Archive 4 checkpoints (1-4)

paper-releases/pbisc-diffusion/updates/20261001T200638Z-extra-realism-metrics/diffusion/dataset/server_1/model8/plans/paired_finetune_intradataset_20260927/scores_extra/giroux2022/fewshot_n5/draw2/en.csv

@@ -0,0 +1,25 @@
+dataset,design,unit,set,cellset,distance,n_samples,n_cells_real,n_cells_gen,n_pcs,lb,ub,dif_mean,en,lb_exact,lb_queries,n_representative_rows,en_reps_at_lb,seconds
+giroux2022,fewshot,draw2,real_R2,pc,sq,12,1800,1800,100,423.7000243741595,579.8911394305812,467.29285947391463,0.27909932702643075,True,"[1800, 1800]",,,3.4
+giroux2022,fewshot,draw2,real_R2,pc,l2,12,1800,1800,100,20.143718333947273,23.763208806914204,21.142571261608044,0.2759650661110876,True,"[1800, 1800]",,,3.4
+giroux2022,fewshot,draw2,real_R2,all,sq,12,62969,62977,100,266.7903807478092,355.47374550580133,282.56806723230346,0.17791032768715945,False,"[20000, 20000]",,,17.3
+giroux2022,fewshot,draw2,real_R2,all,l2,12,62969,62977,100,16.053340173776512,18.598193028398253,16.51140037635482,0.1799947693425261,False,"[20000, 20000]",,,17.3
+giroux2022,fewshot,draw2,zs_raw,pc,sq,12,1800,1800,100,444.9753405051404,498.8164907664853,963.486342616925,9.630384930391214,True,"[1800, 1800]",,,4.0
+giroux2022,fewshot,draw2,zs_raw,pc,l2,12,1800,1800,100,20.67863060385965,22.038361206983684,30.73160114701078,7.393354624845564,True,"[1800, 1800]",,,4.0
+giroux2022,fewshot,draw2,zs_raw,all,sq,12,125946,18000,100,259.99584502868606,333.30029092870933,653.3598323347991,5.366168210896853,False,"[20000, 20000]",,,22.8
+giroux2022,fewshot,draw2,zs_raw,all,l2,12,125946,18000,100,15.87309424615147,18.03219365177625,25.307899841490883,4.369787500640462,False,"[20000, 20000]",,,22.8
+giroux2022,fewshot,draw2,zs_cal,pc,sq,12,1800,1800,100,452.2351389701192,547.9921289357752,648.176901786339,2.0462397876802085,True,"[1800, 1800]",,,4.0
+giroux2022,fewshot,draw2,zs_cal,pc,l2,12,1800,1800,100,20.87104563540269,23.123454211583773,25.05699616486457,1.8584330452866076,True,"[1800, 1800]",,,4.0
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+giroux2022,fewshot,draw2,lora5,pc,l2,12,1800,1800,100,21.32716369686997,23.243669139289537,24.318573444870534,1.5608668161275567,True,"[1800, 1800]",,,4.1
+giroux2022,fewshot,draw2,lora5,all,sq,12,125946,18000,100,274.60832652413455,338.2180455831354,398.4945939179943,1.9475996628589054,False,"[20000, 20000]",,,22.0
+giroux2022,fewshot,draw2,lora5,all,l2,12,125946,18000,100,16.30163023140101,18.155815388056975,19.735309852669022,1.8518536883666328,False,"[20000, 20000]",,,22.0
+giroux2022,fewshot,draw2,zs_pseudo,pc,sq,12,1800,1800,100,446.8015839487038,571.8140748751181,594.8175444881746,1.1840093693245177,True,"[1800, 1800]",,,5.5
+giroux2022,fewshot,draw2,zs_pseudo,pc,l2,12,1800,1800,100,20.805651559320758,23.623252595938784,24.09310233411455,1.1667552403869532,True,"[1800, 1800]",,,5.5
+giroux2022,fewshot,draw2,zs_pseudo,all,sq,12,125946,18000,100,272.4167297659408,338.1948401862779,414.52780769441773,2.160461542910777,False,"[20000, 20000]",,,23.5
+giroux2022,fewshot,draw2,zs_pseudo,all,l2,12,125946,18000,100,16.23838612067575,18.1593609841302,20.120861983032416,2.0210966505698513,False,"[20000, 20000]",,,23.5
+giroux2022,fewshot,draw2,scsemi5,pc,sq,12,1800,1800,100,365.8109266248227,603.9483025979764,658.8642570619196,1.2306061962744317,True,"[1800, 1800]",12.0,0.6153030981372158,3.4
+giroux2022,fewshot,draw2,scsemi5,pc,l2,12,1800,1800,100,18.569555315298917,24.25061072348333,25.333831188879177,1.1906723993283546,True,"[1800, 1800]",12.0,0.5953361996641773,3.4
+giroux2022,fewshot,draw2,scsemi5,all,sq,12,125946,18000,100,259.89578353416834,336.86985173330623,535.9442303994861,3.5862525305426103,False,"[20000, 20000]",12.0,1.7931262652713051,24.3
+giroux2022,fewshot,draw2,scsemi5,all,l2,12,125946,18000,100,15.84192392210732,18.114904608411837,22.85282395161317,3.0844520904858146,False,"[20000, 20000]",12.0,1.5422260452429073,24.3

paper-releases/pbisc-diffusion/updates/20261001T200638Z-extra-realism-metrics/diffusion/dataset/server_1/model8/plans/paired_finetune_intradataset_20260927/scores_extra/giroux2022/fewshot_n5/draw2/en_per_sample.csv

@@ -0,0 +1,289 @@
+dataset,design,unit,set,cellset,distance,donor,n_real,n_gen,partner,dif,en_i
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paper-releases/pbisc-diffusion/updates/20261001T200638Z-extra-realism-metrics/diffusion/dataset/server_1/model8/plans/paired_finetune_intradataset_20260927/scores_extra/giroux2022/fewshot_n5/draw2/manifest.json

@@ -0,0 +1,87 @@
+{
+ "schema": "paired_ft_extra_metrics.v1",
+ "dataset": "giroux2022",
+ "design": "fewshot",
+ "unit": "draw2",
+ "written_utc": "2026-10-01T15:13:55.183599+00:00",
+ "command": [
+  "tools/extra_metrics.py",
+  "--design",
+  "fewshot",
+  "--dataset",
+  "giroux2022",
+  "--draws",
+  "0,1,2,3,4",
+  "--threads",
+  "6",
+  "--fetch-dir",
+  "/tmp/claude-1000/-home-sj-server-1/c8102cb0-e04f-4e04-adda-0728604e4435/scratchpad/fetch"
+ ],
+ "threads": 6,
+ "donors": [
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+  "82CCF5_d14",
+  "0BF51C_d0",
+  "0BF51C_d7",
+  "0BF51C_d14"
+ ],
+ "n_samples": 12,
+ "calls": {
+  "/home/sj_server_1/PBISC/immun-pbmc-fm/model_8_sparse_data_diffusion/plans/paired_finetune_intradataset_20260927/scores/giroux2022/fewshot_n5/draw2": {
+   "arms": [
+    "zs_raw",
+    "zs_cal",
+    "lora5",
+    "zs_pseudo"
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+   "summary_sha256": "67c6a565e20116cfaf4427027b249a314805a46a7c6ff204a7f4b73402ef269a"
+  },
+  "/home/sj_server_1/PBISC/immun-pbmc-fm/model_8_sparse_data_diffusion/plans/paired_finetune_intradataset_20260927/scores/giroux2022/fewshot_n5/draw2_scsemi5": {
+   "arms": [
+    "scsemi5"
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+   "summary_sha256": "1afba342d9ff5e7fb5ca4ee3a4ae015618a2735316ccddd4403e65f0da054606"
+  }
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+ "reference_sha256": "dd0152f7bde41da80e1c71dabf54ee561982f36dc99a336b65fca419880a1593",
+ "bandwidth_m": 33.40205605122891,
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+  "en_all_cells": true
+ },
+ "n_representative_rows": 12,
+ "fetched_from_server2": [],
+ "code_sha256": {
+  "/home/sj_server_1/PBISC/immun-pbmc-fm/model_8_sparse_data_diffusion/plans/paired_finetune_intradataset_20260927/tools/extra_metrics.py": "b65e022452d8fccbd2e9b349265d54d3833faf1876dbfd753cf0279678d02671",
+  "/home/sj_server_1/PBISC/immun-pbmc-fm/model_8_sparse_data_diffusion/plans/paired_finetune_intradataset_20260927/tools/ft_common.py": "4a6366b0f22208cd58714fc0261b8840c643b9d4569704d560cfd93534cbc747",
+  "/home/sj_server_1/PBISC/immun-pbmc-fm/model_8_sparse_data_diffusion/plans/paired_finetune_intradataset_20260927/tools/score_ft.py": "ec5f40b4cea6d5062d0138f3b934abb6465e34cbfeac869c8a0906924c033aec",
+  "/home/sj_server_1/PBISC/immun-pbmc-fm/model_8_sparse_data_diffusion/plans/utility_studies_final6k_20260925/umap/cell_immicro_5arm/tools/stage_b_embed.py": "d056cfdf38fb0e5f478756f370174e993b75d0c973c48e02e21749175a4ca2da"
+ },
+ "seconds": 257.4,
+ "max_abs_diff_k10_pooled": 0.0,
+ "extra_metrics_py_sha256_ran": "ca3804cffbaa2fcdbb067a1d62c0ab0f365493837c6ca217f910a5e96fe362f9",
+ "code_sha256_note": "code_sha256 was hashed when the unit finished; extra_metrics_py_sha256_ran is the file the process loaded at start (scores_extra/_code/). v1-v3 differ only in the collector and the per-unit lock; metric code identical (scores_extra/_code/README.md)"
+}

paper-releases/pbisc-diffusion/updates/20261001T200638Z-extra-realism-metrics/diffusion/dataset/server_1/model8/plans/paired_finetune_intradataset_20260927/scores_extra/giroux2022/fewshot_n5/draw2/metrics.csv

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+giroux2022,fewshot,draw2,"Zero-shot, real bulk",zs_raw,R2,raw,1800,1800,,,,,,,,,,,,,0.9945401234567901,0.0033561471026858198,0.9966666666666667,0.0014731214456547932,0.9747222222222223,0.975,0.9744444444444444,0.1491909595433859,0.1092189401073318,0.03764019780255978,0.2960500974532775,33.40205605122891,2.7
+giroux2022,fewshot,draw2,"Zero-shot, real bulk",zs_raw,R2,dm,1800,1800,,,,,,,,,,,,,0.9914706790123458,0.0047894726505698995,0.9947723765432098,0.0016441998710826902,0.9641666666666666,0.9511111111111111,0.9772222222222222,0.11833855006736921,0.08262106257739443,0.02791690784955314,0.22887652049431678,33.40205605122891,2.8
+giroux2022,fewshot,draw2,Zero-shot + calibration,zs_cal,R1,raw,1800,1800,0.9611111111111111,0.7633333333333333,3.4070370370370373,0.8752083622524188,0.9838888888888889,0.8455555555555555,3.231111111111111,0.96888013589482,0.9994444444444445,0.9366666666666666,2.979277777777778,0.9990382868142035,0.8702422839506173,0.01912316917956735,0.9778456790123456,0.0018656044763318731,0.7461111111111111,0.5044444444444445,0.9877777777777778,0.05135892974899814,0.023984677654057762,0.006882926382033805,0.0822265337850897,33.40205605122891,3.3
+giroux2022,fewshot,draw2,Zero-shot + calibration,zs_cal,R1,dm,1800,1800,0.9216666666666666,0.7522222222222222,2.4203703703703705,0.8752083622524188,0.9577777777777777,0.8416666666666667,2.3484444444444446,0.96888013589482,0.9911111111111112,0.9266666666666666,2.184611111111111,0.9990382868142035,0.875070987654321,0.014339522033414365,0.9645162037037037,0.004532269904901303,0.7455555555555555,0.5233333333333333,0.9677777777777777,0.039785322735359785,0.019807726324583053,0.005997026105075243,0.06559007516501808,33.40205605122891,3.1
+giroux2022,fewshot,draw2,Zero-shot + calibration,zs_cal,R2,raw,1800,1800,,,,,,,,,,,,,0.9466635802469134,0.009714948349402897,0.9485864197530864,0.007673294257745309,0.8725,0.8611111111111112,0.8838888888888888,0.04307735721302408,0.022343637270075822,0.006839186329077096,0.072260180812177,33.40205605122891,3.0
+giroux2022,fewshot,draw2,Zero-shot + calibration,zs_cal,R2,dm,1800,1800,,,,,,,,,,,,,0.9297337962962964,0.011045453271179968,0.9407654320987653,0.004939845910323653,0.8327777777777777,0.8183333333333334,0.8472222222222222,0.039264762986966906,0.020056221024514098,0.006120756159394114,0.06544174017087512,33.40205605122891,2.9
+giroux2022,fewshot,draw2,"LoRA, 5 donors",lora5,R1,raw,1800,1800,0.9844444444444445,0.7988888888888889,5.534259259259259,0.8752083622524188,0.9944444444444445,0.8816666666666667,5.038777777777778,0.96888013589482,1.0,0.9533333333333334,4.389166666666666,0.9990382868142035,0.8334845679012346,0.022643726254828453,0.970496913580247,0.0047211862100349205,0.7141666666666666,0.44666666666666666,0.9816666666666667,0.06562600870508267,0.027820858807030113,0.007440173772810477,0.10088704128492326,33.40205605122891,3.7
+giroux2022,fewshot,draw2,"LoRA, 5 donors",lora5,R1,dm,1800,1800,0.9383333333333334,0.8188888888888889,2.6875925925925923,0.8752083622524188,0.9688888888888889,0.9105555555555556,2.566,0.96888013589482,0.9927777777777778,0.9711111111111111,2.4108333333333336,0.9990382868142035,0.8141373456790124,0.010675971209380802,0.922224537037037,0.0036248853168005853,0.6963888888888888,0.46111111111111114,0.9316666666666666,0.02497988185499278,0.010528308588087398,0.0029725714269388526,0.03848076187001903,33.40205605122891,3.7
+giroux2022,fewshot,draw2,"LoRA, 5 donors",lora5,R2,raw,1800,1800,,,,,,,,,,,,,0.9015239197530865,0.007941275030994292,0.9090246913580247,0.006478412362161433,0.8019444444444445,0.7961111111111111,0.8077777777777778,0.04304849407773903,0.023295569393800397,0.007142775586987726,0.07348683905852715,33.40205605122891,3.0
+giroux2022,fewshot,draw2,"LoRA, 5 donors",lora5,R2,dm,1800,1800,,,,,,,,,,,,,0.8251905864197532,0.016115082881089485,0.8678070987654323,0.018231052428752982,0.7025,0.7088888888888889,0.6961111111111111,0.017745879155124045,0.009202867146868465,0.002817938228619754,0.029766684530612264,33.40205605122891,3.1
+giroux2022,fewshot,draw2,"Zero-shot, sc pseudobulk input (reference)",zs_pseudo,R1,raw,1800,1800,0.9783333333333334,0.7588888888888888,4.645,0.8752083622524188,0.99,0.8322222222222222,4.318555555555555,0.96888013589482,0.9983333333333333,0.9144444444444444,3.836222222222222,0.9990382868142035,0.8606658950617284,0.015466083480117791,0.9738186728395061,0.00674119709922993,0.7291666666666666,0.4727777777777778,0.9855555555555555,0.05945848139886212,0.022760468198295136,0.00576402966892231,0.08798297926607956,33.40205605122891,3.6
+giroux2022,fewshot,draw2,"Zero-shot, sc pseudobulk input (reference)",zs_pseudo,R1,dm,1800,1800,0.9261111111111111,0.8055555555555556,2.6325925925925926,0.8752083622524188,0.9622222222222222,0.8866666666666667,2.549444444444444,0.96888013589482,0.9844444444444445,0.9494444444444444,2.428888888888889,0.9990382868142035,0.8485655864197531,0.0046821062996370835,0.9256766975308643,0.003780488808839921,0.7066666666666667,0.4727777777777778,0.9405555555555556,0.03342158810180129,0.015840616210504255,0.004713357976165344,0.05397556228847089,33.40205605122891,3.3
+giroux2022,fewshot,draw2,"Zero-shot, sc pseudobulk input (reference)",zs_pseudo,R2,raw,1800,1800,,,,,,,,,,,,,0.9304375,0.004297071122604292,0.9357947530864198,0.008798517341292555,0.83,0.8227777777777778,0.8372222222222222,0.04176701285224549,0.01954183790073971,0.005695148772757674,0.06700399952574287,33.40205605122891,3.0
+giroux2022,fewshot,draw2,"Zero-shot, sc pseudobulk input (reference)",zs_pseudo,R2,dm,1800,1800,,,,,,,,,,,,,0.8625324074074074,0.017117346801661448,0.8810972222222222,0.0067099343955846396,0.7494444444444445,0.74,0.7588888888888888,0.030646594225323676,0.015489092302743313,0.004705523834387604,0.05084121036245459,33.40205605122891,3.1
+giroux2022,fewshot,draw2,"scSemiProfiler, 5 donors",scsemi5,R1,raw,1800,1800,0.9,0.35833333333333334,1.147962962962963,0.8752083622524188,0.9594444444444444,0.45222222222222225,1.1632222222222222,0.96888013589482,0.9927777777777778,0.5788888888888889,1.1588888888888889,0.9990382868142035,0.967479938271605,0.003952417222645259,0.9991813271604938,0.000536219633447122,0.9136111111111112,0.8272222222222222,1.0,0.10959083982292267,0.0675744713314228,0.02190586424251517,0.19907117539686064,33.40205605122891,2.5
+giroux2022,fewshot,draw2,"scSemiProfiler, 5 donors",scsemi5,R1,dm,1800,1800,0.19944444444444445,0.11277777777777778,0.1398148148148148,0.8752083622524188,0.2594444444444444,0.15666666666666668,0.14244444444444443,0.96888013589482,0.38555555555555554,0.2338888888888889,0.15833333333333333,0.9990382868142035,0.9966180555555555,0.002418694727721836,0.9991774691358024,0.00038031788271201234,0.9752777777777778,0.9527777777777777,0.9977777777777778,0.14533127063792883,0.08383029510669804,0.026267417242436197,0.25542898298706307,33.40205605122891,2.4
+giroux2022,fewshot,draw2,"scSemiProfiler, 5 donors",scsemi5,R2,raw,1800,1800,,,,,,,,,,,,,0.9974004629629629,0.0019393269757679934,0.9985030864197529,0.00032208152511604493,0.9875,0.9777777777777777,0.9972222222222222,0.10949831226022833,0.06705960083814677,0.021771072254084478,0.19832898535245957,33.40205605122891,2.3
+giroux2022,fewshot,draw2,"scSemiProfiler, 5 donors",scsemi5,R2,dm,1800,1800,,,,,,,,,,,,,0.9977391975308642,0.0016689156636737184,0.9993117283950618,0.0005121634944009833,0.9838888888888889,0.9711111111111111,0.9966666666666667,0.15979436174044703,0.08525243596092902,0.026076277128886938,0.271123074830263,33.40205605122891,2.4