"""

Check 2-parameter recessivity estimates with gtr mutation and cond. log lik.

"""

from StringIO import StringIO

import os

import collections

import numpy

import Form

import FormOut

import npcodon

import yangdata

def get_form():

]

def get_form_out():

return FormOut.Report()

def get_selection_F(log_counts, compo, log_nt_weights):

return log_counts - numpy.dot(compo, log_nt_weights)

def get_selection_S(F):

e = numpy.ones_like(F)

return numpy.outer(e, F) - numpy.outer(F, e)

def get_D(

return D

def construct_args():

return args

def get_response_content(fs):

return out.getvalue()