clean up analysis documentation and examples

💄 Another example

Closes #318

reformat the community model tutorial

fix screening doc build

and HOPE for the best

make atom_exchange and metabolite_fluxes a bit more generic

📝 🚧 Community model construction

...together with the other commits in this branch, this:

Closes #330

Closes #317

Screening cleanup + tutorial

🩹 Make `atom_exchage` robust to metabolites missing formulas

Miroslav Kratochvil authored Jun 09, 2021 and Miroslav Kratochvil committed Jun 10, 2021

I needed to clean up some extra code. Notably, set_bound functions didn't have
the warning ! attached. That got me reeeeeeeaally confused.

just reformat everything

Former-commit-id: cb5259b8

...to be able to continue pushing formatted code sanely


Former-commit-id: c26aa15b

clean up exchanges a bit

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Former-commit-id: f8b6830c

✨ Basic community model construction functions

Former-commit-id: d4509bae