All tests in repo::template have a common pattern of first setting up
templates, then settung up the repository that makes use of those
templates via several init options. Refactor this pattern into two
functions `setup_templates` and `setup_repo` that handle most of that
logic to make it easier to spot what a test actually wants to check.

Furthermore, this also refactors how we clean up after the tests.
Previously, it was a combination of manually calling
`cl_fixture_cleanup` and `cl_set_cleanup`, which really is kind of hard
to read. This commit refactors this to instead provide the cleaning
parameters in the setup functions. All cleanups are then performed in
the suite's cleanup function.