EVOLUTION-MANAGER

Edit File: timer_comparison.py

import timeit

import sys
import numpy as np
from numpy import float_
import np.core.fromnumeric as fromnumeric

from np.testing.utils import build_err_msg

np.seterr(all='ignore')

pi = np.pi

if sys.version_info[0] >= 3:
    from functools import reduce

class moduletester(object):
    def __init__(self, module):
        self.module = module
        self.allequal = module.allequal
        self.arange = module.arange
        self.array = module.array
#        self.average =  module.average
        self.concatenate = module.concatenate
        self.count = module.count
        self.equal = module.equal
        self.filled = module.filled
        self.getmask = module.getmask
        self.getmaskarray = module.getmaskarray
        self.id = id
        self.inner = module.inner
        self.make_mask = module.make_mask
        self.masked = module.masked
        self.masked_array = module.masked_array
        self.masked_values = module.masked_values
        self.mask_or = module.mask_or
        self.nomask = module.nomask
        self.ones = module.ones
        self.outer = module.outer
        self.repeat = module.repeat
        self.resize = module.resize
        self.sort = module.sort
        self.take = module.take
        self.transpose = module.transpose
        self.zeros = module.zeros
        self.MaskType = module.MaskType
        try:
            self.umath = module.umath
        except AttributeError:
            self.umath = module.core.umath
        self.testnames = []

def assert_array_compare(self, comparison, x, y, err_msg='', header='',
                         fill_value=True):
        """Asserts that a comparison relation between two masked arrays is satisfied
        elementwise."""
        xf = self.filled(x)
        yf = self.filled(y)
        m = self.mask_or(self.getmask(x), self.getmask(y))

x = self.filled(self.masked_array(xf, mask=m), fill_value)
        y = self.filled(self.masked_array(yf, mask=m), fill_value)
        if (x.dtype.char != "O"):
            x = x.astype(float_)
            if isinstance(x, np.ndarray) and x.size > 1:
                x[np.isnan(x)] = 0
            elif np.isnan(x):
                x = 0
        if (y.dtype.char != "O"):
            y = y.astype(float_)
            if isinstance(y, np.ndarray) and y.size > 1:
                y[np.isnan(y)] = 0
            elif np.isnan(y):
                y = 0
        try:
            cond = (x.shape==() or y.shape==()) or x.shape == y.shape
            if not cond:
                msg = build_err_msg([x, y],
                                    err_msg
                                    + '\n(shapes %s, %s mismatch)' % (x.shape,
                                                                      y.shape),
                                    header=header,
                                    names=('x', 'y'))
                assert cond, msg
            val = comparison(x,y)
            if m is not self.nomask and fill_value:
                val = self.masked_array(val, mask=m)
            if isinstance(val, bool):
                cond = val
                reduced = [0]
            else:
                reduced = val.ravel()
                cond = reduced.all()
                reduced = reduced.tolist()
            if not cond:
                match = 100-100.0*reduced.count(1)/len(reduced)
                msg = build_err_msg([x, y],
                                    err_msg
                                    + '\n(mismatch %s%%)' % (match,),
                                    header=header,
                                    names=('x', 'y'))
                assert cond, msg
        except ValueError:
            msg = build_err_msg([x, y], err_msg, header=header, names=('x', 'y'))
            raise ValueError(msg)

def assert_array_equal(self, x, y, err_msg=''):
        """Checks the elementwise equality of two masked arrays."""
        self.assert_array_compare(self.equal, x, y, err_msg=err_msg,
                                  header='Arrays are not equal')

def test_0(self):
        "Tests creation"
        x = np.array([1.,1.,1.,-2., pi/2.0, 4., 5., -10., 10., 1., 2., 3.])
        m = [1, 0, 0, 0, 0, 0, 1, 0, 0, 0, 0, 0]
        xm = self.masked_array(x, mask=m)
        xm[0]

def test_1(self):
        "Tests creation"
        x = np.array([1.,1.,1.,-2., pi/2.0, 4., 5., -10., 10., 1., 2., 3.])
        y = np.array([5.,0.,3., 2., -1., -4., 0., -10., 10., 1., 0., 3.])
        a10 = 10.
        m1 = [1, 0, 0, 0, 0, 0, 1, 0, 0, 0, 0, 0]
        m2 = [0, 0, 1, 0, 0, 1, 1, 0, 0, 0 ,0, 1]
        xm = self.masked_array(x, mask=m1)
        ym = self.masked_array(y, mask=m2)
        z = np.array([-.5, 0., .5, .8])
        zm = self.masked_array(z, mask=[0,1,0,0])
        xf = np.where(m1, 1.e+20, x)
        xm.set_fill_value(1.e+20)

assert((xm-ym).filled(0).any())
        #fail_if_equal(xm.mask.astype(int_), ym.mask.astype(int_))
        s = x.shape
        assert(xm.size == reduce(lambda x,y:x*y, s))
        assert(self.count(xm) == len(m1) - reduce(lambda x,y:x+y, m1))

for s in [(4,3), (6,2)]:
            x.shape = s
            y.shape = s
            xm.shape = s
            ym.shape = s
            xf.shape = s

assert(self.count(xm) == len(m1) - reduce(lambda x,y:x+y, m1))

def test_2(self):
        "Tests conversions and indexing"
        x1 = np.array([1,2,4,3])
        x2 = self.array(x1, mask=[1,0,0,0])
        x3 = self.array(x1, mask=[0,1,0,1])
        x4 = self.array(x1)
    # test conversion to strings
        junk, garbage = str(x2), repr(x2)
#        assert_equal(np.sort(x1), self.sort(x2, fill_value=0))
    # tests of indexing
        assert type(x2[1]) is type(x1[1])
        assert x1[1] == x2[1]
#        assert self.allequal(x1[2],x2[2])
#        assert self.allequal(x1[2:5],x2[2:5])
#        assert self.allequal(x1[:],x2[:])
#        assert self.allequal(x1[1:], x3[1:])
        x1[2] = 9
        x2[2] = 9
        self.assert_array_equal(x1,x2)
        x1[1:3] = 99
        x2[1:3] = 99
#        assert self.allequal(x1,x2)
        x2[1] = self.masked
#        assert self.allequal(x1,x2)
        x2[1:3] = self.masked
#        assert self.allequal(x1,x2)
        x2[:] = x1
        x2[1] = self.masked
#        assert self.allequal(self.getmask(x2),self.array([0,1,0,0]))
        x3[:] = self.masked_array([1,2,3,4],[0,1,1,0])
#        assert self.allequal(self.getmask(x3), self.array([0,1,1,0]))
        x4[:] = self.masked_array([1,2,3,4],[0,1,1,0])
#        assert self.allequal(self.getmask(x4), self.array([0,1,1,0]))
#        assert self.allequal(x4, self.array([1,2,3,4]))
        x1 = np.arange(5)*1.0
        x2 = self.masked_values(x1, 3.0)
#        assert self.allequal(x1,x2)
#        assert self.allequal(self.array([0,0,0,1,0], self.MaskType), x2.mask)
        x1 = self.array([1,'hello',2,3],object)
        x2 = np.array([1,'hello',2,3],object)
        s1 = x1[1]
        s2 = x2[1]
        assert x1[1:1].shape == (0,)
        # Tests copy-size
        n = [0,0,1,0,0]
        m = self.make_mask(n)
        m2 = self.make_mask(m)
        assert(m is m2)
        m3 = self.make_mask(m, copy=1)
        assert(m is not m3)

def test_3(self):
        "Tests resize/repeat"
        x4 = self.arange(4)
        x4[2] = self.masked
        y4 = self.resize(x4, (8,))
        assert self.allequal(self.concatenate([x4,x4]), y4)
        assert self.allequal(self.getmask(y4),[0,0,1,0,0,0,1,0])
        y5 = self.repeat(x4, (2,2,2,2), axis=0)
        self.assert_array_equal(y5, [0,0,1,1,2,2,3,3])
        y6 = self.repeat(x4, 2, axis=0)
        assert self.allequal(y5, y6)
        y7 = x4.repeat((2,2,2,2), axis=0)
        assert self.allequal(y5,y7)
        y8 = x4.repeat(2,0)
        assert self.allequal(y5,y8)

#----------------------------------
    def test_4(self):
        "Test of take, transpose, inner, outer products"
        x = self.arange(24)
        y = np.arange(24)
        x[5:6] = self.masked
        x = x.reshape(2,3,4)
        y = y.reshape(2,3,4)
        assert self.allequal(np.transpose(y,(2,0,1)), self.transpose(x,(2,0,1)))
        assert self.allequal(np.take(y, (2,0,1), 1), self.take(x, (2,0,1), 1))
        assert self.allequal(np.inner(self.filled(x,0), self.filled(y,0)),
                            self.inner(x, y))
        assert self.allequal(np.outer(self.filled(x,0), self.filled(y,0)),
                            self.outer(x, y))
        y = self.array(['abc', 1, 'def', 2, 3], object)
        y[2] = self.masked
        t = self.take(y,[0,3,4])
        assert t[0] == 'abc'
        assert t[1] == 2
        assert t[2] == 3
    #----------------------------------
    def test_5(self):
        "Tests inplace w/ scalar"

x = self.arange(10)
        y = self.arange(10)
        xm = self.arange(10)
        xm[2] = self.masked
        x += 1
        assert self.allequal(x, y+1)
        xm += 1
        assert self.allequal(xm, y+1)

x = self.arange(10)
        xm = self.arange(10)
        xm[2] = self.masked
        x -= 1
        assert self.allequal(x, y-1)
        xm -= 1
        assert self.allequal(xm, y-1)

x = self.arange(10)*1.0
        xm = self.arange(10)*1.0
        xm[2] = self.masked
        x *= 2.0
        assert self.allequal(x, y*2)
        xm *= 2.0
        assert self.allequal(xm, y*2)

x = self.arange(10)*2
        xm = self.arange(10)*2
        xm[2] = self.masked
        x /= 2
        assert self.allequal(x, y)
        xm /= 2
        assert self.allequal(xm, y)

x = self.arange(10)*1.0
        xm = self.arange(10)*1.0
        xm[2] = self.masked
        x /= 2.0
        assert self.allequal(x, y/2.0)
        xm /= self.arange(10)
        self.assert_array_equal(xm, self.ones((10,)))

x = self.arange(10).astype(float_)
        xm = self.arange(10)
        xm[2] = self.masked
        id1 = self.id(x.raw_data())
        x += 1.
        #assert id1 == self.id(x.raw_data())
        assert self.allequal(x, y+1.)

def test_6(self):
        "Tests inplace w/ array"

x = self.arange(10, dtype=float_)
        y = self.arange(10)
        xm = self.arange(10, dtype=float_)
        xm[2] = self.masked
        m = xm.mask
        a = self.arange(10, dtype=float_)
        a[-1] = self.masked
        x += a
        xm += a
        assert self.allequal(x,y+a)
        assert self.allequal(xm,y+a)
        assert self.allequal(xm.mask, self.mask_or(m,a.mask))

x = self.arange(10, dtype=float_)
        xm = self.arange(10, dtype=float_)
        xm[2] = self.masked
        m = xm.mask
        a = self.arange(10, dtype=float_)
        a[-1] = self.masked
        x -= a
        xm -= a
        assert self.allequal(x,y-a)
        assert self.allequal(xm,y-a)
        assert self.allequal(xm.mask, self.mask_or(m,a.mask))

x = self.arange(10, dtype=float_)
        xm = self.arange(10, dtype=float_)
        xm[2] = self.masked
        m = xm.mask
        a = self.arange(10, dtype=float_)
        a[-1] = self.masked
        x *= a
        xm *= a
        assert self.allequal(x,y*a)
        assert self.allequal(xm,y*a)
        assert self.allequal(xm.mask, self.mask_or(m,a.mask))

x = self.arange(10, dtype=float_)
        xm = self.arange(10, dtype=float_)
        xm[2] = self.masked
        m = xm.mask
        a = self.arange(10, dtype=float_)
        a[-1] = self.masked
        x /= a
        xm /= a

#----------------------------------
    def test_7(self):
        "Tests ufunc"
        d = (self.array([1.0, 0, -1, pi/2]*2, mask=[0,1]+[0]*6),
             self.array([1.0, 0, -1, pi/2]*2, mask=[1,0]+[0]*6),)
        for f in ['sqrt', 'log', 'log10', 'exp', 'conjugate',
#                  'sin', 'cos', 'tan',
#                  'arcsin', 'arccos', 'arctan',
#                  'sinh', 'cosh', 'tanh',
#                  'arcsinh',
#                  'arccosh',
#                  'arctanh',
#                  'absolute', 'fabs', 'negative',
#                  # 'nonzero', 'around',
#                  'floor', 'ceil',
#                  # 'sometrue', 'alltrue',
#                  'logical_not',
#                  'add', 'subtract', 'multiply',
#                  'divide', 'true_divide', 'floor_divide',
#                  'remainder', 'fmod', 'hypot', 'arctan2',
#                  'equal', 'not_equal', 'less_equal', 'greater_equal',
#                  'less', 'greater',
#                  'logical_and', 'logical_or', 'logical_xor',
                  ]:
            #print f
            try:
                uf = getattr(self.umath, f)
            except AttributeError:
                uf = getattr(fromnumeric, f)
            mf = getattr(self.module, f)
            args = d[:uf.nin]
            ur = uf(*args)
            mr = mf(*args)
            self.assert_array_equal(ur.filled(0), mr.filled(0), f)
            self.assert_array_equal(ur._mask, mr._mask)

#----------------------------------
    def test_99(self):
        # test average
        ott = self.array([0.,1.,2.,3.], mask=[1,0,0,0])
        self.assert_array_equal(2.0, self.average(ott,axis=0))
        self.assert_array_equal(2.0, self.average(ott, weights=[1., 1., 2., 1.]))
        result, wts = self.average(ott, weights=[1.,1.,2.,1.], returned=1)
        self.assert_array_equal(2.0, result)
        assert(wts == 4.0)
        ott[:] = self.masked
        assert(self.average(ott,axis=0) is self.masked)
        ott = self.array([0.,1.,2.,3.], mask=[1,0,0,0])
        ott = ott.reshape(2,2)
        ott[:,1] = self.masked
        self.assert_array_equal(self.average(ott,axis=0), [2.0, 0.0])
        assert(self.average(ott,axis=1)[0] is self.masked)
        self.assert_array_equal([2.,0.], self.average(ott, axis=0))
        result, wts = self.average(ott, axis=0, returned=1)
        self.assert_array_equal(wts, [1., 0.])
        w1 = [0,1,1,1,1,0]
        w2 = [[0,1,1,1,1,0],[1,0,0,0,0,1]]
        x = self.arange(6)
        self.assert_array_equal(self.average(x, axis=0), 2.5)
        self.assert_array_equal(self.average(x, axis=0, weights=w1), 2.5)
        y = self.array([self.arange(6), 2.0*self.arange(6)])
        self.assert_array_equal(self.average(y, None), np.add.reduce(np.arange(6))*3./12.)
        self.assert_array_equal(self.average(y, axis=0), np.arange(6) * 3./2.)
        self.assert_array_equal(self.average(y, axis=1), [self.average(x,axis=0), self.average(x,axis=0) * 2.0])
        self.assert_array_equal(self.average(y, None, weights=w2), 20./6.)
        self.assert_array_equal(self.average(y, axis=0, weights=w2), [0.,1.,2.,3.,4.,10.])
        self.assert_array_equal(self.average(y, axis=1), [self.average(x,axis=0), self.average(x,axis=0) * 2.0])
        m1 = self.zeros(6)
        m2 = [0,0,1,1,0,0]
        m3 = [[0,0,1,1,0,0],[0,1,1,1,1,0]]
        m4 = self.ones(6)
        m5 = [0, 1, 1, 1, 1, 1]
        self.assert_array_equal(self.average(self.masked_array(x, m1),axis=0), 2.5)
        self.assert_array_equal(self.average(self.masked_array(x, m2),axis=0), 2.5)
    #    assert(self.average(masked_array(x, m4),axis=0) is masked)
        self.assert_array_equal(self.average(self.masked_array(x, m5),axis=0), 0.0)
        self.assert_array_equal(self.count(self.average(self.masked_array(x, m4),axis=0)), 0)
        z = self.masked_array(y, m3)
        self.assert_array_equal(self.average(z, None), 20./6.)
        self.assert_array_equal(self.average(z, axis=0), [0.,1.,99.,99.,4.0, 7.5])
        self.assert_array_equal(self.average(z, axis=1), [2.5, 5.0])
        self.assert_array_equal(self.average(z,axis=0, weights=w2), [0.,1., 99., 99., 4.0, 10.0])
    #------------------------
    def test_A(self):
        x = self.arange(24)
        y = np.arange(24)
        x[5:6] = self.masked
        x = x.reshape(2,3,4)

################################################################################
if __name__ == '__main__':

setup_base = "from __main__ import moduletester \n"\
                 "import numpy\n" \
                 "tester = moduletester(module)\n"
#    setup_new = "import np.ma.core_ini as module\n"+setup_base
    setup_cur = "import np.ma.core as module\n"+setup_base
#    setup_alt = "import np.ma.core_alt as module\n"+setup_base
#    setup_tmp = "import np.ma.core_tmp as module\n"+setup_base

(nrepeat, nloop) = (10, 10)

if 1:
        for i in range(1,8):
            func = 'tester.test_%i()' % i
#            new = timeit.Timer(func, setup_new).repeat(nrepeat, nloop*10)
            cur = timeit.Timer(func, setup_cur).repeat(nrepeat, nloop*10)
#            alt = timeit.Timer(func, setup_alt).repeat(nrepeat, nloop*10)
#            tmp = timeit.Timer(func, setup_tmp).repeat(nrepeat, nloop*10)
#            new = np.sort(new)
            cur = np.sort(cur)
#            alt = np.sort(alt)
#            tmp = np.sort(tmp)
            print "#%i" % i +50*'.'
            print eval("moduletester.test_%i.__doc__" % i)
#            print "core_ini     : %.3f - %.3f" % (new[0], new[1])
            print "core_current : %.3f - %.3f" % (cur[0], cur[1])
#            print "core_alt     : %.3f - %.3f" % (alt[0], alt[1])
#            print "core_tmp     : %.3f - %.3f" % (tmp[0], tmp[1])