MCA (Antimony/Tellurium) has one set of conventions for defining external reactions while FBA (Cobra) has different conventions. Need an adaptor to switch back and forth between the two conventions.

The differences between the two conventions:

Antimony/Tellurium

• boundary species exist in the model
• boundary species are not included in the stoichiometric matrix

Cobra

• all metabolites in the model are included in the stoichiometric matrix

My suggested strategy:

• remove all boundary species from the Antimony/Tellurium model and create an sbml of this modified model.