Ra-aid

Added
- Database-backed memory system with SQLite (.ra-aid/pk.db)
- Repository pattern for memory access (KeyFactRepository, KeySnippetRepository, ResearchNoteRepository)
- Memory garbage collection with configurable thresholds
- "--wipe-project-memory" flag to reset memory
- Memory statistics in status panel
- Propagation depth control for agent_should_exit
- Fixed string parameter for ripgrep tool
- Support for Claude 3.7 Sonnet thinking tokens in expert tool

Changed
- Enhanced file logging with support for .ra-aid/logs/
- Improved CiaynAgent with better tool validation and execution
- Memory-related prompt improvements

Fixed
- Various bug fixes in tool execution
- Test improvements for memory system

Added
- Added agent_should_exit context functionality with propagation to parent contexts
- Improved agent crash detection with non-propagating crash state
- Enhanced ripgrep tool with better context support
- Improved agent context inheritance
- Added comprehensive test coverage for exit and crash handling

Fixed
- Improved chat prompt to prevent endless loop behavior with sonnet 3.7.

Added
- Added database infrastructure with models, connections, and migrations
- Added agent context system for improved context management
- Added aider-free mode with command line option to disable aider-related functionality
- Added database-related dependencies

Changed
- Improved file editing tools with enhanced functionality
- Enhanced agent implementation tools with modified return values and logic
- Improved agent tool prompts for better clarity and effectiveness
- Fixed langgraph prebuilt dependency

Fixed
- Fixed project state detection logic with added tests

Added
- Added binary file detection and filtering to prevent binary files from being added to related files
- Added python-magic dependency for improved binary file detection
- Added support for "thinking" budget parameter for Claude 3.7 Sonnet

Changed
- Updated dependencies:
- langchain-anthropic from 0.3.7 to 0.3.8
- langchain-google-genai from 2.0.10 to 2.0.11
- Improved shell command tool description to recommend keeping commands under 300 words
- Enhanced binary file filtering to include detailed reporting of skipped files
- Updated test assertions to be more flexible with parameter checking

Changed
- Improved programmer.py tool prompts for better clarity on related files visibility
- Enhanced programmer tool to remind users to call emit_related_files on any new files created
- Updated README.md to use media queries for showing different logos based on color scheme preference