Mercurial > repos > shellac > sam_consensus_v3
annotate env/lib/python3.9/site-packages/networkx/readwrite/tests/test_edgelist.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 """ |
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2 Unit tests for edgelists. |
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3 """ |
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4 import pytest |
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5 import io |
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6 import tempfile |
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7 import os |
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8 |
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9 import networkx as nx |
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10 from networkx.testing import assert_edges_equal, assert_nodes_equal, assert_graphs_equal |
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11 |
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12 |
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13 class TestEdgelist: |
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14 @classmethod |
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15 def setup_class(cls): |
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16 cls.G = nx.Graph(name="test") |
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17 e = [("a", "b"), ("b", "c"), ("c", "d"), ("d", "e"), ("e", "f"), ("a", "f")] |
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18 cls.G.add_edges_from(e) |
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19 cls.G.add_node("g") |
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20 cls.DG = nx.DiGraph(cls.G) |
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21 cls.XG = nx.MultiGraph() |
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22 cls.XG.add_weighted_edges_from([(1, 2, 5), (1, 2, 5), (1, 2, 1), (3, 3, 42)]) |
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23 cls.XDG = nx.MultiDiGraph(cls.XG) |
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24 |
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25 def test_read_edgelist_1(self): |
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26 s = b"""\ |
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27 # comment line |
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28 1 2 |
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29 # comment line |
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30 2 3 |
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31 """ |
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32 bytesIO = io.BytesIO(s) |
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33 G = nx.read_edgelist(bytesIO, nodetype=int) |
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34 assert_edges_equal(G.edges(), [(1, 2), (2, 3)]) |
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35 |
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36 def test_read_edgelist_2(self): |
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37 s = b"""\ |
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38 # comment line |
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39 1 2 2.0 |
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40 # comment line |
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41 2 3 3.0 |
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42 """ |
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43 bytesIO = io.BytesIO(s) |
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44 G = nx.read_edgelist(bytesIO, nodetype=int, data=False) |
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45 assert_edges_equal(G.edges(), [(1, 2), (2, 3)]) |
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46 |
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47 bytesIO = io.BytesIO(s) |
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48 G = nx.read_weighted_edgelist(bytesIO, nodetype=int) |
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49 assert_edges_equal( |
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50 G.edges(data=True), [(1, 2, {"weight": 2.0}), (2, 3, {"weight": 3.0})] |
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51 ) |
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52 |
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53 def test_read_edgelist_3(self): |
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54 s = b"""\ |
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55 # comment line |
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56 1 2 {'weight':2.0} |
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57 # comment line |
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58 2 3 {'weight':3.0} |
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59 """ |
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60 bytesIO = io.BytesIO(s) |
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61 G = nx.read_edgelist(bytesIO, nodetype=int, data=False) |
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62 assert_edges_equal(G.edges(), [(1, 2), (2, 3)]) |
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63 |
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64 bytesIO = io.BytesIO(s) |
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65 G = nx.read_edgelist(bytesIO, nodetype=int, data=True) |
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66 assert_edges_equal( |
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67 G.edges(data=True), [(1, 2, {"weight": 2.0}), (2, 3, {"weight": 3.0})] |
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68 ) |
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69 |
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70 def test_read_edgelist_4(self): |
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71 s = b"""\ |
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72 # comment line |
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73 1 2 {'weight':2.0} |
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74 # comment line |
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75 2 3 {'weight':3.0} |
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76 """ |
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77 bytesIO = io.BytesIO(s) |
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78 G = nx.read_edgelist(bytesIO, nodetype=int, data=False) |
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79 assert_edges_equal(G.edges(), [(1, 2), (2, 3)]) |
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80 |
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81 bytesIO = io.BytesIO(s) |
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82 G = nx.read_edgelist(bytesIO, nodetype=int, data=True) |
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83 assert_edges_equal( |
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84 G.edges(data=True), [(1, 2, {"weight": 2.0}), (2, 3, {"weight": 3.0})] |
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85 ) |
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86 |
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87 s = """\ |
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88 # comment line |
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89 1 2 {'weight':2.0} |
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90 # comment line |
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91 2 3 {'weight':3.0} |
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92 """ |
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93 StringIO = io.StringIO(s) |
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94 G = nx.read_edgelist(StringIO, nodetype=int, data=False) |
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95 assert_edges_equal(G.edges(), [(1, 2), (2, 3)]) |
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96 |
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97 StringIO = io.StringIO(s) |
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98 G = nx.read_edgelist(StringIO, nodetype=int, data=True) |
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99 assert_edges_equal( |
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100 G.edges(data=True), [(1, 2, {"weight": 2.0}), (2, 3, {"weight": 3.0})] |
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101 ) |
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102 |
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103 def test_read_edgelist_5(self): |
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104 s = b"""\ |
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105 # comment line |
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106 1 2 {'weight':2.0, 'color':'green'} |
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107 # comment line |
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108 2 3 {'weight':3.0, 'color':'red'} |
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109 """ |
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110 bytesIO = io.BytesIO(s) |
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111 G = nx.read_edgelist(bytesIO, nodetype=int, data=False) |
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112 assert_edges_equal(G.edges(), [(1, 2), (2, 3)]) |
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113 |
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114 bytesIO = io.BytesIO(s) |
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115 G = nx.read_edgelist(bytesIO, nodetype=int, data=True) |
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116 assert_edges_equal( |
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117 G.edges(data=True), |
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118 [ |
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119 (1, 2, {"weight": 2.0, "color": "green"}), |
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120 (2, 3, {"weight": 3.0, "color": "red"}), |
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121 ], |
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122 ) |
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123 |
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124 def test_read_edgelist_6(self): |
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125 s = b"""\ |
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126 # comment line |
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127 1, 2, {'weight':2.0, 'color':'green'} |
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128 # comment line |
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129 2, 3, {'weight':3.0, 'color':'red'} |
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130 """ |
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131 bytesIO = io.BytesIO(s) |
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132 G = nx.read_edgelist(bytesIO, nodetype=int, data=False, delimiter=",") |
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133 assert_edges_equal(G.edges(), [(1, 2), (2, 3)]) |
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134 |
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135 bytesIO = io.BytesIO(s) |
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136 G = nx.read_edgelist(bytesIO, nodetype=int, data=True, delimiter=",") |
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137 assert_edges_equal( |
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138 G.edges(data=True), |
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139 [ |
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140 (1, 2, {"weight": 2.0, "color": "green"}), |
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141 (2, 3, {"weight": 3.0, "color": "red"}), |
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142 ], |
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143 ) |
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144 |
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145 def test_write_edgelist_1(self): |
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146 fh = io.BytesIO() |
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147 G = nx.OrderedGraph() |
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148 G.add_edges_from([(1, 2), (2, 3)]) |
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149 nx.write_edgelist(G, fh, data=False) |
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150 fh.seek(0) |
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151 assert fh.read() == b"1 2\n2 3\n" |
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152 |
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153 def test_write_edgelist_2(self): |
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154 fh = io.BytesIO() |
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155 G = nx.OrderedGraph() |
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156 G.add_edges_from([(1, 2), (2, 3)]) |
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157 nx.write_edgelist(G, fh, data=True) |
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158 fh.seek(0) |
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159 assert fh.read() == b"1 2 {}\n2 3 {}\n" |
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160 |
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161 def test_write_edgelist_3(self): |
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162 fh = io.BytesIO() |
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163 G = nx.OrderedGraph() |
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164 G.add_edge(1, 2, weight=2.0) |
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165 G.add_edge(2, 3, weight=3.0) |
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166 nx.write_edgelist(G, fh, data=True) |
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167 fh.seek(0) |
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168 assert fh.read() == b"1 2 {'weight': 2.0}\n2 3 {'weight': 3.0}\n" |
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169 |
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170 def test_write_edgelist_4(self): |
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171 fh = io.BytesIO() |
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172 G = nx.OrderedGraph() |
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173 G.add_edge(1, 2, weight=2.0) |
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174 G.add_edge(2, 3, weight=3.0) |
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175 nx.write_edgelist(G, fh, data=[("weight")]) |
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176 fh.seek(0) |
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177 assert fh.read() == b"1 2 2.0\n2 3 3.0\n" |
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178 |
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179 def test_unicode(self): |
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180 G = nx.Graph() |
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181 name1 = chr(2344) + chr(123) + chr(6543) |
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182 name2 = chr(5543) + chr(1543) + chr(324) |
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183 G.add_edge(name1, "Radiohead", **{name2: 3}) |
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184 fd, fname = tempfile.mkstemp() |
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185 nx.write_edgelist(G, fname) |
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186 H = nx.read_edgelist(fname) |
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187 assert_graphs_equal(G, H) |
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188 os.close(fd) |
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189 os.unlink(fname) |
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190 |
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191 def test_latin1_issue(self): |
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192 G = nx.Graph() |
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193 name1 = chr(2344) + chr(123) + chr(6543) |
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194 name2 = chr(5543) + chr(1543) + chr(324) |
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195 G.add_edge(name1, "Radiohead", **{name2: 3}) |
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196 fd, fname = tempfile.mkstemp() |
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197 pytest.raises( |
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198 UnicodeEncodeError, nx.write_edgelist, G, fname, encoding="latin-1" |
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199 ) |
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200 os.close(fd) |
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201 os.unlink(fname) |
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202 |
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203 def test_latin1(self): |
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204 G = nx.Graph() |
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205 name1 = "Bj" + chr(246) + "rk" |
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206 name2 = chr(220) + "ber" |
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207 G.add_edge(name1, "Radiohead", **{name2: 3}) |
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208 fd, fname = tempfile.mkstemp() |
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209 nx.write_edgelist(G, fname, encoding="latin-1") |
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210 H = nx.read_edgelist(fname, encoding="latin-1") |
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211 assert_graphs_equal(G, H) |
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212 os.close(fd) |
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213 os.unlink(fname) |
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214 |
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215 def test_edgelist_graph(self): |
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216 G = self.G |
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217 (fd, fname) = tempfile.mkstemp() |
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218 nx.write_edgelist(G, fname) |
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219 H = nx.read_edgelist(fname) |
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220 H2 = nx.read_edgelist(fname) |
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221 assert H != H2 # they should be different graphs |
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222 G.remove_node("g") # isolated nodes are not written in edgelist |
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223 assert_nodes_equal(list(H), list(G)) |
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224 assert_edges_equal(list(H.edges()), list(G.edges())) |
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225 os.close(fd) |
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226 os.unlink(fname) |
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227 |
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228 def test_edgelist_digraph(self): |
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229 G = self.DG |
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230 (fd, fname) = tempfile.mkstemp() |
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231 nx.write_edgelist(G, fname) |
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232 H = nx.read_edgelist(fname, create_using=nx.DiGraph()) |
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233 H2 = nx.read_edgelist(fname, create_using=nx.DiGraph()) |
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234 assert H != H2 # they should be different graphs |
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235 G.remove_node("g") # isolated nodes are not written in edgelist |
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236 assert_nodes_equal(list(H), list(G)) |
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237 assert_edges_equal(list(H.edges()), list(G.edges())) |
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238 os.close(fd) |
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239 os.unlink(fname) |
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240 |
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241 def test_edgelist_integers(self): |
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242 G = nx.convert_node_labels_to_integers(self.G) |
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243 (fd, fname) = tempfile.mkstemp() |
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244 nx.write_edgelist(G, fname) |
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245 H = nx.read_edgelist(fname, nodetype=int) |
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246 # isolated nodes are not written in edgelist |
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247 G.remove_nodes_from(list(nx.isolates(G))) |
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248 assert_nodes_equal(list(H), list(G)) |
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249 assert_edges_equal(list(H.edges()), list(G.edges())) |
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250 os.close(fd) |
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251 os.unlink(fname) |
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252 |
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253 def test_edgelist_multigraph(self): |
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254 G = self.XG |
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255 (fd, fname) = tempfile.mkstemp() |
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256 nx.write_edgelist(G, fname) |
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257 H = nx.read_edgelist(fname, nodetype=int, create_using=nx.MultiGraph()) |
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258 H2 = nx.read_edgelist(fname, nodetype=int, create_using=nx.MultiGraph()) |
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259 assert H != H2 # they should be different graphs |
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260 assert_nodes_equal(list(H), list(G)) |
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261 assert_edges_equal(list(H.edges()), list(G.edges())) |
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262 os.close(fd) |
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263 os.unlink(fname) |
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264 |
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265 def test_edgelist_multidigraph(self): |
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266 G = self.XDG |
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267 (fd, fname) = tempfile.mkstemp() |
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268 nx.write_edgelist(G, fname) |
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269 H = nx.read_edgelist(fname, nodetype=int, create_using=nx.MultiDiGraph()) |
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270 H2 = nx.read_edgelist(fname, nodetype=int, create_using=nx.MultiDiGraph()) |
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271 assert H != H2 # they should be different graphs |
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272 assert_nodes_equal(list(H), list(G)) |
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273 assert_edges_equal(list(H.edges()), list(G.edges())) |
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274 os.close(fd) |
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275 os.unlink(fname) |