Hans,

This bug was fixed in the following change set - not sure if it is currently 
available in the distribution.  If not, it should be within the next few weeks. 
 If you need it sooner, you'll have to pull from our development repo at 
http://bitbucket.org/galaxy/galaxy-central/

0f15591f2acd            Fix for tool configs that do not include a command tag.
Branch
25 days ago



On Aug 16, 2011, at 10:38 AM, Hans-Rudolf Hotz wrote:

> Hi
> 
> I apologize, if this problem has already been solved/discussed. I went 
> through the e-mail repos, but couldn't find anything.
> 
> 
> With a little delay, I am in the process of upgrading our local Galaxy 
> server. Currently, I am running a few tests with the "June 23, 2011 
> (720455407d1c)" release.
> 
> 
> I noticed the following problem during start-up of a fresh download:
> 
> galaxy.tools DEBUG 2011-08-16 16:15:06,567 Loading section: SNP/WGA: Data; 
> Filters
> galaxy.tools DEBUG 2011-08-16 16:15:06,630 Loaded tool: upload1 1.1.3
> galaxy.tools ERROR 2011-08-16 16:15:06,639 error reading tool from path: 
> data_source/access_libraries.xml
> Traceback (most recent call last):
>  File "/galaxy/galaxy_test/galaxy_dist/lib/galaxy/tools/__init__.py", line 
> 77, in load_tool
>    tool = self.load_tool( os.path.join( self.tool_root_dir, path ) )
>  File "/galaxy/galaxy_test/galaxy_dist/lib/galaxy/tools/__init__.py", line 
> 169, in load_tool
>    return ToolClass( config_file, root, self.app )
>  File "/galaxy/galaxy_test/galaxy_dist/lib/galaxy/tools/__init__.py", line 
> 340, in __init__
>    self.parse( root )
>  File "/galaxy/galaxy_test/galaxy_dist/lib/galaxy/tools/__init__.py", line 
> 385, in parse
>    self.interpreter = command.get("interpreter", None)
> AttributeError: 'NoneType' object has no attribute 'get'
> galaxy.tools DEBUG 2011-08-16 16:15:06,687 Loaded tool: rgClean1 1.0.0
> 
> 
> and as a consequence: the tool "Access Libraries stored locally" is not 
> available. Does anybody know, what went wrong?   -  The "__init__.py" is a 
> little bit too big of a beast for me   ;)
> 
> 
> We use this tool quite a lot for general access to data libraries (in 
> addition to the drop down in the top menu bar)
> 
> Thank you very much for any help
> 
> Regards, Hans
> ___________________________________________________________
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Greg Von Kuster
Galaxy Development Team
g...@bx.psu.edu



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