Within the options of ‘Jellyfin for Kodi’ you have an option for path substitution, you can some more info here: Reimplement native mode to function client side by mcarlton00 · Pull Request #938 · jellyfin/jellyfin-kodi · GitHub
Something like /ds1-video on the server, which you can replace with smb://diskstation01/video
Or if you also got a /ds1-series and a /ds1-music, you can replace /ds1- with smb://diskstation01/
So in my case I have on the server side:
/ds1-video
/ds1-series
/ds1-music
/ds2-video
/ds2-series
/ds2-music
On the client side I have autofs everything mounted to:
/mnt/ds1-video
/mnt/ds2-video
…
My path substitution within the addon is:
/ds1 —> /mnt/ds1
/ds2 —> /mnt/ds2
And on CE I use the following, since I don’t have autofs there 
:
/ds1- —> nfs://192.168.0.10/volume1/
/ds2- —> nfs://192.168.0.11/volume1/