Hello,

Please don't set your bug report address (error_email_to in
universe_wsgi.ini) to the user mailing list.  This should be set to a
local address at your site.

--nate

galaxy-user@lists.bx.psu.edu wrote:
> 
> GALAXY TOOL ERROR REPORT
> ------------------------
> 
> This error report was sent from the Galaxy instance hosted on the server
> "192.168.0.36:8080"
> -----------------------------------------------------------------------------
> This is in reference to dataset id 377 from history id 2
> -----------------------------------------------------------------------------
> You should be able to view the history containing the related history item
> 
> 176: Cuffcompare on data 175: transcript accuracy 
> 
> by logging in as a Galaxy admin user to the Galaxy instance referenced above
> and pointing your browser to the following link.
> 
> 192.168.0.36:8080/history/view?id=f597429621d6eb2b
> -----------------------------------------------------------------------------
> The user 'joh...@ibms.sinica.edu.tw' provided the following information:
> 
> While executing cuffcompare, I encountered this error message:
> 
> Error running cuffcompare. [Errno 2] No such file or directory: 'cc_output'
> 
> I was practicing RNA-seq analysis steps on newly installed galaxy to test if 
> i could easily analyze my data.
> 
> I could run cufflinks and cuffdiff through galaxy, but i'm unable to run 
> cuffcompare.
> 
> how should i solve this problem?
> 
> thanks a lot!
> -----------------------------------------------------------------------------
> job id: 126
> tool id: cuffcompare
> -----------------------------------------------------------------------------
> job command line:
> python /home/galaxy/software/galaxy_dist/tools/ngs_rna/cuffcompare_wrapper.py 
>                                         -s                     
> --ref_file="None"                 --dbkey=hg19                  
> --index_dir=/home/galaxy/software/galaxy_dist/tool-data                       
>    /home/galaxy/software/galaxy_dist/database/files/000/dataset_376.dat     
> -----------------------------------------------------------------------------
> job stderr:
> Error running cuffcompare. [Errno 2] No such file or directory: 'cc_output'
> 
> -----------------------------------------------------------------------------
> job stdout:
> cuffcompare v1.0.3 (2403)
> cuffcompare -o cc_output  -s /home/galaxy/data/galaxy_data/sam_index/hg19.fa 
> ./input1 
> 
> -----------------------------------------------------------------------------
> job info:
> None
> -----------------------------------------------------------------------------
> job traceback:
> None
> -----------------------------------------------------------------------------
> (This is an automated message).
> ___________________________________________________________
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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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please use the interface at:

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

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