Hi,
I'm running a local instance of Galaxy and no matter what tool I run I get
the following error:
Error executing tool: maximum recursion depth exceeded while calling a
Python object
In the log file:
galaxy.tools ERROR 2013-01-25 14:06:54,375 Exception caught while
attempting tool execution:
Traceback (most recent call last):
File "/Galaxy/galaxy_dist/lib/galaxy/tools/__init__.py", line 1776, in
handle_input
_, out_data = self.execute( trans, incoming=params, history=history )
File "/Galaxy/galaxy_dist/lib/galaxy/tools/__init__.py", line 2103, in
execute
return self.tool_action.execute( self, trans, incoming=incoming,
set_output_hid=set_output_hid, history=history, **kwargs )
File "/Galaxy/galaxy_dist/lib/galaxy/tools/actions/__init__.py", line
203, in execute
chrom_info = build_fasta_dataset.get_converted_dataset( trans, 'len'
).file_name
File "/Galaxy/galaxy_dist/lib/galaxy/model/__init__.py", line 1161, in
get_converted_dataset
new_dataset = self.datatype.convert_dataset( trans, self, target_ext,
return_output=True, visible=False, deps=deps, set_output_history=False
).values()[0]
File "/Galaxy/galaxy_dist/lib/galaxy/datatypes/data.py", line 467, in
convert_dataset
converted_dataset = converter.execute( trans, incoming=params,
set_output_hid=visible, set_output_history=set_output_history)[1]
File "/Galaxy/galaxy_dist/lib/galaxy/tools/__init__.py", line 2103, in
execute
return self.tool_action.execute( self, trans, incoming=incoming,
set_output_hid=set_output_hid, history=history, **kwargs )
File "/Galaxy/galaxy_dist/lib/galaxy/tools/actions/__init__.py", line
203, in execute
chrom_info = build_fasta_dataset.get_converted_dataset( trans, 'len'
).file_name
File "/Galaxy/galaxy_dist/lib/galaxy/model/__init__.py", line 1161, in
get_converted_dataset
new_dataset = self.datatype.convert_dataset( trans, self, target_ext,
return_output=True, visible=False, deps=deps, set_output_history=False
).values()[0]
File "/Galaxy/galaxy_dist/lib/galaxy/datatypes/data.py", line 467, in
convert_dataset
converted_dataset = converter.execute( trans, incoming=params,
set_output_hid=visible, set_output_history=set_output_history)[1]
File "/Galaxy/galaxy_dist/lib/galaxy/tools/__init__.py", line 2103, in
execute
return self.tool_action.execute( self, trans, incoming=incoming,
set_output_hid=set_output_hid, history=history, **kwargs )
File "/Galaxy/galaxy_dist/lib/galaxy/tools/actions/__init__.py", line
203, in execute
chrom_info = build_fasta_dataset.get_converted_dataset( trans, 'len'
).file_name
File "/Galaxy/galaxy_dist/lib/galaxy/model/__init__.py", line 1161, in
get_converted_dataset
new_dataset = self.datatype.convert_dataset( trans, self, target_ext,
return_output=True, visible=False, deps=deps, set_output_history=False
).values()[0]
File "/Galaxy/galaxy_dist/lib/galaxy/datatypes/data.py", line 467, in
convert_dataset
converted_dataset = converter.execute( trans, incoming=params,
set_output_hid=visible, set_output_history=set_output_history)[1]
File "/Galaxy/galaxy_dist/lib/galaxy/tools/__init__.py", line 2103, in
execute
return self.tool_action.execute( self, trans, incoming=incoming,
set_output_hid=set_output_hid, history=history, **kwargs )
thousands of lines here...ending with...
File
"/Galaxy/galaxy_dist/eggs/SQLAlchemy-0.5.6_dev_r6498-py2.6.egg/sqlalchemy/schema.py",
line 760, in _make_proxy
selectable.columns.add(c)
File
"/Galaxy/galaxy_dist/eggs/SQLAlchemy-0.5.6_dev_r6498-py2.6.egg/sqlalchemy/sql/expression.py",
line 1668, in add
self[column.key] = column
File
"/Galaxy/galaxy_dist/eggs/SQLAlchemy-0.5.6_dev_r6498-py2.6.egg/sqlalchemy/sql/expression.py",
line 1671, in __setitem__
if key in self:
File
"/Galaxy/galaxy_dist/eggs/SQLAlchemy-0.5.6_dev_r6498-py2.6.egg/sqlalchemy/sql/expression.py",
line 1702, in __contains__
return util.OrderedProperties.__contains__(self, other)
File
"/Galaxy/galaxy_dist/eggs/SQLAlchemy-0.5.6_dev_r6498-py2.6.egg/sqlalchemy/util.py",
line 652, in __contains__
return key in self._data
RuntimeError: maximum recursion depth exceeded while calling a Python
object
Any help would be much appreciated,
Thanks in advance,
Liisa
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