annotate feature_get_features.xml @ 6:ad5111ebc9e4 draft

planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/chado commit c5b949de324bf86c88c680767e56ac77685cd14c

<?xml version="1.0"?>
<tool id="feature_get_features" name="Chado features get" version="@WRAPPER_VERSION@.0">
 <description></description>
	<macros>
		<import>macros.xml</import>
	</macros>
	<expand macro="requirements"/>
    <code file="chado.py"/>
	<command detect_errors="aggressive"><![CDATA[
@AUTH@

chakin feature get_features

#if $organism:
  --organism_id '$organism'
#end if
#if $analysis_id:
  --analysis_id '$analysis_id'
#end if
#if $name:
  --name '$name'
#end if
#if $uniquename:
  --uniquename '$uniquename'
#end if

| jq -S . > $results
    ]]></command>
	<inputs>
    <!-- arguments -->

    <!-- options -->
    <param argument="--organism"
           type="select"
           dynamic_options="list_organisms()"
           label="Organism" />
	<param argument="--analysis_id"
		type="select"
		dynamic_options="list_analyses()"
		label="Analysis" />
	<param name="name" label="Name" argument="name" type="text" help="name filter" />
	<param name="uniquename" label="Uniquename" argument="uniquename" type="text" help="uniquename filter" />

	</inputs>
	<outputs>
		<data format="json" name="results"/>
	</outputs>
	<help>
Get all or some features

@HELP@
	</help>
</tool>