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Example: Model: https://github.com/biosimulators/Biosimulators_test_suite/tree/dev/examples/sbml-core/Edelstein-Biol-Cybern-1996-Nicotinic-excitation
Below are simulation runs for GillesPy2 and PyS…
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## Model
I used the degradation/decay model with an added assignment rule setting `decayrate` to 10.
## Solver
Simulated using the TauHybridSolver
## Error
```
Compute Environment: Local
20…
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I am trying to run ODE_FBA.ipynb notebook and getting following error:
cell:
ode_config = {
'biosimulator_api': 'biosimulators_tellurium',
'model_source': MILLARD2016_PATH,
'mode…
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The method `sanitized_formula` in `gillespy2.core.assignmentrule.AssignmentRule` should be private. Many methods in the docs should be private or deprecated.
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The simulation was stopped at `t=4875` and this error was raised
```
---------------------------------------------------------------------------
ValueError Tracebac…
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Some studies examine predictions for reaction fluxes. It would be great to return these values.
We we're working with BioModels to add buttons such as "Simulate with GillesPy2", "Simulate with COPA…
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There's a web link to **http://www.stochss.org/** on the [GillesPy2 package landing page](https://pypi.org/project/gillespy2/) on PyPi.org which has some kind of auth/auth constraint triggering an acc…
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I'm sorry if this isn't the correct place to ask this...
Is there a way to get the full "trajectory", i.e., the entire sequence of reactions that Gillespie samples, together with the inter-reaction…
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We need to have a section that tell uses to cite the StochSS paper as part of this work.
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Create overview table like the one below for locally ran `LEMS_NML2_Ex9_FN` model.
- [x] run with biosimulators docker locally (on all the different engines)
The resulting minimal omex file SBML…