# HG changeset patch
# User estrain
# Date 1567878679 14400
# Node ID f8c06e3b0fb919fd21ad6575c56ca393a2a9df83
# Parent  c0c8cc9a3ddba0d7d64d27e6cdac55b0b86c42e8
Uploaded

diff -r c0c8cc9a3ddb -r f8c06e3b0fb9 SeqSero2_package.py
--- a/SeqSero2_package.py	Sat Sep 07 13:47:39 2019 -0400
+++ b/SeqSero2_package.py	Sat Sep 07 13:51:19 2019 -0400
@@ -1214,7 +1214,7 @@
 
 def judge_subspecies(fnameA,dirpath):
   #seqsero2 -a; judge subspecies on just forward raw reads fastq
-  salmID_output=subprocess.Popen("SalmID.py -i "+fnameA,shell=True,stdout=subprocess.PIPE,stderr=subprocess.PIPE)
+  salmID_output=subprocess.Popen("./SalmID.py -i "+fnameA,shell=True,stdout=subprocess.PIPE,stderr=subprocess.PIPE)
   out, err = salmID_output.communicate()
   out=out.decode("utf-8")
   err=err.decode("utf-8")