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chore(deps)(deps): bump the python-versions group across 1 directory with 7 updates#950
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Bumps the python-versions group with 7 updates in the / directory:

Package From To
ruff 0.15.15 0.15.16
ipython 9.14.0 9.14.1
optuna 4.8.0 4.9.0
sphinx-autodoc-typehints 3.10.4 3.10.5
plotly 6.7.0 6.8.0
holidays 0.97 0.98
mlflow-skinny 3.12.0 3.13.0

Updates ruff from 0.15.15 to 0.15.16

Release notes

Sourced from ruff's releases.

0.15.16

Release Notes

Released on 2026-06-04.

Preview features

  • [flake8-async] Implement yield-in-context-manager-in-async-generator (ASYNC119) (#24644)
  • [pylint] Narrow diagnostic range and exclude cases without exception handlers (PLW0717) (#25440)
  • [ruff] Treat yield before break from a terminal loop as terminal (RUF075) (#25447)

Bug fixes

  • [eradicate] Avoid flagging ruff:ignore comments as code (ERA001) (#25537)
  • [eradicate] Fix ERA001/RUF100 conflict when noqa is on commented-out code (#25414)
  • [pyflakes] Avoid removing the format call when it would change behavior (F523) (#25320)
  • [pylint] Avoid syntax errors in invalid character replacements in f-strings before Python 3.12 (PLE2510, PLE2512, PLE2513, PLE2514, PLE2515) (#25544)
  • [pyupgrade] Avoid converting format calls with more kinds of side effects (UP032) (#25484)

Rule changes

  • [flake8-pytest-style] Avoid fixes for ambiguous argnames and argvalues combinations (PT006) (#24776)

Performance

  • Drop excess capacity from statement suites during parsing (#25368)

Documentation

  • [pydocstyle] Improve discoverability of rules enabled for each convention (#24973)
  • [ruff] Restore example code for Python versions before 3.15 (RUF017) (#25439)
  • Fix typo bin/active → bin/activate in tutorial (#25473)

Other changes

  • Shrink additional parser AST collections (#25465)

Contributors

... (truncated)

Changelog

Sourced from ruff's changelog.

0.15.16

Released on 2026-06-04.

Preview features

  • [flake8-async] Implement yield-in-context-manager-in-async-generator (ASYNC119) (#24644)
  • [pylint] Narrow diagnostic range and exclude cases without exception handlers (PLW0717) (#25440)
  • [ruff] Treat yield before break from a terminal loop as terminal (RUF075) (#25447)

Bug fixes

  • [eradicate] Avoid flagging ruff:ignore comments as code (ERA001) (#25537)
  • [eradicate] Fix ERA001/RUF100 conflict when noqa is on commented-out code (#25414)
  • [pyflakes] Avoid removing the format call when it would change behavior (F523) (#25320)
  • [pylint] Avoid syntax errors in invalid character replacements in f-strings before Python 3.12 (PLE2510, PLE2512, PLE2513, PLE2514, PLE2515) (#25544)
  • [pyupgrade] Avoid converting format calls with more kinds of side effects (UP032) (#25484)

Rule changes

  • [flake8-pytest-style] Avoid fixes for ambiguous argnames and argvalues combinations (PT006) (#24776)

Performance

  • Drop excess capacity from statement suites during parsing (#25368)

Documentation

  • [pydocstyle] Improve discoverability of rules enabled for each convention (#24973)
  • [ruff] Restore example code for Python versions before 3.15 (RUF017) (#25439)
  • Fix typo bin/active → bin/activate in tutorial (#25473)

Other changes

  • Shrink additional parser AST collections (#25465)

Contributors

Commits

Updates ipython from 9.14.0 to 9.14.1

Commits
  • 352c35b release 9.14.1
  • df72b1f Add forward compatibility for pdb.Pdb's mode argument (#15235)
  • a957d81 Handle pdb.Pdb mode argument and test signature compatibility
  • 3e1c054 ci: add zizmor GitHub Actions security analysis and harden workflows (#15238)
  • 0181ae3 ci: add zizmor GitHub Actions security analysis and harden workflows
  • fb831cc back to dev
  • See full diff in compare view

Updates optuna from 4.8.0 to 4.9.0

Release notes

Sourced from optuna's releases.

v4.9.0

This is the release note of v4.9.0.

Highlights

Enhance Multi-Objective Constrained Parallel Optimization in GPSampler

@​sawa3030 introduces parallelization enhancements to GPSampler, leveraging the Kriging Believer approach for constrained and multi-objective optimization (#6481). This improvement allows for more efficient exploration when multiple trials are running concurrently.

The GP surrogate is updated by assigning temporary objective function values ​​to the running trials.

For more technical details and benchmarks, please check out our blog post: Improving Optuna’s GPSampler Parallelization by Considering Running Trials.

Deprecate Several Features

The following features are deprecated in v4.9.0 and scheduled for removal in v6.0.0.

optuna

  • Several arguments in TPESampler (#6635)
    • prior_weight, consider_magic_clip, consider_endpoints, gamma, weights, hyperopt_parameters: These internal parameters are being deprecated to simplify the interface, as the default settings are optimal for most use cases.
    • warn_independent_sampling: Deprecated because TPESampler now robustly supports both independent and joint sampling, making this warning obsolete.
    • categorical_distance_func: This advanced feature will be migrated to OptunaHub in the future.
  • x0 and sigma0 options in CmaEsSampler (#6624)
    • These options have been deprecated because they require a deep understanding of CmaEsSampler's internals to be configured effectively.
  • optuna.terminator module (#6668)
    • This feature will be migrated to OptunaHub in the future.
  • RetryFailedTrialCallback (#6670)
    • This class has been renamed to RetryHeartbeatStaleTrialCallback to better reflect its behavior and avoid confusion with general trial retries (#6085).
  • optuna.integration module
    • The optuna.integration module currently acts as a shortcut to the external optuna_integration package for backward compatibility. Please import directly from the optuna_integration package going forward.

optuna-integration

  • PyCmaSampler: Please use Optuna's native CmaEsSampler instead.
  • CometCallback: This feature will be migrated to OptunaHub in the future.
  • MLflowCallback: This feature will be migrated to OptunaHub in the future.
  • TensorBoardCallback: This feature will be migrated to OptunaHub in the future.
  • TrackioCallback: This feature will be migrated to OptunaHub in the future.
  • WeightsAndBiasesCallback: This class has already been migrated to OptunaHub.

Breaking Changes

... (truncated)

Commits
  • 4db42e3 Merge pull request #6691 from c-bata/backport-v4.9-attestations
  • 6a15cf0 Add attestations: false to fix release workflow
  • a592e6c Merge pull request #6684 from c-bata/bump-up-to-v4.9.0
  • 490cfd6 Bump up to version number v4.9.0
  • 6135d54 Merge pull request #6651 from nabenabe0928/add-brute-force-info-to-grid-sampler
  • c41ec2d Merge remote-tracking branch 'upstream/master' into add-brute-force-info-to-g...
  • f845a8f Fix
  • 574749e Fix
  • af7fe8b Add note to best trial
  • b200bfb Update the NSGA-III doc
  • Additional commits viewable in compare view

Updates sphinx-autodoc-typehints from 3.10.4 to 3.10.5

Release notes

Sourced from sphinx-autodoc-typehints's releases.

3.10.5

What's Changed

New Contributors

Full Changelog: tox-dev/sphinx-autodoc-typehints@3.10.4...3.10.5

Commits
  • bf535f6 🐛 fix(annotations): use class role for Ellipsis/NotImplementedType on 3.13+ (...
  • 9f50d8d [pre-commit.ci] pre-commit autoupdate (#706)
  • ac8ff5f process_signature: don't skip the first arg on bound instance methods (#705)
  • See full diff in compare view

Updates plotly from 6.7.0 to 6.8.0

Release notes

Sourced from plotly's releases.

v6.8.0

Added

  • Add optional font parameter for make_subplots [#5393], with thanks to @​Zomtir for the contribution!

Fixed

  • Fix issue where user-specified color_continuous_scale was ignored when template had autocolorscale=True [#5439], with thanks to @​antonymilne for the contribution!
  • Use presence of COLAB_NOTEBOOK_ID env var to enable Colab renderer instead of testing import of google.colab [#5473], with thanks to @​kevineger for the contribution!
  • Fix incorrect annotation placement for add_vline, add_hline, add_vrect, and add_hrect on datetime axes [#5508], with thanks to @​mosh3eb for the contribution!
  • Update tests to be compatible with numpy 2.4 [#5522], with thanks to @​thunze for the contribution!
  • Fix issue where js/ directory was unintentionally installed as a top-level Python package when installing plotly [#5587]
  • Add default headers to be passed in to Kaleido v1.3.0 to avoid blocked Open Street Map tiles [#5588]
  • Propagate the requested default_height/default_width to the outer wrapper div produced by to_html so that responsive (percentage) dimensions inherit from a sized parent container instead of collapsing to the plotly.js 450px fallback [#5591], with thanks to @​SharadhNaidu for the contribution!

Updated

  • The __eq__ method for graph_objects classes now returns NotImplemented to give the other operand an opportunity to handle the comparison [#5547], with thanks to @​RazerM for the contribution!
  • Update plotly.js from version 3.5.0 to version 3.6.0. See the plotly.js release notes for more information [#5608]. Notable changes include:
    • Add support for arrays for the pie property legendrank, so that it can be configured per slice [#7723]
    • Add hoversort layout attribute to sort unified hover label items by value [#7734]
Changelog

Sourced from plotly's changelog.

[6.8.0] - 2026-06-03

Added

  • Add optional font parameter for make_subplots [#5393], with thanks to @​Zomtir for the contribution!

Fixed

  • Fix issue where user-specified color_continuous_scale was ignored when template had autocolorscale=True [#5439], with thanks to @​antonymilne for the contribution!
  • Use presence of COLAB_NOTEBOOK_ID env var to enable Colab renderer instead of testing import of google.colab [#5473], with thanks to @​kevineger for the contribution!
  • Fix incorrect annotation placement for add_vline, add_hline, add_vrect, and add_hrect on datetime axes [#5508], with thanks to @​mosh3eb for the contribution!
  • Update tests to be compatible with numpy 2.4 [#5522], with thanks to @​thunze for the contribution!
  • Fix issue where js/ directory was unintentionally installed as a top-level Python package when installing plotly [#5587]
  • Add default headers to be passed in to Kaleido v1.3.0 to avoid blocked Open Street Map tiles [#5588]
  • Propagate the requested default_height/default_width to the outer wrapper div produced by to_html so that responsive (percentage) dimensions inherit from a sized parent container instead of collapsing to the plotly.js 450px fallback [#5591], with thanks to @​SharadhNaidu for the contribution!

Updated

  • The __eq__ method for graph_objects classes now returns NotImplemented to give the other operand an opportunity to handle the comparison [#5547], with thanks to @​RazerM for the contribution!
  • Update plotly.js from version 3.5.0 to version 3.6.0. See the plotly.js release notes for more information [#5608]. Notable changes include:
    • Add support for arrays for the pie property legendrank, so that it can be configured per slice [#7723]
    • Add hoversort layout attribute to sort unified hover label items by value [#7734]
Commits
  • ea4eca8 Address PR feedback
  • e57adbd Fix broken example
  • b8c2bf4 Update Jupyter Lab extension files
  • 2de1059 Update docs for release
  • f94e304 Version changes for v6.8.0
  • 7f2eb35 Merge pull request #5608 from plotly/cam/update-plotly.js-3.6.0
  • f57cf96 Update command to run npm install for updateplotlyjs
  • 1f26820 Update lock file
  • 8f699a3 chore: Update plotly.js to v3.6.0
  • f0755e5 Merge pull request #5605 from plotly/cam/pin-python-frontmatter
  • Additional commits viewable in compare view

Updates holidays from 0.97 to 0.98

Release notes

Sourced from holidays's releases.

v0.98

Version 0.98

Released June 1, 2026

New Contributors:

Full Changelog: vacanza/holidays@v0.97...v0.98

Changelog

Sourced from holidays's changelog.

Version 0.98

Released June 1, 2026

Commits

Updates mlflow-skinny from 3.12.0 to 3.13.0

Release notes

Sourced from mlflow-skinny's releases.

v3.13.0

MLflow 3.13.0 includes several major features and improvements

Major New Features

  • 🔐 Role-Based Access Control & Admin UI: A full RBAC system with reusable roles and workspace-scoped grants, plus a new web Admin UI for managing users, roles, and permissions on self-hosted MLflow.
  • 🗄️ Trace Retention & Auto Archival: Automatically move aged trace span data out of your SQL backend into object storage (e.g. S3) while keeping every trace fully readable in the UI and APIs.
  • 🤖 One-click observability & governance for coding agents: Onboard Claude Code, OpenAI Codex, or Gemini CLI to the AI Gateway in one click for tracing, usage tracking, budgets, and guardrails.
  • ✨ New engines for MLflow Assistant: Run MLflow Assistant on a local Ollama model, the OpenAI Codex CLI, or any MLflow AI Gateway endpoint, in addition to Claude Code.
  • ☸️ Helm chart for Kubernetes: An official, production-ready Helm chart for deploying the MLflow tracking server to any Kubernetes cluster.
  • 🌐 Hermes Agent support: Route the Hermes Agent runtime through the AI Gateway and capture its end-to-end traces in MLflow over OpenTelemetry.
  • 🪵 Span log levels: Python-logging-style severity levels on spans, with a "Minimum log level" filter in the trace UI to hide low-level noise.

Breaking Changes

  • The permission system has been overhauled into a unified Role-Based Access Control model. The legacy per-resource permission tables, REST endpoints, and client methods are removed and replaced by roles backed by role_permissions, default_permission now acts as a floor rather than an override, and a workspace USE grant is sufficient to create experiments and registered models. Code that relied on the old per-resource permission APIs must migrate to the new role-based APIs. (#22855, #22859, #22941, #23337, #23379, @​PattaraS)
  • MLServer is no longer available as a pyfunc serving backend. The previously deprecated enable_mlserver option has been removed, so mlflow models serve always uses the built-in scoring server. (#23356, @​harupy)
  • mlflow autolog claude no longer installs the old Python autolog hook; Claude Code tracing is now provided by the official Claude plugin, which must be installed separately. (#23339, @​B-Step62)
  • The default optimizer used by judge.align() is now MemAlign, so existing alignment workflows may produce different judges than before unless an optimizer is passed explicitly. (#23254, @​veronicalyu320)
  • Pointing the tracking or model registry store at a local file-system path now raises an error by default; set MLFLOW_ALLOW_FILE_STORE=true to keep using a file-based store. (#22773, @​harupy)

Other Assorted Features & Improvements:

... (truncated)

Changelog

Sourced from mlflow-skinny's changelog.

3.13.0 (2026-05-29)

MLflow 3.13.0 includes several major features and improvements

Major New Features

  • 🔐 Role-Based Access Control & Admin UI: A full RBAC system with reusable roles and workspace-scoped grants, plus a new web Admin UI for managing users, roles, and permissions on self-hosted MLflow.
  • 🗄️ Trace Retention & Auto Archival: Automatically move aged trace span data out of your SQL backend into object storage (e.g. S3) while keeping every trace fully readable in the UI and APIs.
  • 🤖 One-click observability & governance for coding agents: Onboard Claude Code, OpenAI Codex, or Gemini CLI to the AI Gateway in one click for tracing, usage tracking, budgets, and guardrails.
  • ✨ New engines for MLflow Assistant: Run MLflow Assistant on a local Ollama model, the OpenAI Codex CLI, or any MLflow AI Gateway endpoint, in addition to Claude Code.
  • ☸️ Helm chart for Kubernetes: An official, production-ready Helm chart for deploying the MLflow tracking server to any Kubernetes cluster.
  • 🌐 Hermes Agent support: Route the Hermes Agent runtime through the AI Gateway and capture its end-to-end traces in MLflow over OpenTelemetry.
  • 🪵 Span log levels: Python-logging-style severity levels on spans, with a "Minimum log level" filter in the trace UI to hide low-level noise.

Breaking Changes

  • The permission system has been overhauled into a unified Role-Based Access Control model. The legacy per-resource permission tables, REST endpoints, and client methods are removed and replaced by roles backed by role_permissions, default_permission now acts as a floor rather than an override, and a workspace USE grant is sufficient to create experiments and registered models. Code that relied on the old per-resource permission APIs must migrate to the new role-based APIs. (#22855, #22859, #22941, #23337, #23379, @​PattaraS)
  • MLServer is no longer available as a pyfunc serving backend. The previously deprecated enable_mlserver option has been removed, so mlflow models serve always uses the built-in scoring server. (#23356, @​harupy)
  • mlflow autolog claude no longer installs the old Python autolog hook; Claude Code tracing is now provided by the official Claude plugin, which must be installed separately. (#23339, @​B-Step62)
  • The default optimizer used by judge.align() is now MemAlign, so existing alignment workflows may produce different judges than before unless an optimizer is passed explicitly. (#23254, @​veronicalyu320)
  • Pointing the tracking or model registry store at a local file-system path now raises an error by default; set MLFLOW_ALLOW_FILE_STORE=true to keep using a file-based store. (#22773, @​harupy)

Other Assorted Features & Improvements:

... (truncated)

Commits
  • 8a77494 Cherry-pick #23486 (Kubernetes deployment guide) into branch-3.13 (#23698)
  • e2e8bb3 Bump version to 3.13.0 (#23675)
  • 0c83e30 Warn on submit with an unsaved direct-grant draft (#23612)
  • 6adeed3 Reword FileStore maintenance-mode error and document escape hatch (#23637)
  • c4e3fb7 Clarify trace archival max-traces behavior. (#23656)
  • f3d07f5 Clear archive-now requests for non-archivable leftovers (#23655)
  • a6fb0e2 docs: fix admonition rendering broken by Docusaurus 3.10 (#23635)
  • ae70af0 Refresh Claude Code tracing docs and split Claude Agent SDK page (#23633)
  • 6140716 docs: fix tip admonition rendering in tracing quickstart (#23557)
  • 0e85233 Forward MLflow client telemetry from inside Databricks workloads (#23483)
  • Additional commits viewable in compare view

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@dependabot
chore(deps)(deps): bump the python-versions group across 1 directory …
0d751fc 
…with 7 updates

Bumps the python-versions group with 7 updates in the / directory:

| Package | From | To |
| --- | --- | --- |
| [ruff](https://github.com/astral-sh/ruff) | `0.15.15` | `0.15.16` |
| [ipython](https://github.com/ipython/ipython) | `9.14.0` | `9.14.1` |
| [optuna](https://github.com/optuna/optuna) | `4.8.0` | `4.9.0` |
| [sphinx-autodoc-typehints](https://github.com/tox-dev/sphinx-autodoc-typehints) | `3.10.4` | `3.10.5` |
| [plotly](https://github.com/plotly/plotly.py) | `6.7.0` | `6.8.0` |
| [holidays](https://github.com/vacanza/holidays) | `0.97` | `0.98` |
| [mlflow-skinny](https://github.com/mlflow/mlflow) | `3.12.0` | `3.13.0` |



Updates `ruff` from 0.15.15 to 0.15.16
- [Release notes](https://github.com/astral-sh/ruff/releases)
- [Changelog](https://github.com/astral-sh/ruff/blob/main/CHANGELOG.md)
- [Commits](astral-sh/ruff@0.15.15...0.15.16)

Updates `ipython` from 9.14.0 to 9.14.1
- [Release notes](https://github.com/ipython/ipython/releases)
- [Commits](ipython/ipython@9.14.0...9.14.1)

Updates `optuna` from 4.8.0 to 4.9.0
- [Release notes](https://github.com/optuna/optuna/releases)
- [Commits](optuna/optuna@v4.8.0...v4.9.0)

Updates `sphinx-autodoc-typehints` from 3.10.4 to 3.10.5
- [Release notes](https://github.com/tox-dev/sphinx-autodoc-typehints/releases)
- [Commits](tox-dev/sphinx-autodoc-typehints@3.10.4...3.10.5)

Updates `plotly` from 6.7.0 to 6.8.0
- [Release notes](https://github.com/plotly/plotly.py/releases)
- [Changelog](https://github.com/plotly/plotly.py/blob/main/CHANGELOG.md)
- [Commits](plotly/plotly.py@v6.7.0...v6.8.0)

Updates `holidays` from 0.97 to 0.98
- [Release notes](https://github.com/vacanza/holidays/releases)
- [Changelog](https://github.com/vacanza/holidays/blob/dev/CHANGES.md)
- [Commits](vacanza/holidays@v0.97...v0.98)

Updates `mlflow-skinny` from 3.12.0 to 3.13.0
- [Release notes](https://github.com/mlflow/mlflow/releases)
- [Changelog](https://github.com/mlflow/mlflow/blob/master/CHANGELOG.md)
- [Commits](mlflow/mlflow@v3.12.0...v3.13.0)

---
updated-dependencies:
- dependency-name: ruff
  dependency-version: 0.15.16
  dependency-type: direct:development
  update-type: version-update:semver-patch
  dependency-group: python-versions
- dependency-name: ipython
  dependency-version: 9.14.1
  dependency-type: direct:production
  update-type: version-update:semver-patch
  dependency-group: python-versions
- dependency-name: optuna
  dependency-version: 4.9.0
  dependency-type: direct:production
  update-type: version-update:semver-minor
  dependency-group: python-versions
- dependency-name: sphinx-autodoc-typehints
  dependency-version: 3.10.5
  dependency-type: direct:production
  update-type: version-update:semver-patch
  dependency-group: python-versions
- dependency-name: plotly
  dependency-version: 6.8.0
  dependency-type: direct:production
  update-type: version-update:semver-minor
  dependency-group: python-versions
- dependency-name: holidays
  dependency-version: '0.98'
  dependency-type: direct:production
  update-type: version-update:semver-minor
  dependency-group: python-versions
- dependency-name: mlflow-skinny
  dependency-version: 3.13.0
  dependency-type: direct:production
  update-type: version-update:semver-minor
  dependency-group: python-versions
...

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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 Jun 9, 2026
@dependabot dependabot Bot requested a review from a team June 9, 2026 04:27
@sonarqubecloud

sonarqubecloud Bot commented Jun 9, 2026

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Quality Gate Passed Quality Gate passed

Issues
0 New issues
0 Accepted issues

Measures
0 Security Hotspots
0.0% Coverage on New Code
0.0% Duplication on New Code

See analysis details on SonarQube Cloud

@dependabot @github

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Contributor Author

Looks like these dependencies are updatable in another way, so this is no longer needed.

@dependabot dependabot Bot closed this Jun 10, 2026
@dependabot dependabot Bot deleted the dependabot/uv/python-versions-0dadd71e52 branch June 10, 2026 15:01
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