diff --git a/paper-releases/pbisc-diffusion/updates/20260928T225702Z-paired-ft-scsemi-delta/diffusion/metadata/NOTE.md b/paper-releases/pbisc-diffusion/updates/20260928T225702Z-paired-ft-scsemi-delta/diffusion/metadata/NOTE.md new file mode 100644 index 0000000000000000000000000000000000000000..bc6e2dc1209b9f9e4f2ed6f3f7c93646fa0701da --- /dev/null +++ b/paper-releases/pbisc-diffusion/updates/20260928T225702Z-paired-ft-scsemi-delta/diffusion/metadata/NOTE.md @@ -0,0 +1,5 @@ +# PBISC-diffusion update 20260928T225702Z-paired-ft-scsemi-delta + +Delta after the paper-20260928 baseline for the within-dataset paired fine-tuning benchmark (plans/paired_finetune_intradataset_20260927): the scSemiProfiler 5-pair baseline (adapter code, compatibility patch record, README, queues, finished draws' score tables; unfinished draws registered as planned locations; finished draws' generated outputs as completed locations), regenerated figures and FIGURES.md, updated README, newly written condition NPZs and queues, the archive-request builder. Unchanged files are skipped by sha256. The Imperial checkpoints on server_2 were already archived in the baseline (now symlinks) and are not re-sent. scSemiProfiler runs are still in progress on both hosts. + +Payload states are recorded as supplied. Inference locations are pointers, not archived generated outputs. diff --git a/paper-releases/pbisc-diffusion/updates/20260928T225702Z-paired-ft-scsemi-delta/diffusion/metadata/inference_locations.json b/paper-releases/pbisc-diffusion/updates/20260928T225702Z-paired-ft-scsemi-delta/diffusion/metadata/inference_locations.json new file mode 100644 index 0000000000000000000000000000000000000000..9c9243ff90fd9adec7e990c947f87925a7b00db1 --- /dev/null +++ b/paper-releases/pbisc-diffusion/updates/20260928T225702Z-paired-ft-scsemi-delta/diffusion/metadata/inference_locations.json @@ -0,0 +1,549 @@ +{ + "locations": [ + { + "artifact_role": "inference_output", + "cohort": "immicro", + "condition_npz": "/home/sj_server_1/PBISC/immun-pbmc-fm/model_8_sparse_data_diffusion/plans/paired_finetune_intradataset_20260927/data/immicro/fewshot_n5/draw0/test_raw.npz", + "condition_sha256": "25588c979cd104e1b950542b66e04b0b1fdc51aea688691c6402f35011b93062", + "experiment": "paired_finetune_fewshot_n5", + 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"/home/sj_server_1/PBISC/immun-pbmc-fm/model_8_sparse_data_diffusion/plans/paired_finetune_intradataset_20260927/generated/ye2026_sepsis/fewshot_n5/draw3/scsemi5__raw.npz", + "state": "planned" + }, + { + "artifact_role": "inference_output", + "cohort": "immicro", + "experiment": "paired_finetune_fewshot_n5_scsemiprofiler", + "host": "server_1", + "note": "scSemiProfiler 5-pair baseline queued or running on this host at request time", + "path": "/home/sj_server_1/PBISC/immun-pbmc-fm/model_8_sparse_data_diffusion/plans/paired_finetune_intradataset_20260927/generated/immicro/fewshot_n5/draw3/scsemi5__raw.npz", + "state": "planned" + }, + { + "artifact_role": "inference_output", + "cohort": "giroux2022", + "experiment": "paired_finetune_fewshot_n5_scsemiprofiler", + "host": "server_1", + "note": "scSemiProfiler 5-pair baseline queued or running on this host at request time", + "path": "/home/sj_server_1/PBISC/immun-pbmc-fm/model_8_sparse_data_diffusion/plans/paired_finetune_intradataset_20260927/generated/giroux2022/fewshot_n5/draw3/scsemi5__raw.npz", + "state": "planned" + }, + { + "artifact_role": "inference_output", + "cohort": "ji2025_chili", + "experiment": "paired_finetune_fewshot_n5_scsemiprofiler", + "host": "server_1", + "note": "scSemiProfiler 5-pair baseline queued or running on this host at request time", + "path": "/home/sj_server_1/PBISC/immun-pbmc-fm/model_8_sparse_data_diffusion/plans/paired_finetune_intradataset_20260927/generated/ji2025_chili/fewshot_n5/draw4/scsemi5__raw.npz", + "state": "planned" + }, + { + "artifact_role": "inference_output", + "cohort": "ye2026_sepsis", + "experiment": "paired_finetune_fewshot_n5_scsemiprofiler", + "host": "server_1", + "note": "scSemiProfiler 5-pair baseline queued or running on this host at request time", + "path": "/home/sj_server_1/PBISC/immun-pbmc-fm/model_8_sparse_data_diffusion/plans/paired_finetune_intradataset_20260927/generated/ye2026_sepsis/fewshot_n5/draw4/scsemi5__raw.npz", + "state": "planned" + }, + { + "artifact_role": "inference_output", + "cohort": "immicro", + "experiment": "paired_finetune_fewshot_n5_scsemiprofiler", + "host": "server_1", + "note": "scSemiProfiler 5-pair baseline queued or running on this host at request time", + "path": "/home/sj_server_1/PBISC/immun-pbmc-fm/model_8_sparse_data_diffusion/plans/paired_finetune_intradataset_20260927/generated/immicro/fewshot_n5/draw4/scsemi5__raw.npz", + "state": "planned" + }, + { + "artifact_role": "inference_output", + "cohort": "giroux2022", + "experiment": "paired_finetune_fewshot_n5_scsemiprofiler", + "host": "server_1", + "note": "scSemiProfiler 5-pair baseline queued or running on this host at request time", + "path": "/home/sj_server_1/PBISC/immun-pbmc-fm/model_8_sparse_data_diffusion/plans/paired_finetune_intradataset_20260927/generated/giroux2022/fewshot_n5/draw4/scsemi5__raw.npz", + "state": "planned" + }, + { + "artifact_role": "inference_output", + "cohort": "imperial_eskd", + "experiment": "paired_finetune_fewshot_n5_scsemiprofiler", + "host": "server_2", + "note": "scSemiProfiler 5-pair baseline queued or running on this host at request time", + "path": "/home/sj_server_1/PBISC/immun-pbmc-fm/model_8_sparse_data_diffusion/plans/paired_finetune_intradataset_20260927/generated/imperial_eskd/fewshot_n5/draw0/scsemi5__raw.npz", + "state": "planned" + }, + { + "artifact_role": "inference_output", + "cohort": "imperial_eskd", + "experiment": "paired_finetune_fewshot_n5_scsemiprofiler", + "host": "server_2", + "note": "scSemiProfiler 5-pair baseline queued or running on this host at request time", + "path": "/home/sj_server_1/PBISC/immun-pbmc-fm/model_8_sparse_data_diffusion/plans/paired_finetune_intradataset_20260927/generated/imperial_eskd/fewshot_n5/draw4/scsemi5__raw.npz", + "state": "planned" + } + ], + "project_id": "pbisc-diffusion", + "summary": "Delta after the paper-20260928 baseline for the within-dataset paired fine-tuning benchmark (plans/paired_finetune_intradataset_20260927): the scSemiProfiler 5-pair baseline (adapter code, compatibility patch record, README, queues, finished draws' score tables; unfinished draws registered as planned locations; finished draws' generated outputs as completed locations), regenerated figures and FIGURES.md, updated README, newly written condition NPZs and queues, the archive-request builder. Unchanged files are skipped by sha256. The Imperial checkpoints on server_2 were already archived in the baseline (now symlinks) and are not re-sent. scSemiProfiler runs are still in progress on both hosts." +}