ruff analyze graph omits implicit __init__.py imports

[charliermarsh]

If you import foo/bar/baz.py, barring unusual setups, you will also implicitly import foo/bar/__init__.py, foo/__init__.py, etc. Right now, these are omitted from the module graph. We may want to include them. (By default, Pants seems to include them if the __init__.py files contain content.)