Newer tooling and deps

[jamesbraza]

Pulled in latest tooling and ran uv lock --upgrade

[Copilot]

Pull Request Overview

This PR updates tooling dependencies and configurations across the project. The main purpose is to upgrade to newer versions of development tools and adjust linting configurations accordingly.

• Updated pre-commit hooks to newer versions (ruff, uv, blacken-docs, pymarkdown, jupytext, etc.)
• Modified ruff linting rules configuration, removing some AIR rules and adding new ASYNC and RUF rules
• Removed a type ignore comment that's no longer needed after tooling updates

Reviewed Changes

Copilot reviewed 5 out of 6 changed files in this pull request and generated no comments.

Show a summary per file

File	Description
src/paperqa/agents/search.py	Removed type ignore comment for array indexing
pyproject.toml	Updated ruff linting rules, removed deprecated AIR rules and added new ASYNC/RUF rules
docs/tutorials/settings_tutorial.md	Updated jupytext version metadata
docs/tutorials/running_on_lfrqa.md	Updated jupytext version metadata
.pre-commit-config.yaml	Upgraded multiple pre-commit hook versions

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[dosubot]

Related Documentation

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[dosubot]

Documentation Updates

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