Release v0.5.0

[PaulJonasJost]

• General
  • Include pymc in the documentation. (#1305)
  • Ruff Codechecks (#1307)
  • Support RoadRunner as simulator for PEtab problems (#1336, #1347, #1348, #1363)
• Hierarchical
  • Semiquant: Fix spline knot initialization (#1313, #1323)
  • Semiquant: Add spline knots to the optimization result (#1314)
  • Semiquant: fix inner opt tolerance (#1330)
  • Relative: Fix return of relative calculator if sim fails (#1315)
  • Relative: Hierarchical optimization: fix unnecessary simulation (#1327)
  • Relative: Fix return of inner parameters on objective call (#1333)
• Optimize
  • Support ipopt with gradient approximation (#1310)
  • Deprecate CmaesOptimizer in favor of CmaOptimizer (#1311)
  • ESSOptimizer: Respect local_n2 in case of failed initial local search (#1328)
  • Remove CESSOptimizer (#1320)
  • SacessOptimizer: use 'spawn' start method for multiprocessing (#1353)
• PEtab
  • Fix unwanted amici model recompilation in PEtab importer (#1319)
• Sample
  • Adding Thermodynamic Integration (#1326, #1361)
  • Dynesty warnings added (#1324)
  • Dynesty: method to save raw results (#1331)
• Ensembles
  • Ensembles: don't expect OptimizerResult.id to be convertible to int (#1351)
• Misc
  • Updated Code to match dependency updates (#1316, #1344, #1346, #1345)
  • Ignore code formatting in git blame (#1317)
  • Updated deployment method (#1341)
  • add pyupgrade to codechecks (#1352)
  • Temporarily require scipy<1.13.0 for pypesto[pymc] (#1360)

[codecov-commenter]

Codecov Report

Attention: Patch coverage is 85.40541% with 216 lines in your changes are missing coverage. Please review.

Project coverage is 84.50%. Comparing base (34e89b3) to head (64f8205).

Files	Patch %	Lines
pypesto/visualize/sampling.py	52.63%	18 Missing :warning:
...esto/objective/roadrunner/roadrunner_calculator.py	86.06%	17 Missing :warning:
pypesto/optimize/optimizer.py	75.36%	17 Missing :warning:
pypesto/sample/dynesty.py	72.58%	17 Missing :warning:
.../objective/roadrunner/petab_importer_roadrunner.py	89.28%	15 Missing :warning:
pypesto/visualize/spline_approximation.py	13.33%	13 Missing :warning:
pypesto/objective/roadrunner/utils.py	91.40%	11 Missing :warning:
pypesto/visualize/dimension_reduction.py	18.18%	9 Missing :warning:
pypesto/visualize/ordinal_categories.py	0.00%	9 Missing :warning:
pypesto/objective/jax/base.py	73.33%	8 Missing :warning:
... and 34 more

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Additional details and impacted files

```diff @@ Coverage Diff @@ ## main #1342 +/- ## ========================================== - Coverage 84.54% 84.50% -0.04% ========================================== Files 153 157 +4 Lines 12456 12917 +461 ========================================== + Hits 10531 10916 +385 - Misses 1925 2001 +76 ```

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