--- a/mitokmer.xml	Thu Apr 25 07:59:05 2019 -0400
+++ b/mitokmer.xml	Sun Apr 28 00:42:24 2019 -0400
@@ -38,7 +38,10 @@
         python $__tool_directory__/kmer_read_m3.py
         -w $__tool_directory__
         -d $__tool_directory__/output
-        -i $__tool_directory__/$fwd $__tool_directory__/$rev
+        -i $__tool_directory__/$fwd $__tool_directory__/$rev;
+        echo "run cat";
+        rm $__tool_directory__/results*;
+        cat $__tool_directory__/output/mitokmer_result.csv > $__tool_directory__/results.csv;
     ]]></command>
     <inputs>
 
@@ -58,13 +61,13 @@
 
     </inputs>
     <outputs>
-      <data format="tabular" label="mitokmer Results" name="results" from_work_dir="output/mitokmer_result.csv"/>
+      <data format="tabular" label="mitokmer Results" name="results" from_work_dir="results.csv"/>
     </outputs>
     <tests>
         <test>
          <param name="reads_select" value="single" />
          <param name="allreads" value="1a.fasta" format="fasta"/>
-         <output name="output1" file="mitokmer_result.csv"/>
+         <output name="output1" file="output/mitokmer_result.csv"/>
         </test>
     </tests>