File size: 2,452 Bytes
5cffa76 | 1 2 3 4 5 6 7 8 9 10 11 12 13 14 15 16 17 18 19 20 21 22 23 24 25 26 27 28 29 30 31 32 33 34 35 36 37 38 39 40 41 42 43 44 45 46 47 48 49 50 51 52 53 54 55 56 57 58 59 60 61 62 63 64 65 66 67 68 69 70 71 72 73 74 75 76 77 78 79 80 | #!/usr/bin/env python3
"""Validate AlphaGenome dataset layout, checksums, and minimal readability."""
from __future__ import annotations
import argparse
import gzip
import hashlib
from pathlib import Path
import sys
import yaml
def sha256_file(path: Path) -> str:
digest = hashlib.sha256()
with path.open("rb") as f:
for chunk in iter(lambda: f.read(1024 * 1024), b""):
digest.update(chunk)
return digest.hexdigest()
def load_manifest(path: Path) -> dict:
return yaml.safe_load(path.read_text(encoding="utf-8"))
def validate_entry(root: Path, entry: dict, check_sha256: bool) -> None:
rel_path = entry["path"]
path = root / rel_path
if not path.is_file():
raise FileNotFoundError(f"missing file: {rel_path}")
size = path.stat().st_size
if size != int(entry["size_bytes"]):
raise ValueError(f"size mismatch for {rel_path}: {size} != {entry['size_bytes']}")
expected = entry.get("sha256")
if check_sha256 and expected:
actual = sha256_file(path)
if actual != expected:
raise ValueError(f"sha256 mismatch for {rel_path}: {actual} != {expected}")
if rel_path.endswith(".gz.tfrecord"):
with gzip.open(path, "rb") as f:
if not f.read(1):
raise ValueError(f"gzip TFRecord is unreadable: {rel_path}")
def main() -> int:
parser = argparse.ArgumentParser()
parser.add_argument("--root", default=".", help="dataset package root")
parser.add_argument(
"--manifest",
default="metadata/file_manifest.yaml",
help="file manifest relative to --root",
)
parser.add_argument(
"--check-sha256",
action="store_true",
help="verify full SHA256 for every listed file",
)
args = parser.parse_args()
root = Path(args.root).resolve()
manifest = load_manifest(root / args.manifest)
entries = manifest["files"]
for entry in entries:
validate_entry(root, entry, args.check_sha256)
print("dataset_validation_ok: true")
print(f"checked_files: {len(entries)}")
print(f"total_size_bytes: {sum(int(e['size_bytes']) for e in entries)}")
print("full_sha256_checked:", bool(args.check_sha256))
return 0
if __name__ == "__main__":
try:
raise SystemExit(main())
except Exception as exc:
print(f"dataset_validation_ok: false\nerror: {exc}", file=sys.stderr)
raise SystemExit(1)
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