Update todo

Author: tony

notes/TODO.md

@@ -25,28 +25,39 @@ This document outlines the tasks needed to improve the test coverage, type safet
   - [✅] Created model hierarchies for raw vs. validated configurations
   - [⬜] Complete conversion functions between raw and validated models
   - [⬜] Update remaining code to use Pydantic models
+  - [⬜] Add serialization methods for all models
+  - [⬜] Implement model-level validation logic
 
 - [▓▓▓░░░░░░] **Enhance Exception Hierarchy**
   - [✅] Expanded `exc.py` with specific exception types
   - [✅] Started adding rich exception metadata
   - [⬜] Complete integration with Pydantic validation errors
+  - [⬜] Add context information to exceptions for better debugging
+  - [⬜] Create decorator for standardized error handling
+  - [⬜] Add traceback formatting for improved error reporting
 
 - [▓▓▓░░░░░░] **Improve Type Definitions**
   - [✅] Started revising types to use Pydantic models
   - [✅] Created type aliases for complex types to improve readability
   - [⬜] Complete transition from TypedDict to Pydantic models
   - [⬜] Add Protocol interfaces where appropriate
+  - [⬜] Create type-safe public API interfaces
+  - [⬜] Add generic type support for collection operations
 
 - [▓▓░░░░░░░] **Type Annotation Completeness**
   - [✅] Added typing namespace imports (`import typing as t`) 
   - [⬜] Audit all functions for missing type annotations
   - [⬜] Add proper annotations to all class methods
   - [⬜] Complete return type annotations for all functions
+  - [⬜] Update docstrings to match type annotations
+  - [⬜] Add typing for CLI argument parsers
 
 - [▓▓▓▓▓░░░░] **Configure Strict Type Checking**
   - [✅] Strict mode enabled in `pyproject.toml` under `[tool.mypy]`
   - [✅] Recommended type checking flags enabled
   - [⬜] Add CI checks for type validation
+  - [⬜] Fix all existing mypy errors in strict mode
+  - [⬜] Add pre-commit hook for type checking
 
 ## 2. Test Coverage Improvements
 
@@ -56,133 +67,245 @@ This document outlines the tasks needed to improve the test coverage, type safet
   - [⬜] Test invalid configuration handling
   - [⬜] Test environment variable expansion
   - [⬜] Test relative path resolution
+  - [⬜] Add tests for configuration merging
+  - [⬜] Test platform-specific path handling
 
 - [░░░░░░░░░] **CLI Module**
   - [⬜] Update to use Pydantic models
   - [⬜] Add tests for each CLI command
   - [⬜] Test error handling and output formatting
   - [⬜] Test interactive mode behaviors
   - [⬜] Mock external dependencies for reliable testing
+  - [⬜] Test CLI argument validation
+  - [⬜] Test output formatting in different terminal environments
 
 - [░░░░░░░░░] **Sync Operations**
   - [⬜] Update to use Pydantic models
   - [⬜] Create tests for sync operations with different VCS types
   - [⬜] Mock VCS operations for predictable testing
   - [⬜] Test error handling during sync operations
   - [⬜] Test recovery mechanisms
+  - [⬜] Test concurrent sync operations
+  - [⬜] Test progress reporting during sync
+  - [⬜] Add tests for shell commands execution
 
 - [▓▓▓░░░░░░] **Validator Module**
   - [✅] Updated validator to use Pydantic models
   - [✅] Added formatting for Pydantic validation errors
   - [⬜] Complete test updates for Pydantic validators
   - [⬜] Test validation of malformed configurations
   - [⬜] Ensure all validators throw appropriate exceptions
+  - [⬜] Test validation with missing fields
+  - [⬜] Test validation with incorrect field types
+  - [⬜] Test URL validation with different protocols
 
-## 3. Test Infrastructure
-
-- [ ] **Improve Test Fixtures**
-  - [ ] Create reusable fixtures for common test scenarios
-  - [ ] Implement typed fixtures using Protocols and Pydantic models
-  - [ ] Add fixtures for different repository types (git, svn, etc.)
+- [░░░░░░░░░] **Utilities and Helpers**
+  - [⬜] Update test_utils.py to cover all utility functions
+  - [⬜] Test logging configuration and output
+  - [⬜] Test path manipulation utilities
+  - [⬜] Test shell command utilities
+  - [⬜] Add tests for internal helper functions
 
-- [ ] **Add Property-Based Testing**
-  - [ ] Implement Hypothesis test strategies for configuration generation
-  - [ ] Test config parsing with random valid and invalid inputs
-  - [ ] Add property-based tests for path handling
+## 3. Test Infrastructure
 
-- [ ] **Improve Test Organization**
-  - [ ] Organize tests by module/feature
-  - [ ] Add integration tests for end-to-end workflows
-  - [ ] Separate unit tests from integration tests
+- [▓░░░░░░░░] **Improve Test Fixtures**
+  - [✅] Started creating basic test fixtures
+  - [⬜] Create reusable fixtures for common test scenarios
+  - [⬜] Implement typed fixtures using Protocols and Pydantic models
+  - [⬜] Add fixtures for different repository types (git, svn, etc.)
+  - [⬜] Create fixtures for sample configurations
+  - [⬜] Add fixtures for mocking file system operations
+  - [⬜] Add fixtures for mocking network operations
+
+- [░░░░░░░░░] **Add Property-Based Testing**
+  - [⬜] Implement Hypothesis test strategies for configuration generation
+  - [⬜] Test config parsing with random valid and invalid inputs
+  - [⬜] Add property-based tests for path handling
+  - [⬜] Create strategies for generating repository configurations
+  - [⬜] Add property tests for model validation
+  - [⬜] Test invariants across model transformations
+
+- [▓░░░░░░░░] **Improve Test Organization**
+  - [✅] Started organizing tests by module
+  - [⬜] Organize tests by module/feature
+  - [⬜] Add integration tests for end-to-end workflows
+  - [⬜] Separate unit tests from integration tests
+  - [⬜] Add markers for slow vs. fast tests
+  - [⬜] Create test categories for CI optimization
+  - [⬜] Add parametrized tests for common validation scenarios
 
 ## 4. Documentation
 
-- [ ] **Docstring Improvements**
-  - [ ] Ensure all public functions have complete docstrings
-  - [ ] Add examples to docstrings where appropriate
-  - [ ] Document possible exceptions and error conditions
-  - [ ] Add type information to docstrings (NumPy format)
-
-- [ ] **Add Pydantic Model Documentation**
-  - [ ] Document model schemas and field constraints
-  - [ ] Add examples of model usage
-  - [ ] Document validation logic and error messages
-  - [ ] Create API documentation for Pydantic models
+- [▓░░░░░░░░] **Docstring Improvements**
+  - [✅] Started adding docstrings to new model classes
+  - [⬜] Ensure all public functions have complete docstrings
+  - [⬜] Add examples to docstrings where appropriate
+  - [⬜] Document possible exceptions and error conditions
+  - [⬜] Add type information to docstrings (NumPy format)
+  - [⬜] Add doctests for simple functions
+  - [⬜] Create a consistent docstring style guide
+
+- [▓░░░░░░░░] **Add Pydantic Model Documentation**
+  - [✅] Added basic docstrings to model classes
+  - [⬜] Document model schemas and field constraints
+  - [⬜] Add examples of model usage
+  - [⬜] Document validation logic and error messages
+  - [⬜] Create API documentation for Pydantic models
+  - [⬜] Add migration guide from dict-based to model-based API
+
+- [░░░░░░░░░] **User Documentation**
+  - [⬜] Update README with latest features
+  - [⬜] Create user guide for common operations
+  - [⬜] Document configuration file format
+  - [⬜] Create troubleshooting guide
+  - [⬜] Add examples for different use cases
+  - [⬜] Create FAQ section based on common issues
 
 ## 5. Refactoring for Testability
 
-- [ ] **Dependency Injection**
-  - [ ] Refactor code to allow for dependency injection
-  - [ ] Make external dependencies mockable
-  - [ ] Create interfaces for key components
-
-- [ ] **Pure Functions**
-  - [ ] Extract pure functions from complex methods
-  - [ ] Move side effects to dedicated functions
-  - [ ] Improve function isolation
+- [▓░░░░░░░░] **Dependency Injection**
+  - [✅] Started refactoring for better separation of concerns
+  - [⬜] Refactor code to allow for dependency injection
+  - [⬜] Make external dependencies mockable
+  - [⬜] Create interfaces for key components
+  - [⬜] Add factory functions for component creation
+  - [⬜] Implement context managers for resource cleanup
+
+- [▓░░░░░░░░] **Pure Functions**
+  - [✅] Started extracting pure functions from complex methods
+  - [⬜] Extract pure functions from complex methods
+  - [⬜] Move side effects to dedicated functions
+  - [⬜] Improve function isolation
+  - [⬜] Refactor stateful operations into immutable operations
+  - [⬜] Add functional programming patterns where appropriate
+
+- [░░░░░░░░░] **Command Pattern for Operations**
+  - [⬜] Refactor operations using command pattern
+  - [⬜] Separate command creation from execution
+  - [⬜] Add undo capabilities where feasible
+  - [⬜] Implement operation logging
+  - [⬜] Create operation history mechanism
 
 ## 6. CI Integration
 
-- [ ] **Test Automation**
-  - [ ] Configure CI to run all tests
-  - [ ] Add coverage reporting
-  - [ ] Set up test matrix for different Python versions
-  - [ ] Implement test results visualization
-
-- [ ] **Type Checking in CI**
-  - [ ] Add mypy checks to CI pipeline
-  - [ ] Add annotations coverage reporting
+- [▓░░░░░░░░] **Test Automation**
+  - [✅] Started configuring CI pipeline
+  - [⬜] Configure CI to run all tests
+  - [⬜] Add coverage reporting
+  - [⬜] Set up test matrix for different Python versions
+  - [⬜] Implement test results visualization
+  - [⬜] Configure parallel test execution
+  - [⬜] Set up notifications for test failures
+
+- [▓░░░░░░░░] **Type Checking in CI**
+  - [✅] Initial mypy configuration added
+  - [⬜] Add mypy checks to CI pipeline
+  - [⬜] Add annotations coverage reporting
+  - [⬜] Set up type checking for multiple Python versions
+  - [⬜] Add pre-commit hook for type checking
+  - [⬜] Configure code quality metrics reporting
+
+- [░░░░░░░░░] **Documentation Build**
+  - [⬜] Configure automatic documentation building
+  - [⬜] Set up documentation testing
+  - [⬜] Add documentation coverage reporting
+  - [⬜] Configure automatic deployment of documentation
+  - [⬜] Set up link validation for documentation
+
+## 7. Performance Optimization
+
+- [░░░░░░░░░] **Profiling and Benchmarking**
+  - [⬜] Create benchmark suite for core operations
+  - [⬜] Add profiling tools and scripts
+  - [⬜] Establish performance baselines
+  - [⬜] Identify performance bottlenecks
+  - [⬜] Add performance regression tests to CI
+
+- [░░░░░░░░░] **Optimization Targets**
+  - [⬜] Optimize configuration loading
+  - [⬜] Improve VCS operation performance
+  - [⬜] Optimize path handling and resolution
+  - [⬜] Add caching for expensive operations
+  - [⬜] Implement parallel execution where appropriate
+
+## 8. Security Improvements
+
+- [░░░░░░░░░] **Input Validation**
+  - [⬜] Audit all user inputs for proper validation
+  - [⬜] Sanitize all external inputs
+  - [⬜] Implement allowlisting for critical operations
+  - [⬜] Add strict schema validation for all inputs
+
+- [░░░░░░░░░] **Credential Handling**
+  - [⬜] Audit credential handling
+  - [⬜] Implement secure credential storage
+  - [⬜] Add credential rotation support
+  - [⬜] Implement secure logging (no credentials in logs)
 
 ## Prioritized Tasks
 
-1. **Immediate Priorities**
-   - [ ] Implement base Pydantic models for configuration
-   - [ ] Integrate Pydantic validation with existing validation logic
-   - [ ] Configure strict type checking
-   - [ ] Update validator tests to work with Pydantic models
+1. **Immediate Priorities (Next 2 Weeks)**
+   - [ ] Complete Pydantic model implementation and conversion functions
+   - [ ] Update validator module tests to work with Pydantic models
+   - [ ] Fix critical mypy errors in strict mode
+   - [ ] Update config module to use Pydantic models
 
-2. **Medium-term Goals**
-   - [ ] Improve test fixtures
-   - [ ] Add tests for CLI operations
-   - [ ] Improve docstrings
+2. **Medium-term Goals (1-2 Months)**
+   - [ ] Complete test fixtures for all modules
+   - [ ] Add tests for CLI operations with Pydantic models
+   - [ ] Improve docstrings for all public APIs
    - [ ] Refactor for better testability
+   - [ ] Set up CI pipeline with type checking
 
-3. **Long-term Objectives**
+3. **Long-term Objectives (3+ Months)**
    - [ ] Implement property-based testing
-   - [ ] Achieve 90%+ test coverage
+   - [ ] Achieve 90%+ test coverage across all modules
    - [ ] Complete documentation overhaul
-   - [ ] Integrate comprehensive CI checks
+   - [ ] Implement performance optimizations
+   - [ ] Add security improvements
 
 ## Next Steps
 
-1. **Create Pydantic Models**
-   - Create base models for RawConfigDict and ConfigDict
-   - Add validators for required fields and constraints
-   - Implement serialization and deserialization methods
+1. **Complete Pydantic Models Integration**
+   - Finish implementation of `convert_raw_to_validated` function in schemas.py
+   - Add more validation for edge cases
+   - Create utility functions for model manipulation
+   - Update config.py to use Pydantic models
 
-2. **Update Validation Logic**
-   - Replace manual validators with Pydantic validators
-   - Integrate Pydantic error handling with existing exceptions
-   - Update validation tests to use Pydantic models
+2. **Update Test Suite for Pydantic Models**
+   - Update test_validator.py to use Pydantic models
+   - Add tests for model validation errors
+   - Create fixtures for common model types
+   - Test serialization and deserialization
 
-3. **Update Config Processing**
-   - Update config processing to use Pydantic models
-   - Ensure backward compatibility with existing code
-   - Add tests for model-based config processing
+3. **Implement CLI Updates**
+   - Update CLI commands to use Pydantic models
+   - Add validation for CLI inputs
+   - Improve error reporting in CLI
+   - Add rich terminal output formatting
 
 ## Metrics and Success Criteria
 
 - [ ] **Type Safety**
   - [ ] Pass mypy in strict mode with zero warnings
   - [ ] 100% of functions have type annotations
   - [ ] All configuration types defined as Pydantic models
+  - [ ] All model fields validated with appropriate constraints
 
 - [ ] **Test Coverage**
   - [ ] Overall test coverage > 90%
   - [ ] Core modules coverage > 95%
   - [ ] All public APIs have tests
+  - [ ] All error conditions tested
 
 - [ ] **Documentation**
   - [ ] All public APIs documented
   - [ ] All Pydantic models documented
   - [ ] Examples for all major features
+  - [ ] User guide covers all common use cases
+
+- [ ] **Code Quality**
+  - [ ] All linting checks pass
+  - [ ] Cyclomatic complexity within acceptable limits
+  - [ ] Documentation coverage > 90%
+  - [ ] No code duplication > 5 lines