The invention discloses a heterogeneous computing system, which comprises a multi-layer storage space complex structural body. The memory of the heterogeneous computing system structurally comprises six memories including a global memory, a register, a local memory, a shared memory, a constant memory and a texture memory, wherein the global memory, the register and the local memory support a read/write operation, the constant memory and the texture memory have a write operation, and the memories have different structures, different operation speeds and different sizes and storage scales. Compared with the prior art, the heterogeneous computing system improves the efficiency of a CPU+GPU (Central Processing Unit Graphic Processing Unit) heterogeneous computing method.