Tombstones are now stored inline in issues.jsonl.
Added deletions.jsonl to .gitignore to prevent re-tracking.
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Co-Authored-By: Claude Opus 4.5 <noreply@anthropic.com>
Root cause: bd doctor hydrate was re-adding migrated tombstones to the
deletions manifest because getCurrentJSONLIDs() included all issues,
including tombstones. When compared against git history, tombstones
appeared as 'deleted' and were incorrectly added to the manifest as new
deletions, corrupting the database on next sync.
Fix: Skip tombstone-status issues in getCurrentJSONLIDs() so they don't
participate in deletion detection. Tombstones represent already-recorded
deletions/migrations and shouldn't be treated as active issues.
Changes:
- cmd/bd/doctor/fix/deletions.go: Skip tombstones in getCurrentJSONLIDs()
- cmd/bd/doctor/fix/deletions_test.go: New tests for tombstone skipping
- cmd/bd/migrate_tombstones_test.go: Test that tombstones are valid
This fixes the bug where 'bd migrate-tombstones' followed by 'bd sync'
would add thousands of deletion records with author 'bd-doctor-hydrate'
Adds a new command that displays a thank you page listing all human
contributors to the beads project. Features:
- Static list of contributors (compiled into binary)
- Top 20 featured contributors displayed in columns
- Additional contributors in wrapped list
- Styled output using lipgloss (colored box, sections)
- Dynamic width based on content
- JSON output support (--json flag)
- Excludes bots and AI agents by email pattern
- Fix bd-tnsq: executeDelete now sets closed_at=NULL when creating
tombstones, satisfying the CHECK constraint that requires
closed_at IS NULL when status != 'closed'
- Fix bd-08ea: cleanup command now also prunes expired tombstones
(older than 30 days) after converting closed issues to tombstones
- Add regression test for batch deletion of closed issues
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Co-Authored-By: Claude Opus 4.5 <noreply@anthropic.com>
Fixes#543, #544, #545, #546 (no-db mode regressions)
Memory backend fixes:
- GetReadyWork now properly excludes issues with open blocks dependencies
- GetBlockedIssues now includes issues with status=blocked (even with 0 blockers)
- LoadFromIssues initializes hierarchical child counters from existing IDs
so repeated --parent creates bd-xxx.1, bd-xxx.2, etc.
JSONL path discovery:
- findJSONLPath works in no-db mode when dbPath is empty
- Honors BEADS_JSONL environment variable override
- Falls back to locating .beads directory
Based on PR #547 by @joelklabo - cherry-picked core fixes.
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Co-Authored-By: Claude <noreply@anthropic.com>
Orphaned issues (children of deleted epics):
- bd-cb64c226.1, .6, .8, .9, .10, .12, .13 (cache removal epic)
- bd-cbed9619.1, .2, .3, .4, .5 (N-way collision epic)
These were completed tasks from October 2025 that became orphans
when their parent epics were deleted.
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Co-Authored-By: Claude Opus 4.5 <noreply@anthropic.com>
When multiple polecats run bd sync simultaneously, they race to push to
the shared beads-sync branch. Previously this caused non-fast-forward
errors that blocked all polecats.
Now pushFromWorktree:
- Detects non-fast-forward errors from git push output
- On conflict: fetches remote, rebases local commits on top, retries
- Uses exponential backoff for transient failures (up to 5 retries)
- Aborts rebase cleanly if it fails to leave worktree in good state
Fixes gt-zqor.
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Co-Authored-By: Claude Opus 4.5 <noreply@anthropic.com>
Added onboard and hooks commands to the noDbCommands list so they
skip database and daemon initialization. These commands don't need
database access - they just output documentation or manage git hooks.
On Windows, if no .beads directory exists, the PersistentPreRun
would attempt database discovery (including git worktree detection)
which could hang due to git command issues.
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Co-Authored-By: Claude Opus 4.5 <noreply@anthropic.com>
Implements single-shot mode improvements for Windows and Docker scenarios:
- Add --lock-timeout global flag (default 30s, 0 = fail immediately)
- Add config file support: lock-timeout: 100ms
- Parameterize SQLite busy_timeout via NewWithTimeout() function
- In --sandbox mode: default lock-timeout to 100ms
- In --sandbox mode: skip FlushManager creation (no background goroutines)
This addresses bd.exe hanging on Windows and locking conflicts when
using beads across host + Docker containers.
Closes: bd-59er, bd-r4od, bd-dh8a
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Co-Authored-By: Claude Opus 4.5 <noreply@anthropic.com>
- Add JSONL-only mode detection in ensureStoreActive() with context-aware
error messages that suggest correct actions based on project state
- Improve error messages in main.go to detect JSONL presence and suggest
appropriate solutions (bd init, --no-db flag, or config.yaml setting)
- Update documentation to use issues.jsonl as canonical filename:
- AGENT_INSTRUCTIONS.md, README.md, resolve-beads-conflict.md
- docs/GIT_INTEGRATION.md
- Update hook template comments to clarify issues.jsonl is canonical
while maintaining backward compatibility for beads.jsonl
Fixes#534🤖 Generated with [Claude Code](https://claude.com/claude-code)
Co-Authored-By: Claude <noreply@anthropic.com>
Stealth mode was adding generic `.beads/` pattern to global gitignore,
which ignored ALL .beads/ folders across all repositories. Users who
want stealth mode in one project but open beads usage in others were
blocked.
Now uses absolute project paths instead:
- `/path/to/project/.beads/`
- `/path/to/project/.claude/settings.local.json`
This allows multiple stealth projects while other repos can use beads
openly.
🤖 Generated with [Claude Code](https://claude.com/claude-code)
Co-Authored-By: Claude Opus 4.5 <noreply@anthropic.com>
Fix daemon auto-sync delete mutation not reflected in sync branch
When deleting an issue with `bd delete <id> --force`, the daemon auto-sync now properly removes the deleted issue from the sync branch.
**Problem:** The merge logic saw fewer local issues (due to deletion) and would re-add the deleted issue.
**Solution:** Add `ForceOverwrite` option to bypass merge logic when mutations occur. Mutation-triggered exports are authoritative and should overwrite, not merge.
Reviewed-by: stevey
Add two new doctor checks for tombstone health:
1. Updated Deletions Manifest check:
- Warns when legacy deletions.jsonl has entries (suggests migration)
- Shows "Migrated to tombstones" when .migrated file exists
- Shows "Using inline tombstones" for new repos
2. New Tombstones check:
- Reports total tombstone count
- Warns about expired tombstones (older than 30 days)
- Shows tombstones expiring within 7 days
- Suggests 'bd compact' to prune expired tombstones
🤖 Generated with [Claude Code](https://claude.com/claude-code)
Co-Authored-By: Claude Opus 4.5 <noreply@anthropic.com>
Reorganize the claude-code-skill into a publishable plugin that can be
installed through the beads-marketplace. Users can now reference the
'beads' skill right after installing the marketplace.
Co-authored-by: Steve Yegge <steve.yegge@gmail.com>
* fix(daemon): check for stale startlock before waiting 5 seconds
When a previous daemon startup left behind a bd.sock.startlock file
(e.g., from a crashed process), the code was waiting 5 seconds before
checking if the lock was stale. This caused unnecessary delays on
every bd command when the daemon wasn't running.
Now checks if the PID in the startlock file is alive BEFORE waiting.
If the PID is dead or unreadable, the stale lock is cleaned up
immediately and lock acquisition is retried.
Fixes ~5s delay when startlock file exists from crashed process.
* perf: add benchmarks for large descriptions, bulk operations, and sync merge
Added three new performance benchmarks to identify bottlenecks in common operations:
1. BenchmarkLargeDescription - Tests handling of 100KB+ issue descriptions
- Measures string allocation/parsing overhead
- Result: 3.3ms/op, 874KB/op allocation
2. BenchmarkBulkCloseIssues - Tests closing 100 issues sequentially
- Measures batch write performance
- Result: 1.9s total, shows write amplification
3. BenchmarkSyncMerge - Tests JSONL merge cycle with creates/updates
- Simulates real sync operations (10 creates + 10 updates per iteration)
- Result: 29ms/op, identifies sync bottlenecks
Added BENCHMARKS.md documentation describing:
- How to run benchmarks with various options
- All available benchmark categories
- Performance targets on M2 Pro hardware
- Dataset caching strategy
- CPU profiling integration
- Optimization workflow
This completes performance testing coverage for previously unmeasured scenarios.
* docs: clarify daemon lock acquisition logic in comments
Improve comments to clarify that acquireStartLock does both:
1. Immediately check for stale locks from crashed processes (avoids 5s delay)
2. If PID is alive, properly wait for legitimate daemon startup (5s timeout)
No code changes - only clarified comment documentation for maintainability.
---------
Co-authored-by: Steve Yegge <steve.yegge@gmail.com>
The .beads/.gitignore now ignores everything by default and explicitly
whitelists tracked files. This fixes confusion about which files to
commit when using protected branches workflow.
Changes:
- Use `*` to ignore all by default, then `!file` to whitelist
- Fix config.json -> config.yaml (wrong filename in negation)
- Update doctor check to validate new patterns
- Update PROTECTED_BRANCHES.md documentation
- Simplify git add instructions to just `git add .beads/`
Fixes#473🤖 Generated with [Claude Code](https://claude.com/claude-code)
Co-Authored-By: Claude Opus 4.5 <noreply@anthropic.com>
Implements the bd reset command for GitHub issue #479:
- CLI command with flags: --hard, --force, --backup, --dry-run, --skip-init, --verbose
- Impact summary showing issues/tombstones to be deleted
- Confirmation prompt (skippable with --force)
- Colored output for better UX
- Unit tests for reset.go and git.go
- Fix: use --force flag in git rm to handle staged files
Part of epic bd-aydr.
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Co-Authored-By: Claude Opus 4.5 <noreply@anthropic.com>
- Remove Force from core ResetOptions (CLI concern)
- Clarify file locations (internal/reset/)
- Add ImpactSummary struct with open/closed counts
- Note backup dirs should be gitignored
- Add --verbose flag to CLI spec
- Clarify TDD approach for unit tests
- Add bd-aydr.9 for gitignore template update
Changed Priority from hardcoded 2 to 0 (unset) to distinguish legacy tombstones
from user-set values. IssueType remains TypeTask as empty fails validation.
🤖 Generated with [Claude Code](https://claude.com/claude-code)
Co-Authored-By: Claude Opus 4.5 <noreply@anthropic.com>
Track legacy deletions.jsonl entries converted to tombstones during import:
- Add Result.ConvertedToTombstone counter
- Add Result.ConvertedTombstoneIDs for the converted IDs
- Update test to verify the new counter
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Co-Authored-By: Claude Opus 4.5 <noreply@anthropic.com>
- Add TestIsExpiredTombstone with edge cases for merge package
- Add TestImportIssues_LegacyDeletionsConvertedToTombstones for importer
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Co-Authored-By: Claude Opus 4.5 <noreply@anthropic.com>
- Close bd-6y5 (getLocalSyncBranch tests)
- Include tombstone export logic fix (bd-81x6)
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Co-Authored-By: Claude Opus 4.5 <noreply@anthropic.com>
Both findBeadsDir() and findGitRoot() now use filepath.EvalSymlinks()
to resolve to canonical paths before comparison. This fixes the issue
where filepath.Rel() fails on macOS because /var is a symlink to
/private/var, causing path mismatches.
Fixes: TestDatabaseReinitialization failures on macOS
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Co-Authored-By: Claude Opus 4.5 <noreply@anthropic.com>
