junidude14 commited on
Commit
5741860
·
verified ·
1 Parent(s): c20881c

Archive 4 checkpoints (1-4)

Browse files
paper-releases/pbisc-diffusion/updates/20261012T130738Z-strictpairs-implementation/diffusion/dataset/server_1/model8/plans/paper_figures_strictpairs_20261012/archive/20261012T130738Z-strictpairs-implementation/snapshot/scsemi/ye2026_sepsis/disease/draw1/status.json ADDED
@@ -0,0 +1,11 @@
 
 
 
 
 
 
 
 
 
 
 
 
1
+ {
2
+ "prepared": true,
3
+ "n_reps": 5,
4
+ "reps_pretrained": 0,
5
+ "n_targets": 77,
6
+ "targets_done": 0,
7
+ "pretrain_complete": false,
8
+ "infer_complete": false,
9
+ "run_signature": "70e9747812b14f1dfd1bdc063b591d5e526fe0de9d7f5113e24b1f770b7159e7",
10
+ "updated": "2026-10-12T12:40:04.807020+00:00"
11
+ }
paper-releases/pbisc-diffusion/updates/20261012T130738Z-strictpairs-implementation/diffusion/dataset/server_1/model8/plans/paper_figures_strictpairs_20261012/archive/20261012T130738Z-strictpairs-implementation/snapshot/scsemi/ye2026_sepsis/disease/draw2/adopted_legacy/ADOPTION.json ADDED
@@ -0,0 +1,308 @@
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
1
+ {
2
+ "schema": "pbisc.scsemi.legacy-adoption-proof.v1",
3
+ "status": "verified_source_not_native_strict_run",
4
+ "cohort": "ye2026_sepsis",
5
+ "unit": "draw2_n5",
6
+ "support_sha256": "ea331f967a3a212b91cd144bd8ba62cea3cbfe3bdcc9e77268e190757327b0e2",
7
+ "source_work": "/home/sj_server_1/PBISC/immun-pbmc-fm/model_8_sparse_data_diffusion/plans/paired_finetune_intradataset_20260927/scsemi/work/ye2026_sepsis/fewshot_n5/draw2",
8
+ "strict_work": "/home/sj_server_1/PBISC/immun-pbmc-fm/model_8_sparse_data_diffusion/plans/paper_figures_strictpairs_20261012/scsemi/ye2026_sepsis/disease/draw2",
9
+ "source_generated": "/home/sj_server_1/PBISC/immun-pbmc-fm/model_8_sparse_data_diffusion/plans/paired_finetune_intradataset_20260927/generated/ye2026_sepsis/fewshot_n5/draw2/scsemi5__raw.npz",
10
+ "source_generated_sha256": "6662fd4e121f2bd53d907cfb36f2500a15efab7e36670eb2ce7cecc7f543bc86",
11
+ "source_generated_receipt_sha256": "e308ba53e77009ba29d1479a757f4d12e80c138f987c18ffa7ba285715fdcc0a",
12
+ "source_run_signature": "5ddd3f5c4f5cefe7ad557f4b95f2ef55bec236a89974bd1f6606b8bbfb0999be",
13
+ "strict_prepared_run_signature": "514fc6c2563138d589d553f6d654fb14c1250cc022a6a5ee880d13b3a178382f",
14
+ "source_provenance": {
15
+ "old_initial_source": {
16
+ "repository": "https://github.com/mcgilldinglab/scSemiProfiler",
17
+ "commit": "c2aea021188759e56ecf14578915c0237aaa75d2",
18
+ "compatibility_patch_sha256": "e9a97451cedfda3ed3da9a6dd6dfd48861bc9301316b259abea158367624c338",
19
+ "changes": [
20
+ "remove unused scvi.nn.one_hot import",
21
+ "translate legacy use_gpu to accelerator/devices",
22
+ "avoid empty slice when geneset_len is zero"
23
+ ],
24
+ "files": {
25
+ "scSemiProfiler/__init__.py": "4ee4e83fcd8456510c5cc44bb1eb2386894a51bcbab07a8308a804b07d85d856",
26
+ "scSemiProfiler/fast_generator.py": "1e384ec831461748c095b8c2fa2d57fee1a86758c4d832e6e0926f8f6c47ad8f",
27
+ "scSemiProfiler/get_eg_representatives.py": "f63ca0d6763546bbb3d7ec849254a6d4652d6c1a4063794b9c690be86f0a124c",
28
+ "scSemiProfiler/inference.py": "88997c6bf752d6c939ef527a0c9cfcf24065076faf204d84cf64cff5f0282d39",
29
+ "scSemiProfiler/initial_setup.py": "9f97b5cd0b7222bca234b4283f16147baf48b6a9baa3407a851301f1d6da6518",
30
+ "scSemiProfiler/oldinference.py": "61f026515f6307de4823b96abfdb0352f4c06f1b4ad08cfc1909f67b6db8aa00",
31
+ "scSemiProfiler/representative_selection.py": "9dae94b83ebbe3ffff6fe2daddaf480bff4d183ab6fcdc76c844d89c1de462cf",
32
+ "scSemiProfiler/singlecell_process.py": "512e0a2dd6f613175512dcecdcad2eb045bf9267b044020a7eff0d6d8393377a",
33
+ "scSemiProfiler/utils.py": "0a864ea2f202eda428c65c69400ebc93d981ce82a39cfe773db12ec5670d74af",
34
+ "scSemiProfiler/vaegan.py": "e847bf9d0739214940e136db5c1bb4c02a15af497136e2db087763124ae4193f"
35
+ }
36
+ },
37
+ "strict_source": {
38
+ "repository": "https://github.com/mcgilldinglab/scSemiProfiler",
39
+ "commit": "c2aea021188759e56ecf14578915c0237aaa75d2",
40
+ "compatibility_patch_sha256": "314d353002ffb482b4ed4b61a32b280a50ff8b6a9933512ada9fdc74c17b1711",
41
+ "changes": [
42
+ "remove unused scvi.nn.one_hot import",
43
+ "translate legacy use_gpu to accelerator/devices",
44
+ "avoid empty slice when geneset_len is zero",
45
+ "drop a size-1 trailing training batch: scvi DataSplitter(drop_last=True) only when n_obs % batch_size == 1 (upstream's own commented-out remedy); all other cell counts unchanged"
46
+ ],
47
+ "files": {
48
+ "scSemiProfiler/__init__.py": "4ee4e83fcd8456510c5cc44bb1eb2386894a51bcbab07a8308a804b07d85d856",
49
+ "scSemiProfiler/fast_generator.py": "1e384ec831461748c095b8c2fa2d57fee1a86758c4d832e6e0926f8f6c47ad8f",
50
+ "scSemiProfiler/get_eg_representatives.py": "f63ca0d6763546bbb3d7ec849254a6d4652d6c1a4063794b9c690be86f0a124c",
51
+ "scSemiProfiler/inference.py": "88997c6bf752d6c939ef527a0c9cfcf24065076faf204d84cf64cff5f0282d39",
52
+ "scSemiProfiler/initial_setup.py": "9f97b5cd0b7222bca234b4283f16147baf48b6a9baa3407a851301f1d6da6518",
53
+ "scSemiProfiler/oldinference.py": "61f026515f6307de4823b96abfdb0352f4c06f1b4ad08cfc1909f67b6db8aa00",
54
+ "scSemiProfiler/representative_selection.py": "9dae94b83ebbe3ffff6fe2daddaf480bff4d183ab6fcdc76c844d89c1de462cf",
55
+ "scSemiProfiler/singlecell_process.py": "512e0a2dd6f613175512dcecdcad2eb045bf9267b044020a7eff0d6d8393377a",
56
+ "scSemiProfiler/utils.py": "0a864ea2f202eda428c65c69400ebc93d981ce82a39cfe773db12ec5670d74af",
57
+ "scSemiProfiler/vaegan.py": "5d8d6638616ae29b443c5c95ed4664c3cf2b8f0f040d2e502f3c9d6157615e23"
58
+ },
59
+ "previous_manifest_sha256": "229f8a7070d49972a51430ed88a2ad604d85513cfda05c1d124a4e53a4aa0636"
60
+ },
61
+ "approved_migration": {
62
+ "at": "2026-09-29T07:28:41.595737+00:00",
63
+ "host": "spark-fa6b",
64
+ "from_code_signature": "5ddd3f5c4f5cefe7ad557f4b95f2ef55bec236a89974bd1f6606b8bbfb0999be",
65
+ "to_code_signature": "e3a7edc59ba58d20f03cec05da82f4882adffbb9be05fae96ec2131b4bd7b3a9",
66
+ "changed": [
67
+ "source",
68
+ "wrapper_sha256"
69
+ ],
70
+ "transitions": [
71
+ "trailing_size1_batch_20260928",
72
+ "wrapper_migration_support_20260928"
73
+ ],
74
+ "to_binding": {
75
+ "protocol": {
76
+ "method": "scSemiProfiler",
77
+ "setting": "paired_fixed_representatives_realbulk_genesets",
78
+ "upstream_commit": "c2aea021188759e56ecf14578915c0237aaa75d2",
79
+ "initsetup": {
80
+ "logged": false,
81
+ "normed": false,
82
+ "geneselection": false,
83
+ "batch": 1
84
+ },
85
+ "scprocess": {
86
+ "logged": false,
87
+ "normed": false,
88
+ "cellfilter": false,
89
+ "threshold": 0.001,
90
+ "geneset": true,
91
+ "weight": 0.5,
92
+ "k": 15
93
+ },
94
+ "representatives": "fixed: every usable row of the split's training donors (no active learning)",
95
+ "assignment": "upstream representative_selection.update_membership: nearest representative by Euclidean distance in processed_bulkdata.obsm['X_pca'] (initsetup PCA of log1p CP10K real bulk)",
96
+ "pretrain1": {
97
+ "vaesteps": 100,
98
+ "gansteps": 100,
99
+ "lr": 0.001,
100
+ "k": 15,
101
+ "diagw": 1
102
+ },
103
+ "pretrain2": {
104
+ "vaesteps": 50,
105
+ "gansteps": 50,
106
+ "lr": 0.0001,
107
+ "k": 15,
108
+ "diagw": 1.0
109
+ },
110
+ "infer": {
111
+ "bulktype": "real",
112
+ "pseudocount": 0.1,
113
+ "lr": 0.0002,
114
+ "epochs": 150,
115
+ "ministages": 5,
116
+ "k": 15,
117
+ "diagw": 1.0
118
+ },
119
+ "seeds": {
120
+ "base": 20260927,
121
+ "pretrain1": "base + 1000 + bulk row index",
122
+ "pretrain2": "base + 2000 + bulk row index",
123
+ "target": "base + bulk row index (frozen campaign rule)"
124
+ },
125
+ "output_unit": "normalized_expression (upstream fast_semi output: ZINB mean, rep-cell library, values <= 10 zeroed)",
126
+ "cellgraph_impl": "tools/lean_cellgraph.fast_cellgraph_lean replaces upstream singlecell_process.fast_cellgraph inside scprocess: same arithmetic, chunked (16 GiB CPU cap); bit-identical outputs verified (validation/lean_cellgraph_*.json)",
127
+ "scprocess_orchestration": "cohort hvset first (upstream scprocess's own steps: sorted sample_ids, normalize_total 1e4, dense, X*(X>10), getGeneSetMatrix score formula, concatenate, log1p, highly_variable_genes) -> hvset.npy; then upstream scprocess once per representative (it skips hvset when hvset.npy exists). Bit-identical to one scprocess call over all representatives (validation/prepared_*.json); peak memory is one representative"
128
+ },
129
+ "inputs": {
130
+ "bulk.h5ad": "6afa0b47b2a44d83eaf1de3f7779a968844795b42f9f6ed9fae2577f9764d6e9",
131
+ "rep_sc.h5ad": "5365fd255bfac4326254318156c12d06bfe99a8e5a349a7d2b6f0cf03315f706"
132
+ },
133
+ "source": {
134
+ "repository": "https://github.com/mcgilldinglab/scSemiProfiler",
135
+ "commit": "c2aea021188759e56ecf14578915c0237aaa75d2",
136
+ "compatibility_patch_sha256": "314d353002ffb482b4ed4b61a32b280a50ff8b6a9933512ada9fdc74c17b1711",
137
+ "changes": [
138
+ "remove unused scvi.nn.one_hot import",
139
+ "translate legacy use_gpu to accelerator/devices",
140
+ "avoid empty slice when geneset_len is zero",
141
+ "drop a size-1 trailing training batch: scvi DataSplitter(drop_last=True) only when n_obs % batch_size == 1 (upstream's own commented-out remedy); all other cell counts unchanged"
142
+ ],
143
+ "files": {
144
+ "scSemiProfiler/__init__.py": "4ee4e83fcd8456510c5cc44bb1eb2386894a51bcbab07a8308a804b07d85d856",
145
+ "scSemiProfiler/fast_generator.py": "1e384ec831461748c095b8c2fa2d57fee1a86758c4d832e6e0926f8f6c47ad8f",
146
+ "scSemiProfiler/get_eg_representatives.py": "f63ca0d6763546bbb3d7ec849254a6d4652d6c1a4063794b9c690be86f0a124c",
147
+ "scSemiProfiler/inference.py": "88997c6bf752d6c939ef527a0c9cfcf24065076faf204d84cf64cff5f0282d39",
148
+ "scSemiProfiler/initial_setup.py": "9f97b5cd0b7222bca234b4283f16147baf48b6a9baa3407a851301f1d6da6518",
149
+ "scSemiProfiler/oldinference.py": "61f026515f6307de4823b96abfdb0352f4c06f1b4ad08cfc1909f67b6db8aa00",
150
+ "scSemiProfiler/representative_selection.py": "9dae94b83ebbe3ffff6fe2daddaf480bff4d183ab6fcdc76c844d89c1de462cf",
151
+ "scSemiProfiler/singlecell_process.py": "512e0a2dd6f613175512dcecdcad2eb045bf9267b044020a7eff0d6d8393377a",
152
+ "scSemiProfiler/utils.py": "0a864ea2f202eda428c65c69400ebc93d981ce82a39cfe773db12ec5670d74af",
153
+ "scSemiProfiler/vaegan.py": "5d8d6638616ae29b443c5c95ed4664c3cf2b8f0f040d2e502f3c9d6157615e23"
154
+ },
155
+ "previous_manifest_sha256": "229f8a7070d49972a51430ed88a2ad604d85513cfda05c1d124a4e53a4aa0636"
156
+ },
157
+ "environment": {
158
+ "torch": "2.11.0+cu130",
159
+ "scvi-tools": "1.4.1",
160
+ "scanpy": "1.11.5",
161
+ "anndata": "0.12.19",
162
+ "lightning": "2.6.6",
163
+ "numpy": "2.5.3",
164
+ "scikit-learn": "1.9.1",
165
+ "faiss-cpu": "1.12.0",
166
+ "gseapy": "1.3.0"
167
+ },
168
+ "wrapper_sha256": "330895e166241c2e0545178759a1fd340d1218890dbf99d4887bdd080ba08745",
169
+ "lean_cellgraph_sha256": "0de823e4475786fcd86c0fb83302182ffebafe00a1dad44cdcccc99938430230",
170
+ "geneset_mapped_gmt_sha256": "9c4386ac1ff666fc88301e126f1a1c6452122c6b63f311131a640bffe9c4d84b"
171
+ }
172
+ }
173
+ },
174
+ "source_manifest_sha256": {
175
+ "inputs": "554b592555bc170a39a72245a6954f366b1769eaece123eb6ded7d5ef1c05ef8",
176
+ "prepared": "fedb2c11f90961cff3b1a6495a309e5f0412d9bed004dcf512d1cd831c03ee17",
177
+ "run": "6524bc71127ca8ea3aff19f2536cee55e31f05c2c9532b5421bef32098a13c79"
178
+ },
179
+ "strict_manifest_sha256": {
180
+ "inputs": "a716a272ec09da8eea4395e076c4ee209e7e466c1606aa5783d06c81854f8a4a",
181
+ "prepared": "1ffc54369d0d4e85a839079526e9717bf18cb32833c05cb61e089e52b7669418",
182
+ "run": "23ea2c2702afecde68f98f9a4df0fbf673e26dbb5e40df759bc03bea3ffd4ad5"
183
+ },
184
+ "prepared_assets_equal": [
185
+ "geneset_scores/PIC01.npy",
186
+ "geneset_scores/Res-S136.npy",
187
+ "geneset_scores/Res-S177.npy",
188
+ "geneset_scores/Res-S77.npy",
189
+ "geneset_scores/Skin-S74.npy",
190
+ "hvgenes.npy",
191
+ "hvmask.npy",
192
+ "hvset.npy",
193
+ "processed_bulkdata.h5ad",
194
+ "sample_sc/PIC01.h5ad",
195
+ "sample_sc/Res-S136.h5ad",
196
+ "sample_sc/Res-S177.h5ad",
197
+ "sample_sc/Res-S77.h5ad",
198
+ "sample_sc/Skin-S74.h5ad",
199
+ "sids.txt"
200
+ ],
201
+ "initial_selection_status_excluded": [
202
+ "status/init_cluster_labels.txt",
203
+ "status/init_representatives.txt"
204
+ ],
205
+ "source_sample_sc_cleaned_after_training": [
206
+ "sample_sc/PIC01.h5ad",
207
+ "sample_sc/Res-S136.h5ad",
208
+ "sample_sc/Res-S177.h5ad",
209
+ "sample_sc/Res-S77.h5ad",
210
+ "sample_sc/Skin-S74.h5ad"
211
+ ],
212
+ "source_cleanup_script_sha256": "0e3914bab561a8244e5b3aff3b4ba8e0f85eee00eaf19f1085c467881a31f87e",
213
+ "model_sha256": {
214
+ "fast_reconst1_PIC01": "6b94178577ae3eb3abba9f7a66e029d0bdf47312a2b5781880a5a84de064f0a8",
215
+ "fastreconst2_PIC01": "7739dd4176704421578177dd9637dc4cbc5867fa113bb5458b35cd29431e177b",
216
+ "fast_reconst1_Res-S136": "92d4f28d63e2a1cfa03d7a983f744d347b3071e1489b6f4a703032b7e7cf59db",
217
+ "fastreconst2_Res-S136": "29200f5bef1a459e7836687169b3051c51e556e98bda676fecac574188e0f26a",
218
+ "fast_reconst1_Res-S177": "241de1eec168b6a3930114c5e4d5711891c34ba23657270e754778b29d319228",
219
+ "fastreconst2_Res-S177": "c89b8b8bbb83f4d38d177a295b8d4eab3fdbbca18ec5a9634b5e1d4b9b4c3428",
220
+ "fast_reconst1_Res-S77": "e9473ecd6bb59cd27bbe2f77b475bef468d2184c5c503c12b0db0431c181e5f8",
221
+ "fastreconst2_Res-S77": "6d8a44070ec98218627c179411c30862eb0b387a10031e28b63f104cbd653b77",
222
+ "fast_reconst1_Skin-S74": "a559d81e464ef88395ca254fe79ff68097fbe3b94072076e55c12037e2773052",
223
+ "fastreconst2_Skin-S74": "9d50af09be30955fcf2ea80d27e0828d84542e85c5ed24be5b89978b96f31d59"
224
+ },
225
+ "target_shard_sha256": {
226
+ "Abd-PS04": "8c683590603cef00ec162d7258e81ecf4cb432e23b6d5bf737f0d25d1b99beb0",
227
+ "Abd-PS05": "10107b5a8aea77d5430b5e982e95a3b1f7b13731e02af02f28a83390f0f66821",
228
+ "Abd-PS07": "72975d23e12f75fcd158e6d4c730e3729e223fcf2cbc33e0b1d72d132c50c437",
229
+ "Abd-PS19": "df09b0ace28bcd03914012f46d9a2a402a62a53e6c02f3f58a5ec2df2ddc54f3",
230
+ "Abd-PS20": "75c932d0c904e5469d94c52905f7bbcf49203a17b89ddb0e1cc1898ed1959f70",
231
+ "Abd-PS23": "202cfe92e27e9162eabb97350916bb734958a45ac5c21a774a9ddd034eb44ac1",
232
+ "Abd-PS27": "fe33783bf287d09e089394cfd0f433aca0b2413b89b5df4dc6a010a65d8043d0",
233
+ "Abd-S102": "9b1981f8afb05094ac2c4127f5a9e28a315fa92ae69eefa879456c16d22b2d57",
234
+ "Abd-S103": "b821c43e4c832ad0ac13def38e033535645b363e92f80bcba6a0c4482e8962d5",
235
+ "Abd-S120": "8b74863259fff052347e3e69975a693363031b0198c7fb075ceeb4d3e689d1f2",
236
+ "Abd-S123": "16d41e9fb21c505a019137110dd3a83f6428f4e854bed3fbbfe8fc95f5a4a47a",
237
+ "Abd-S156": "77a62d3fa994f5af1293ac9fe5f2fda644e1cdc62bfd194e62f1dbc4ffeffb87",
238
+ "Abd-S39": "8e9536f4ac1e3ed0e3c700963bf80043c23e14428e3d86939ed896d2606b13a6",
239
+ "Abd-S42": "ec07f56490d383390efede40bec27d41449ecc752861a3d7ee9bd278b6df6236",
240
+ "Abd-S47": "35cdad819085cf57b9790a5dbc5bea8ff6c0fc9b8eeacd6b621255b68a4a8ec0",
241
+ "Abd-S51": "36108fe035aaae4db7dd92b6630427b99d92a993466ce87f4cdd6b0c3fdd5f23",
242
+ "Abd-S54": "9996c31e051b434a473ffafae5119db3cedcb493f00334804772782ff2146ec3",
243
+ "Abd-S57": "6e980d86c763f68dbabd295d1c14f93447b57354a4bd166ae72625ed427ad95d",
244
+ "Abd-S66": "55c0bf4bd856eae856c25fac7e4b9808b52f022afc834a8c4d10a84f347f8e53",
245
+ "Abd-S79": "8d7db60572835f30c6bb7565e56f67d79ff61547386735578c4befc29aac56c5",
246
+ "Abd-S83": "8ed9b1fdc659d567e1230df28515a35d47cd4267d664684b048ebb81d009c07b",
247
+ "Abd-S98": "23a96fd0aee5c0baad34aa70c55883fbe4a111fe1811fd084d9ad7cbd0125f31",
248
+ "HC01": "f08a02d426d3d7a702e65a6b723e6689a491cef03f55e778475e47e1f974d4dd",
249
+ "HC05": "036319d5458ac4560222bf33a0fef4ec5a51e1b420b80074a0bf005e767ba235",
250
+ "HC07": "47d0cf4a887484e0539c90d6a28d5b121a62159968b3dc33347a469a362ea8a6",
251
+ "HC09": "a199dee1e4675f53074032ce75e38be472ba84771fa3eaff0cc8e2c03e1ade6e",
252
+ "HC12": "6d4146ed6aafa3cff67780023144ce67d8ce3a389f77ae3477fc19a5db3acfff",
253
+ "HC13": "bb4eb6d2340a76d48da049bb37f633cb72c8876386f995bf0d70bf56d91e5102",
254
+ "HC16": "8d3051bd00a7f45141611b29dd3e59c8c556fff21c8167b8da187dd33d080271",
255
+ "IC10": "5253a9d4f4df4b0162c776bdbd90e21afa8ba27f0a7db168d2d8db6365f2d5ca",
256
+ "IC15": "dc01d61fac05a88024e0f39f989c85c0504351b5f5d5c947949e1f86493972f7",
257
+ "IC16": "14e625e3568d212ecb63e21d8bdc9e40ff695c64e8a4ec837e651222b8ca38a1",
258
+ "IC19": "4c95c7c6cebb85f1f75b494819cf87d4211ae145dc5b8e2578e335eeb139c2af",
259
+ "IC22": "9626ce30365b8a2be228871706dd37583d4a0e154dbfb3ef22ddb7ba36e30345",
260
+ "IC23": "48e0e0445777aa642f62f8eb78f2fe1c921daa0871fd6aa6fbf4d6fc8547bbe9",
261
+ "PHC01": "87b095aca7b71c3c034893a687898f1a2b6e28b1b19f742415646febecbc260b",
262
+ "PHC02": "6c847c9c9dd7ab980dfc0bcaa51edc77f453774453e1ffe9e6a6a93be1b11388",
263
+ "PHC03": "85b3605f7e0508b5839dd7da4b0a86d388204300a9b0c091944eabeac50986da",
264
+ "PHC05": "728a98958b02ca161b4df5e29c2c252cb0328b114ebbf69ab18332f288006af1",
265
+ "PIC02": "d684f06872b2888c85ed6e688ce7c4866b831d80053ad9db722219c4be019cea",
266
+ "PIC04": "ff2d1de9799e2cc0fd3640b3e235c2a6e0700c73c6e5680f6ba2339e6616ff99",
267
+ "PIC05": "603ded40e273e06b36f420470bb8df27912b4cfbb6d465afdba04a819d846f04",
268
+ "Res-PS02": "8a473af09090ca412d9637974970c85d4a6188a90d042e5bf155371b5eae9b7d",
269
+ "Res-PS03": "518b6f3a628004cd08a493584b09edf8c5d946118866a5cd5e3a4c35cbc77b27",
270
+ "Res-PS12": "2a638e91682a74ff774c434d52fea743934fa307bf425332b2cb776850e1012c",
271
+ "Res-PS16": "342342490aa66986f4a4142c50d427c793e29a0aea80421f2225ff16a773a697",
272
+ "Res-PS21": "415ebf81a0ea86dbc639cab7cee5ca806b4a1f59e0e51fddf1175a2946f852e0",
273
+ "Res-PS22": "8e99a540a8f0cb88f0af960f8b60a818a67a7fa9b744890795b4d16d506ec82d",
274
+ "Res-PS25": "4cb5221b356408bd8f0b09c225fd66cbb4b4455bc1420d6eca9c5bc4a82146c4",
275
+ "Res-PS26": "95df38f059aebfbf39920c7e4ec4890d539b0f39e8cce074f18fecaa34ffb496",
276
+ "Res-S10": "2b1a2a0f9482623ea911b46ee6a915d8ed1cd1d8a0f153b1c2fbf53c91a15540",
277
+ "Res-S125": "8f4f7cd77a61ebe9ffe4c949793f6c16090b3dfa8709f350a1fc17f9c669cbe5",
278
+ "Res-S127": "0c6d57de5234d77b6cc703365832454a0cbc55ca6d7339269f3e78521cc0034d",
279
+ "Res-S139": "77a59d635b1577966d13ed7d44a0dbaef804a3928cf4ce5e630b8b1a03e9a7b1",
280
+ "Res-S146": "274a74ce168a4ebf96cd8c41a6c43db77f3d96e11bb8ffc836c8fa4bed1c8240",
281
+ "Res-S149": "da286dae8f10a44cce73289cb97d65bec036004b8f9b373a8c589a8979792f77",
282
+ "Res-S150": "93ffd35f90430b63bdcac3776e6597ad757050d57dc4e7d0c444935e8f116b39",
283
+ "Res-S164": "0490976167cdb53d3dd3c21e1df640344865cc698ca3056b12d17c48b91e177a",
284
+ "Res-S166": "a1b31f4c17857a2ebc8e3de3a14f0260b2966723508f1096966764e9b57ab055",
285
+ "Res-S174": "f2a955c3969121f65b607b0c69067800614c58706d0e9281dadc1ff194672d52",
286
+ "Res-S184": "38ba20da227bb118db3b78f778a936fe8766f077132ff9b65198733d10aa66f2",
287
+ "Res-S19": "d2ca96806503790798293a22d9dd07b4efce0a9a743714c654430596cfeb463f",
288
+ "Res-S26": "b4a3fe19d22df9306149f875894e8a78589f3b8b8d1b21e5d8bb6cb352d6905e",
289
+ "Res-S40": "840d4cf13e3d5c52f235b0d49b593f84658b43e03a94a6ccd6cfdee3eb0e8931",
290
+ "Res-S87": "3c207b7ee90a890c690339015c8d327037b5cb56df2d0e9f85525716b8d376b8",
291
+ "Skin-S140": "ce18e7787a50216bbcbaa1ba76e034ad22e13050adb19436cbcf53512732c487",
292
+ "Skin-S142": "76096885f547f1277b774fc0caf2adf96ebd42206f4f39b1bd7ef242b76b3edb",
293
+ "Skin-S152": "787f59e2f769748db0cdfb45c8cecd9af5d40633ad871a0e50c5487c008f65d0",
294
+ "Skin-S38": "42815dca5de759a3bb562376c61cdc61ef9658cc4d27a30a62c23bdd6301531e",
295
+ "Skin-S43": "e428a7fed623fe0eaae5e36c27128f87c58af3d79caff9c3fbd96a247b9407e0",
296
+ "Skin-S46": "b8a28bdb5de5a357873bd101259312a0d21c318a79b9bb7ce1f2d05580e26c49",
297
+ "Skin-S52": "7f5a6806b8457cdff16631feabf11b68512fd191dc56bf05cb246ff5ed052e75",
298
+ "Uri-S134": "b12eb37e8cdcfbaad308668950d93fb848f54d50a4311ad2dabe6b340a54d2bb",
299
+ "Uri-S147": "f38c39f17f04dbabdbd5c9a2d9abf6e35b7444e40ccff865dc5c6a476c3e7724",
300
+ "Uri-S157": "768b83b8937fea38e72002294415e1ff04d76e29de7eeb63f7f525a3e7216a43",
301
+ "Uri-S20": "aae553ee0514a1a23ee2ffccdbf89a45a44810a45d18bab9ceb1dd21edffe3cf",
302
+ "Uri-S93": "f95312496cd3f845b13de0d8d527d57deea49e21ad564bd0866ba62612928be4"
303
+ },
304
+ "scientific_equivalence": "same exact five representatives and target samples, same raw bulk condition, modeled genes, depth, cell counts after identity alignment, n-only HVG and all pretraining assets, protocol/seed and verified source model/shard/output receipts",
305
+ "provenance_limit": "legacy work was run as fewshot, not as a native strict-support run; source signature and old metadata remain unchanged",
306
+ "adopted_evidence_dir": "/home/sj_server_1/PBISC/immun-pbmc-fm/model_8_sparse_data_diffusion/plans/paper_figures_strictpairs_20261012/scsemi/ye2026_sepsis/disease/draw2/adopted_legacy",
307
+ "linked_files": 190
308
+ }
paper-releases/pbisc-diffusion/updates/20261012T130738Z-strictpairs-implementation/diffusion/dataset/server_1/model8/plans/paper_figures_strictpairs_20261012/archive/20261012T130738Z-strictpairs-implementation/snapshot/scsemi/ye2026_sepsis/disease/draw2/adopted_legacy/inputs/inputs_manifest.json ADDED
The diff for this file is too large to render. See raw diff
 
paper-releases/pbisc-diffusion/updates/20261012T130738Z-strictpairs-implementation/diffusion/dataset/server_1/model8/plans/paper_figures_strictpairs_20261012/archive/20261012T130738Z-strictpairs-implementation/snapshot/scsemi/ye2026_sepsis/disease/draw2/adopted_legacy/prepared.json ADDED
@@ -0,0 +1,24 @@
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
1
+ {
2
+ "run_signature": "5ddd3f5c4f5cefe7ad557f4b95f2ef55bec236a89974bd1f6606b8bbfb0999be",
3
+ "seconds": 37.8,
4
+ "files": {
5
+ "processed_bulkdata.h5ad": "3e4ba49560296f9724c208a8ac8561314a5e5bf6bd1d73f4cbb6726953945ee3",
6
+ "hvgenes.npy": "a7a9391c586345bd4b3256fa49f9306a83d0b0a67782f38d8e7cc45ac88bd904",
7
+ "sids.txt": "c588aba0674f666b60a23bc105e85757e794ad756a2e896aff8b448f32a70bab",
8
+ "hvset.npy": "95be9b9c62c80d316601bbe970b76868f05df4ad8e8da3009d20b1633173a0cf",
9
+ "hvmask.npy": "c9041ba160d58c351da2151f461fdb6171042966c1dbc72c32b71f39b03442a8",
10
+ "status/init_representatives.txt": "daab327c82998feb72e5120bb48b179ad868dca4403868e46ad183964ca7d440",
11
+ "status/init_cluster_labels.txt": "c858f933b4d9262429e856e0503fa8356d832b099a102e06965d56f017793af6",
12
+ "sample_sc/PIC01.h5ad": "08c75bb8adfcf0b19355ad8fa9ccd5eb430802decc40719902c5491441037b5e",
13
+ "sample_sc/Res-S136.h5ad": "0f2f46504bf0b717f5cc06a8cd7d5bf885172547ebfcbb18e2628e1190f5c058",
14
+ "sample_sc/Res-S177.h5ad": "70ade1cdea42bfafaa65ae039be44c28b38408660c545e47954e2293ed37684d",
15
+ "sample_sc/Res-S77.h5ad": "43c12cede928e6be44a6d6aeb084d0cd63ed907c832e76d6199fac54ee0e8fe1",
16
+ "sample_sc/Skin-S74.h5ad": "3c00b074c71253f9c08a7bfa148145082b38690cd648f75d9081d7773e44f3ed",
17
+ "geneset_scores/PIC01.npy": "a5e3dd8decaf71d10b400a053bd7d04d546d7be5f14471881a0a90546841897f",
18
+ "geneset_scores/Res-S136.npy": "023d11845db333b36ab6f323065d426ffaa4c8271210a08062ff3bc8c1dae5f9",
19
+ "geneset_scores/Res-S177.npy": "fee08ee984b6838d44c71528a8dfa4f7826ab6ceb9218851b6cbce8922e85e06",
20
+ "geneset_scores/Res-S77.npy": "fe935dfb80325678ab54cdfbac29224964046d9c1af9fb042e213b66a1c78eca",
21
+ "geneset_scores/Skin-S74.npy": "586b5a825d276fe3f99a7ff901660cf8ae3f1d4acaefba558a82b7acfa0ef499"
22
+ },
23
+ "genesets_gmt_sha256": "9c4386ac1ff666fc88301e126f1a1c6452122c6b63f311131a640bffe9c4d84b"
24
+ }