A method and apparatus of providing a configurable computer system capable of being modeled are disclosed. The system, in one embodiment, includes a configurable component and a clock distributor. The configurable component includes multiple programmable devices arranged in a predefined configuration. The predefined configuration, for example, is a cubical shape having multiple neighboring nodes. The configurable component is capable of being modeled in accordance with policies from a system program for data transmission. The clock distributor further includes a first clock element, which provides long-term accuracy, and a second clock element, which provides short-term accuracy.