Migrate to pyproject.toml and Refactor Execution Structure

[harryswift01]

Summary

This PR modernizes the project's packaging and execution structure by migrating to pyproject.toml and refining the entry point.

Changes

Packaging Updates

• Implement pyproject.toml with relevant metadata from setup.py.
• Remove legacy packaging files: setup.py, setup.cfg, and MANIFEST.in.
• Add versioning info directly to __init__.py, removing versioneer and version_check.py.
• Remove the devtools directory.

Executable and Entry Point Refactor

• Define the main_mcc.py as an entry point in pyproject.toml.
• Implement if __name__ == "__main__" for proper script execution.
• Execution Logic Consolidation
• Removal of the bin directory

Migrate all execution logic to main.py, ensuring it handles:

• Processing CLI and file input.
• Calling initialization and application entry-point functions.

Impact

• Simplifies package management and installation using pyproject.toml.
• Standardizes version management within __init__.py.
• Improves script execution consistency and maintainability.
• Enhances overall project structure by centralizing execution logic.

[jimboid]

@skfegan Please don't push to a branch that is being worked on actively by somebody else, especially when it is part of an ongoing PR that you are not a reviewer of. This time it is fine but there is a danger of introducing clashes on the repo, duplicating work and causing the code review to restart.

[jimboid]

All looks good. There is just the script line in pyproject.toml that we should uncomment. The entry-point looks good. There is probably a consideration to be made here whether we call the exec:

CodeEntropy, codeentropy or code_entropy

I hate capitalisation in execs, though the all lower case looks a bit weird.