Update template to v0.5.0

[scverse-bot]

cookiecutter-scverse released v0.5.0.

Changes

New template sync

We re-implemented template sync from scratch instead on relying on cruft. This allows us to create real merge conflicts that show up as such on GitHub instead of .rej files.

• Generate real merge conflicts on template update by @grst in https://github.com/scverse/cookiecutter-scverse/pull/364

Enhancements

We committed to using hatch as project and environment manager. By doing so, we simplified the GitHub actions:

• Hatch envs by @flying-sheep in https://github.com/scverse/cookiecutter-scverse/pull/308
• Upgrade Github actions by @Zethson in https://github.com/scverse/cookiecutter-scverse/pull/324
• Use hatch in github actions by @grst in https://github.com/scverse/cookiecutter-scverse/pull/373

We switched the pre-commit hook from prettier to biome and added a pre-commit hook for autoformatting pyproject.toml files:

• Switch from prettier to Biome by @flying-sheep in https://github.com/scverse/cookiecutter-scverse/pull/304
• TOML formatting using pyproject-fmt by @flying-sheep in https://github.com/scverse/cookiecutter-scverse/pull/299

We added (optional) integration with VScode and improved cookiecutter prompts:

• Add VS Code integration by @flying-sheep in https://github.com/scverse/cookiecutter-scverse/pull/312
• Add prompts for most variables by @flying-sheep in https://github.com/scverse/cookiecutter-scverse/pull/319

We removed bump2version as recommended way to update versions. Instead, just update the version manually in pyproject.toml or use hatch-vcs

• Remove bump2version by @Zethson in https://github.com/scverse/cookiecutter-scverse/pull/367

Fixes

• Fix PyPI link in README by @grst in https://github.com/scverse/cookiecutter-scverse/pull/286
• Fix autosummary template by @flying-sheep in https://github.com/scverse/cookiecutter-scverse/pull/297
• Fix string syntax in hook output by @flying-sheep in https://github.com/scverse/cookiecutter-scverse/pull/305
• Fix repo metadata by @flying-sheep in https://github.com/scverse/cookiecutter-scverse/pull/307
• Fix links by @flying-sheep in https://github.com/scverse/cookiecutter-scverse/pull/309
• Update post-gen output for hatch by @flying-sheep in https://github.com/scverse/cookiecutter-scverse/pull/311
• Fix README links by @flying-sheep in https://github.com/scverse/cookiecutter-scverse/pull/321
• Hatch extra-features doesn’t exist by @flying-sheep in https://github.com/scverse/cookiecutter-scverse/pull/326
• Update / fix README template by @le-ander in https://github.com/scverse/cookiecutter-scverse/pull/356
• Exclude .cruft.json from biome hook by @grst in https://github.com/scverse/cookiecutter-scverse/pull/362
• Switch to session-info2 by @Zethson in https://github.com/scverse/cookiecutter-scverse/pull/366
• Use cruft in github action that creates instance repo by @grst in https://github.com/scverse/cookiecutter-scverse/pull/371
• Even more precautionary bash settings by @grst in https://github.com/scverse/cookiecutter-scverse/pull/377

Documentation

• Add instructions on how to migrate an existing project to using the template by @grst in https://github.com/scverse/cookiecutter-scverse/pull/289
• fix hatch snippets for docs build in contributing.md by @eroell in https://github.com/scverse/cookiecutter-scverse/pull/328
• Add instructions for a pending publisher by @flying-sheep in https://github.com/scverse/cookiecutter-scverse/pull/358
• Add Github Actions documentation and simplify template usage by @Zethson in https://github.com/scverse/cookiecutter-scverse/pull/369
• Add more elaborate example by @Zethson in https://github.com/scverse/cookiecutter-scverse/pull/365
• Suggest to use uv to run cruft by @grst in https://github.com/scverse/cookiecutter-scverse/pull/370

Chore

• Remove test reliance on unmaintained pytest-git by @flying-sheep in https://github.com/scverse/cookiecutter-scverse/pull/298
• pre-commit updates

New Contributors

• @eroell made their first contribution in https://github.com/scverse/cookiecutter-scverse/pull/328
• @le-ander made their first contribution in https://github.com/scverse/cookiecutter-scverse/pull/356
• @scverse-bot made their first contribution in https://github.com/scverse/cookiecutter-scverse/pull/371

Full Changelog: https://github.com/scverse/cookiecutter-scverse/compare/v0.4.0...v0.5.0

Additional remarks

• unsubscribe: If you don’t want to receive these PRs in the future, add skip: true to template-repos.yml using a PR or, if you never want to sync from the template again, delete the .cruft.json file in the root of your repository.
• If there are merge conflicts, you need to resolve them manually.
• The scverse template works best when the pre-commit.ci, readthedocs and codecov services are enabled. Make sure to activate those apps if you haven't already.