Some notebooks need refactoring and/or fixing

[selmanozleyen]

While working on this PR:theislab/moscot#696 some notebooks failed because the PR currently sends error when an argument is ignored or when kwargs is given in kwargs=x but we would rather use **x form now.

Take this code snippet for example

mp = mp.prepare(
    sc_attr={"attr": "obsm", "key": "X_pca"}, kwargs={"callback_kwargs": "local_pca"}
)

ideally instead of this we would use this

mp = mp.prepare(
    sc_attr={"attr": "obsm", "key": "X_pca"},**{"callback_kwargs": "local_pca"}
)

because the kwargs argument will be removed in the future. However in this case it would still throw an error since callback_kwargs is an invalid argument (probably has to be xy_callback_kwargs). This means in the notebooks these kwargs were just ignored.

To see which cells of the notebooks failed you can check these test results
https://github.com/theislab/moscot/actions/runs/9488695422/job/26148224156?pr=696

ping: @ArinaDanilina @giovp @MUCDK

[selmanozleyen]

Hi the notebooks still don't pass on my PR. https://github.com/theislab/moscot/actions/runs/9666061798/job/26664685331?pr=696