Mercurial > repos > jpayne > shigatyper

diff shigatyper.xml @ 6:005fdb74636e tip

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Uploaded
author jpayne
date Fri, 12 Jun 2020 15:07:35 -0400
parents b4e604288530
children
line wrap: on
line diff
--- a/shigatyper.xml	Tue Feb 25 14:03:44 2020 -0500
+++ b/shigatyper.xml	Fri Jun 12 15:07:35 2020 -0400
@@ -9,7 +9,7 @@
             #set reverse=$reads.coll.reverse
             #set name=$reads.coll.name
         #else
-            #set name=$reads.coll.forward.name.split('_')[0]
+            #set name=$forward.name.split('_')[0]
         #end if
 
         shigatyper -n "$name" "$forward" "$reverse" -vv >
@@ -53,7 +53,7 @@
         <test>
             <param name="reads_select" value="collection" />
             <param name="coll">
-                <collection type="paired">
+                <collection type="paired" name="CFSAN029786">
                     <element name="forward" value="CFSAN029786_S10_L001_R1_001.fastq.gz" ftype="fastqsanger.gz" />
                     <element name="reverse" value="CFSAN029786_S10_L001_R2_001.fastq.gz" ftype="fastqsanger.gz" />
                 </collection>