All the processing is done by the Zidoo box, so just copy the media over the the Zidoo (for an internal HDD use a network share) and add the source in Zidoo Home Theatre which will take care of the rest.
Zidoo Home Theatre is quite good at correctly matching media, but if you want to do it perfectly see here for best conventions for media file naming: https://www.mcbluna.net/wp/guide-zidoo-home-theater-media-labels/
You can edit the scraped data either on the Zidoo box or using Zidoo's web interface: https://www.mcbluna.net/wp/guide-home-theater-web-frontend/