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We are planning for a PEtab v2 release, ideally within the next 6 months. An open question is how to handle that in libpetab, as there will be quite some incompatible changes. This issue is to discuss…
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I have created an example network in this repository to experiment with, where I created a simple feed-forward network and exported it to ONNX. After experimenting with ONNX, I believe we should not u…
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Initially, `initializationPriorType` and `initializationPriorParameters` were introduced to provide prior distributions for sampling initial points in a multi-start optimization setting. For other glo…
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This function appears pretty useless on it's own as fixed parameters etc from the condition table are not filled in. Would expect that the generated objects have partial information that is set by `am…
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With PEtab v2 we will introduce [extensions](https://github.com/PEtab-dev/PEtab/pull/537) to PEtab that will add new functionality. (In exceptional cases, extensions might also change some existing ru…
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I've come across an issue with running the petabtests caused by pysb 1.16, which requires sympy
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Hi all,
it seems there are some issues with the amici prefixes on parameters. Example attached.
I am trying to import a petab problem, but the importer fails with a KeyError.
[amici_k.zip](https://…
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When performing large-scale scans I noticed something odd:
In the `EndPoint` structure, the `supreme` field sometimes seems to be a complicated AD structure (an example is provided at the end). Is th…
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Catalyst have a feature for removing conservation laws from reaction systems (https://docs.sciml.ai/Catalyst/dev/model_creation/network_analysis/#network_analysis_conservation_laws) which could be use…
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Hi, could you,please, clarify what is the current way to import `PEtab` models to `dMod` (in particular SBML files) ? I have tried `PEtab2dmod` library with `libSBML 5.19` but I have a number of issue…