Colton Lloyd issues

Repositories
Issues
Comments

Results 6 issues of


                                            Colton Lloyd

Constraint upper bound overwritten when copying model

#### Problem description Using the `model.copy()` with the gurobi interface causes the upper bound of constraints to be overwritten. #### Code Sample ```python import cobra model = cobra.Model() model.add_metabolites(cobra.Metabolite('a')) model.metabolites.a.constraint.lb...

bug

Allow lower case nucleotide sequences or make error explicit

Using lowercase nucleotide sequences when creating a translation reactions gives an unclear error message.

[subreaction].enzyme should always be a list or None

MetabolicReaction should include complex.id

The full ComplexData instance doesn't need to be linked to the MetabolicReaction. The complex id is all that is required

Compatibility with COBRApy versions > 0.6.0

Linking enzymes to keffs

Methods to query which processes an enzyme is coupled to. For some enzymes this is currently not very intuitive.