I think I may have just found the answer to my question in this trello card
https://trello.com/c/ndVQmt3G/1857-tools-should-be-able-to-generate-one-or-more-dataset-collections

On Wed, Nov 12, 2014 at 3:15 PM, Aaron Petkau <aaron.pet...@gmail.com>
wrote:

> Hello,
>
> Does anyone know if it's possible to generate as output from a tool a
> dataset collection when it's input is only a single file?
>
> I'm imagining a tool which takes as input a file containing a list of URLs
> for files outside of Galaxy and generates as output a dataset collection
> that can then be linked up to later tools.
>
> Thanks,
>
> Aaron
>
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