Mercurial > repos > shellac > sam_consensus_v3
annotate env/lib/python3.9/site-packages/networkx/algorithms/tests/test_lowest_common_ancestors.py @ 0:4f3585e2f14b draft default tip
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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 from itertools import chain, combinations, product |
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3 |
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4 import networkx as nx |
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5 |
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6 tree_all_pairs_lca = nx.tree_all_pairs_lowest_common_ancestor |
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7 all_pairs_lca = nx.all_pairs_lowest_common_ancestor |
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8 |
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9 |
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10 def get_pair(dictionary, n1, n2): |
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11 if (n1, n2) in dictionary: |
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12 return dictionary[n1, n2] |
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13 else: |
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14 return dictionary[n2, n1] |
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15 |
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16 |
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17 class TestTreeLCA: |
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18 @classmethod |
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19 def setup_class(cls): |
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20 cls.DG = nx.DiGraph() |
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21 edges = [(0, 1), (0, 2), (1, 3), (1, 4), (2, 5), (2, 6)] |
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22 cls.DG.add_edges_from(edges) |
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23 cls.ans = dict(tree_all_pairs_lca(cls.DG, 0)) |
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24 gold = {(n, n): n for n in cls.DG} |
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25 gold.update({(0, i): 0 for i in range(1, 7)}) |
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26 gold.update( |
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27 { |
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28 (1, 2): 0, |
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29 (1, 3): 1, |
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30 (1, 4): 1, |
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33 (2, 3): 0, |
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35 (2, 5): 2, |
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36 (2, 6): 2, |
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37 (3, 4): 1, |
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38 (3, 5): 0, |
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39 (3, 6): 0, |
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40 (4, 5): 0, |
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41 (4, 6): 0, |
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42 (5, 6): 2, |
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43 } |
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44 ) |
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45 |
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46 cls.gold = gold |
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47 |
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48 @staticmethod |
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49 def assert_has_same_pairs(d1, d2): |
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50 for (a, b) in ((min(pair), max(pair)) for pair in chain(d1, d2)): |
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51 assert get_pair(d1, a, b) == get_pair(d2, a, b) |
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52 |
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53 def test_tree_all_pairs_lowest_common_ancestor1(self): |
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54 """Specifying the root is optional.""" |
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55 assert dict(tree_all_pairs_lca(self.DG)) == self.ans |
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56 |
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57 def test_tree_all_pairs_lowest_common_ancestor2(self): |
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58 """Specifying only some pairs gives only those pairs.""" |
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59 test_pairs = [(0, 1), (0, 1), (1, 0)] |
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60 ans = dict(tree_all_pairs_lca(self.DG, 0, test_pairs)) |
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61 assert (0, 1) in ans and (1, 0) in ans |
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62 assert len(ans) == 2 |
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63 |
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64 def test_tree_all_pairs_lowest_common_ancestor3(self): |
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65 """Specifying no pairs same as specifying all.""" |
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66 all_pairs = chain(combinations(self.DG, 2), ((node, node) for node in self.DG)) |
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67 |
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68 ans = dict(tree_all_pairs_lca(self.DG, 0, all_pairs)) |
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69 self.assert_has_same_pairs(ans, self.ans) |
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70 |
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71 def test_tree_all_pairs_lowest_common_ancestor4(self): |
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72 """Gives the right answer.""" |
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73 ans = dict(tree_all_pairs_lca(self.DG)) |
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74 self.assert_has_same_pairs(self.gold, ans) |
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75 |
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76 def test_tree_all_pairs_lowest_common_ancestor5(self): |
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77 """Handles invalid input correctly.""" |
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78 empty_digraph = tree_all_pairs_lca(nx.DiGraph()) |
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79 pytest.raises(nx.NetworkXPointlessConcept, list, empty_digraph) |
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80 |
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81 bad_pairs_digraph = tree_all_pairs_lca(self.DG, pairs=[(-1, -2)]) |
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82 pytest.raises(nx.NodeNotFound, list, bad_pairs_digraph) |
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83 |
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84 def test_tree_all_pairs_lowest_common_ancestor6(self): |
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85 """Works on subtrees.""" |
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86 ans = dict(tree_all_pairs_lca(self.DG, 1)) |
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87 gold = { |
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88 pair: lca |
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89 for (pair, lca) in self.gold.items() |
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90 if all(n in (1, 3, 4) for n in pair) |
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91 } |
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92 self.assert_has_same_pairs(gold, ans) |
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93 |
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94 def test_tree_all_pairs_lowest_common_ancestor7(self): |
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95 """Works on disconnected nodes.""" |
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96 G = nx.DiGraph() |
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97 G.add_node(1) |
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98 assert {(1, 1): 1} == dict(tree_all_pairs_lca(G)) |
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99 |
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100 G.add_node(0) |
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101 assert {(1, 1): 1} == dict(tree_all_pairs_lca(G, 1)) |
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102 assert {(0, 0): 0} == dict(tree_all_pairs_lca(G, 0)) |
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103 |
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104 pytest.raises(nx.NetworkXError, list, tree_all_pairs_lca(G)) |
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105 |
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106 def test_tree_all_pairs_lowest_common_ancestor8(self): |
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107 """Raises right errors if not a tree.""" |
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108 # Cycle |
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109 G = nx.DiGraph([(1, 2), (2, 1)]) |
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110 pytest.raises(nx.NetworkXError, list, tree_all_pairs_lca(G)) |
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111 # DAG |
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112 G = nx.DiGraph([(0, 2), (1, 2)]) |
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113 pytest.raises(nx.NetworkXError, list, tree_all_pairs_lca(G)) |
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114 |
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115 def test_tree_all_pairs_lowest_common_ancestor9(self): |
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116 """Test that pairs works correctly as a generator.""" |
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117 pairs = iter([(0, 1), (0, 1), (1, 0)]) |
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118 some_pairs = dict(tree_all_pairs_lca(self.DG, 0, pairs)) |
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119 assert (0, 1) in some_pairs and (1, 0) in some_pairs |
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120 assert len(some_pairs) == 2 |
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121 |
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122 def test_tree_all_pairs_lowest_common_ancestor10(self): |
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123 """Test that pairs not in the graph raises error.""" |
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124 lca = tree_all_pairs_lca(self.DG, 0, [(-1, -1)]) |
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125 pytest.raises(nx.NodeNotFound, list, lca) |
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126 |
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127 def test_tree_all_pairs_lowest_common_ancestor11(self): |
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128 """Test that None as a node in the graph raises an error.""" |
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129 G = nx.DiGraph([(None, 3)]) |
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130 pytest.raises(nx.NetworkXError, list, tree_all_pairs_lca(G)) |
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131 pytest.raises( |
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132 nx.NodeNotFound, list, tree_all_pairs_lca(self.DG, pairs=G.edges()) |
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133 ) |
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134 |
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135 def test_tree_all_pairs_lowest_common_ancestor12(self): |
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136 """Test that tree routine bails on DAGs.""" |
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137 G = nx.DiGraph([(3, 4), (5, 4)]) |
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138 pytest.raises(nx.NetworkXError, list, tree_all_pairs_lca(G)) |
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139 |
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140 def test_not_implemented_for(self): |
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141 NNI = nx.NetworkXNotImplemented |
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142 G = nx.Graph([(0, 1)]) |
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143 pytest.raises(NNI, tree_all_pairs_lca, G) |
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144 pytest.raises(NNI, all_pairs_lca, G) |
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145 pytest.raises(NNI, nx.lowest_common_ancestor, G, 0, 1) |
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146 G = nx.MultiGraph([(0, 1)]) |
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147 pytest.raises(NNI, tree_all_pairs_lca, G) |
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148 pytest.raises(NNI, all_pairs_lca, G) |
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149 pytest.raises(NNI, nx.lowest_common_ancestor, G, 0, 1) |
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150 G = nx.MultiDiGraph([(0, 1)]) |
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151 pytest.raises(NNI, tree_all_pairs_lca, G) |
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152 pytest.raises(NNI, all_pairs_lca, G) |
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153 pytest.raises(NNI, nx.lowest_common_ancestor, G, 0, 1) |
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154 |
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155 def test_tree_all_pairs_lowest_common_ancestor13(self): |
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156 """Test that it works on non-empty trees with no LCAs.""" |
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157 G = nx.DiGraph() |
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158 G.add_node(3) |
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159 ans = list(tree_all_pairs_lca(G)) |
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160 assert ans == [((3, 3), 3)] |
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161 |
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162 |
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163 class TestDAGLCA: |
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164 @classmethod |
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165 def setup_class(cls): |
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166 cls.DG = nx.DiGraph() |
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167 nx.add_path(cls.DG, (0, 1, 2, 3)) |
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168 nx.add_path(cls.DG, (0, 4, 3)) |
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169 nx.add_path(cls.DG, (0, 5, 6, 8, 3)) |
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170 nx.add_path(cls.DG, (5, 7, 8)) |
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171 cls.DG.add_edge(6, 2) |
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172 cls.DG.add_edge(7, 2) |
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173 |
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174 cls.root_distance = nx.shortest_path_length(cls.DG, source=0) |
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175 |
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176 cls.gold = { |
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177 (1, 1): 1, |
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178 (1, 2): 1, |
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179 (1, 3): 1, |
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180 (1, 4): 0, |
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181 (1, 5): 0, |
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182 (1, 6): 0, |
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183 (1, 7): 0, |
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184 (1, 8): 0, |
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185 (2, 2): 2, |
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186 (2, 3): 2, |
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187 (2, 4): 0, |
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188 (2, 5): 5, |
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189 (2, 6): 6, |
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190 (2, 7): 7, |
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191 (2, 8): 7, |
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192 (3, 3): 8, |
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193 (3, 4): 4, |
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194 (3, 5): 5, |
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195 (3, 6): 6, |
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196 (3, 7): 7, |
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197 (3, 8): 8, |
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198 (4, 4): 4, |
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199 (4, 5): 0, |
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200 (4, 6): 0, |
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201 (4, 7): 0, |
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202 (4, 8): 0, |
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203 (5, 5): 5, |
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204 (5, 6): 5, |
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205 (5, 7): 5, |
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206 (5, 8): 5, |
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207 (6, 6): 6, |
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208 (6, 7): 5, |
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209 (6, 8): 6, |
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210 (7, 7): 7, |
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211 (7, 8): 7, |
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212 (8, 8): 8, |
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213 } |
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214 cls.gold.update(((0, n), 0) for n in cls.DG) |
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215 |
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216 def assert_lca_dicts_same(self, d1, d2, G=None): |
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217 """Checks if d1 and d2 contain the same pairs and |
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218 have a node at the same distance from root for each. |
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219 If G is None use self.DG.""" |
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220 if G is None: |
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221 G = self.DG |
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222 root_distance = self.root_distance |
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223 else: |
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224 roots = [n for n, deg in G.in_degree if deg == 0] |
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225 assert len(roots) == 1 |
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226 root_distance = nx.shortest_path_length(G, source=roots[0]) |
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227 |
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228 for a, b in ((min(pair), max(pair)) for pair in chain(d1, d2)): |
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229 assert ( |
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230 root_distance[get_pair(d1, a, b)] == root_distance[get_pair(d2, a, b)] |
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231 ) |
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232 |
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233 def test_all_pairs_lowest_common_ancestor1(self): |
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234 """Produces the correct results.""" |
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235 self.assert_lca_dicts_same(dict(all_pairs_lca(self.DG)), self.gold) |
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236 |
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237 def test_all_pairs_lowest_common_ancestor2(self): |
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238 """Produces the correct results when all pairs given.""" |
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239 all_pairs = list(product(self.DG.nodes(), self.DG.nodes())) |
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240 ans = all_pairs_lca(self.DG, pairs=all_pairs) |
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241 self.assert_lca_dicts_same(dict(ans), self.gold) |
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242 |
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243 def test_all_pairs_lowest_common_ancestor3(self): |
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244 """Produces the correct results when all pairs given as a generator.""" |
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245 all_pairs = product(self.DG.nodes(), self.DG.nodes()) |
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246 ans = all_pairs_lca(self.DG, pairs=all_pairs) |
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247 self.assert_lca_dicts_same(dict(ans), self.gold) |
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248 |
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249 def test_all_pairs_lowest_common_ancestor4(self): |
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250 """Graph with two roots.""" |
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251 G = self.DG.copy() |
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252 G.add_edge(9, 10) |
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253 G.add_edge(9, 4) |
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254 gold = self.gold.copy() |
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255 gold[9, 9] = 9 |
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256 gold[9, 10] = 9 |
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257 gold[9, 4] = 9 |
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258 gold[9, 3] = 9 |
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259 gold[10, 4] = 9 |
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260 gold[10, 3] = 9 |
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261 gold[10, 10] = 10 |
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262 |
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263 testing = dict(all_pairs_lca(G)) |
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264 |
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265 G.add_edge(-1, 9) |
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266 G.add_edge(-1, 0) |
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267 self.assert_lca_dicts_same(testing, gold, G) |
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268 |
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269 def test_all_pairs_lowest_common_ancestor5(self): |
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270 """Test that pairs not in the graph raises error.""" |
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271 pytest.raises(nx.NodeNotFound, all_pairs_lca, self.DG, [(-1, -1)]) |
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272 |
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273 def test_all_pairs_lowest_common_ancestor6(self): |
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274 """Test that pairs with no LCA specified emits nothing.""" |
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275 G = self.DG.copy() |
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276 G.add_node(-1) |
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277 gen = all_pairs_lca(G, [(-1, -1), (-1, 0)]) |
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278 assert dict(gen) == {(-1, -1): -1} |
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279 |
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280 def test_all_pairs_lowest_common_ancestor7(self): |
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281 """Test that LCA on null graph bails.""" |
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282 pytest.raises(nx.NetworkXPointlessConcept, all_pairs_lca, nx.DiGraph()) |
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283 |
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284 def test_all_pairs_lowest_common_ancestor8(self): |
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285 """Test that LCA on non-dags bails.""" |
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286 pytest.raises(nx.NetworkXError, all_pairs_lca, nx.DiGraph([(3, 4), (4, 3)])) |
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287 |
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288 def test_all_pairs_lowest_common_ancestor9(self): |
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289 """Test that it works on non-empty graphs with no LCAs.""" |
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290 G = nx.DiGraph() |
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291 G.add_node(3) |
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292 ans = list(all_pairs_lca(G)) |
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293 assert ans == [((3, 3), 3)] |
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294 |
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295 def test_all_pairs_lowest_common_ancestor10(self): |
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296 """Test that it bails on None as a node.""" |
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297 G = nx.DiGraph([(None, 3)]) |
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298 pytest.raises(nx.NetworkXError, all_pairs_lca, G) |
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299 pytest.raises(nx.NodeNotFound, all_pairs_lca, self.DG, pairs=G.edges()) |
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300 |
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301 def test_lowest_common_ancestor1(self): |
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302 """Test that the one-pair function works on default.""" |
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303 G = nx.DiGraph([(0, 1), (2, 1)]) |
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304 sentinel = object() |
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305 assert nx.lowest_common_ancestor(G, 0, 2, default=sentinel) is sentinel |
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306 |
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307 def test_lowest_common_ancestor2(self): |
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308 """Test that the one-pair function works on identity.""" |
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309 G = nx.DiGraph() |
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310 G.add_node(3) |
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311 assert nx.lowest_common_ancestor(G, 3, 3) == 3 |