Archive 4 checkpoints (1-4)

paper-releases/pbisc-diffusion/updates/20261005T121346Z-scsemi-cv-budget-interim/diffusion/dataset/server_1/model8/plans/paired_finetune_intradataset_20260927/scsemi/queues/as_run_server2/server2_cv_giroux_imperial_20261004.txt

@@ -0,0 +1,12 @@
+# scSemiProfiler A (5-fold CV) for Giroux and Imperial, moved from server1_cv_budget_20261002.txt to server_2 (user decision 2026-10-04 22:50:
+# server_2 idle). Same lines as on server_1 minus 'offload' (models already live on spark-0110).
+cv|giroux2022|0|lean_hvset,clean_prepared
+cv|giroux2022|1|lean_hvset,clean_prepared
+cv|giroux2022|2|lean_hvset,clean_prepared
+cv|giroux2022|3|lean_hvset,clean_prepared
+cv|giroux2022|4|lean_hvset,clean_prepared
+cv|imperial_eskd|0|lean_hvset,clean_prepared
+cv|imperial_eskd|1|lean_hvset,clean_prepared
+cv|imperial_eskd|2|lean_hvset,clean_prepared
+cv|imperial_eskd|3|lean_hvset,clean_prepared
+cv|imperial_eskd|4|lean_hvset,clean_prepared

paper-releases/pbisc-diffusion/updates/20261005T121346Z-scsemi-cv-budget-interim/diffusion/dataset/server_1/model8/plans/paired_finetune_intradataset_20260927/scsemi/validation/check_units_server2_cv_giroux_imperial_20261004.json

@@ -0,0 +1,500 @@
+{
+ "written_utc": "2026-10-04T13:48:41.435557+00:00",
+ "host": "spark-0110.local",
+ "queues": [
+  "queues/server2_cv_giroux_imperial_20261004.txt"
+ ],
+ "all_ok": true,
+ "failures": [],
+ "totals": {
+  "units": 10,
+  "gpu_hours": 46.3,
+  "pretrain_hours": 41.7,
+  "infer_hours": 4.6,
+  "cpu_prepare_hours": 1.3
+ },
+ "cost_model": {
+  "pretrain_s_per_cell": 0.0488,
+  "target_s": [
+   8.0,
+   0.0188
+  ],
+  "prep_s_per_cell": 0.0015,
+  "ckpt_mb": 17.7,
+  "semi_mb": 21.3,
+  "rep_sc_kb_per_cell": 3.3,
+  "geneset_scores_kb_per_cell": 23.4
+ },
+ "units": [
+  {
+   "line": "cv|giroux2022|0|lean_hvset,clean_prepared",
+   "mode": "cv",
+   "ds": "giroux2022",
+   "fold": 0,
+   "opts": [
+    "lean_hvset",
+    "clean_prepared"
+   ],
+   "n": null,
+   "queue": "queues/server2_cv_giroux_imperial_20261004.txt",
+   "builder_ok": true,
+   "work": "/home/sj_server_1/PBISC/immun-pbmc-fm/model_8_sparse_data_diffusion/plans/paired_finetune_intradataset_20260927/scsemi/work/giroux2022/cv/fold0",
+   "out": "/home/sj_server_1/PBISC/immun-pbmc-fm/model_8_sparse_data_diffusion/plans/paired_finetune_intradataset_20260927/generated/giroux2022/fold0/scsemi__raw.npz",
+   "n_reps": 20,
+   "n_targets": 4,
+   "n_rep_cells": 217160,
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+   "equals_scorer_genes": true,
+   "depth": 482.0,
+   "work_state": "absent",
+   "output_exists": false,
+   "output_validated": false,
+   "lora_run": "/home/sj_server_1/PBISC/immun-pbmc-fm/model_8_sparse_data_diffusion/plans/paired_finetune_intradataset_20260927/runs/giroux2022/fold0/real_lora/RUN.json",
+   "reps_equal_lora_all_fit_rows": true,
+   "targets_equal_lora_test_rows": true,
+   "lora_rows": {
+    "train": 18,
+    "inner_val": 2
+   },
+   "targets_per_rep_max": 1,
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+    "transient_geneset_scores": 5.1,
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+    "persistent_pretrain_ckpts": 0.7,
+    "persistent_target_models": 0.1
+   },
+   "largest_rep_cells": 15650,
+   "check_seconds": 3.6
+  },
+  {
+   "line": "cv|giroux2022|1|lean_hvset,clean_prepared",
+   "mode": "cv",
+   "ds": "giroux2022",
+   "fold": 1,
+   "opts": [
+    "lean_hvset",
+    "clean_prepared"
+   ],
+   "n": null,
+   "queue": "queues/server2_cv_giroux_imperial_20261004.txt",
+   "builder_ok": true,
+   "work": "/home/sj_server_1/PBISC/immun-pbmc-fm/model_8_sparse_data_diffusion/plans/paired_finetune_intradataset_20260927/scsemi/work/giroux2022/cv/fold1",
+   "out": "/home/sj_server_1/PBISC/immun-pbmc-fm/model_8_sparse_data_diffusion/plans/paired_finetune_intradataset_20260927/generated/giroux2022/fold1/scsemi__raw.npz",
+   "n_reps": 19,
+   "n_targets": 5,
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+   "work_state": "absent",
+   "output_exists": false,
+   "output_validated": false,
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+   "reps_equal_lora_all_fit_rows": true,
+   "targets_equal_lora_test_rows": true,
+   "lora_rows": {
+    "train": 16,
+    "inner_val": 3
+   },
+   "targets_per_rep_max": 2,
+   "gpu_hours": {
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+    "infer": 0.3,
+    "total": 3.0
+   },
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+   "disk_gb": {
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+    "persistent_target_models": 0.1
+   },
+   "largest_rep_cells": 14741,
+   "check_seconds": 1.6
+  },
+  {
+   "line": "cv|giroux2022|2|lean_hvset,clean_prepared",
+   "mode": "cv",
+   "ds": "giroux2022",
+   "fold": 2,
+   "opts": [
+    "lean_hvset",
+    "clean_prepared"
+   ],
+   "n": null,
+   "queue": "queues/server2_cv_giroux_imperial_20261004.txt",
+   "builder_ok": true,
+   "work": "/home/sj_server_1/PBISC/immun-pbmc-fm/model_8_sparse_data_diffusion/plans/paired_finetune_intradataset_20260927/scsemi/work/giroux2022/cv/fold2",
+   "out": "/home/sj_server_1/PBISC/immun-pbmc-fm/model_8_sparse_data_diffusion/plans/paired_finetune_intradataset_20260927/generated/giroux2022/fold2/scsemi__raw.npz",
+   "n_reps": 18,
+   "n_targets": 6,
+   "n_rep_cells": 192107,
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+   "equals_scorer_genes": true,
+   "depth": 487.0,
+   "work_state": "absent",
+   "output_exists": false,
+   "output_validated": false,
+   "lora_run": "/home/sj_server_1/PBISC/immun-pbmc-fm/model_8_sparse_data_diffusion/plans/paired_finetune_intradataset_20260927/runs/giroux2022/fold2/real_lora/RUN.json",
+   "reps_equal_lora_all_fit_rows": true,
+   "targets_equal_lora_test_rows": true,
+   "lora_rows": {
+    "train": 15,
+    "inner_val": 3
+   },
+   "targets_per_rep_max": 3,
+   "gpu_hours": {
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+    "infer": 0.32,
+    "total": 2.92
+   },
+   "cpu_prepare_hours": 0.08,
+   "disk_gb": {
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+    "persistent_inputs": 0.6,
+    "persistent_pretrain_ckpts": 0.6,
+    "persistent_target_models": 0.1
+   },
+   "largest_rep_cells": 15650,
+   "check_seconds": 1.6
+  },
+  {
+   "line": "cv|giroux2022|3|lean_hvset,clean_prepared",
+   "mode": "cv",
+   "ds": "giroux2022",
+   "fold": 3,
+   "opts": [
+    "lean_hvset",
+    "clean_prepared"
+   ],
+   "n": null,
+   "queue": "queues/server2_cv_giroux_imperial_20261004.txt",
+   "builder_ok": true,
+   "work": "/home/sj_server_1/PBISC/immun-pbmc-fm/model_8_sparse_data_diffusion/plans/paired_finetune_intradataset_20260927/scsemi/work/giroux2022/cv/fold3",
+   "out": "/home/sj_server_1/PBISC/immun-pbmc-fm/model_8_sparse_data_diffusion/plans/paired_finetune_intradataset_20260927/generated/giroux2022/fold3/scsemi__raw.npz",
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+   "n_targets": 6,
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+   "lora_run": "/home/sj_server_1/PBISC/immun-pbmc-fm/model_8_sparse_data_diffusion/plans/paired_finetune_intradataset_20260927/runs/giroux2022/fold3/real_lora/RUN.json",
+   "reps_equal_lora_all_fit_rows": true,
+   "targets_equal_lora_test_rows": true,
+   "lora_rows": {
+    "train": 16,
+    "inner_val": 2
+   },
+   "targets_per_rep_max": 2,
+   "gpu_hours": {
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+    "infer": 0.42,
+    "total": 2.97
+   },
+   "cpu_prepare_hours": 0.08,
+   "disk_gb": {
+    "transient_sample_sc": 22.8,
+    "transient_geneset_scores": 4.4,
+    "persistent_inputs": 0.6,
+    "persistent_pretrain_ckpts": 0.6,
+    "persistent_target_models": 0.1
+   },
+   "largest_rep_cells": 15650,
+   "check_seconds": 1.6
+  },
+  {
+   "line": "cv|giroux2022|4|lean_hvset,clean_prepared",
+   "mode": "cv",
+   "ds": "giroux2022",
+   "fold": 4,
+   "opts": [
+    "lean_hvset",
+    "clean_prepared"
+   ],
+   "n": null,
+   "queue": "queues/server2_cv_giroux_imperial_20261004.txt",
+   "builder_ok": true,
+   "work": "/home/sj_server_1/PBISC/immun-pbmc-fm/model_8_sparse_data_diffusion/plans/paired_finetune_intradataset_20260927/scsemi/work/giroux2022/cv/fold4",
+   "out": "/home/sj_server_1/PBISC/immun-pbmc-fm/model_8_sparse_data_diffusion/plans/paired_finetune_intradataset_20260927/generated/giroux2022/fold4/scsemi__raw.npz",
+   "n_reps": 21,
+   "n_targets": 3,
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+   "output_validated": false,
+   "lora_run": "/home/sj_server_1/PBISC/immun-pbmc-fm/model_8_sparse_data_diffusion/plans/paired_finetune_intradataset_20260927/runs/giroux2022/fold4/real_lora/RUN.json",
+   "reps_equal_lora_all_fit_rows": true,
+   "targets_equal_lora_test_rows": true,
+   "lora_rows": {
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+  },
+  {
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+   "mode": "cv",
+   "ds": "imperial_eskd",
+   "fold": 0,
+   "opts": [
+    "lean_hvset",
+    "clean_prepared"
+   ],
+   "n": null,
+   "queue": "queues/server2_cv_giroux_imperial_20261004.txt",
+   "builder_ok": true,
+   "work": "/home/sj_server_1/PBISC/immun-pbmc-fm/model_8_sparse_data_diffusion/plans/paired_finetune_intradataset_20260927/scsemi/work/imperial_eskd/cv/fold0",
+   "out": "/home/sj_server_1/PBISC/immun-pbmc-fm/model_8_sparse_data_diffusion/plans/paired_finetune_intradataset_20260927/generated/imperial_eskd/fold0/scsemi__raw.npz",
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+   "targets_equal_lora_test_rows": true,
+   "lora_rows": {
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+  {
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+   "mode": "cv",
+   "ds": "imperial_eskd",
+   "fold": 1,
+   "opts": [
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+    "clean_prepared"
+   ],
+   "n": null,
+   "queue": "queues/server2_cv_giroux_imperial_20261004.txt",
+   "builder_ok": true,
+   "work": "/home/sj_server_1/PBISC/immun-pbmc-fm/model_8_sparse_data_diffusion/plans/paired_finetune_intradataset_20260927/scsemi/work/imperial_eskd/cv/fold1",
+   "out": "/home/sj_server_1/PBISC/immun-pbmc-fm/model_8_sparse_data_diffusion/plans/paired_finetune_intradataset_20260927/generated/imperial_eskd/fold1/scsemi__raw.npz",
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+   "ds": "imperial_eskd",
+   "fold": 2,
+   "opts": [
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+   ],
+   "n": null,
+   "queue": "queues/server2_cv_giroux_imperial_20261004.txt",
+   "builder_ok": true,
+   "work": "/home/sj_server_1/PBISC/immun-pbmc-fm/model_8_sparse_data_diffusion/plans/paired_finetune_intradataset_20260927/scsemi/work/imperial_eskd/cv/fold2",
+   "out": "/home/sj_server_1/PBISC/immun-pbmc-fm/model_8_sparse_data_diffusion/plans/paired_finetune_intradataset_20260927/generated/imperial_eskd/fold2/scsemi__raw.npz",
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+   "out": "/home/sj_server_1/PBISC/immun-pbmc-fm/model_8_sparse_data_diffusion/plans/paired_finetune_intradataset_20260927/generated/imperial_eskd/fold3/scsemi__raw.npz",
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+   "targets_equal_lora_test_rows": true,
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+   "work": "/home/sj_server_1/PBISC/immun-pbmc-fm/model_8_sparse_data_diffusion/plans/paired_finetune_intradataset_20260927/scsemi/work/imperial_eskd/cv/fold4",
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