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src/c/o/cogent-1.5.3/tests/test_maths/test_stats/test_period.py   cogent(Download)
import numpy
from cogent.util.unit_test import TestCase, main
 
from cogent.maths.stats.period import chi_square, factorial, g_statistic, \
        circular_indices, _seq_to_symbols, seq_to_symbols, blockwise_bootstrap, \
        hybrid_calc = Hybrid(len(s), llim=2, period = 4)
        ipdft_calc = Ipdft(len(s), llim=2, period = 4)
        stat, p = blockwise_bootstrap(s, hybrid_calc, block_size=10,
                    num_reps=1000, seq_to_symbols=seq_to_symbol)
        # print 's=%.4f; p=%.3f' % (stat, p)
        stat, p = blockwise_bootstrap(s, ipdft_calc, block_size=10,
        seq_to_symbol = SeqToSymbols(self.motifs, length=len(s))
        hybrid_calc = Hybrid(len(s), period = 4, return_all=True)
        stat, p = blockwise_bootstrap(s, hybrid_calc, block_size=10,
                    num_reps=1000, seq_to_symbols=seq_to_symbol)
        # print 's=%s; p=%s' % (stat, p)
        seq_to_symbol = SeqToSymbols(self.motifs, length=len(s))
        ipdft_calc = Ipdft(len(s), llim=2, period = 4)
        stat, p = blockwise_bootstrap(s, ipdft_calc, block_size=10,
                    num_reps=1000, seq_to_symbols=seq_to_symbol, num_stats=1)
        self.assertEqual(stat, 0.0)

src/p/y/pycogent-HEAD/tests/test_maths/test_stats/test_period.py   pycogent(Download)
import numpy
from cogent.util.unit_test import TestCase, main
 
from cogent.maths.stats.period import chi_square, factorial, g_statistic, \
        circular_indices, _seq_to_symbols, seq_to_symbols, blockwise_bootstrap, \
        hybrid_calc = Hybrid(len(s), llim=2, period = 4)
        ipdft_calc = Ipdft(len(s), llim=2, period = 4)
        stat, p = blockwise_bootstrap(s, hybrid_calc, block_size=10,
                    num_reps=1000, seq_to_symbols=seq_to_symbol)
        # print 's=%.4f; p=%.3f' % (stat, p)
        stat, p = blockwise_bootstrap(s, ipdft_calc, block_size=10,
        seq_to_symbol = SeqToSymbols(self.motifs, length=len(s))
        hybrid_calc = Hybrid(len(s), period = 4, return_all=True)
        stat, p = blockwise_bootstrap(s, hybrid_calc, block_size=10,
                    num_reps=1000, seq_to_symbols=seq_to_symbol)
        # print 's=%s; p=%s' % (stat, p)
        seq_to_symbol = SeqToSymbols(self.motifs, length=len(s))
        ipdft_calc = Ipdft(len(s), llim=2, period = 4)
        stat, p = blockwise_bootstrap(s, ipdft_calc, block_size=10,
                    num_reps=1000, seq_to_symbols=seq_to_symbol, num_stats=1)
        self.assertEqual(stat, 0.0)