Mercurial > repos > cstrittmatter > ss2v110

comparison bin/SeqSero2_package.py @ 12:08832c0d3cbd draft

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planemo upload commit 70dc513aa7d7ac6785847dfd86323687613b6b68-dirty
author cstrittmatter
date Fri, 15 May 2020 10:19:08 -0400
parents e6437d423693
children
comparison
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11:e8ce538c84a3 12:08832c0d3cbd
507 ### Begin of SeqSero2 allele prediction and output 507 ### Begin of SeqSero2 allele prediction and output
508 def xml_parse_score_comparision_seqsero(xmlfile): 508 def xml_parse_score_comparision_seqsero(xmlfile):
509 #used to do seqsero xml analysis 509 #used to do seqsero xml analysis
510 from Bio.Blast import NCBIXML 510 from Bio.Blast import NCBIXML
511 handle=open(xmlfile) 511 handle=open(xmlfile)
512 print(handle)
512 handle=NCBIXML.parse(handle) 513 handle=NCBIXML.parse(handle)
513 handle=list(handle) 514 handle=list(handle)
514 List=[] 515 List=[]
515 List_score=[] 516 List_score=[]
516 List_ids=[] 517 List_ids=[]