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Make maxDepth configurable in bd dep tree command

Currently maxDepth is hardcoded to 50 in GetDependencyTree. Add --max-depth flag to bd dep tree command to allow users to control recursion depth. Default should remain 50 for safety, but users with very deep trees or wanting shallow views should be able to configure it.


Test plugin installation and functionality

Verify the plugin works end-to-end.

Test cases:
- Fresh installation via /plugin command
- All slash commands work correctly
- MCP server tools are accessible
- Configuration options work
- Documentation is accurate
- Works in both terminal and VS Code


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Add transaction support to storage layer for atomic multi-operation workflows

Currently each storage method (CreateIssue, UpdateIssue, etc.) starts its own transaction. This makes it impossible to perform atomic multi-step operations like collision resolution. Add support for passing *sql.Tx through the storage interface, or create transaction-aware versions of methods. This would make remapCollisions and other batch operations truly atomic.


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Write plugin documentation

Create comprehensive documentation for the plugin.

Contents:
- Installation instructions
- Available commands
- MCP tools reference
- Configuration options
- Examples and workflows
- Troubleshooting guide


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Design and implement slash commands

Create useful slash commands for beads workflow.

Proposed commands:
- /bd-ready - Show ready work
- /bd-create - Create new issue interactively
- /bd-show - Show issue details
- /bd-update - Update issue status
- /bd-close - Close issue
- /bd-workflow - Show full agent workflow guide

Each command should provide a good UX and leverage the MCP server tools.


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Create plugin metadata files

Create .claude-plugin/plugin.json and marketplace.json.

Requirements:
- Name, description, version, author
- MCP server configuration bundling
- License and repository info
- Installation instructions


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Research Claude Code plugin structure and requirements

Study the plugin format, required files, and best practices.

Tasks:
- Review official plugin documentation
- Examine example plugins if available
- Document plugin.json schema
- Understand marketplace.json requirements
- Identify slash command format


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Create Claude Code plugin for beads

Package beads as a Claude Code plugin for easy installation via /plugin command.

Context: GitHub issue #28 - https://github.com/steveyegge/beads/issues/28

Current state:
- MCP server exists in integrations/beads-mcp/
- No plugin packaging yet

Deliverables:
1. .claude-plugin/plugin.json with metadata
2. .claude-plugin/marketplace.json for distribution
3. Custom slash commands (/bd-ready, /bd-create, /bd-show, etc.)
4. Bundle MCP server configuration
5. Optional: Pre-configured hooks for auto-sync
6. Documentation for installation and usage

Benefits:
- Makes beads instantly discoverable in Claude Code ecosystem
- Single-command installation vs. manual setup
- Bundled cohesive experience
- Lowers adoption barrier significantly

References:
- https://www.anthropic.com/news/claude-code-plugins
- https://docs.claude.com/en/docs/claude-code/plugins


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Reach 1.0 release milestone

Stabilize API, finalize documentation, comprehensive testing


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Implement collision detection in import

Create collision.go with detectCollisions() function. Compare incoming JSONL issues against DB state. Distinguish between: (1) exact match (idempotent), (2) ID match but different content (collision), (3) new issue. Return list of colliding issues.


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Add --show-all-paths flag to bd dep tree

Currently bd dep tree deduplicates nodes when multiple paths exist (diamond dependencies). Add optional --show-all-paths flag to display the full graph with all paths, showing duplicates. Useful for debugging complex dependency structures and understanding all relationships.


Implement reference scoring algorithm

Count references for each colliding issue: text mentions in descriptions/notes/design fields + dependency references. Sort collisions by score ascending (fewest refs first). This minimizes total updates during renumbering.


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Implement ID remapping with reference updates

Allocate new IDs for colliding issues. Update all text field references using word-boundary regex (\bbd-10\b). Update dependency records. Build id_mapping for reporting. Handle chain dependencies properly.


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Add --resolve-collisions flag and user reporting

Add import flags: --resolve-collisions (auto-fix) and --dry-run (preview). Display clear report: collisions detected, remappings applied (old→new with scores), reference counts updated. Default behavior: fail on collision (safe).


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Write comprehensive collision resolution tests

Test cases: simple collision, multiple collisions, dependency updates, text reference updates, chain dependencies, edge cases (partial ID matches, case sensitivity, triple merges). Add to import_test.go and collision_test.go.


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Update documentation for collision resolution

Update README.md with collision resolution section. Update CLAUDE.md with new workflow. Document --resolve-collisions and --dry-run flags. Add example scenarios showing branch merge workflows.


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bd should auto-detect .beads/*.db in current directory

When bd is run without --db flag, it defaults to beads' own database instead of looking for a .beads/*.db file in the current working directory. This causes confusion when working on other projects that use beads for issue tracking (like vc).

Expected behavior: bd should search for .beads/*.db in cwd and use that if found, before falling back to default beads database.

Example: Running 'bd ready' in /Users/stevey/src/vc/vc/ should automatically find and use .beads/vc.db without requiring --db flag every time.


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Document or automate JSONL sync workflow for git collaboration

When using beads across multiple machines/environments via git, there's a workflow gap:

1. Machine A: Create issues → stored in .beads/project.db
2. Machine A: bd export -o .beads/issues.jsonl
3. Machine A: git add .beads/issues.jsonl && git commit && git push
4. Machine B: git pull
5. Machine B: ??? issues.jsonl exists but project.db is empty/stale

The missing step is: bd import --db .beads/project.db -i .beads/issues.jsonl

This needs to be either:
a) Documented clearly in workflow docs
b) Automated (e.g., git hook, or bd auto-imports if jsonl is newer than db)
c) Both

Real-world impact: User had Claude Code on GCP VM create vc issues from BOOTSTRAP.md. They were exported to issues.jsonl and committed. But on local machine, vc.db was empty until manual import was run.


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Refactor parseMarkdownFile to reduce cyclomatic complexity

The parseMarkdownFile function in cmd/bd/markdown.go has a cyclomatic complexity of 38, which exceeds the recommended threshold of 30. This makes the function harder to understand, test, and maintain.

Split the function into smaller, focused units:

1. parseMarkdownFile(filepath) - Main entry point, handles file I/O
2. parseMarkdownContent(scanner) - Core parsing logic
3. processIssueSection(issue, section, content) - Handle section finalization (current switch statement)
4. parseLabels(content) []string - Extract labels from content
5. parseDependencies(content) []string - Extract dependencies from content
6. parsePriority(content) int - Parse and validate priority

Benefits:
- Each function has a single responsibility
- Easier to test individual components
- Lower cognitive load when reading code
- Better encapsulation of parsing logic

- parseMarkdownFile complexity < 15
- New helper functions each have complexity < 10
- All existing tests still pass
- No change in functionality or behavior
- Code coverage maintained or improved


Shared dependency C


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Implement reserved database name _.db

Auto-detection now skips .beads/_.db to prevent pollution when beads dogfoods itself. This allows beads to use its own issue tracker without interfering with other projects using beads in the same directory tree. Implementation includes filtering in findDatabase(), stopping directory walk when .beads/ is found, and documentation in README.md and CLAUDE.md.


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Add test for deep hierarchy blocking (50+ levels)

Current tests verify 2-level depth (grandparent → parent → child). The depth limit is hardcoded to 50 in the recursive CTE, but we don't test edge cases near that limit.

**Test cases needed:**
1. Verify 50-level deep hierarchy works correctly
2. Verify depth limit prevents runaway recursion
3. Measure performance impact of deep hierarchies
4. Consider if 50 is the right limit (why not 100? why not 20?)

**Rationale:**
- Most hierarchies are 2-5 levels deep
- But pathological cases (malicious or accidental) could create 50+ level nesting
- Need to ensure graceful degradation, not catastrophic failure

**Implementation:**
Add TestDeepHierarchyBlocking to ready_test.go


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