import unittest
import pysal
from pysal.esda import smoothing as sm
from pysal import knnW_from_array
import numpy as np
from pysal.common import RTOL, ATOL

from pysal.common import pandas

PANDAS_EXTINCT = pandas is None

class TestFlatten(unittest.TestCase):
    def setUp(self):
        self.input = [[1, 2], [3, 3, 4], [5, 6]]

    def test_flatten(self):
        out1 = sm.flatten(self.input)
        out2 = sm.flatten(self.input, unique=False)
        self.assertEqual(out1, [1, 2, 3, 4, 5, 6])
        self.assertEqual(out2, [1, 2, 3, 3, 4, 5, 6])


class TestWMean(unittest.TestCase):
    def setUp(self):
        self.d = np.array([5, 4, 3, 1, 2])
        self.w1 = np.array([10, 22, 9, 2, 5])
        self.w2 = np.array([10, 14, 17, 2, 5])

    def test_weighted_median(self):
        out1 = sm.weighted_median(self.d, self.w1)
        out2 = sm.weighted_median(self.d, self.w2)
        self.assertEqual(out1, 4)
        self.assertEqual(out2, 3.5)


class TestAgeStd(unittest.TestCase):
    def setUp(self):
        self.e = np.array([30, 25, 25, 15, 33, 21, 30, 20])
        self.b = np.array([1000, 1000, 1100, 900, 1000, 900, 1100, 900])
        self.s_e = np.array([100, 45, 120, 100, 50, 30, 200, 80])
        self.s_b = s = np.array([1000, 900, 1000, 900, 1000, 900, 1000, 900])
        self.n = 2

    def test_crude_age_standardization(self):
        crude = sm.crude_age_standardization(self.e, self.b, self.n).round(8)
        crude_exp = np.array([0.02375000, 0.02666667])
        self.assertEqual(list(crude), list(crude_exp))

    def test_direct_age_standardization(self):
        direct = np.array(sm.direct_age_standardization(
            self.e, self.b, self.s_b, self.n)).round(8)
        direct_exp = np.array([[0.02374402, 0.01920491,
                                0.02904848], [0.02665072, 0.02177143, 0.03230508]])
        self.assertEqual(list(direct.flatten()), list(direct_exp.flatten()))

    def test_indirect_age_standardization(self):
        indirect = np.array(sm.indirect_age_standardization(
            self.e, self.b, self.s_e, self.s_b, self.n)).round(8)
        indirect_exp = np.array([[0.02372382, 0.01940230,
                                  0.02900789], [0.02610803, .02154304, 0.03164035]])
        self.assertEqual(
            list(indirect.flatten()), list(indirect_exp.flatten()))


class TestSRate(unittest.TestCase):
    def setUp(self):
        sids = pysal.open(pysal.examples.get_path('sids2.dbf'), 'r')
        self.w = pysal.open(pysal.examples.get_path('sids2.gal'), 'r').read()
        self.b, self.e = np.array(sids[:, 8]), np.array(sids[:, 9])
        self.er = [0.453433, 0.000000, 0.775871, 0.973810, 3.133190]
        self.eb = [0.0016973, 0.0017054, 0.0017731, 0.0020129, 0.0035349]
        self.sr = [0.0009922, 0.0012639, 0.0009740, 0.0007605, 0.0050154]
        self.smr = [0.00083622, 0.00109402, 0.00081567, 0.0, 0.0048209]
        self.smr_w = [0.00127146, 0.00127146, 0.0008433, 0.0, 0.0049889]
        self.smr2 = [0.00091659, 0.00087641, 0.00091073, 0.0, 0.00467633]
        self.s_ebr10 = np.array([4.01485749e-05, 3.62437513e-05,
                            4.93034844e-05, 5.09387329e-05, 3.72735210e-05,
                            3.69333797e-05, 5.40245456e-05, 2.99806055e-05,
                            3.73034109e-05, 3.47270722e-05]).reshape(-1,1)

        self.stl = pysal.open(pysal.examples.get_path('stl_hom.csv'), 'r')
        self.stl_e, self.stl_b = np.array(self.stl[:, 10]), np.array(self.stl[:, 13])
        self.stl_w = pysal.open(pysal.examples.get_path('stl.gal'), 'r').read()
        if not self.stl_w.id_order_set:
            self.stl_w.id_order = list(range(1, len(self.stl) + 1))

        if not PANDAS_EXTINCT:
            self.df = pysal.open(pysal.examples.get_path('sids2.dbf')).to_df()
            self.ename = 'SID74'
            self.bname = 'BIR74'
            self.stl_df = pysal.open(pysal.examples.get_path('stl_hom.csv')).to_df()
            self.stl_ename = 'HC7984'
            self.stl_bname = 'PO7984'

    def test_Excess_Risk(self):
        out_er = sm.Excess_Risk(self.e, self.b).r
        np.testing.assert_allclose(out_er[:5].flatten(), self.er,
                                   rtol=RTOL, atol=ATOL)

    @unittest.skipIf(PANDAS_EXTINCT, 'missing pandas')
    def test_Excess_Risk_tabular(self):
        out_er = sm.Excess_Risk(self.df[self.ename], self.df[self.bname]).r
        np.testing.assert_allclose(out_er[:5].flatten(), self.er,
                                   rtol=RTOL, atol=ATOL)
        self.assertIsInstance(out_er, np.ndarray)
        out_er = sm.Excess_Risk.by_col(self.df, self.ename, self.bname)
        outcol = '{}-{}_excess_risk'.format(self.ename, self.bname)
        outcol = out_er[outcol]
        np.testing.assert_allclose(outcol[:5], self.er,
                                   rtol=RTOL, atol=ATOL)
        self.assertIsInstance(outcol.values, np.ndarray)

    def test_Empirical_Bayes(self):
        out_eb = sm.Empirical_Bayes(self.e, self.b).r
        np.testing.assert_allclose(out_eb[:5].flatten(), self.eb,
                                   rtol=RTOL, atol=ATOL)

    @unittest.skipIf(PANDAS_EXTINCT, 'missing pandas')
    def test_Empirical_Bayes_tabular(self):
        out_eb = sm.Empirical_Bayes(self.df[self.ename], self.df[self.bname]).r
        np.testing.assert_allclose(out_eb[:5].flatten(), self.eb,
                                   rtol=RTOL, atol=ATOL)
        self.assertIsInstance(out_eb, np.ndarray)

        out_eb = sm.Empirical_Bayes.by_col(self.df, self.ename, self.bname)
        outcol = '{}-{}_empirical_bayes'.format(self.ename, self.bname)
        outcol = out_eb[outcol]
        np.testing.assert_allclose(outcol[:5], self.eb,
                                   rtol=RTOL, atol=ATOL)
        self.assertIsInstance(outcol.values, np.ndarray)

    def test_Spatial_Empirical_Bayes(self):
        s_eb = sm.Spatial_Empirical_Bayes(self.stl_e, self.stl_b, self.stl_w)
        np.testing.assert_allclose(self.s_ebr10, s_eb.r[:10],
                                   rtol=RTOL, atol=ATOL)

    @unittest.skipIf(PANDAS_EXTINCT, 'missing pandas')
    def test_Spatial_Empirical_Bayes_tabular(self):
        s_eb = sm.Spatial_Empirical_Bayes(self.stl_df[self.stl_ename],
                                          self.stl_df[self.stl_bname],
                                          self.stl_w).r
        self.assertIsInstance(s_eb, np.ndarray)
        np.testing.assert_allclose(self.s_ebr10, s_eb[:10])

        s_eb = sm.Spatial_Empirical_Bayes.by_col(self.stl_df,
                                                 self.stl_ename,
                                                 self.stl_bname,
                                                 self.stl_w)
        outcol = '{}-{}_spatial_empirical_bayes'.format(self.stl_ename, self.stl_bname)
        r = s_eb[outcol].values
        self.assertIsInstance(r, np.ndarray)
        np.testing.assert_allclose(self.s_ebr10, r[:10].reshape(-1,1))

    def test_Spatial_Rate(self):
        out_sr = sm.Spatial_Rate(self.e, self.b, self.w).r
        np.testing.assert_allclose(out_sr[:5].flatten(), self.sr,
                                   rtol=RTOL, atol=ATOL)

    @unittest.skipIf(PANDAS_EXTINCT, 'missing pandas')
    def test_Spatial_Rate_tabular(self):
        out_sr = sm.Spatial_Rate(self.df[self.ename], self.df[self.bname], self.w).r
        np.testing.assert_allclose(out_sr[:5].flatten(), self.sr,
                                   rtol=RTOL, atol=ATOL)
        self.assertIsInstance(out_sr, np.ndarray)

        out_sr = sm.Spatial_Rate.by_col(self.df, self.ename, self.bname,w=self.w)
        outcol = '{}-{}_spatial_rate'.format(self.ename, self.bname)
        r = out_sr[outcol].values
        self.assertIsInstance(r, np.ndarray)
        np.testing.assert_allclose(r[:5], self.sr, rtol=RTOL, atol=ATOL)

    def test_Spatial_Median_Rate(self):
        out_smr = sm.Spatial_Median_Rate(self.e, self.b, self.w).r
        out_smr_w = sm.Spatial_Median_Rate(self.e, self.b, self.w, aw=self.b).r
        out_smr2 = sm.Spatial_Median_Rate(self.e, self.b, self.w, iteration=2).r
        np.testing.assert_allclose(out_smr[:5].flatten(), self.smr,
                                   atol=ATOL, rtol=RTOL)
        np.testing.assert_allclose(out_smr_w[:5].flatten(), self.smr_w,
                                   atol=ATOL, rtol=RTOL)
        np.testing.assert_allclose(out_smr2[:5].flatten(), self.smr2,
                                   atol=ATOL, rtol=RTOL)

    @unittest.skipIf(PANDAS_EXTINCT, 'missing pandas')
    def test_Spatial_Median_Rate_tabular(self):
        out_smr = sm.Spatial_Median_Rate(self.df[self.ename],
                                         self.df[self.bname],
                                         self.w).r
        out_smr_w = sm.Spatial_Median_Rate(self.df[self.ename],
                                           self.df[self.bname],
                                           self.w,
                                           aw = self.df[self.bname]).r
        out_smr2 = sm.Spatial_Median_Rate(self.df[self.ename],
                                          self.df[self.bname],
                                          self.w,
                                          iteration=2).r

        self.assertIsInstance(out_smr, np.ndarray)
        self.assertIsInstance(out_smr_w, np.ndarray)
        self.assertIsInstance(out_smr2, np.ndarray)

        np.testing.assert_allclose(out_smr[:5].flatten(), self.smr,
                                   atol=ATOL, rtol=RTOL)
        np.testing.assert_allclose(out_smr_w[:5].flatten(), self.smr_w,
                                   atol=ATOL, rtol=RTOL)
        np.testing.assert_allclose(out_smr2[:5].flatten(), self.smr2,
                                   atol=ATOL, rtol=RTOL)

        out_smr = sm.Spatial_Median_Rate.by_col(self.df, self.ename,
                                                self.bname, self.w)
        out_smr_w = sm.Spatial_Median_Rate.by_col(self.df, self.ename,
                                                  self.bname, self.w,
                                                  aw = self.df[self.bname])
        out_smr2 = sm.Spatial_Median_Rate.by_col(self.df, self.ename,
                                                 self.bname, self.w,
                                                 iteration=2)
        outcol = '{}-{}_spatial_median_rate'.format(self.ename, self.bname)

        np.testing.assert_allclose(out_smr[outcol].values[:5], self.smr,
                                   rtol=RTOL, atol=ATOL)
        np.testing.assert_allclose(out_smr_w[outcol].values[:5], self.smr_w,
                                   rtol=RTOL, atol=ATOL)
        np.testing.assert_allclose(out_smr2[outcol].values[:5], self.smr2,
                                   rtol=RTOL, atol=ATOL)

        @unittest.skipIf(PANDAS_EXTINCT, 'missing pandas')
        def test_Spatial_Smoother_multicol(self):
            """
            test that specifying multiple columns works correctly. Since the
            function is shared over all spatial smoothers, we can only test one.
            """
            enames = [self.ename, 'SID79']
            bnames = [self.bname, 'BIR79']
            out_df = sm.Spatial_Median_Rate.by_col(self.df, enames, bnames, self.w)
            outcols = ['{}-{}_spatial_median_rate'.format(e,b)
                       for e,b in zip(enames, bnames)]
            smr79 = np.array([0.00122129, 0.00176924, 0.00176924,
                              0.00240964, 0.00272035])
            answers = [self.smr, smr79]
            for col, answer in zip(outcols, answer):
                self.assertIn(out_df.columns, col)
                np.testing.assert_allclose(out_df[col].values[:5], answer,
                                           rtol=RTOL, atol=ATOL)

        @unittest.skipIf(PANDAS_EXTINCT, 'missing pandas')
        def test_Smoother_multicol(self):
            """
            test that non-spatial smoothers work with multicolumn queries
            """
            enames = [self.ename, 'SID79']
            bnames = [self.bname, 'BIR79']
            out_df = sm.Excess_Risk.by_col(self.df, enames, bnames)
            outcols = ['{}-{}_excess_risk'.format(e,b)
                       for e,b in zip(enames, bnames)]
            er79 = np.array([0.000000, 2.796607, 0.8383863,
                              1.217479, 0.943811])
            answers = [self.er, er79]
            for col, answer in zip(outcols, answer):
                self.assertIn(out_df.columns, col)
                np.testing.assert_allclose(out_df[col].values[:5], answer,
                                           rtol=RTOL, atol=ATOL)

class TestHB(unittest.TestCase):
    def setUp(self):
        sids = pysal.open(pysal.examples.get_path('sids2.shp'), 'r')
        self.sids = sids
        self.d = np.array([i.centroid for i in sids])
        self.w = knnW_from_array(self.d, k=5)
        if not self.w.id_order_set:
            self.w.id_order = self.w.id_order
        sids_db = pysal.open(pysal.examples.get_path('sids2.dbf'), 'r')
        self.b, self.e = np.array(sids_db[:, 8]), np.array(sids_db[:, 9])
        self.sids_hb_rr5 = np.array([0.00075586, 0.,
                                     0.0008285, 0.0018315, 0.00498891])
        self.sids_hb_r2r5 = np.array([0.0008285, 0.00084331,
                                      0.00086896, 0.0018315, 0.00498891])
        self.sids_hb_r3r5 = np.array([0.00091659, 0.,
                                      0.00156838, 0.0018315, 0.00498891])
        if not PANDAS_EXTINCT:
            self.df = sids_db.to_df()
            self.ename = 'SID74'
            self.bname = 'BIR74'
            self.enames = [self.ename, 'SID79']
            self.bnames = [self.bname, 'BIR79']
            self.sids79r = np.array([.000563, .001659, .001879,
                                     .002410, .002720])
    @unittest.skip("Depreication")
    def test_Headbanging_Triples(self):
        ht = sm.Headbanging_Triples(self.d, self.w)
        self.assertEqual(len(ht.triples), len(self.d))
        ht2 = sm.Headbanging_Triples(self.d, self.w, edgecor=True)
        self.assertTrue(hasattr(ht2, 'extra'))
        self.assertEqual(len(ht2.triples), len(self.d))
        htr = sm.Headbanging_Median_Rate(self.e, self.b, ht2, iteration=5)
        self.assertEqual(len(htr.r), len(self.e))
        for i in htr.r:
            self.assertTrue(i is not None)

    @unittest.skip("Deprication")
    def test_Headbanging_Median_Rate(self):
        s_ht = sm.Headbanging_Triples(self.d, self.w, k=5)
        sids_hb_r = sm.Headbanging_Median_Rate(self.e, self.b, s_ht)
        np.testing.assert_array_almost_equal(self.sids_hb_rr5, sids_hb_r.r[:5])
        sids_hb_r2 = sm.Headbanging_Median_Rate(self.e, self.b, s_ht, iteration=5)
        np.testing.assert_array_almost_equal(self.sids_hb_r2r5, sids_hb_r2.r[:5])
        sids_hb_r3 = sm.Headbanging_Median_Rate(self.e, self.b, s_ht, aw=self.b)
        np.testing.assert_array_almost_equal(self.sids_hb_r3r5, sids_hb_r3.r[:5])

    #@unittest.skipIf(PANDAS_EXTINCT, 'missing pandas')
    @unittest.skip("Deprication")
    def test_Headbanging_Median_Rate_tabular(self):

        # test that dataframe columns are treated correctly
        s_ht = sm.Headbanging_Triples(self.d, self.w, k=5)
        sids_hb_r = sm.Headbanging_Median_Rate(self.df[self.ename],
                                               self.df[self.bname], s_ht)
        self.assertIsInstance(sids_hb_r.r, np.ndarray)
        np.testing.assert_array_almost_equal(self.sids_hb_rr5, sids_hb_r.r[:5])

        sids_hb_r2 = sm.Headbanging_Median_Rate(self.df[self.ename],
                                                self.df[self.bname], s_ht,
                                                iteration=5)
        self.assertIsInstance(sids_hb_r2.r, np.ndarray)
        np.testing.assert_array_almost_equal(self.sids_hb_r2r5, sids_hb_r2.r[:5])

        sids_hb_r3 = sm.Headbanging_Median_Rate(self.df[self.ename],
                                                self.df[self.bname], s_ht,
                                                aw=self.df[self.bname])
        self.assertIsInstance(sids_hb_r3.r, np.ndarray)
        np.testing.assert_array_almost_equal(self.sids_hb_r3r5, sids_hb_r3.r[:5])

        #test that the by col on multiple names works correctly
        sids_hr_df = sm.Headbanging_Median_Rate.by_col(self.df, self.enames,
                                                       self.bnames, w=self.w)
        outcols = ['{}-{}_headbanging_median_rate'.format(e,b) for e,b in
                   zip(self.enames, self.bnames)]
        for col, answer in zip(outcols, [self.sids_hb_rr5, self.sids79r]):
            this_col = sids_hr_df[col].values
            self.assertIsInstance(this_col, np.ndarray)
            np.testing.assert_allclose(sids_hr_df[col][:5], answer,
                                       rtol=RTOL, atol=ATOL*10)

class TestKernel_AgeAdj_SM(unittest.TestCase):
    def setUp(self):
        self.e = np.array([10, 1, 3, 4, 2, 5])
        self.b = np.array([100, 15, 20, 20, 80, 90])
        self.e1 = np.array([10, 8, 1, 4, 3, 5, 4, 3, 2, 1, 5, 3])
        self.b1 = np.array([100, 90, 15, 30, 25, 20, 30, 20, 80, 80, 90, 60])
        self.s = np.array([98, 88, 15, 29, 20, 23, 33, 25, 76, 80, 89, 66])
        self.points = [(
            10, 10), (20, 10), (40, 10), (15, 20), (30, 20), (30, 30)]
        self.kw = pysal.weights.Kernel(self.points)
        self.points1 = np.array(self.points) + 5
        self.points1 = np.vstack((self.points1, self.points))
        self.kw1 = pysal.weights.Kernel(self.points1)
        if not self.kw.id_order_set:
            self.kw.id_order = list(range(0, len(self.points)))
        if not PANDAS_EXTINCT:
            import pandas as pd
            dfa = np.array([self.e, self.b]).T
            dfb = np.array([self.e1, self.b1, self.s]).T
            self.dfa = pd.DataFrame(dfa, columns=['e','b'])
            self.dfb = pd.DataFrame(dfb, columns=['e', 'b', 's'])

        #answers
        self.kernel_exp = [0.10543301, 0.0858573, 0.08256196, 0.09884584,
                           0.04756872, 0.04845298]
        self.ageadj_exp = [0.10519625, 0.08494318, 0.06440072, 0.06898604,
                           0.06952076, 0.05020968]
        self.disk_exp = [0.12222222000000001, 0.10833333, 0.08055556,
                         0.08944444, 0.09944444, 0.09351852]
        self.sf_exp = np.array([ 0.111111,  0.111111,  0.085106,  0.076923])

    def test_Kernel_Smoother(self):
        kr = sm.Kernel_Smoother(self.e, self.b, self.kw)
        np.testing.assert_allclose(kr.r.flatten(), self.kernel_exp)

    @unittest.skipIf(PANDAS_EXTINCT, 'missing pandas')
    def test_Kernel_Smoother_tabular(self):
        dfa, dfb = self.dfa, self.dfb
        kr = sm.Kernel_Smoother(dfa['e'], dfa['b'], self.kw)
        np.testing.assert_allclose(kr.r.flatten(), kernel_exp)

        kr = sm.Kernel_Smoother.by_col(dfa, 'e', 'b', w=self.kw)
        colname = 'e_b_kernel_smoother'
        np.testing.assert_allclose(kr[colname].values, kernel_exp)

        kr = sm.Kernel_Smoother.by_col(dfb, ['e', 's'], 'b', w=self.kw)
        outcols = ['{}-b_kernel_smoother'.format(l) for l in ['e','s']]

        exp_eb = np.array([ 0.08276363,  0.08096262,  0.03636364,  0.0704302 ,
                            0.07996067,  0.1287226 ,  0.09831286,  0.0952105 ,
                            0.02857143,  0.06671039,  0.07129231,  0.08078792])
        exp_sb = np.array([ 1.00575463,  0.99597005,  0.96363636,  0.99440132,
                            0.98468399,  1.07912333,  1.03376267,  1.02759815,
                            0.95428572,  0.99716186,  0.98277235,  1.03906155])
        for name, answer in zip(outcols, [exp_eb, exp_sb]):
            np.testing.assert_allclose(kr[name].values, answer, rtol=RTOL, atol=ATOL)

    def test_Age_Adjusted_Smoother(self):
        ar = sm.Age_Adjusted_Smoother(self.e1, self.b1, self.kw, self.s)
        np.testing.assert_allclose(ar.r, self.ageadj_exp)

    @unittest.skipIf(PANDAS_EXTINCT, 'missing pandas')
    def test_Age_Adjusted_Smoother_tabular(self):
        dfb = self.dfb
        kr = sm.Age_Adjusted_Smoother(dfb.e, dfb.b, s=dfb.s, w=self.kw)
        self.assertIsInstance(kr.r, np.ndarray)
        np.testing.assert_allclose(kr.r, self.ageadj_exp)

        kr = sm.Age_Adjusted_Smoother.by_col(dfb, 'e', 'b', w=self.kw, s='s')
        answer = np.array([ 0.10519625, 0.08494318, 0.06440072,
                         0.06898604, 0.06952076, 0.05020968])
        colname = 'e-b_age_adjusted_smoother'
        np.testing.assert_allclose(kr[colname].values, answer, rtol=RTOL, atol=ATOL)

    def test_Disk_Smoother(self):
        self.kw.transform = 'b'
        disk = sm.Disk_Smoother(self.e, self.b, self.kw)
        np.testing.assert_allclose(disk.r.flatten(), self.disk_exp)

    @unittest.skipIf(PANDAS_EXTINCT, 'missing pandas')
    def test_Disk_Smoother_tabular(self):
        self.kw.transform = 'b'
        dfa = self.dfa
        disk = sm.Disk_Smoother(dfa.e, dfa.b, self.kw).r
        np.testing.assert_allclose(disk.flatten(), self.disk_exp)

        disk = sm.Disk_Smoother.by_col(dfa, 'e', 'b', self.kw)
        col = 'e-b_disk_smoother'
        np.testing.assert_allclose(disk[col].values, self.disk_exp,
                                   rtol=RTOL, atol=ATOL)

    def test_Spatial_Filtering(self):
        points = np.array(self.points)
        bbox = [[0, 0], [45, 45]]
        sf = sm.Spatial_Filtering(bbox, points, self.e, self.b, 2, 2, r=30)
        np.testing.assert_allclose(sf.r, self.sf_exp, rtol=RTOL, atol=ATOL)

    @unittest.skipIf(PANDAS_EXTINCT, 'missing pandas')
    def test_Kernel_Smoother_tabular(self):
        point_array = np.array(self.points)
        bbox = [[0,0] , [45,45]]
        dfa = self.dfa
        sf = sm.Spatial_Filtering(bbox, point_array, dfa.e, dfa.b, 2, 2, r=30)

        np.testing.assert_allclose(sf.r, self.sf_exp, rtol=RTOL, atol=ATOL)

        dfa['geometry'] = self.points
        sf = sm.Spatial_Filtering.by_col(dfa, 'e', 'b', 3, 3, r=30)
        r_answer = np.array([ 0.07692308,  0.07213115,  0.07213115,  0.07692308,
                              0.07692308,  0.07692308,  0.07692308,  0.07692308,
                              0.07692308])
        x_answer = np.array([10.0, 10.0, 10.0, 20.0, 20.0, 20.0, 30.0, 30.0, 30.0])
        y_answer = np.array([10.000000, 16.666667, 23.333333,
                             10.000000, 16.666667, 23.333333,
                             10.000000, 16.666667, 23.333333])
        columns = ['e-b_spatial_filtering_{}'.format(name) for name in ['X', 'Y', 'R']]

        for col, answer in zip(columns, [x_answer, y_answer, r_answer]):
            np.testing.assert_allclose(sf[col].values, answer, rtol=RTOL, atol=ATOL)

class TestUtils(unittest.TestCase):
    def test_sum_by_n(self):
        d = np.array([10, 9, 20, 30])
        w = np.array([0.5, 0.1, 0.3, 0.8])
        n = 2
        exp_sum = np.array([5.9, 30.])
        np.testing.assert_array_almost_equal(exp_sum, sm.sum_by_n(d, w, n))

    def test_standardized_mortality_ratio(self):
        e = np.array([30, 25, 25, 15, 33, 21, 30, 20])
        b = np.array([100, 100, 110, 90, 100, 90, 110, 90])
        s_e = np.array([100, 45, 120, 100, 50, 30, 200, 80])
        s_b = np.array([1000, 900, 1000, 900, 1000, 900, 1000, 900])
        n = 2
        exp_smr = np.array([2.48691099, 2.73684211])
        np.testing.assert_array_almost_equal(exp_smr,
                                             sm.standardized_mortality_ratio(e, b, s_e, s_b, n))

    def test_choynowski(self):
        e = np.array([30, 25, 25, 15, 33, 21, 30, 20])
        b = np.array([100, 100, 110, 90, 100, 90, 110, 90])
        n = 2
        exp_choy = np.array([0.30437751, 0.29367033])
        np.testing.assert_array_almost_equal(exp_choy, sm.choynowski(e, b, n))

    def test_assuncao_rate(self):
        e = np.array([30, 25, 25, 15, 33, 21, 30, 20])
        b = np.array([100, 100, 110, 90, 100, 90, 110, 90])
        exp_assuncao = np.array([1.03843594, -0.04099089, -0.56250375,
            -1.73061861])
        np.testing.assert_array_almost_equal(
            exp_assuncao, sm.assuncao_rate(e, b)[:4])


suite = unittest.TestSuite()
test_classes = [TestFlatten, TestWMean, TestAgeStd, TestSRate, TestHB,
                TestKernel_AgeAdj_SM, TestUtils]
for i in test_classes:
    a = unittest.TestLoader().loadTestsFromTestCase(i)
    suite.addTest(a)

if __name__ == '__main__':
    runner = unittest.TextTestRunner()
    runner.run(suite)
