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_sepsis_realism.csv

@@ -0,0 +1,31 @@
+draw,arm,c2st_knn_auc,mmd2_bw1,en
+0,real_R2,0.5173966942148761,3.441549630900376e-05,0.2106157425755866
+0,raw,0.9969850077772155,0.1907364309900873,17.5852418637721
+0,refcal,0.9930343696707332,0.08037871589608,1.904956309818488
+0,pairedcal,0.9822778808493094,0.0370477375097382,1.3558960409221923
+0,scsemi,0.997977080639418,0.2124571153415455,2.214361273662199
+0,lora,0.9380827945503272,0.0215252693639429,1.1915290582263076
+1,real_R2,0.5184360300594066,8.319931006139925e-06,0.2121503731617656
+1,raw,0.9972559734637658,0.1966953934343824,18.796184910040527
+1,refcal,0.9924142538558124,0.0838239406018022,1.9534305029393773
+1,pairedcal,0.983688236727198,0.0621854604182889,1.602031455630008
+1,scsemi,0.9969929161747344,0.1611377331078671,2.1931340620335287
+1,lora,0.9451782387886284,0.03167483254724,1.317336453445321
+2,real_R2,0.5170200895785312,1.968998113288656e-05,0.2001187356151867
+2,raw,0.9973628867524972,0.192158330917108,13.2877181707926
+2,refcal,0.9925681490226944,0.0802340564387584,1.7978733812692809
+2,pairedcal,0.9809079477521035,0.0380936537081884,1.3238582184032697
+2,scsemi,0.9966275182249208,0.1720649085877514,1.9060340825945723
+2,lora,0.9216308727347688,0.0197009357601825,0.9977391651649532
+3,real_R2,0.5157619047619048,3.3377348008345464e-05,0.2122015016357873
+3,raw,0.997247484117614,0.1900229023501733,19.76353762767736
+3,refcal,0.9921534828807556,0.0821907380238262,1.9602976487575263
+3,pairedcal,0.9818540132306366,0.0350681233402825,1.453667528914103
+3,scsemi,0.9968158018028148,0.1340227142676957,2.250114074736757
+3,lora,0.9414991473173292,0.0210102781045553,1.4294346073391078
+4,real_R2,0.515187777590375,1.4265804671564908e-05,0.2020675375965518
+4,raw,0.9971267967241992,0.1874896263228471,14.031243165444288
+4,refcal,0.992598039766871,0.0814065169541096,1.836057932861884
+4,pairedcal,0.9822484398718164,0.0313640841163391,1.3427762724721504
+4,scsemi,0.99742772811604,0.1491739382918446,2.168733157854573
+4,lora,0.9340252618953916,0.0130664335426733,1.1967789508675497

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/imperial_eskd/draw0/protocol/splits/imperial_eskd/disease/draw0/support.json

@@ -0,0 +1,451 @@
+{
+  "schema": "pbisc.paper.strict-support.v1",
+  "cohort": "imperial_eskd",
+  "design": "disease_existing_draw",
+  "unit": "draw0_n5",
+  "n_pairs": 5,
+  "train_sample_ids": [
+    "C106_2204",
+    "C237_2805",
+    "C126_2504",
+    "C141_2001",
+    "C58_2501"
+  ],
+  "train_donor_ids": [
+    "C106",
+    "C237",
+    "C126",
+    "C141",
+    "C58"
+  ],
+  "test_sample_ids": [
+    "C20_1004",
+    "C20_1404",
+    "C21_1004",
+    "C21_1704",
+    "C21_2504",
+    "C23_2204",
+    "C31_1304",
+    "C31_2004",
+    "C31_2704",
+    "C33_1401",
+    "C33_1601",
+    "C33_1901",
+    "C34_1404",
+    "C34_2104",
+    "C34_2504",
+    "C36_1504",
+    "C36_1704",
+    "C36_2104",
+    "C40_1504",
+    "C40_2204",
+    "C40_0105",
+    "C42_1504",
+    "C42_2204",
+    "C42_2704",
+    "C60_2504",
+    "C63_1704",
+    "C63_2404",
+    "C63_2904",
+    "C65_1704",
+    "C65_2104",
+    "C65_2504",
+    "C69_1804",
+    "C82_2504",
+    "C85_2004",
+    "C93_2104",
+    "C93_2704",
+    "C93_0405",
+    "C101_0601",
+    "C101_1101",
+    "C101_1301",
+    "C101_1801",
+    "C101_2001",
+    "C101_2502",
+    "C103_2204",
+    "C104_2204",
+    "C108_2204",
+    "C108_1501",
+    "C108_1801",
+    "C108_2201",
+    "C113_0605",
+    "C123_2404",
+    "C123_2904",
+    "C123_0505",
+    "C124_2404",
+    "C124_2704",
+    "C124_0105",
+    "C127_2504",
+    "C127_0405",
+    "C127_1105",
+    "C128_2504",
+    "C128_0405",
+    "C128_1105",
+    "C132_2804",
+    "C132_0205",
+    "C132_1105",
+    "C137_3004",
+    "C137_2502",
+    "C138_3004",
+    "C138_2301",
+    "C138_3001",
+    "C138_0202",
+    "C138_0402",
+    "C140_3004",
+    "C140_2801",
+    "C140_3001",
+    "C140_0202",
+    "C140_0402",
+    "C140_0602",
+    "C140_0902",
+    "C140_1103",
+    "C142_3004",
+    "C145_3004",
+    "C145_0701",
+    "C145_1201",
+    "C145_1401",
+    "C145_1901",
+    "C145_2301",
+    "C146_3004",
+    "C146_1201",
+    "C146_1401",
+    "C146_1601",
+    "C146_1901",
+    "C146_2301",
+    "C146_2701",
+    "C146_2502",
+    "C147_3004",
+    "C147_1401",
+    "C147_1901",
+    "C152_0405",
+    "C161_1105",
+    "C164_1105",
+    "C167_1205",
+    "C168_1205",
+    "C168_2001",
+    "C168_2301",
+    "C168_3001",
+    "C168_0202",
+    "C168_0403",
+    "C169_1205",
+    "C169_2001",
+    "C169_2301",
+    "C169_0202",
+    "C169_0403",
+    "C170_1205",
+    "C170_2301",
+    "C170_0202",
+    "C170_0402",
+    "C170_0403",
+    "C187_2605",
+    "C187_1201",
+    "C187_1401",
+    "C187_1901",
+    "C187_2301",
+    "C187_2502",
+    "C190_2605",
+    "C190_2901",
+    "C190_0102",
+    "C190_0302",
+    "C190_0502",
+    "C190_0802",
+    "C190_1002",
+    "C190_0903",
+    "C193_2605",
+    "C195_2605",
+    "C197_2605",
+    "C212_2705",
+    "C214_2705",
+    "C234_2805",
+    "C238_2905",
+    "C240_2905",
+    "C246_2905",
+    "C251_2905"
+  ],
+  "test_donor_ids": [
+    "C20",
+    "C20",
+    "C21",
+    "C21",
+    "C21",
+    "C23",
+    "C31",
+    "C31",
+    "C31",
+    "C33",
+    "C33",
+    "C33",
+    "C34",
+    "C34",
+    "C34",
+    "C36",
+    "C36",
+    "C36",
+    "C40",
+    "C40",
+    "C40",
+    "C42",
+    "C42",
+    "C42",
+    "C60",
+    "C63",
+    "C63",
+    "C63",
+    "C65",
+    "C65",
+    "C65",
+    "C69",
+    "C82",
+    "C85",
+    "C93",
+    "C93",
+    "C93",
+    "C101",
+    "C101",
+    "C101",
+    "C101",
+    "C101",
+    "C101",
+    "C103",
+    "C104",
+    "C108",
+    "C108",
+    "C108",
+    "C108",
+    "C113",
+    "C123",
+    "C123",
+    "C123",
+    "C124",
+    "C124",
+    "C124",
+    "C127",
+    "C127",
+    "C127",
+    "C128",
+    "C128",
+    "C128",
+    "C132",
+    "C132",
+    "C132",
+    "C137",
+    "C137",
+    "C138",
+    "C138",
+    "C138",
+    "C138",
+    "C138",
+    "C140",
+    "C140",
+    "C140",
+    "C140",
+    "C140",
+    "C140",
+    "C140",
+    "C140",
+    "C142",
+    "C145",
+    "C145",
+    "C145",
+    "C145",
+    "C145",
+    "C145",
+    "C146",
+    "C146",
+    "C146",
+    "C146",
+    "C146",
+    "C146",
+    "C146",
+    "C146",
+    "C147",
+    "C147",
+    "C147",
+    "C152",
+    "C161",
+    "C164",
+    "C167",
+    "C168",
+    "C168",
+    "C168",
+    "C168",
+    "C168",
+    "C168",
+    "C169",
+    "C169",
+    "C169",
+    "C169",
+    "C169",
+    "C170",
+    "C170",
+    "C170",
+    "C170",
+    "C170",
+    "C187",
+    "C187",
+    "C187",
+    "C187",
+    "C187",
+    "C187",
+    "C190",
+    "C190",
+    "C190",
+    "C190",
+    "C190",
+    "C190",
+    "C190",
+    "C190",
+    "C193",
+    "C195",
+    "C197",
+    "C212",
+    "C214",
+    "C234",
+    "C238",
+    "C240",
+    "C246",
+    "C251"
+  ],
+  "excluded_sample_ids": [
+    "C126_0605",
+    "C126_3004",
+    "C141_0202",
+    "C141_2201",
+    "C141_3001",
+    "C58_0102",
+    "C58_0402",
+    "C58_1003",
+    "C58_1604",
+    "C58_2901"
+  ],
+  "seed": null,
+  "selection_audit": [
+    {
+      "donor_id": "C106",
+      "assigned_stratum": false,
+      "selected_sample_id": "C106_2204",
+      "candidates": [
+        {
+          "sample_id": "C106_2204",
+          "time_value": 737537.0,
+          "time_raw": "22/04/2020",
+          "time_field": "sample_date",
+          "group": "covid_negative"
+        }
+      ]
+    },
+    {
+      "donor_id": "C237",
+      "assigned_stratum": false,
+      "selected_sample_id": "C237_2805",
+      "candidates": [
+        {
+          "sample_id": "C237_2805",
+          "time_value": 737573.0,
+          "time_raw": "28/05/2020",
+          "time_field": "sample_date",
+          "group": "covid_negative"
+        }
+      ]
+    },
+    {
+      "donor_id": "C126",
+      "assigned_stratum": true,
+      "selected_sample_id": "C126_2504",
+      "candidates": [
+        {
+          "sample_id": "C126_2504",
+          "time_value": 737540.0,
+          "time_raw": "25/04/2020",
+          "time_field": "sample_date",
+          "group": "covid_positive"
+        },
+        {
+          "sample_id": "C126_3004",
+          "time_value": 737545.0,
+          "time_raw": "30/04/2020",
+          "time_field": "sample_date",
+          "group": "covid_positive"
+        },
+        {
+          "sample_id": "C126_0605",
+          "time_value": 737551.0,
+          "time_raw": "06/05/2020",
+          "time_field": "sample_date",
+          "group": "covid_positive"
+        }
+      ]
+    },
+    {
+      "donor_id": "C141",
+      "assigned_stratum": true,
+      "selected_sample_id": "C141_2001",
+      "candidates": [
+        {
+          "sample_id": "C141_2001",
+          "time_value": 737810.0,
+          "time_raw": "20/01/2021",
+          "time_field": "sample_date",
+          "group": "covid_positive"
+        },
+        {
+          "sample_id": "C141_2201",
+          "time_value": 737812.0,
+          "time_raw": "22/01/2021",
+          "time_field": "sample_date",
+          "group": "covid_positive"
+        },
+        {
+          "sample_id": "C141_3001",
+          "time_value": 737820.0,
+          "time_raw": "30/01/2021",
+          "time_field": "sample_date",
+          "group": "covid_positive"
+        },
+        {
+          "sample_id": "C141_0202",
+          "time_value": 737823.0,
+          "time_raw": "02/02/2021",
+          "time_field": "sample_date",
+          "group": "covid_positive"
+        }
+      ]
+    },
+    {
+      "donor_id": "C58",
+      "assigned_stratum": true,
+      "selected_sample_id": "C58_2501",
+      "candidates": [
+        {
+          "sample_id": "C58_2501",
+          "time_value": 737815.0,
+          "time_raw": "25/01/2021",
+          "time_field": "sample_date",
+          "group": "covid_positive"
+        },
+        {
+          "sample_id": "C58_2901",
+          "time_value": 737819.0,
+          "time_raw": "29/01/2021",
+          "time_field": "sample_date",
+          "group": "covid_positive"
+        },
+        {
+          "sample_id": "C58_0102",
+          "time_value": 737822.0,
+          "time_raw": "01/02/2021",
+          "time_field": "sample_date",
+          "group": "covid_positive"
+        },
+        {
+          "sample_id": "C58_0402",
+          "time_value": 737825.0,
+          "time_raw": "04/02/2021",
+          "time_field": "sample_date",
+          "group": "covid_positive"
+        }
+      ]
+    }
+  ],
+  "sha256": "4733416ac0e4142bc928aa91f4fbe75c852492f55832470684fd9d41b56ef716"
+}

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/imperial_eskd/draw0/receipts/imperial_eskd-disease-draw0-score.json

@@ -0,0 +1,143 @@
+{
+  "state": "completed",
+  "signature": "39583e1a1148b9724c3a4b01bbb8a9d0ce259a625a7b49621729bc12dc5fd5d4",
+  "outputs": [
+    {
+      "path": "/home/sj_server_1/PBISC/immun-pbmc-fm/model_8_sparse_data_diffusion/plans/paper_figures_strictpairs_20261012/scores/imperial_eskd/disease/draw0/score/summary.json",
+      "bytes": 59419,
+      "mtime_ns": 1791848456927527679,
+      "sha256": "d129eeb3ec48f773ce0b2629848507d14e210d7275394cfe33bd32d1b6da9412"
+    },
+    {
+      "path": "/home/sj_server_1/PBISC/immun-pbmc-fm/model_8_sparse_data_diffusion/plans/paper_figures_strictpairs_20261012/scores/imperial_eskd/disease/draw0/statistics/status.json",
+      "bytes": 694,
+      "mtime_ns": 1791851368873032203,
+      "sha256": "9c6a13fe6c86d2044ce45e0ec69ca0a3eb45bd939019203c162fbcfc6e080420"
+    },
+    {
+      "path": "/home/sj_server_1/PBISC/immun-pbmc-fm/model_8_sparse_data_diffusion/plans/paper_figures_strictpairs_20261012/scores/imperial_eskd/disease/draw0/statistics/donor_bootstrap_2000.csv",
+      "bytes": 13349,
+      "mtime_ns": 1791850956757840324,
+      "sha256": "5cbc84ad0b99d39a405d69a34d81a365ad9529c2046839ddc7038d50b0a2c00f"
+    },
+    {
+      "path": "/home/sj_server_1/PBISC/immun-pbmc-fm/model_8_sparse_data_diffusion/plans/paper_figures_strictpairs_20261012/scores/imperial_eskd/disease/draw0/extras/imperial_eskd/strict/manifest.json",
+      "bytes": 5476,
+      "mtime_ns": 1791850810738581634,
+      "sha256": "172eafda20f40b51dd9cdc25764f93bf45f1d4a1ebf0ecf7093a355f2a47e18c"
+    },
+    {
+      "path": "/home/sj_server_1/PBISC/immun-pbmc-fm/model_8_sparse_data_diffusion/plans/paper_figures_strictpairs_20261012/scores/imperial_eskd/disease/draw0/contrast/imperial_eskd/strict/manifest.json",
+      "bytes": 19980,
+      "mtime_ns": 1791850956405758724,
+      "sha256": "09ce088243848c5cba40cf7ce5184b24c73470534bd5bcaedceb1645f9770d4f"
+    }
+  ],
+  "seconds": 3116.4731240300025,
+  "at": "2026-10-13T00:29:29.148683+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/imperial_eskd/disease/draw0/support.json",
+      "--out",
+      "/home/sj_server_1/PBISC/immun-pbmc-fm/model_8_sparse_data_diffusion/plans/paper_figures_strictpairs_20261012/scores/imperial_eskd/disease/draw0",
+      "--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/imperial_eskd/disease/draw0/lora.npz",
+      "--arm",
+      "pairedcal=/home/sj_server_1/PBISC/immun-pbmc-fm/model_8_sparse_data_diffusion/plans/paper_figures_strictpairs_20261012/generated/imperial_eskd/disease/draw0/pairedcal.npz",
+      "--arm",
+      "scsemi=/home/sj_server_1/PBISC/immun-pbmc-fm/model_8_sparse_data_diffusion/plans/paper_figures_strictpairs_20261012/generated/imperial_eskd/disease/draw0/scsemi.npz",
+      "--arm",
+      "raw=/home/sj_server_1/PBISC/immun-pbmc-fm/model_8_sparse_data_diffusion/plans/paper_figures_strictpairs_20261012/generated/global/imperial_eskd/raw.npz",
+      "--arm",
+      "refcal=/home/sj_server_1/PBISC/immun-pbmc-fm/model_8_sparse_data_diffusion/plans/paper_figures_strictpairs_20261012/generated/global/imperial_eskd/refcal.npz"
+    ],
+    "command": [
+      "systemd-run",
+      "--user",
+      "--wait",
+      "--collect",
+      "--pipe",
+      "--quiet",
+      "--unit=pbisc-strict-imperial_eskd-disease-draw0-score-44882-1791848252674937590",
+      "--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/imperial_eskd/disease/draw0/support.json",
+      "--out",
+      "/home/sj_server_1/PBISC/immun-pbmc-fm/model_8_sparse_data_diffusion/plans/paper_figures_strictpairs_20261012/scores/imperial_eskd/disease/draw0",
+      "--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/imperial_eskd/disease/draw0/lora.npz",
+      "--arm",
+      "pairedcal=/home/sj_server_1/PBISC/immun-pbmc-fm/model_8_sparse_data_diffusion/plans/paper_figures_strictpairs_20261012/generated/imperial_eskd/disease/draw0/pairedcal.npz",
+      "--arm",
+      "scsemi=/home/sj_server_1/PBISC/immun-pbmc-fm/model_8_sparse_data_diffusion/plans/paper_figures_strictpairs_20261012/generated/imperial_eskd/disease/draw0/scsemi.npz",
+      "--arm",
+      "raw=/home/sj_server_1/PBISC/immun-pbmc-fm/model_8_sparse_data_diffusion/plans/paper_figures_strictpairs_20261012/generated/global/imperial_eskd/raw.npz",
+      "--arm",
+      "refcal=/home/sj_server_1/PBISC/immun-pbmc-fm/model_8_sparse_data_diffusion/plans/paper_figures_strictpairs_20261012/generated/global/imperial_eskd/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/imperial_eskd/disease/draw0/support.json",
+    "--out",
+    "/home/sj_server_1/PBISC/immun-pbmc-fm/model_8_sparse_data_diffusion/plans/paper_figures_strictpairs_20261012/scores/imperial_eskd/disease/draw0",
+    "--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/imperial_eskd/disease/draw0/lora.npz",
+    "--arm",
+    "pairedcal=/home/sj_server_1/PBISC/immun-pbmc-fm/model_8_sparse_data_diffusion/plans/paper_figures_strictpairs_20261012/generated/imperial_eskd/disease/draw0/pairedcal.npz",
+    "--arm",
+    "scsemi=/home/sj_server_1/PBISC/immun-pbmc-fm/model_8_sparse_data_diffusion/plans/paper_figures_strictpairs_20261012/generated/imperial_eskd/disease/draw0/scsemi.npz",
+    "--arm",
+    "raw=/home/sj_server_1/PBISC/immun-pbmc-fm/model_8_sparse_data_diffusion/plans/paper_figures_strictpairs_20261012/generated/global/imperial_eskd/raw.npz",
+    "--arm",
+    "refcal=/home/sj_server_1/PBISC/immun-pbmc-fm/model_8_sparse_data_diffusion/plans/paper_figures_strictpairs_20261012/generated/global/imperial_eskd/refcal.npz"
+  ],
+  "previous_outputs": null
+}

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/imperial_eskd/draw0/scores/imperial_eskd/disease/draw0/contrast/imperial_eskd/strict/manifest.json

@@ -0,0 +1,623 @@
+{
+ "schema": "paired_ft_contrast_extra.v1",
+ "dataset": "imperial_eskd",
+ "design": "scored",
+ "unit": "strict",
+ "written_utc": "2026-10-13T00:22:36.405243+00:00",
+ "command": [
+  "/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/imperial_eskd/disease/draw0/support.json",
+  "--out",
+  "/home/sj_server_1/PBISC/immun-pbmc-fm/model_8_sparse_data_diffusion/plans/paper_figures_strictpairs_20261012/scores/imperial_eskd/disease/draw0",
+  "--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/imperial_eskd/disease/draw0/lora.npz",
+  "--arm",
+  "pairedcal=/home/sj_server_1/PBISC/immun-pbmc-fm/model_8_sparse_data_diffusion/plans/paper_figures_strictpairs_20261012/generated/imperial_eskd/disease/draw0/pairedcal.npz",
+  "--arm",
+  "scsemi=/home/sj_server_1/PBISC/immun-pbmc-fm/model_8_sparse_data_diffusion/plans/paper_figures_strictpairs_20261012/generated/imperial_eskd/disease/draw0/scsemi.npz",
+  "--arm",
+  "raw=/home/sj_server_1/PBISC/immun-pbmc-fm/model_8_sparse_data_diffusion/plans/paper_figures_strictpairs_20261012/generated/global/imperial_eskd/raw.npz",
+  "--arm",
+  "refcal=/home/sj_server_1/PBISC/immun-pbmc-fm/model_8_sparse_data_diffusion/plans/paper_figures_strictpairs_20261012/generated/global/imperial_eskd/refcal.npz"
+ ],
+ "threads": 4,
+ "donors": [
+  "C20_1004",
+  "C20_1404",
+  "C21_1004",
+  "C21_1704",
+  "C21_2504",
+  "C23_2204",
+  "C31_1304",
+  "C31_2004",
+  "C31_2704",
+  "C33_1401",
+  "C33_1601",
+  "C33_1901",
+  "C34_1404",
+  "C34_2104",
+  "C34_2504",
+  "C36_1504",
+  "C36_1704",
+  "C36_2104",
+  "C40_1504",
+  "C40_2204",
+  "C40_0105",
+  "C42_1504",
+  "C42_2204",
+  "C42_2704",
+  "C60_2504",
+  "C63_1704",
+  "C63_2404",
+  "C63_2904",
+  "C65_1704",
+  "C65_2104",
+  "C65_2504",
+  "C69_1804",
+  "C82_2504",
+  "C85_2004",
+  "C93_2104",
+  "C93_2704",
+  "C93_0405",
+  "C101_0601",
+  "C101_1101",
+  "C101_1301",
+  "C101_1801",
+  "C101_2001",
+  "C101_2502",
+  "C103_2204",
+  "C104_2204",
+  "C108_2204",
+  "C108_1501",
+  "C108_1801",
+  "C108_2201",
+  "C113_0605",
+  "C123_2404",
+  "C123_2904",
+  "C123_0505",
+  "C124_2404",
+  "C124_2704",
+  "C124_0105",
+  "C127_2504",
+  "C127_0405",
+  "C127_1105",
+  "C128_2504",
+  "C128_0405",
+  "C128_1105",
+  "C132_2804",
+  "C132_0205",
+  "C132_1105",
+  "C137_3004",
+  "C137_2502",
+  "C138_3004",
+  "C138_2301",
+  "C138_3001",
+  "C138_0202",
+  "C138_0402",
+  "C140_3004",
+  "C140_2801",
+  "C140_3001",
+  "C140_0202",
+  "C140_0402",
+  "C140_0602",
+  "C140_0902",
+  "C140_1103",
+  "C142_3004",
+  "C145_3004",
+  "C145_0701",
+  "C145_1201",
+  "C145_1401",
+  "C145_1901",
+  "C145_2301",
+  "C146_3004",
+  "C146_1201",
+  "C146_1401",
+  "C146_1601",
+  "C146_1901",
+  "C146_2301",
+  "C146_2701",
+  "C146_2502",
+  "C147_3004",
+  "C147_1401",
+  "C147_1901",
+  "C152_0405",
+  "C161_1105",
+  "C164_1105",
+  "C167_1205",
+  "C168_1205",
+  "C168_2001",
+  "C168_2301",
+  "C168_3001",
+  "C168_0202",
+  "C168_0403",
+  "C169_1205",
+  "C169_2001",
+  "C169_2301",
+  "C169_0202",
+  "C169_0403",
+  "C170_1205",
+  "C170_2301",
+  "C170_0202",
+  "C170_0402",
+  "C170_0403",
+  "C187_2605",
+  "C187_1201",
+  "C187_1401",
+  "C187_1901",
+  "C187_2301",
+  "C187_2502",
+  "C190_2605",
+  "C190_2901",
+  "C190_0102",
+  "C190_0302",
+  "C190_0502",
+  "C190_0802",
+  "C190_1002",
+  "C190_0903",
+  "C193_2605",
+  "C195_2605",
+  "C197_2605",
+  "C212_2705",
+  "C214_2705",
+  "C234_2805",
+  "C238_2905",
+  "C240_2905",
+  "C246_2905",
+  "C251_2905"
+ ],
+ "n_samples": 142,
+ "contrast": {
+  "case_groups": [
+   "covid_positive"
+  ],
+  "control_groups": [
+   "covid_negative"
+  ],
+  "n_case_donors": 102,
+  "n_control_donors": 31
+ },
+ "calls": {
+  "/home/sj_server_1/PBISC/immun-pbmc-fm/model_8_sparse_data_diffusion/plans/paper_figures_strictpairs_20261012/scores/imperial_eskd/disease/draw0/score": {
+   "arms": [
+    "lora",
+    "pairedcal",
+    "scsemi",
+    "raw",
+    "refcal"
+   ],
+   "summary_sha256": "d129eeb3ec48f773ce0b2629848507d14e210d7275394cfe33bd32d1b6da9412",
+   "contrast_csv_sha256": "4665d01929a44a1d198e05e88d3b380ad582876050ac632976be578142eb838e"
+  }
+ },
+ "notes": {
+  "source_tree": "/home/sj_server_1/PBISC/immun-pbmc-fm/model_8_sparse_data_diffusion/plans/paired_finetune_intradataset_20260927/scores"
+ },
+ "reference_sha256": "34b4caa3f8a60b46d5faf58f09cdaa5622bcce19e4c45d9902a711fead96375e",
+ "deg_reference": {
+  "source": "/home/sj_server_1/PBISC/immun-pbmc-fm/model_8_sparse_data_diffusion/plans/paired_finetune_intradataset_20260927/scoring_cache/imperial_eskd/deg_reference.npz",
+  "sha256": "8fada1ace7530b79bfc5c5201b9cb60399ff77d083dd8b53b13cfbe900cda55c"
+ },
+ "gene_exclusion": null,
+ "n_genes_disease_scores": 5927,
+ "genes_per_type": {
+  "T cell": 3037,
+  "B cell": 3192,
+  "Monocyte": 2882,
+  "NK cell": 2972
+ },
+ "arms": {
+  "lora": {
+   "call": "/home/sj_server_1/PBISC/immun-pbmc-fm/model_8_sparse_data_diffusion/plans/paper_figures_strictpairs_20261012/scores/imperial_eskd/disease/draw0/score",
+   "npz": "/home/sj_server_1/PBISC/immun-pbmc-fm/model_8_sparse_data_diffusion/plans/paper_figures_strictpairs_20261012/generated/imperial_eskd/disease/draw0/lora.npz",
+   "npz_read_from": "/home/sj_server_1/PBISC/immun-pbmc-fm/model_8_sparse_data_diffusion/plans/paper_figures_strictpairs_20261012/generated/imperial_eskd/disease/draw0/lora.npz",
+   "npz_sha256": "ec73f58c1e0e34d6ab10e83f27156145227987e90f158b35ab78cec17069807a",
+   "receipt_verified": true,
+   "condition": "/home/sj_server_1/PBISC/immun-pbmc-fm/model_8_sparse_data_diffusion/plans/paper_figures_strictpairs_20261012/data/imperial_eskd/disease/draw0/test_raw.npz",
+   "condition_sha256": "735672055b9222e45379a85fb0de4994028d33943ba220f048c7b6eafca65e0a",
+   "condition_label": "test_raw.npz@73567205",
+   "condition_read_from": "/home/sj_server_1/PBISC/immun-pbmc-fm/model_8_sparse_data_diffusion/plans/paper_figures_strictpairs_20261012/data/imperial_eskd/disease/draw0/test_raw.npz",
+   "condition_key": "bcast:735672055b9222e4",
+   "n_generated_cells": 213000,
+   "label": "lora",
+   "seconds": 21.4
+  },
+  "pairedcal": {
+   "call": "/home/sj_server_1/PBISC/immun-pbmc-fm/model_8_sparse_data_diffusion/plans/paper_figures_strictpairs_20261012/scores/imperial_eskd/disease/draw0/score",
+   "npz": "/home/sj_server_1/PBISC/immun-pbmc-fm/model_8_sparse_data_diffusion/plans/paper_figures_strictpairs_20261012/generated/imperial_eskd/disease/draw0/pairedcal.npz",
+   "npz_read_from": "/home/sj_server_1/PBISC/immun-pbmc-fm/model_8_sparse_data_diffusion/plans/paper_figures_strictpairs_20261012/generated/imperial_eskd/disease/draw0/pairedcal.npz",
+   "npz_sha256": "308bce8e352f6ea90c3f6247afd8a9f92c306144c951d4cb7e35caac9baef033",
+   "receipt_verified": true,
+   "condition": "/home/sj_server_1/PBISC/immun-pbmc-fm/model_8_sparse_data_diffusion/plans/paper_figures_strictpairs_20261012/data/imperial_eskd/disease/draw0/test_cal.npz",
+   "condition_sha256": "e74507e86137aeb8f348ddd7ae4af5b258668af4c08c627d9219d03fc477c8e5",
+   "condition_label": "test_cal.npz@e74507e8",
+   "condition_read_from": "/home/sj_server_1/PBISC/immun-pbmc-fm/model_8_sparse_data_diffusion/plans/paper_figures_strictpairs_20261012/data/imperial_eskd/disease/draw0/test_cal.npz",
+   "condition_key": "bcast:e74507e86137aeb8",
+   "n_generated_cells": 213000,
+   "label": "pairedcal",
+   "seconds": 22.1
+  },
+  "scsemi": {
+   "call": "/home/sj_server_1/PBISC/immun-pbmc-fm/model_8_sparse_data_diffusion/plans/paper_figures_strictpairs_20261012/scores/imperial_eskd/disease/draw0/score",
+   "npz": "/home/sj_server_1/PBISC/immun-pbmc-fm/model_8_sparse_data_diffusion/plans/paper_figures_strictpairs_20261012/generated/imperial_eskd/disease/draw0/scsemi.npz",
+   "npz_read_from": "/home/sj_server_1/PBISC/immun-pbmc-fm/model_8_sparse_data_diffusion/plans/paper_figures_strictpairs_20261012/generated/imperial_eskd/disease/draw0/scsemi.npz",
+   "npz_sha256": "8ed169cfa035daad67ff6f405bc9b3f8df215ea1fc55a746d33e072d52286220",
+   "receipt_verified": true,
+   "condition": "/home/sj_server_1/PBISC/immun-pbmc-fm/model_8_sparse_data_diffusion/plans/paper_figures_strictpairs_20261012/data/imperial_eskd/disease/draw0/test_raw.npz",
+   "condition_sha256": "735672055b9222e45379a85fb0de4994028d33943ba220f048c7b6eafca65e0a",
+   "condition_label": "test_raw.npz@73567205",
+   "condition_read_from": "/home/sj_server_1/PBISC/immun-pbmc-fm/model_8_sparse_data_diffusion/plans/paper_figures_strictpairs_20261012/data/imperial_eskd/disease/draw0/test_raw.npz",
+   "condition_key": "bcast:735672055b9222e4",
+   "n_generated_cells": 213000,
+   "label": "scsemi",
+   "seconds": 17.2
+  },
+  "raw": {
+   "call": "/home/sj_server_1/PBISC/immun-pbmc-fm/model_8_sparse_data_diffusion/plans/paper_figures_strictpairs_20261012/scores/imperial_eskd/disease/draw0/score",
+   "npz": "/home/sj_server_1/PBISC/immun-pbmc-fm/model_8_sparse_data_diffusion/plans/paper_figures_strictpairs_20261012/generated/global/imperial_eskd/raw.npz",
+   "npz_read_from": "/home/sj_server_1/PBISC/immun-pbmc-fm/model_8_sparse_data_diffusion/plans/paper_figures_strictpairs_20261012/generated/global/imperial_eskd/raw.npz",
+   "npz_sha256": "933d3797441cee599cc8da7a3df0a624edc71e71672f6f5bea877e88cbb53fb3",
+   "receipt_verified": true,
+   "condition": "/home/sj_server_1/PBISC/immun-pbmc-fm/model_8_sparse_data_diffusion/plans/paper_figures_strictpairs_20261012/data/external_refcal/imperial_eskd/conditions_raw.npz",
+   "condition_sha256": "0ac35b61c09fb1d50ca64e314c62b1adb84f3759ae5b5b029a3496c7efade10f",
+   "condition_label": "conditions_raw.npz@0ac35b61",
+   "condition_read_from": "/home/sj_server_1/PBISC/immun-pbmc-fm/model_8_sparse_data_diffusion/plans/paper_figures_strictpairs_20261012/data/external_refcal/imperial_eskd/conditions_raw.npz",
+   "condition_key": "bcast:0ac35b61c09fb1d5",
+   "n_generated_cells": 213000,
+   "label": "raw",
+   "seconds": 28.3
+  },
+  "refcal": {
+   "call": "/home/sj_server_1/PBISC/immun-pbmc-fm/model_8_sparse_data_diffusion/plans/paper_figures_strictpairs_20261012/scores/imperial_eskd/disease/draw0/score",
+   "npz": "/home/sj_server_1/PBISC/immun-pbmc-fm/model_8_sparse_data_diffusion/plans/paper_figures_strictpairs_20261012/generated/global/imperial_eskd/refcal.npz",
+   "npz_read_from": "/home/sj_server_1/PBISC/immun-pbmc-fm/model_8_sparse_data_diffusion/plans/paper_figures_strictpairs_20261012/generated/global/imperial_eskd/refcal.npz",
+   "npz_sha256": "ba80faf1dc9942da1935d4f73e780cc67289eadf6e4a8f51d6a9035de4d3fcff",
+   "receipt_verified": true,
+   "condition": "/home/sj_server_1/PBISC/immun-pbmc-fm/model_8_sparse_data_diffusion/plans/paper_figures_strictpairs_20261012/data/external_refcal/imperial_eskd/conditions_refcal.npz",
+   "condition_sha256": "85e8a48cb6168da565b8e0d953774e29380ed142a9f0afdca93abf157cd8c35e",
+   "condition_label": "conditions_refcal.npz@85e8a48c",
+   "condition_read_from": "/home/sj_server_1/PBISC/immun-pbmc-fm/model_8_sparse_data_diffusion/plans/paper_figures_strictpairs_20261012/data/external_refcal/imperial_eskd/conditions_refcal.npz",
+   "condition_key": "bcast:85e8a48cb6168da5",
+   "n_generated_cells": 213000,
+   "label": "refcal",
+   "seconds": 23.5
+  }
+ },
+ "observed_cells": {
+  "inputs_sha256": {
+   "/home/sj_server_1/PBISC/immun-pbmc-fm/model_8_sparse_data_diffusion/plans/paired_finetune_intradataset_20260927/data/imperial_eskd/cells_panel6k.npz": "d648fa1b9efa15f02c5500c85795d33c39cc88857560bf8f0aae41f6d43a3de7",
+   "/home/sj_server_1/PBISC/immun-pbmc-fm/model_8_sparse_data_diffusion/plans/paired_finetune_intradataset_20260927/data/imperial_eskd/cells_obs.parquet": "58d685b6b9510cd07bcabe61f90a1567b9d483efe3c1c035305fd3525682aa97"
+  },
+  "labels_sha256": "b7451fb96819132a1b72d739ebe95a78674a764769ee80746975adaed55cf67f",
+  "n_cells_4types_scored": 435151
+ },
+ "params": {
+  "split_seeds": [
+   20260926,
+   20260927,
+   20260928,
+   20260929,
+   20260930
+  ],
+  "split_rule": "per scored sample x contrast type: permutation from default_rng([seed, uint64 LE of sha256('<sample>|<type>')[:8]]) of its cells in canonical order; half A = first floor(n/2) positions, half B = the rest",
+  "cat_ks": [
+   10,
+   20,
+   50,
+   100,
+   200,
+   500
+  ],
+  "rbo_p": 0.98,
+  "limma_filters": [
+   "nonzero",
+   "filterByExpr"
+  ],
+  "primary_filter": "nonzero",
+  "fdr": 0.05,
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