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(Claude) Run one pass at a time per cache file - #377

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@cboos cboos commented Nov 5, 2026 •

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Inside a pass, the project workers take turns through the fair write queue added in #365, so none of them gives up on a sibling. Two passes over the same cache share nothing, though. A second claude-code-log started while one is running, or a serve --watch tick while a CLI run refreshes the same archive, looks to the other pass like a tight-loop writer. SQLite's lock polling is unfair to outsiders: a writer that just committed re-acquires before a sleeper wakes. So the second pass can still lose projects to database is locked. Two overlapping passes are also the realistic way two refreshes of one project clear each other's refresh_pending, the known limit recorded on #365 (the full fix for that is #374).

What changes

  • One pass at a time per cache file. process_projects_hierarchy takes a pass lock first (claude_code_log/pass_lock.py). The lock is an exclusive transaction on a sidecar SQLite file beside the cache, <cache>.pass-lock, held for the whole pass: the WAL trim, the conversions, the search-index catch-up from (Claude) Maintain the search index after the pass, not under the write lock #375, and the checkpoint. SQLite supplies a cross-platform advisory lock and releases it with the holder's process, so a killed pass leaves nothing stale.
  • A second pass waits, then runs. After two seconds it says what it is waiting for. When the first pass releases, it usually finds the work done. CLAUDE_CODE_LOG_PASS_LOCK=<seconds> bounds the wait (PassLockTimeout, nothing converted), and =0 disables the lock. An empty value reads as unset, like every other CLAUDE_CODE_LOG_* switch.
  • The lock covers the catch-up and the checkpoint. A pass admitted during the serial index catch-up would contend with its write transactions and could re-save files while they are being indexed. Releasing after the checkpoint hands the waiting pass a current index and a reset WAL.
  • It degrades rather than fails. If the lock file can't be created, isn't a SQLite file, or can't be written by this process (a read-only BEGIN EXCLUSIVE would exclude nobody), the pass says so and runs without the lock. The lock is keyed on the resolved cache path, so a symlinked cache doesn't get a second lock.
  • Out of scope: the TUI's writes and single-file conversions stay outside the gate. They are short transactions with the ordinary busy timeout, as before.

Measured

On the 32 largest projects of a real archive (9 GB, search index present, every JSONL touched so each file is re-saved), with two passes started together, --jobs 8 each, and the same output directory:

pass 1 pass 2 both done
lock off (=0, the behaviour before this PR) 871 s, 1,678 files re-saved 873 s, 1,678 files re-saved 873 s
lock on 552 s, 2,386 files waited, then 0.2 s (all current) 553 s

With the lock off, the pair did 1.4× the work of a single pass, and the longest write call took 66 s. This run had no database is locked, so the starvation stayed a risk rather than a loss. The measurement was taken before #375 landed. The index work then ran inside the workers, so it was under the lock in both configurations.

A side effect: two concurrent passes over a fresh cache used to race the first-run schema migration (UNIQUE constraint failed: _schema_version.version, duplicate column name). With the lock off that happened in 4 of 6 attempts; with it on, 0 of 6.

Tests

test/test_pass_lock.py covers:

  • a second process waiting for the lock, and the wait being announced with the lock file's path;
  • the timeout and =0;
  • how the environment value is parsed, including the empty value;
  • re-entrancy within a process;
  • the resolved-path key;
  • the degrade cases: a read-only directory, a junk lock file, and a read-only lock file;
  • a hierarchy pass taking the lock, and two real passes over one cache running one after the other;
  • the lock still being held during the WAL trim, the index catch-up and the checkpoint, and released when the pass returns (pass_lock_held). Releasing it early, before the catch-up, makes this test fail. Each fix found in review was pinned by a test that failed first. The sqlite3.connect census in test_cache_sqlite_integrity.py classifies the lock file's connection as not the cache, and confirms it never writes a row.

🤖 Generated with Claude Code

Summary by CodeRabbit

  • New Features
    • Cache-backed processing runs now wait for other runs using the same archive to finish, including index updates and checkpointing.
    • Waiting is announced after about two seconds. Set CLAUDE_CODE_LOG_PASS_LOCK to configure the wait limit; set it to 0 to disable locking.
    • If the lock cannot be used, processing continues without it.
  • Documentation
    • Updated cache and live-update guides with details on pass locking and configuration.

cboos and others added 3 commits November 5, 2026 09:45
Inside a pass the project workers share a fair write queue, so none of
them gives up on a sibling. Two passes over the same cache share
nothing: a second `claude-code-log` started while one is running, or a
`serve --watch` tick while a CLI run refreshes the same archive, is to
the other one tight-loop writer, and SQLite's lock polling is unfair to
outsiders — a writer that just committed re-acquires before a sleeper
wakes — so the second pass can still lose projects to `database is
locked` however patient its own workers are. It is also the realistic
way two refreshes of one project overlap and clear each other's
`refresh_pending`.

`process_projects_hierarchy` now takes a pass lock first (`pass_lock.py`):
an exclusive transaction on a sidecar SQLite file beside the cache,
`<cache>.pass-lock`, held around the WAL trim, the conversions and the
checkpoint. SQLite supplies the cross-platform advisory lock and
releases it with the holder's process, so a killed pass leaves nothing
stale. A second pass waits, says what it is waiting for after two
seconds, then runs — usually to find the work done.
`CLAUDE_CODE_LOG_PASS_LOCK=<seconds>` bounds the wait (`PassLockTimeout`,
nothing converted); `=0` disables the lock. Re-entrant within a process,
which `serve`'s startup pass plus watch ticks rely on. A directory where
the lock file cannot be created is announced and the pass runs without
it. The TUI's writes and a single-file conversion stay outside the gate:
short transactions with the ordinary busy timeout, as before. The
`sqlite3.connect` census classifies the lock file's connection: not the
cache, never a row written. An empty `CLAUDE_CODE_LOG_PASS_LOCK` reads
as unset, like every other `CLAUDE_CODE_LOG_*` switch.

Measured on the 32 largest projects of a real archive (9 GB, FTS index
present, every JSONL touched so each file is re-saved), two passes
started together with `--jobs 8` each, same output directory:

- lock off (`=0`, the behaviour before this commit): each pass took
  871 s / 873 s at ~100% CPU, re-saved 1,678 files (the pair did 1.4x
  the work once), longest write call 66 s; 0 `database is locked` in
  this run, so the starvation this guards against stayed a risk here
  rather than a loss.
- lock on: the first pass ran alone in 552 s at 153% CPU (2,386 files,
  longest call 41 s, 0 failures); the second announced the wait after
  2 s and finished 0.2 s after the first released, finding every
  project current. Both were done at 553 s instead of 873 s.

Co-Authored-By: Claude Fable 5.1 <noreply@anthropic.com>
… resolved path

Review findings on the pass lock, each pinned by a test that was red first.

A lock file that is not SQLite (junk written into `<cache>.pass-lock`)
raised `DatabaseError: file is not a database` out of every pass from
then on, because the degrade path caught only OperationalError. It now
catches DatabaseError, so the pass announces the file and runs without
the lock, as it already did for a directory where the file cannot be
created.

A lock file this process cannot write (another user's, after one sudo
run on a shared archive) opened read-only, and a read-only
`BEGIN EXCLUSIVE` excludes nobody: two passes both "held" the lock, with
no warning. One write inside the transaction (`PRAGMA user_version = 1`)
now makes that surface as `attempt to write a readonly database`, which
takes the same degrade path; it is rolled back with the lock, so the
file stays empty.

The lock is keyed on the resolved cache path: a cache reached through a
symlink used to get a lock of its own beside the link, so two passes
could hold one cache.

The module docstring and dev-docs said `serve`'s startup pass plus watch
ticks rely on the re-entrancy. Nothing nests today (the startup pass
finishes before the watch thread starts), and the re-entrancy is
process-wide rather than per thread; both now say so.

The census of `sqlite3.connect` sites records the probe write.

Co-Authored-By: Claude Fable 5.1 <noreply@anthropic.com>
… the checkpoint

The docs say the lock covers the whole pass, catch-up included, but no
test did: releasing it just before the search-index catch-up left every
test green. `pass_lock_held(db_path)` says whether this process holds
the lock for a cache, and the test records it from inside
`trim_oversized_wal`, `catch_up_search_index` and `checkpoint_wal` on
one small pass, then checks the lock is gone when the pass returns.
Deterministic and in-process: no second process, no timing.

Co-Authored-By: Claude Fable 5.1 <noreply@anthropic.com>
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coderabbitai Bot commented Nov 5, 2026 •

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Explain Change →

Walkthrough

The change adds a per-cache pass lock for hierarchy conversions. It serializes passes that share a resolved cache path and holds the lock through index catch-up and checkpointing. Configuration, failure handling, tests, and documentation cover the new lock.

Changes: Cache pass serialization

Layer / File(s) Summary
Pass-lock configuration and acquisition
claude_code_log/pass_lock.py, test/test_pass_lock.py
Adds a sidecar SQLite lock with configurable waiting, timeout behavior, process-local re-entry, and unlocked fallback for SQLite database errors. Tests cover configuration, acquisition, and fallback behavior.
Hierarchy-pass lock scope
claude_code_log/converter.py, test/test_pass_lock.py, test/test_cache_sqlite_integrity.py, CONTRIBUTING.md, dev-docs/application_model.md, docs/live-updates.md
The hierarchy pass acquires the lock before its connection lease and holds it through index catch-up and checkpointing. Tests check serialization and lock lifetime. Documentation describes the lock and its configuration.

Estimated code review effort: 3 (Moderate) | ~25 minutes

Change: Bug fix

Sequence Diagram(s)

sequenceDiagram
  participant HierarchyPass
  participant PassLock
  participant SidecarSQLite
  participant CacheConnection
  participant SearchIndex
  HierarchyPass->>PassLock: acquire lock for resolved cache path
  PassLock->>SidecarSQLite: begin exclusive transaction
  HierarchyPass->>CacheConnection: open connection lease
  HierarchyPass->>SearchIndex: catch up index
  HierarchyPass->>CacheConnection: checkpoint WAL
  HierarchyPass->>PassLock: exit lock context
  PassLock->>SidecarSQLite: rollback and close connection
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Possibly related issues

Possibly related PRs

Suggested reviewers: daaain

Merge Risk: Minimal · up to 8dff1

No merge-blocking issue was identified; normal checks remain appropriate.

Pre-merge checks: Passed 4 · Failed 1

Failed Failed checks: 1 warning

Check name Status Explanation Resolution
Docstring Coverage Warning Docstring coverage is 72.73% which is insufficient. The required threshold is 80.00%. Docstring coverage is scoped to functions touched by this diff with cyclomatic complexity of at least 2. Documenta… Write docstrings for the functions missing them to satisfy the coverage threshold.
Passed Passed checks: 4 passed

Check name Status Explanation
Description Check Passed Check skipped - CodeRabbit’s high-level summary is enabled.
Title check Passed The title clearly and concisely describes the main change: serializing runs so that one pass executes at a time for each cache file.
Linked Issues check Passed Check skipped because no linked issues were found for this pull request.
Out of Scope Changes check Passed Check skipped because no linked issues were found for this pull request.
Full details: Docstring Coverage

Explanation

Docstring coverage is 72.73% which is insufficient. The required threshold is 80.00%. Docstring coverage is scoped to functions touched by this diff with cyclomatic complexity of at least 2. Documentation-only edits and deletions within surviving functions are included; unchanged diff context and fully deleted functions are excluded. Analyzed 11 functions across 4 files. (3 skipped: 3 unsupported.)

Resolution

Write docstrings for the functions missing them to satisfy the coverage threshold.

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Reviewing files that changed from the base of the PR and between 6e6c6b9 and 8dff14f.

Files selected for processing: 7

  • CONTRIBUTING.md
  • claude_code_log/converter.py
  • claude_code_log/pass_lock.py
  • dev-docs/application_model.md
  • docs/live-updates.md
  • test/test_cache_sqlite_integrity.py
  • test/test_pass_lock.py

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