diff --git a/scripts/bam2junc.sh b/scripts/bam2junc.sh
index 657ca97..0207a2f 100644
--- a/scripts/bam2junc.sh
+++ b/scripts/bam2junc.sh
@@ -1,5 +1,5 @@
 
-leafCutterDir='..'
+leafCutterDir=$(dirname $0)/..
 bamfile=$1
 bedfile=$1.bed
 juncfile=$2