NO-JIRA: Update dependencies and refactoring the code

[bartoval]

I have updated the dependencies apart from the ones related to D3.js (bloodbath mode on)

@jiridanek @ganeshmurthy I have executed/tested the basic application, but I believe it would be better if you could test this pull request to ensure that everything is functioning in the same way of the main branch.

[jiridanek]

@dependabot rebase