Hi Allan,
I used CCD Commander to run a SN survey some years ago with great success (ie, discovered 11 SNe). I used it to managed an entire dusk until dawn session, including weather monitoring, dome control and start-up / shut-down procedures (I actually helped Matt Thomas test the dome / weather monitoring features of CCD Commander during his early development work).
I still use it today both professionally and at home to drive the mundane tasks (start-up / shut-down) for a couple of facilities and can vouch for it as a very reliable and easy to use tool. There's very little wanting in the current release, and I'm sure you can still 'try before you buy'.
Matt is a very nice guy to deal with too - so there is very good product support.
There's a yahoo group with more info that might help.
Good luck,
Paul
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