Mercurial > repos > boris > phylorelatives

comparison phylorelatives.py @ 25:29ca7d28f6c7 draft

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added --vanilla to rpy2 init options
author boris
date Fri, 07 Jun 2013 10:03:39 -0400
parents 90da8b21438c
children 75dcc9910f6d
comparison
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24:aa0c92b41eec 25:29ca7d28f6c7
27 import sys 27 import sys
28 import argparse 28 import argparse
29 import array 29 import array
30 import dendropy 30 import dendropy
31 import rpy2.rinterface 31 import rpy2.rinterface
32 rpy2.rinterface.set_initoptions(('rpy2','--no-environ','--no-site-file','--no-init-file','--quiet')) 32 rpy2.rinterface.set_initoptions(('rpy2','--vanilla','--quiet'))
33 import rpy2.robjects as robjects 33 import rpy2.robjects as robjects
34 from rpy2.robjects.packages import importr 34 from rpy2.robjects.packages import importr
35 35
36 36
37 def ape_read_dna(infasta): 37 def ape_read_dna(infasta):