Research prototypes and small experiments, organized as a series of notebooks.
darpa-askem / experiments Goto Github PK
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small experiments and prototypes
@bgyori we were scanning through some of the ASKE-net models and it seems like there could have been some parsing issues. E.g. https://github.com/DARPA-ASKEM/experiments/blob/main/thin-thread-examples/mira_v2/biomodels/BIOMD0000000970/model_askenet.json#LL137C12-L137C12
Could you take a look? Let me know if it would help for us to run a validator over these.
From our earlier discussion on our model-stratification workflow sketch (based around this notebook), we'd need:
add_reflexives
function that adds a transition with any dependent state node (not really a reflexive anymore), e.g. adding a Vaccinate
transition node to a Pop
state node should also add a required Vaccine
state node (since Vaccinate(Pop, Vaccine; Pop)
)Reference: AlgebraicJulia/ACSets.jl#27
The task is about how to get the AlgebraicJulia schemas of different model frameworks and how to infer the rules of model editing from them.
Use case: how does the Terarium HMI know to enforce bipartite-ness of a model's Petri net representation while the user is adding/removing nodes and edges.
The issue is that state nodes of different types are combined during stratification (via typed_product
).
An example that produces this mis-behaviour is here:
https://github.com/DARPA-ASKEM/experiments/blob/main/notebooks/Nelson/multi-stratify-experiment/SIRV-Age-Travel-example.ipynb
Pop
and Vac
- representing humans and vaccine doses.(vaccine, A1)
and (S, vaccine)
) which shouldn't be there.(Pop, Vac)
and (Vac, Pop)
).I think this is a bug with typed_product
but I could be misusing the API while trying to create an example with different state node types.
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