PAOK fans threw flares and clashed with riot police after their team was denied a penalty with Olympiakos leading 2-1.
Greece's deputy minister for sport Stavros Kontonis recommended the suspension of all competitive football.
But the Super League and other professional leagues will continue.
This season's Greek Cup has been cancelled by the government after the semi-final first leg between PAOK Salonika and Olympiakos was abandoned because of crowd violence.