Download libs/benchmark/disk_guard.py from QPromaQ/Docking_project: direct link, hf CLI and curl.
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https://huggingface.co/datasets/QPromaQ/Docking_project/resolve/main/libs/benchmark/disk_guard.py
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8.19 kB
| from __future__ import annotations | |
| import gzip | |
| import os | |
| import shutil | |
| from dataclasses import dataclass, asdict | |
| from datetime import UTC, datetime | |
| from pathlib import Path | |
| from typing import Dict, Iterable, List | |
| import pandas as pd | |
| class DiskSnapshot: | |
| timestamp_utc: str | |
| stage: str | |
| note: str | |
| free_gb: float | |
| repo_size_gb: float | |
| projected_output_gb: float | |
| projected_free_after_gb: float | |
| class DiskCleanupAction: | |
| timestamp_utc: str | |
| action: str | |
| target: str | |
| size_before_mb: float | |
| size_after_mb: float | |
| reclaimed_mb: float | |
| status: str | |
| reason: str | |
| def _utc_now() -> str: | |
| return datetime.now(UTC).isoformat() | |
| def _is_within_repo(target: Path, repo_root: Path) -> bool: | |
| try: | |
| target.resolve().relative_to(repo_root.resolve()) | |
| return True | |
| except Exception: | |
| return False | |
| def directory_size_bytes(path: Path) -> int: | |
| total = 0 | |
| if not path.exists(): | |
| return total | |
| for entry in path.rglob("*"): | |
| if entry.is_file(): | |
| try: | |
| total += entry.stat().st_size | |
| except OSError: | |
| continue | |
| return total | |
| def system_free_bytes(path: Path) -> int: | |
| return int(shutil.disk_usage(path).free) | |
| def snapshot_disk_state(repo_root: Path, stage: str, note: str, projected_output_gb: float = 0.0) -> DiskSnapshot: | |
| free = system_free_bytes(repo_root) | |
| repo_size = directory_size_bytes(repo_root) | |
| projected_after = max(0.0, (free / (1024**3)) - float(projected_output_gb)) | |
| return DiskSnapshot( | |
| timestamp_utc=_utc_now(), | |
| stage=stage, | |
| note=note, | |
| free_gb=free / (1024**3), | |
| repo_size_gb=repo_size / (1024**3), | |
| projected_output_gb=float(projected_output_gb), | |
| projected_free_after_gb=projected_after, | |
| ) | |
| def append_disk_snapshot(csv_path: Path, snapshot: DiskSnapshot) -> None: | |
| csv_path.parent.mkdir(parents=True, exist_ok=True) | |
| row = pd.DataFrame([asdict(snapshot)]) | |
| if csv_path.exists(): | |
| old = pd.read_csv(csv_path) | |
| out = pd.concat([old, row], ignore_index=True) | |
| else: | |
| out = row | |
| out.to_csv(csv_path, index=False) | |
| def requires_cleanup(snapshot: DiskSnapshot, *, min_free_gb: float = 8.0) -> bool: | |
| return bool(snapshot.projected_free_after_gb < float(min_free_gb)) | |
| def _compress_file(path: Path) -> tuple[float, float]: | |
| before = path.stat().st_size / (1024**2) | |
| gz_path = path.with_suffix(path.suffix + ".gz") | |
| with path.open("rb") as src, gzip.open(gz_path, "wb", compresslevel=6) as dst: | |
| shutil.copyfileobj(src, dst) | |
| path.unlink(missing_ok=True) | |
| after = gz_path.stat().st_size / (1024**2) | |
| return before, after | |
| def _prune_batches(raw_root: Path, keep_first_n: int) -> tuple[float, float]: | |
| before = directory_size_bytes(raw_root) / (1024**2) | |
| batches = sorted([p for p in raw_root.iterdir() if p.is_dir()]) | |
| for batch in batches[keep_first_n:]: | |
| shutil.rmtree(batch, ignore_errors=True) | |
| after = directory_size_bytes(raw_root) / (1024**2) | |
| return before, after | |
| def run_repository_local_cleanup( | |
| repo_root: Path, | |
| *, | |
| results_dir: Path, | |
| keep_raw_batches: int = 6, | |
| ) -> List[DiskCleanupAction]: | |
| actions: List[DiskCleanupAction] = [] | |
| def record(action: str, target: Path, before: float, after: float, status: str, reason: str) -> None: | |
| actions.append( | |
| DiskCleanupAction( | |
| timestamp_utc=_utc_now(), | |
| action=action, | |
| target=str(target), | |
| size_before_mb=float(before), | |
| size_after_mb=float(after), | |
| reclaimed_mb=max(0.0, float(before - after)), | |
| status=status, | |
| reason=reason, | |
| ) | |
| ) | |
| # 1) Remove replay caches after summary tables are present. | |
| for replay in results_dir.glob("*/replay_cache"): | |
| parent = replay.parent | |
| if not _is_within_repo(replay, repo_root): | |
| record("remove_dir", replay, 0.0, 0.0, "skipped", "outside_repo_guard") | |
| continue | |
| if not (parent / "summary.json").exists(): | |
| record("remove_dir", replay, 0.0, 0.0, "skipped", "missing_summary") | |
| continue | |
| before = directory_size_bytes(replay) / (1024**2) | |
| shutil.rmtree(replay, ignore_errors=True) | |
| after = directory_size_bytes(replay) / (1024**2) if replay.exists() else 0.0 | |
| record("remove_dir", replay, before, after, "ok", "replay_cache_not_required_for_final_reports") | |
| # 2) Prune oversized raw output batches but keep representative subset. | |
| for raw_root in list(results_dir.glob("*/raw_rdock_outputs")) + list(results_dir.glob("*/predock/raw_rdock_outputs")): | |
| if not raw_root.exists() or not raw_root.is_dir(): | |
| continue | |
| if not _is_within_repo(raw_root, repo_root): | |
| record("prune_batches", raw_root, 0.0, 0.0, "skipped", "outside_repo_guard") | |
| continue | |
| before, after = _prune_batches(raw_root, keep_first_n=keep_raw_batches) | |
| record("prune_batches", raw_root, before, after, "ok", "keep_representative_raw_batches_only") | |
| # 3) Compress large logs. | |
| for log_file in results_dir.rglob("*.log"): | |
| if not log_file.exists() or not log_file.is_file(): | |
| continue | |
| if not _is_within_repo(log_file, repo_root): | |
| record("compress_log", log_file, 0.0, 0.0, "skipped", "outside_repo_guard") | |
| continue | |
| if log_file.stat().st_size < 2 * 1024 * 1024: | |
| continue | |
| before, after = _compress_file(log_file) | |
| record("compress_log", log_file, before, after, "ok", "large_log_compression") | |
| # 4) Remove stale duplicate work dirs if summaries exist. | |
| for work_dir in results_dir.glob("*/work"): | |
| parent = work_dir.parent | |
| if not (parent / "summary.json").exists(): | |
| continue | |
| if not _is_within_repo(work_dir, repo_root): | |
| record("remove_work_dir", work_dir, 0.0, 0.0, "skipped", "outside_repo_guard") | |
| continue | |
| before = directory_size_bytes(work_dir) / (1024**2) | |
| shutil.rmtree(work_dir, ignore_errors=True) | |
| record("remove_work_dir", work_dir, before, 0.0, "ok", "parsed_outputs_already_persisted") | |
| return actions | |
| def write_cleanup_actions(path: Path, actions: Iterable[DiskCleanupAction]) -> None: | |
| lines = ["# Disk Cleanup Actions", ""] | |
| actions = list(actions) | |
| if not actions: | |
| lines.append("- No cleanup actions executed.") | |
| else: | |
| for a in actions: | |
| lines.append( | |
| f"- [{a.timestamp_utc}] action={a.action} target=`{a.target}` status={a.status} " | |
| f"reclaimed_mb={a.reclaimed_mb:.2f} reason={a.reason}" | |
| ) | |
| path.parent.mkdir(parents=True, exist_ok=True) | |
| path.write_text("\n".join(lines), encoding="utf-8") | |
| def write_disk_guard_report( | |
| path: Path, | |
| snapshots: Iterable[DiskSnapshot], | |
| actions: Iterable[DiskCleanupAction], | |
| *, | |
| min_free_gb: float, | |
| ) -> None: | |
| snaps = list(snapshots) | |
| acts = list(actions) | |
| lines = [ | |
| "# Disk Guard Report", | |
| "", | |
| f"- Min free threshold (GB): `{min_free_gb}`", | |
| f"- Snapshots captured: `{len(snaps)}`", | |
| f"- Cleanup actions: `{len(acts)}`", | |
| "", | |
| "## Snapshot Timeline", | |
| ] | |
| for s in snaps: | |
| lines.append( | |
| f"- [{s.timestamp_utc}] stage={s.stage} free_gb={s.free_gb:.2f} repo_size_gb={s.repo_size_gb:.2f} " | |
| f"projected_output_gb={s.projected_output_gb:.2f} projected_free_after_gb={s.projected_free_after_gb:.2f} note={s.note}" | |
| ) | |
| lines.extend(["", "## Cleanup Summary"]) | |
| reclaimed = sum(a.reclaimed_mb for a in acts if a.status == "ok") | |
| lines.append(f"- Total reclaimed MB: `{reclaimed:.2f}`") | |
| outside_repo_violations = [a for a in acts if a.reason == "outside_repo_guard" and a.status == "ok"] | |
| lines.append(f"- Outside-repo destructive actions: `{len(outside_repo_violations)}`") | |
| path.parent.mkdir(parents=True, exist_ok=True) | |
| path.write_text("\n".join(lines), encoding="utf-8") | |