# HG changeset patch
# User ynewton
# Date 1358471926 18000
# Node ID 82e5ee13fe5a99e7b65b4808ef67b486fb220863
# Parent  5240f8985481304d8ec78447a8c1589ab6ccb6ce
Uploaded

diff -r 5240f8985481 -r 82e5ee13fe5a get_normal_vs_tumor_sample_ids.xml
--- a/get_normal_vs_tumor_sample_ids.xml	Thu Jan 17 20:08:25 2013 -0500
+++ b/get_normal_vs_tumor_sample_ids.xml	Thu Jan 17 20:18:46 2013 -0500
@@ -1,6 +1,6 @@
 <tool id="extract_tumor_vs_normal_ID_lists" name="Extract tumor vs. normal TCGA IDs" version="1.0.0">
   <description>Extract normal vs. tumor IDs for TCGA samples</description>
-  <command interpreter="python">get_normal_vs_tumor_sample_ids.py --in_matrix $tableData --out_normals $outfile1 --out_tumor $outfile2
+  <command interpreter="python">get_normal_vs_tumor_sample_ids.py $tableData $outfile1 $outfile2
   </command>
   <inputs>
 	  <param name="tableData" format="tabular" type="data" label="Input data"/>