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base repository:PEtab-dev/libpetab-python
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base:v0.6.0
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head repository:PEtab-dev/libpetab-python
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compare:v0.7.0
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- 13commits
- 15files changed
- 3contributors
Commits on Oct 2, 2025
Add
idfield tov2.ProblemConfig(#442)* Update schema* v2.Problem.id* v2.ProblemConfig.idRelated toPEtab-dev/PEtab#646.Closes#441.
Misc petab.v2 fixes/cleanup (#445)
* Remove `Problem.from_dfs` which isn't really useful* Resolve some TODOs* Fix doctests* Fix `get_output_parameters` to not include observable IDs and make more efficient
Commits on Oct 4, 2025
Update
ExperimentsToEventsConverterto changed initialization seman……tics (#443)Due toPEtab-dev/PEtab#645 ...* ... the first period of a PEtab experiment has to be applied before initial assignments are evaluated. That means, the changes have to be implemented as initial assignments instead of event assignments at the initial timepoint (or any pre-existing initial assignments would have to be included in the event assignment).* ... for any subsequent periods, the event assignments need to be modified. Compartment-size changes in PEtab no longer follow the SBML event assignment semantics. That means, we need event assignments for all concentration-based species inside such a compartment to preserve concentrations instead of amounts.Closes#452.---------Co-authored-by: Dilan Pathirana <59329744+dilpath@users.noreply.github.com>
Commits on Oct 15, 2025
Fix serialization of priorParameters (#449)
Incorrectly expected strings instead of floats.
Add
v2.Problem.{get_output_parameters,get_x_nominal_dict}(#447)* Add `v2.Problem.{get_output_parameters,get_x_nominal_dict}`* Move `get_output_parameters` from v2.lint to v2.Problem* Add `Problem.get_x_nominal_dict`* TestCo-authored-by: Dilan Pathirana <59329744+dilpath@users.noreply.github.com>
Commits on Oct 16, 2025
Misc fixes & annotations (#450)
* type annotations* fix accessing non-existing model* remove misleading comments---------Co-authored-by: Dilan Pathirana <59329744+dilpath@users.noreply.github.com>
Commits on Oct 23, 2025
Update
test_simulate_experiment_to_eventsfor antimony 3.1.0In antimony>=3.1.0, initial values for substanceOnly species are interpreted as amounts.Before, they were interpreted as concentrations.Update `test_simulate_experiment_to_events` accordingly and require >=3.1.0 for tests.
Commits on Oct 29, 2025
https://petab.readthedocs.io/en/latest/v2/documentation_data_format.html#mapping-table:> The petabEntityId may be the same as the modelEntityId, but it must not be used to alias an entity that already has a valid PEtab identifier. This restriction is to avoid unnecessary complexity in the PEtab problem files.
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