Mercurial > repos > gga > chado_phylogeny_gene_order

view phylogeny_gene_order.xml @ 0:4854abe5473b draft

Find changesets by keywords (author, files, the commit message), revision number or hash, or revset expression.
planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/chado commit 81a83f06b49db32928ba0cd44e5b6d0431868d27
author gga
date Thu, 21 Jun 2018 08:41:53 -0400
parents
children 9bd557c70bcb
line wrap: on
line source

<?xml version="1.0"?>
<tool id="phylogeny_gene_order" name="Chado gene ordering" version="@WRAPPER_VERSION@.0">
 	<description>for phylogeny module</description>
	<macros>
		<import>macros.xml</import>
	</macros>
	<expand macro="requirements"/>
	<command detect_errors="aggressive"><![CDATA[
@AUTH@

chakin phylogeny gene_order

#if $nuke:
  $nuke
#end if

 > $results
    ]]></command>
	<inputs>
    <!-- options -->
		<param name="nuke" label="Nuke" argument="nuke" type="boolean" truevalue="--nuke" falsevalue="" help="Removes all previous gene ordering data" />
	    <expand macro="wait_for"/>

	</inputs>
	<outputs>
		<data format="txt" name="results"/>
	</outputs>
	<help>
Orders all the genes in the database by their order on their respective chromosomes in the gene_order table (for use in https://github.com/legumeinfo/lis_context_viewer/).

@HELP@
	</help>
</tool>