Mercurial > repos > estrain > seqsero2_v1_0_1

comparison SeqSero2_package.py @ 16:81fce62ea8c1

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author estrain
date Sat, 07 Sep 2019 13:02:05 -0400
parents eca5802b1d6e
children e1287b36e0d3
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15:eca5802b1d6e 16:81fce62ea8c1
1218 out, err = salmID_output.communicate() 1218 out, err = salmID_output.communicate()
1219 out=out.decode("utf-8") 1219 out=out.decode("utf-8")
1220 file=open("data_log.txt","a") 1220 file=open("data_log.txt","a")
1221 file.write(out) 1221 file.write(out)
1222 file.close() 1222 file.close()
1223 print("dirpath " + str(dirpath))
1224 print("SalmID File + str(out))
1223 print("SalmID 1 "+str(out.split("\n")[1])) 1225 print("SalmID 1 "+str(out.split("\n")[1]))
1224 print("SalmID 0 "+str(out.split("\n")[0])) 1226 print("SalmID 0 "+str(out.split("\n")[0]))
1225 salm_species_scores=out.split("\n")[1].split("\t")[6:] 1227 salm_species_scores=out.split("\n")[1].split("\t")[6:]
1226 salm_species_results=out.split("\n")[0].split("\t")[6:] 1228 salm_species_results=out.split("\n")[0].split("\t")[6:]
1227 max_score=0 1229 max_score=0