# HG changeset patch
# User fabio
# Date 1544604835 18000
# Node ID 71fd722355437f1e716b9444cb6e7e3c330267c9
# Parent  a625bcf76ce65e353b8a4a28fcb2f5292fb4c518
Uploaded 20181212

diff -r a625bcf76ce6 -r 71fd72235543 ._.shed.yml
Binary file ._.shed.yml has changed
diff -r a625bcf76ce6 -r 71fd72235543 ._codon_usage.py
Binary file ._codon_usage.py has changed
diff -r a625bcf76ce6 -r 71fd72235543 ._codon_usage.xml
Binary file ._codon_usage.xml has changed
diff -r a625bcf76ce6 -r 71fd72235543 codon_usage.xml
--- a/codon_usage.xml	Tue Dec 11 16:10:07 2018 -0500
+++ b/codon_usage.xml	Wed Dec 12 03:53:55 2018 -0500
@@ -1,12 +1,17 @@
-<tool id="codon_usage" name="Codon Usage" version="0.2.0">
+<?xml version="1.0"?>
+<tool name="Codon Usage" id="codon_usage" version="0.2.0">
   <description>for each sequence in a file</description>
   <requirements>
-    <requirement type=“package” version=“3.6.0”>python</requirement>
-    <requirement type=“package” version=“1.72”>biopython</requirement>
-    <requirement type=“package” version=“0.23.4”>pandas</requirement>
+    <requirement type="package" version="3.6.0">python</requirement>
+    <requirement type="package" version="1.72">biopython</requirement>
+    <requirement type="package" version="0.23.4">pandas</requirement>
   </requirements> 
   
-  <command>python $__tool_directory__/codon_usage.py -i $input -t $input_type -o $output -c $codon_table</command>
+  <command>
+<![CDATA[
+  python '$__tool_directory__/codon_usage.py' -i $input -t $input_type -o $output -c $codon_table
+]]>
+  </command>
   <inputs>
     <param name="input" format="fasta" type="data" label="Source file"/>
 
@@ -21,7 +26,6 @@
         <option value="Archaeal"> Archaeal</option>
         <option value="Bacterial">Bacterial</option>
         <option value="Standard">Standard</option>
-        
 		</param>
   </inputs>