On Jul 16, 2012, at 6:14 AM, Geert Vandeweyer wrote:

> Hi,
> 
> We have set up a local instance of galaxy-dist, using pbs-python to 
> communicate with our HPC. Everything is working great, except for the upload 
> functionality.
> 
> When I assign the upload1 to local:/// , uploading of small files through the 
> web-site works, and upload of large files by ftp works as well. When I let 
> upload1 to be handled by the default_cluster_job_runner ( = pbs:///), I get 
> empty data sets. Galaxy does not report any errors however and the data state 
> is ok.
> 
> Has anybody seen this issue and solved it? Using the local:/// job handler 
> causes a massive performance hit on the galaxy process.
> 
> Best regards,
> 
> Geert Vandeweyer

Hi Geert,

Sorry for the delayed response.  If you're still having this issue, if you view 
the empty dataset, can you see the data it's supposed to contain?  i.e. does 
the underlying output file for the upload tool actually contain the data, or is 
it really empty on disk?

--nate

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