diff sort.xml @ 6:8928e6d1e7ba draft

Uploaded
author bgruening
date Thu, 08 Jan 2015 09:07:31 -0500
parents 56e80527c482
children d64eace4f9f3
line wrap: on
line diff
--- a/sort.xml	Wed Jan 07 11:15:41 2015 -0500
+++ b/sort.xml	Thu Jan 08 09:07:31 2015 -0500
@@ -10,6 +10,7 @@
     <command>
 <![CDATA[
         (
+            LC_ALL=C
             #if int($header) > 0:
                 sed -u '${header}'q && 
             #end if
@@ -50,14 +51,13 @@
             label="Output unique values" help="Print only unique values, based on sorted key columns. See help section for details. (--unique)" />
         <param name="ignore_case" type="boolean" checked="false" truevalue="-i" falsevalue=""
             label="Ignore case" help="Sort and Join key column values regardless of upper/lower case letters. (-i)" />
-
     </inputs>
     <outputs>
-        <data format="input" name="outfile" metadata_source="infile"/>
+        <data name="outfile" format_source="infile" metadata_source="infile"/>
     </outputs>
     <tests>
         <test>
-            <param name="infile" value="sort_in1.bed"/>
+            <param name="infile" value="sort1.bed"/>
             <param name="header" value="3"/>
             <repeat name="sortkeys">
                 <param name="column" value="1"/>
@@ -72,7 +72,7 @@
             <output name="outfile" file="sort_result1.bed"/>
         </test>
         <test>
-            <param name="infile" value="sort_in1.bed"/>
+            <param name="infile" value="sort1.bed"/>
             <param name="header" value="3"/>
             <repeat name="sortkeys">
                 <param name="column" value="1"/>
@@ -87,7 +87,7 @@
             <output name="outfile" file="sort_result2.bed"/>
         </test>
         <test>
-            <param name="infile" value="sort_in2.bed"/>
+            <param name="infile" value="sort2.bed"/>
             <repeat name="sortkeys">
                 <param name="column" value="5"/>
                 <param name="style" value="g"/>