Archive 4 checkpoints (1-4)

paper-releases/pbisc-diffusion/updates/20261006T033847Z-bulkonly-lora5-k4000/diffusion/dataset/server_1/model8/plans/bulkonly_lora5_k4000_20261006/logs/imperial_eskd-d2-pgen.log

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+{"dataset": "imperial_eskd", "draw": 2, "cells": 213000, "samples": 142, "seconds": 25.1}

paper-releases/pbisc-diffusion/updates/20261006T033847Z-bulkonly-lora5-k4000/diffusion/dataset/server_1/model8/plans/bulkonly_lora5_k4000_20261006/logs/imperial_eskd-d2-score.log

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+11:21:41 imperial_eskd: 142 scored donors, 2 arm(s); fitting the observed reference
+11:21:49 reference: R1 21232 cells, PCA var 0.258, R2 control P/C 0.9694/0.9998; contrast on
+11:21:50 observed top-50 DEG lists: T 50 (sig 655, 103+31 donors, 249798 cells), B 50 (sig 240, 103+31 donors, 46668 cells), Mono 50 (sig 235, 102+31 donors, 75478 cells), NK 50 (sig 359, 103+31 donors, 66389 cells), DC 50 (sig 214, 103+31 donors, 12425 cells)
+11:21:50 lora5: loading generated_counts (213000 cells in the NPZ, 213000 scored)
+11:22:10 lora5: Poisson read-out nnz 50512051 (whole NPZ), median library 1093; annotating
+11:22:25 lora5: L1 0.5118 (null 0.47851633327026316) P/C 0.8454/0.6650 pb r 0.8619 top1 0.056 mono 18.1% (35.6 s)
+11:22:25 lora5: top-50 DEG 103/250 (T 26, B 20, Mono 26, NK 21, DC 10); broadcast 65 (0.44 s)
+11:22:25 lora5_k4000: loading generated_counts (213000 cells in the NPZ, 213000 scored)
+11:22:45 lora5_k4000: Poisson read-out nnz 49210830 (whole NPZ), median library 1047; annotating
+11:23:00 lora5_k4000: L1 0.5091 (null 0.47851633327026316) P/C 0.8262/0.6098 pb r 0.8614 top1 0.085 mono 18.7% (35.3 s)
+11:23:00 lora5_k4000: top-50 DEG 110/250 (T 29, B 20, Mono 27, NK 17, DC 17); broadcast 65 (0.43 s)
+             comp_l1  comp_l1_obs_loo_null  precision  coverage  precision_dm  coverage_dm  pb_r_median  pb_top1  mono_pct_gen  mono_pct_obs  median_umi_gen  median_umi_obs  contrast_mean_cp10k_r_gen  contrast_pseudobulk_log1p_cpm_r_gen  contrast_mean_cp10k_r_broadcast  contrast_pseudobulk_log1p_cpm_r_broadcast  deg_top50_T  deg_top50_B  deg_top50_Mono  deg_top50_NK  deg_top50_DC  deg_top50_sum  deg_top50_max  deg_top50_sum_4type  deg_top50_sum_broadcast  seconds
+lora5         0.5118                0.4785     0.8454    0.6650        0.8740       0.8675       0.8619   0.0563       18.0671       16.2058          1093.0          1372.0                     0.7140                               0.5193                           0.6434                                     0.5931         26.0         20.0            26.0          21.0          10.0          103.0          250.0                 93.0                     65.0     35.6
+lora5_k4000   0.5091                0.4785     0.8262    0.6098        0.8628       0.8504       0.8614   0.0845       18.6643       16.2058          1047.0          1372.0                     0.7198                               0.5342                           0.6434                                     0.5931         29.0         20.0            27.0          17.0          17.0          110.0          250.0                 93.0                     65.0     35.3
+11:23:01 done in 82.8 s -> /home/sj_server_1/PBISC/immun-pbmc-fm/model_8_sparse_data_diffusion/plans/bulkonly_lora5_k4000_20261006/scores/imperial_eskd/draw2
+removed the K = 1,000 copy /home/sj_server_1/PBISC/immun-pbmc-fm/model_8_sparse_data_diffusion/plans/bulkonly_lora5_k4000_20261006/ref_k1000/imperial_eskd/draw2/lora__raw.npz (sha in COPY.json)
+{"lora5": {"comp_l1": 0.5118, "coverage": 0.665, "pb_r_median": 0.8619, "contrast_mean_cp10k_r_gen": 0.714, "deg_top50_sum": 103}, "lora5_k4000": {"comp_l1": 0.5091, "coverage": 0.6098, "pb_r_median": 0.8614, "contrast_mean_cp10k_r_gen": 0.7198, "deg_top50_sum": 110}}

paper-releases/pbisc-diffusion/updates/20261006T033847Z-bulkonly-lora5-k4000/diffusion/dataset/server_1/model8/plans/bulkonly_lora5_k4000_20261006/logs/imperial_eskd-d3-annot.log

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+{"dataset": "imperial_eskd", "draw": 3, "cells": 656000, "samples": 164, "seconds": 119.3, "labels_l1": {"T cell": 317277, "Monocyte": 181585, "NK cell": 98658, "B cell": 39612, "DC": 12792, "Other": 6076}}

paper-releases/pbisc-diffusion/updates/20261006T033847Z-bulkonly-lora5-k4000/diffusion/dataset/server_1/model8/plans/bulkonly_lora5_k4000_20261006/logs/imperial_eskd-d3-merge.log

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+{"output_sha256": "1591cc471523687baec49a1f29318b245b822ae7e0a5e744ec20e01ad4794e29", "cells": 217500, "bulks": 145, "seed": 23260936, "seconds": 51.9}