Simplify toolchain to use ruff instead of black/isort/docformatter

This MR integrates the use of ruff into our workflow.

It updates all files to match setup rules. See pyproject.toml for supported rules and documentation.

doc/api.rst

@@ -99,7 +99,6 @@ Reusable auxiliary functions.
    mednet.utils.checkpointer
    mednet.utils.rc
    mednet.utils.resources
-   mednet.utils.summary
    mednet.utils.tensorboard