Moritz E. Beber

Although the SBML specification allows arbitrary XML for inside of annotations, I can definitely see this change making parsing JSON/YAML easier. Any comments @zakandrewking since you use the JSON format...

https://github.com/opencobra/schema was intended for discussing XML declarations that could extend the SBML schema and be used by all tools in the opencobra organization (and beyond, of course). However, it might...

I'm currently probing when this leak was first introduced. I installed cobra 0.6.1 and observe the same behaviour. Interestingly when I try to interrupt the above loop, what comes up...

Alright, does not occur with 0.5.9 but *does* occur with 0.6.0 so it's definitely an optlang problem.

Using the cplex interface and cobra 0.6.0 the code is often interrupted at the following point. ``` Traceback (most recent call last): File "leak.py", line 12, in mod = mod.copy()...

For 2., I think just a Sphinx build without RTD should alert us to the most severe problems. Adding a broken link check might be helpful, too, [here is how...

Because I didn't know it existed 😆

@Djamchid in the meantime please look at https://cobrapy.readthedocs.io/en/latest/

Yes, that's another consideration. In general, I think functions having varying return types are a pain in the neck and bad design and I'd like to avoid it in future...

Some further requirements to take into account: 1. Some of the meta information might be desirable when writing a model back to SBML. In that case the model is the...