| # Feature Reconstruction | |
| This source-first release excludes precomputed embeddings, graph tensors, structural features, and packed feature caches. Reconstruct all derived features from `data/proteins.parquet` using the published PhaseFlow preprocessing workflow and documented pretrained components. Keep generated caches outside this package so the release inventory stays immutable. | |
| Bind regenerated features to both `protein_id` and `sequence_sha256`, and verify sequence length before cache reuse. The fixed files in `data/training_plan/` are training-protocol metadata, not feature caches. Validate their identity against `data/training_units.parquet` before creating multi-device batch inputs. | |
| `benchmark/` provides evaluation inputs only. Inference may require freshly generated features for benchmark sequences, but benchmark records must not enter the training or model-selection workflow. | |