Anybody, anybody?

 

Thanks,

 

Ilya

 

 

From: galaxy-dev-bounces@lists.bx.psu.edu [mailto:galaxy-dev-bounces@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: ichorny@illumina.com

Website: www.illumina.com

 

 

___________________________________________________________
Please keep all replies on the list by using "reply all"
in your mail client.  To manage your subscriptions to this
and other Galaxy lists, please use the interface at:

 http://lists.bx.psu.edu/