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Bump the python-packages group across 1 directory with 4 updates#116

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Bump the python-packages group across 1 directory with 4 updates#116
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dependabot/uv/python-packages-2031d32b60

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Bumps the python-packages group with 4 updates in the / directory: polars, pycytominer, pytest and ruff.

Updates polars from 1.40.1 to 1.42.1

Release notes

Sourced from polars's releases.

Python Polars 1.42.1

⚠️ Deprecations

  • Deprecate strict parameter of pl.concat, replace with new how='horizontal_extend' (#27965)

🚀 Performance improvements

  • Add a sampled resolve mode for multi-file parquet metadata (#28111)
  • Speed up small dtype series sums with a upcast sum kernel (#27958)
  • Don't block on path expansion (#28073)

✨ Enhancements

  • Close ResourceWarning leaks in database tests (#28066)

🐞 Bug fixes

  • Incorrect sorted fast-path returning nan for grouped max (#28129)
  • Fix panic on scan_parquet filter of fixed-size binary column (#28122)
  • Fix decimal dynamic float cast (#28126)
  • Fix pyiceberg key dot HDFS prefix filter (#28109)
  • Fix projection pushdown panic on select(len()) after groupby (#28108)
  • Fully resolve remaining ResourceWarning leaks in database/iceberg tests (#28107)
  • Expiry time loading for AWS DeferredRefreshableCredentials (#28099)
  • Close ResourceWarning leaks in database tests (#28066)
  • Avoid panic on temporal extraction for datetime columns with nulls (#28054)
  • Prevent panic in replace when old/new contain Expr or object dtype values (#27433)

📖 Documentation

  • Fix dataset regression in the examples (#28131)
  • Emphasize to generally not ever write Rust tests (#28082)
  • Mention Polars skill in User Guide's LLM section (#28113)

🛠️ Other improvements

  • Disallow usage of tokio::spawn in clippy (#28123)
  • Improve Makefile with respect to venv robustness (#28110)
  • Remove legacy prelude glob imports from leaf files (#28114)
  • Skip pandas 3.0.4 due to pd.TimeDelta segfault (#28125)
  • Update mypy to the new 2.x release (#28116)
  • Ensure pyrefly checks run as part of make pre-commit (#28095)
  • Fix test_select_explode_height_filter_order_by failure when POLARS_MAX_THREADS=2 (#28090)
  • Add Morsel::height (#28060)

Thank you to all our contributors for making this release possible! @​0guban0v, @​Kevin-Patyk, @​TNieuwdorp, @​alexander-beedie, @​azimafroozeh, @​dsprenkels, @​kdn36, @​nameexhaustion, @​orlp, @​raphaelroshan, @​ritchie46 and @​sar-cheng

Python Polars 1.42.0

⚠️ Deprecations

... (truncated)

Commits
  • 0df0c25 Python Polars 1.42.1 (#28128)
  • 876bfb8 docs: Fix dataset regression in the examples (#28131)
  • 07560f7 chore(rust): Disallow usage of tokio::spawn in clippy (#28123)
  • aa5d073 fix: Incorrect sorted fast-path returning nan for grouped max (#28129)
  • a2f2559 docs: Emphasize to generally not ever write Rust tests (#28082)
  • 156e7f5 chore(python): Improve Makefile with respect to venv robustness (#28110)
  • fc09271 fix: Fix panic on scan_parquet filter of fixed-size binary column (#28122)
  • 3dce32b docs: Mention Polars skill in User Guide's LLM section (#28113)
  • bd27f24 refactor(rust): Remove legacy prelude glob imports from leaf files (#28114)
  • 853a398 fix: Fix decimal dynamic float cast (#28126)
  • Additional commits viewable in compare view

Updates pycytominer from 1.4.0 to 1.6.1

Release notes

Sourced from pycytominer's releases.

v1.6.1 (2026-06-17)

Changes

v1.6.0 (2026-06-06)

Changes

v1.5.1 (2026-05-30)

What's Changed

Full Changelog: cytomining/pycytominer@v1.5.0...v1.5.1

v1.5.0 (2026-05-22)

What's Changed

... (truncated)

Commits

Updates pytest from 9.0.3 to 9.1.1

Release notes

Sourced from pytest's releases.

9.1.1

pytest 9.1.1 (2026-06-19)

Bug fixes

  • #14220: Fixed a logic bug in pytest.RaisesGroup which would might cause it to display incorrect "It matches FooError() which was paired with BarError" messages.
  • #14591: Fixed a regression in pytest 9.1.0 which caused overriding a parametrized fixture with an indirect @​pytest.mark.parametrize to fail with "duplicate parametrization of '<fixture name>'".
  • #14606: Fixed list-item typing errors from mypy in @pytest.mark.parametrize <pytest.mark.parametrize ref> argvalues parameter.
  • #14608: Fixed a regression in pytest 9.1.0 where conftest.py files located in <invocation dir>/test* were no longer loaded as initial conftests when invoked without arguments. This could cause certain hooks (like pytest_addoption) in these files to not fire.

9.1.0

pytest 9.1.0 (2026-06-13)

Removals and backward incompatible breaking changes

  • #14533: When using --doctest-modules, autouse fixtures with module, package or session scope that are defined inline in Python test modules (not plugins or conftests) will now possibly execute twice.

    If this is undesirable, move the fixture definition to a conftest.py file if possible.

    Technical explanation for those interested: When using --doctest-modules, pytest possibly collects Python modules twice, once as pytest.Module and once as a DoctestModule (depending on the configuration). Due to improvements in pytest's fixture implementation, if e.g. the DoctestModule collects a fixture, it is now visible to it only, and not to the Module. This means that both need to register the fixtures independently.

Deprecations (removal in next major release)

  • #10819: Added a deprecation warning for class-scoped fixtures defined as instance methods (without @classmethod). Such fixtures set attributes on a different instance than the test methods use, leading to unexpected behavior. Use @classmethod decorator instead -- by yastcher.

    See 10819 and 14011.

  • #12882: Calling request.getfixturevalue() <pytest.FixtureRequest.getfixturevalue> during teardown to request a fixture that was not already requested is now deprecated and will become an error in pytest 10.

    See dynamic-fixture-request-during-teardown for details.

  • #13409: Using non-~collections.abc.Collection iterables (such as generators, iterators, or custom iterable objects) for the argvalues parameter in @pytest.mark.parametrize <pytest.mark.parametrize ref> and metafunc.parametrize <pytest.Metafunc.parametrize> is now deprecated.

    These iterables get exhausted after the first iteration, leading to tests getting unexpectedly skipped in cases such as running pytest.main() multiple times, using class-level parametrize decorators, or collecting tests multiple times.

    See parametrize-iterators for details and suggestions.

  • #13946: The private config.inicfg attribute is now deprecated. Use config.getini() <pytest.Config.getini> to access configuration values instead.

    See config-inicfg for more details.

  • #14004: Passing baseid to ~pytest.FixtureDef or nodeid strings to fixture registration APIs is now deprecated. These are internal pytest APIs that are used by some plugins.

... (truncated)

Commits
  • cf470ec Prepare release version 9.1.1
  • e0c8ce6 Merge pull request #14625 from pytest-dev/patchback/backports/9.1.x/a07c31a97...
  • 1b82d16 Merge pull request #14624 from pytest-dev/patchback/backports/9.1.x/b375b79ec...
  • 501c4bc Merge pull request #14596 from bluetech/doc-classmethod
  • b61f588 Merge pull request #14622 from chrisburr/fix-14608-initial-conftest-test-subdir
  • 9a567e0 [automated] Update plugin list (#14617) (#14618)
  • ef8b299 Merge pull request #14620 from pytest-dev/patchback/backports/9.1.x/680f9f3ed...
  • 66abd07 Merge pull request #14220 from bysiber/fix-stale-iexp-raisesgroup
  • 79fbf93 Merge pull request #14612 from pytest-dev/patchback/backports/9.1.x/974ed48b6...
  • 0d312eb Merge pull request #14611 from bluetech/parametrize-argvalues-typing
  • Additional commits viewable in compare view

Updates ruff from 0.15.12 to 0.15.20

Release notes

Sourced from ruff's releases.

0.15.20

Release Notes

Released on 2026-06-25.

Preview features

  • Allow human-readable names in rule selectors (#25887)
  • Emit a warning instead of an error for unknown rule selectors (#26113)
  • Match noqa shebang handling in ruff:ignore comments (#26286)
  • [ruff] Remove pytest-fixture-autouse (RUF076) (#26240, #26371)

Documentation

  • Add versioning sections to custom crate READMEs (#26317)
  • Update ruff_python_parser README for crates.io (#26315)
  • [perflint] Clarify that PERF402 applies to any iterable (#26242)

Contributors

Install ruff 0.15.20

Install prebuilt binaries via shell script

curl --proto '=https' --tlsv1.2 -LsSf https://releases.astral.sh/github/ruff/releases/download/0.15.20/ruff-installer.sh | sh

Install prebuilt binaries via powershell script

powershell -ExecutionPolicy Bypass -c "irm https://releases.astral.sh/github/ruff/releases/download/0.15.20/ruff-installer.ps1 | iex"

Download ruff 0.15.20

File Platform Checksum
ruff-aarch64-apple-darwin.tar.gz Apple Silicon macOS checksum
ruff-x86_64-apple-darwin.tar.gz Intel macOS checksum
ruff-aarch64-pc-windows-msvc.zip ARM64 Windows checksum
ruff-i686-pc-windows-msvc.zip x86 Windows checksum
ruff-x86_64-pc-windows-msvc.zip x64 Windows checksum
ruff-aarch64-unknown-linux-gnu.tar.gz ARM64 Linux checksum
ruff-i686-unknown-linux-gnu.tar.gz x86 Linux checksum

... (truncated)

Changelog

Sourced from ruff's changelog.

0.15.20

Released on 2026-06-25.

Preview features

  • Allow human-readable names in rule selectors (#25887)
  • Emit a warning instead of an error for unknown rule selectors (#26113)
  • Match noqa shebang handling in ruff:ignore comments (#26286)
  • [ruff] Remove pytest-fixture-autouse (RUF076) (#26240, #26371)

Documentation

  • Add versioning sections to custom crate READMEs (#26317)
  • Update ruff_python_parser README for crates.io (#26315)
  • [perflint] Clarify that PERF402 applies to any iterable (#26242)

Contributors

0.15.19

Released on 2026-06-23.

Preview features

  • Support human-readable names when hovering suppression comments and in code actions (#26114)

Bug fixes

  • Fall back to default settings when editor-only settings are invalid (#26244)
  • Fix panic when inserting text at a notebook cell boundary (#26111)

Rule changes

  • [pylint] Update fix suggestions for __floor__, __trunc__, __length_hint__, and __matmul__ variants (PLC2801) (#26239)

Performance

  • Avoid allocating when parsing single string literals (#26200)
  • Avoid reallocating singleton call arguments (#26223)
  • Lazily create source files for lint diagnostics (#26226)
  • Optimize formatter text width and indentation (#26236)
  • Reserve capacity for builtin bindings (#26229)
  • Skip repeated-key checks for singleton dictionaries (#26228)
  • Use ArrayVec for qualified name segments (#26224)

... (truncated)

Commits
  • f82a36b Bump 0.15.20 (#26376)
  • af32943 Improve the summarise-ecosystem-results skill (#26378)
  • 485ebab Remove RUF076 name from schema (#26371)
  • ef81835 [ty] Implement rust-analyzer's "Click for full compiler diagnostic" feature (...
  • 572b31e [ruff] Remove pytest-fixture-autouse (RUF076) (#26240)
  • f703f21 Allow human-readable names in rule selectors (#25887)
  • 0d726b2 [ty] Reuse equality semantics for membership compatibility (#25955)
  • dbe6e98 [ty] Infer definite equality comparison results (#26337)
  • e700ea3 [ty] Prove TypedDict structural patterns exhaustive (#26285)
  • 6a0d2ec [ty] Widen inferred class-valued instance attributes (#26338)
  • Additional commits viewable in compare view

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@dependabot
Bump the python-packages group across 1 directory with 4 updates
02957b1 
Bumps the python-packages group with 4 updates in the / directory: [polars](https://github.com/pola-rs/polars), [pycytominer](https://github.com/cytomining/pycytominer), [pytest](https://github.com/pytest-dev/pytest) and [ruff](https://github.com/astral-sh/ruff).


Updates `polars` from 1.40.1 to 1.42.1
- [Release notes](https://github.com/pola-rs/polars/releases)
- [Commits](pola-rs/polars@py-1.40.1...py-1.42.1)

Updates `pycytominer` from 1.4.0 to 1.6.1
- [Release notes](https://github.com/cytomining/pycytominer/releases)
- [Commits](cytomining/pycytominer@v1.4.0...v1.6.1)

Updates `pytest` from 9.0.3 to 9.1.1
- [Release notes](https://github.com/pytest-dev/pytest/releases)
- [Changelog](https://github.com/pytest-dev/pytest/blob/main/CHANGELOG.rst)
- [Commits](pytest-dev/pytest@9.0.3...9.1.1)

Updates `ruff` from 0.15.12 to 0.15.20
- [Release notes](https://github.com/astral-sh/ruff/releases)
- [Changelog](https://github.com/astral-sh/ruff/blob/main/CHANGELOG.md)
- [Commits](astral-sh/ruff@0.15.12...0.15.20)

---
updated-dependencies:
- dependency-name: polars
  dependency-version: 1.42.1
  dependency-type: direct:production
  update-type: version-update:semver-minor
  dependency-group: python-packages
- dependency-name: pycytominer
  dependency-version: 1.6.1
  dependency-type: direct:production
  update-type: version-update:semver-minor
  dependency-group: python-packages
- dependency-name: pytest
  dependency-version: 9.1.1
  dependency-type: direct:development
  update-type: version-update:semver-minor
  dependency-group: python-packages
- dependency-name: ruff
  dependency-version: 0.15.20
  dependency-type: direct:development
  update-type: version-update:semver-patch
  dependency-group: python-packages
...

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@dependabot dependabot Bot added dependencies Pull requests that update a dependency file python:uv Pull requests that update python:uv code labels Jul 1, 2026
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