Yes, we have considered using data libraries, but for this particular use case
we would prefer an approach like this. Our users are notoriously bad at data
management and we would like to limit the amount of data that gets loaded in
Galaxy. The networked share does not store all data permanently, so we need
something to query what is available so the users can load that into their
Ideally the datasets also shouldn’t be copied into Galaxy, but symlinked, if
Thanks for the tip on ‘dynamic_options’. Hadn’t noticed it before.
> Op 19 jan. 2016, om 13:40 heeft Hans-Rudolf Hotz <h...@fmi.ch> het volgende
> Hi Matthias
> Have you considered "Data Libraries"?
> A cron job can query your LIMS and use the API to create "Data Libraries".
> Then the user can select which datasets she/he wants to import.
> And back to your original question: Yes, it is possible to create interactive
> tools. Check out the 'dynamic_options' examples on
> Regards, Hans-Rudolf
> On 01/19/2016 12:18 PM, Matthias De Smet wrote:
>> Hi All,
>> I would like to create a tool to import data from a sequencer on a networked
>> share to a users history.
>> The ideal setup would be that a query can be submitted to a database which
>> contains all metadata from the sequencer + the path of the sequencer output.
>> The tool should then show the available datasets found in the database and
>> provide checkboxes to select which data should be imported.
>> My question is: how do you guys propose I get started on this? Do I use the
>> API? Is it even possible to get a tool to return some output without
>> submitting it as a job, e.g. using it interactively?
>> Thanks for the help!
>> PS: I know the basics of tool development, but I haven’t got much
>> experience, so all comments are welcome!
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