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-d3-pack.log

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+{"file": "/home/sj_server_1/PBISC/immun-pbmc-fm/model_8_sparse_data_diffusion/plans/bulkonly_lora5_k4000_20261006/share/imperial_eskd/lora5k4_bulkonly_imperial_eskd_draw3.h5ad", "cells": 656000, "samples": 164, "nnz": 184990314, "bytes": 422828814}

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

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+{"dataset": "imperial_eskd", "draw": 3, "cells": 217500, "samples": 145, "seconds": 26.5}

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

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+11:28:00 imperial_eskd: 145 scored donors, 2 arm(s); fitting the observed reference
+11:28:08 reference: R1 21682 cells, PCA var 0.259, R2 control P/C 0.9691/0.9998; contrast on
+11:28:08 observed top-50 DEG lists: T 50 (sig 873, 104+31 donors, 241386 cells), B 50 (sig 215, 104+31 donors, 46374 cells), Mono 50 (sig 270, 103+31 donors, 74900 cells), NK 50 (sig 321, 104+31 donors, 67818 cells), DC 50 (sig 272, 104+31 donors, 12959 cells)
+11:28:08 lora5: loading generated_counts (217500 cells in the NPZ, 217500 scored)
+11:28:32 lora5: Poisson read-out nnz 58994682 (whole NPZ), median library 1373; annotating
+11:28:47 lora5: L1 0.5275 (null 0.5045022619268063) P/C 0.8802/0.8427 pb r 0.8725 top1 0.034 mono 21.0% (38.6 s)
+11:28:47 lora5: top-50 DEG 117/250 (T 35, B 11, Mono 28, NK 27, DC 16); broadcast 76 (0.43 s)
+11:28:47 lora5_k4000: loading generated_counts (217500 cells in the NPZ, 217500 scored)
+11:29:08 lora5_k4000: Poisson read-out nnz 59160868 (whole NPZ), median library 1362; annotating
+11:29:22 lora5_k4000: L1 0.5088 (null 0.5045022619268063) P/C 0.8841/0.8355 pb r 0.8747 top1 0.055 mono 22.5% (35.6 s)
+11:29:22 lora5_k4000: top-50 DEG 119/250 (T 37, B 11, Mono 26, NK 29, DC 16); broadcast 76 (0.4 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         0.5275                0.5045     0.8802    0.8427        0.9078       0.9036       0.8725   0.0345       20.9655       17.3811          1373.0          1331.0                     0.7456                               0.5485                           0.6539                                     0.5815         35.0         11.0            28.0          27.0          16.0          117.0          250.0                101.0                     76.0     38.6
+lora5_k4000   0.5088                0.5045     0.8841    0.8355        0.9152       0.9092       0.8747   0.0552       22.5361       17.3811          1362.0          1331.0                     0.7387                               0.5434                           0.6539                                     0.5815         37.0         11.0            26.0          29.0          16.0          119.0          250.0                103.0                     76.0     35.6
+11:29:22 done in 86.3 s -> /home/sj_server_1/PBISC/immun-pbmc-fm/model_8_sparse_data_diffusion/plans/bulkonly_lora5_k4000_20261006/scores/imperial_eskd/draw3
+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/draw3/lora__raw.npz (sha in COPY.json)
+{"lora5": {"comp_l1": 0.5275, "coverage": 0.8427, "pb_r_median": 0.8725, "contrast_mean_cp10k_r_gen": 0.7456, "deg_top50_sum": 117}, "lora5_k4000": {"comp_l1": 0.5088, "coverage": 0.8355, "pb_r_median": 0.8747, "contrast_mean_cp10k_r_gen": 0.7387, "deg_top50_sum": 119}}

paper-releases/pbisc-diffusion/updates/20261006T033847Z-bulkonly-lora5-k4000/diffusion/dataset/server_1/model8/plans/bulkonly_lora5_k4000_20261006/logs/imperial_eskd-d4-annot.log

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+{"dataset": "imperial_eskd", "draw": 4, "cells": 656000, "samples": 164, "seconds": 97.4, "labels_l1": {"T cell": 325592, "Monocyte": 115033, "B cell": 102250, "NK cell": 82190, "DC": 15894, "Other": 15041}}