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If someone has time and wants to look into the Query.jl language: there is a WIP package QuerySQLite.jl that does this for SQLite and I think this is done similar to what we need to do (but looks quite involved).
I'd keep this one open as a reminder;
To be honest in the long run the best option would be to create a separate Polydb.jl package that depends on Polymake.jl, Mongoc.jl, Query.jl and what not. Then one could experiment with different apis/queries at will.
This is just a reminder:
Access polydb in a user-friendly form, i.e. do some research on available query-languages and their backend representations
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