v0.6.2

Incorporate feedback from EPP students, @janosg, @tobiasraabe.

• Update warning message for R, better explanations for examples and links to issues.
• Add scripts as explicit dependencies.
• Use git_remote_url option again.
• Add yaml linters, run them. Update versions of pre-commit hooks also in inner project.
• Ditch flake8 in favor of ruff.
• Get rid of refurb's complaints.
• Ignore complexity in post_gen_project.