Added IsBlocked method to Storage interface that checks if an issue is
in the blocked_issues_cache and returns the blocking issue IDs.
The close command now checks for blockers before allowing an issue to
be closed:
- If an issue has open blockers, closing is blocked with an error message
- The --force flag overrides this check
- Works in both daemon mode (RPC) and direct storage mode
- Also handles cross-rig routed IDs
This addresses the bug where agents could close a bead even when it
depends on an open bug/issue.
Closes#962
Co-Authored-By: Claude Opus 4.5 <noreply@anthropic.com>
Add types.custom config key mirroring the status.custom pattern:
- Add CustomTypeConfigKey constant and GetCustomTypes() to storage interface
- Add IssueType.IsValidWithCustom() method for validation
- Add ValidateWithCustom() to Issue for combined status/type validation
- Update all validation call sites to use GetCustomTypes()
- Rename parseCustomStatuses to parseCommaSeparated for reuse
This enables Gas Town to register custom types like agent/role/rig/convoy
without hardcoding them in beads core, supporting the type extraction epic.
🤖 Generated with [Claude Code](https://claude.com/claude-code)
Co-Authored-By: Claude Opus 4.5 <noreply@anthropic.com>
Executed-By: beads/crew/dave
Rig: beads
Role: crew
Adds closed_by_session tracking for entity CV building per Gas Town
decision 009-session-events-architecture.md.
Changes:
- Add ClosedBySession field to Issue struct
- Add closed_by_session column to issues table (migration 034)
- Add --session flag to bd close command
- Support CLAUDE_SESSION_ID env var as fallback
- Add --session flag to bd update for status=closed
- Display closed_by_session in bd show output
- Update Storage interface to include session parameter in CloseIssue
🤖 Generated with [Claude Code](https://claude.com/claude-code)
Co-Authored-By: Claude Opus 4.5 <noreply@anthropic.com>
Executed-By: beads/crew/dave
Rig: beads
Role: crew
Adds a new `bd mol progress` command that shows molecule progress using
indexed queries instead of loading all steps into memory. This makes it
suitable for mega-molecules with millions of steps.
Features:
- Efficient SQL-based counting via idx_dependencies_depends_on_type index
- Progress display: completed / total (percentage)
- Current step identification
- Rate calculation from closure timestamps
- ETA estimation
- JSON output support
New storage interface method: GetMoleculeProgress(ctx, moleculeID)
🤖 Generated with [Claude Code](https://claude.com/claude-code)
Co-Authored-By: Claude Opus 4.5 <noreply@anthropic.com>
Adds non-blocking tracks dependency type for convoy to issue relationships:
- Non-blocking: does not affect ready work calculation
- Cross-prefix capable: convoys in hq-* can track issues in gt-*, bd-*
- Reverse lookup: bd dep list <id> --direction=up -t tracks
Also adds bd dep list command with direction and type filtering for
querying dependencies/dependents.
🤖 Generated with [Claude Code](https://claude.com/claude-code)
Co-Authored-By: Claude Opus 4.5 <noreply@anthropic.com>
Analysis found these commands are dead code:
- gt never calls `bd pin` - uses `bd update --status=pinned` instead
- Beads.Pin() wrapper exists but is never called
- bd hook functionality duplicated by gt mol status
- Code comment says "pinned field is cosmetic for bd hook visibility"
Removed:
- cmd/bd/pin.go
- cmd/bd/unpin.go
- cmd/bd/hook.go
🤖 Generated with [Claude Code](https://claude.com/claude-code)
Co-Authored-By: Claude Opus 4.5 <noreply@anthropic.com>
* feat(ready,blocked): Add --parent flag for scoping by epic/bead descendants
Add --parent flag to `bd ready` and `bd blocked` CLI commands and MCP tools
to filter results to all descendants of a specific epic or bead.
## Backward Compatibility
- CLI: New optional --parent flag; existing usage unchanged
- RPC: New `blocked` operation added (was missing); existing operations unchanged
- MCP: New optional `parent` parameter; existing calls work as before
- Storage interface: GetBlockedIssues signature changed to accept WorkFilter
- All callers updated to pass empty filter for existing behavior
- Empty WorkFilter{} returns identical results to previous implementation
## Implementation Details
SQLite uses recursive CTE to traverse parent-child hierarchy:
WITH RECURSIVE descendants AS (
SELECT issue_id FROM dependencies
WHERE type = 'parent-child' AND depends_on_id = ?
UNION ALL
SELECT d.issue_id FROM dependencies d
JOIN descendants dt ON d.depends_on_id = dt.issue_id
WHERE d.type = 'parent-child'
)
SELECT issue_id FROM descendants
MemoryStorage implements equivalent recursive traversal with visited-set
cycle protection via collectDescendants helper.
Parent filter composes with existing filters (priority, labels, assignee, etc.)
as an additional WHERE clause - all filters are AND'd together.
## RPC Blocked Support
MCP beads_blocked() existed but daemon client raised NotImplementedError.
Added OpBlocked and handleBlocked to enable daemon RPC path, which was
previously broken. Now both CLI and daemon clients work for blocked queries.
## Changes
- internal/types/types.go: Add ParentID *string to WorkFilter
- internal/storage/sqlite/ready.go: Add recursive CTE for parent filtering
- internal/storage/memory/memory.go: Add getAllDescendants/collectDescendants
- internal/storage/storage.go: Update GetBlockedIssues interface signature
- cmd/bd/ready.go: Add --parent flag to ready and blocked commands
- internal/rpc/protocol.go: Add OpBlocked constant and BlockedArgs type
- internal/rpc/server_issues_epics.go: Add handleBlocked RPC handler
- internal/rpc/client.go: Add Blocked client method
- integrations/beads-mcp/: Add BlockedParams model and parent parameter
## Usage
bd ready --parent bd-abc # All ready descendants
bd ready --parent bd-abc --priority 1 # Combined with other filters
bd blocked --parent bd-abc # All blocked descendants
## Testing
Added 4 test cases for parent filtering:
- TestParentIDFilterDescendants: Verifies recursive traversal (grandchildren)
- TestParentIDWithOtherFilters: Verifies composition with priority filter
- TestParentIDWithBlockedDescendants: Verifies blocked issues excluded from ready
- TestParentIDEmptyParent: Verifies empty result for childless parent
* fix: Correct blockedCmd indentation and suppress gosec false positive
- Fix syntax error from incorrect indentation in blockedCmd Run function
- Add nolint:gosec comment for GetBlockedIssues SQL formatting (G201)
The filterSQL variable contains only parameterized WHERE clauses with
? placeholders, not user input
When closing an issue, the new --suggest-next flag returns a list of
issues that became unblocked (ready to work on) as a result of the close.
This helps agents and users quickly identify what work is now available
after completing a blocker.
Example:
$ bd close bd-5 --suggest-next
✓ Closed bd-5: Completed
Newly unblocked:
• bd-7 "Implement feature X" (P1)
• bd-8 "Write tests for X" (P2)
Implementation:
- Added GetNewlyUnblockedByClose to storage interface
- Implemented efficient single-query for SQLite using blocked_issues_cache
- Added SuggestNext field to CloseArgs in RPC protocol
- Added CloseResult type for structured response
- CLI handles both daemon and direct modes
Thanks to @kraitsura for the detailed feature request and design.
🤖 Generated with [Claude Code](https://claude.com/claude-code)
Co-Authored-By: Claude Opus 4.5 <noreply@anthropic.com>
Remove ClearDirtyIssues() which had a race condition that could lose
dirty issues if export failed partway through. All callers now use
ClearDirtyIssuesByID() which only clears specific exported issues.
- Remove from Storage interface
- Remove from SQLite and Memory implementations
- Update 6 test call sites to use ClearDirtyIssuesByID()
🤖 Generated with [Claude Code](https://claude.com/claude-code)
Co-Authored-By: Claude Opus 4.5 <noreply@anthropic.com>
Users can now define custom status states for multi-step pipelines using:
bd config set status.custom "awaiting_review,awaiting_testing,awaiting_docs"
Changes:
- Add Status.IsValidWithCustom() method for custom status validation
- Add Issue.ValidateWithCustomStatuses() method
- Add GetCustomStatuses() method to storage interface
- Update CreateIssue/UpdateIssue to support custom statuses
- Add comprehensive tests for custom status functionality
- Update config command help text with custom status documentation
🤖 Generated with [Claude Code](https://claude.com/claude-code)
Co-Authored-By: Claude <noreply@anthropic.com>
**Problem**: Export operations called GetLabels() and GetIssueComments()
in a loop for each issue, creating N+1 query pattern. For 100 issues
this created 201 queries instead of 3-5.
**Solution**:
- Added GetCommentsForIssues() batch method to storage interface
- Implemented batch method in SQLite and memory storage backends
- Updated handleExport() and triggerExport() to use batch queries
- Added comprehensive tests for batch operations
**Impact**: Query count reduced from ~201 to ~3-5 for 100 issues.
🤖 Generated with [Claude Code](https://claude.com/claude-code)
Co-Authored-By: Claude <noreply@anthropic.com>
Problem:
In direct mode, bd list was making a separate GetLabels() call for
each issue when displaying labels. With 538 issues, this resulted in
538 separate database queries.
While investigating the reported 5+ second slowness, discovered this
N+1 query issue that would impact performance with many issues.
Solution:
1. Added GetLabelsForIssues(issueIDs []string) to Storage interface
2. Implemented bulk fetch in SQLite (already existed, now exposed)
3. Implemented bulk fetch in MemoryStorage
4. Updated list.go to fetch all labels in single query
Changes:
- internal/storage/storage.go: Add GetLabelsForIssues to interface
- internal/storage/memory/memory.go: Implement GetLabelsForIssues
- cmd/bd/list.go: Use bulk fetching in all output modes
Impact:
Eliminates N queries for labels, replacing with 1 bulk query.
This optimization applies to direct mode only (daemon mode already
uses bulk operations via RPC).
Note: The reported 5s slowness was actually caused by daemon auto-start
timeout. Use --no-daemon flag or run 'bd migrate --update-repo-id' to
resolve the legacy database issue causing daemon startup failures.
🤖 Generated with [Claude Code](https://claude.com/claude-code)
Co-Authored-By: Claude <noreply@anthropic.com>
- Add GetIssueByExternalRef() query function to storage interface and implementations
- Update DetectCollisions() to prioritize external_ref matching over ID matching
- Modify upsertIssues() to handle external_ref matches in import logic
- Add index on external_ref column for performance
- Add comprehensive tests for external_ref matching in both collision detection and import
- Enables re-syncing from external systems (Jira, GitHub, Linear) without duplicates
- Preserves local issues (no external_ref) from being overwritten
When using `bd list --json`, each issue now includes:
- `dependency_count`: Number of issues this issue depends on
- `dependent_count`: Number of issues that depend on this issue
This provides quick access to dependency relationship counts without
needing to fetch full dependency lists or run multiple bd show commands.
Performance:
- Uses single bulk query (GetDependencyCounts) instead of N individual queries
- Overhead: ~26% for 500 issues (24ms vs 19ms baseline)
- Avoids N+1 query problem that would have caused 2.2x slowdown
Implementation:
- Added GetDependencyCounts() to Storage interface for bulk counting
- Efficient SQLite query using UNION ALL + GROUP BY
- Memory storage implementation for testing
- Moved IssueWithCounts to types package to avoid duplication
- Both RPC and direct modes use optimized bulk query
Tests:
- Added comprehensive tests for GetDependencyCounts
- Tests cover: normal operation, empty list, nonexistent IDs
- All existing tests continue to pass
Backwards compatible: JSON structure is additive, all original fields preserved.
Generated with [Claude Code](https://claude.com/claude-code)
Co-authored-by: Claude <noreply@anthropic.com>
- Add GetNextChildID to storage interface for generating child IDs
- Implement in SQLiteStorage with atomic counter using child_counters table
- Implement in MemoryStorage with in-memory counter
- Add --parent flag to bd create command
- Support hierarchical IDs (bd-a3f8e9.1, bd-a3f8e9.1.5) in CreateIssue
- Validate parent exists when creating hierarchical issues
- Enforce max depth of 3 levels
- Update ID validation to accept hierarchical IDs with dots
- Add comprehensive tests for child ID generation
- Manual testing confirms: sequential children, nested hierarchies, depth enforcement
## Problem
Export deduplication feature broke when JSONL and export_hashes diverged
(e.g., after git pull/reset). This caused exports to skip issues that
weren't actually in the file, leading to silent data loss.
## Solution
1. JSONL integrity validation before every export
- Store JSONL file hash after export
- Validate hash before export, clear export_hashes if mismatch
- Automatically recovers from git operations changing JSONL
2. Clear export_hashes on all imports
- Prevents stale hashes from causing future export failures
- Import operations invalidate export_hashes state
3. Add Storage interface methods:
- GetJSONLFileHash/SetJSONLFileHash for integrity tracking
- ClearAllExportHashes for recovery
## Tests Added
- TestJSONLIntegrityValidation: Unit tests for validation logic
- TestImportClearsExportHashes: Verifies imports clear hashes
- TestExportIntegrityAfterJSONLTruncation: Simulates git reset (would have caught bd-160)
- TestExportIntegrityAfterJSONLDeletion: Tests recovery from file deletion
- TestMultipleExportsStayConsistent: Tests repeated export integrity
## Follow-up
Created bd-179 epic for remaining integration test gaps (multi-repo sync,
daemon auto-sync, corruption recovery tests).
Closes bd-160
- Add reverse parameter to GetDependencyTree interface
- Implement reverse SQL traversal (dependents vs dependencies)
- Add comprehensive test for reverse mode (TDD: test-first approach)
- Update existing test calls with reverse=false for backward compatibility
Reverse mode inverts tree direction to show dependents instead of dependencies:
- Normal: JOIN dependencies d ON i.id = d.depends_on_id (traverse UP)
- Reverse: JOIN dependencies d ON i.id = d.issue_id (traverse DOWN)
All storage tests passing. No regressions.
Implements database platform layer for extensions like VC to create
their own tables in the same SQLite database.
Changes:
- Add UnderlyingDB() *sql.DB to Storage interface
- Implement in SQLiteStorage to expose underlying connection
- Add comprehensive test suite (5 tests, -race clean)
- Tests cover: basic access, extension tables, concurrency,
lifecycle safety, and transaction behavior
This allows VC to host its executor_instances and other tables
alongside beads core tables with proper FK enforcement.
Related issues: bd-57, bd-64, bd-65, bd-66
Amp-Thread-ID: https://ampcode.com/threads/T-a6715beb-fe92-4dee-b931-3c9327124875
Co-authored-by: Amp <amp@ampcode.com>
- Add ExpectedDB field to RPC Request
- Server validates client's expected DB matches daemon's DB
- Return clear error on mismatch with both paths
- Old clients (no ExpectedDB) still work with warning
- Add Path() method to storage.Storage interface
- Tests verify cross-database connections rejected
Prevents database pollution when client connects to wrong daemon.
Amp-Thread-ID: https://ampcode.com/threads/T-c4454192-39c6-4c67-96a9-675cbfc4db92
Co-authored-by: Amp <amp@ampcode.com>
Implements bd-9: Allow users to view all paths through diamond dependencies
without deduplication. Useful for debugging complex dependency structures.
Changes:
- Added --show-all-paths flag to bd dep tree command
- Updated GetDependencyTree interface to accept showAllPaths parameter
- Modified deduplication logic to be conditional on flag
- Updated tests to pass new parameter
Amp-Thread-ID: https://ampcode.com/threads/T-43807dd5-8732-49ad-a839-cdb5dae70c35
Co-authored-by: Amp <amp@ampcode.com>
- Add 'bd epic status' to show epic completion with child progress
- Add 'bd epic close-eligible' to bulk-close completed epics
- Add GetEpicsEligibleForClosure() storage method
- Update 'bd stats' to show count of epics ready to close
- Add EpicStatus type for tracking epic/child relationships
- Support --eligible-only, --dry-run, and --json flags
- Fix golangci-lint config version requirement
Addresses GitHub issue #62 - epics now have visibility and
management tools for closure when all children are complete.
Amp-Thread-ID: https://ampcode.com/threads/T-e8ac3f48-f0cf-4858-8e8f-aace2481c30d
Co-authored-by: Amp <amp@ampcode.com>
- Implement bd rename-prefix command with --dry-run and --json flags
- Add prefix validation (max 8 chars, lowercase, starts with letter)
- Update all issue IDs and text references atomically per issue
- Update dependencies, labels, events, and counters
- Fix counter merge to use MAX() to prevent ID collisions
- Update snapshot tables for FK integrity
- Add comprehensive tests for validation and rename workflow
- Document in README.md and AGENTS.md
Known limitation: Each issue updates in its own transaction.
A failure mid-way could leave mixed state. Acceptable for
intended use case (infrequent operation on small DBs).
Amp-Thread-ID: https://ampcode.com/threads/T-7e77b779-bd88-44f2-9f0b-a9f2ccd54d38
Co-authored-by: Amp <amp@ampcode.com>
- Add CreateIssues method to Storage interface
- Implement SQLiteStorage.CreateIssues with atomic ID range reservation
- Single transaction for N issues (5-10x speedup expected)
- Set timestamps before validation to match CreateIssue behavior
- All tests passing
The other agent added a metadata table for storing internal state
like import hashes. This is separate from the config table which
is for user-facing configuration.
🤖 Generated by other agent
Fix critical TOCTOU bug where concurrent operations could lose dirty
issue tracking, causing data loss in incremental exports. Also fixes
bug where export with filters would incorrectly clear all dirty issues.
The Problem:
1. GetDirtyIssues() returns [bd-1, bd-2]
2. Concurrent CRUD marks bd-3 dirty
3. Export writes bd-1, bd-2
4. ClearDirtyIssues() deletes ALL (including bd-3)
5. Result: bd-3 never gets exported!
The Fix:
- Add ClearDirtyIssuesByID() that only clears specific issue IDs
- Track which issues were actually exported
- Clear only those specific IDs, not all dirty issues
- Fixes both race condition and filter export bug
Changes:
- internal/storage/sqlite/dirty.go:
* Add ClearDirtyIssuesByID() method
* Add warning to ClearDirtyIssues() about race condition
- internal/storage/storage.go:
* Add ClearDirtyIssuesByID to interface
- cmd/bd/main.go:
* Update auto-flush to use ClearDirtyIssuesByID()
- cmd/bd/export.go:
* Track exported issue IDs
* Use ClearDirtyIssuesByID() instead of ClearDirtyIssues()
Testing:
- Created test-1, test-2, test-3 (all dirty)
- Updated test-2 to in_progress
- Exported with --status open filter (exports only test-1, test-3)
- Verified only test-2 remains dirty ✓
- All existing tests pass ✓
Impact:
- Race condition eliminated - concurrent operations are safe
- Export with filters now works correctly
- No data loss from competing writes
Closes bd-52, bd-53
🤖 Generated with [Claude Code](https://claude.com/claude-code)
Co-Authored-By: Claude <noreply@anthropic.com>
Optimize auto-flush by tracking which issues have changed instead of
exporting the entire database on every flush. For large projects with
1000+ issues, this provides significant performance improvements.
Changes:
- Add dirty_issues table to schema with issue_id and marked_at columns
- Implement dirty tracking functions in new dirty.go file:
* MarkIssueDirty() - Mark single issue as needing export
* MarkIssuesDirty() - Batch mark multiple issues efficiently
* GetDirtyIssues() - Query which issues need export
* ClearDirtyIssues() - Clear tracking after successful export
* GetDirtyIssueCount() - Monitor dirty issue count
- Update all CRUD operations to mark affected issues as dirty:
* CreateIssue, UpdateIssue, DeleteIssue
* AddDependency, RemoveDependency (marks both issues)
* AddLabel, RemoveLabel, AddEvent
- Modify export to support incremental mode:
* Add --incremental flag to export only dirty issues
* Used by auto-flush for performance
* Full export still available without flag
- Add Storage interface methods for dirty tracking
Performance impact: With incremental export, large databases only write
changed issues instead of regenerating entire JSONL file on every
auto-flush.
Closes bd-39
🤖 Generated with [Claude Code](https://claude.com/claude-code)
Co-Authored-By: Claude <noreply@anthropic.com>
Added dependency support to export/import workflow:
Changes:
- Added GetDependencyRecords() to Storage interface to get raw dependency records
- Extended Issue struct with Dependencies field (omitempty for backward compat)
- Modified export.go to populate dependencies for each issue
- Modified import.go to process dependencies in second pass after all issues exist
- All tests pass
Benefits:
- JSONL is now self-contained with full dependency information
- Enables proper collision resolution in future (bd-12+)
- Idempotent imports: existing dependencies are not duplicated
- Forward references handled: dependencies created after all issues exist
Example output:
{
"id": "bd-10",
"title": "...",
"dependencies": [{
"issue_id": "bd-10",
"depends_on_id": "bd-9",
"type": "parent-child",
"created_at": "...",
"created_by": "stevey"
}]
}
Closes bd-10
🤖 Generated with [Claude Code](https://claude.com/claude-code)
Co-Authored-By: Claude <noreply@anthropic.com>
Major improvements to code quality, documentation, and CI:
Code Quality:
- Add golangci-lint configuration with 13 linters
- Fix unchecked error returns in export/import/init
- Refactor duplicate scanIssues code
- Add package comments for all packages
- Add const block comments for exported constants
- Configure errcheck to allow idiomatic defer patterns
Documentation:
- Add comprehensive CONTRIBUTING.md with setup, testing, and workflow
- Fix QUICKSTART.md binary name references (beads → bd)
- Correct default database path documentation
CI/CD:
- Add GitHub Actions workflow for tests and linting
- Enable race detection and coverage reporting
- Automated quality checks on all PRs
All tests passing. Lint issues reduced from 117 to 103 (remaining are
idiomatic patterns and test code). Ready for open-source release.
🤖 Generated with [Claude Code](https://claude.com/claude-code)
Co-Authored-By: Claude <noreply@anthropic.com>
This is a fundamental architectural shift from binary SQLite to JSONL as
the source of truth for git workflows.
## New Features
- `bd export --format=jsonl` - Export issues to JSON Lines format
- `bd import` - Import issues from JSONL (create new, update existing)
- `--skip-existing` flag for import to only create new issues
## Architecture Change
**Before:** Binary SQLite database committed to git
**After:** JSONL text files as source of truth, SQLite as ephemeral cache
Benefits:
- Git-friendly text format with clean diffs
- AI-resolvable merge conflicts (append-only is 95% conflict-free)
- Human-readable issue tracking in git
- No binary merge conflicts
## Documentation
- Updated README with JSONL-first workflow and git hooks
- Added TEXT_FORMATS.md analyzing JSONL vs CSV vs binary
- Updated GIT_WORKFLOW.md with historical context
- .gitignore now excludes *.db, includes .beads/*.jsonl
## Implementation Details
- Export sorts issues by ID for consistent diffs
- Import handles both creates and updates atomically
- Proper handling of pointer fields (EstimatedMinutes)
- All tests passing
## Breaking Changes
- Database files (*.db) should now be gitignored
- Use export/import workflow for git collaboration
- Git hooks recommended for automation
🤖 Generated with [Claude Code](https://claude.com/claude-code)
Co-Authored-By: Claude <noreply@anthropic.com>
Core features:
- Dependency-aware issue tracking with SQLite backend
- Ready work detection (issues with no open blockers)
- Dependency tree visualization
- Cycle detection and prevention
- Full audit trail
- CLI with colored output
Security and correctness fixes applied:
- Fixed SQL injection vulnerability in UpdateIssue (whitelisted fields)
- Fixed race condition in ID generation (added mutex)
- Fixed cycle detection to return full paths (not just issue IDs)
- Added cycle prevention in AddDependency (validates before commit)
- Added comprehensive input validation (priority, status, types, etc.)
- Fixed N+1 query in GetBlockedIssues (using GROUP_CONCAT)
- Improved query building in GetReadyWork (proper string joining)
- Fixed P0 priority filter bug (using Changed() instead of value check)
All critical and major issues from code review have been addressed.
🤖 Generated with Claude Code
