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Bumps the python-dependencies group with 8 updates in the / directory:

Package From To
numpy 2.4.6 2.5.3
polars 1.43.0 1.44.2
scipy 1.18.0 1.18.1
joblib 1.5.3 1.6.0
scikit-learn 1.9.0 1.9.1
ruff 0.16.0 0.16.7
ty 0.0.63 0.0.80
pre-commit 4.6.1 4.6.2

Updates numpy from 2.4.6 to 2.5.3

Release notes

Sourced from numpy's releases.

v2.5.3 (Sep 6, 2026)

NumPy 2.5.3 Release Notes

The NumPy 2.5.3 is a patch release that fixes bugs discovered after the 2.5.2 release. Apart from the usual bug and maintenance work, there are a number of StringDType related fixes for problems discovered during the ongoing string work in the main branch.

This release supports Python versions 3.12-3.15

Changes

  • Casting a fixed-width byte string array (np.bytes_) to StringDType now raises TypeError when the bytes are not valid UTF-8. Previously the invalid bytes were stored as-is and later caused undefined behavior in string operations.

    (gh-32296)

  • MaskedArray._fill_value would become stale when ufuncs that change dtype left the result holding a fill_value typed for the old dtype. The mismatch was silent until something later called _check_fill_value, such as .view(), and then a TypeError would be raised. Now, when the copied fill_value is no longer valid for the new dtype, fall back to the default fill_value for that dtype instead of propagating the stale value. This may raise a ComplexWarning if the fill_value is complex and the new dtype is real.

    (gh-32423)

Contributors

A total of 9 people contributed to this release. People with a "+" by their names contributed a patch for the first time.

  • Charles Harris
  • Iason Krommydas
  • James Davies +
  • Joren Hammudoglu
  • Maanas Arora
  • Matti Picus
  • Nathan Goldbaum
  • Shikhar Goel +
  • Yeonho Kim +

Pull requests merged

A total of 27 pull requests were merged for this release.

  • #32235: MAINT: Prepare 2.5.x for further development

... (truncated)

Commits
  • dd88c0c Merge pull request #32511 from charris/prepare-2.5.3
  • edcac6a REL: Prepare for the NumPy 2.5.3 release
  • fd4d908 Merge pull request #32509 from charris/backport-32496
  • 65bb1da BUG: fix crash in ufunc.resolve_dtypes with a Python scalar type (#32496)
  • 294956e Merge pull request #32506 from charris/backport-32503
  • 26428d9 DOC: fix scipy docs links in intersphinx mapping (#32507)
  • 5fab1cb DOC: use static scipy doc site for intershpinx (#32503)
  • 7beed2f Merge pull request #32481 from ngoldbaum/stringdtype-backport
  • 8972f70 Merge pull request #32478 from charris/backport-32466
  • ab1b589 Merge pull request #32477 from charris/backport-32423
  • Additional commits viewable in compare view

Updates polars from 1.43.0 to 1.44.2

Release notes

Sourced from polars's releases.

Python Polars 1.44.2

🛠️ Other improvements

Thank you to all our contributors for making this release possible! @​EndPositive, @​dsprenkels, @​kdn36, @​lun3x, @​nameexhaustion and @​orlp

Python Polars 1.44.1

Thank you to all our contributors for making this release possible! @​Kevin-Patyk, @​henrytsanford, @​jonasdedden, @​orlp and @​ritchie46

Python Polars 1.44.0

⚠️ Deprecations

  • Deprecate rechunk parameter for all read/scan functions (#28063)
  • Deprecate Expr.rechunk() (#28692)
  • Deprecate struct.rename_fields() with an incorrect number of fields (#28672)

🚀 Performance improvements

  • Add private env var toggle for HTTP rate limit (#28882)
  • Relax default CloudRetryConfig for rate limit stability (#28885)
  • Elide generic cross join on subquery decorrelation in equality predicates (#28876)
  • cache CTE's in SQL layer (#28864)
  • Allow CSPE if manual caches are set (#28859)
  • Lower unqualified join predicates to inner joins in SQL (#28854)
  • Rechunk mask for DataFrame filter (#28762)
  • Improve performance of when/then/otherwise by masking out unevaluated elements (#28498)
  • Drop unused projections in filter on streaming engine (#28713)
  • Retain Parquet Partial metadata on filter (#28737)

✨ Enhancements

  • Support integer fixed-array dot products (#28829)
  • SQL correlated in (#28927)
  • Support more join_types in join_where (#28880)
  • Support Iceberg schema evolution (#28794)
  • SQL conformance (#28494)
  • Introduce RemoteEngine and a common base class for all engines (#28800)
  • Support Iceberg table with V3 deletion vectors in native scan_iceberg (#28772)
  • Support Iceberg snapshot properties (#28793)
  • Expose sinked_paths_callback on sink_parquet as unstable parameter (#28814)
  • Add infer_schema_files to CSV inference hint (#28809)
  • Add native fixed-array dot (#28504)
  • Export query metrics to polars_cloud (#28757)
  • Support Iceberg object storage paths (#28634)
  • More CSEE simplification (#28731)

... (truncated)

Commits
  • 1bd8ec1 Python Polars 1.44.2
  • ccc3842 refactor(rust): Reduce code monomorphization in eager joins (#29087)
  • 22f274b refactor(rust): Reduce serde monomorphization (#29088)
  • b069c83 feat(python): Add organization to Config.enable_monitoring (#29221)
  • d5a00ec ci: Skip tests that are currently failing on windows (#28962)
  • 22dc741 test(python): Update test for latest pyiceberg (#29090)
  • d1a325b fix: Include the library path in the plugin dlopen error message (#29213)
  • 461fe0e feat(python): Add a workspace argument to Config.enable_monitoring (#29196)
  • 0ced41b fix: Wrap IoError in PathIoError such that callers can extract untruncated pa...
  • 3b4075b refactor: Bump object_store for new DnsResolver trait (#29145)
  • Additional commits viewable in compare view

Updates scipy from 1.18.0 to 1.18.1

Release notes

Sourced from scipy's releases.

SciPy 1.18.1 Release Notes

SciPy 1.18.1 is a bug-fix release with no new features compared to 1.18.0. This release includes binaries on PyPI for Python 3.15, and the minimum required version of the GCC toolchain has been increased to 10.3.0.

Authors

  • Name (commits)
  • Wasim Akram (2) +
  • Jake Bowhay (1)
  • Michael Bratsch (1)
  • Dietrich Brunn (1)
  • Evgeni Burovski (1)
  • Aadya Chinubhai (1)
  • Lucas Colley (3)
  • Tekin Ertekin (1) +
  • Fuyugithub (2) +
  • Ralf Gommers (11)
  • Joren Hammudoglu (1)
  • Ijtihed Kilani (1) +
  • Andrew Nelson (2)
  • Ilhan Polat (1)
  • Tyler Reddy (39)
  • romao05 (1) +
  • Michael Simacek (1) +
  • Jacob Vanderplas (2)

A total of 18 people contributed to this release. People with a "+" by their names contributed a patch for the first time. This list of names is automatically generated, and may not be fully complete.

Note that the source and binary assets associated with this release were published to PyPI using trusted publishing, and so the trusted assets and their hashes are made available more securely at https://pypi.org/project/scipy/1.18.1/ rather than providing them here in a less secure manner.

A complete list of issues and pull requests associated with this release is available in the associated README.txt.

Commits
  • e4e854e REL: SciPy 1.18.1 rel commit
  • 3c8e5f8 BLD, MAINT: pythran bounds for 1.18.1 (#25978)
  • 54c0f95 BLD, MAINT: pythran bounds for 1.18.1
  • 45a355d Merge pull request #25884 from tylerjereddy/treddy_backports_1.18.1
  • a717e28 DOC: PR 25884 revisions
  • bb489c0 DOC: PR 25884 revisions
  • 09bca24 BLD: package: pin meson on win-64 to avoid clang-cl bug (#25913)
  • 095fe56 DOC, BLD: PR 25884 revisions
  • e66ea64 DOC: update minimum GCC version in toolchain roadmap
  • c021653 TST: tolerance bumps and skips on 32-bit platforms
  • Additional commits viewable in compare view

Updates joblib from 1.5.3 to 1.6.0

Changelog

Sourced from joblib's changelog.

Release 1.6.0 - 2026/08/31

  • Fix caching of functions whose source cannot be retrieved, such as functions defined in a notebook cell. Their identity fell back to str(hash(func.__code__)), which is salted by PYTHONHASHSEED and so differed between processes. A worker reading the func_code.py written by another one concluded that the function had changed and wiped the whole cache directory for it, discarding results computed by its peers. func_code.py is also no longer rewritten in place, so a reader can no longer catch it half-written and draw the same conclusion. joblib/joblib#1694

  • Drop python 3.9 support. The oldest supported Python version is now Python 3.10. joblib/joblib#1773

  • Fix eval_expr (used to evaluate the pre_dispatch argument of Parallel) to raise a ValueError as documented instead of leaking a ZeroDivisionError for expressions that divide or take a modulo by zero. joblib/joblib#1810

  • MemorizedResult now forwards mmap_mode to its store backend, so a cached array reconstructed from a location is memory-mapped as requested instead of being loaded fully into memory. joblib/joblib#1799

  • Unvendor cloudpickle to more quickly benefit from maintenance releases of cloudpickle joblib/joblib#1775

  • Fix Memory.cache for functions with a keyword-only argument that has a default declared before a keyword-only argument without a default. joblib/joblib#1731

  • Fix behavior of filter_args on some precise cases. joblib/joblib#1800

  • Fix a concurrency error that could happen with unordered generator. joblib/joblib#1789

  • Fix: dump() now accepts any input os.PathLike object to be consistent with load. joblib/joblib#1812

  • The documentation now uses pydata sphinx theme. Furthermore, optional dependencies test and docs have been added to pyproject.toml. joblib/joblib#1774

  • Vendor loky 3.6.0

... (truncated)

Commits
  • cd9a6b0 Release 1.6.0 (#1844)
  • d873f97 MNT vendor loky 3.6.0 (#1843)
  • 4ff61af Bump the github-actions group with 4 updates (#1832)
  • 804f472 FIX make func_code stable across processes when the source is unavailable (#1...
  • 65cc49d TST Restore RNG sequence in hash compatibility test (#1837)
  • c1b6541 CI Use pytest-run-parallel on free-threaded build (#1819)
  • f6b80d3 MNT Simplify isinstance check in hashing (#1835)
  • fa4d5af MNT remove python 3.9 from CI (#1773)
  • 53cea7b DOC Update release docs to reflect usage of trusted publishing (#1826)
  • 26500e9 Bump the github-actions group across 1 directory with 3 updates (#1790)
  • Additional commits viewable in compare view

Updates numba from 0.66.0 to 0.67.0

Release notes

Sourced from numba's releases.

0.67.0

Major Numba release, adding NumPy 2.5 support. Please view the release notes here: https://numba.readthedocs.io/en/0.67.0/release/0.67.0-notes.html

Commits
  • 3190b91 Merge pull request #10772 from swap357/release0.67
  • f68f603 add current pr on 0.67 pr list
  • 86a975c update final release date for 0.67
  • c7f14cf Merge pull request #10726 from swap357/pin_deps_0.67
  • 123fa28 update test refs and pin dependencies for release0.67
  • 0c89330 Merge pull request #10724 from swap357/changelog_0.67
  • ffaa017 Merge pull request #10723 from swap357/update_version_support_table_0.67.0rc1
  • af0d879 fix wrapping on release notes
  • a5e4654 Update docs/source/release/0.67.0-notes.rst
  • e85720e Update docs/source/release/0.67.0-notes.rst
  • Additional commits viewable in compare view

Updates scikit-learn from 1.9.0 to 1.9.1

Release notes

Sourced from scikit-learn's releases.

Scikit-learn 1.9.1

We're happy to announce the 1.9.1 release.

This release contains a few bug fixes and is the first version supporting Python 3.15.

You can see the changelog here: https://scikit-learn.org/stable/whats_new/v1.9.html#version-1-9-1

You can upgrade with pip as usual:

pip install -U scikit-learn

The conda-forge builds can be installed using:

conda install -c conda-forge scikit-learn

Thanks to everyone who contributed to this release !

Commits
  • 866c0f5 generate changelog
  • 12f135f update upper bounds
  • 43ff2f2 bump version
  • b851524 DOC Mark dev index as orphan (#34916)
  • 01d56d4 DOC Fix wikipedia principal eigenvector example references (#34915)
  • b86a1e2 🔒 🤖 CI Update lock files for array-api CI build(s) 🔒 🤖 ...
  • d282698 🔒 🤖 CI Update lock files for main CI build(s) 🔒 🤖 (#34897)
  • eb34279 🔒 🤖 CI Update lock files for free-threaded CI build(s) 🔒 :rob...
  • 7581303 FIX: Fix QuantileTransformer(ignore_implicit_zeros=True) sub-sampling behav...
  • ac47f4d FIX: avoid EfficiencyWarning in OPTICS with metric='precomputed' (#34692)
  • Additional commits viewable in compare view

Updates ruff from 0.16.0 to 0.16.7

Release notes

Sourced from ruff's releases.

0.16.7

Release Notes

Released on 2026-09-10.

Preview features

  • [ruff] Add rule for default values on method receivers (RUF077) (#26700)
  • [ruff] Recognize re.prefixmatch (RUF039, RUF055) (#28311)

Bug fixes

  • Alternate nested quotes inside format spec interpolations (#28259)
  • [flake8-implicit-str-concat] Mark fix unsafe when it creates a docstring (ISC003) (#27981)
  • [flake8-tidy-imports] Skip fixes for multi-member imports (TID254) (#26584)
  • [pylint] Gate ImportCycleError on Python 3.15 (PLW0133) (#28310)

Rule changes

  • Correct D211 and D203 rule conflict diagnostic (#28444)
  • Recognize slice and frozendict generics (#28477)
  • Stop defining __cached__ for Python 3.15 (#28476)
  • [pyupgrade] Stop recommending removed typing.no_type_check_decorator (UP035) (#28475)

Performance

  • Reuse parser name lookups when interning (#28399)
  • Speed up inherited configuration resolution (#28299)

Documentation

  • Fix line-length path in --config example (#28392)
  • Remove the "Who’s Using Ruff?" list (#28455)

Other changes

  • Embed archive checksums in the shell installer (#28281)

Contributors

... (truncated)

Changelog

Sourced from ruff's changelog.

0.16.7

Released on 2026-09-10.

Preview features

  • [ruff] Add rule for default values on method receivers (RUF077) (#26700)
  • [ruff] Recognize re.prefixmatch (RUF039, RUF055) (#28311)

Bug fixes

  • Alternate nested quotes inside format spec interpolations (#28259)
  • [flake8-implicit-str-concat] Mark fix unsafe when it creates a docstring (ISC003) (#27981)
  • [flake8-tidy-imports] Skip fixes for multi-member imports (TID254) (#26584)
  • [pylint] Gate ImportCycleError on Python 3.15 (PLW0133) (#28310)

Rule changes

  • Correct D211 and D203 rule conflict diagnostic (#28444)
  • Recognize slice and frozendict generics (#28477)
  • Stop defining __cached__ for Python 3.15 (#28476)
  • [pyupgrade] Stop recommending removed typing.no_type_check_decorator (UP035) (#28475)

Performance

  • Reuse parser name lookups when interning (#28399)
  • Speed up inherited configuration resolution (#28299)

Documentation

  • Fix line-length path in --config example (#28392)
  • Remove the "Who’s Using Ruff?" list (#28455)

Other changes

  • Embed archive checksums in the shell installer (#28281)

Contributors

... (truncated)

Commits

Updates ty from 0.0.63 to 0.0.80

Release notes

Sourced from ty's releases.

0.0.80

Release Notes

Released on 2026-09-09.

Bug fixes

  • Fix --force-exclude for directories with an excluded ancestor (#28451)
  • Preserve metaclass candidates after conflicts (#28461)

LSP server

  • Give existing autofixes descriptive titles (#28456)
  • Prevent LSP hangs during inlay hint bursts (#28390)

Diagnostic improvements

  • Preserve redundant-condition diagnostics with unreachable operands (#28374)

Core type checking

  • Check captured receivers when calling wrapped classmethods (#28467)
  • Fix cached classmethods on generic classes (#28207)
  • Fix disjointness of type guards and boolean literals (#28363)
  • Infer tuple variance from the full tuple spec (#28446)
  • Infer tuple variance more precisely (#28426)
  • Preserve callable identity across specialized types (#28409)
  • Preserve callback type context through ParamSpec forwarding (#28439)
  • Preserve wrapped functions in precise functools.partial relations (#28460)
  • Respect descriptor protocol for __set__ itself (#28408)
  • Respect type-variable bounds in argument context (#28448)
  • Unwrap union alternatives in overload implementations (#28468)

Performance

  • Distribute len inference over unions (#28470)
  • Fast-path concrete literal intersections (#28348)

Memory usage improvements

  • Avoid excess capacity in multi-binding tables (#28412)
  • Share equivalent place tables within a file (#28319)
  • Share names in synthesized constructor parameters (#28398)

Contributors

... (truncated)

Changelog

Sourced from ty's changelog.

0.0.80

Released on 2026-09-09.

Bug fixes

  • Fix --force-exclude for directories with an excluded ancestor (#28451)
  • Preserve metaclass candidates after conflicts (#28461)

LSP server

  • Give existing autofixes descriptive titles (#28456)
  • Prevent LSP hangs during inlay hint bursts (#28390)

Diagnostic improvements

  • Preserve redundant-condition diagnostics with unreachable operands (#28374)

Core type checking

  • Check captured receivers when calling wrapped classmethods (#28467)
  • Fix cached classmethods on generic classes (#28207)
  • Fix disjointness of type guards and boolean literals (#28363)
  • Infer tuple variance from the full tuple spec (#28446)
  • Infer tuple variance more precisely (#28426)
  • Preserve callable identity across specialized types (#28409)
  • Preserve callback type context through ParamSpec forwarding (#28439)
  • Preserve wrapped functions in precise functools.partial relations (#28460)
  • Respect descriptor protocol for __set__ itself (#28408)
  • Respect type-variable bounds in argument context (#28448)
  • Unwrap union alternatives in overload implementations (#28468)

Performance

  • Distribute len inference over unions (#28470)
  • Fast-path concrete literal intersections (#28348)

Memory usage improvements

  • Avoid excess capacity in multi-binding tables (#28412)
  • Share equivalent place tables within a file (#28319)
  • Share names in synthesized constructor parameters (#28398)

Contributors

... (truncated)

Commits

Updates pre-commit from 4.6.1 to 4.6.2

Release notes

Sourced from pre-commit's releases.

pre-commit v4.6.2

Fixes

Changelog

Sourced from pre-commit's changelog.

4.6.2 - 2026-08-10

Fixes

Commits

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@dependabot
chore(deps)(deps): Bump the python-dependencies group across 1 direct…
4e88265 
…ory with 9 updates

Bumps the python-dependencies group with 8 updates in the / directory:

| Package | From | To |
| --- | --- | --- |
| [numpy](https://github.com/numpy/numpy) | `2.4.6` | `2.5.3` |
| [polars](https://github.com/pola-rs/polars) | `1.43.0` | `1.44.2` |
| [scipy](https://github.com/scipy/scipy) | `1.18.0` | `1.18.1` |
| [joblib](https://github.com/joblib/joblib) | `1.5.3` | `1.6.0` |
| [scikit-learn](https://github.com/scikit-learn/scikit-learn) | `1.9.0` | `1.9.1` |
| [ruff](https://github.com/astral-sh/ruff) | `0.16.0` | `0.16.7` |
| [ty](https://github.com/astral-sh/ty) | `0.0.63` | `0.0.80` |
| [pre-commit](https://github.com/pre-commit/pre-commit) | `4.6.1` | `4.6.2` |



Updates `numpy` from 2.4.6 to 2.5.3
- [Release notes](https://github.com/numpy/numpy/releases)
- [Changelog](https://github.com/numpy/numpy/blob/main/doc/RELEASE_WALKTHROUGH.rst)
- [Commits](numpy/numpy@v2.4.6...v2.5.3)

Updates `polars` from 1.43.0 to 1.44.2
- [Release notes](https://github.com/pola-rs/polars/releases)
- [Commits](pola-rs/polars@py-1.43.0...py-1.44.2)

Updates `scipy` from 1.18.0 to 1.18.1
- [Release notes](https://github.com/scipy/scipy/releases)
- [Commits](scipy/scipy@v1.18.0...v1.18.1)

Updates `joblib` from 1.5.3 to 1.6.0
- [Release notes](https://github.com/joblib/joblib/releases)
- [Changelog](https://github.com/joblib/joblib/blob/main/CHANGES.rst)
- [Commits](joblib/joblib@1.5.3...1.6.0)

Updates `numba` from 0.66.0 to 0.67.0
- [Release notes](https://github.com/numba/numba/releases)
- [Commits](numba/numba@0.66.0...0.67.0)

Updates `scikit-learn` from 1.9.0 to 1.9.1
- [Release notes](https://github.com/scikit-learn/scikit-learn/releases)
- [Commits](scikit-learn/scikit-learn@1.9.0...1.9.1)

Updates `ruff` from 0.16.0 to 0.16.7
- [Release notes](https://github.com/astral-sh/ruff/releases)
- [Changelog](https://github.com/astral-sh/ruff/blob/main/CHANGELOG.md)
- [Commits](astral-sh/ruff@0.16.0...0.16.7)

Updates `ty` from 0.0.63 to 0.0.80
- [Release notes](https://github.com/astral-sh/ty/releases)
- [Changelog](https://github.com/astral-sh/ty/blob/main/CHANGELOG.md)
- [Commits](astral-sh/ty@0.0.63...0.0.80)

Updates `pre-commit` from 4.6.1 to 4.6.2
- [Release notes](https://github.com/pre-commit/pre-commit/releases)
- [Changelog](https://github.com/pre-commit/pre-commit/blob/main/CHANGELOG.md)
- [Commits](pre-commit/pre-commit@v4.6.1...v4.6.2)

---
updated-dependencies:
- dependency-name: numpy
  dependency-version: 2.5.3
  dependency-type: direct:production
  update-type: version-update:semver-minor
  dependency-group: python-dependencies
- dependency-name: polars
  dependency-version: 1.44.2
  dependency-type: direct:production
  update-type: version-update:semver-minor
  dependency-group: python-dependencies
- dependency-name: scipy
  dependency-version: 1.18.1
  dependency-type: direct:production
  update-type: version-update:semver-patch
  dependency-group: python-dependencies
- dependency-name: joblib
  dependency-version: 1.6.0
  dependency-type: direct:production
  update-type: version-update:semver-minor
  dependency-group: python-dependencies
- dependency-name: numba
  dependency-version: 0.67.0
  dependency-type: direct:production
  update-type: version-update:semver-minor
  dependency-group: python-dependencies
- dependency-name: scikit-learn
  dependency-version: 1.9.1
  dependency-type: direct:production
  update-type: version-update:semver-patch
  dependency-group: python-dependencies
- dependency-name: ruff
  dependency-version: 0.16.7
  dependency-type: direct:production
  update-type: version-update:semver-patch
  dependency-group: python-dependencies
- dependency-name: ty
  dependency-version: 0.0.80
  dependency-type: direct:production
  update-type: version-update:semver-patch
  dependency-group: python-dependencies
- dependency-name: pre-commit
  dependency-version: 4.6.2
  dependency-type: direct:production
  update-type: version-update:semver-patch
  dependency-group: python-dependencies
...

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