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Merged
dweindl merged 14 commits into from
Jun 25, 2024
Merged

Release 0.3.0 #266

dweindl merged 14 commits into from
Jun 25, 2024

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@dweindl
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@dweindl dweindl commented Jun 24, 2024

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PaulJonasJost and others added 14 commits March 12, 2024 17:19
@PaulJonasJost
get_parameter_mapping_for_condition default value update (PEtab-dev#250)
a5e771e
@dweindl
maint: black -> ruff (PEtab-dev#251)
b75ece3 
Instead of black and isort, run ruff as pre-commit hook. Enable pyupgrade and additional rules.

Applied safe auto-fixes, but validation currently fails. Will be addressed in a follow-up PR (PEtab-dev#252).

Relevant changes: `.pre-commit-config.yaml`, `pyproject.toml`
@dweindl
Doc: Exclude private members (PEtab-dev#253)
b7d6130
@dweindl
maint: fix code style, check on gha (PEtab-dev#252)
aa8cd78 
Follow-up to PEtab-dev#251 

* Manual changes for compatibility with selected ruff rules
* run pre-commit hooks on GHA instead of flake8
* run tests on python3.12
@dweindl
Vis: Make line plot markers configurable (PEtab-dev#254)
f32feed 
Allow changing the default style for line plots.
@dweindl
Validator: check datasetId in visualizations table exists in measurem…
4cd02ef 
…ents table (PEtab-dev#255)

Closes PEtab-dev#229
@dweindl
Require python>=3.10 (PEtab-dev#256)
0788f9b 
Require python>=3.10 according to [NEP-0029](https://numpy.org/neps/nep-0029-deprecation_policy.html#drop-schedule).
@dweindl
GHA: trigger workflows on pull requests from forks
5be4f2c
@dweindl
Let dependabot update actions (PEtab-dev#258)
fd87618
@m-philipps
Fix typo (PEtab-dev#257)
2258112
@dweindl
Refactor sympification (PEtab-dev#261)
128da31 
Centralize sympification of PEtab and SBML math expressions.

Simplifies incorporating PEtab-dev#260

Also fixes likely collisions of SBML model entities with sympy entities.
@dilpath
Table getters: drop pre-existing table index unless it matches the PE…
c30b9df 
…tab format (PEtab-dev#262)
@dweindl
Require sympy>=1.12.1 in tests
8adf38c 
So far, sympy 1.11 was used due to pysb, but this is incompatible with numpy>=2.0
@dweindl
Bump version number, update changelog
d8ad9b8
@dweindl dweindl requested review from a team, dilpath and m-philipps as code owners June 24, 2024 17:36
dilpath
dilpath approved these changes Jun 24, 2024
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👍

m-philipps
m-philipps approved these changes Jun 25, 2024
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Thanks for preparing this.

@dweindl dweindl merged commit c427340 into PEtab-dev:main Jun 25, 2024
@dweindl dweindl deleted the release_0.3.0 branch June 25, 2024 08:03
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@m-philipps m-philipps m-philipps approved these changes

@dilpath dilpath dilpath approved these changes

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@dweindl @m-philipps @dilpath @PaulJonasJost