Copier update (biome)

[ejfine]

Pull in upstream template changes

Summary by CodeRabbit

• Chores
  • Updated versions for several development tools and dependencies.
  • Refined pre-commit and linting configurations, including expanded file exclusions and new ignore rules.
  • Adjusted automated dependency update settings to reduce noise from non-security patch updates.
  • Added steps to CI workflows to display installed Python packages after installation.
  • Replaced and updated configuration files for formatting and linting, with improved file inclusion/exclusion patterns.