Mercurial > repos > nml > sistr_cmd

diff sistr_cmd.xml @ 5:24a7a95867b0 draft default tip

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"planemo upload commit 683b11f79a83cf9e1563e46a75919157fa1136d4"
author nml
date Fri, 19 Mar 2021 20:09:37 +0000
parents 17fcac7ddf54
children
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line diff
--- a/sistr_cmd.xml	Thu Aug 06 11:48:49 2020 -0400
+++ b/sistr_cmd.xml	Fri Mar 19 20:09:37 2021 +0000
@@ -1,4 +1,4 @@
-<tool id="sistr_cmd" name="sistr_cmd" version="@VERSION@">
+<tool id="sistr_cmd" name="sistr_cmd" version="@VERSION@+galaxy1">
   <description>
     Salmonella In Silico Typing Resource commandline tool for serovar prediction 
   </description>
@@ -14,7 +14,7 @@
   <command><![CDATA[
   sistr 
     #for $fasta in $input_fastas
-      -i '$fasta' '${$fasta.name.replace("." + $fasta.ext, "")}'
+      -i '$fasta' '${$fasta.element_identifier.replace("." + $fasta.ext, "")}'
     #end for
     -f $output_format
     -o sistr-report.$output_format
@@ -39,7 +39,7 @@
       optional="false" 
       multiple="true"
       format="fasta"
-      />
+    />
     <param 
       name="output_format" 
       type="select"