Archive 4 checkpoints (1-4)

paper-releases/pbisc-diffusion/updates/20261008T050202Z-scsemi-imperial-deck/diffusion/dataset/server_1/model8/plans/paired_finetune_intradataset_20260927/scores_contrast/imperial_eskd/scsemi_cv_20261002/pooled/cat.csv

@@ -0,0 +1,61 @@
+dataset,design,unit,arm,predictor,celltype,k,k_eff,cat_same_sign,cat_any_sign,chance_same_sign,chance_any_sign,G_both,pred_defined,n_tested_obs,n_tested_pred
+imperial_eskd,scored,scsemi_cv_20261002/pooled,scsemi__raw,generated:scsemi__raw,T cell,10,10,0.0,0.0,0.001223091976516634,0.002446183953033268,4088,True,5755,4088
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+imperial_eskd,scored,scsemi_cv_20261002/pooled,scsemi__raw,generated:scsemi__raw,T cell,100,100,0.23,0.23,0.01223091976516634,0.02446183953033268,4088,True,5755,4088
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+imperial_eskd,scored,scsemi_cv_20261002/pooled,scsemi__raw,broadcast:conditions_pooled_raw.npz@7fbfb797,B cell,200,200,0.24,0.24,0.01802451333813987,0.03604902667627974,5548,True,5645,5823
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+imperial_eskd,scored,scsemi_cv_20261002/pooled,scsemi__raw,generated:scsemi__raw,Monocyte,100,100,0.2,0.2,0.02177700348432056,0.04355400696864112,2296,True,5631,2297
+imperial_eskd,scored,scsemi_cv_20261002/pooled,scsemi__raw,generated:scsemi__raw,Monocyte,200,200,0.235,0.24,0.04355400696864112,0.08710801393728224,2296,True,5631,2297
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+imperial_eskd,scored,scsemi_cv_20261002/pooled,scsemi__raw,broadcast:conditions_pooled_raw.npz@7fbfb797,Monocyte,10,10,0.0,0.0,0.0009031791907514451,0.0018063583815028901,5536,True,5631,5823
+imperial_eskd,scored,scsemi_cv_20261002/pooled,scsemi__raw,broadcast:conditions_pooled_raw.npz@7fbfb797,Monocyte,20,20,0.05,0.05,0.0018063583815028901,0.0036127167630057803,5536,True,5631,5823
+imperial_eskd,scored,scsemi_cv_20261002/pooled,scsemi__raw,broadcast:conditions_pooled_raw.npz@7fbfb797,Monocyte,50,50,0.14,0.14,0.004515895953757226,0.009031791907514452,5536,True,5631,5823
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+imperial_eskd,scored,scsemi_cv_20261002/pooled,scsemi__raw,generated:scsemi__raw,NK cell,200,200,0.335,0.335,0.03009328919650918,0.06018657839301836,3323,True,5591,3323
+imperial_eskd,scored,scsemi_cv_20261002/pooled,scsemi__raw,generated:scsemi__raw,NK cell,500,500,0.232,0.246,0.07523322299127294,0.15046644598254588,3323,True,5591,3323
+imperial_eskd,scored,scsemi_cv_20261002/pooled,scsemi__raw,broadcast:conditions_pooled_raw.npz@7fbfb797,NK cell,10,10,0.2,0.2,0.0009100837277029487,0.0018201674554058974,5494,True,5591,5823
+imperial_eskd,scored,scsemi_cv_20261002/pooled,scsemi__raw,broadcast:conditions_pooled_raw.npz@7fbfb797,NK cell,20,20,0.15,0.15,0.0018201674554058974,0.0036403349108117948,5494,True,5591,5823
+imperial_eskd,scored,scsemi_cv_20261002/pooled,scsemi__raw,broadcast:conditions_pooled_raw.npz@7fbfb797,NK cell,50,50,0.18,0.18,0.004550418638514743,0.009100837277029487,5494,True,5591,5823
+imperial_eskd,scored,scsemi_cv_20261002/pooled,scsemi__raw,broadcast:conditions_pooled_raw.npz@7fbfb797,NK cell,100,100,0.21,0.21,0.009100837277029487,0.018201674554058973,5494,True,5591,5823
+imperial_eskd,scored,scsemi_cv_20261002/pooled,scsemi__raw,broadcast:conditions_pooled_raw.npz@7fbfb797,NK cell,200,200,0.31,0.31,0.018201674554058973,0.03640334910811795,5494,True,5591,5823
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+imperial_eskd,scored,scsemi_cv_20261002/pooled,scsemi__raw,generated:scsemi__raw,DC,10,10,0.0,0.0,0.00275178866263071,0.00550357732526142,1817,True,5437,1818
+imperial_eskd,scored,scsemi_cv_20261002/pooled,scsemi__raw,generated:scsemi__raw,DC,20,20,0.25,0.25,0.00550357732526142,0.01100715465052284,1817,True,5437,1818
+imperial_eskd,scored,scsemi_cv_20261002/pooled,scsemi__raw,generated:scsemi__raw,DC,50,50,0.14,0.14,0.01375894331315355,0.0275178866263071,1817,True,5437,1818
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+imperial_eskd,scored,scsemi_cv_20261002/pooled,scsemi__raw,broadcast:conditions_pooled_raw.npz@7fbfb797,DC,200,200,0.225,0.225,0.0187125748502994,0.0374251497005988,5344,True,5437,5823
+imperial_eskd,scored,scsemi_cv_20261002/pooled,scsemi__raw,broadcast:conditions_pooled_raw.npz@7fbfb797,DC,500,500,0.258,0.26,0.046781437125748504,0.09356287425149701,5344,True,5437,5823

paper-releases/pbisc-diffusion/updates/20261008T050202Z-scsemi-imperial-deck/diffusion/dataset/server_1/model8/plans/paired_finetune_intradataset_20260927/scores_contrast/imperial_eskd/scsemi_cv_20261002/pooled/ceiling.csv

@@ -0,0 +1,16 @@
+dataset,design,unit,predictor,arm,celltype,n_genes,pearson_mean,pearson_sd,spearman_mean,spearman_sd,pearson_s20260926,spearman_s20260926,pearson_s20260927,spearman_s20260927,pearson_s20260928,spearman_s20260928,pearson_s20260929,spearman_s20260929,pearson_s20260930,spearman_s20260930,sb_reliability_pearson,noise_free_ceiling_pearson,sb_reliability_spearman,noise_free_ceiling_spearman,min_n_case_donors_A,min_n_control_donors_A,min_n_case_donors_B,min_n_control_donors_B,mean_n_cells_A,mean_n_cells_B,condition_sha256
+imperial_eskd,scored,scsemi_cv_20261002/pooled,split_half_A_vs_B,,T cell,3031.0,0.969677277991828,0.0013370115576643313,0.8788731784327866,0.0029532402783132732,0.9704070580532307,0.8804989123381217,0.9702137405651564,0.8800107541006575,0.9685799730222094,0.874466533973604,0.9711915086974923,0.8819510188823659,0.9679941096210514,0.8774386728691838,0.9846052333816393,0.9922727615840512,0.9355321993215912,0.9672291348597762,113.0,34.0,113.0,34.0,131236.0,131310.0,
+imperial_eskd,scored,scsemi_cv_20261002/pooled,split_half_A_vs_B,,B cell,3184.0,0.7807860281038842,0.006440762681230908,0.5234437884681428,0.010804188756712116,0.7839085111305238,0.530943105676,0.7849190276149267,0.5285073833264498,0.7865597428485961,0.5297181613668789,0.7775030186683831,0.5231971910028275,0.7710398402569912,0.5048531009685577,0.8769004425930236,0.9364296250082136,0.6871849062373051,0.8289661671246331,113.0,34.0,113.0,34.0,24279.0,24346.0,
+imperial_eskd,scored,scsemi_cv_20261002/pooled,split_half_A_vs_B,,Monocyte,2877.0,0.9004653000698806,0.0016939432723020007,0.7013598331239846,0.003801838836039273,0.89847918971012,0.702984528183391,0.9010519306025137,0.7001373008015165,0.9030192401899105,0.7046607852582042,0.8998863270091684,0.7037467235150529,0.8998898128376903,0.6952698278617583,0.9476261419103734,0.9734609092872571,0.8244697205954008,0.9080031501021353,112.0,33.0,112.0,34.0,40388.0,40463.0,
+imperial_eskd,scored,scsemi_cv_20261002/pooled,split_half_A_vs_B,,NK cell,2964.0,0.9319741833582587,0.0020278524635932247,0.7417529695076843,0.00361243931602332,0.9315848866372971,0.743988899577552,0.9326955230498738,0.7371449885503258,0.9328682855414872,0.7443967037733068,0.9340281058024517,0.7446944450488441,0.9286941157601839,0.7385398105883932,0.9647894794724973,0.9822369772475974,0.8517315399982865,0.9228930273863198,113.0,34.0,113.0,34.0,36026.0,36099.0,
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+imperial_eskd,scored,scsemi_cv_20261002/pooled,broadcast:conditions_pooled_raw.npz@7fbfb797,,T cell,3031.0,0.6293602031170562,0.002933003408832908,0.23142060841155804,0.005758412397622767,0.6257412262555833,0.22685393178502083,0.6276904084933326,0.22374695215226645,0.6325767978944378,0.2369021613790202,0.6321328668738077,0.2347302071115994,0.6286597160681199,0.23486978962988325,,,,,,,,,,,7fbfb797c40ba266a5a22a572250f7df20b3119772eb426fb9a794de2f36ca46
+imperial_eskd,scored,scsemi_cv_20261002/pooled,broadcast:conditions_pooled_raw.npz@7fbfb797,,B cell,3184.0,0.5986783996533287,0.011755213067927678,0.28632705243696177,0.012325822040674452,0.6129604609178549,0.3035680264174967,0.58630599501354,0.2727767709188901,0.6017815418993087,0.2935856978198424,0.6054857776067969,0.2781868338076747,0.5868582228291431,0.28351793322090474,,,,,,,,,,,7fbfb797c40ba266a5a22a572250f7df20b3119772eb426fb9a794de2f36ca46
+imperial_eskd,scored,scsemi_cv_20261002/pooled,broadcast:conditions_pooled_raw.npz@7fbfb797,,Monocyte,2877.0,0.7125505614936012,0.0038712262416043027,0.508220128397703,0.003998056255909717,0.7105831097198295,0.5061606807757073,0.7194221396402314,0.5082829241142178,0.7101826681699608,0.5037789709726521,0.7111540706817197,0.5083369391145457,0.7114108192562643,0.5145411270113925,,,,,,,,,,,7fbfb797c40ba266a5a22a572250f7df20b3119772eb426fb9a794de2f36ca46
+imperial_eskd,scored,scsemi_cv_20261002/pooled,broadcast:conditions_pooled_raw.npz@7fbfb797,,NK cell,2964.0,0.6509647141144865,0.0024805007514697593,0.34692293419964704,0.010584406574944121,0.6498718151043331,0.3444137713547861,0.6506981540883262,0.33103510121647445,0.6526251904698361,0.3568096407490931,0.6476092432103879,0.34591309845463797,0.6540191676995488,0.35644305922324343,,,,,,,,,,,7fbfb797c40ba266a5a22a572250f7df20b3119772eb426fb9a794de2f36ca46
+imperial_eskd,scored,scsemi_cv_20261002/pooled,split_half_A_vs_B,,mean4,,0.895725697380963,0.00229684690007292,0.7113574423831496,0.004250975542879832,0.896094911382793,0.7146038614437662,0.8972200554581177,0.7114501066947374,0.8977568104005508,0.7133105460929985,0.8956522400443738,0.7133973446122726,0.8919044696189792,0.7040253530719732,0.9434803243393834,0.9711000682817799,0.824729591538146,0.9067728698682163,,,,,,,
+imperial_eskd,scored,scsemi_cv_20261002/pooled,generated:scsemi__raw,scsemi__raw,mean4,,0.697096246420857,0.002766297438658017,0.4330548289076658,0.0066819229675075835,0.6993467782191968,0.4360740874273137,0.694847957186044,0.43350758768634357,0.6962690289203683,0.42456532417519555,0.7006284556398603,0.42905925924913296,0.6943890121388152,0.4420678860003432,,,,,,,,,,,
+imperial_eskd,scored,scsemi_cv_20261002/pooled,broadcast:conditions_pooled_raw.npz@7fbfb797,,mean4,,0.6478884695946181,0.0020931732177192504,0.34322268086146746,0.0056918797897527905,0.6497891529994002,0.34524910258325275,0.6460291743088575,0.3339604371004622,0.6492915496083859,0.34776911773015196,0.649095489593178,0.34179176962211444,0.645236981463269,0.347342977271356,,,,,,,,,,,7fbfb797c40ba266a5a22a572250f7df20b3119772eb426fb9a794de2f36ca46

paper-releases/pbisc-diffusion/updates/20261008T050202Z-scsemi-imperial-deck/diffusion/dataset/server_1/model8/plans/paired_finetune_intradataset_20260927/scores_contrast/imperial_eskd/scsemi_cv_20261002/pooled/contrast.csv

@@ -0,0 +1,11 @@
+dataset,design,unit,arm,celltype,statistic,label,n_genes,pearson_r_generated,spearman_r_generated,pearson_r_broadcast,spearman_r_broadcast,partial_r_generated_given_broadcast,r_generated_vs_broadcast,condition,condition_sha256,pearson_r_generated_scorer,pearson_r_broadcast_scorer,partial_r_generated_given_broadcast_scorer,r_generated_vs_broadcast_scorer
+imperial_eskd,scored,scsemi_cv_20261002/pooled,scsemi__raw,T cell,mean_cp10k,"scSemiProfiler, all training pairs (5-fold CV)",3031.0,0.7717707501409442,0.6317444833325218,0.6352016868529187,0.23524650991702134,0.6670781996946106,0.5243354879181512,conditions_pooled_raw.npz@7fbfb797,7fbfb797c40ba266a5a22a572250f7df20b3119772eb426fb9a794de2f36ca46,0.7717707501409442,0.6352016868529187,0.6670781996946106,0.5243354879181512
+imperial_eskd,scored,scsemi_cv_20261002/pooled,scsemi__raw,T cell,pseudobulk_log1p_cpm,"scSemiProfiler, all training pairs (5-fold CV)",3031.0,0.5332258507740787,0.394506517979015,0.6294466207665587,0.445728805171921,0.33952011457561776,0.47927616385326466,conditions_pooled_raw.npz@7fbfb797,7fbfb797c40ba266a5a22a572250f7df20b3119772eb426fb9a794de2f36ca46,0.5332258507740787,0.6294466207665587,0.3395201145756177,0.4792761638532646
+imperial_eskd,scored,scsemi_cv_20261002/pooled,scsemi__raw,B cell,mean_cp10k,"scSemiProfiler, all training pairs (5-fold CV)",3184.0,0.6277956277407635,0.40280884120161586,0.6290331452237995,0.31350578379141075,0.48202323991758617,0.4732713667273558,conditions_pooled_raw.npz@7fbfb797,7fbfb797c40ba266a5a22a572250f7df20b3119772eb426fb9a794de2f36ca46,0.6277956277407635,0.6290331452237995,0.4820232399175861,0.4732713667273558
+imperial_eskd,scored,scsemi_cv_20261002/pooled,scsemi__raw,B cell,pseudobulk_log1p_cpm,"scSemiProfiler, all training pairs (5-fold CV)",3184.0,0.17211549819511593,0.08786878540974456,0.4870645233040134,0.3784169938931688,0.008470009234422477,0.3390851256705854,conditions_pooled_raw.npz@7fbfb797,7fbfb797c40ba266a5a22a572250f7df20b3119772eb426fb9a794de2f36ca46,0.1721154981951159,0.4870645233040134,0.0084700092344224,0.3390851256705854
+imperial_eskd,scored,scsemi_cv_20261002/pooled,scsemi__raw,Monocyte,mean_cp10k,"scSemiProfiler, all training pairs (5-fold CV)",2877.0,0.6562786961628838,0.30654598120362664,0.7184291928055079,0.5281513008470065,0.37668545742458776,0.6303617332666909,conditions_pooled_raw.npz@7fbfb797,7fbfb797c40ba266a5a22a572250f7df20b3119772eb426fb9a794de2f36ca46,0.6562786961628838,0.7184291928055079,0.3766854574245877,0.6303617332666909
+imperial_eskd,scored,scsemi_cv_20261002/pooled,scsemi__raw,Monocyte,pseudobulk_log1p_cpm,"scSemiProfiler, all training pairs (5-fold CV)",2877.0,0.47133753911698684,0.3129464245039556,0.7066219687885489,0.5612828483943736,0.19080085907642785,0.5017586764799835,conditions_pooled_raw.npz@7fbfb797,7fbfb797c40ba266a5a22a572250f7df20b3119772eb426fb9a794de2f36ca46,0.4713375391169868,0.7066219687885489,0.1908008590764278,0.5017586764799835
+imperial_eskd,scored,scsemi_cv_20261002/pooled,scsemi__raw,NK cell,mean_cp10k,"scSemiProfiler, all training pairs (5-fold CV)",2964.0,0.765594511729008,0.41166148537851305,0.6597572279517877,0.35877128710378403,0.6265719208725514,0.5780595252579894,conditions_pooled_raw.npz@7fbfb797,7fbfb797c40ba266a5a22a572250f7df20b3119772eb426fb9a794de2f36ca46,0.765594511729008,0.6597572279517877,0.6265719208725514,0.5780595252579894
+imperial_eskd,scored,scsemi_cv_20261002/pooled,scsemi__raw,NK cell,pseudobulk_log1p_cpm,"scSemiProfiler, all training pairs (5-fold CV)",2964.0,0.4328983221530598,0.24101238130128164,0.5964102520780005,0.43186165104896884,0.22813570486035467,0.45194964438505314,conditions_pooled_raw.npz@7fbfb797,7fbfb797c40ba266a5a22a572250f7df20b3119772eb426fb9a794de2f36ca46,0.4328983221530598,0.5964102520780005,0.2281357048603546,0.4519496443850531
+imperial_eskd,scored,scsemi_cv_20261002/pooled,scsemi__raw,mean4,mean_cp10k,"scSemiProfiler, all training pairs (5-fold CV)",,0.7053598964433999,0.4381901977790693,0.6606053132085035,0.35891872041480566,0.538089704477334,0.5515070282925468,,,0.7053598964433999,0.6606053132085035,0.538089704477334,0.5515070282925468
+imperial_eskd,scored,scsemi_cv_20261002/pooled,scsemi__raw,mean4,pseudobulk_log1p_cpm,"scSemiProfiler, all training pairs (5-fold CV)",,0.4023943025598103,0.2590835272984992,0.6048858412342804,0.45432257462710807,0.1917316719367057,0.44301740259722167,,,0.4023943025598103,0.6048858412342804,0.19173167193670562,0.4430174025972216

paper-releases/pbisc-diffusion/updates/20261008T050202Z-scsemi-imperial-deck/diffusion/dataset/server_1/model8/plans/paired_finetune_intradataset_20260927/scores_contrast/imperial_eskd/scsemi_cv_20261002/pooled/deg_limma.csv

@@ -0,0 +1,16 @@
+dataset,design,unit,arm,celltype,method,deg_scored,pred_defined,overlap,overlap_scorer,obs_list_size,gen_list_size,n_sig_obs,n_sig_gen,n_tested_obs,n_tested_gen,G_both,chance_overlap,broadcast_overlap,broadcast_overlap_scorer,broadcast_list_size,n_sig_broadcast,n_tested_broadcast,G_both_broadcast,broadcast_chance_overlap,condition
+imperial_eskd,scored,scsemi_cv_20261002/pooled,scsemi__raw,T cell,welch,True,True,26,26.0,50,50,1057,123,5755,4088,4088,0.6115459882583171,17,17.0,50,2242,5823,5656,0.442008486562942,conditions_pooled_raw.npz@7fbfb797
+imperial_eskd,scored,scsemi_cv_20261002/pooled,scsemi__raw,B cell,welch,True,True,13,13.0,50,50,298,147,5645,2919,2919,0.8564576909900651,14,14.0,50,2242,5823,5548,0.45061283345349673,conditions_pooled_raw.npz@7fbfb797
+imperial_eskd,scored,scsemi_cv_20261002/pooled,scsemi__raw,Monocyte,welch,True,True,17,17.0,50,50,349,153,5631,2297,2296,1.088850174216028,22,22.0,50,2242,5823,5536,0.4515895953757225,conditions_pooled_raw.npz@7fbfb797
+imperial_eskd,scored,scsemi_cv_20261002/pooled,scsemi__raw,NK cell,welch,True,True,20,20.0,50,50,427,150,5591,3323,3323,0.7523322299127294,16,16.0,50,2242,5823,5494,0.4550418638514743,conditions_pooled_raw.npz@7fbfb797
+imperial_eskd,scored,scsemi_cv_20261002/pooled,scsemi__raw,DC,welch,True,True,11,11.0,50,50,341,61,5437,1818,1817,1.3758943313153549,15,15.0,50,2242,5823,5344,0.46781437125748504,conditions_pooled_raw.npz@7fbfb797
+imperial_eskd,scored,scsemi_cv_20261002/pooled,scsemi__raw,T cell,limma_voom_nonzero,True,True,15,,50,50,569,104,5755,4088,4088,0.6115459882583171,14,,50,2104,5823,5656,0.442008486562942,conditions_pooled_raw.npz@7fbfb797
+imperial_eskd,scored,scsemi_cv_20261002/pooled,scsemi__raw,B cell,limma_voom_nonzero,True,True,8,,50,20,128,20,5645,2919,2919,0.34258307639602603,6,,50,2104,5823,5548,0.45061283345349673,conditions_pooled_raw.npz@7fbfb797
+imperial_eskd,scored,scsemi_cv_20261002/pooled,scsemi__raw,Monocyte,limma_voom_nonzero,True,True,12,,50,50,1588,1560,5631,2297,2296,1.088850174216028,17,,50,2104,5823,5536,0.4515895953757225,conditions_pooled_raw.npz@7fbfb797
+imperial_eskd,scored,scsemi_cv_20261002/pooled,scsemi__raw,NK cell,limma_voom_nonzero,True,True,18,,50,46,530,46,5591,3323,3323,0.6921456515197111,13,,50,2104,5823,5494,0.4550418638514743,conditions_pooled_raw.npz@7fbfb797
+imperial_eskd,scored,scsemi_cv_20261002/pooled,scsemi__raw,DC,limma_voom_nonzero,True,True,10,,50,50,2065,1423,5437,1818,1817,1.3758943313153549,13,,50,2104,5823,5344,0.46781437125748504,conditions_pooled_raw.npz@7fbfb797
+imperial_eskd,scored,scsemi_cv_20261002/pooled,scsemi__raw,T cell,limma_voom_filterByExpr,True,True,19,,50,50,683,108,3443,533,533,4.690431519699812,14,,50,1817,4133,3274,0.7635919364691509,conditions_pooled_raw.npz@7fbfb797
+imperial_eskd,scored,scsemi_cv_20261002/pooled,scsemi__raw,B cell,limma_voom_filterByExpr,True,True,9,,50,33,284,33,2505,260,260,6.346153846153846,8,,50,1817,4133,2398,1.042535446205171,conditions_pooled_raw.npz@7fbfb797
+imperial_eskd,scored,scsemi_cv_20261002/pooled,scsemi__raw,Monocyte,limma_voom_filterByExpr,True,True,10,,50,50,901,108,2348,342,342,7.309941520467836,20,,50,1817,4133,2271,1.1008366358432409,conditions_pooled_raw.npz@7fbfb797
+imperial_eskd,scored,scsemi_cv_20261002/pooled,scsemi__raw,NK cell,limma_voom_filterByExpr,True,True,16,,50,50,653,112,2418,419,419,5.966587112171838,12,,50,1817,4133,2334,1.0711225364181662,conditions_pooled_raw.npz@7fbfb797
+imperial_eskd,scored,scsemi_cv_20261002/pooled,scsemi__raw,DC,limma_voom_filterByExpr,True,True,10,,50,50,619,54,1508,220,220,11.363636363636363,12,,50,1817,4133,1457,1.7158544955387782,conditions_pooled_raw.npz@7fbfb797