feat(storage): implement storage manager for centralized management and cleanup

- Added a new Storage Manager component to handle storage statistics, project cleanup, and configuration for CCW centralized storage.
- Introduced functions to calculate directory sizes, get project storage stats, and clean specific or all storage.
- Enhanced SQLiteStore with a public API for executing queries securely.
- Updated tests to utilize the new execute_query method and validate storage management functionalities.
- Improved performance by implementing connection pooling with idle timeout management in SQLiteStore.
- Added new fields (token_count, symbol_type) to the symbols table and adjusted related insertions.
- Enhanced error handling and logging for storage operations.

.claude/workflows/cli-templates/protocols/write-protocol.md

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+# Write Mode Protocol
+
+## Mode Definition
+
+**Mode**: `write` (FILE OPERATIONS) / `auto` (FULL OPERATIONS)
+**Tools**: Codex (auto), Gemini/Qwen (write)
+
+## Operation Boundaries
+
+### MODE: write
+- **READ**: All CONTEXT files and analyze content
+- **CREATE**: New files (documentation, code, configuration)
+- **MODIFY**: Existing files (update content, refactor code)
+- **DELETE**: Files when explicitly required
+
+**Restrictions**: Follow project conventions, cannot break existing functionality
+
+### MODE: auto (Codex only)
+- All `write` mode operations
+- Run tests and builds
+- Commit code incrementally
+- Full autonomous development
+
+**Constraint**: Must test every change
+
+## Execution Flow
+
+### MODE: write
+1. **Parse** all 6 fields (PURPOSE, TASK, MODE, CONTEXT, EXPECTED, RULES)
+2. **Read** CONTEXT files, find 3+ similar patterns
+3. **Plan** implementation following RULES
+4. **Execute** requested file operations
+5. **Validate** changes
+6. **Report** file changes
+
+### MODE: auto
+1. **Parse** all 6 fields
+2. **Analyze** CONTEXT files - find 3+ similar patterns
+3. **Plan** implementation following RULES
+4. **Generate** code with tests
+5. **Run** tests continuously
+6. **Commit** working code incrementally
+7. **Validate** EXPECTED deliverables
+8. **Report** results
+
+## Core Requirements
+
+**ALWAYS**:
+- Study CONTEXT files - find 3+ similar patterns before implementing
+- Apply RULES exactly
+- Test continuously (auto mode)
+- Commit incrementally (auto mode)
+- Match project style exactly
+- List all created/modified files at output beginning
+
+**NEVER**:
+- Make assumptions without code verification
+- Ignore existing patterns
+- Skip tests (auto mode)
+- Use clever tricks over boring solutions
+- Break backward compatibility
+- Exceed 3 failed attempts without stopping
+
+## Multi-Task Execution (Resume)
+
+**First subtask**: Standard execution flow
+**Subsequent subtasks** (via `resume`):
+- Recall context from previous subtasks
+- Build on previous work
+- Maintain consistency
+- Test integration
+- Report context for next subtask
+
+## Error Handling
+
+**Three-Attempt Rule**: On 3rd failure, stop and report what attempted, what failed, root cause
+
+| Error Type | Response |
+|------------|----------|
+| Syntax/Type | Review → Fix → Re-run tests |
+| Runtime | Analyze stack → Add handling → Test |
+| Test Failure | Debug → Review setup → Fix |
+| Build Failure | Check messages → Fix incrementally |
+
+---
+
+## Output Format
+
+### Format Priority
+
+**If template defines output format** → Follow template format EXACTLY
+
+**If template has no format** → Use default format below
+
+### Single Task Implementation
+
+```markdown
+# Implementation: [TASK Title]
+
+## Changes
+- Created: `path/to/file1.ext` (X lines)
+- Modified: `path/to/file2.ext` (+Y/-Z lines)
+- Deleted: `path/to/file3.ext`
+
+## Summary
+[2-3 sentence overview]
+
+## Key Decisions
+1. [Decision] - Rationale and reference to similar pattern
+2. [Decision] - path/to/reference:line
+
+## Implementation Details
+[Evidence-based description with code references]
+
+## Testing
+- Tests written: X new tests
+- Tests passing: Y/Z tests
+
+## Validation
+✅ Tests: X passing
+✅ Build: Success
+
+## Next Steps
+[Recommendations if any]
+```
+
+### Multi-Task (First Subtask)
+
+```markdown
+# Subtask 1/N: [TASK Title]
+
+## Changes
+[List of file changes]
+
+## Implementation
+[Details with code references]
+
+## Testing
+✅ Tests: X passing
+
+## Context for Next Subtask
+- Key decisions: [established patterns]
+- Files created: [paths and purposes]
+- Integration points: [where next subtask should connect]
+```
+
+### Multi-Task (Subsequent Subtasks)
+
+```markdown
+# Subtask N/M: [TASK Title]
+
+## Changes
+[List of file changes]
+
+## Integration Notes
+✅ Compatible with previous subtask
+✅ Maintains established patterns
+
+## Implementation
+[Details with code references]
+
+## Testing
+✅ Tests: X passing
+
+## Context for Next Subtask
+[If not final, provide context]
+```
+
+### Partial Completion
+
+```markdown
+# Task Status: Partially Completed
+
+## Completed
+- [What worked]
+- Files: `path/to/completed.ext`
+
+## Blocked
+- **Issue**: [What failed]
+- **Root Cause**: [Analysis]
+- **Attempted**: [Solutions tried - attempt X of 3]
+
+## Required
+[What's needed to proceed]
+
+## Recommendation
+[Suggested next steps]
+```
+
+### Code References
+
+**Format**: `path/to/file:line_number`
+**Example**: `src/auth/jwt.ts:45` - Implemented following pattern from `src/auth/session.ts:78`
+
+### Quality Checklist
+
+- [ ] All tests pass
+- [ ] Build succeeds
+- [ ] All EXPECTED deliverables met
+- [ ] Code follows existing patterns
+- [ ] File changes listed at beginning