Data integration environment, modeling and simulation environment, operating and manipulation environment based on GNU/Linux are important support platform of observation and integrated research of ecological-hydrological processes in Heihe river basin. Embedded Linux combined with observation sensor networks and application software, formed a data integration environment of data collection, processing and analysis. Some GNU software and development software based on Linux system constitute an operating and manipulation environment. SME(Spatial Modeling Environment) of GNU software and MMS£¨Modular Modeling System£© constitute a modeling and simulation environment in Heihe river basin to support collaborative model building among a large, distributed network of multi-disciplines scientists involved in creating a global-scale ecological/economic model, providing spatial modeling and integration with capacity of distributed and collaborative processing. The platform will be used primarily for graphics interface modeling tools to implement modeling, connect with high-performance computing resources, the model base and a generic object database, export visual simulation results in the form of 2D animation, 3D animation, image spreadsheet and numerical spreadsheet to support simulation and forecasts of the ecosystem and hydrological processes. A modeling and prediction experiment about Heihe river basin ecosystems has been done in this system.