535bcd79af/summary.json

@@ -0,0 +1,544 @@
+{
+  "schema": "paired_ft_scores.v1",
+  "dataset": "ji2025_chili",
+  "written_utc": "2026-10-15T11:36:54.150615+00:00",
+  "command": [
+    "/home/sj_server_1/PBISC/immun-pbmc-fm/model_8_sparse_data_diffusion/plans/paired_finetune_intradataset_20260927/tools/score_ft.py",
+    "--dataset",
+    "ji2025_chili",
+    "--out",
+    "/home/sj_server_1/PBISC/immun-pbmc-fm/model_8_sparse_data_diffusion/plans/paper_figures_strictpairs_20261012/recoveries/disease_width_comparison_20261015/ji2025_chili/draw2/score",
+    "--arm",
+    "lora=/home/sj_server_1/PBISC/immun-pbmc-fm/model_8_sparse_data_diffusion/plans/paper_figures_strictpairs_20261012/generated/ji2025_chili/disease/draw2/lora.npz",
+    "--condition",
+    "lora=/home/sj_server_1/PBISC/immun-pbmc-fm/model_8_sparse_data_diffusion/plans/paper_figures_strictpairs_20261012/data/ji2025_chili/disease/draw2/test_raw.npz",
+    "--donors",
+    "/home/sj_server_1/PBISC/immun-pbmc-fm/model_8_sparse_data_diffusion/plans/paper_figures_strictpairs_20261012/recoveries/disease_width_comparison_20261015/ji2025_chili/draw2/test_samples.txt",
+    "--threads",
+    "2",
+    "--case-groups",
+    "TOL,FU1",
+    "--control-groups",
+    "BC,AC"
+  ],
+  "arms": [
+    "lora"
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+  "donors": [
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+    "N064_FU1",
+    "N038_BC",
+    "N038_AC",
+    "N055_AC",
+    "N136_TOL",
+    "N136_FU1",
+    "N138_TOL",
+    "N138_FU1",
+    "N128_BC",
+    "N128_AC",
+    "N129_BC",
+    "N129_AC",
+    "N150_BC",
+    "N158_AC",
+    "N159_BC",
+    "N001_TOL",
+    "N001_FU1",
+    "N002_TOL",
+    "N002_FU1",
+    "N012_TOL",
+    "N012_FU1",
+    "N022_TOL",
+    "N022_FU1",
+    "N043_TOL",
+    "N043_FU1"
+  ],
+  "n_donors": 26,
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+    "source": "/home/sj_server_1/PBISC/immun-pbmc-fm/bulk2sc-paper/scripts/evaluate_generated_vs_truth.py",
+    "functions": [
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+      "top_deg_genes",
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+    "broadcast": "welch_bh_deg + top_deg_genes on the arm's condition bulk_counts (scoring genes, case|control donors), one list compared with every type's observed list (sle_broadcast.py broadcast_input_bulk); not part of the published benchmark"
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paper-releases/pbisc-diffusion/updates/20261015T121654Z-x1-nine-core40-deck/diffusion/dataset/server_1/model8/presentations/2026-09-30--paper-summary--r00/data/x1_priority_20261015/builds/20261015T120743086141Z/sources/e8c040e7fe73325a/manifest.json

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