Why isn't Stoichiometry Math working in Simbiology?
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"Warning: Stoichiometry Math is not supported for species. The species 'ATP' in reaction 'MAS' will be read in with a stoichiometry of 1. "
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Arthur Goldsipe
2023년 8월 16일
It sounds like you are trying to import an SBML file that uses the stoichiometryMath element defined in SBML level 2. Unfortunately, SimBiology does not support that element. I also see that this element was removed from the level 3 specification, so I assume it was not very widely used or supported. Can you share this SBML file or more information about it? I'd like to understand why this file uses stoichiometryMath and see if I can suggest any workarounds.
Also, we intend to document the SimBiology's limitations with respect to SBML support on this page. However, it looks like we forgot to document this particular limitation. I'll work with our documentation team to update this list.
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Arthur Goldsipe
2023년 8월 25일
Ok, this sounds like the intended use case for a custom abstract kinetic law (AKL). But one current limitation of custom AKLs is that they are not stored in your project, so you have to take extra steps to share them with other users. (The same is true of custom unit definitions.) So for that reason, I'm a little cautious about recommending them for general use. (But I do hope to address this pain point in the future.)
Regarding QSP, you can use the Add-Ons explorer to find and install various QSP apps written by others, including QSPToolbox and gQSPSim.
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