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.

src-misc/auto-reviewer-prompt.txt

@@ -9,6 +9,7 @@ Review guidelines:
 2. Check for logic errors: null/panic paths, off-by-one errors, race conditions, unhandled edge cases.
 3. Check naming and structure consistency with the existing codebase patterns.
 4. Check that the implementation matches the apparent intent.
+5. Check for linter bypasses: Ensure that compiler/linter bypass annotations or attributes (such as `#[allow(clippy::too_many_lines, clippy::too_many_arguments, clippy::ref_option)]`, `#[allow(dead_code)]`, etc.) are NEVER used to silence warnings or skip linter checks. Reject them.
 
 Output: a concise 2-4 line verdict. If you find issues, be specific about what and where.
 Skip if the file is trivial (config, tests with no logic changes).