{ "completion": "complete", "coverage": { "denominator": 184, "scored": 184, "unscored": 0 }, "coverage_context": { "not_selected": 0, "selected": 184, "unscored_file_scope": "selected inputs only; not_selected counted separately" }, "created_at": "2026-09-20T20:46:15.678928+00:00", "dataset_id": "flip2-rhomax-by-wild-type", "environment": { "architecture": "arm64", "container_digest": "unreported", "container_runtime": "unreported", "platform": "macOS-26.6.2-arm64-arm-64bit", "python": "3.11.13", "rewirebench": "0.4.0", "sdk_code_sha256": "fcc5ab65e6753cf29aabbdae231cbb5cdf72a3dd40ba8f109802c33223b33536", "sif_sha256": "unreported" }, "execution": { "adapter": "CompositionEmbeddings", "adapter_provenance": { "implementation": "rewire-flip2-composition-v1", "role": "local learning control; not the published one-hot baseline", "training_overlap": "No pretraining; protocol trains the regression head" }, "batch_size": 32, "fitting": "protocol_owned_probe", "inference_and_fit_seconds": 0.012007542005449068, "mode": "local_adapter", "prediction_type": "embedding" }, "independently_reproduced": false, "input_information": "Complete source sequence only; no assay labels during prediction", "kind": "rewire_local_evaluation", "metrics": { "n": 184, "ndcg": 0.954819941821582, "spearman": 0.41818225155801514 }, "model": { "name": "Amino-acid composition + fixed ridge (Rewire control)", "training_overlap": "No pretraining; fitted only on this protocol training split. 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Raw inputs, source membership, predictions and machine paths remain local. No published-score reproduction claim.", "release_wheel_sha256": "f5956f616c20f58299eef4d654b1297b0ce21e0033014cc5cb2c1a406f4b494a", "review_status": "unreviewed_local_run", "schema_version": "1.0", "scope": "full", "timing_seconds": { "evaluation": 0.010919874999672174 } }