Mercurial > repos > shellac > sam_consensus_v3
annotate env/lib/python3.9/site-packages/networkx/algorithms/shortest_paths/tests/test_generic.py @ 0:4f3585e2f14b draft default tip
"planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
author | shellac |
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date | Mon, 22 Mar 2021 18:12:50 +0000 |
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1 import pytest |
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2 |
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3 |
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4 import networkx as nx |
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5 from networkx.testing import almost_equal |
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6 |
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7 |
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8 def validate_grid_path(r, c, s, t, p): |
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9 assert isinstance(p, list) |
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10 assert p[0] == s |
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11 assert p[-1] == t |
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12 s = ((s - 1) // c, (s - 1) % c) |
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13 t = ((t - 1) // c, (t - 1) % c) |
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14 assert len(p) == abs(t[0] - s[0]) + abs(t[1] - s[1]) + 1 |
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15 p = [((u - 1) // c, (u - 1) % c) for u in p] |
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16 for u in p: |
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17 assert 0 <= u[0] < r |
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18 assert 0 <= u[1] < c |
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19 for u, v in zip(p[:-1], p[1:]): |
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20 assert (abs(v[0] - u[0]), abs(v[1] - u[1])) in [(0, 1), (1, 0)] |
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21 |
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22 |
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23 class TestGenericPath: |
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24 @classmethod |
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25 def setup_class(cls): |
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26 from networkx import convert_node_labels_to_integers as cnlti |
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27 |
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28 cls.grid = cnlti(nx.grid_2d_graph(4, 4), first_label=1, ordering="sorted") |
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29 cls.cycle = nx.cycle_graph(7) |
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30 cls.directed_cycle = nx.cycle_graph(7, create_using=nx.DiGraph()) |
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31 cls.neg_weights = nx.DiGraph() |
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32 cls.neg_weights.add_edge(0, 1, weight=1) |
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33 cls.neg_weights.add_edge(0, 2, weight=3) |
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34 cls.neg_weights.add_edge(1, 3, weight=1) |
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35 cls.neg_weights.add_edge(2, 3, weight=-2) |
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36 |
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37 def test_shortest_path(self): |
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38 assert nx.shortest_path(self.cycle, 0, 3) == [0, 1, 2, 3] |
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39 assert nx.shortest_path(self.cycle, 0, 4) == [0, 6, 5, 4] |
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40 validate_grid_path(4, 4, 1, 12, nx.shortest_path(self.grid, 1, 12)) |
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41 assert nx.shortest_path(self.directed_cycle, 0, 3) == [0, 1, 2, 3] |
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42 # now with weights |
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43 assert nx.shortest_path(self.cycle, 0, 3, weight="weight") == [0, 1, 2, 3] |
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44 assert nx.shortest_path(self.cycle, 0, 4, weight="weight") == [0, 6, 5, 4] |
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45 validate_grid_path( |
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46 4, 4, 1, 12, nx.shortest_path(self.grid, 1, 12, weight="weight") |
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47 ) |
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48 assert nx.shortest_path(self.directed_cycle, 0, 3, weight="weight") == [ |
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49 0, |
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50 1, |
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51 2, |
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52 3, |
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53 ] |
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54 # weights and method specified |
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55 assert nx.shortest_path( |
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56 self.directed_cycle, 0, 3, weight="weight", method="dijkstra" |
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57 ) == [0, 1, 2, 3] |
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58 assert nx.shortest_path( |
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59 self.directed_cycle, 0, 3, weight="weight", method="bellman-ford" |
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60 ) == [0, 1, 2, 3] |
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61 # when Dijkstra's will probably (depending on precise implementation) |
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62 # incorrectly return [0, 1, 3] instead |
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63 assert nx.shortest_path( |
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64 self.neg_weights, 0, 3, weight="weight", method="bellman-ford" |
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65 ) == [0, 2, 3] |
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66 # confirm bad method rejection |
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67 pytest.raises(ValueError, nx.shortest_path, self.cycle, method="SPAM") |
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68 # confirm absent source rejection |
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69 pytest.raises(nx.NodeNotFound, nx.shortest_path, self.cycle, 8) |
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70 |
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71 def test_shortest_path_target(self): |
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72 answer = {0: [0, 1], 1: [1], 2: [2, 1]} |
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73 sp = nx.shortest_path(nx.path_graph(3), target=1) |
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74 assert sp == answer |
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75 # with weights |
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76 sp = nx.shortest_path(nx.path_graph(3), target=1, weight="weight") |
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77 assert sp == answer |
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78 # weights and method specified |
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79 sp = nx.shortest_path( |
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80 nx.path_graph(3), target=1, weight="weight", method="dijkstra" |
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81 ) |
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82 assert sp == answer |
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83 sp = nx.shortest_path( |
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84 nx.path_graph(3), target=1, weight="weight", method="bellman-ford" |
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85 ) |
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86 assert sp == answer |
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87 |
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88 def test_shortest_path_length(self): |
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89 assert nx.shortest_path_length(self.cycle, 0, 3) == 3 |
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90 assert nx.shortest_path_length(self.grid, 1, 12) == 5 |
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91 assert nx.shortest_path_length(self.directed_cycle, 0, 4) == 4 |
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92 # now with weights |
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93 assert nx.shortest_path_length(self.cycle, 0, 3, weight="weight") == 3 |
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94 assert nx.shortest_path_length(self.grid, 1, 12, weight="weight") == 5 |
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95 assert nx.shortest_path_length(self.directed_cycle, 0, 4, weight="weight") == 4 |
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96 # weights and method specified |
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97 assert ( |
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98 nx.shortest_path_length( |
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99 self.cycle, 0, 3, weight="weight", method="dijkstra" |
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100 ) |
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101 == 3 |
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102 ) |
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103 assert ( |
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104 nx.shortest_path_length( |
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105 self.cycle, 0, 3, weight="weight", method="bellman-ford" |
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106 ) |
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107 == 3 |
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108 ) |
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109 # confirm bad method rejection |
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110 pytest.raises(ValueError, nx.shortest_path_length, self.cycle, method="SPAM") |
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111 # confirm absent source rejection |
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112 pytest.raises(nx.NodeNotFound, nx.shortest_path_length, self.cycle, 8) |
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113 |
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114 def test_shortest_path_length_target(self): |
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115 answer = {0: 1, 1: 0, 2: 1} |
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116 sp = dict(nx.shortest_path_length(nx.path_graph(3), target=1)) |
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117 assert sp == answer |
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118 # with weights |
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119 sp = nx.shortest_path_length(nx.path_graph(3), target=1, weight="weight") |
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120 assert sp == answer |
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121 # weights and method specified |
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122 sp = nx.shortest_path_length( |
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123 nx.path_graph(3), target=1, weight="weight", method="dijkstra" |
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124 ) |
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125 assert sp == answer |
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126 sp = nx.shortest_path_length( |
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127 nx.path_graph(3), target=1, weight="weight", method="bellman-ford" |
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128 ) |
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129 assert sp == answer |
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130 |
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131 def test_single_source_shortest_path(self): |
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132 p = nx.shortest_path(self.cycle, 0) |
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133 assert p[3] == [0, 1, 2, 3] |
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134 assert p == nx.single_source_shortest_path(self.cycle, 0) |
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135 p = nx.shortest_path(self.grid, 1) |
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136 validate_grid_path(4, 4, 1, 12, p[12]) |
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137 # now with weights |
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138 p = nx.shortest_path(self.cycle, 0, weight="weight") |
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139 assert p[3] == [0, 1, 2, 3] |
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140 assert p == nx.single_source_dijkstra_path(self.cycle, 0) |
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141 p = nx.shortest_path(self.grid, 1, weight="weight") |
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142 validate_grid_path(4, 4, 1, 12, p[12]) |
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143 # weights and method specified |
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144 p = nx.shortest_path(self.cycle, 0, method="dijkstra", weight="weight") |
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145 assert p[3] == [0, 1, 2, 3] |
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146 assert p == nx.single_source_shortest_path(self.cycle, 0) |
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147 p = nx.shortest_path(self.cycle, 0, method="bellman-ford", weight="weight") |
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148 assert p[3] == [0, 1, 2, 3] |
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149 assert p == nx.single_source_shortest_path(self.cycle, 0) |
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150 |
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151 def test_single_source_shortest_path_length(self): |
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152 ans = dict(nx.shortest_path_length(self.cycle, 0)) |
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153 assert ans == {0: 0, 1: 1, 2: 2, 3: 3, 4: 3, 5: 2, 6: 1} |
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154 assert ans == dict(nx.single_source_shortest_path_length(self.cycle, 0)) |
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155 ans = dict(nx.shortest_path_length(self.grid, 1)) |
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156 assert ans[16] == 6 |
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157 # now with weights |
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158 ans = dict(nx.shortest_path_length(self.cycle, 0, weight="weight")) |
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159 assert ans == {0: 0, 1: 1, 2: 2, 3: 3, 4: 3, 5: 2, 6: 1} |
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160 assert ans == dict(nx.single_source_dijkstra_path_length(self.cycle, 0)) |
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161 ans = dict(nx.shortest_path_length(self.grid, 1, weight="weight")) |
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162 assert ans[16] == 6 |
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163 # weights and method specified |
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164 ans = dict( |
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165 nx.shortest_path_length(self.cycle, 0, weight="weight", method="dijkstra") |
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166 ) |
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167 assert ans == {0: 0, 1: 1, 2: 2, 3: 3, 4: 3, 5: 2, 6: 1} |
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168 assert ans == dict(nx.single_source_dijkstra_path_length(self.cycle, 0)) |
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169 ans = dict( |
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170 nx.shortest_path_length( |
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171 self.cycle, 0, weight="weight", method="bellman-ford" |
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172 ) |
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173 ) |
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174 assert ans == {0: 0, 1: 1, 2: 2, 3: 3, 4: 3, 5: 2, 6: 1} |
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175 assert ans == dict(nx.single_source_bellman_ford_path_length(self.cycle, 0)) |
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176 |
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177 def test_all_pairs_shortest_path(self): |
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178 p = nx.shortest_path(self.cycle) |
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179 assert p[0][3] == [0, 1, 2, 3] |
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180 assert p == dict(nx.all_pairs_shortest_path(self.cycle)) |
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181 p = nx.shortest_path(self.grid) |
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182 validate_grid_path(4, 4, 1, 12, p[1][12]) |
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183 # now with weights |
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184 p = nx.shortest_path(self.cycle, weight="weight") |
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185 assert p[0][3] == [0, 1, 2, 3] |
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186 assert p == dict(nx.all_pairs_dijkstra_path(self.cycle)) |
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187 p = nx.shortest_path(self.grid, weight="weight") |
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188 validate_grid_path(4, 4, 1, 12, p[1][12]) |
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189 # weights and method specified |
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190 p = nx.shortest_path(self.cycle, weight="weight", method="dijkstra") |
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191 assert p[0][3] == [0, 1, 2, 3] |
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192 assert p == dict(nx.all_pairs_dijkstra_path(self.cycle)) |
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193 p = nx.shortest_path(self.cycle, weight="weight", method="bellman-ford") |
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194 assert p[0][3] == [0, 1, 2, 3] |
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195 assert p == dict(nx.all_pairs_bellman_ford_path(self.cycle)) |
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196 |
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197 def test_all_pairs_shortest_path_length(self): |
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198 ans = dict(nx.shortest_path_length(self.cycle)) |
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199 assert ans[0] == {0: 0, 1: 1, 2: 2, 3: 3, 4: 3, 5: 2, 6: 1} |
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200 assert ans == dict(nx.all_pairs_shortest_path_length(self.cycle)) |
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201 ans = dict(nx.shortest_path_length(self.grid)) |
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202 assert ans[1][16] == 6 |
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203 # now with weights |
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204 ans = dict(nx.shortest_path_length(self.cycle, weight="weight")) |
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205 assert ans[0] == {0: 0, 1: 1, 2: 2, 3: 3, 4: 3, 5: 2, 6: 1} |
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206 assert ans == dict(nx.all_pairs_dijkstra_path_length(self.cycle)) |
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207 ans = dict(nx.shortest_path_length(self.grid, weight="weight")) |
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208 assert ans[1][16] == 6 |
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209 # weights and method specified |
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210 ans = dict( |
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211 nx.shortest_path_length(self.cycle, weight="weight", method="dijkstra") |
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212 ) |
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213 assert ans[0] == {0: 0, 1: 1, 2: 2, 3: 3, 4: 3, 5: 2, 6: 1} |
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214 assert ans == dict(nx.all_pairs_dijkstra_path_length(self.cycle)) |
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215 ans = dict( |
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216 nx.shortest_path_length(self.cycle, weight="weight", method="bellman-ford") |
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217 ) |
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218 assert ans[0] == {0: 0, 1: 1, 2: 2, 3: 3, 4: 3, 5: 2, 6: 1} |
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219 assert ans == dict(nx.all_pairs_bellman_ford_path_length(self.cycle)) |
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220 |
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221 def test_has_path(self): |
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222 G = nx.Graph() |
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223 nx.add_path(G, range(3)) |
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224 nx.add_path(G, range(3, 5)) |
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225 assert nx.has_path(G, 0, 2) |
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226 assert not nx.has_path(G, 0, 4) |
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227 |
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228 def test_all_shortest_paths(self): |
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229 G = nx.Graph() |
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230 nx.add_path(G, [0, 1, 2, 3]) |
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231 nx.add_path(G, [0, 10, 20, 3]) |
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232 assert [[0, 1, 2, 3], [0, 10, 20, 3]] == sorted(nx.all_shortest_paths(G, 0, 3)) |
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233 # with weights |
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234 G = nx.Graph() |
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235 nx.add_path(G, [0, 1, 2, 3]) |
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236 nx.add_path(G, [0, 10, 20, 3]) |
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237 assert [[0, 1, 2, 3], [0, 10, 20, 3]] == sorted( |
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238 nx.all_shortest_paths(G, 0, 3, weight="weight") |
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239 ) |
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240 # weights and method specified |
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241 G = nx.Graph() |
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242 nx.add_path(G, [0, 1, 2, 3]) |
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243 nx.add_path(G, [0, 10, 20, 3]) |
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244 assert [[0, 1, 2, 3], [0, 10, 20, 3]] == sorted( |
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245 nx.all_shortest_paths(G, 0, 3, weight="weight", method="dijkstra") |
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246 ) |
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247 G = nx.Graph() |
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248 nx.add_path(G, [0, 1, 2, 3]) |
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249 nx.add_path(G, [0, 10, 20, 3]) |
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250 assert [[0, 1, 2, 3], [0, 10, 20, 3]] == sorted( |
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251 nx.all_shortest_paths(G, 0, 3, weight="weight", method="bellman-ford") |
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252 ) |
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253 |
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254 def test_all_shortest_paths_raise(self): |
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255 with pytest.raises(nx.NetworkXNoPath): |
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256 G = nx.path_graph(4) |
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257 G.add_node(4) |
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258 list(nx.all_shortest_paths(G, 0, 4)) |
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259 |
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260 def test_bad_method(self): |
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261 with pytest.raises(ValueError): |
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262 G = nx.path_graph(2) |
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263 list(nx.all_shortest_paths(G, 0, 1, weight="weight", method="SPAM")) |
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264 |
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265 def test_all_shortest_paths_zero_weight_edge(self): |
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266 g = nx.Graph() |
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267 nx.add_path(g, [0, 1, 3]) |
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268 nx.add_path(g, [0, 1, 2, 3]) |
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269 g.edges[1, 2]["weight"] = 0 |
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270 paths30d = list( |
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271 nx.all_shortest_paths(g, 3, 0, weight="weight", method="dijkstra") |
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272 ) |
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273 paths03d = list( |
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274 nx.all_shortest_paths(g, 0, 3, weight="weight", method="dijkstra") |
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275 ) |
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276 paths30b = list( |
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277 nx.all_shortest_paths(g, 3, 0, weight="weight", method="bellman-ford") |
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278 ) |
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279 paths03b = list( |
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280 nx.all_shortest_paths(g, 0, 3, weight="weight", method="bellman-ford") |
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281 ) |
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282 assert sorted(paths03d) == sorted(p[::-1] for p in paths30d) |
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283 assert sorted(paths03d) == sorted(p[::-1] for p in paths30b) |
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284 assert sorted(paths03b) == sorted(p[::-1] for p in paths30b) |
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285 |
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286 |
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287 class TestAverageShortestPathLength: |
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288 def test_cycle_graph(self): |
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289 ans = nx.average_shortest_path_length(nx.cycle_graph(7)) |
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290 assert almost_equal(ans, 2) |
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291 |
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292 def test_path_graph(self): |
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293 ans = nx.average_shortest_path_length(nx.path_graph(5)) |
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294 assert almost_equal(ans, 2) |
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295 |
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296 def test_weighted(self): |
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297 G = nx.Graph() |
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298 nx.add_cycle(G, range(7), weight=2) |
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299 ans = nx.average_shortest_path_length(G, weight="weight") |
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300 assert almost_equal(ans, 4) |
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301 G = nx.Graph() |
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302 nx.add_path(G, range(5), weight=2) |
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303 ans = nx.average_shortest_path_length(G, weight="weight") |
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304 assert almost_equal(ans, 4) |
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305 |
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306 def test_specified_methods(self): |
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307 G = nx.Graph() |
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308 nx.add_cycle(G, range(7), weight=2) |
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309 ans = nx.average_shortest_path_length(G, weight="weight", method="dijkstra") |
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310 assert almost_equal(ans, 4) |
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311 ans = nx.average_shortest_path_length(G, weight="weight", method="bellman-ford") |
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312 assert almost_equal(ans, 4) |
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313 ans = nx.average_shortest_path_length( |
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314 G, weight="weight", method="floyd-warshall" |
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315 ) |
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316 assert almost_equal(ans, 4) |
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317 |
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318 G = nx.Graph() |
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319 nx.add_path(G, range(5), weight=2) |
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320 ans = nx.average_shortest_path_length(G, weight="weight", method="dijkstra") |
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321 assert almost_equal(ans, 4) |
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322 ans = nx.average_shortest_path_length(G, weight="weight", method="bellman-ford") |
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323 assert almost_equal(ans, 4) |
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324 ans = nx.average_shortest_path_length( |
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325 G, weight="weight", method="floyd-warshall" |
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326 ) |
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327 assert almost_equal(ans, 4) |
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328 |
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329 def test_disconnected(self): |
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330 g = nx.Graph() |
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331 g.add_nodes_from(range(3)) |
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332 g.add_edge(0, 1) |
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333 pytest.raises(nx.NetworkXError, nx.average_shortest_path_length, g) |
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334 g = g.to_directed() |
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335 pytest.raises(nx.NetworkXError, nx.average_shortest_path_length, g) |
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336 |
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337 def test_trivial_graph(self): |
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338 """Tests that the trivial graph has average path length zero, |
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339 since there is exactly one path of length zero in the trivial |
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340 graph. |
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341 |
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342 For more information, see issue #1960. |
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343 |
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344 """ |
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345 G = nx.trivial_graph() |
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346 assert nx.average_shortest_path_length(G) == 0 |
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347 |
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348 def test_null_graph(self): |
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349 with pytest.raises(nx.NetworkXPointlessConcept): |
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350 nx.average_shortest_path_length(nx.null_graph()) |
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351 |
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352 def test_bad_method(self): |
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353 with pytest.raises(ValueError): |
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354 G = nx.path_graph(2) |
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355 nx.average_shortest_path_length(G, weight="weight", method="SPAM") |
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356 |
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357 |
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358 class TestAverageShortestPathLengthNumpy: |
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359 @classmethod |
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360 def setup_class(cls): |
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361 global numpy |
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362 global npt |
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363 import pytest |
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364 |
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365 numpy = pytest.importorskip("numpy") |
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366 npt = pytest.importorskip("numpy.testing") |
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367 |
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368 def test_specified_methods_numpy(self): |
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369 G = nx.Graph() |
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370 nx.add_cycle(G, range(7), weight=2) |
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371 ans = nx.average_shortest_path_length( |
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372 G, weight="weight", method="floyd-warshall-numpy" |
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373 ) |
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374 npt.assert_almost_equal(ans, 4) |
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375 |
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376 G = nx.Graph() |
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377 nx.add_path(G, range(5), weight=2) |
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378 ans = nx.average_shortest_path_length( |
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379 G, weight="weight", method="floyd-warshall-numpy" |
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380 ) |
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381 npt.assert_almost_equal(ans, 4) |