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This paper proposes a two-hop proportional fairness scheduling scheme for relay based orthogonal frequency division multiplexing access (OFDMA) systems. The proportional fairness scheduling algorithm is extended to a two-hop scenario to ensure that both direct link users and relay link users are fairly allocated capacity. The fairness allocation problem is considered both in the first time subslot between direct link users and relay stations, and the second time subslot among relay link users. Simulation results show that this algorithm achieves an overwhelming performance on the long-term fairness of the user data rate although suffering some throughput lost.