Update to version 0.6.0 and enhance project structure

[lancereinsmith]

• Incremented project version to 0.6.0 in pyproject.toml.
• Added support for PEP 735 include-group in dependency groups.
• Updated license format to SPDX string in generated pyproject.toml.
• Refactored Makefile to utilize uv for command execution and modernized linting and formatting processes with Ruff.
• Revised documentation to reflect changes in features, installation, and usage.
• Removed outdated dependencies and streamlined pre-commit configuration.

Description

Brief description of changes made in this PR.

Type of Change

• Bug fix (non-breaking change which fixes an issue)
• New feature (non-breaking change which adds functionality)
• Breaking change (fix or feature that would cause existing functionality to not work as expected)
• Documentation update
• Performance improvement
• Code refactoring
• Test improvements
• CI/CD changes

Related Issues

Fixes #(issue number)
Closes #(issue number)
Related to #(issue number)

Changes Made

• List specific changes made
• Include any new features added
• Mention any breaking changes
• Note any dependencies added/removed

Testing

• Tests pass locally
• New tests added for new functionality
• All existing tests still pass
• Manual testing completed
• Edge cases tested

Documentation

• Documentation updated for new features
• API documentation updated
• README updated if needed
• Changelog updated
• Comments added to code

Code Quality

• Code follows project style guidelines
• Self-review completed
• Code is properly commented
• No hardcoded values
• Error handling implemented
• Type hints added where appropriate

Performance

• No performance regressions
• Performance improvements documented
• Memory usage considered
• Large files handled appropriately

Security

• No security vulnerabilities introduced
• Input validation implemented
• Sensitive data handled properly
• Dependencies are secure

Checklist

• My code follows the style guidelines of this project
• I have performed a self-review of my own code
• I have commented my code, particularly in hard-to-understand areas
• I have made corresponding changes to the documentation
• My changes generate no new warnings
• I have added tests that prove my fix is effective or that my feature works
• New and existing unit tests pass locally with my changes
• Any dependent changes have been merged and published

Screenshots

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Additional Notes

Any additional information that reviewers should know about this PR.

Breaking Changes

If this is a breaking change, describe what breaks and how to migrate:

Before:

# Old code

After:

# New code

Migration:

# How to migrate