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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_codon_adaptiveness_all(self):
        """codon_adaptiveness_all should normalize all codons relative to the best one."""
        codons = {'x':4, 'y':3, 'z':2, 'zz':0, 'zzz':4}
        result = codon_adaptiveness_all(codons)
        self.assertEqual(result, {'x':1., 'y':.75, 'z':.5, 'zz':0, 'zzz':1.})

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_codon_adaptiveness_all(self):
        """codon_adaptiveness_all should normalize all codons relative to the best one."""
        codons = {'x':4, 'y':3, 'z':2, 'zz':0, 'zzz':4}
        result = codon_adaptiveness_all(codons)
        self.assertEqual(result, {'x':1., 'y':.75, 'z':.5, 'zz':0, 'zzz':1.})