root/galaxy-central/tools/filters/joiner2.xml

<tool id="joiner2" name="Relational join 2">
  <description>two Queries A specific column of which has the same value</description>
  <command>sort -k $col1 $input1 > $input1.tmp; sort -k $col2 $input2 > $input2.tmp; join -1 $col1 -2 $col2 $input1.tmp $input2.tmp | tr " " "\t" > $out_file1; rm -rf $input1.tmp $input2.tmp </command>
  <inputs>
    <param name="input1" label="Combine query" format="tabular" type="data" />
    <param name="col1" label="using column" type="data_column" data_ref="input1" />
    <param name="input2" label="with query"     format="tabular" type="data"/>
    <param name="col2" label="and column" type="data_column" data_ref="input2" />
  </inputs>
  <outputs>
    <data format="input" name="out_file1" metadata_source="input1" />
  </outputs>
</tool>