Fix file and directory naming

[MarekSuchanek]

This must be merged only after #38 and rebasing

As this was really painful fixing due to Git handling of renaming files esp. if the only change is case sensitivity, do not squash this PR as that could break things again.

[MarekSuchanek]

So this cannot be even easily rebased due to handling of case-sensitivity in file names... I will need to rework this again manually, @andresTabiTuwien and @TomMiksa will you be OK with such change or shall we give up on such a rule for consistent file (URL) naming?

[andresTabiTuwien]

Can we give it up now since Tomek needs it for the deliverable and fix it later?

[MarekSuchanek]

Can we give it up now since Tomek needs it for the deliverable and fix it later?

Sure, but URLs will change if file/directory names will change... for example https://docs.ostrails.eu/en/next/tools/FAIR_tools/FAIR-Champion.html becomes https://docs.ostrails.eu/en/next/tools/fair/fair-champion.html 🤷🏻‍♂️ or we can simply give up on this. That is the fastest way. If you are OK with that, feel free to merge changes from next to main (and make a tag if needed).

[andresTabiTuwien]

I´m OK with it, IDK @TomMiksa ?

[MarekSuchanek]

-> #40