Sun,

I think the issue is the .gz inputs. Try running gunzip on the file first, and I think that will solve your issue. We didn't set it up to support .gz inputs, but this would be a good enhancement for us to add in the future. Unrelatedly, you shouldn't need to run this as root; you could remove the sudo. The /tmp directories are because you're getting print messages from inside the Docker instance. It's not /tmp on your filesystem but inside the Docker. 

Let me know if that helps.

Best regards,
Chris Schwarz