Hi,


When I run Galaxy under Python 2.7, I am unable to run SAM to BAM tools without 
getting the following error (below). The same configuration with Python 2.6 
does not have an issue. The error seems to indicate bx_python eggs are not 
fetchable. What am I doing wrong?



Error report below:



GALAXY TOOL ERROR REPORT

------------------------



This error report was sent from the Galaxy instance hosted on the server 
"ussd-dev-lnx01.illumina.com"

-----------------------------------------------------------------------------

This is in reference to dataset id 301 from history id 68

-----------------------------------------------------------------------------

You should be able to view the history containing the related history item



7: SAM-to-BAM on data 6: converted BAM



by logging in as a Galaxy admin user to the Galaxy instance referenced above 
and pointing your browser to the following link.



ussd-dev-lnx01.illumina.com/history/view?id=42e99d98e0ee2844

-----------------------------------------------------------------------------

The user 'kha...@illumina.com' provided the following information:





-----------------------------------------------------------------------------

job id: 200

tool id: sam_to_bam

-----------------------------------------------------------------------------

job command line:

python /home/galaxy/eval/sept09/galaxy-central/tools/samtools/sam_to_bam.py     
  
--input1=/home/galaxy/production/Sept06/galaxy-central/database/files/000/dataset_300.dat
         --dbkey=PhiX        
--output1=/home/galaxy/production/Sept06/galaxy-central/database/files/000/dataset_301.dat
       --index_dir=/home/galaxy/eval/sept09/galaxy-central/tool-data

-----------------------------------------------------------------------------

job stderr:

Traceback (most recent call last):

  File "/home/galaxy/eval/sept09/galaxy-central/tools/samtools/sam_to_bam.py", 
line 14, in ?

    import pkg_resources; pkg_resources.require( "bx-python" )

  File "/home/galaxy/eval/sept09/galaxy-central/lib/galaxy/eggs/__init__.py", 
line 415, in require

   raise EggNotFetchable( str( [ egg.name for egg in e.eggs ] ) )

galaxy.eggs.EggNotFetchable: ['bx_python']



-----------------------------------------------------------------------------

job stdout:



-----------------------------------------------------------------------------

job info:

None

-----------------------------------------------------------------------------

job traceback:

None

-----------------------------------------------------------------------------

(This is an automated message).


Thanks,

Kirt Haden
Sr. Mgr. Engineering
Illumina, Inc.
9885 Towne Centre Drive
San Diego, CA 92121
Tel: 858.202.4655
Fax: 858.202.4545
Email: kha...@illumina.com<mailto:kha...@illumina.com>
Website: www.illumina.com<http://www.illumina.com/>

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