Hierarchical layout of logistics nodes has significant impact on the cost and benefit of the logistics system. This paper proposed the logistics network simplification method. The logistics nodes network was built from actual physical networks, and the factors of shortest path, shared segment and links capacity were considered in the process. Then, the collaborative layout model for hierarchical nodes was developed considering nodes and links capacity constraints. The service radius, capacity and cost of hierarchical nodes and the transport corridor were factored in the modeling. The improved harmony search algorithm was used to resolve this model. The real-world example was used to verify the effectiveness of the proposed model and algorithm. The result shows the strong adaptability of the model and algorithm, which can be used to solve the actual hierarchical nodes layout problem in practices. Copyright © 2020 by Science Press.