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Ah, I see. I once bought a bag full of those small 6x6 push buttons I'm using, so I must get rid of them. ;)

The case is always a shot in the dark somewhat. For standalone things like clocks I prefer using a Arduino Pro Mini + rtc (google for "ds3231 for pi", they are quite small. Especially if you desolder/cut off the pins). But some people just use a single esp8266 and sync time using ntp, others prefer using a more simple Arduino Nano (no ftdi adapter required) and a somewhat bigger ds3231 rtc (like the ones I'm using in the pictures of this thing).

Already thinking about a way to mount the buttons facing up. That way I could at least make the height somewhat adjustable by scaling the case along Z only. But the one thing I'd be more interested in is giving the software sketch a massive cleanup. :)