<tool id="rtg_sdf2fasta" name="Extract FASTA" force_history_refresh="True">
  <description>from SDF with sdf2fasta</description>
  <command interpreter="bash">galaxy-rtg-sdf2fasta-wrapper.sh $output1 $output1.id $__new_file_path__
-l $l 
-i ${input.extra_files_path}
-Z
</command>
  <inputs>
    <param name="input" type="data" format="rtg_sdf" label="Source SDF"/>
    <param name="l" type="integer" value="80" label="Line length"/>
  </inputs>
  <outputs>
    <data name="output1" format="fasta"/>
  </outputs>

  <help>
This tool converts an RTG SDF to FASTA.
  </help>

</tool>