# HG changeset patch
# User crs4
# Date 1489770068 14400
# Node ID 98120fb71f9b484640417fd4da52ab72563a1b38
# Parent  38832fe9708b07b09c44ce615882999ed9c702f5
Uploaded

diff -r 38832fe9708b -r 98120fb71f9b conifer3/conifer.py
--- a/conifer3/conifer.py	Fri Mar 17 11:47:36 2017 -0400
+++ b/conifer3/conifer.py	Fri Mar 17 13:01:08 2017 -0400
@@ -585,7 +585,8 @@
 
     f = pysam.Samfile(args.input[0], "rb")
 
-    if not f._hasIndex():
+#    if not f._hasIndex():
+    if not f._has_index():
         print("[ERROR] No index found for bam file (%s)!\n[ERROR] You must first index the bam file and include the .bai file in the same directory as the bam file!" % \
               args.input[0])
         sys.exit(0)