Dear all,

I installed a local galaxy using the latest codebase yesterday. During the startup, the loading of 3 tool wrappers are failed: epigraph.xml, epigraph_test.xml, access_libraries.xml.

Similar errors were reported in http://www.mail-archive.com/galaxy-dev@lists.bx.psu.edu/msg01839.html

Have other people experienced the same problem? Any suggested solutions?

Thanks,
Leon

==== paster.log below ===
...
galaxy.tools DEBUG 2011-07-22 16:02:47,084 Loaded tool: hbvar 1.0.0
galaxy.tools DEBUG 2011-07-22 16:02:47,088 Loaded tool: fix_errors 1.0.0
galaxy.tools DEBUG 2011-07-22 16:02:47,089 Loading section: Send Data
galaxy.tools ERROR 2011-07-22 16:02:47,089 error reading tool from path: data_destination/epigraph.xml
Traceback (most recent call last):
  File "/opt/galaxy/prog/galaxy-2011-7-21/lib/galaxy/tools/__init__.py", line 77, in load_tool
    tool = self.load_tool( os.path.join( self.tool_root_dir, path ) )
  File "/opt/galaxy/prog/galaxy-2011-7-21/lib/galaxy/tools/__init__.py", line 169, in load_tool
    return ToolClass( config_file, root, self.app )
  File "/opt/galaxy/prog/galaxy-2011-7-21/lib/galaxy/tools/__init__.py", line 340, in __init__
    self.parse( root )
  File "/opt/galaxy/prog/galaxy-2011-7-21/lib/galaxy/tools/__init__.py", line 385, in parse
    self.interpreter = command.get("interpreter", None)
AttributeError: 'NoneType' object has no attribute 'get'
galaxy.tools ERROR 2011-07-22 16:02:47,090 error reading tool from path: data_destination/epigraph_test.xml
Traceback (most recent call last):
  File "/opt/galaxy/prog/galaxy-2011-7-21/lib/galaxy/tools/__init__.py", line 77, in load_tool
    tool = self.load_tool( os.path.join( self.tool_root_dir, path ) )
  File "/opt/galaxy/prog/galaxy-2011-7-21/lib/galaxy/tools/__init__.py", line 169, in load_tool
    return ToolClass( config_file, root, self.app )
  File "/opt/galaxy/prog/galaxy-2011-7-21/lib/galaxy/tools/__init__.py", line 340, in __init__
    self.parse( root )
  File "/opt/galaxy/prog/galaxy-2011-7-21/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 2011-07-22 16:02:50,556 Loading section: SNP/WGA: Data; Filters
galaxy.tools DEBUG 2011-07-22 16:02:50,587 Loaded tool: upload1 1.1.3
galaxy.tools ERROR 2011-07-22 16:02:50,587 error reading tool from path: data_source/access_libraries.xml
Traceback (most recent call last):
  File "/opt/galaxy/prog/galaxy-2011-7-21/lib/galaxy/tools/__init__.py", line 77, in load_tool
    tool = self.load_tool( os.path.join( self.tool_root_dir, path ) )
  File "/opt/galaxy/prog/galaxy-2011-7-21/lib/galaxy/tools/__init__.py", line 169, in load_tool
    return ToolClass( config_file, root, self.app )
  File "/opt/galaxy/prog/galaxy-2011-7-21/lib/galaxy/tools/__init__.py", line 340, in __init__
    self.parse( root )
  File "/opt/galaxy/prog/galaxy-2011-7-21/lib/galaxy/tools/__init__.py", line 385, in parse
    self.interpreter = command.get("interpreter", None)
AttributeError: 'NoneType' object has no attribute 'get'
...


--
Hailiang (Leon) Mei
Netherlands Bioinformatics Center (http://www.nbic.nl/)   
Skype: leon_mei    Mobile: +31 6 41709231
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