feat: update README and documentation for new tools and features

- Updated README.md to reflect the addition of 3 new built-in tools, bringing the total to 37.
- Revised architecture documentation to indicate the increase in tool count.
- Enhanced backend documentation with updated line counts for various modules.
- Modified data documentation to change edit log format from JSON to JSONL.
- Updated dependencies documentation to reflect version upgrades for several crates.
- Improved prompts for auto-reviewer, division implementer, planner, tester, and quality reviewer to enforce stricter coding standards regarding linter bypasses.
- Refactored code in various modules to improve clarity and performance, including updates to error handling and tool execution logic.
- Added comprehensive tests for IPC frame serialization and deserialization.

docs/CODEMAPS/dependencies.md

@@ -7,23 +7,23 @@
 | Crate | Version | Purpose |
 |-------|---------|---------|
 | ratatui | 0.30 | TUI framework (tui-rs successor) |
-| crossterm | 0.28 | Terminal manipulation (raw mode, alt screen) |
+| crossterm | 0.29 | Terminal manipulation (raw mode, alt screen) |
 | tokio | 1 | Async runtime (daemon, OAuth loopback) |
 | reqwest | 0.12 | HTTP client (blocking + streaming, vendored native-tls) |
 | serde / serde_json | 1 | JSON serialization (state, DTOs, IPC, config) |
-| serde_yaml_ng | 0.9 | YAML frontmatter parsing (memory files) |
+| serde_yaml_ng | 0.10 | YAML frontmatter parsing (memory files) |
 | anyhow | 1 | Error handling (no custom error types) |
 | tracing / tracing-subscriber | 0.1/0.3 | Structured logging → file |
-| rusqlite | 0.32 | SQLite (bundled, for message log) |
+| rusqlite | 0.40 | SQLite (bundled, for message log) |
 | pulldown-cmark | 0.13 | Markdown → HTML (chat rendering) |
 | syntect | 5 | Syntax highlighting (code blocks in chat) |
 | sha2 | 0.10 | SHA-256 for PKCE challenge |
 | base64 | 0.22 | URL-safe base64 for PKCE |
 | libc | 0.2 | daemon PID file locking |
-| rmcp | 1.8 | MCP client (stdio + HTTP transports) |
+| rmcp | 2.2 | MCP client (stdio + HTTP transports) |
 | uuid | 1 | Session IDs, job IDs |
 | chrono | 0.4 | Timestamps (ISO 8601, millis) |
-| dirs | 5 | Platform data directories |
+| dirs | 6 | Platform data directories |
 | dom_smoothie | 0.18 | HTML → plain text (web scraping) |
 | scraper | 0.27 | HTML parsing (web scraping) |
 | ignore | 0.4 | .gitignore-aware file walking (glob tool) |