Mercurial > repos > gga > chado_phylogeny_gene_families

diff phylogeny_gene_families.xml @ 11:cb4cee85202a draft

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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 05:37:56 -0400
parents f8d27e79e363
children b9fd06875714
line wrap: on
line diff
--- a/phylogeny_gene_families.xml	Tue Mar 05 05:16:37 2019 -0500
+++ b/phylogeny_gene_families.xml	Mon Jul 08 05:37:56 2019 -0400
@@ -6,7 +6,7 @@
 	</macros>
 	<expand macro="requirements"/>
 	<command detect_errors="aggressive"><![CDATA[
-@AUTH@
+@START_PSQL@ &&
 
 chakin phylogeny gene_families
 
@@ -17,16 +17,22 @@
 $nuke
 
  > '$results'
+
+ && @ZIP_PSQL@
     ]]></command>
 	<inputs>
-        <!-- options -->
+		  <expand macro="psql_target"/>
+      <!-- options -->
     	<param name="family_name" label="Family Name" argument="--family_name" type="text" help="Restrict to families beginning with given prefix" />
     	<param name="nuke" label="Nuke" argument="--nuke" type="boolean" truevalue="--nuke" falsevalue="" help="Removes all previous gene families data" />
         <expand macro="wait_for"/>
 
 	</inputs>
 	<outputs>
-		<data format="txt" name="results"/>
+			<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>
 Adds an entry in the featureprop table in a chado database for each family a gene belongs to (for use in https://github.com/legumeinfo/lis_context_viewer/).