# HG changeset patch
# User estrain
# Date 1567876603 14400
# Node ID e33565b4610c5ca70159e03a03afc4486b3d3e14
# Parent  e1287b36e0d3398d7ba1020e546b7ce42ea1b293
Uploaded

diff -r e1287b36e0d3 -r e33565b4610c SeqSero2_package.py
--- a/SeqSero2_package.py	Sat Sep 07 13:11:54 2019 -0400
+++ b/SeqSero2_package.py	Sat Sep 07 13:16:43 2019 -0400
@@ -1217,11 +1217,13 @@
   salmID_output=subprocess.Popen(dirpath+"/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")
   file=open("data_log.txt","a")
   file.write(out)
   file.close()
   print("dirpath " + str(dirpath))
   print("SalmID File" + str(out))
+  print("SalmID Err File" + str(err))
   print("SalmID 1 "+str(out.split("\n")[1]))
   print("SalmID 0 "+str(out.split("\n")[0]))
   salm_species_scores=out.split("\n")[1].split("\t")[6:]