--- a/reheader.xml	Fri Apr 29 06:01:46 2016 -0400
+++ b/reheader.xml	Sat Jun 11 19:10:44 2016 -0400
@@ -1,10 +1,10 @@
 <tool id="reheader" name="Reheader BAM file" version="0.1.7.2">
   <description>From a BAM file generate a new file with the original header (if any) replaced or modified by that found in a second SAM file</description>
   <expand macro="requirements"/>
-  <version_command>mimodd version -q</version_command>
+  <version_command>python3 -m MiModD version -q</version_command>
   <command>    
     #if ($str($rg.treat_rg) != "ignore" and $str($rg.rginfo.source) == "from_form") or $str($co.treat_co) != "ignore":
-      mimodd header 
+      python3 -m MiModD header 
       #if $str($rg.treat_rg) != "ignore" and $str($rg.rginfo.source) == "from_form":
         #for $rginfo in $rg.rginfo.rg
       	  #if $str($rginfo.source_id):
@@ -60,7 +60,7 @@
 	  #end if
       | 
     #end if
-    mimodd reheader "$inputfile" --sq ignore
+    python3 -m MiModD reheader "$inputfile" --sq ignore
     --rg ${rg.treat_rg}
     #if $str($rg.treat_rg) != "ignore":
       #if $str($rg.rginfo.source) == "from_file":