Use ruff instead of flake8 and isort

[Lingepumpe]

/!\ This PR contains automatically generated code changes (the run of ruff --fix). Please review the commits individually, to be able to pay more attention to the parts I did manually /!\

Ruff (https://github.com/charliermarsh/ruff) is a very active and very fast tool that can replace flake8 and isort. It includes a lot of advanced rules that flake8 only has if you install additional packages. In addition to formatting includes, ruff can also auto-fix some linter errors automatically. In this PR we remove flake8 and isort, and replace the functionality (and more) with ruff.
Also, a full run of ruff --fix . is run on the code base, which fixes-up a lot of small things throughout. For a impressive example for the ruff automatic fixes, check out this automatic change in embeddings/base.py:

# Before ruff --fix
def _everything_embedded(self, data_points: Sequence[DT]) -> bool:
    for data_point in data_points:
        if self.name not in data_point._embeddings.keys():
            return False
    return True

# After ruff --fix
def _everything_embedded(self, data_points: Sequence[DT]) -> bool:
    return all(self.name in data_point._embeddings for data_point in data_points)

In addition to the automatic fixes, I enabled all rules that seemed sensible and where I was able to manually fix any issues it found - so this PR also contains quite a few manual code quality fixes that ruff suggested.

[Lingepumpe]

Rebased on current master.

[helpmefindaname]

´Thank you for this PR, it looks very exciting to see so many small improvements on the code :-)
There a just a few comments.

[helpmefindaname]

The changes look good to me, there is still a rebase on the main required, but then I would consider this MR mergeable

[Lingepumpe]

Rebased on updated master

[alanakbik]

@Lingepumpe thanks a lot for adding this! Looking forward to trying this out!

[alanakbik]

Debatable if this improves clarity ;) but many of the other changes are really good!

[Lingepumpe]

Yes this one is debatable, I considered putting a "#noqa: XYZ" there and keeping the condition as is, but on the other hand this version also has its merits (not duplicate the body in the if - so I just did it the way that ruff was also happy with it :D

[alanakbik]

These automatic super() call changes are somewhat surprising. I wonder what is the motivation for this?

[Lingepumpe]

super() is sequivalent to super(TheNameOfTheCurrentClass, self) - so if you really are passing the current class name and self, then the shorter way to write it is chosen by ruff - it also makes it clear at first view that nothing extra ordinary with regards to super is going on. If you really want to e.g. skip one hierarchy on inheritance by doing super(TheNameOfASuperClass, self) [which would skip the TheNameOfASuperClass and search "above" it in the class hiarchy], then you would still pass the parameters to super [ruff would not remove them], and a reviewer would see that you are really doing something special with super here.

[alanakbik]

Ah ok, thanks for the info!