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Cookiecutter update (#345)

### What kind of changes does this PR introduce?

* Migrates `optional-dependencies` to `dependency-groups`
* Sets token-based workflows to run within an `automation` environment
* Updates dependencies
* `pre-commit` has been replaced by `prek`
* `Makefile` now handles some dependency installation logic
* `tox.toml` has been adjusted to use Makefile

### Does this PR introduce a breaking change?

Yes. The new method for installing dependencies is to either use the
`Makefile` commands` or the new command invocation.

### Other information:

`dependency-groups` are a way to ensure that development-time
dependencies are now published with distributions of packages, which is
great for packages that do not bundle code, or for preventing end-users
from installing tools they will never require when using the package.

Example invocation:
```
$ pip install --group lint,test
```
A dependency-group is only available when examining the source code of
the library and allows developers to only install the dependencies
without needing to install the library itself (great for linting). It
also supports installing the library or nesting of other
dependency-groups/optional-dependencies, if desired. Testing and other
miscellaneous development libraries are also suggested to be listed
under dependency-groups.

https://peps.python.org/pep-0735/

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