Sam Isaacson

What's the master equation as a PDESystem here refer to? Do you mean a PDE for the corresponding generating function, or for spatial particle systems?

Ahh, ok so you are thinking of it as a differential-difference equation. Could we use some of the infinite dimensional LA tooling for representing the adjoint of the generator in...

Yup, it would just be nice to have a representation that is "exact", so that different methods can truncate / approximate as they see fit.

If you look at the tutorial I updated I repeatedly reuse the function on different objects (problems, integrators, and solutions). But probably in the callback section we should emphasize that...

@TorkelE can you handle the remaining errors? They are from 1. SDE related indexing (just needs the SII/SciMLBase fixes, then we need to bump the doc/Project.toml to the right SciMLBase...

I also suggest doing a full local doc build once everything is fixed, and carefully looking through all the tutorials to check the outputs / figures are working and look...

Sounds good! If it is failing on your computer have you deleted the manifest in the docs folder and re-resolve/updated using doc/Project.toml?

I assume this has been handled / will be handled in other docs so closing.

This is from some bugs introduced when SciMLBase switched the symbolic indexing backend. You can see what @TorkelE reported there at https://github.com/SciML/SciMLBase.jl/issues/581 They should hopefully get fixed soon in SciMLbase...

This is fixed on the V14 branch via changes to SciMLBase and SymbolicIndexingInterface.