Datasets:

junidude14
/

PBISC-data

paper-releases/pbisc-diffusion/updates/20261003T174003Z-scsemi-readout-sensitivity/diffusion/dataset/server_1/model8/plans/paired_finetune_intradataset_20260927/scsemi/analysis/output_variants_20261003/receipts_index.csv ADDED Viewed

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	@@ -0,0 +1,26 @@

+dataset,arm,comp_l1,precision,coverage,contrast_r,deg,n_draws
+giroux2022,copy,0.25556972837274883,,,,,5
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+giroux2022,scsemi5rt,0.26872752875409145,0.9928181818181818,0.6076949494949495,0.3978981713697166,0.0,5
+immicro,copy,0.1871435533622982,,,,,5
+immicro,lora5,0.17555958930358384,0.9520784313725491,0.7924705882352941,,,5
+immicro,scsemi5,0.23251217681273229,0.518,0.03583006535947712,,,5
+immicro,scsemi5nt,0.19891799672711535,0.7388366013071895,0.23288888888888887,,,5
+immicro,scsemi5rt,0.23249666975373043,0.5164575163398692,0.035777777777777776,,,5
+imperial_eskd,copy,0.6082516286260189,,,,,5
+imperial_eskd,lora5,0.5029703261097016,0.8526555082490841,0.736916052241636,0.749155270620552,113.6,5
+imperial_eskd,scsemi5,0.6016264022644833,0.3299792962217261,0.059476615422941956,0.562052088951237,46.8,5
+imperial_eskd,scsemi5nt,0.6034359992864433,0.7217092980818668,0.4160557362530186,0.6601009530893529,94.6,5
+imperial_eskd,scsemi5rt,0.6019412809468108,0.329511423900961,0.059839730330843166,0.56255001653728,49.8,5
+ji2025_chili,copy,0.5705529246429522,,,,,5
+ji2025_chili,lora5,0.5130875970575781,0.9777637606837606,0.7072699145299145,0.3331386547965394,0.2,5
+ji2025_chili,scsemi5,0.5920081773366708,0.8400916239316238,0.14532188034188034,0.15272763169924175,0.0,5
+ji2025_chili,scsemi5nt,0.5748614060696398,0.9207931623931623,0.526088547008547,0.19118197456855993,0.0,5
+ji2025_chili,scsemi5rt,0.592427397431249,0.8406569230769231,0.14492068376068376,0.15821245825678049,0.0,5
+ye2026_sepsis,copy,0.5803181029945667,,,,,5
+ye2026_sepsis,lora5,0.4661935856958568,0.9057662337662338,0.6941471861471861,0.3501183786066874,16.4,5
+ye2026_sepsis,scsemi5,0.6117044730067064,0.7277922077922078,0.07974025974025975,0.4024985945062919,5.2,5
+ye2026_sepsis,scsemi5nt,0.5905085895402422,0.7734545454545454,0.18401731601731602,0.45817387160173706,14.0,5
+ye2026_sepsis,scsemi5rt,0.6111833027284208,0.7287965367965368,0.08032900432900433,0.39975094410440515,4.8,5

	@@ -0,0 +1,1652 @@

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+  }
+ },
+ {
+  "dataset": "imperial_eskd",
+  "draw": 3,
+  "host": "server_2",
+  "work": "/home/sj_server_1/PBISC/immun-pbmc-fm/model_8_sparse_data_diffusion/plans/paired_finetune_intradataset_20260927/scsemi/work/imperial_eskd/fewshot_n5/draw3",
+  "variant": "rt",
+  "VARIANT": {
+   "variant": "rt",
+   "arm": "scsemi5rt",
+   "base_arm": "scsemi5",
+   "support_readout": "upstream (values <= 10 normalized units zeroed), re-read from the saved per-target model; control of the read-out re-run (equals the official output up to z sampling noise)",
+   "output_threshold": "values <= 10 zeroed",
+   "run_signature": "3cbfb86827b32ee80ee5ebf7572dd84441898eb5569d4eb727738110bf6fe735",
+   "upstream_commit": "c2aea021188759e56ecf14578915c0237aaa75d2",
+   "work": "/home/sj_server_1/PBISC/immun-pbmc-fm/model_8_sparse_data_diffusion/plans/paired_finetune_intradataset_20260927/scsemi/work_mirror/imperial_eskd/fewshot_n5/draw3",
+   "origin_host": "server_2",
+   "origin_work": "/home/sj_server_1/PBISC/immun-pbmc-fm/model_8_sparse_data_diffusion/plans/paired_finetune_intradataset_20260927/scsemi/work/imperial_eskd/fewshot_n5/draw3",
+   "tool": "/home/sj_server_1/PBISC/immun-pbmc-fm/model_8_sparse_data_diffusion/plans/paired_finetune_intradataset_20260927/scsemi/tools/resample_output_variants.py",
+   "tool_sha256": "a7201492483dceec6554c8de5c84865dca3cb9f3939fe306bf5832ef6c1bff32",
+   "environment": {
+    "torch": "2.11.0+cu130",
+    "scvi-tools": "1.4.1",
+    "scanpy": "1.11.5",
+    "anndata": "0.12.19",
+    "lightning": "2.6.6",
+    "numpy": "2.5.3",
+    "scikit-learn": "1.9.1"
+   },
+   "device": "cpu",
+   "seed_rule": "scvi.settings.seed = 20260927 + target bulk row (the wrapper's infer rule)",
+   "created_utc": "2026-10-03T17:13:57.970608+00:00"
+  }
+ },
+ {
+  "dataset": "imperial_eskd",
+  "draw": 4,
+  "host": "server_2",
+  "work": "/home/sj_server_1/PBISC/immun-pbmc-fm/model_8_sparse_data_diffusion/plans/paired_finetune_intradataset_20260927/scsemi/work/imperial_eskd/fewshot_n5/draw4",
+  "variant": "nt",
+  "VARIANT": {
+   "variant": "nt",
+   "arm": "scsemi5nt",
+   "base_arm": "scsemi5",
+   "support_readout": "no output threshold: the upstream model's ZINB mean on every modeled gene (sample(bound=0), no xsemi > 10 step); read-out sensitivity variant, not the official output",
+   "output_threshold": "none",
+   "run_signature": "bf3b2a6f67de8817fb0f6cc6f85c443d84606d27a98f5226938f1c200fee8b42",
+   "upstream_commit": "c2aea021188759e56ecf14578915c0237aaa75d2",
+   "work": "/home/sj_server_1/PBISC/immun-pbmc-fm/model_8_sparse_data_diffusion/plans/paired_finetune_intradataset_20260927/scsemi/work_mirror/imperial_eskd/fewshot_n5/draw4",
+   "origin_host": "server_2",
+   "origin_work": "/home/sj_server_1/PBISC/immun-pbmc-fm/model_8_sparse_data_diffusion/plans/paired_finetune_intradataset_20260927/scsemi/work/imperial_eskd/fewshot_n5/draw4",
+   "tool": "/home/sj_server_1/PBISC/immun-pbmc-fm/model_8_sparse_data_diffusion/plans/paired_finetune_intradataset_20260927/scsemi/tools/resample_output_variants.py",
+   "tool_sha256": "a7201492483dceec6554c8de5c84865dca3cb9f3939fe306bf5832ef6c1bff32",
+   "environment": {
+    "torch": "2.11.0+cu130",
+    "scvi-tools": "1.4.1",
+    "scanpy": "1.11.5",
+    "anndata": "0.12.19",
+    "lightning": "2.6.6",
+    "numpy": "2.5.3",
+    "scikit-learn": "1.9.1"
+   },
+   "device": "cpu",
+   "seed_rule": "scvi.settings.seed = 20260927 + target bulk row (the wrapper's infer rule)",
+   "created_utc": "2026-10-03T17:26:05.944383+00:00"
+  }
+ },
+ {
+  "dataset": "imperial_eskd",
+  "draw": 4,
+  "host": "server_2",
+  "work": "/home/sj_server_1/PBISC/immun-pbmc-fm/model_8_sparse_data_diffusion/plans/paired_finetune_intradataset_20260927/scsemi/work/imperial_eskd/fewshot_n5/draw4",
+  "variant": "rt",
+  "VARIANT": {
+   "variant": "rt",
+   "arm": "scsemi5rt",
+   "base_arm": "scsemi5",
+   "support_readout": "upstream (values <= 10 normalized units zeroed), re-read from the saved per-target model; control of the read-out re-run (equals the official output up to z sampling noise)",
+   "output_threshold": "values <= 10 zeroed",
+   "run_signature": "bf3b2a6f67de8817fb0f6cc6f85c443d84606d27a98f5226938f1c200fee8b42",
+   "upstream_commit": "c2aea021188759e56ecf14578915c0237aaa75d2",
+   "work": "/home/sj_server_1/PBISC/immun-pbmc-fm/model_8_sparse_data_diffusion/plans/paired_finetune_intradataset_20260927/scsemi/work_mirror/imperial_eskd/fewshot_n5/draw4",
+   "origin_host": "server_2",
+   "origin_work": "/home/sj_server_1/PBISC/immun-pbmc-fm/model_8_sparse_data_diffusion/plans/paired_finetune_intradataset_20260927/scsemi/work/imperial_eskd/fewshot_n5/draw4",
+   "tool": "/home/sj_server_1/PBISC/immun-pbmc-fm/model_8_sparse_data_diffusion/plans/paired_finetune_intradataset_20260927/scsemi/tools/resample_output_variants.py",
+   "tool_sha256": "a7201492483dceec6554c8de5c84865dca3cb9f3939fe306bf5832ef6c1bff32",
+   "environment": {
+    "torch": "2.11.0+cu130",
+    "scvi-tools": "1.4.1",
+    "scanpy": "1.11.5",
+    "anndata": "0.12.19",
+    "lightning": "2.6.6",
+    "numpy": "2.5.3",
+    "scikit-learn": "1.9.1"
+   },
+   "device": "cpu",
+   "seed_rule": "scvi.settings.seed = 20260927 + target bulk row (the wrapper's infer rule)",
+   "created_utc": "2026-10-03T17:26:05.944558+00:00"
+  }
+ }
+]

paper-releases/pbisc-diffusion/updates/20261003T174003Z-scsemi-readout-sensitivity/diffusion/dataset/server_1/model8/plans/paired_finetune_intradataset_20260927/scsemi/logs/output_variants_20261003T233047.log ADDED Viewed

	@@ -0,0 +1,24 @@

+2026-10-03T23:30:47 queue /home/sj_server_1/PBISC/immun-pbmc-fm/model_8_sparse_data_diffusion/plans/paired_finetune_intradataset_20260927/scsemi/queues/output_variants_test_20261003.txt
+2026-10-03T23:30:47 ji2025_chili/draw0: resample (nt, rt)
+Running as unit: scsemi-rs-ji2-fs0-20261003T233047.service; invocation ID: be8d4f41840a4adbaeef5d85f1fa8e9f
+unit=scsemi-rs-ji2-fs0-20261003T233047 log=/home/sj_server_1/PBISC/immun-pbmc-fm/model_8_sparse_data_diffusion/plans/paired_finetune_intradataset_20260927/scsemi/logs/rs-ji2-fs0_20261003T233047.log
+unit scsemi-rs-ji2-fs0-20261003T233047 finished rc=0
+Running as unit: scsemi-exnt-ji2-fs0-20261003T233200.service; invocation ID: 7660669d628c4983a0c56df11e5f9f21
+unit=scsemi-exnt-ji2-fs0-20261003T233200 log=/home/sj_server_1/PBISC/immun-pbmc-fm/model_8_sparse_data_diffusion/plans/paired_finetune_intradataset_20260927/scsemi/logs/exnt-ji2-fs0_20261003T233200.log
+unit scsemi-exnt-ji2-fs0-20261003T233200 finished rc=0
+Running as unit: scsemi-vant-ji2-fs0-20261003T233233.service; invocation ID: 32e3bd047d2b4b6b8a8c200da5100d0f
+unit=scsemi-vant-ji2-fs0-20261003T233233 log=/home/sj_server_1/PBISC/immun-pbmc-fm/model_8_sparse_data_diffusion/plans/paired_finetune_intradataset_20260927/scsemi/logs/vant-ji2-fs0_20261003T233233.log
+unit scsemi-vant-ji2-fs0-20261003T233233 finished rc=0
+Running as unit: scsemi-exrt-ji2-fs0-20261003T233246.service; invocation ID: c7497c10f9d04b64ba2c4e8d7bf11c74
+unit=scsemi-exrt-ji2-fs0-20261003T233246 log=/home/sj_server_1/PBISC/immun-pbmc-fm/model_8_sparse_data_diffusion/plans/paired_finetune_intradataset_20260927/scsemi/logs/exrt-ji2-fs0_20261003T233246.log
+unit scsemi-exrt-ji2-fs0-20261003T233246 finished rc=0
+Running as unit: scsemi-vart-ji2-fs0-20261003T233259.service; invocation ID: f991dbc8c31744c7adb449f0fc7ad7f9
+unit=scsemi-vart-ji2-fs0-20261003T233259 log=/home/sj_server_1/PBISC/immun-pbmc-fm/model_8_sparse_data_diffusion/plans/paired_finetune_intradataset_20260927/scsemi/logs/vart-ji2-fs0_20261003T233259.log
+unit scsemi-vart-ji2-fs0-20261003T233259 finished rc=0
+2026-10-03T23:33:12 ji2025_chili/draw0: nt shards removed after validation (sha in receipts)
+2026-10-03T23:33:12 ji2025_chili/draw0: exported + validated: nt 25 targets, max diff 3e-05; rt 25 targets, max diff 2.9e-05;
+2026-10-03T23:33:12 ji2025_chili/draw0: scoring scsemi5nt
+2026-10-03T23:33:26 ji2025_chili/draw0: scoring scsemi5rt
+2026-10-03T23:33:35 ji2025_chili/draw0: scored: scsemi5 {'comp_l1': 0.574, 'coverage': 0.152, 'precision': 0.797, 'contrast_pseudobulk_log1p_cpm_r_gen': 0.058, 'deg_top50_sum': 0}; scsemi5nt {'comp_l1': 0.56, 'coverage': 0.583, 'precision': 0.887, 'contrast_pseudobulk_log1p_cpm_r_gen': 0.11, 'deg_top50_sum': 0}; scsemi5rt {'comp_l1': 0.573, 'coverage': 0.153, 'precision': 0.795, 'contrast_pseudobulk_log1p_cpm_r_gen': 0.058, 'deg_top50_sum': 0};
+2026-10-03T23:33:40 ji2025_chili/draw0: nt NPZ moved to spark-0110
+2026-10-03T23:33:40 queue finished