Python get_relatives примеры использования

Пример #1

 def get_relatives(self,
                   GeneID,
                   alignmentType='both',
                   blastThreshold=None,
                   clustalwThreshold=None):
     self.c = db_conf.db_conf(username=self.username,
                              password=self.password,
                              server=self.server,
                              db=self.database).get_cursor()
     self.db = pham.db(c=self.c)
     return phamerator_manage_db.get_relatives(
         self.c,
         GeneID,
         alignmentType=alignmentType,
         blastThreshold=blastThreshold,
         clustalwThreshold=clustalwThreshold)

Пример #2

Файл: phageSOAP.py Проект: byuphamerator/phamerator-dev

 def get_relatives(self, GeneID, alignmentType='both', blastThreshold=None, clustalwThreshold=None):
   self.c = db_conf.db_conf(username=self.username,password=self.password,server=self.server,db=self.database).get_cursor()
   self.db = pham.db(c = self.c)
   return phamerator_manage_db.get_relatives(self.c, GeneID, alignmentType=alignmentType, blastThreshold=blastThreshold, clustalwThreshold=clustalwThreshold)

Пример #3

#!/usr/bin/env python

import db_conf
import phamerator_manage_db
import sys

GeneID = sys.argv[1]
c = db_conf.db_conf().get_cursor()
relatives = phamerator_manage_db.get_relatives(c,
                                               GeneID,
                                               alignmentType='clustalw',
                                               clustalwThreshold=0.275)
for r in relatives:
    print 'query:', r[0], 'subject:', r[1], 'score:', r[2]

Пример #4

Файл: get_relatives.py Проект: byuphamerator/phamerator-dev

#!/usr/bin/env python

import db_conf
import phamerator_manage_db
import sys

GeneID = sys.argv[1]
c = db_conf.db_conf().get_cursor()
relatives = phamerator_manage_db.get_relatives(c, GeneID, alignmentType="clustalw", clustalwThreshold=0.275)
for r in relatives:
    print "query:", r[0], "subject:", r[1], "score:", r[2]