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Question: Steadystate prediciton

See original GitHub issue

Question: how is steadystate prediciton defined? Is it default, and how can I specify if and when steadystate prediciton is used? I am getting the following error:

Exception has occurred: ValueError
Steadystate prediciton is not supported formodels with conservation laws!

in site-packages\pypesto\petab\importer.py", line 267, in create_objective after running this code:

petab_problem = petab.Problem.from_yaml('configuration.yaml')
testOut = petab_problem.get_optimization_to_simulation_parameter_mapping()
importer = pypesto.petab.PetabImporter(petab_problem)
model = importer.create_model()
import libsbml
converter_config = libsbml.SBMLLocalParameterConverter().getDefaultProperties()
petab_problem.sbml_document.convert(converter_config)
obj = importer.create_objective()

Issue Analytics

  • State:closed
  • Created 3 years ago
  • Comments:12 (12 by maintainers)

github_iconTop GitHub Comments

2reactions
dweindlcommented, Aug 10, 2020

But default = True can save considerable simulation time.

Not arguing with that. But I’d prefer something that is running slow by default over something that is not running at all 😉.

P.S.: Why not make the default model dependent? If supported, switch it on, if not switch it off. If requested by the user, but not supported, raise.

0reactions
thomassligoncommented, Aug 10, 2020

Thanks to everyone who helped.

Read more comments on GitHub >

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