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This pull request refactors the project's standalone scripts into a unified, modular CLI application using Typer, significantly improving usability and maintainability. It introduces new, structured commands like
run,create-system,datasets, andconfig, replacing the previousargparseand manual script execution. The core enhancement is a user-friendly "prompt-if-missing" system that interactively guides users through configuration if command-line flags are omitted. Furthermore, path management has been centralized usingplatformdirsto ensure the tool works reliably from any directory, and sandbox options have been streamlined for clarity.