Some rough first approximations:
Seat-to-pedal distance: You should get a decent, but not full/locked, knee extension.
Seat-to-handlebar distance: With your elbow against the nose of the saddle, do your fingertips just touch the horizontal center portion of the bar?
Relative heights of seat and handlebar: My bars are about 4-5 cm below my saddle, but many folks favor equal height. This one is highly personal.
As rhenning asked, are you discomfort-free after a long ride? I would add, "Do you feel secure and stable on the bike?"
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"Far and away the best prize that life offers is the chance to work hard at work worth doing." --Theodore Roosevelt
Capo: 1959 Modell Campagnolo, S/N 40324; 1960 Sieger (2), S/N 42624, 42597
Carlton: 1962 Franco Suisse, S/N K7911
Peugeot: 1970 UO-8, S/N 0010468
Bianchi: 1982 Campione d'Italia, S/N 1.M9914
Schwinn: 1988 Project KOM-10, S/N F804069