diff macros.xml @ 1:39dcc05e4b60 draft

planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/transit commit bb1afe7092cd4f9440d3434379a93270907bf175

--- a/macros.xml	Mon Nov 05 12:53:04 2018 -0500
+++ b/macros.xml	Mon Nov 05 14:27:25 2018 -0500
@@ -15,11 +15,11 @@
 	<token name="@VERSION@">2.3.1</token>
 	<xml name="outputs">
         <yield />
-        <data name="output" from_work_dir="transit_out.txt" format="tabular" label="${tool.name} on ${on_string}: Output" />
-        <data name="genes" from_work_dir="transit_out_genes.txt" format="tabular" label="${tool.name} on ${on_string}: Genes" />
+        <data name="sites" from_work_dir="transit_out.txt" format="tabular" label="${tool.name} on ${on_string}: Sites" />
     </xml>
     <xml name="inputs">
         <param name="inputs" type="data" format="wig" multiple="true" label="Input .wig files" />
+        <yield />
         <param name="annotation" type="data" format="gff3" label="Input annotation" />
     </xml>
     <xml name="replicates">
@@ -34,7 +34,6 @@
     </xml>
     <xml name="standard_inputs">
     	<expand macro="inputs" />
-    	<expand macro="replicates" />
     	<yield />
     	<expand macro="ignore_tas" />
     </xml>
@@ -47,15 +46,7 @@
             ln -s '$annotation' annotation.dat &&
         ]]>
     </token>
-	<token name="@FILES@">
-		<![CDATA[
-			$input_files
-	    	annotation.dat
-	    	'transit_out.txt'
-	    ]]>
-	</token>
     <token name="@STANDARD_OPTIONS@">
-        -r $replicates
         -iN $nterm
         -tC $cterm
     </token>