Mercurial > repos > estrain > seqsero2_v1_0_1
diff SeqSero2_package.py @ 22:c0c8cc9a3ddb
Uploaded
| author | estrain |
|---|---|
| date | Sat, 07 Sep 2019 13:47:39 -0400 |
| parents | 95764a93ed88 |
| children | f8c06e3b0fb9 |
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--- a/SeqSero2_package.py Sat Sep 07 13:42:22 2019 -0400 +++ b/SeqSero2_package.py Sat Sep 07 13:47:39 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")