Vagrant is a virtual machine manager. Virtualbox is one of many virtual
machine providers compatible with Vagrant. They are separate entities. For
more info, see the Vagrant docs.

The Virtualbox machine provided by the nupic project can be configured
either using Vagrant in the Vagrantfile or using Virtualbox, either through
the GUI or on the command line.

If you wish to use Virtualbox to configure the VM, you should add a shared
folder by Machine > Settings > Shared Folders, then bring the machine up by
clicking 'Start' in the GUI. Keep in mind, though, that the configuration
changes you make in Virtualbox will not be reflected in the Vagrantfile,
because these are separate methods of managing the VM. Since it sounds like
you already know your way around the Virtualbox GUI, this might be your
best option to get it running.

Best,

-- 
Mr. Mateja Putic
Graduate Research Assistant
Department of Electrical and Computer Engineering
University of Virginia
(703) 303-2099
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