# HG changeset patch
# User dfornika
# Date 1521937609 14400
# Node ID fd7788ac4f4a5be93c58188df1d950fcfa5d581c
# Parent  c7ae5215f11d562178f76dc9788d6336bd98b098
planemo upload for repository https://github.com/WGS-TB/MentaLiST/tree/master/galaxy commit 79b9f36868b2aaf72661abd09b96a3ad582b8918-dirty

diff -r c7ae5215f11d -r fd7788ac4f4a tools/mentalist_call/mentalist_call.xml
--- a/tools/mentalist_call/mentalist_call.xml	Sat Mar 24 19:23:20 2018 -0400
+++ b/tools/mentalist_call/mentalist_call.xml	Sat Mar 24 20:26:49 2018 -0400
@@ -15,9 +15,9 @@
     $output_votes
     $output_special
     #if $input_type.sPaired == "paired":
-       -s $input_type.pInput1.name $input_type.pInput1 $input_type.pInput2
+       -s $input_type.pInput1.name -1 $input_type.pInput1 -2 $input_type.pInput2
     #elif $input_type.sPaired == "collections":
-       -s $input_type.fastq_collection.name $input_type.fastq_collection.forward $input_type.fastq_collection.reverse
+       -s $input_type.fastq_collection.name -1 $input_type.fastq_collection.forward -2 $input_type.fastq_collection.reverse
     #end if
   ]]></command>
   <inputs>
@@ -45,7 +45,7 @@
     <param name="kmer_threshold" type="integer" label="Kmer threshold"
 	   help="Minimum number of times a kmer is seen to be considered present in the sample."
 	   value="10" min="1" max="25" />
-    <parapm name="output_votes" type="boolean" label="Output votes"
+    <param name="output_votes" type="boolean" label="Output votes"
 	    argument="--output_votes" truevalue="--output_votes" falsevalue=""
 	    help="Outputs the results for the original voting algorithm" />
     <param name="output_special" type="boolean" label="Output special"