Re: [galaxy-dev] Sudden error in local galaxy installation
After some investigating I think the problem is at the line: converted_dataset = converter.execute( trans, incoming=params, set_output_hid=visible, set_output_history=set_output_history)[1] in File /panfs/pstor.storage/home/qbcglab/galaxy_run/galaxy-dist/lib/galaxy/datatypes/data.py, line 483, in convert_dataset -Raj On Fri Aug 2 00:51:39 2013, Raj Ayyampalayam wrote: Here is the first part of the error (Traceback): galaxy.tools ERROR 2013-08-01 22:56:16,590 Exception caught while attempting tool execution: Traceback (most recent call last): File /panfs/pstor.storage/home/qbcglab/galaxy_run/galaxy-dist/lib/galaxy/tools/__init__.py, line 1936, in handle_input _, out_data = self.execute( trans, incoming=params, history=history ) File /panfs/pstor.storage/home/qbcglab/galaxy_run/galaxy-dist/lib/galaxy/tools/__init__.py, line 2264, in execute return self.tool_action.execute( self, trans, incoming=incoming, set_output_hid=set_output_hid, history=history, **kwargs ) File /panfs/pstor.storage/home/qbcglab/galaxy_run/galaxy-dist/lib/galaxy/tools/actions/__init__.py, line 213, in execute chrom_info = build_fasta_dataset.get_converted_dataset( trans, 'len' ).file_name File /panfs/pstor.storage/home/qbcglab/galaxy_run/galaxy-dist/lib/galaxy/model/__init__.py, line 1308, 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 /panfs/pstor.storage/home/qbcglab/galaxy_run/galaxy-dist/lib/galaxy/datatypes/data.py, line 483, in convert_dataset converted_dataset = converter.execute( trans, incoming=params, set_output_hid=visible, set_output_history=set_output_history)[1] File /panfs/pstor.storage/home/qbcglab/galaxy_run/galaxy-dist/lib/galaxy/tools/__init__.py, line 2264, in execute return self.tool_action.execute( self, trans, incoming=incoming, set_output_hid=set_output_hid, history=history, **kwargs ) File /panfs/pstor.storage/home/qbcglab/galaxy_run/galaxy-dist/lib/galaxy/tools/actions/__init__.py, line 213, in execute chrom_info = build_fasta_dataset.get_converted_dataset( trans, 'len' ).file_name File /panfs/pstor.storage/home/qbcglab/galaxy_run/galaxy-dist/lib/galaxy/model/__init__.py, line 1308, 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 /panfs/pstor.storage/home/qbcglab/galaxy_run/galaxy-dist/lib/galaxy/datatypes/data.py, line 483, in convert_dataset converted_dataset = converter.execute( trans, incoming=params, set_output_hid=visible, set_output_history=set_output_history)[1] File /panfs/pstor.storage/home/qbcglab/galaxy_run/galaxy-dist/lib/galaxy/tools/__init__.py, line 2264, in execute return self.tool_action.execute( self, trans, incoming=incoming, set_output_hid=set_output_hid, history=history, **kwargs ) File /panfs/pstor.storage/home/qbcglab/galaxy_run/galaxy-dist/lib/galaxy/tools/actions/__init__.py, line 213, in execute chrom_info = build_fasta_dataset.get_converted_dataset( trans, 'len' ).file_name File /panfs/pstor.storage/home/qbcglab/galaxy_run/galaxy-dist/lib/galaxy/model/__init__.py, line 1308, 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 /panfs/pstor.storage/home/qbcglab/galaxy_run/galaxy-dist/lib/galaxy/datatypes/data.py, line 483, in convert_dataset converted_dataset = converter.execute( trans, incoming=params, set_output_hid=visible, set_output_history=set_output_history)[1] File /panfs/pstor.storage/home/qbcglab/galaxy_run/galaxy-dist/lib/galaxy/tools/__init__.py, line 2264, in execute return self.tool_action.execute( self, trans, incoming=incoming, set_output_hid=set_output_hid, history=history, **kwargs ) File /panfs/pstor.storage/home/qbcglab/galaxy_run/galaxy-dist/lib/galaxy/tools/actions/__init__.py, line 213, in execute chrom_info = build_fasta_dataset.get_converted_dataset( trans, 'len' ).file_name File /panfs/pstor.storage/home/qbcglab/galaxy_run/galaxy-dist/lib/galaxy/model/__init__.py, line 1308, 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 /panfs/pstor.storage/home/qbcglab/galaxy_run/galaxy-dist/lib/galaxy/datatypes/data.py, line 483, in convert_dataset converted_dataset = converter.execute( trans, incoming=params, set_output_hid=visible, set_output_history=set_output_history)[1] File /panfs/pstor.storage/home/qbcglab/galaxy_run/galaxy-dist/lib/galaxy/tools/__init__.py, line 2264, in execute return self.tool_action.execute( self, trans, incoming=incoming, set_output_hid=set_output_hid, history=history, **kwargs ) File
Re: [galaxy-dev] Sudden error in local galaxy installation
Here is the first part of the error (Traceback): galaxy.tools ERROR 2013-08-01 22:56:16,590 Exception caught while attempting tool execution: Traceback (most recent call last): File /panfs/pstor.storage/home/qbcglab/galaxy_run/galaxy-dist/lib/galaxy/tools/__init__.py, line 1936, in handle_input _, out_data = self.execute( trans, incoming=params, history=history ) File /panfs/pstor.storage/home/qbcglab/galaxy_run/galaxy-dist/lib/galaxy/tools/__init__.py, line 2264, in execute return self.tool_action.execute( self, trans, incoming=incoming, set_output_hid=set_output_hid, history=history, **kwargs ) File /panfs/pstor.storage/home/qbcglab/galaxy_run/galaxy-dist/lib/galaxy/tools/actions/__init__.py, line 213, in execute chrom_info = build_fasta_dataset.get_converted_dataset( trans, 'len' ).file_name File /panfs/pstor.storage/home/qbcglab/galaxy_run/galaxy-dist/lib/galaxy/model/__init__.py, line 1308, 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 /panfs/pstor.storage/home/qbcglab/galaxy_run/galaxy-dist/lib/galaxy/datatypes/data.py, line 483, in convert_dataset converted_dataset = converter.execute( trans, incoming=params, set_output_hid=visible, set_output_history=set_output_history)[1] File /panfs/pstor.storage/home/qbcglab/galaxy_run/galaxy-dist/lib/galaxy/tools/__init__.py, line 2264, in execute return self.tool_action.execute( self, trans, incoming=incoming, set_output_hid=set_output_hid, history=history, **kwargs ) File /panfs/pstor.storage/home/qbcglab/galaxy_run/galaxy-dist/lib/galaxy/tools/actions/__init__.py, line 213, in execute chrom_info = build_fasta_dataset.get_converted_dataset( trans, 'len' ).file_name File /panfs/pstor.storage/home/qbcglab/galaxy_run/galaxy-dist/lib/galaxy/model/__init__.py, line 1308, 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 /panfs/pstor.storage/home/qbcglab/galaxy_run/galaxy-dist/lib/galaxy/datatypes/data.py, line 483, in convert_dataset converted_dataset = converter.execute( trans, incoming=params, set_output_hid=visible, set_output_history=set_output_history)[1] File /panfs/pstor.storage/home/qbcglab/galaxy_run/galaxy-dist/lib/galaxy/tools/__init__.py, line 2264, in execute return self.tool_action.execute( self, trans, incoming=incoming, set_output_hid=set_output_hid, history=history, **kwargs ) File /panfs/pstor.storage/home/qbcglab/galaxy_run/galaxy-dist/lib/galaxy/tools/actions/__init__.py, line 213, in execute chrom_info = build_fasta_dataset.get_converted_dataset( trans, 'len' ).file_name File /panfs/pstor.storage/home/qbcglab/galaxy_run/galaxy-dist/lib/galaxy/model/__init__.py, line 1308, 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 /panfs/pstor.storage/home/qbcglab/galaxy_run/galaxy-dist/lib/galaxy/datatypes/data.py, line 483, in convert_dataset converted_dataset = converter.execute( trans, incoming=params, set_output_hid=visible, set_output_history=set_output_history)[1] File /panfs/pstor.storage/home/qbcglab/galaxy_run/galaxy-dist/lib/galaxy/tools/__init__.py, line 2264, in execute return self.tool_action.execute( self, trans, incoming=incoming, set_output_hid=set_output_hid, history=history, **kwargs ) File /panfs/pstor.storage/home/qbcglab/galaxy_run/galaxy-dist/lib/galaxy/tools/actions/__init__.py, line 213, in execute chrom_info = build_fasta_dataset.get_converted_dataset( trans, 'len' ).file_name File /panfs/pstor.storage/home/qbcglab/galaxy_run/galaxy-dist/lib/galaxy/model/__init__.py, line 1308, 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 /panfs/pstor.storage/home/qbcglab/galaxy_run/galaxy-dist/lib/galaxy/datatypes/data.py, line 483, in convert_dataset converted_dataset = converter.execute( trans, incoming=params, set_output_hid=visible, set_output_history=set_output_history)[1] File /panfs/pstor.storage/home/qbcglab/galaxy_run/galaxy-dist/lib/galaxy/tools/__init__.py, line 2264, in execute return self.tool_action.execute( self, trans, incoming=incoming, set_output_hid=set_output_hid, history=history, **kwargs ) File /panfs/pstor.storage/home/qbcglab/galaxy_run/galaxy-dist/lib/galaxy/tools/actions/__init__.py, line 213, in execute chrom_info = build_fasta_dataset.get_converted_dataset( trans, 'len' ).file_name File /panfs/pstor.storage/home/qbcglab/galaxy_run/galaxy-dist/lib/galaxy/model/__init__.py, line 1308, in
