Mercurial > repos > gga > chado_organism_get_organisms
view organism_get_organisms.xml @ 18:4a4746803b8a draft
"planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/chado commit 170209d14cabe6ce8ab7b9f06df7fbf36af2ba43"
author | gga |
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date | Tue, 04 May 2021 12:52:36 +0000 |
parents | 1873b5415ecf |
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<?xml version="1.0"?> <tool id="organism_get_organisms" name="Chado organism get" version="@WRAPPER_VERSION@"> <description></description> <macros> <import>macros.xml</import> </macros> <expand macro="requirements"/> <command detect_errors="aggressive"><![CDATA[ @START_PSQL@ && chakin organism get_organisms #if $organism_id: --organism_id '$organism_id' #end if #if $genus: --genus '$genus' #end if #if $species: --species '$species' #end if #if $common: --common '$common' #end if #if $abbr: --abbr '$abbr' #end if #if $comment: --comment '$comment' #end if | jq -S . > '$results' @STOP_PSQL@ ]]></command> <inputs> <expand macro="psql_target"/> <!-- arguments --> <!-- options --> <param name="organism_id" label="Organism Id" argument="--organism_id" type="integer" help="organism_id filter" optional="True" /> <param name="genus" label="Genus" argument="--genus" type="text" help="genus filter" optional="True" /> <param name="species" label="Species" argument="--species" type="text" help="species filter" optional="True" /> <param name="common" label="Common" argument="--common" type="text" help="common filter" optional="True" /> <param name="abbr" label="Abbr" argument="--abbr" type="text" help="abbr filter" optional="True" /> <param name="comment" label="Comment" argument="--comment" type="text" help="comment filter" optional="True" /> </inputs> <outputs> <data format="json" name="results"/> </outputs> <help> Get all or some organisms @HELP@ </help> </tool>