"""Reference MLIP evaluator for TRIP50. Loads structures from `data/trip50.extxyz`, runs an ASE Calculator over every frame, then computes per-reaction ΔE_rxn / ΔE_fwd / ΔE_rev (kcal/mol) using the reaction definitions in `data/reactions.parquet`. Reports an MAE table against the DLPNO-CCSD(T) reference. Replace `make_calculator()` below with your MLIP. The placeholder uses `ase.calculators.emt.EMT` so the script runs CPU-only out of the box; EMT support spans only a small subset of the periodic table, so most species will fall back to NaN and the MAE table will look terrible — that is expected. The purpose of this file is to show the wiring. """ from __future__ import annotations from pathlib import Path import numpy as np import pandas as pd from ase.calculators.calculator import Calculator from ase.calculators.emt import EMT from ase.io import read EV_TO_HARTREE = 1.0 / 27.211386245988 HARTREE_TO_KCAL = 627.5094740631 DATA = Path(__file__).resolve().parent.parent / "data" def make_calculator() -> Calculator: """Replace with your MLIP's ASE Calculator.""" return EMT() def species_total_energies(extxyz_path: Path, calc: Calculator) -> dict[str, float]: """Run `calc` over every frame; return {species_id: total_energy in Hartree}.""" totals: dict[str, float] = {} for atoms in read(extxyz_path, index=":"): atoms.calc = calc try: e_ev = atoms.get_potential_energy() totals[atoms.info["species_id"]] = e_ev * EV_TO_HARTREE except Exception as exc: print(f" {atoms.info['species_id']}: {type(exc).__name__}: {exc}") totals[atoms.info["species_id"]] = float("nan") return totals def reaction_predictions(reactions: pd.DataFrame, totals: dict[str, float]) -> pd.DataFrame: """Predict ΔE_rxn, ΔE_fwd, ΔE_rev (kcal/mol) per reaction. Missing partners (unimolecular legs) contribute 0.""" def E(sid): return 0.0 if sid is None else totals.get(sid, float("nan")) out = reactions.copy() R = out.r1_species_id.map(E) + out.r2_species_id.map(E) P = out.p1_species_id.map(E) + out.p2_species_id.map(E) TS = out.ts_species_id.map(E) out["dE_rxn_kcal_pred"] = (P - R) * HARTREE_TO_KCAL out["dE_fwd_kcal_pred"] = (TS - R) * HARTREE_TO_KCAL out["dE_rev_kcal_pred"] = (TS - P) * HARTREE_TO_KCAL return out def mae(a: pd.Series, b: pd.Series) -> float: diff = (a - b).dropna() return float(diff.abs().mean()) def main() -> None: extxyz = DATA / "trip50.extxyz" reactions = pd.read_parquet(DATA / "reactions.parquet") print(f"Loading {extxyz}") calc = make_calculator() print(f"Running {type(calc).__name__} over 156 frames…") totals = species_total_energies(extxyz, calc) n_ok = sum(1 for v in totals.values() if not np.isnan(v)) print(f" ok: {n_ok}/{len(totals)}") pred = reaction_predictions(reactions, totals) print( f"\nMAE vs DLPNO-CCSD(T) (kcal/mol):\n" f" ΔE_rxn = {mae(pred.dE_rxn_kcal_pred, pred.dE_rxn_kcal_dlpno):.2f}\n" f" ΔE_fwd = {mae(pred.dE_fwd_kcal_pred, pred.dE_fwd_kcal_dlpno):.2f}\n" f" ΔE_rev = {mae(pred.dE_rev_kcal_pred, pred.dE_rev_kcal_dlpno):.2f}" ) if __name__ == "__main__": main()