comparison phylogeny_gene_order.xml @ 11:9efb6d4ed19b draft

planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/chado commit 0b135f1ea2623ea68e41ac88e13d99e6b4ad8bea

10:cba2274d1463

	<macros>
		<import>macros.xml</import>
	</macros>
	<expand macro="requirements"/>
	<command detect_errors="aggressive"><![CDATA[
@AUTH@

chakin phylogeny gene_order

$nuke

 > '$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@

11:9efb6d4ed19b

	<macros>
		<import>macros.xml</import>
	</macros>
	<expand macro="requirements"/>
	<command detect_errors="aggressive"><![CDATA[
@START_PSQL@ &&

chakin phylogeny gene_order

$nuke

 > '$results'

 && @ZIP_PSQL@
    ]]></command>
	<inputs>
		<expand macro="psql_target"/>
    <!-- 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"/>
    <data format="postgresql" name="outfile" from_work_dir="postgresql_out.tar.bz2" label="${tool.name} on ${on_string}">
      <filter>psql_target['method'] == "pgtools"</filter>
    </data>
	</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@