Replace static Cytoscape plugin with npm package

[itisAliRH]

This PR replaces the cytospace visualisation static files with the npm package (@itisalirh/galaxy-cytoscape) developed using @guerler/galaxy-charts-starter. Also removed duplicate elements for "Depth First Search" in the XML file.

How to test the changes?

(Select all options that apply)

• I've included appropriate automated tests.
• This is a refactoring of components with existing test coverage.
• Instructions for manual testing are as follows:
  1. [add testing steps and prerequisites here if you didn't write automated tests covering all your changes]

License

• I agree to license these and all my past contributions to the core galaxy codebase under the MIT license.

[guerler]

Thank you for working on this. Can you set defaults for: search_algorithm, directed and graph_traversal? Also Undirected option has no value. These issues seem to have existed before but we can fix them now I think.

[itisAliRH]

Thank you for working on this. Can you set defaults for: search_algorithm, directed and graph_traversal? Also Undirected option has no value. These issues seem to have existed before but we can fix them now I think.

The directed option is only used in the styleGenerator and is a boolean. I change it to a boolean input with true/false values.

The search_algorithm and graph_traversal are optional and can be used when the user selects one of them, so the default value for them can be any false values. Should I add <value></value> to the XML file as the default value for those?

[guerler]

Yes, I think we should add explicit values like unset or null or default, so users can switch back to them if necessary. Also let's not use latest as npm package version but an explicit version instead for reproducibility.

[mvdbeek]

We should publish this under the galaxyproject namespace and not individual namespaces

[guerler]

We should publish this under the galaxyproject namespace and not individual namespaces

Why?

[guerler]

Package has been moved to @galaxyproject as per request of @mvdbeek. Thank you @itisAliRH.

[itisAliRH]

@guerler Thank you for your review and help.

Failure tests are irrelevant and will be fixed in #19138

[github-actions]

This PR was merged without a "kind/" label, please correct.