- _deepen_shallow_repo marks packs in its finally without a git config probe that could itself raise and turn a finished unshallow into False; markers are inert in a clone without a promisor remote. - Installers warn instead of aborting the stage when a marker cannot be written, matching the Python helper. - Docs: the manual commands follow HERMES_HOME, and the missing-object backfill feeds IDs through `fetch --stdin` so a large list cannot exceed the Windows command-line limit. - Test and docstring comments describe the contract, not the incident.
514 lines
25 KiB
Python
514 lines
25 KiB
Python
"""Stale git lock-file and aborted-fetch pack-debris recovery for update/check paths.
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A killed ``git fetch`` can leave ``.git/shallow.lock`` behind (every later fetch fails with "Unable to
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create '.../shallow.lock': File exists") and ``tmp_pack_*`` files git itself never cleans up."""
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from __future__ import annotations
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import logging
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import os
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import subprocess
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import time
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from pathlib import Path
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from typing import Callable, Iterable, List, Optional
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logger = logging.getLogger(__name__)
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# Files younger than this are presumed live (a fetch may be in flight) and are never removed. Lock
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# files live for seconds and a healthy fetch completes in minutes; 10 minutes is abandoned.
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STALE_LOCK_MIN_AGE_SECONDS = 10 * 60
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STALE_TMP_PACK_MIN_AGE_SECONDS = STALE_LOCK_MIN_AGE_SECONDS
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# ``shallow.lock`` is the one observed in the wild; the others are the same class of failure
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# (interrupted git operation). Locks held by a live git process are protected by the process guard.
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LOCK_NAMES = ("shallow.lock", "index.lock", "HEAD.lock", "MERGE_HEAD.lock")
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# Temp-file prefixes git writes into .git/objects/pack during a transfer and renames away on
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# success; anything left with these names after a fetch died is garbage by definition.
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# ``.tmp-<pid>-pack*`` is the same thing from ``pack-objects`` (repack/gc) killed mid-write.
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_TMP_PACK_PREFIXES = ("tmp_pack_", "tmp_idx_", "tmp_rev_", "tmp_mtimes_", ".tmp-")
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def _git_proc_running() -> bool:
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"""True when a ``git`` process is running — the check that stops us yanking a lock a live fetch holds.
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A failed probe logs and returns False; the age floor in the sweep still applies.
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"""
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try:
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if os.name == "nt":
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proc = subprocess.run(["tasklist", "/FI", "IMAGENAME eq git.exe", "/FO", "CSV"],
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capture_output=True, text=True, encoding="utf-8", errors="replace", timeout=10)
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return "git.exe" in proc.stdout.lower()
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proc = subprocess.run(["pgrep", "-x", "git"], capture_output=True, text=True, encoding="utf-8", errors="replace",
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timeout=10)
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return proc.returncode == 0
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except Exception:
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logger.debug("git process probe failed; assuming no git running", exc_info=True)
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return False
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def _sweep_stale(directory: Path, candidates: Callable[[], Iterable[Path]], *, min_age_seconds: Optional[int],
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default_age: int, skip_msg: str, log_removed: Callable[[Path, int], None]) -> List[str]:
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"""Shared guard + age-floor sweep. Never raises; skips anything it cannot stat/unlink."""
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if not directory.is_dir():
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return []
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if _git_proc_running():
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logger.debug(skip_msg)
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return []
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cutoff = time.time() - (min_age_seconds if min_age_seconds is not None else default_age)
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removed: List[str] = []
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for entry in candidates():
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try:
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if entry.is_file() and (st := entry.stat()).st_mtime < cutoff:
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if os.name == "nt":
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# git renames its transfer temps into place read-only; Windows refuses to
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# unlink a read-only file (EACCES/13), so without clearing the write bit
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# this sweep silently removes nothing on real debris (#116384).
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try:
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os.chmod(entry, 0o666)
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except OSError:
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pass
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entry.unlink()
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removed.append(str(entry))
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log_removed(entry, st.st_size)
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except OSError as exc:
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# A cleaner that fails silently is worse than none: debug-level skips hid the
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# Windows read-only unlink failure for months while debris grew to gigabytes.
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logger.warning("Could not clear %s (skipping): %s", entry, exc)
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return removed
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def clear_stale_git_locks(repo_root: Path, *, min_age_seconds: Optional[int] = None) -> List[str]:
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"""Remove abandoned ``.git`` lock files under ``repo_root``; returns the removed paths.
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Removes only when older than the age floor AND no git process is running. Never raises: a lock we cannot
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stat/unlink is skipped (it may have been re-created between the age check and the unlink; skipping is safe).
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"""
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git_dir = Path(repo_root) / ".git"
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return _sweep_stale(
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git_dir, lambda: [git_dir / name for name in LOCK_NAMES],
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min_age_seconds=min_age_seconds, default_age=STALE_LOCK_MIN_AGE_SECONDS,
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skip_msg="git process running; skipping stale-lock sweep",
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log_removed=lambda p, _size: logger.info("Removed stale git lock %s", p),
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)
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def _pack_dir(repo_root: Path) -> Path:
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git_dir = Path(repo_root) / ".git"
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return (git_dir if git_dir.is_dir() else Path(repo_root)) / "objects" / "pack"
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def mark_unmarked_packs_promisor(repo_root: Path) -> int:
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"""Give every pack without a ``.promisor`` marker one; returns how many were marked.
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git 2.53+ ``index-pack --promisor`` hands objects that sit outside promisor packs to
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pack-objects, which BUG()s on the missing objects they lead to (#124272). Unmarked packs in a
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partial clone come from a filtered fetch that turned a full or depth-limited clone partial (the
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old packs keep no marker) and from checkouts that lost their markers. The marker only tells git
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that objects those packs link to may be fetched on demand; nothing is rewritten or deleted.
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"""
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marked = 0
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for pack in _pack_dir(repo_root).glob("pack-*.pack"):
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marker = pack.with_suffix(".promisor")
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try:
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with open(marker, "xb"):
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marked += 1
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except FileExistsError:
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pass
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except OSError as exc:
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# A read-only store must not turn a fetch failure into a traceback.
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logger.warning("Could not mark %s as a partial-clone pack: %s", pack, exc)
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if marked:
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logger.info("Marked %d pack(s) in %s as partial-clone packs", marked, repo_root)
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return marked
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def clear_stale_tmp_packs(repo_root: Path, *, min_age_seconds: Optional[int] = None) -> List[str]:
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"""Remove aborted-transfer temp pack files; same contract as clear_stale_git_locks.
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Resolves ``.git/objects/pack`` for a checkout and ``objects/pack`` for a bare repo such as
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the checkpoint store — a ``git gc`` killed by a timeout strands the same debris there."""
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pack_dir = _pack_dir(repo_root)
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def _candidates():
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try:
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return [e for e in pack_dir.iterdir() if e.name.startswith(_TMP_PACK_PREFIXES)]
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except OSError:
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return []
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return _sweep_stale(
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pack_dir, _candidates,
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min_age_seconds=min_age_seconds, default_age=STALE_TMP_PACK_MIN_AGE_SECONDS,
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skip_msg="git process running; skipping tmp-pack sweep",
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log_removed=lambda p, size: logger.info("Removed aborted-fetch pack debris %s (%d bytes)", p, size),
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)
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def _git_stdout_lines(repo_root: Path, args: List[str]) -> List[str]:
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"""Run a read-only git query in ``repo_root``; [] on any failure."""
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try:
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result = subprocess.run(
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["git", *args], cwd=str(repo_root),
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capture_output=True, text=True, encoding="utf-8", errors="replace", timeout=10,
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)
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if result.returncode != 0:
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return []
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return [line.strip() for line in result.stdout.splitlines() if line.strip()]
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except Exception:
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logger.debug("git query failed: %s", args, exc_info=True)
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return []
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def _batch_missing_parents(repo_root: Path, candidates: List[str]) -> set[str]:
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"""Return local commit objects whose parent objects are missing.
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Parents are read from the commit *header* only (lines before the first blank
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line) — a ``parent <sha>`` line inside a commit message body is prose, not
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an edge.
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"""
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if not candidates:
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return set()
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try:
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parents_by_commit = {}
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parents = set()
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request = "\n".join(candidates) + "\n"
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result = subprocess.run(
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["git", "cat-file", "--batch"],
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cwd=str(repo_root),
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input=request.encode(),
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capture_output=True,
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timeout=30,
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)
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if result.returncode != 0:
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return set()
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data = result.stdout
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cursor = 0
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for candidate in candidates:
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header_end = data.find(b"\n", cursor)
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if header_end < 0:
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return set()
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header = data[cursor:header_end].split()
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cursor = header_end + 1
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if len(header) >= 3 and header[1] == b"commit":
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size = int(header[2])
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body = data[cursor:cursor + size]
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cursor += size
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if data[cursor:cursor + 1] != b"\n":
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return set()
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cursor += 1
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commit_parents = set()
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for line in body.split(b"\n"):
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if not line: # blank line ends the commit header block
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break
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fields = line.split()
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if len(fields) >= 2 and fields[0] == b"parent":
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commit_parents.add(fields[1].decode())
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parents_by_commit[candidate] = commit_parents
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parents.update(commit_parents)
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elif len(header) < 2 or header[1] != b"missing":
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return set()
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if not parents:
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return set()
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check = subprocess.run(
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["git", "cat-file", "--batch-check"],
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cwd=str(repo_root),
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input=("\n".join(sorted(parents)) + "\n").encode(),
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capture_output=True,
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timeout=10,
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)
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if check.returncode != 0:
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return set()
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missing = {
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line.split()[0]
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for line in check.stdout.decode(errors="replace").splitlines()
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if line.endswith(" missing")
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}
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return {commit for commit, commit_parents in parents_by_commit.items() if commit_parents & missing}
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except Exception:
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logger.debug("parent-object probe failed for %s", repo_root, exc_info=True)
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return set()
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def _shallow_file_path(repo_root: Path) -> Optional[Path]:
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"""Resolve ``.git/shallow`` via git, or None when the repo has none."""
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shallow_rel = _git_stdout_lines(repo_root, ["rev-parse", "--git-path", "shallow"])
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if not shallow_rel:
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return None
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shallow_path = Path(shallow_rel[0])
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if not shallow_path.is_absolute():
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shallow_path = Path(repo_root) / shallow_rel[0]
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return shallow_path if shallow_path.is_file() else None
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class _ShallowLock:
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"""Git's own ``shallow.lock`` protocol, so a concurrent ``git fetch`` that
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writes ``.git/shallow`` between our read and our write is never clobbered:
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the fetch fails fast on the lock and we re-read before writing."""
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def __init__(self, shallow_path: Path):
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self._path = shallow_path
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self._lock_path = shallow_path.with_name(shallow_path.name + ".lock")
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def __enter__(self) -> "_ShallowLock":
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try:
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fd = os.open(self._lock_path, os.O_CREAT | os.O_EXCL | os.O_WRONLY)
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except FileExistsError:
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raise RuntimeError(f"shallow lock held: {self._lock_path}")
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except OSError as exc:
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raise RuntimeError(f"cannot create shallow lock: {exc}") from exc
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try:
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os.write(fd, b"hermes shallow maintenance\n")
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finally:
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os.close(fd)
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return self
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def __exit__(self, *exc_info) -> None:
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try:
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self._lock_path.unlink()
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except FileNotFoundError:
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pass
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def _write_shallow(shallow_path: Path, content: str, *, suffix: str) -> None:
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"""Atomically replace ``.git/shallow`` (temp file + os.replace)."""
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tmp_path = shallow_path.with_name(shallow_path.name + suffix)
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tmp_path.write_text(content, encoding="utf-8")
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os.replace(tmp_path, shallow_path)
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def repair_broken_shallow_boundaries(repo_root: Path) -> int:
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"""Re-append shallow boundaries for reflog-reachable commits whose parents
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were never fetched (#108286).
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A reflog-only commit whose graft was pruned leaves the repo unwalkable
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(``gc``/``fsck``/``fetch`` fail) and unable to self-heal: reflog expiry
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happens during ``git gc``, which is exactly what the corruption breaks.
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Only reflog-reachable commits are considered, so unrelated object loss is
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never re-labelled as shallow history. Returns the number of boundaries
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appended; never raises.
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"""
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try:
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shallow_path = _shallow_file_path(repo_root)
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if shallow_path is None:
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return 0
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# Cheap gate: repair only when the walk the corruption breaks already fails.
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probe = subprocess.run(
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["git", "rev-list", "--count", "--all", "--reflog"],
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cwd=str(repo_root), capture_output=True, timeout=10,
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)
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if probe.returncode == 0:
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return 0
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with _ShallowLock(shallow_path):
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# Keep the rollback image byte-exact, including BOM and line endings.
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original = shallow_path.read_bytes()
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existing = {line for line in original.decode("utf-8-sig").splitlines() if line}
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if not existing:
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return 0
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# Boundary candidates: commits recorded as *fetch tips* in remote-tracking
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# refs' reflogs (NOT --batch-all-objects, and not HEAD's reflog): the bug
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# class is fetched tips whose graft the prune dropped, and restricting to
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# fetch-recorded tips is what keeps unrelated object loss (a deleted parent
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# of a locally-created commit) from being re-labelled as shallow history.
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# On an already-corrupted repo a rev-list --reflog walk is exactly what
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# fails, so read the reflog hash list directly. Scope: fetch-by-SHA
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# installs (scripts/install.sh) record their tip only in HEAD's reflog
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# and are NOT candidates — new corruption of that shape is prevented by
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# the prune's reflog fail-safe instead.
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reflog = _git_stdout_lines(
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repo_root, ["reflog", "show", "--all", "--format=%H%x00%gD"])
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candidates = sorted({
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sha
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for entry in reflog
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for sha, selector in [entry.split("\x00", 1)]
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if selector.startswith("refs/remotes/")
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})
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broken = _batch_missing_parents(repo_root, candidates)
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repaired = broken - existing
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if not repaired:
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return 0
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_write_shallow(shallow_path, "\n".join(sorted(existing | repaired)) + "\n",
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suffix=".hermes-repair")
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# Self-check under the same lock hold (rev-list never takes
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# shallow.lock): the rollback cannot be defeated by lock contention.
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if not _git_stdout_lines(repo_root, ["rev-list", "--count", "--all", "--reflog"]):
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shallow_path.write_bytes(original)
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logger.debug("shallow boundary repair self-check failed; file restored")
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return 0
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logger.info("Restored %d broken shallow boundary(ies) in %s", len(repaired), repo_root)
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return len(repaired)
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except Exception:
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logger.debug("shallow boundary repair failed for %s", repo_root, exc_info=True)
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return 0
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def prune_stale_shallow_grafts(repo_root: Path) -> int:
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"""Drop ``.git/shallow`` graft lines no live ref or reflog still points at (#105951).
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Every ``git fetch --depth 1`` appends the fetched tip to ``.git/shallow`` as a new
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graft and never removes the previous one, so a long-lived shallow installer checkout
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accumulates one graft per update check (57 observed in the wild). The stale grafts
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break ``merge-base`` and push ``hermes update`` into the orphan-divergence reset path
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on every run. Keep only the boundaries that still protect referenced tips (HEAD,
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FETCH_HEAD, and every ref tip): the dropped commits are already unreachable and their
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objects are left for ``git gc``. Fetch reflogs naming a dropped graft are expired
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first — otherwise they pin it and the prune rolls back forever (#124645). Returns
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the number of graft lines removed; never raises, and restores the original file if
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the trimmed set breaks history walking (including the ``--reflog`` walk, so a graft
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a reflog-only commit still needs is never dropped, #108286).
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"""
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try:
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shallow_path = _shallow_file_path(repo_root)
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if shallow_path is None:
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return 0
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with _ShallowLock(shallow_path):
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# Decode for pruning, but retain the same capture for a lossless rollback.
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original = shallow_path.read_bytes()
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lines = [line for line in original.decode("utf-8-sig").splitlines() if line]
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if not lines:
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return 0
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keep = set(lines) & {
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*(_git_stdout_lines(repo_root, ["rev-parse", "HEAD"]) or []),
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*(_git_stdout_lines(repo_root, ["rev-parse", "--verify", "--quiet", "FETCH_HEAD"]) or []),
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*_git_stdout_lines(repo_root, ["for-each-ref", "--format=%(objectname)"]),
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}
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if len(keep) == len(lines):
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return 0
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# A dropped graft's parent was never fetched (depth-1), so a fetch reflog
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# still naming it makes the fail-safe walk below fail and rolls the prune
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# back on every run — grafts keep accumulating and the next update falls
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# into orphan divergence (#124645). Fetch-history reflogs are the only safe
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# ones to expire; reflogs users read (HEAD, local branches) keep their
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# entries, and the fail-safe still rolls the prune back for those.
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dropped = set(lines) - keep
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for ref in _git_stdout_lines(
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repo_root, ["for-each-ref", "--format=%(refname)", "refs/remotes/"]
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):
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entries = _git_stdout_lines(repo_root, ["reflog", "show", "--format=%H", ref])
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if set(entries) & dropped:
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subprocess.run(
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["git", "reflog", "expire", "--expire=now", ref],
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cwd=str(repo_root), capture_output=True, timeout=10,
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)
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_write_shallow(shallow_path, "\n".join(sorted(keep)) + "\n", suffix=".hermes-prune")
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# Fail-safe: if any reachable walk now crosses a boundary we wrongly
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# removed, put the grafts back — a growing file beats a broken repo.
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# Runs under the same lock hold (rev-list never takes shallow.lock) so
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# the rollback cannot be defeated by lock contention.
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still_walks = _git_stdout_lines(repo_root, ["rev-list", "--count", "HEAD"]) and \
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_git_stdout_lines(repo_root, ["rev-list", "--count", "--all"]) and \
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_git_stdout_lines(repo_root, ["rev-list", "--count", "--all", "--reflog"])
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if not still_walks:
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shallow_path.write_bytes(original)
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logger.debug("shallow prune self-check failed; grafts restored")
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return 0
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logger.info("Pruned %d stale shallow graft(s) in %s", len(lines) - len(keep), repo_root)
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return len(lines) - len(keep)
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except Exception:
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logger.debug("shallow graft prune failed for %s", repo_root, exc_info=True)
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return 0
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def _partial_clone_filter(repo_root: Path, **run_kwargs) -> "str | None":
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"""The checkout's own ``remote.origin.partialclonefilter``, or None for a non-partial clone."""
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result = subprocess.run(
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["git", "config", "--get", "remote.origin.promisor"],
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cwd=str(repo_root), capture_output=True, text=True,
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encoding="utf-8", errors="replace", timeout=30, **run_kwargs,
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)
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if result.returncode != 0 or result.stdout.strip().lower() != "true":
|
|
return None
|
|
configured = subprocess.run(
|
|
["git", "config", "--get", "remote.origin.partialclonefilter"],
|
|
cwd=str(repo_root), capture_output=True, text=True,
|
|
encoding="utf-8", errors="replace", timeout=30, **run_kwargs,
|
|
)
|
|
return configured.stdout.strip() or None
|
|
|
|
|
|
def heal_shallow_history(repo_root: Path, branch: str, **run_kwargs) -> bool:
|
|
"""Unshallow a stale installer checkout before the updater's bounded fetch (#123254).
|
|
|
|
From a depth-1 clone far behind ``branch``, a plain ``git fetch origin <branch>`` makes the
|
|
server send the full ancestry of every side branch merged past the shallow boundary, which
|
|
cannot finish inside the 300s network cap; the post-update unshallow never got to run. Fetch
|
|
the commit graph first (900s budget), pulling ``branch`` along so the bounded fetch that
|
|
follows is small. Returns whether the checkout was shallow; raises on fetch failure.
|
|
"""
|
|
return _shallow_file_path(repo_root) is not None and fetch_full_commit_graph(repo_root, branch, **run_kwargs)
|
|
|
|
|
|
def fetch_full_commit_graph(repo_root: Path, *extra_refspecs: str, **run_kwargs) -> bool:
|
|
"""Refresh release tags and fill shallow history before publishing identity.
|
|
|
|
A full commit graph does not imply current tags, especially after a --no-tags
|
|
clone. Fetch version tags explicitly without fetching every remote branch or
|
|
replacing existing tags. The fetch never changes the clone's mode: ``--filter`` makes git
|
|
write ``remote.origin.promisor``/``partialclonefilter``, so a full clone fetches unfiltered
|
|
(#122353) and a partial clone repeats its own filter. The one conversion is deliberate: a
|
|
depth-limited full clone whose history is really missing unshallows as ``tree:0``, because an
|
|
unfiltered ``--unshallow`` downloads the whole project history; a full clone grafted by a
|
|
``--depth`` fetch already has its history and stays full. The converted clone's existing packs
|
|
are marked as partial-clone packs, or every later fetch crashes on git 2.53+ (#124272).
|
|
Returns whether the checkout was unshallowed; fetch failures raise subprocess errors.
|
|
"""
|
|
shallow_path = _shallow_file_path(repo_root)
|
|
shallow = shallow_path is not None
|
|
fetch_filter = _partial_clone_filter(repo_root, **run_kwargs)
|
|
converts = fetch_filter is None and shallow and bool(_batch_missing_parents(
|
|
repo_root, shallow_path.read_text(encoding="utf-8-sig").split()))
|
|
if converts:
|
|
fetch_filter = "tree:0"
|
|
try:
|
|
subprocess.run(
|
|
["git", "fetch", "--quiet", *(["--unshallow"] if shallow else []),
|
|
*([f"--filter={fetch_filter}"] if fetch_filter else []),
|
|
"--no-tags", "origin", "refs/tags/v*:refs/tags/v*", *extra_refspecs],
|
|
cwd=str(repo_root), check=True, capture_output=True, text=True,
|
|
encoding="utf-8", errors="replace", timeout=900, **run_kwargs,
|
|
)
|
|
finally:
|
|
# git writes the partial-clone config before it fetches, so a failed fetch converts too.
|
|
if converts:
|
|
mark_unmarked_packs_promisor(repo_root)
|
|
return shallow
|
|
|
|
|
|
# git 2.53+ promisor fetches run index-pack --promisor, whose repack_local_links() BUG()s in
|
|
# pack-objects (should_include_obj) when an object outside the promisor packs leads to a
|
|
# promisor-missing one (#124272). The unmarked packs stay, so fetches keep dying until they are
|
|
# marked. The assertion is the fingerprint; a terminator line confirms the helper aborted. Those
|
|
# lines vary by build (POSIX "died of signal 6", Windows "could not finish pack-objects to repack
|
|
# local links", git 2.55 "fetch-pack: invalid index-pack output", #125138), so a new git wording
|
|
# needs a new terminator here.
|
|
_PACK_OBJECTS_CRASH_FINGERPRINT = "should_include_obj should only be called on existing objects"
|
|
_PACK_OBJECTS_CRASH_TERMINATORS = (
|
|
"pack-objects died of signal 6",
|
|
"could not finish pack-objects to repack local links",
|
|
"fetch-pack: invalid index-pack output",
|
|
)
|
|
|
|
|
|
def is_partial_clone_pack_objects_crash(stderr: str) -> bool:
|
|
"""True when a fetch failure is the git 2.53+ partial-clone pack-objects BUG (#124272)."""
|
|
text = stderr or ""
|
|
if _PACK_OBJECTS_CRASH_FINGERPRINT not in text:
|
|
return False
|
|
return any(terminator in text for terminator in _PACK_OBJECTS_CRASH_TERMINATORS)
|
|
|
|
|
|
def fetch_with_partial_clone_recovery(runner: Callable[..., subprocess.CompletedProcess],
|
|
git_cmd: List[str], fetch_args: List[str],
|
|
repo_root: Path) -> subprocess.CompletedProcess:
|
|
"""Run a fetch; on the pack-objects BUG, mark the unmarked packs and retry it once.
|
|
|
|
``runner(git_cmd, args) -> CompletedProcess`` and ``git_cmd + fetch_args`` is the plain
|
|
fetch argv. On the crash, ``repo_root``'s unmarked packs get a ``.promisor`` file and the
|
|
identical fetch runs once more. The retry's result is returned whatever its exit code, so the caller keeps its
|
|
normal failure handling. (A ``-c remote.origin.promisor=`` override does not help: git
|
|
registers promisor remotes additively, so the repo's own ``true`` still wins.)
|
|
"""
|
|
result = runner(git_cmd, fetch_args)
|
|
if result.returncode == 0 or not is_partial_clone_pack_objects_crash(getattr(result, "stderr", "") or ""):
|
|
return result
|
|
mark_unmarked_packs_promisor(repo_root)
|
|
logger.info("pack-objects crash on a partial clone; retrying the fetch")
|
|
return runner(git_cmd, fetch_args)
|