add libnotebooks

[rvhonorato]

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Checklist

• Tests added for the new code
• Documentation added for the code changes
• Modifications / enhancements are reflected on the haddock3 user-manual
• CHANGELOG.md is updated to incorporate new changes
• Haddock3 version has been incremented in pyproject.toml
• Does not break licensing
• Does not add any dependencies, if it does please add a thorough explanation

Summary of the Pull Request

This PR is a cherry-pick from #1360 which added the libnotebooks.

This lib contains helper functions that should be used in jupyternotebooks

Related Issue

#1367

Additional Info

[AnnaKravchenko]

Tested on antibody-antigen example (chains A and B) in a local Jupyter Notebook - both alignment and visualisation are working!

I see several ways to improve the code and expand functionality, which I will open as a separate issue to avoid blocking notebook development.

[AnnaKravchenko]

Looking closer - no need to "expand functionality”.

My issues were with:

1. Colouring chain C as it appeared grey, since there’s no default colour for it.
2. Aligning NAs (so not wiht “CA”, but with “P”)
   But manual definition, like:

model1_colors={"A": "red", "B": "orange", "C":"pink”}
model2_colors={"A": "blue", "B": "green", "C":"lime”}
atom_types=["P",'CA']

fixes it entirely.

This is smth to mention in documentation, not adress via code.

[AnnaKravchenko]

Now chains C are colourful and NAs alignment works by default, all good