Hi Ilya,

The 'actions' tagset must be within the ''data' tagset, you have it outside. 
Try something like:

<data format="sam" name="output2" label="${tool.name} on ${on_string}:Output 
Sam File" >
      <actions>
       <action type="metadata" name="dbkey">
             <option type="from_data_table" name="RNASEQ_contams" column="1" 
offset="0">
                <filter type="param_value" column="0" value="#" 
compare="startswith" keep="False"/>
                <filter type="param_value" ref="input2" column="0"/>
             </option>
       </action>
      </actions>
</data>


Please let us know if we can provide additional assistance.

Thanks for using Galaxy,

Dan


On Oct 18, 2011, at 12:29 PM, Chorny, Ilya wrote:

> Anybody, anybody?
>  
> Thanks,
>  
> Ilya
>  
>  
> From: galaxy-dev-boun...@lists.bx.psu.edu 
> [mailto:galaxy-dev-boun...@lists.bx.psu.edu] On Behalf Of Chorny, Ilya
> Sent: Monday, October 17, 2011 9:31 AM
> To: galaxy-dev@lists.bx.psu.edu
> Subject: [galaxy-dev] Trouble getting setting dbkey of output data
>  
> I am having trouble setting the dbkey of an output data set. The input and 
> output, respectively, is shown below. I copied this from the 
> bowtie_wrapper.xml  but the difference is that I do not have a condition on 
> selecting the reference genome. My tool requires a .loc file. The tools 
> completes correctly but the dbkey is not set. Any thoughts on what I may be 
> doing wrong?
>  
> Thanks,
>  
> Ilya
>  
>  
> <param name="input2" type="select" label="Select a reference genome">
>        <options from_data_table="RNASEQ_contams">
>           <filter type="sort_by" column="2" />
>           <validator type="no_options" message="No indexes are available for 
> the selected input dataset" />
>        </options>
> </param>
>  
> <data format="sam" name="output2" label="${tool.name} on ${on_string}:Output 
> Sam File" />
>       <actions>
>        <action type="metadata" name="dbkey">
>              <option type="from_data_table" name="RNASEQ_contams" column="1" 
> offset="0">
>                 <filter type="param_value" column="0" value="#" 
> compare="startswith" keep="False"/>
>                 <filter type="param_value" ref="input2" column="0"/>
>              </option>
>        </action>
>       </actions>
>  
> Ilya Chorny Ph.D.
> Bioinformatics Scientist I
> Illumina, Inc.
> 9885 Towne Centre Drive
> San Diego, CA 92121
> Work: 858.202.4582
> Email: icho...@illumina.com
> Website: www.illumina.com
>  
>  
> ___________________________________________________________
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