Benchmark gensim against AlgebraicPetri.jl's vectorfield

[lukem12345]

AlgebraicPetri also compiles ACSets down to functions that can be passed to the ODEProblem interface. Petri nets are equivalent to ordinary differential equations that we can write directly as Decapodes.

So, we should write a Petri net's equtions outright (e.g. SIR) as a Decapode and compare the results to a native AlgebraicPetri implementation.

Note that this is a separate issue from converting a Petri net ACSet to a Decapode ACSet, or adding back the old support for spatialized reaction diffusion systems for AlgebraicPetri that was dropped a while ago.

[jpfairbanks]

The bilayer networks stuff in AlgPetri is a good place to start for converting the law of mass action into a compute graph. It uses data migration to convert the petri net into a compute graph of its dynamics.

• Src: https://github.com/AlgebraicJulia/AlgebraicPetri.jl/blob/main/src/BilayerNetworks.jl
• Docs: https://algebraicjulia.github.io/AlgebraicPetri.jl/dev/generated/other/bilayerconversion/