Archive 4 checkpoints (1-4)

paper-releases/pbisc-diffusion/updates/20261013T034842Z-expanded-131-slide-master/diffusion/dataset/server_1/model8/presentations/2026-09-30--paper-summary--r00/data/expanded_master_20261013/disease/strict_snapshot/ye2026_sepsis/draw1/scores/ye2026_sepsis/disease/draw1/statistics/donor_bootstrap_2000.csv

@@ -0,0 +1,113 @@
+arm,baseline,estimate,ci_low,ci_high,n_donors,n_paired_samples,n_excluded_nonfinite_pairs,n_boot,seed,bootstrap_unit,metric,status
+pairedcal,lora,0.0502692490863569,0.015130577040635992,0.08476723209406326,77,77,0,2000,20261012,donor_all_draws_and_visits,comp_l1,ok
+raw,lora,0.05422350568926842,0.014401623280098396,0.09246901169715029,77,77,0,2000,20261012,donor_all_draws_and_visits,comp_l1,ok
+refcal,lora,-0.04556319523932445,-0.08289295574602612,-0.010642033346932913,77,77,0,2000,20261012,donor_all_draws_and_visits,comp_l1,ok
+scsemi,lora,0.05634523591201746,0.017507974131156886,0.09899300357017109,77,77,0,2000,20261012,donor_all_draws_and_visits,comp_l1,ok
+pairedcal,lora,0.0,0.0,0.0,77,77,0,2000,20261012,donor_all_draws_and_visits,comp_l1_obs_loo_null,ok
+raw,lora,0.0,0.0,0.0,77,77,0,2000,20261012,donor_all_draws_and_visits,comp_l1_obs_loo_null,ok
+refcal,lora,0.0,0.0,0.0,77,77,0,2000,20261012,donor_all_draws_and_visits,comp_l1_obs_loo_null,ok
+scsemi,lora,0.0,0.0,0.0,77,77,0,2000,20261012,donor_all_draws_and_visits,comp_l1_obs_loo_null,ok
+pairedcal,lora,-0.30190476190476195,-0.3277077922077923,-0.2745454545454546,77,77,0,2000,20261012,donor_all_draws_and_visits,coverage,ok
+raw,lora,-0.5769696969696969,-0.6129004329004328,-0.5374891774891776,77,77,0,2000,20261012,donor_all_draws_and_visits,coverage,ok
+refcal,lora,-0.4660606060606061,-0.4977510822510824,-0.43237445887445886,77,77,0,2000,20261012,donor_all_draws_and_visits,coverage,ok
+scsemi,lora,-0.568917748917749,-0.6047640692640692,-0.528569264069264,77,77,0,2000,20261012,donor_all_draws_and_visits,coverage,ok
+pairedcal,lora,-0.24380952380952386,-0.2792251082251082,-0.21003679653679655,77,77,0,2000,20261012,donor_all_draws_and_visits,coverage_depth_matched,ok
+raw,lora,-0.7453679653679655,-0.7800021645021644,-0.7074458874458874,77,77,0,2000,20261012,donor_all_draws_and_visits,coverage_depth_matched,ok
+refcal,lora,-0.44943722943722947,-0.4926558441558441,-0.40406277056277057,77,77,0,2000,20261012,donor_all_draws_and_visits,coverage_depth_matched,ok
+scsemi,lora,-0.6386147186147186,-0.6770584415584416,-0.5951515151515152,77,77,0,2000,20261012,donor_all_draws_and_visits,coverage_depth_matched,ok
+pairedcal,lora,0.005255411255411241,-0.003506493506493521,0.014546536796536775,77,77,0,2000,20261012,donor_all_draws_and_visits,gen_B cell,ok
+raw,lora,0.04968831168831169,0.04166147186147186,0.05784415584415583,77,77,0,2000,20261012,donor_all_draws_and_visits,gen_B cell,ok
+refcal,lora,0.00607792207792207,-0.007543290043290054,0.021864285714285697,77,77,0,2000,20261012,donor_all_draws_and_visits,gen_B cell,ok
+scsemi,lora,-0.02334199134199135,-0.04249047619047619,-0.006978138528138535,77,77,0,2000,20261012,donor_all_draws_and_visits,gen_B cell,ok
+pairedcal,lora,0.0036883116883116903,0.0023720779220779203,0.0049783549783549794,77,77,0,2000,20261012,donor_all_draws_and_visits,gen_DC,ok
+raw,lora,0.0005367965367965351,-0.0010564935064935135,0.0019915584415584387,77,77,0,2000,20261012,donor_all_draws_and_visits,gen_DC,ok
+refcal,lora,0.0035757575757575785,0.0019911255411255466,0.005065151515151511,77,77,0,2000,20261012,donor_all_draws_and_visits,gen_DC,ok
+scsemi,lora,0.011930735930735934,0.007263852813852813,0.016909956709956715,77,77,0,2000,20261012,donor_all_draws_and_visits,gen_DC,ok
+pairedcal,lora,0.03612987012987012,0.015687878787878782,0.054780519480519464,77,77,0,2000,20261012,donor_all_draws_and_visits,gen_Monocyte,ok
+raw,lora,0.02517748917748918,0.01100151515151515,0.03988203463203463,77,77,0,2000,20261012,donor_all_draws_and_visits,gen_Monocyte,ok
+refcal,lora,-0.06183549783549784,-0.07673701298701298,-0.04667965367965372,77,77,0,2000,20261012,donor_all_draws_and_visits,gen_Monocyte,ok
+scsemi,lora,-0.03989610389610391,-0.06282337662337664,-0.01572575757575762,77,77,0,2000,20261012,donor_all_draws_and_visits,gen_Monocyte,ok
+pairedcal,lora,0.013757575757575753,0.009384199134199127,0.018675541125541113,77,77,0,2000,20261012,donor_all_draws_and_visits,gen_NK cell,ok
+raw,lora,0.05642424242424242,0.046690909090909095,0.06633787878787878,77,77,0,2000,20261012,donor_all_draws_and_visits,gen_NK cell,ok
+refcal,lora,0.017428571428571425,0.011514502164502166,0.023542424242424236,77,77,0,2000,20261012,donor_all_draws_and_visits,gen_NK cell,ok
+scsemi,lora,0.019056277056277052,0.009557359307359304,0.029578571428571416,77,77,0,2000,20261012,donor_all_draws_and_visits,gen_NK cell,ok
+pairedcal,lora,-0.01703896103896103,-0.022294372294372283,-0.011289610389610379,77,77,0,2000,20261012,donor_all_draws_and_visits,gen_Other,ok
+raw,lora,-0.035636363636363626,-0.042320562770562765,-0.029194372294372283,77,77,0,2000,20261012,donor_all_draws_and_visits,gen_Other,ok
+refcal,lora,-0.02107359307359306,-0.027446536796536785,-0.01472662337662337,77,77,0,2000,20261012,donor_all_draws_and_visits,gen_Other,ok
+scsemi,lora,0.053714285714285714,0.0345322510822511,0.07710064935064936,77,77,0,2000,20261012,donor_all_draws_and_visits,gen_Other,ok
+pairedcal,lora,-0.0417922077922078,-0.05864935064935064,-0.022458441558441566,77,77,0,2000,20261012,donor_all_draws_and_visits,gen_T cell,ok
+raw,lora,-0.09619047619047622,-0.10899675324675324,-0.08328095238095244,77,77,0,2000,20261012,donor_all_draws_and_visits,gen_T cell,ok
+refcal,lora,0.05582683982683983,0.03845887445887448,0.07177532467532469,77,77,0,2000,20261012,donor_all_draws_and_visits,gen_T cell,ok
+scsemi,lora,-0.02146320346320345,-0.04525844155844153,0.0009051948051947887,77,77,0,2000,20261012,donor_all_draws_and_visits,gen_T cell,ok
+pairedcal,lora,-28.24025974025974,-112.04204545454544,55.981006493506456,77,77,0,2000,20261012,donor_all_draws_and_visits,median_umi_gen,ok
+raw,lora,-913.7077922077922,-993.9316558441559,-839.6094155844155,77,77,0,2000,20261012,donor_all_draws_and_visits,median_umi_gen,ok
+refcal,lora,-355.2402597402597,-476.98506493506494,-234.42305194805206,77,77,0,2000,20261012,donor_all_draws_and_visits,median_umi_gen,ok
+scsemi,lora,269.3961038961039,152.05795454545455,379.42532467532465,77,77,0,2000,20261012,donor_all_draws_and_visits,median_umi_gen,ok
+pairedcal,lora,0.0,0.0,0.0,77,77,0,2000,20261012,donor_all_draws_and_visits,median_umi_obs,ok
+raw,lora,0.0,0.0,0.0,77,77,0,2000,20261012,donor_all_draws_and_visits,median_umi_obs,ok
+refcal,lora,0.0,0.0,0.0,77,77,0,2000,20261012,donor_all_draws_and_visits,median_umi_obs,ok
+scsemi,lora,0.0,0.0,0.0,77,77,0,2000,20261012,donor_all_draws_and_visits,median_umi_obs,ok
+pairedcal,lora,3.6129870129870123,1.5687878787878775,5.478051948051946,77,77,0,2000,20261012,donor_all_draws_and_visits,mono_pct_gen,ok
+raw,lora,2.5177489177489187,1.1001515151515164,3.9882034632034635,77,77,0,2000,20261012,donor_all_draws_and_visits,mono_pct_gen,ok
+refcal,lora,-6.1835497835497835,-7.6737012987013005,-4.667965367965371,77,77,0,2000,20261012,donor_all_draws_and_visits,mono_pct_gen,ok
+scsemi,lora,-3.989610389610391,-6.282337662337663,-1.572575757575761,77,77,0,2000,20261012,donor_all_draws_and_visits,mono_pct_gen,ok
+pairedcal,lora,0.0,0.0,0.0,77,77,0,2000,20261012,donor_all_draws_and_visits,mono_pct_obs,ok
+raw,lora,0.0,0.0,0.0,77,77,0,2000,20261012,donor_all_draws_and_visits,mono_pct_obs,ok
+refcal,lora,0.0,0.0,0.0,77,77,0,2000,20261012,donor_all_draws_and_visits,mono_pct_obs,ok
+scsemi,lora,0.0,0.0,0.0,77,77,0,2000,20261012,donor_all_draws_and_visits,mono_pct_obs,ok
+pairedcal,lora,0.0,0.0,0.0,77,77,0,2000,20261012,donor_all_draws_and_visits,n_generated_cells,ok
+raw,lora,0.0,0.0,0.0,77,77,0,2000,20261012,donor_all_draws_and_visits,n_generated_cells,ok
+refcal,lora,0.0,0.0,0.0,77,77,0,2000,20261012,donor_all_draws_and_visits,n_generated_cells,ok
+scsemi,lora,0.0,0.0,0.0,77,77,0,2000,20261012,donor_all_draws_and_visits,n_generated_cells,ok
+pairedcal,lora,0.0,0.0,0.0,77,77,0,2000,20261012,donor_all_draws_and_visits,n_observed_cells,ok
+raw,lora,0.0,0.0,0.0,77,77,0,2000,20261012,donor_all_draws_and_visits,n_observed_cells,ok
+refcal,lora,0.0,0.0,0.0,77,77,0,2000,20261012,donor_all_draws_and_visits,n_observed_cells,ok
+scsemi,lora,0.0,0.0,0.0,77,77,0,2000,20261012,donor_all_draws_and_visits,n_observed_cells,ok
+pairedcal,lora,0.0,0.0,0.0,77,77,0,2000,20261012,donor_all_draws_and_visits,n_reference_cells,ok
+raw,lora,0.0,0.0,0.0,77,77,0,2000,20261012,donor_all_draws_and_visits,n_reference_cells,ok
+refcal,lora,0.0,0.0,0.0,77,77,0,2000,20261012,donor_all_draws_and_visits,n_reference_cells,ok
+scsemi,lora,0.0,0.0,0.0,77,77,0,2000,20261012,donor_all_draws_and_visits,n_reference_cells,ok
+pairedcal,lora,0.0,0.0,0.0,77,77,0,2000,20261012,donor_all_draws_and_visits,obs_B cell,ok
+raw,lora,0.0,0.0,0.0,77,77,0,2000,20261012,donor_all_draws_and_visits,obs_B cell,ok
+refcal,lora,0.0,0.0,0.0,77,77,0,2000,20261012,donor_all_draws_and_visits,obs_B cell,ok
+scsemi,lora,0.0,0.0,0.0,77,77,0,2000,20261012,donor_all_draws_and_visits,obs_B cell,ok
+pairedcal,lora,0.0,0.0,0.0,77,77,0,2000,20261012,donor_all_draws_and_visits,obs_DC,ok
+raw,lora,0.0,0.0,0.0,77,77,0,2000,20261012,donor_all_draws_and_visits,obs_DC,ok
+refcal,lora,0.0,0.0,0.0,77,77,0,2000,20261012,donor_all_draws_and_visits,obs_DC,ok
+scsemi,lora,0.0,0.0,0.0,77,77,0,2000,20261012,donor_all_draws_and_visits,obs_DC,ok
+pairedcal,lora,0.0,0.0,0.0,77,77,0,2000,20261012,donor_all_draws_and_visits,obs_Monocyte,ok
+raw,lora,0.0,0.0,0.0,77,77,0,2000,20261012,donor_all_draws_and_visits,obs_Monocyte,ok
+refcal,lora,0.0,0.0,0.0,77,77,0,2000,20261012,donor_all_draws_and_visits,obs_Monocyte,ok
+scsemi,lora,0.0,0.0,0.0,77,77,0,2000,20261012,donor_all_draws_and_visits,obs_Monocyte,ok
+pairedcal,lora,0.0,0.0,0.0,77,77,0,2000,20261012,donor_all_draws_and_visits,obs_NK cell,ok
+raw,lora,0.0,0.0,0.0,77,77,0,2000,20261012,donor_all_draws_and_visits,obs_NK cell,ok
+refcal,lora,0.0,0.0,0.0,77,77,0,2000,20261012,donor_all_draws_and_visits,obs_NK cell,ok
+scsemi,lora,0.0,0.0,0.0,77,77,0,2000,20261012,donor_all_draws_and_visits,obs_NK cell,ok
+pairedcal,lora,0.0,0.0,0.0,77,77,0,2000,20261012,donor_all_draws_and_visits,obs_Other,ok
+raw,lora,0.0,0.0,0.0,77,77,0,2000,20261012,donor_all_draws_and_visits,obs_Other,ok
+refcal,lora,0.0,0.0,0.0,77,77,0,2000,20261012,donor_all_draws_and_visits,obs_Other,ok
+scsemi,lora,0.0,0.0,0.0,77,77,0,2000,20261012,donor_all_draws_and_visits,obs_Other,ok
+pairedcal,lora,0.0,0.0,0.0,77,77,0,2000,20261012,donor_all_draws_and_visits,obs_T cell,ok
+raw,lora,0.0,0.0,0.0,77,77,0,2000,20261012,donor_all_draws_and_visits,obs_T cell,ok
+refcal,lora,0.0,0.0,0.0,77,77,0,2000,20261012,donor_all_draws_and_visits,obs_T cell,ok
+scsemi,lora,0.0,0.0,0.0,77,77,0,2000,20261012,donor_all_draws_and_visits,obs_T cell,ok
+pairedcal,lora,1.4415584415584415,-0.07792207792207792,3.0912337662337643,77,77,0,2000,20261012,donor_all_draws_and_visits,pb_own_rank,ok
+raw,lora,2.0259740259740258,-0.025974025974025976,4.441558441558442,77,77,0,2000,20261012,donor_all_draws_and_visits,pb_own_rank,ok
+refcal,lora,-1.4285714285714286,-3.896103896103896,0.7665584415584398,77,77,0,2000,20261012,donor_all_draws_and_visits,pb_own_rank,ok
+scsemi,lora,6.740259740259741,2.7788961038961038,10.805519480519479,77,77,0,2000,20261012,donor_all_draws_and_visits,pb_own_rank,ok
+pairedcal,lora,-0.019588185316949357,-0.02233021034334739,-0.01682721891008905,77,77,0,2000,20261012,donor_all_draws_and_visits,pb_r,ok
+raw,lora,-0.003904404153610578,-0.0067740079911522005,-0.0010998242591402701,77,77,0,2000,20261012,donor_all_draws_and_visits,pb_r,ok
+refcal,lora,-0.030590975309374782,-0.03425419778890403,-0.026786657709514095,77,77,0,2000,20261012,donor_all_draws_and_visits,pb_r,ok
+scsemi,lora,-0.2687588724148478,-0.27900074382546736,-0.25881217727009054,77,77,0,2000,20261012,donor_all_draws_and_visits,pb_r,ok
+pairedcal,lora,-0.012987012987012988,-0.07792207792207792,0.05194805194805195,77,77,0,2000,20261012,donor_all_draws_and_visits,pb_top1,ok
+raw,lora,-0.03896103896103896,-0.12987012987012986,0.03896103896103896,77,77,0,2000,20261012,donor_all_draws_and_visits,pb_top1,ok
+refcal,lora,-0.012987012987012988,-0.09090909090909091,0.07792207792207792,77,77,0,2000,20261012,donor_all_draws_and_visits,pb_top1,ok
+scsemi,lora,-0.12987012987012986,-0.2077922077922078,-0.05194805194805195,77,77,0,2000,20261012,donor_all_draws_and_visits,pb_top1,ok
+pairedcal,lora,-0.012294372294372288,-0.023467532467532484,-0.0009502164502164385,77,77,0,2000,20261012,donor_all_draws_and_visits,precision,ok
+raw,lora,-0.2922077922077922,-0.32658225108225103,-0.2578354978354978,77,77,0,2000,20261012,donor_all_draws_and_visits,precision,ok
+refcal,lora,-0.08614718614718615,-0.103982683982684,-0.06735497835497838,77,77,0,2000,20261012,donor_all_draws_and_visits,precision,ok
+scsemi,lora,-0.16666666666666669,-0.1951536796536796,-0.13852597402597402,77,77,0,2000,20261012,donor_all_draws_and_visits,precision,ok
+pairedcal,lora,-0.012207792207792226,-0.022683982683982713,-0.0014718614718614862,77,77,0,2000,20261012,donor_all_draws_and_visits,precision_depth_matched,ok
+raw,lora,-0.35160173160173164,-0.38545670995671,-0.3173116883116883,77,77,0,2000,20261012,donor_all_draws_and_visits,precision_depth_matched,ok
+refcal,lora,-0.1287445887445888,-0.14268614718614722,-0.115495670995671,77,77,0,2000,20261012,donor_all_draws_and_visits,precision_depth_matched,ok
+scsemi,lora,-0.4714285714285714,-0.5145476190476189,-0.42813636363636365,77,77,0,2000,20261012,donor_all_draws_and_visits,precision_depth_matched,ok

paper-releases/pbisc-diffusion/updates/20261013T034842Z-expanded-131-slide-master/diffusion/dataset/server_1/model8/presentations/2026-09-30--paper-summary--r00/data/expanded_master_20261013/disease/strict_snapshot/ye2026_sepsis/draw1/scores/ye2026_sepsis/disease/draw1/statistics/status.json

@@ -0,0 +1,18 @@
+{
+  "schema": "pbisc.paper.strict-statistics.v1",
+  "support_sha256": "b85d386f59fff3c35b7beb041528403ab3fde9abf06af2bdd0b3b63c1bb8d99f",
+  "bootstrap_unit": "unique_donor_all_visits_and_draws",
+  "bootstrap_replicates": 2000,
+  "draws": [
+    "draw1_n5"
+  ],
+  "disease_deg": {
+    "status": "ok",
+    "method": "donor_condition_pseudobulk_limma_duplicateCorrelation_if_repeated_condition",
+    "n_genes_kept": 5975,
+    "rows": 25,
+    "n_pending": 0,
+    "n_not_estimable": 0,
+    "summary_csv": "/home/sj_server_1/PBISC/immun-pbmc-fm/model_8_sparse_data_diffusion/plans/paper_figures_strictpairs_20261012/scores/ye2026_sepsis/disease/draw1/statistics/donor_deg/donor_deg_summary.csv"
+  }
+}

paper-releases/pbisc-diffusion/updates/20261013T034842Z-expanded-131-slide-master/diffusion/dataset/server_1/model8/presentations/2026-09-30--paper-summary--r00/data/expanded_master_20261013/disease/strict_snapshot/ye2026_sepsis/draw2/protocol/splits/ye2026_sepsis/disease/draw2/support.json

@@ -0,0 +1,254 @@
+{
+  "schema": "pbisc.paper.strict-support.v1",
+  "cohort": "ye2026_sepsis",
+  "design": "disease_existing_draw",
+  "unit": "draw2_n5",
+  "n_pairs": 5,
+  "train_sample_ids": [
+    "PIC01",
+    "Res-S177",
+    "Skin-S74",
+    "Res-S136",
+    "Res-S77"
+  ],
+  "train_donor_ids": [
+    "PIC01",
+    "Res-S177",
+    "Skin-S74",
+    "Res-S136",
+    "Res-S77"
+  ],
+  "test_sample_ids": [
+    "Abd-PS04",
+    "Abd-PS05",
+    "Abd-PS07",
+    "Abd-PS19",
+    "Abd-PS20",
+    "Abd-PS23",
+    "Abd-PS27",
+    "Abd-S102",
+    "Abd-S103",
+    "Abd-S120",
+    "Abd-S123",
+    "Abd-S156",
+    "Abd-S39",
+    "Abd-S42",
+    "Abd-S47",
+    "Abd-S51",
+    "Abd-S54",
+    "Abd-S57",
+    "Abd-S66",
+    "Abd-S79",
+    "Abd-S83",
+    "Abd-S98",
+    "HC01",
+    "HC05",
+    "HC07",
+    "HC09",
+    "HC12",
+    "HC13",
+    "HC16",
+    "IC10",
+    "IC15",
+    "IC16",
+    "IC19",
+    "IC22",
+    "IC23",
+    "PHC01",
+    "PHC02",
+    "PHC03",
+    "PHC05",
+    "PIC02",
+    "PIC04",
+    "PIC05",
+    "Res-PS02",
+    "Res-PS03",
+    "Res-PS12",
+    "Res-PS16",
+    "Res-PS21",
+    "Res-PS22",
+    "Res-PS25",
+    "Res-PS26",
+    "Res-S10",
+    "Res-S125",
+    "Res-S127",
+    "Res-S139",
+    "Res-S146",
+    "Res-S149",
+    "Res-S150",
+    "Res-S164",
+    "Res-S166",
+    "Res-S174",
+    "Res-S184",
+    "Res-S19",
+    "Res-S26",
+    "Res-S40",
+    "Res-S87",
+    "Skin-S140",
+    "Skin-S142",
+    "Skin-S152",
+    "Skin-S38",
+    "Skin-S43",
+    "Skin-S46",
+    "Skin-S52",
+    "Uri-S134",
+    "Uri-S147",
+    "Uri-S157",
+    "Uri-S20",
+    "Uri-S93"
+  ],
+  "test_donor_ids": [
+    "Abd-PS04",
+    "Abd-PS05",
+    "Abd-PS07",
+    "Abd-PS19",
+    "Abd-PS20",
+    "Abd-PS23",
+    "Abd-PS27",
+    "Abd-S102",
+    "Abd-S103",
+    "Abd-S120",
+    "Abd-S123",
+    "Abd-S156",
+    "Abd-S39",
+    "Abd-S42",
+    "Abd-S47",
+    "Abd-S51",
+    "Abd-S54",
+    "Abd-S57",
+    "Abd-S66",
+    "Abd-S79",
+    "Abd-S83",
+    "Abd-S98",
+    "HC01",
+    "HC05",
+    "HC07",
+    "HC09",
+    "HC12",
+    "HC13",
+    "HC16",
+    "IC10",
+    "IC15",
+    "IC16",
+    "IC19",
+    "IC22",
+    "IC23",
+    "PHC01",
+    "PHC02",
+    "PHC03",
+    "PHC05",
+    "PIC02",
+    "PIC04",
+    "PIC05",
+    "Res-PS02",
+    "Res-PS03",
+    "Res-PS12",
+    "Res-PS16",
+    "Res-PS21",
+    "Res-PS22",
+    "Res-PS25",
+    "Res-PS26",
+    "Res-S10",
+    "Res-S125",
+    "Res-S127",
+    "Res-S139",
+    "Res-S146",
+    "Res-S149",
+    "Res-S150",
+    "Res-S164",
+    "Res-S166",
+    "Res-S174",
+    "Res-S184",
+    "Res-S19",
+    "Res-S26",
+    "Res-S40",
+    "Res-S87",
+    "Skin-S140",
+    "Skin-S142",
+    "Skin-S152",
+    "Skin-S38",
+    "Skin-S43",
+    "Skin-S46",
+    "Skin-S52",
+    "Uri-S134",
+    "Uri-S147",
+    "Uri-S157",
+    "Uri-S20",
+    "Uri-S93"
+  ],
+  "excluded_sample_ids": [],
+  "seed": null,
+  "selection_audit": [
+    {
+      "donor_id": "PIC01",
+      "assigned_stratum": false,
+      "selected_sample_id": "PIC01",
+      "candidates": [
+        {
+          "sample_id": "PIC01",
+          "time_value": 0.0,
+          "time_raw": "none (single sample per donor)",
+          "time_field": "timepoint",
+          "group": "ped_ICU_ctrl"
+        }
+      ]
+    },
+    {
+      "donor_id": "Res-S177",
+      "assigned_stratum": true,
+      "selected_sample_id": "Res-S177",
+      "candidates": [
+        {
+          "sample_id": "Res-S177",
+          "time_value": 0.0,
+          "time_raw": "none (single sample per donor)",
+          "time_field": "timepoint",
+          "group": "adult_sepsis"
+        }
+      ]
+    },
+    {
+      "donor_id": "Skin-S74",
+      "assigned_stratum": true,
+      "selected_sample_id": "Skin-S74",
+      "candidates": [
+        {
+          "sample_id": "Skin-S74",
+          "time_value": 0.0,
+          "time_raw": "none (single sample per donor)",
+          "time_field": "timepoint",
+          "group": "adult_sepsis"
+        }
+      ]
+    },
+    {
+      "donor_id": "Res-S136",
+      "assigned_stratum": true,
+      "selected_sample_id": "Res-S136",
+      "candidates": [
+        {
+          "sample_id": "Res-S136",
+          "time_value": 0.0,
+          "time_raw": "none (single sample per donor)",
+          "time_field": "timepoint",
+          "group": "adult_sepsis"
+        }
+      ]
+    },
+    {
+      "donor_id": "Res-S77",
+      "assigned_stratum": true,
+      "selected_sample_id": "Res-S77",
+      "candidates": [
+        {
+          "sample_id": "Res-S77",
+          "time_value": 0.0,
+          "time_raw": "none (single sample per donor)",
+          "time_field": "timepoint",
+          "group": "adult_sepsis"
+        }
+      ]
+    }
+  ],
+  "sha256": "ea331f967a3a212b91cd144bd8ba62cea3cbfe3bdcc9e77268e190757327b0e2"
+}

paper-releases/pbisc-diffusion/updates/20261013T034842Z-expanded-131-slide-master/diffusion/dataset/server_1/model8/presentations/2026-09-30--paper-summary--r00/data/expanded_master_20261013/disease/strict_snapshot/ye2026_sepsis/draw2/receipts/ye2026_sepsis-disease-draw2-score.json

@@ -0,0 +1,143 @@
+{
+  "state": "completed",
+  "signature": "00029367dbb83ea21423fe2e9186859440a22d6b9cb3ea32a985ec837bf57d13",
+  "outputs": [
+    {
+      "path": "/home/sj_server_1/PBISC/immun-pbmc-fm/model_8_sparse_data_diffusion/plans/paper_figures_strictpairs_20261012/scores/ye2026_sepsis/disease/draw2/score/summary.json",
+      "bytes": 55521,
+      "mtime_ns": 1791821949809097574,
+      "sha256": "b5d9d1d3a0f5af919c9da94588e0d238c217fb6b6aff3250c21af8c9e25eb3ce"
+    },
+    {
+      "path": "/home/sj_server_1/PBISC/immun-pbmc-fm/model_8_sparse_data_diffusion/plans/paper_figures_strictpairs_20261012/scores/ye2026_sepsis/disease/draw2/statistics/status.json",
+      "bytes": 694,
+      "mtime_ns": 1791823605723254602,
+      "sha256": "a8cc04d13bfe9dde4965a8072f939d2861e72e67d137ee4f96d1203b337476f5"
+    },
+    {
+      "path": "/home/sj_server_1/PBISC/immun-pbmc-fm/model_8_sparse_data_diffusion/plans/paper_figures_strictpairs_20261012/scores/ye2026_sepsis/disease/draw2/statistics/donor_bootstrap_2000.csv",
+      "bytes": 13176,
+      "mtime_ns": 1791823423566087758,
+      "sha256": "cb0ef272106005d5e4196278dc63bd21767c26f13a54fe8190e4a2250835d0a4"
+    },
+    {
+      "path": "/home/sj_server_1/PBISC/immun-pbmc-fm/model_8_sparse_data_diffusion/plans/paper_figures_strictpairs_20261012/scores/ye2026_sepsis/disease/draw2/extras/ye2026_sepsis/strict/manifest.json",
+      "bytes": 4373,
+      "mtime_ns": 1791823335656426600,
+      "sha256": "d27b3657e1b601c9e5879dde644d94761d41995295adf6daaf7b7d95b4d0d86f"
+    },
+    {
+      "path": "/home/sj_server_1/PBISC/immun-pbmc-fm/model_8_sparse_data_diffusion/plans/paper_figures_strictpairs_20261012/scores/ye2026_sepsis/disease/draw2/contrast/ye2026_sepsis/strict/manifest.json",
+      "bytes": 18881,
+      "mtime_ns": 1791823423234702234,
+      "sha256": "1e2040dde2f698cf4c5a7a5f994d753b07b8d6f52352a79b43633eaecba1410a"
+    }
+  ],
+  "seconds": 1766.787241901,
+  "at": "2026-10-12T16:46:46.011004+00:00",
+  "execution": {
+    "host": "spark-fa6b",
+    "map_host": null,
+    "map_path": null,
+    "map_sha256": null,
+    "argv": [
+      "/home/sj_server_1/miniforge3/envs/cxg_corpus/bin/python",
+      "-u",
+      "/home/sj_server_1/PBISC/immun-pbmc-fm/model_8_sparse_data_diffusion/plans/paper_figures_strictpairs_20261012/tools/score_strict.py",
+      "--support-manifest",
+      "/home/sj_server_1/PBISC/immun-pbmc-fm/model_8_sparse_data_diffusion/plans/paper_figures_strictpairs_20261012/protocol/splits/ye2026_sepsis/disease/draw2/support.json",
+      "--out",
+      "/home/sj_server_1/PBISC/immun-pbmc-fm/model_8_sparse_data_diffusion/plans/paper_figures_strictpairs_20261012/scores/ye2026_sepsis/disease/draw2",
+      "--action",
+      "all",
+      "--threads",
+      "4",
+      "--arm",
+      "lora=/home/sj_server_1/PBISC/immun-pbmc-fm/model_8_sparse_data_diffusion/plans/paper_figures_strictpairs_20261012/generated/ye2026_sepsis/disease/draw2/lora.npz",
+      "--arm",
+      "pairedcal=/home/sj_server_1/PBISC/immun-pbmc-fm/model_8_sparse_data_diffusion/plans/paper_figures_strictpairs_20261012/generated/ye2026_sepsis/disease/draw2/pairedcal.npz",
+      "--arm",
+      "scsemi=/home/sj_server_1/PBISC/immun-pbmc-fm/model_8_sparse_data_diffusion/plans/paper_figures_strictpairs_20261012/generated/ye2026_sepsis/disease/draw2/scsemi.npz",
+      "--arm",
+      "raw=/home/sj_server_1/PBISC/immun-pbmc-fm/model_8_sparse_data_diffusion/plans/paper_figures_strictpairs_20261012/generated/global/ye2026_sepsis/raw.npz",
+      "--arm",
+      "refcal=/home/sj_server_1/PBISC/immun-pbmc-fm/model_8_sparse_data_diffusion/plans/paper_figures_strictpairs_20261012/generated/global/ye2026_sepsis/refcal.npz"
+    ],
+    "command": [
+      "systemd-run",
+      "--user",
+      "--wait",
+      "--collect",
+      "--pipe",
+      "--quiet",
+      "--unit=pbisc-strict-ye2026_sepsis-disease-draw2-score-44882-1791821839223163515",
+      "--slice=app.slice",
+      "--working-directory=/home/sj_server_1/PBISC/immun-pbmc-fm/model_8_sparse_data_diffusion/plans/paper_figures_strictpairs_20261012",
+      "--expand-environment=no",
+      "-p",
+      "MemoryMax=32G",
+      "-p",
+      "MemorySwapMax=0",
+      "-p",
+      "OOMPolicy=kill",
+      "-p",
+      "OOMScoreAdjust=500",
+      "-p",
+      "CPUQuota=400%",
+      "/usr/bin/env",
+      "CUDA_VISIBLE_DEVICES=",
+      "PATH=/home/sj_server_1/.local/bin:/home/sj_server_1/miniforge3/bin:/usr/local/bin:/usr/bin:/bin",
+      "PYTHONDONTWRITEBYTECODE=1",
+      "PYTHONUNBUFFERED=1",
+      "OMP_NUM_THREADS=4",
+      "OPENBLAS_NUM_THREADS=4",
+      "MKL_NUM_THREADS=4",
+      "NUMBA_NUM_THREADS=4",
+      "/home/sj_server_1/miniforge3/envs/cxg_corpus/bin/python",
+      "-u",
+      "/home/sj_server_1/PBISC/immun-pbmc-fm/model_8_sparse_data_diffusion/plans/paper_figures_strictpairs_20261012/tools/score_strict.py",
+      "--support-manifest",
+      "/home/sj_server_1/PBISC/immun-pbmc-fm/model_8_sparse_data_diffusion/plans/paper_figures_strictpairs_20261012/protocol/splits/ye2026_sepsis/disease/draw2/support.json",
+      "--out",
+      "/home/sj_server_1/PBISC/immun-pbmc-fm/model_8_sparse_data_diffusion/plans/paper_figures_strictpairs_20261012/scores/ye2026_sepsis/disease/draw2",
+      "--action",
+      "all",
+      "--threads",
+      "4",
+      "--arm",
+      "lora=/home/sj_server_1/PBISC/immun-pbmc-fm/model_8_sparse_data_diffusion/plans/paper_figures_strictpairs_20261012/generated/ye2026_sepsis/disease/draw2/lora.npz",
+      "--arm",
+      "pairedcal=/home/sj_server_1/PBISC/immun-pbmc-fm/model_8_sparse_data_diffusion/plans/paper_figures_strictpairs_20261012/generated/ye2026_sepsis/disease/draw2/pairedcal.npz",
+      "--arm",
+      "scsemi=/home/sj_server_1/PBISC/immun-pbmc-fm/model_8_sparse_data_diffusion/plans/paper_figures_strictpairs_20261012/generated/ye2026_sepsis/disease/draw2/scsemi.npz",
+      "--arm",
+      "raw=/home/sj_server_1/PBISC/immun-pbmc-fm/model_8_sparse_data_diffusion/plans/paper_figures_strictpairs_20261012/generated/global/ye2026_sepsis/raw.npz",
+      "--arm",
+      "refcal=/home/sj_server_1/PBISC/immun-pbmc-fm/model_8_sparse_data_diffusion/plans/paper_figures_strictpairs_20261012/generated/global/ye2026_sepsis/refcal.npz"
+    ]
+  },
+  "argv": [
+    "/home/sj_server_1/miniforge3/envs/cxg_corpus/bin/python",
+    "-u",
+    "/home/sj_server_1/PBISC/immun-pbmc-fm/model_8_sparse_data_diffusion/plans/paper_figures_strictpairs_20261012/tools/score_strict.py",
+    "--support-manifest",
+    "/home/sj_server_1/PBISC/immun-pbmc-fm/model_8_sparse_data_diffusion/plans/paper_figures_strictpairs_20261012/protocol/splits/ye2026_sepsis/disease/draw2/support.json",
+    "--out",
+    "/home/sj_server_1/PBISC/immun-pbmc-fm/model_8_sparse_data_diffusion/plans/paper_figures_strictpairs_20261012/scores/ye2026_sepsis/disease/draw2",
+    "--action",
+    "all",
+    "--threads",
+    "4",
+    "--arm",
+    "lora=/home/sj_server_1/PBISC/immun-pbmc-fm/model_8_sparse_data_diffusion/plans/paper_figures_strictpairs_20261012/generated/ye2026_sepsis/disease/draw2/lora.npz",
+    "--arm",
+    "pairedcal=/home/sj_server_1/PBISC/immun-pbmc-fm/model_8_sparse_data_diffusion/plans/paper_figures_strictpairs_20261012/generated/ye2026_sepsis/disease/draw2/pairedcal.npz",
+    "--arm",
+    "scsemi=/home/sj_server_1/PBISC/immun-pbmc-fm/model_8_sparse_data_diffusion/plans/paper_figures_strictpairs_20261012/generated/ye2026_sepsis/disease/draw2/scsemi.npz",
+    "--arm",
+    "raw=/home/sj_server_1/PBISC/immun-pbmc-fm/model_8_sparse_data_diffusion/plans/paper_figures_strictpairs_20261012/generated/global/ye2026_sepsis/raw.npz",
+    "--arm",
+    "refcal=/home/sj_server_1/PBISC/immun-pbmc-fm/model_8_sparse_data_diffusion/plans/paper_figures_strictpairs_20261012/generated/global/ye2026_sepsis/refcal.npz"
+  ],
+  "previous_outputs": null
+}