Hi Sarah,
this problem has been fixed yesterday in release_16.04 and following with https://github.com/galaxyproject/galaxy/pull/2800 .


Cheers,
Nicola

On 18/08/16 14:24, Sarah DIEHL wrote:
Dear all,

I just ran the liftOver tool that comes with Galaxy (https://github.com/galaxyproject/galaxy/blob/dev/tools/extract/liftOver_wrapper.xml) and for the "mapped coordinates" output dataset the database shows as "<Cheetah.Template.Template object at 0x10adabd0>" (see attached screenshot). It seems that some of the code that determines the output database doesn't work anymore. This is the associated code in the xml:

<data format="input" name="out_file1" label="${tool.name} on ${on_string} [ MAPPED COORDINATES ]">

  <actions>

    <action type="metadata" name="dbkey">

<option type="from_data_table" name="liftOver" key="name" column="1" offset="0">

<filter type="param_value" column="0" value="#" compare="startswith" keep="False"/>

        <filter type="param_value" ref="to_dbkey" column="2"/>

      </option>

    </action>

  </actions>

</data>

Does someone have a clue how to fix this?

Thanks,
Sarah


----
Sarah Diehl
HPC System Administrator
UNIVERSITÉ DU LUXEMBOURG
LUXEMBOURG CENTRE FOR SYSTEMS BIOMEDICINE
Campus Belval | Biotech II
6, avenue du Swing
L-4371 Belvaux
T +352 46 66 44 5360
sarah.di...@uni.lu <mailto:sarah.di...@uni.lu>http://lcsb.uni.lu <http://lcsb.uni.lu/>
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