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src/c/o/cogent-1.5.3/tests/test_maths/test_stats/test_cai/test_util.py   cogent(Download)
from math import log, exp
from operator import mul
from cogent.maths.stats.cai.util import cu, as_rna, synonyms_to_rna, \
    get_synonyms, sum_codon_freqs, norm_to_max, arithmetic_mean, \
    geometric_mean, codon_adaptiveness_all, codon_adaptiveness_blocks, \
    def test_geometric_mean(self):
        """geometric_mean should average a list of means with freqs"""
        obs = geometric_mean([1,2,3],[2,1,3])
        exp = (1*1*2*3*3*3)**(1/6.)
        self.assertEqual(obs, exp)
        obs = geometric_mean([0.01, 0.2, 0.5], [5, 2, 3])

src/p/y/pycogent-HEAD/tests/test_maths/test_stats/test_cai/test_util.py   pycogent(Download)
from math import log, exp
from operator import mul
from cogent.maths.stats.cai.util import cu, as_rna, synonyms_to_rna, \
    get_synonyms, sum_codon_freqs, norm_to_max, arithmetic_mean, \
    geometric_mean, codon_adaptiveness_all, codon_adaptiveness_blocks, \
    def test_geometric_mean(self):
        """geometric_mean should average a list of means with freqs"""
        obs = geometric_mean([1,2,3],[2,1,3])
        exp = (1*1*2*3*3*3)**(1/6.)
        self.assertEqual(obs, exp)
        obs = geometric_mean([0.01, 0.2, 0.5], [5, 2, 3])