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Bump the python-packages group across 1 directory with 10 updates #119

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Bumps the python-packages group with 10 updates in the / directory:

Package From To
jsonschema 4.25.1 4.26.0
nmdc-api-utilities 0.4.2 0.6.0
pydantic-settings 2.10.1 2.12.0
pymongo 4.14.1 4.16.0
scalar-fastapi 1.4.1 1.6.1
uvicorn 0.35.0 0.40.0
pre-commit 4.3.0 4.5.1
pyright 1.1.404 1.1.408
pytest 8.4.1 9.0.2
ruff 0.12.11 0.14.14

Updates jsonschema from 4.25.1 to 4.26.0

Release notes

Sourced from jsonschema's releases.

v4.26.0

What's Changed

New Contributors

Full Changelog: python-jsonschema/jsonschema@v4.25.1...v4.26.0

Changelog

Sourced from jsonschema's changelog.

v4.26.0

  • Decrease import time by delaying importing of urllib.request (#1416).
Commits
  • a727743 Add a changelog entry for 4.26.
  • 6d28c13 Update the lockfile.
  • 739499e Update pre-commit hooks.
  • cb2d779 Merge pull request #1443 from python-jsonschema/pre-commit-ci-update-config
  • e6bbbb7 [pre-commit.ci] pre-commit autoupdate
  • d56037a Merge pull request #1442 from python-jsonschema/dependabot/github_actions/ast...
  • e54ce13 Bump astral-sh/setup-uv from 7.1.4 to 7.1.6
  • 1f7c9fb Partially update docs requirements.
  • 241aec9 Merge pull request #1441 from python-jsonschema/pre-commit-ci-update-config
  • 2818efb Apache-2.0 -> nongpl
  • Additional commits viewable in compare view

Updates nmdc-api-utilities from 0.4.2 to 0.6.0

Updates pydantic-settings from 2.10.1 to 2.12.0

Release notes

Sourced from pydantic-settings's releases.

v2.12.0

What's Changed

New Contributors

Full Changelog: pydantic/pydantic-settings@v2.11.0...v2.12.0

v2.11.0

What's Changed

New Contributors

Full Changelog: pydantic/pydantic-settings@2.10.1...v2.11.0

Commits

Updates pymongo from 4.14.1 to 4.16.0

Release notes

Sourced from pymongo's releases.

PyMongo 4.16.0

Community notes:

PyMongo 4.15.5

Community notes: https://www.mongodb.com/community/forums/t/pymongo-4-15-5-released/332185

PyMongo 4.15.4

Community notes: https://www.mongodb.com/community/forums/t/pymongo-4-15-4-released/331292

PyMongo 4.15.3

Community notes: https://www.mongodb.com/community/forums/t/pymongo-4-15-3-released/329778

PyMongo 4.15.2

Community notes: https://www.mongodb.com/community/forums/t/pymongo-4-15-2-released/329543

PyMongo 4.15.1

Community notes: https://www.mongodb.com/community/forums/t/pymongo-4-15-1-released/328837

PyMongo 4.15.0

Community notes: https://www.mongodb.com/community/forums/t/pymongo-4-15-released/328574

Changelog

Sourced from pymongo's changelog.

Changes in Version 4.16.0 (2026/01/07)

PyMongo 4.16 brings a number of changes including:

  • Removed invalid documents from :class:bson.errors.InvalidDocument error messages as doing so may leak sensitive user data. Instead, invalid documents are stored in :attr:bson.errors.InvalidDocument.document.
  • PyMongo now requires dnspython>=2.6.1, since dnspython 1.0 is no longer maintained. The minimum version is 2.6.1 to account for CVE-2023-29483 <https://www.cve.org/CVERecord?id=CVE-2023-29483>_.
  • Removed support for Eventlet. Eventlet is actively being sunset by its maintainers and has compatibility issues with PyMongo's dnspython dependency.
  • Use Zstandard support from the standard library for Python 3.14+, and use backports.zstd for older versions.
  • Fixed return type annotation for find_one_and_* methods on :class:~pymongo.asynchronous.collection.AsyncCollection and :class:~pymongo.synchronous.collection.Collection to include None.
  • Added support for NumPy 1D-arrays in :class:bson.binary.BinaryVector.
  • Prevented :class:~pymongo.encryption.ClientEncryption from loading the crypt shared library to fix "MongoCryptError: An existing crypt_shared library is loaded by the application" unless the linked library search path is set.

Changes in Version 4.15.5 (2025/12/02)

Version 4.15.5 is a bug fix release.

  • Fixed a bug that could cause AutoReconnect("connection pool paused") errors when cursors fetched more documents from the database after SDAM heartbeat failures.

Changes in Version 4.15.4 (2025/10/21)

Version 4.15.4 is a bug fix release.

  • Relaxed the callback type of :meth:~pymongo.asynchronous.client_session.AsyncClientSession.with_transaction to allow the broader Awaitable type rather than only Coroutine objects.
  • Added the missing Python 3.14 trove classifier to the package metadata.

Issues Resolved ...............

See the PyMongo 4.15.4 release notes in JIRA_ for the list of resolved issues in this release.

.. _PyMongo 4.15.4 release notes in JIRA: https://jira.mongodb.org/secure/ReleaseNote.jspa?projectId=10004&version=47237

Changes in Version 4.15.3 (2025/10/07)

Version 4.15.3 is a bug fix release.

  • Fixed a memory leak when raising :class:bson.errors.InvalidDocument with C extensions.
  • Fixed the return type of the :meth:~pymongo.asynchronous.collection.AsyncCollection.distinct,

... (truncated)

Commits
  • 3290101 Prepare 4.16.0 release (#2672)
  • 1be94d2 PYTHON-5685 Fix unified spec sync metadata for csot and sessions tests (#2669)
  • 6585d9c PYTHON-2442: Refactor: use _asdict() in _options_dict() (#2670)
  • fdb1f7e PYTHON-5677 Prevent ClientEncryption from loading crypt shared library (#2659)
  • 0cd9763 Bump zizmorcore/zizmor-action from cb3d8e846e148d1111d90b03375b9c03deceda37 t...
  • 2f263d4 PYTHON-5680 Fix handling of expectedDocuments in Unified Test Runner (#2665)
  • e9658b2 Add 4.15.5 release date to changelog (#2666)
  • 10dd204 Update coverage[toml] requirement from <=7.10.6,>=5 to >=5,<=7.10.7 (#2662)
  • 1300677 [Spec Resync] 12-22-2025 (#2663)
  • 18c1f14 PYTHON-5529 Introduce optin setting to await for MinPoolSize population (#2664)
  • Additional commits viewable in compare view

Updates scalar-fastapi from 1.4.1 to 1.6.1

Release notes

Sourced from scalar-fastapi's releases.

Release 2026-01-31

Releases

@​scalar/nuxt@​0.5.63

Patch Changes

Updated Dependencies

  • @​scalar/api-reference@​1.44.6
    • #8010: fix: use proper computed property

@​scalar/api-reference@​1.44.6

Patch Changes

  • #8010: fix: use proper computed property

@​scalar/api-reference-react@​0.8.43

Patch Changes

Updated Dependencies

  • @​scalar/api-reference@​1.44.6
    • #8010: fix: use proper computed property

@​scalar/fastify-api-reference@​1.44.6

@​scalarapi/docker-api-reference@​0.4.45

Patch Changes

Updated Dependencies

  • @​scalar/api-reference@​1.44.6
    • #8010: fix: use proper computed property

@​scalar/aspire@​0.8.36

Patch Changes

Updated Dependencies

  • @​scalar/api-reference@​1.44.6
    • #8010: fix: use proper computed property

@​scalar/aspnetcore@​2.12.27

... (truncated)

Commits

Updates uvicorn from 0.35.0 to 0.40.0

Release notes

Sourced from uvicorn's releases.

Version 0.40.0

What's Changed

Full Changelog: Kludex/uvicorn@0.39.0...0.40.0

Version 0.39.0

What's Changed

New Contributors

Full Changelog: Kludex/uvicorn@0.38.0...0.39.0

Version 0.38.0

What's Changed

New Contributors

Full Changelog: Kludex/uvicorn@0.37.0...0.38.0

Version 0.37.0

What's Changed

New Contributors

Full Changelog: Kludex/uvicorn@0.36.1...0.37.0

Version 0.36.1

What's Changed

Full Changelog: Kludex/uvicorn@0.36.0...0.36.1

Version 0.36.0

Added

... (truncated)

Changelog

Sourced from uvicorn's changelog.

0.40.0 (December 21, 2025)

Remove

  • Drop support for Python 3.9 (#2772)

0.39.0 (December 21, 2025)

Fixed

  • Send close frame on ASGI return for WebSockets (#2769)
  • Explicitly start ASGI run with empty context (#2742)

0.38.0 (October 18, 2025)

Added

  • Support Python 3.14 (#2723)

0.37.0 (September 23, 2025)

Added

  • Add --timeout-worker-healthcheck option (#2711)
  • Add os.PathLike[str] type to ssl_ca_certs (#2676)

0.36.1 (September 23, 2025)

Fixed

  • Raise an exception when calling removed Config.setup_event_loop() (#2709)

0.36.0 (September 20, 2025)

Added

  • Support custom IOLOOPs (#2435)
  • Allow to provide importable string in --http, --ws and --loop (#2658)
Commits

Updates pre-commit from 4.3.0 to 4.5.1

Release notes

Sourced from pre-commit's releases.

pre-commit v4.5.1

Fixes

  • Fix language: python with repo: local without additional_dependencies.

pre-commit v4.5.0

Features

pre-commit v4.4.0

Features

Fixes

Changelog

Sourced from pre-commit's changelog.

4.5.1 - 2025-12-16

Fixes

  • Fix language: python with repo: local without additional_dependencies.

4.5.0 - 2025-11-22

Features

4.4.0 - 2025-11-08

Features

Fixes

Commits
  • 8a0630c v4.5.1
  • fcbc745 Merge pull request #3597 from pre-commit/empty-setup-py
  • 51592ee fix python local template when artifact dirs are present
  • 67e8faf Merge pull request #3596 from pre-commit/pre-commit-ci-update-config
  • c251e6b [pre-commit.ci] pre-commit autoupdate
  • 98ccafa Merge pull request #3593 from pre-commit/pre-commit-ci-update-config
  • 4895355 [pre-commit.ci] pre-commit autoupdate
  • 2cedd58 Merge pull request #3588 from pre-commit/pre-commit-ci-update-config
  • 465192d [pre-commit.ci] pre-commit autoupdate
  • fd42f96 Merge pull request #3586 from pre-commit/zipapp-sha256-file-not-needed
  • Additional commits viewable in compare view

Updates pyright from 1.1.404 to 1.1.408

Commits

Updates pytest from 8.4.1 to 9.0.2

Release notes

Sourced from pytest's releases.

9.0.2

pytest 9.0.2 (2025-12-06)

Bug fixes

  • #13896: The terminal progress feature added in pytest 9.0.0 has been disabled by default, except on Windows, due to compatibility issues with some terminal emulators.

    You may enable it again by passing -p terminalprogress. We may enable it by default again once compatibility improves in the future.

    Additionally, when the environment variable TERM is dumb, the escape codes are no longer emitted, even if the plugin is enabled.

  • #13904: Fixed the TOML type of the tmp_path_retention_count settings in the API reference from number to string.

  • #13946: The private config.inicfg attribute was changed in a breaking manner in pytest 9.0.0. Due to its usage in the ecosystem, it is now restored to working order using a compatibility shim. It will be deprecated in pytest 9.1 and removed in pytest 10.

  • #13965: Fixed quadratic-time behavior when handling unittest subtests in Python 3.10.

Improved documentation

  • #4492: The API Reference now contains cross-reference-able documentation of pytest's command-line flags <command-line-flags>.

9.0.1

pytest 9.0.1 (2025-11-12)

Bug fixes

  • #13895: Restore support for skipping tests via raise unittest.SkipTest.
  • #13896: The terminal progress plugin added in pytest 9.0 is now automatically disabled when iTerm2 is detected, it generated desktop notifications instead of the desired functionality.
  • #13904: Fixed the TOML type of the verbosity settings in the API reference from number to string.
  • #13910: Fixed UserWarning: Do not expect file_or_dir on some earlier Python 3.12 and 3.13 point versions.

Packaging updates and notes for downstreams

  • #13933: The tox configuration has been adjusted to make sure the desired version string can be passed into its package_env through the SETUPTOOLS_SCM_PRETEND_VERSION_FOR_PYTEST environment variable as a part of the release process -- by webknjaz.

Contributor-facing changes

  • #13891, #13942: The CI/CD part of the release automation is now capable of creating GitHub Releases without having a Git checkout on disk -- by bluetech and webknjaz.
  • #13933: The tox configuration has been adjusted to make sure the desired version string can be passed into its package_env through the SETUPTOOLS_SCM_PRETEND_VERSION_FOR_PYTEST environment variable as a part of the release process -- by webknjaz.

... (truncated)

Commits
  • 3d10b51 Prepare release version 9.0.2
  • 188750b Merge pull request #14030 from pytest-dev/patchback/backports/9.0.x/1e4b01d1f...
  • b7d7bef Merge pull request #14014 from bluetech/compat-note
  • bd08e85 Merge pull request #14013 from pytest-dev/patchback/backports/9.0.x/922b60377...
  • bc78386 Add CLI options reference documentation (#13930)
  • 5a4e398 Fix docs typo (#14005) (#14008)
  • d7ae6df Merge pull request #14006 from pytest-dev/maintenance/update-plugin-list-tmpl...
  • 556f6a2 pre-commit: fix rst-lint after new release (#13999) (#14001)
  • c60fbe6 Fix quadratic-time behavior when handling unittest subtests in Python 3.10 ...
  • 73d9b01 Merge pull request #13995 from nicoddemus/patchback/backports/9.0.x/1b5200c0f...
  • Additional commits viewable in compare view

Updates ruff from 0.12.11 to 0.14.14

Release notes

Sourced from ruff's releases.

0.14.14

Release Notes

Released on 2026-01-22.

Preview features

  • Preserve required parentheses in lambda bodies (#22747)
  • Combine range suppression code diagnostics (#22613)
  • [airflow] Second positional argument to Asset/Dataset should not be a dictionary (AIR303) (#22453)
  • [ruff] Detect duplicate entries in __all__ (RUF068) (#22114)

Bug fixes

  • [pyupgrade] Allow shadowing non-builtin bindings (UP029) (#22749)
  • [pyupgrade] Apply UP045 to string arguments of typing.cast (#22320)
  • [flake8-pie] Detect duplicated declared class fields in PIE794 (#22717)

Rule changes

Documentation

  • Add --exit-non-zero-on-format to formatter exit codes section (#22761)
  • Update contributing guide for adding a new rule (#22779)
  • [FastAPI] Document fix safety for FAST001 (#22655)
  • [flake8-async] Tweak explanation to focus on latency/efficiency tradeoff (ASYNC110) (#22715)
  • [pandas-vet] Make example error out-of-the-box (PD002Description has been truncated

@dependabot
Bump the python-packages group across 1 directory with 10 updates
b8411f2 
Bumps the python-packages group with 10 updates in the / directory:

| Package | From | To |
| --- | --- | --- |
| [jsonschema](https://github.com/python-jsonschema/jsonschema) | `4.25.1` | `4.26.0` |
| nmdc-api-utilities | `0.4.2` | `0.6.0` |
| [pydantic-settings](https://github.com/pydantic/pydantic-settings) | `2.10.1` | `2.12.0` |
| [pymongo](https://github.com/mongodb/mongo-python-driver) | `4.14.1` | `4.16.0` |
| [scalar-fastapi](https://github.com/scalar/scalar) | `1.4.1` | `1.6.1` |
| [uvicorn](https://github.com/Kludex/uvicorn) | `0.35.0` | `0.40.0` |
| [pre-commit](https://github.com/pre-commit/pre-commit) | `4.3.0` | `4.5.1` |
| [pyright](https://github.com/RobertCraigie/pyright-python) | `1.1.404` | `1.1.408` |
| [pytest](https://github.com/pytest-dev/pytest) | `8.4.1` | `9.0.2` |
| [ruff](https://github.com/astral-sh/ruff) | `0.12.11` | `0.14.14` |



Updates `jsonschema` from 4.25.1 to 4.26.0
- [Release notes](https://github.com/python-jsonschema/jsonschema/releases)
- [Changelog](https://github.com/python-jsonschema/jsonschema/blob/main/CHANGELOG.rst)
- [Commits](python-jsonschema/jsonschema@v4.25.1...v4.26.0)

Updates `nmdc-api-utilities` from 0.4.2 to 0.6.0

Updates `pydantic-settings` from 2.10.1 to 2.12.0
- [Release notes](https://github.com/pydantic/pydantic-settings/releases)
- [Commits](pydantic/pydantic-settings@2.10.1...v2.12.0)

Updates `pymongo` from 4.14.1 to 4.16.0
- [Release notes](https://github.com/mongodb/mongo-python-driver/releases)
- [Changelog](https://github.com/mongodb/mongo-python-driver/blob/master/doc/changelog.rst)
- [Commits](mongodb/mongo-python-driver@4.14.1...4.16.0)

Updates `scalar-fastapi` from 1.4.1 to 1.6.1
- [Release notes](https://github.com/scalar/scalar/releases)
- [Changelog](https://github.com/scalar/scalar/blob/main/CHANGELOG.md)
- [Commits](https://github.com/scalar/scalar/commits)

Updates `uvicorn` from 0.35.0 to 0.40.0
- [Release notes](https://github.com/Kludex/uvicorn/releases)
- [Changelog](https://github.com/Kludex/uvicorn/blob/main/docs/release-notes.md)
- [Commits](Kludex/uvicorn@0.35.0...0.40.0)

Updates `pre-commit` from 4.3.0 to 4.5.1
- [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@v4.3.0...v4.5.1)

Updates `pyright` from 1.1.404 to 1.1.408
- [Release notes](https://github.com/RobertCraigie/pyright-python/releases)
- [Commits](RobertCraigie/pyright-python@v1.1.404...v1.1.408)

Updates `pytest` from 8.4.1 to 9.0.2
- [Release notes](https://github.com/pytest-dev/pytest/releases)
- [Changelog](https://github.com/pytest-dev/pytest/blob/main/CHANGELOG.rst)
- [Commits](pytest-dev/pytest@8.4.1...9.0.2)

Updates `ruff` from 0.12.11 to 0.14.14
- [Release notes](https://github.com/astral-sh/ruff/releases)
- [Changelog](https://github.com/astral-sh/ruff/blob/main/CHANGELOG.md)
- [Commits](astral-sh/ruff@0.12.11...0.14.14)

---
updated-dependencies:
- dependency-name: jsonschema
  dependency-version: 4.26.0
  dependency-type: direct:production
  update-type: version-update:semver-minor
  dependency-group: python-packages
- dependency-name: nmdc-api-utilities
  dependency-version: 0.6.0
  dependency-type: direct:production
  update-type: version-update:semver-minor
  dependency-group: python-packages
- dependency-name: pydantic-settings
  dependency-version: 2.12.0
  dependency-type: direct:production
  update-type: version-update:semver-minor
  dependency-group: python-packages
- dependency-name: pymongo
  dependency-version: 4.16.0
  dependency-type: direct:production
  update-type: version-update:semver-minor
  dependency-group: python-packages
- dependency-name: scalar-fastapi
  dependency-version: 1.6.1
  dependency-type: direct:production
  update-type: version-update:semver-minor
  dependency-group: python-packages
- dependency-name: uvicorn
  dependency-version: 0.40.0
  dependency-type: direct:production
  update-type: version-update:semver-minor
  dependency-group: python-packages
- dependency-name: pre-commit
  dependency-version: 4.5.1
  dependency-type: direct:development
  update-type: version-update:semver-minor
  dependency-group: python-packages
- dependency-name: pyright
  dependency-version: 1.1.408
  dependency-type: direct:development
  update-type: version-update:semver-patch
  dependency-group: python-packages
- dependency-name: pytest
  dependency-version: 9.0.2
  dependency-type: direct:development
  update-type: version-update:semver-major
  dependency-group: python-packages
- dependency-name: ruff
  dependency-version: 0.14.14
  dependency-type: direct:development
  update-type: version-update:semver-minor
  dependency-group: python-packages
...

Signed-off-by: dependabot[bot] <[email protected]>
@dependabot dependabot bot added dependencies Pull requests that update a dependency file python:uv Pull requests that update python:uv code labels Feb 1, 2026
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