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How to check whether amici preequilibration is required

See original GitHub issue

In pypesto.objectiv.AmiciObjective.init_preequilibration_edata:

Currently, len(fixed_parameters) == 0 is used as an indicator of requiring no preequilibration. However, when there are events (which amici cannot deal with yet in python), the situation can occur that there are no fixed_parameters, but events that are omitted in the preequilibration run.

Issue Analytics

State:
Created 5 years ago
Comments:6 (6 by maintainers)

Top GitHub Comments

2reactions

yannikschaeltecommented, Mar 21, 2019

But this is just about guessing the steady state iteratively in pypesto. The preeq itself has changed to amici I think. Maybe if len(edata.fixedParametersPreequilibration) or self.amici_solver.getNewtonPreequilibration() can be changed to amici.require_preeq(edata, solver) or something like that, but apart I think this ussue can then be closed.

0reactions

dweindlcommented, May 6, 2022

Is this still an issue @yannikschaelte ?

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