docs: update activeContext and progress documentation for clarity and completeness

cline_docs/systemPatterns.md

@@ -1,102 +1,122 @@
 # System Patterns
 
+## System Architecture
+1. Configuration Layer Design
+   - Core configuration (init.lua)
+   - Module-based organization
+   - Plugin management system
+   - User customization layer
+
+2. Feature Organization
+   - LSP services management
+   - Completion engine integration
+   - File tree and navigation
+   - Buffer and window management
+
+3. Event System
+   - Autocommands framework
+   - Key mapping system
+   - Plugin hooks
+   - Custom events
+
+## Key Technical Decisions
+1. Plugin Management
+   - Use of lazy.nvim for plugin management
+   - Lazy-loading strategy for performance
+   - Conditional plugin loading
+   - Dependencies management
+
+2. LSP Implementation
+   - Native LSP client usage
+   - Mason.nvim for LSP server management
+   - Language-specific configurations
+   - Diagnostic system integration
+
+3. Performance Optimization
+   - Modular loading system
+   - Cache implementation
+   - Startup optimization
+   - Memory management
+
 ## Architecture Patterns
+1. Module Pattern
+   ```lua
+   -- Module structure
+   local M = {}
+   -- Configuration
+   M.setup = function(opts)
+     -- Setup logic
+   end
+   -- Module functions
+   M.function_name = function()
+     -- Implementation
+   end
+   return M
+   ```
 
-### 1. Plugin System
-- Uses `lazy.nvim` for plugin management.
-- Plugins are defined in `init.lua`.
-- Supports lazy loading via events/commands.
-- Custom plugins can be added in `lua/custom/plugins/`.
+2. Plugin Setup Pattern
+   ```lua
+   -- Plugin configuration pattern
+   {
+     "plugin/name",
+     event = "Event",
+     dependencies = {},
+     config = function()
+       require("plugin").setup({})
+     end
+   }
+   ```
 
-### 2. Configuration Structure
-```
-.
-├── init.lua                 # Main configuration file
-├── lua/
-│   ├── kickstart/          # Core functionality
-│   │   └── plugins/        # Built-in plugin configs
-│   └── custom/            # User customizations
-│       └── plugins/       # Custom plugin configs
-└── doc/                   # Documentation
-```
+3. LSP Configuration Pattern
+   ```lua
+   -- LSP server setup pattern
+   lspconfig[server].setup({
+     capabilities = capabilities,
+     on_attach = on_attach,
+     settings = {}
+   })
+   ```
 
-### 3. Key Design Patterns
+## Implementation Guidelines
+1. Code Organization
+   - One feature per file
+   - Clear module interfaces
+   - Consistent naming conventions
+   - Documentation standards
 
-#### Modular Configuration
-- Core settings in `init.lua`.
-- Plugin-specific configurations in separate files.
-- Custom configurations isolated in `lua/custom/`.
+2. Configuration Standards
+   - User-facing options
+   - Default values
+   - Type checking
+   - Validation
 
-#### Event-Driven Architecture
-- Uses Neovim's event system for plugin loading.
-- Autocommands for specific behaviors.
-- LSP events for IDE features.
+3. Error Handling
+   - Graceful degradation
+   - User feedback
+   - Debug logging
+   - Recovery mechanisms
 
-#### Layer-Based Organization
-1. **Core Settings Layer**
-   - Basic Vim options.
-   - Key mappings.
-   - Global variables.
+## System Components
+1. Core Components
+   - Plugin manager
+   - LSP client
+   - Completion engine
+   - File explorer
 
-2. **Plugin Layer**
-   - Plugin management.
-   - Plugin configurations.
-   - Plugin-specific settings.
+2. Language Support
+   - LSP servers
+   - Treesitter parsers
+   - Language tools
+   - Formatters
 
-3. **LSP Layer**
-   - Language server configurations.
-   - Completion setup.
-   - Diagnostic settings.
+3. UI Components
+   - Status line
+   - Buffer line
+   - Command line
+   - Notifications
 
-4. **UI Layer**
-   - Colorscheme.
-   - Statusline.
-   - Visual enhancements.
-
-## Technical Decisions
-
-### 1. Configuration Language
-- Lua chosen over VimScript for:
-  - Better performance.
-  - Modern syntax.
-  - Rich data structures.
-  - Better integration with Neovim.
-
-### 2. Plugin Selection
-- Minimal but powerful set of defaults.
-- Focus on maintained, actively developed plugins.
-- Preference for Lua-based plugins.
-- Built-in LSP over CoC or similar alternatives.
-
-### 3. Code Organization
-- Single `init.lua` for easy understanding.
-- Modular structure available through `kickstart-modular.nvim`.
-- Clear separation between core and user customizations.
-
-### 4. Performance Considerations
-- Lazy loading of plugins.
-- Efficient event handling.
-- Minimal startup impact.
-- Careful LSP configuration.
-
-## Key Technical Standards
-
-1. **Code Style**
-   - Consistent Lua formatting.
-   - Clear commenting.
-   - Documented configuration options.
-
-2. **Plugin Management**
-   - Versioned dependencies.
-   - Conditional loading.
-   - Clear plugin specifications.
-
-3. **Error Handling**
-   - Protected calls for plugin loading.
-   - Fallbacks for missing dependencies.
-   - Clear error messages.
-
-4. **Documentation**
-   - Inline documentation.
-   - Help files.
-   - Clear user instructions.
+4. Integration Layer
+   - Git integration
+   - Terminal
+   - Debug adapter
+   - External tools