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I understand that as long each one (i.e. Orion and CKAN) runs in a different port, there is no problem in such deployment.

In particular, in the case of Orion, you can adjust the port editing the BROKER_PORT parameter in the /etc/sysconfig/contextBroker file (default value is 1026). You need to restart Orion service with /etc/init.d/contextBroker restart if you modify the configuration file.