Replace deprecated KMessageBox::sorry() and ::warningYesNo()

This MR has an issues which I am not sure how to address: in src/scripting/kilescriptobject.cpp we have KileAlert::sorry() and KileAlert::question. I think we should remove (or deprecate) them similar to what KMessageBox did. But I am unsure, if I can simply remove them or if a deprecation is necessary. I don't know how to deprecate the use for the script language.