Add Bun lockfile (bun.lock), delete package-lock.json and jest.config.json, and update package.json accordingly. These changes move the project toward using Bun for dependency management (lockfile added) and remove the prior npm lock and Jest config.

Updated README to enhance clarity and structure, including new sections on Lightning Reasoning and adaptive logic-data integration.

Remove the entire python/ subtree and its contents: source modules (nucleoid package, lang handlers, state, graph, parse/process logic), test files, and project metadata/config (.flake8, .gitignore, pyproject.toml, poetry.lock). This commit deletes the Python Nucleoid implementation and its test suite.

Updated the AI Architecture image link in the README.