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/

0f15591f2acdFix for tool configs that do not include a command tag.
Branch



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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