Mercurial > repos > gga > chado_organism_add_organism
diff organism_add_organism.xml @ 10:7c212f0d1381 draft
planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/chado commit 0b135f1ea2623ea68e41ac88e13d99e6b4ad8bea
| author | gga |
|---|---|
| date | Mon, 08 Jul 2019 05:35:55 -0400 |
| parents | 7b552f5cb694 |
| children | e79da6f1f0da |
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--- a/organism_add_organism.xml Tue Mar 05 05:14:43 2019 -0500 +++ b/organism_add_organism.xml Mon Jul 08 05:35:55 2019 -0400 @@ -1,12 +1,12 @@ <?xml version="1.0"?> -<tool id="organism_add_organism" name="Chado organism add" version="@WRAPPER_VERSION@.0"> +<tool id="organism_add_organism" name="Chado organism add" version="@WRAPPER_VERSION@.1"> <description></description> <macros> <import>macros.xml</import> </macros> <expand macro="requirements"/> <command detect_errors="aggressive"><![CDATA[ -@AUTH@ +@START_PSQL@ && chakin organism add_organism '$genus' @@ -19,9 +19,12 @@ #end if | jq -S . > '$results' + +&& @ZIP_PSQL@ ]]></command> <inputs> - <!-- arguments --> + <expand macro="psql_target"/> + <!-- 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" /> @@ -32,7 +35,10 @@ </inputs> <outputs> - <data format="json" name="results"/> + <data format="json" name="results" label="Chado organism add: ${genus} ${species}"/> + <data format="postgresql" name="outfile" from_work_dir="postgresql_out.tar.bz2" label="${tool.name} '${genus} ${species}' on ${on_string}"> + <filter>psql_target['method'] == "pgtools"</filter> + </data> </outputs> <help> Add a new organism to the Chado database