Brett Olivier
Interesting, thanks for the deep dive diagnoses. The problem is that if the species symbols are concentrations in the rate equations ( 'Species_In_Conc' ) then they have to be internally...
Thanks, I've been looking at the code and I can implement something that writes the ODE's as Cell*R1() in the code, however, the problem is that SBML derived KineticLaws should...
> You mention that SBML derived KineticLaws should already be in the Cell*R1() form. Can you clarify what exactly this means. Should the modeller specify the rate law in this...
@jmrohwer being SBML compatible (export/import) does not mean limiting ourselves to it or the way it has evolved :-) Let me put it this way: _If we know the location...
@jmrohwer we currently only export L2 so I don't think that attribute exists. What I would do with L3 is set the Reaction compartment attribute to the correct compartment and...
Ja so it looks like if the model was from SBML, or, a PySCeS model that had rate laws in amount/time it would be correct SBML. Whereas if a PySCeS...
Sounds good. First issue (a lot of which has been discussed here so we can continue here or split). First attempt at some use cases, please feel free to add/extend/modify:...
This is potentially some work - support for MIRIAM annotations and SBO is pretty much standard, so needs to be done at some point (I would store them in an...
Thanks for reporting this, I think this is due to changes in the numpy API.
Good catch, I will look into this