We usually run a server in our university's cloud, which is fairly similar to 
solutions several others have discussed. We run JupyterHub, RStudioServer, and 
Etherpad on this. Both JupyterHub and RStudioServer provide terminals for 
command line tasks.

One downside to this is that setting up and administering a server requires 
knowledge beyond what is taught by Carpentries workshops. This might be 
something for which a workshop could be developed. I'm a little wary of virtual 
machine or docker solutions -- technically they provide a reproducible 
environment, but without knowing how to  construct them they're not something 
people can take and fully make their own.

best regards,
Paul Harrison
Monash University Bioinformatics Platform

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