It get even trickier... I just double-checked my local install, and I didn't have visualization_plugins_directory uncommented, and yet, it works on local install....
>This gets tricky, can you check if the visualisations are loacted under
>this path
If you mean phyoviz and other plugin code from github, then yes, it's there. I doulbe-checked the files and permissions as well, just to be sure.
> and do double-check the filetypes? The icon is only displayed > with the correct datatype.
I did... I use exactly the same newick tree file for local and for production test. Upload it, selecting nhx as a datatype. Double-check the datatype by clicking on a pencil icon - it's nhx on both, but it works on local and doesn't on production.
I'll keep digging and comparing the two installs. If you think of anything else, let me know.