import sys, pandas as pd, pyarrow.parquet as pq, pyarrow.compute as pc, pyarrow as pa from concurrent.futures import ThreadPoolExecutor from huggingface_hub import HfFileSystem W=sys.argv[1] a=pd.read_parquet("/home/kna/.local/share/wyformer/staging/lemat_bulk_fixed/audit/changes.parquet") ids=pa.array(a[a.reason=="below_all_mlips"].immutable_id.tolist()) fs=HfFileSystem() files=sorted(f for f in fs.ls("datasets/LeMaterial/LeMat-Traj/compatible_pbe",detail=False) if f.endswith(".parquet")) cols=["immutable_id","id","relaxation_step","relaxation_number","energy","nsites","lattice_vectors","cartesian_site_positions","species_at_sites","forces","stress_tensor","last_modified"] def job(f): for att in range(4): try: p=pq.ParquetFile(fs.open(f,block_size=8<<20)) out=[] for rg in range(p.num_row_groups): t=p.read_row_group(rg,columns=["immutable_id"]) m=pc.is_in(t.column("immutable_id"),value_set=ids) if pc.any(m).as_py(): full=p.read_row_group(rg,columns=cols); out.append(full.filter(m).to_pandas()) return f,(pd.concat(out) if out else None) except Exception as e: err=e return f,err res=[] with ThreadPoolExecutor(16) as ex: for n,(f,r) in enumerate(ex.map(job,files)): if isinstance(r,Exception): print("FAIL",f,r,flush=True) elif r is not None: res.append(r); print(f.split("/")[-1], r.immutable_id.unique().tolist(), flush=True) if n%50==0: print("done",n,flush=True) df=pd.concat(res) if res else pd.DataFrame() df.to_parquet(W+"/traj_removed.parquet"); print("frames",len(df),"ids",df.immutable_id.nunique() if len(df) else 0)