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 ]">

    <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.diehl@uni.lu http://lcsb.uni.lu

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