To automate some simple tasks with cjdns, there are a lot of scripts that people use. Here's just a few:
https://github.com/kpcyrd/yrd
https://github.com/noway421/cjdmaid
https://github.com/inhies/cjdcmd
https://github.com/ehmry/cjdcmd-ng
tcjdns (ask prurigro)