Default Values from SBML

[PaulJonasJost]

Now possible to fill the parameter values from the sbml model

[Copilot]

Pull Request Overview

This PR enhances the PEtab model by integrating SBML‐based default value determination into the parameter table. Key changes include initializing and passing the SBML viewer model, updating default value retrieval functions to accept an additional changes parameter, and propagating these updates across related controllers and commands.

Reviewed Changes

Copilot reviewed 10 out of 10 changed files in this pull request and generated 1 comment.

Show a summary per file

File	Description
src/petab_gui/models/petab_model.py	Instantiates the SBML viewer and passes it to the ParameterModel
src/petab_gui/models/pandas_table_model.py	Updates default value logic to accept a “changed” dict and reorders columns
src/petab_gui/controllers/*	Propagates SBML default value updates and connection adjustments
src/petab_gui/commands.py	Adjusts new row initialization to use np.nan instead of empty strings
src/petab_gui/C.py	Introduces the SBML_LOOK strategy for nominal value defaults

Comments suppressed due to low confidence (1)

src/petab_gui/commands.py:102

• [nitpick] Replacing empty strings with np.nan when inserting new rows may affect downstream logic that depends on string placeholders. Verify that downstream processing and validations handle np.nan values correctly.

df.loc[idx] = [np.nan] * df.shape[1]