Mercurial > repos > estrain > seqsero2_v1_0_1
diff SeqSero2_package.py @ 21:95764a93ed88
Uploaded
| author | estrain |
|---|---|
| date | Sat, 07 Sep 2019 13:42:22 -0400 |
| parents | e33565b4610c |
| children | c0c8cc9a3ddb |
line wrap: on
line diff
--- a/SeqSero2_package.py Sat Sep 07 13:42:11 2019 -0400 +++ b/SeqSero2_package.py Sat Sep 07 13:42:22 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(dirpath+"/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")