Mercurial > repos > gga > chado_organism_add_organism
diff organism_add_organism.xml @ 0:51ac1ffb4f38 draft
planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/chado commit 81a83f06b49db32928ba0cd44e5b6d0431868d27
author | gga |
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date | Thu, 21 Jun 2018 08:44:11 -0400 |
parents | |
children | 5d566012d85f |
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--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/organism_add_organism.xml Thu Jun 21 08:44:11 2018 -0400 @@ -0,0 +1,44 @@ +<?xml version="1.0"?> +<tool id="organism_add_organism" name="Chado organism add" version="@WRAPPER_VERSION@.0"> + <description></description> + <macros> + <import>macros.xml</import> + </macros> + <expand macro="requirements"/> + <command detect_errors="aggressive"><![CDATA[ +@AUTH@ + +chakin organism add_organism +'$genus' +'$common' +'$abbr' + +#if $species: + --species '$species' +#end if +#if $comment: + --comment '$comment' +#end if + +| jq -S . > $results + ]]></command> + <inputs> + <!-- arguments --> + <param name="genus" label="Genus" argument="genus" type="text" help="The genus of the organism" /> + <param name="species" label="Species" argument="species" type="text" help="The species of the organism" /> + <param name="common" label="Common" argument="common" type="text" help="The common name of the organism" /> + <param name="abbr" label="Abbr" argument="abbr" type="text" help="The abbreviation of the organism" /> + + <!-- options --> + <param name="comment" label="Comment" argument="comment" type="text" help="A comment / description" /> + + </inputs> + <outputs> + <data format="json" name="results"/> + </outputs> + <help> +Add a new organism to the Chado database + +@HELP@ + </help> +</tool>