This is a bug in setting up chromosome information for jobs and is actually due
to some unusual interactions b/t your custom builds and job setup. I've fixed
it in -central changeset a8eca62cd530 ; of course, this will be available
during the next -dist update.
> I have tried running (on my local instance) a number of tools
> (fasta_to_tabular, tandem_repeat_finder, others) on my fasta file but keep
> getting the error Error executing tool: 'fasta' after file execution. In the
> log file I see this
> 10.1.1.119 - - [27/Jan/2012:15:47:15 -0400] "GET
> /tool_runner?tool_id=fasta2tab HTTP/1.1" 200 -
> "http://domain:8080/root/tool_menu" "Mozilla/5.0 (Windows NT 5.2; WOW64;
> rv:6.0) Gecko/20100101 Firefox/6.0"
> galaxy.tools ERROR 2012-01-27 15:47:17,647 Exception caught while attempting
> tool execution:
> Traceback (most recent call last):
> File "/Galaxy/galaxy_dist/lib/galaxy/tools/__init__.py", line 1184, in
> _, out_data = self.execute( trans, incoming=params, history=history )
> File "/Galaxy/galaxy_dist/lib/galaxy/tools/__init__.py", line 1503, in
> 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 199,
> in execute
> build_fasta_dataset = trans.app.model.HistoryDatasetAssociation.get(
> custom_build_dict[ 'fasta' ] )
> KeyError: 'fasta'
> The fasta file is ok because I have a development installation and the tools
> work fine there. So there is something wrong with my production installation.
> I did a diff between the files galaxy_dist/lib/galaxy/tools/__init__.py and
> lib/galaxy/tools/actions/__init__.py but they are the same.
> Any help would be much appreciated.
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