# HG changeset patch
# User crs4
# Date 1528724011 14400
# Node ID a0a30c52978abf1c02e5337327a86c7deb2a2de6
# Parent  9ccde1867fbbd3ae060d37e3144d8d06b4974617
Replaces Rscript by R CMD BATCH

diff -r 9ccde1867fbb -r a0a30c52978a exomedepth.xml
--- a/exomedepth.xml	Mon Jun 11 09:32:44 2018 -0400
+++ b/exomedepth.xml	Mon Jun 11 09:33:31 2018 -0400
@@ -3,8 +3,8 @@
   <requirements>
 	  <requirement type="package" version="1.1.10">r-exomedepth</requirement>
   </requirements>
-  <command interpreter="Rscript">
-   exomedepth.R $args_file
+  <command>
+    R CMD BATCH --no-save --no-restore '--args mypars="$args_file"' $__tool_directory__/exomedepth.R
   </command>
   <inputs>
     <param format="bed" name="targetFile" type="data" label="Target regions (BED)">