Mercurial > repos > gga > chado_expression_add_biomaterial

diff expression_add_biomaterial.xml @ 5:9692e46b267a draft

Find changesets by keywords (author, files, the commit message), revision number or hash, or revset expression.
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 05:38:36 -0400
parents b0684eb7d975
children 8c7e2b5c228f
line wrap: on
line diff
--- a/expression_add_biomaterial.xml	Tue Mar 05 05:17:10 2019 -0500
+++ b/expression_add_biomaterial.xml	Mon Jul 08 05:38:36 2019 -0400
@@ -7,7 +7,7 @@
 	<expand macro="requirements"/>
     <code file="chado.py"/>
 	<command detect_errors="aggressive"><![CDATA[
-@AUTH@
+@START_PSQL@ &&
 
 chakin expression add_biomaterial
 
@@ -34,8 +34,11 @@
 '$organism_id'
 
 | jq -S . > '$results'
+
+&& @ZIP_PSQL@
     ]]></command>
 	<inputs>
+    <expand macro="psql_target"/>
 	    <!-- arguments -->
 		<param name="biomaterial_name" label="Biomaterial Name" argument="biomaterial_name" type="text" help="Biomaterial name" />
 		<param argument="organism_id" type="select" dynamic_options="list_organisms()" label="Organism" />
@@ -53,6 +56,9 @@
 	</inputs>
 	<outputs>
 		<data format="json" name="results"/>
+		<data format="postgresql" name="outfile" from_work_dir="postgresql_out.tar.bz2" label="${tool.name} '${biomaterial_name}' on ${on_string}">
+			<filter>psql_target['method'] == "pgtools"</filter>
+		</data>
 	</outputs>
 	<help>
 Add a new biomaterial to the database