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I noticed that petab_lint requires for some tables specific indices (see e.g. [check_observables_df line 301](https://github.com/PEtab-dev/libpetab-python/blob/b0e0e54d3fd065b10dc8cd7810c01d0f5780ac32…
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With the new update to MTK v9 we can use the much more efficient method of defining data interpolations as parameter values.
How to do so can be seen here:
https://github.com/SciML/ModelingToolki…
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Release 0.1.13 is not on pypi: https://pypi.org/project/petab-select/#history
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What is the proper way to utilize PEtab with other packages that use array variables?
at a [Discourse Discussion](https://discourse.julialang.org/t/petab-with-methodoflines/112647?u=kkakosim) @Chri…
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The current tolerances are huge:
https://github.com/AMICI-dev/AMICI/blob/bea2dfe37040e7a6f36f163a46e03e428bab75cf/tests/benchmark-models/test_petab_benchmark.py#L14-L16
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Just writing stuff here as I get ideas, feel free to close/consolidate to single issues if easier to handle that way.
It could be neat to permit accessing a parameters (optimal) value from a PEtab …
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Hi! I'm having an issue with using PEtab with Catalyst, and I think there's something going wrong in the residual calculation. I can set up the problem as in the docs, including with data taken from a…
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So there is https://github.com/ICB-DCM/pyPESTO/blob/ead29b36db80d2eeee91b5d29bfbf4430137f8aa/pypesto/petab/importer.py#L476, which I don't like as this means that edata.plist will always be all parame…
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- [ ] rename repo to something like `PEtab-Benchmark-Collection`/`PEtab-Benchmark-Problems` to better match common usage
- [ ] rename `Benchmark-Models` directory to e.g. `Benchmark-Problems` or `Pro…
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Hi,
I am trying to replicate the following paper:
https://www.nature.com/articles/s41598-01
Here are the codes I have for parameter fitting. The last version of PEtab worked ok but I cannot rep…