Hi Nate,

copied datasets do work and I run Galaxy from the server root.

Thanks,
Sarah


----- Original Message -----
From: "Nate Coraor" <n...@bx.psu.edu>
To: "Sarah Diehl" <di...@ie-freiburg.mpg.de>
Cc: "galaxy-dev@lists.bx.psu.edu List" <galaxy-dev@lists.bx.psu.edu>
Sent: Wednesday, February 13, 2013 8:22:10 PM
Subject: Re: [galaxy-dev] Datasets linked into Galaxy do not work

On Feb 12, 2013, at 11:17 AM, Sarah Diehl wrote:

> Hi all,
> 
> I have problems with datasets that were linked into Galaxy data libraries (as 
> Admin: "Add datasets", select "Upload files from filesystem paths" and "Link 
> to files without copying to Galaxy"). Those files cannot be looked at, 
> downloaded or viewed in a genome browser.
> 
> Errors in the browser are:
> The requested URL /datasets/126e6c4f4c2d468e/display/ was not found on this 
> server.
> The requested URL /library_common/download_dataset_from_folder was not found 
> on this server.
> An error occurred while accessing: 
> http://galaxy.immunbio.mpg.de/display_application/7108f175b5be4900/igv_bam/local_default/d85d47a3ee6ecd54/data/galaxy_7108f175b5be4900.bam
>  Read error; BinaryCodec in readmode; streamed file (filename not available)
> 
> I don't see any errors in the log files.
> 
> We do this kind of linking a lot and everything worked fine in the past. I 
> need to use this feature and need it to work, due to hard disk space and data 
> duplication.

Hi Sarah,

Do display applications work correctly for datasets that were uploaded to a 
library and copied in to Galaxy rather than linked?  Do you run Galaxy from the 
server root (http://galaxy.immunbio.mpg.de/) or some path underneath the root?

Thanks,
--nate

> 
> Any help is appreciated.
> 
> Best regards,
> Sarah
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