The range of optimization problem in aquaculture is very wide, resulting from the range of species, mode of operation. Quite a few studies focus marine net-cages, but studies on land based culture farm are few or no. This paper considers a allocation problem to meet production planning in land based aquaculture system. A water pool allocation model in land based aquaculture system was developed. The solution finds the value of decision variable to minimize yearly production costs that sums up the water pool usage cost and sorting cost. The model inputs were (1) the fish growth rate (2) critical standing corp (3) number of water pool (4) number of fish. The model outputs were (5) number of water pool in growing phase (6) cost of cultivation (6) optimal facility allocation(number of water pool for each growing phase). To solve the problem, an efficient heuristic algorithm based on a greedy manner is developed. Branch and bound and heuristic is evaluated through numerical examples.