# HG changeset patch
# User stef
# Date 1412764983 14400
# Node ID 44728b4dee386c614e28a963952189ade80c45c7
# Parent  c84ed1b12d67250123c231f397e5ee3cd72ad53e
Uploaded

diff -r c84ed1b12d67 -r 44728b4dee38 falco.sh
--- a/falco.sh	Thu Sep 11 10:49:52 2014 -0400
+++ b/falco.sh	Wed Oct 08 06:43:03 2014 -0400
@@ -38,6 +38,9 @@
 echo "MAN:"$manifest_file
 echo "BED chosen:"$BED_PATH
 echo "MAN chosen:"$MAN_PATH
+echo "VARSCAN_PATH1:"$SNPEFF_JAR_PATH
+echo "VARSCAN_PATH2:"\$SNPEFF_JAR_PATH
+echo "VARSCAN_PATH3:"$jar_path
 
 init_file="galaxy_init.sh"
 echo '#!/bin/bash' > $init_file