<macros>
	<token name="@TOOL_VERSION@">1.6.0</token>
	<token name="@VERSION_SUFFIX@">0</token>
	<token name="@PROFILE@">23.2</token>
	<xml name="edam_ontology">
	  	<edam_topics>
			<edam_topic>topic_0080</edam_topic>
	    	<edam_topic>topic_0194</edam_topic>
		</edam_topics>
  	</xml>
	<xml name="biotools">
		<xrefs>
			<xref type="bio.tools">panaroo</xref>
		</xrefs>
	</xml>
	<xml name="requirements">
		<requirements>
         <requirement type="package" version="@TOOL_VERSION@">panaroo</requirement>
         <requirement type="package" version="170427">prank</requirement>	
	 <requirement type="package" version="1.2.4">clustalo</requirement>
		</requirements>
	</xml>
	<xml name="genetic_code">
		<option value="1">1. Standard</option>
		<option value="2">2. Vertebrate Mitochondrial</option>
		<option value="3">3. Yeast Mitochondrial</option>
		<option value="4">4. Mold, Protozoan, and Coelenterate Mitochondrial Code and the Mycoplasma/Spiroplasma Code</option>
		<option value="5">5. Invertebrate Mitochondrial</option>
		<option value="6">6. Ciliate, Dasycladacean and Hexamita Nuclear Code</option>
		<option value="9">9. Echinoderm Mitochondrial</option>
		<option value="10">10. Euplotid Nuclear</option>
		<option value="11" selected="True">11. Bacteria and Archaea</option>
		<option value="12">12. Alternative Yeast Nuclear</option>
		<option value="13">13. Ascidian Mitochondrial</option>
		<option value="14">14. Flatworm Mitochondrial</option>
		<option value="15">15. Blepharisma Macronuclear</option>
		<option value="16">16. Chlorophycean Mitochondrial</option>
		<option value="21">21. Trematode Mitochondrial</option>
		<option value="22">22. Scenedesmus obliquus mitochondrial</option>
		<option value="23">23. Thraustochytrium Mitochondrial</option>
		<option value="24">24. Pterobranchia mitochondrial</option>
		<option value="25">25. Candidate Division SR1 and Gracilibacteria Code</option>
		<option value="26">26. Pachysolen tannophilus Nuclear Code</option>
		<option value="27">27. Karyorelict Nuclear Code</option>
		<option value="28">28. Condylostoma Nuclear Code</option>
		<option value="29">29. Mesodinium Nuclear Code</option>
		<option value="30">30. Peritrich Nuclear Code</option>
		<option value="31">31. Blastocrithidia Nuclear Code</option>
		<option value="33">33. Cephalodiscidae Mitochondrial UAA-Tyr Code</option>
	</xml>
</macros>