Becky James and Jess Varnish both failed to secure a medal after an incident involving Wai Sze Lee of Hong Kong.
In the women's Omnium, Australia's Isabella King triumphed with a score of 10 points.
Germany's Philipp Thiele took gold in the men's sprint
Thiele's triumph prevented home favourite Fabian Puerta from securing a third gold after his successes in the kilometre time trial and Keirin.
Eric Engler also won a trophy for Germany when beating Russia's Valentin Savitskiy for the bronze medal.
In the men's points race, Andreas Graf of Austria took gold while Jonathan Mould of Wales secured bronze.