Supply chains consist of a network of people, activities, resources and organizational systems that coordinate to move a product or services from one point to another. A typical supply chain network contains multiple different actors that have different needs and operate under different business conditions. The complex and lengthy structure of agri-food supply chains for instance makes it difficult for analysts to identify and model the appropriate business processes. Several process reference models have been provided for describing process models, but these tend to omit explicit guidance for configuring supply chain business processes particularly in the agri-food supply chains. Hence, this paper applies and adapt the SCOR model levels to demonstrate an approach for supporting configuration of supply chain business processes dedicated for supply chains. We illustrate the approach for an industrial case of a cocoa supply chain. The approach was also applied to define and model the level 4 processes which is out of scope of the SCOR model and scarce in literature for many sectors including our illustrated case.