ProtCompass_Embeddings / extract /ab_modality /embeddings /ec_classification /esm3_seqonly /meta.json
| { | |
| "encoder": "esm3_seqonly", | |
| "family": "patched", | |
| "target": "esm3_seqonly", | |
| "weights": "pretrained", | |
| "rule": "final trunk residue embeddings, sequence track only; structure track masked, no coordinates", | |
| "env": "base", | |
| "checkpoint": "esm3-sm-open-v1/data/weights/esm3_sm_open_v1.pth", | |
| "dtype": "bfloat16", | |
| "n_parameters": 1401735748, | |
| "inputs_passed": "sequence track: true residues; structure track: mask token at every position (no coordinates, so no VQ-VAE tokens and no geometric attention input); function, SASA and secondary-structure tracks at their defaults", | |
| "patch": "patched/esm3_seqonly.py (modality ablation of patched/esm3_inproc.py)", | |
| "task": "ec_classification", | |
| "date": "2026-09-25 15:58", | |
| "seconds": 742.0, | |
| "pooling": "masked mean over all residues of the chain", | |
| "manifest": "manifest/ec_classification.csv", | |
| "rows": "stage1 == 1", | |
| "structure_coverage": "every row has a structure file whose sequence equals the task sequence (see manifest/coverage.csv)", | |
| "n_per_split": { | |
| "test": 3000, | |
| "train": 6000, | |
| "valid": 1500 | |
| }, | |
| "health": { | |
| "n_rows": 10500, | |
| "dim": 1536, | |
| "nan_values": 0, | |
| "all_zero_rows": 0, | |
| "distinct_rows": 8868, | |
| "numerical_rank": 1536, | |
| "max_abs": 12116.43359375 | |
| }, | |
| "input_audit": { | |
| "rel_change_jitter_1A": 0.0, | |
| "rel_change_coord_swap": 0.0, | |
| "rel_change_seq_shuffle": 0.27526844623722635, | |
| "rel_change_rigid_motion": 0.0, | |
| "verdict": "pass" | |
| } | |
| } | |