Hi Maria,

This message indicates that an error occurred on the cluster node processing the job. Normally these are not linked to inputs or tools and the general solution is to re-run the job. Please give this a try today - it is possible the error was linked to recent transient server issues.


If you continue to have problems after the re-run today, please submit a bug report from the error dataset, leaving inputs and outputs undeleted:
http://wiki.galaxyproject.org/Support#Reporting_tool_errors

Best,

Jen
Galaxy team

On 9/11/13 12:38 PM, Maria Hoffman wrote:
Hello,

I am fairly new to galaxy and I am trying to use bowtie2 to map my reads against a custom genome (specifically a ribosomal RNA fasta file). I have formatted the file as suggested in the Galaxywiki ect and I am still getting the following message: Job output not returned by PBS: the output datasets were deleted while the job was running, the job was manually dequeued or there was a cluster error.

Any help would me much appreciated!

Maria


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___________________________________________________________
The Galaxy User list should be used for the discussion of
Galaxy analysis and other features on the public server
at usegalaxy.org.  Please keep all replies on the list by
using "reply all" in your mail client.  For discussion of
local Galaxy instances and the Galaxy source code, please
use the Galaxy Development list:

  http://lists.bx.psu.edu/listinfo/galaxy-dev

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  http://lists.bx.psu.edu/

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