Archive 4 checkpoints (1-4)

paper-releases/pbisc-diffusion/updates/20261005T133325Z-deck-scratch-samepairs-tracking/diffusion/dataset/server_1/model8/plans/paired_crosscohort_20261002/generated_masked/ye2026_sepsis/hoL_ye2026_sepsis/within_real_lora__raw.log

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+ "masked_rule": "panel genes measured in the held-out cohort but in none of the split's training cohorts set to 0 in generated_counts",
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+ "written": "2026-10-05T19:51:38",
+ "condition_npz": "/home/sj_server_1/PBISC/immun-pbmc-fm/model_8_sparse_data_diffusion/plans/paired_finetune_intradataset_20260927/generated/ye2026_sepsis/pooled/conditions_pooled_raw.npz",
+ "condition_sha256": "3b2d8ef2a51603a490100c336f3702cdac11d1ba2288490e36dd52986f56dd13"
+}

paper-releases/pbisc-diffusion/updates/20261005T133325Z-deck-scratch-samepairs-tracking/diffusion/dataset/server_1/model8/plans/paired_crosscohort_20261002/generated_masked/ye2026_sepsis/hoL_ye2026_sepsis/xcalL_K1000.log

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+{
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+ "source_receipt": "/home/sj_server_1/PBISC/immun-pbmc-fm/model_8_sparse_data_diffusion/plans/paired_crosscohort_20261002/generated/ye2026_sepsis/hoL_ye2026_sepsis/xcal_K1000.log",
+ "masked_rule": "panel genes measured in the held-out cohort but in none of the split's training cohorts set to 0 in generated_counts",
+ "masked_gene_ids": [
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+  "ENSG00000288698",
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+  "ENSG00000288643",
+  "ENSG00000285868",
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+  "ENSG00000272980",
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+  "ENSG00000285953",
+  "ENSG00000288558",
+  "ENSG00000288635",
+  "ENSG00000283128",
+  "ENSG00000285791",
+  "ENSG00000288602",
+  "ENSG00000285982",
+  "ENSG00000288684",
+  "ENSG00000286112",
+  "ENSG00000285837",
+  "ENSG00000285932",
+  "ENSG00000181017",
+  "ENSG00000287725",
+  "ENSG00000285827",
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+  "ENSG00000285942",
+  "ENSG00000285117",
+  "ENSG00000173867",
+  "ENSG00000288725",
+  "ENSG00000287694",
+  "ENSG00000286221",
+  "ENSG00000286190",
+  "ENSG00000285897",
+  "ENSG00000285947",
+  "ENSG00000286098",
+  "ENSG00000288000",
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+  "ENSG00000286070",
+  "ENSG00000285547",
+  "ENSG00000286237",
+  "ENSG00000182484"
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+ "generated_umi_share_masked_before": 3.7454155972227454e-05,
+ "written": "2026-10-05T19:26:05",
+ "condition_npz": "/home/sj_server_1/PBISC/immun-pbmc-fm/model_8_sparse_data_diffusion/plans/paired_crosscohort_20261002/splits/hoL_ye2026_sepsis/test_xcal_K1000.npz",
+ "condition_sha256": "b4c2b51f0669e2f0236e7981a6b5b5ddabcd22cbf9e3949384144fb55f5564ed",
+ "checkpoint": "/home/sj_server_1/PBISC/immun-pbmc-fm/model_8_sparse_data_diffusion/runs/f01_6k_1x_seed20260627/checkpoint_epoch_016.pt",
+ "checkpoint_sha256": "8c7cd0e83e2bc19fe03dfcbc084919a1e2f61be8cc8bc12f4caf543dfda91633",
+ "seed": 20260927,
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+ "weights": "ema"
+}

paper-releases/pbisc-diffusion/updates/20261005T133325Z-deck-scratch-samepairs-tracking/diffusion/dataset/server_1/model8/plans/paired_crosscohort_20261002/generated_masked/ye2026_sepsis/hoL_ye2026_sepsis/zs_K1000.log

@@ -0,0 +1,65 @@
+{
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+ "source_sha256": "bcb34be0a83ca4d5934dbfa37022a46088c39b15029b2064cbe50efca9f74a9f",
+ "source_receipt": "/home/sj_server_1/PBISC/immun-pbmc-fm/model_8_sparse_data_diffusion/plans/paired_finetune_intradataset_20260927/generated/ye2026_sepsis/fewshot_n5/zs__raw_all.log",
+ "masked_rule": "panel genes measured in the held-out cohort but in none of the split's training cohorts set to 0 in generated_counts",
+ "masked_gene_ids": [
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+  "ENSG00000287856",
+  "ENSG00000285542",
+  "ENSG00000285708",
+  "ENSG00000285635",
+  "ENSG00000285558",
+  "ENSG00000288698",
+  "ENSG00000287542",
+  "ENSG00000285713",
+  "ENSG00000286001",
+  "ENSG00000288643",
+  "ENSG00000285868",
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+  "ENSG00000285953",
+  "ENSG00000288558",
+  "ENSG00000288635",
+  "ENSG00000283128",
+  "ENSG00000285791",
+  "ENSG00000288602",
+  "ENSG00000285982",
+  "ENSG00000288684",
+  "ENSG00000286112",
+  "ENSG00000285837",
+  "ENSG00000285932",
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+  "ENSG00000285942",
+  "ENSG00000285117",
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+  "ENSG00000286221",
+  "ENSG00000286190",
+  "ENSG00000285897",
+  "ENSG00000285947",
+  "ENSG00000286098",
+  "ENSG00000288000",
+  "ENSG00000285815",
+  "ENSG00000286070",
+  "ENSG00000285547",
+  "ENSG00000286237",
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+ "written": "2026-10-05T19:27:13",
+ "condition_npz": "/home/sj_server_1/PBISC/immun-pbmc-fm/model_8_sparse_data_diffusion/plans/paired_finetune_intradataset_20260927/data/ye2026_sepsis/fewshot_n5/all_usable_raw.npz",
+ "condition_sha256": "ffcc1562915493d43b6970aec5791ec01193f7ed72a0f8ab8103bb45ce46c641",
+ "checkpoint": "/home/sj_server_1/PBISC/immun-pbmc-fm/model_8_sparse_data_diffusion/runs/f01_6k_1x_seed20260627/checkpoint_epoch_016.pt",
+ "checkpoint_sha256": "8c7cd0e83e2bc19fe03dfcbc084919a1e2f61be8cc8bc12f4caf543dfda91633",
+ "seed": 20260927,
+ "steps": 50,
+ "weights": "ema"
+}

paper-releases/pbisc-diffusion/updates/20261005T133325Z-deck-scratch-samepairs-tracking/diffusion/dataset/server_1/model8/plans/paired_crosscohort_20261002/logs/mask_rescore/batch1.log

@@ -0,0 +1,7 @@
+{"arm": "locoL_scratchsat_s50000_K1000", "masked_genes": 46, "generated_umi_share_masked_before": 0.9077, "score_rc": 0}
+{"arm": "locoL_scratchsat_s100000_K1000", "masked_genes": 46, "generated_umi_share_masked_before": 0.9359, "score_rc": 0}
+{"arm": "locoL_fullsat_s108500_K1000", "masked_genes": 46, "generated_umi_share_masked_before": 0.0001, "score_rc": 0}
+{"arm": "locoL_lora16sat_s26750_K1000", "masked_genes": 46, "generated_umi_share_masked_before": 0.0, "score_rc": 0}
+{"arm": "locoL_lora64sat_s59000_K1000", "masked_genes": 46, "generated_umi_share_masked_before": 0.0001, "score_rc": 0}
+{"arm": "xcalL_K1000", "masked_genes": 46, "generated_umi_share_masked_before": 0.0, "score_rc": 0}
+{"arm": "zs_K1000", "masked_genes": 46, "generated_umi_share_masked_before": 0.0001, "score_rc": 0}