A flexible manufacturing system can be used to fuse different layers of material together for forming an article of footwear. The system includes a base portion, an intermediate member and an upper member. The intermediate member includes a flexible membrane. The intermediate member can be sealed with the base portion and a vacuum can be provided to pull the flexible membrane over layers of material placed on the base portion. The upper member can be sealed against the intermediate member so that external pressure can be applied to the flexible membrane. The intermediate member and the upper member can be moved independently.