File size: 3,006 Bytes
b3aabfb
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
1
2
3
4
5
6
7
8
9
10
11
12
13
14
15
16
17
18
19
20
21
22
23
24
25
26
27
28
29
30
31
32
33
34
35
36
37
38
39
40
41
42
43
44
45
46
47
48
49
50
51
52
53
54
55
56
57
58
59
60
61
62
63
64
65
66
67
68
69
70
71
72
73
74
{
  "evaluation_sequences": 4096,
  "expected_masked_residues": 140009,
  "expected_source_counts": {
    "mgnify": 1393,
    "omg_img": 1378,
    "uniref90": 1325
  },
  "historical_results": "Results measured with another sample count retain their original settings; this contract does not relabel them.",
  "masking": {
    "corruption": "replace every selected token with <mask>",
    "eligible": "canonical amino-acid tokens only",
    "minimum_targets": "one per protein when any eligible residue exists",
    "probability": 0.15,
    "rng": "PyTorch CUDA generator seeded with 20260821",
    "runtime": "PyTorch 2.13.0; fixed batch shape 4 x 512"
  },
  "protocol": "heldout-cluster-representative-mlm-v1",
  "reduction": "mean over proteins of the mean masked-token negative log-likelihood per protein",
  "sampling": {
    "batch_grouping_fixed": true,
    "crop": "random contiguous crop up to 510 residues, followed by BOS/EOS framing",
    "mixture": {
      "mgnify": 1.0,
      "omg_img": 1.0,
      "uniref90": 1.0
    },
    "source_choice": "NumPy default_rng; uniform mixture; source names sorted",
    "source_rows": "source-specific shuffled rows without replacement within this sample"
  },
  "schema_version": 1,
  "settings": {
    "batch_size": 4,
    "batches": 1024,
    "context_length": 512,
    "sampling_seed": 20260821
  },
  "validation_pool": {
    "manifest_sha256": "fe1ac0657085ab19fe6f56786006e9eb004ca66bc6c5b81dfd8e6bc3dcfda6ff",
    "repo_id": "LuminScience/LuminBench-Nano-ESMC",
    "revision": "bd38448d50d8f426d7b9bd4410b53159ea001259",
    "sources": {
      "mgnify": {
        "bytes": 578470,
        "maximum_sequence_sha256": "0000d08aea015e75fe4a484cf6f66c2d1d70d164bb0aa38389b22960983d53a2",
        "minimum_sequence_sha256": "00000003d38602453faede027bc38ed844fb4416607527c22ff799f0d67654f7",
        "path": "validation/mgnify/shard-00000.parquet",
        "records": 4096,
        "residues": 761606,
        "sha256": "d9532c1e8490059dfb7178d261b85c31fa7306cd186c0348ee6e3e6ce563fb32"
      },
      "omg_img": {
        "bytes": 724943,
        "maximum_sequence_sha256": "00010284808cc5f62cf36bdf8e9f8888f86f9ffd6964ca1a836b9dadef48a742",
        "minimum_sequence_sha256": "0000000e7eb16834d3220c994cf1aeb688780a24f5af085705774d0e94d52b7b",
        "path": "validation/omg_img/shard-00000.parquet",
        "records": 4096,
        "residues": 1027103,
        "sha256": "a32797838c3338266c62aa61112263cea4515a4a9b977035f88de9cefda08444"
      },
      "uniref90": {
        "bytes": 926829,
        "maximum_sequence_sha256": "0003b7ff4ff70e7b21ec32fae89f0792f0d4f86a489346af4877ef8fbad8126b",
        "minimum_sequence_sha256": "0000000db96f3a7c2cf445eb4fe4c632a9e047d131200e43131695c51dc2ebdd",
        "path": "validation/uniref90/shard-00000.parquet",
        "records": 4096,
        "residues": 1393942,
        "sha256": "f059d9793eb8c7fc929764a37473205d4819652d41baed0e07799bde1055a0fa"
      }
    },
    "total_sequences": 12288
  }
}