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Let's say you program a simple calculator in Python (I haven't done it, it's just for the sake of an example)

1.- How do you turn such program into an .exe file to run?
2.- What program do you use to design the window, buttons and all that for the application?

It's just pure curiosity, I'd like to know more about it, but this kind of questions get deleted in Stack Overflow.
You can use Pyinstaller to make your Python source code into an .exe file.

To create a GUI you could use Tkinter which is built into Python,
there are many other GUI frameworks as well.

Google Pyinstaller and Tkinter for details.