scripts/01_data/download_deepstarr.py

#!/usr/bin/env python3
import argparse
from pathlib import Path

from datasets import load_dataset


def main():
    parser = argparse.ArgumentParser(description="Download DeepSTARR splits and save them as parquet files.")
    parser.add_argument("--dataset_id", default="GenerTeam/DeepSTARR-enhancer-activity")
    parser.add_argument("--output_dir", required=True)
    parser.add_argument("--splits", default="train,valid,test")
    args = parser.parse_args()

    output_dir = Path(args.output_dir)
    output_dir.mkdir(parents=True, exist_ok=True)

    dataset = load_dataset(args.dataset_id)
    for split in [item.strip() for item in args.splits.split(",") if item.strip()]:
        if split not in dataset:
            raise KeyError(f"Split {split!r} not found. Available splits: {list(dataset.keys())}")
        path = output_dir / f"{split}.parquet"
        dataset[split].to_parquet(str(path))
        print(f"Wrote {path}")


if __name__ == "__main__":
    main()