Mercurial > repos > shellac > sam_consensus_v3
annotate env/lib/python3.9/site-packages/networkx/readwrite/tests/test_graphml.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 import networkx as nx |
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3 from networkx.testing.utils import assert_edges_equal, assert_nodes_equal |
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4 import io |
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5 import tempfile |
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6 import os |
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7 from networkx.testing import almost_equal |
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8 |
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9 |
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10 class BaseGraphML: |
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11 @classmethod |
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12 def setup_class(cls): |
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13 cls.simple_directed_data = """<?xml version="1.0" encoding="UTF-8"?> |
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14 <!-- This file was written by the JAVA GraphML Library.--> |
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15 <graphml xmlns="http://graphml.graphdrawing.org/xmlns" |
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16 xmlns:xsi="http://www.w3.org/2001/XMLSchema-instance" |
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17 xsi:schemaLocation="http://graphml.graphdrawing.org/xmlns |
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18 http://graphml.graphdrawing.org/xmlns/1.0/graphml.xsd"> |
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19 <graph id="G" edgedefault="directed"> |
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20 <node id="n0"/> |
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21 <node id="n1"/> |
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22 <node id="n2"/> |
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23 <node id="n3"/> |
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24 <node id="n4"/> |
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25 <node id="n5"/> |
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26 <node id="n6"/> |
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27 <node id="n7"/> |
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28 <node id="n8"/> |
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29 <node id="n9"/> |
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30 <node id="n10"/> |
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31 <edge id="foo" source="n0" target="n2"/> |
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32 <edge source="n1" target="n2"/> |
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33 <edge source="n2" target="n3"/> |
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34 <edge source="n3" target="n5"/> |
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35 <edge source="n3" target="n4"/> |
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36 <edge source="n4" target="n6"/> |
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37 <edge source="n6" target="n5"/> |
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38 <edge source="n5" target="n7"/> |
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39 <edge source="n6" target="n8"/> |
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40 <edge source="n8" target="n7"/> |
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41 <edge source="n8" target="n9"/> |
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42 </graph> |
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43 </graphml>""" |
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44 cls.simple_directed_graph = nx.DiGraph() |
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45 cls.simple_directed_graph.add_node("n10") |
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46 cls.simple_directed_graph.add_edge("n0", "n2", id="foo") |
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47 cls.simple_directed_graph.add_edge("n0", "n2") |
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48 cls.simple_directed_graph.add_edges_from( |
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49 [ |
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50 ("n1", "n2"), |
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51 ("n2", "n3"), |
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52 ("n3", "n5"), |
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53 ("n3", "n4"), |
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54 ("n4", "n6"), |
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55 ("n6", "n5"), |
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56 ("n5", "n7"), |
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57 ("n6", "n8"), |
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58 ("n8", "n7"), |
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59 ("n8", "n9"), |
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60 ] |
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61 ) |
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62 cls.simple_directed_fh = io.BytesIO(cls.simple_directed_data.encode("UTF-8")) |
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63 |
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64 cls.attribute_data = """<?xml version="1.0" encoding="UTF-8"?> |
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65 <graphml xmlns="http://graphml.graphdrawing.org/xmlns" |
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66 xmlns:xsi="http://www.w3.org/2001/XMLSchema-instance" |
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67 xsi:schemaLocation="http://graphml.graphdrawing.org/xmlns |
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68 http://graphml.graphdrawing.org/xmlns/1.0/graphml.xsd"> |
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69 <key id="d0" for="node" attr.name="color" attr.type="string"> |
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70 <default>yellow</default> |
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71 </key> |
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72 <key id="d1" for="edge" attr.name="weight" attr.type="double"/> |
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73 <graph id="G" edgedefault="directed"> |
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74 <node id="n0"> |
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75 <data key="d0">green</data> |
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76 </node> |
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77 <node id="n1"/> |
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78 <node id="n2"> |
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79 <data key="d0">blue</data> |
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80 </node> |
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81 <node id="n3"> |
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82 <data key="d0">red</data> |
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83 </node> |
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84 <node id="n4"/> |
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85 <node id="n5"> |
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86 <data key="d0">turquoise</data> |
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87 </node> |
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88 <edge id="e0" source="n0" target="n2"> |
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89 <data key="d1">1.0</data> |
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90 </edge> |
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91 <edge id="e1" source="n0" target="n1"> |
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92 <data key="d1">1.0</data> |
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93 </edge> |
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94 <edge id="e2" source="n1" target="n3"> |
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95 <data key="d1">2.0</data> |
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96 </edge> |
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97 <edge id="e3" source="n3" target="n2"/> |
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98 <edge id="e4" source="n2" target="n4"/> |
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99 <edge id="e5" source="n3" target="n5"/> |
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100 <edge id="e6" source="n5" target="n4"> |
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101 <data key="d1">1.1</data> |
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102 </edge> |
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103 </graph> |
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104 </graphml> |
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105 """ |
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106 cls.attribute_graph = nx.DiGraph(id="G") |
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107 cls.attribute_graph.graph["node_default"] = {"color": "yellow"} |
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108 cls.attribute_graph.add_node("n0", color="green") |
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109 cls.attribute_graph.add_node("n2", color="blue") |
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110 cls.attribute_graph.add_node("n3", color="red") |
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111 cls.attribute_graph.add_node("n4") |
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112 cls.attribute_graph.add_node("n5", color="turquoise") |
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113 cls.attribute_graph.add_edge("n0", "n2", id="e0", weight=1.0) |
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114 cls.attribute_graph.add_edge("n0", "n1", id="e1", weight=1.0) |
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115 cls.attribute_graph.add_edge("n1", "n3", id="e2", weight=2.0) |
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116 cls.attribute_graph.add_edge("n3", "n2", id="e3") |
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117 cls.attribute_graph.add_edge("n2", "n4", id="e4") |
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118 cls.attribute_graph.add_edge("n3", "n5", id="e5") |
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119 cls.attribute_graph.add_edge("n5", "n4", id="e6", weight=1.1) |
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120 cls.attribute_fh = io.BytesIO(cls.attribute_data.encode("UTF-8")) |
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121 |
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122 cls.attribute_named_key_ids_data = """<?xml version='1.0' encoding='utf-8'?> |
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123 <graphml xmlns="http://graphml.graphdrawing.org/xmlns" |
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124 xmlns:xsi="http://www.w3.org/2001/XMLSchema-instance" |
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125 xsi:schemaLocation="http://graphml.graphdrawing.org/xmlns |
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126 http://graphml.graphdrawing.org/xmlns/1.0/graphml.xsd"> |
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127 <key id="edge_prop" for="edge" attr.name="edge_prop" attr.type="string"/> |
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128 <key id="prop2" for="node" attr.name="prop2" attr.type="string"/> |
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129 <key id="prop1" for="node" attr.name="prop1" attr.type="string"/> |
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130 <graph edgedefault="directed"> |
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131 <node id="0"> |
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132 <data key="prop1">val1</data> |
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133 <data key="prop2">val2</data> |
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134 </node> |
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135 <node id="1"> |
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136 <data key="prop1">val_one</data> |
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137 <data key="prop2">val2</data> |
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138 </node> |
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139 <edge source="0" target="1"> |
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140 <data key="edge_prop">edge_value</data> |
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141 </edge> |
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142 </graph> |
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143 </graphml> |
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144 """ |
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145 cls.attribute_named_key_ids_graph = nx.DiGraph() |
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146 cls.attribute_named_key_ids_graph.add_node("0", prop1="val1", prop2="val2") |
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147 cls.attribute_named_key_ids_graph.add_node("1", prop1="val_one", prop2="val2") |
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148 cls.attribute_named_key_ids_graph.add_edge("0", "1", edge_prop="edge_value") |
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149 fh = io.BytesIO(cls.attribute_named_key_ids_data.encode("UTF-8")) |
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150 cls.attribute_named_key_ids_fh = fh |
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151 |
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152 cls.attribute_numeric_type_data = """<?xml version='1.0' encoding='utf-8'?> |
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153 <graphml xmlns="http://graphml.graphdrawing.org/xmlns" |
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154 xmlns:xsi="http://www.w3.org/2001/XMLSchema-instance" |
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155 xsi:schemaLocation="http://graphml.graphdrawing.org/xmlns |
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156 http://graphml.graphdrawing.org/xmlns/1.0/graphml.xsd"> |
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157 <key attr.name="weight" attr.type="double" for="node" id="d1" /> |
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158 <key attr.name="weight" attr.type="double" for="edge" id="d0" /> |
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159 <graph edgedefault="directed"> |
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160 <node id="n0"> |
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161 <data key="d1">1</data> |
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162 </node> |
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163 <node id="n1"> |
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164 <data key="d1">2.0</data> |
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165 </node> |
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166 <edge source="n0" target="n1"> |
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167 <data key="d0">1</data> |
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168 </edge> |
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169 <edge source="n1" target="n0"> |
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170 <data key="d0">k</data> |
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171 </edge> |
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172 <edge source="n1" target="n1"> |
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173 <data key="d0">1.0</data> |
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174 </edge> |
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175 </graph> |
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176 </graphml> |
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177 """ |
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178 cls.attribute_numeric_type_graph = nx.DiGraph() |
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179 cls.attribute_numeric_type_graph.add_node("n0", weight=1) |
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180 cls.attribute_numeric_type_graph.add_node("n1", weight=2.0) |
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181 cls.attribute_numeric_type_graph.add_edge("n0", "n1", weight=1) |
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182 cls.attribute_numeric_type_graph.add_edge("n1", "n1", weight=1.0) |
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183 fh = io.BytesIO(cls.attribute_numeric_type_data.encode("UTF-8")) |
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184 cls.attribute_numeric_type_fh = fh |
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185 |
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186 cls.simple_undirected_data = """<?xml version="1.0" encoding="UTF-8"?> |
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187 <graphml xmlns="http://graphml.graphdrawing.org/xmlns" |
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188 xmlns:xsi="http://www.w3.org/2001/XMLSchema-instance" |
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189 xsi:schemaLocation="http://graphml.graphdrawing.org/xmlns |
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190 http://graphml.graphdrawing.org/xmlns/1.0/graphml.xsd"> |
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191 <graph id="G"> |
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192 <node id="n0"/> |
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193 <node id="n1"/> |
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194 <node id="n2"/> |
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195 <node id="n10"/> |
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196 <edge id="foo" source="n0" target="n2"/> |
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197 <edge source="n1" target="n2"/> |
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198 <edge source="n2" target="n3"/> |
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199 </graph> |
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200 </graphml>""" |
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201 # <edge source="n8" target="n10" directed="false"/> |
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202 cls.simple_undirected_graph = nx.Graph() |
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203 cls.simple_undirected_graph.add_node("n10") |
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204 cls.simple_undirected_graph.add_edge("n0", "n2", id="foo") |
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205 cls.simple_undirected_graph.add_edges_from([("n1", "n2"), ("n2", "n3")]) |
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206 fh = io.BytesIO(cls.simple_undirected_data.encode("UTF-8")) |
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207 cls.simple_undirected_fh = fh |
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208 |
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209 cls.undirected_multigraph_data = """<?xml version="1.0" encoding="UTF-8"?> |
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210 <graphml xmlns="http://graphml.graphdrawing.org/xmlns" |
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211 xmlns:xsi="http://www.w3.org/2001/XMLSchema-instance" |
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212 xsi:schemaLocation="http://graphml.graphdrawing.org/xmlns |
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213 http://graphml.graphdrawing.org/xmlns/1.0/graphml.xsd"> |
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214 <graph id="G"> |
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215 <node id="n0"/> |
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216 <node id="n1"/> |
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217 <node id="n2"/> |
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218 <node id="n10"/> |
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219 <edge id="e0" source="n0" target="n2"/> |
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220 <edge id="e1" source="n1" target="n2"/> |
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221 <edge id="e2" source="n2" target="n1"/> |
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222 </graph> |
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223 </graphml>""" |
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224 cls.undirected_multigraph = nx.MultiGraph() |
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225 cls.undirected_multigraph.add_node("n10") |
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226 cls.undirected_multigraph.add_edge("n0", "n2", id="e0") |
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227 cls.undirected_multigraph.add_edge("n1", "n2", id="e1") |
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228 cls.undirected_multigraph.add_edge("n2", "n1", id="e2") |
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229 fh = io.BytesIO(cls.undirected_multigraph_data.encode("UTF-8")) |
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230 cls.undirected_multigraph_fh = fh |
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231 |
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232 cls.undirected_multigraph_no_multiedge_data = """<?xml version="1.0" encoding="UTF-8"?> |
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233 <graphml xmlns="http://graphml.graphdrawing.org/xmlns" |
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234 xmlns:xsi="http://www.w3.org/2001/XMLSchema-instance" |
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235 xsi:schemaLocation="http://graphml.graphdrawing.org/xmlns |
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236 http://graphml.graphdrawing.org/xmlns/1.0/graphml.xsd"> |
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237 <graph id="G"> |
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238 <node id="n0"/> |
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239 <node id="n1"/> |
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240 <node id="n2"/> |
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241 <node id="n10"/> |
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242 <edge id="e0" source="n0" target="n2"/> |
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243 <edge id="e1" source="n1" target="n2"/> |
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244 <edge id="e2" source="n2" target="n3"/> |
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245 </graph> |
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246 </graphml>""" |
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247 cls.undirected_multigraph_no_multiedge = nx.MultiGraph() |
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248 cls.undirected_multigraph_no_multiedge.add_node("n10") |
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249 cls.undirected_multigraph_no_multiedge.add_edge("n0", "n2", id="e0") |
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250 cls.undirected_multigraph_no_multiedge.add_edge("n1", "n2", id="e1") |
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251 cls.undirected_multigraph_no_multiedge.add_edge("n2", "n3", id="e2") |
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252 fh = io.BytesIO(cls.undirected_multigraph_no_multiedge_data.encode("UTF-8")) |
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253 cls.undirected_multigraph_no_multiedge_fh = fh |
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254 |
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255 cls.multigraph_only_ids_for_multiedges_data = """<?xml version="1.0" encoding="UTF-8"?> |
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256 <graphml xmlns="http://graphml.graphdrawing.org/xmlns" |
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257 xmlns:xsi="http://www.w3.org/2001/XMLSchema-instance" |
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258 xsi:schemaLocation="http://graphml.graphdrawing.org/xmlns |
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259 http://graphml.graphdrawing.org/xmlns/1.0/graphml.xsd"> |
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260 <graph id="G"> |
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261 <node id="n0"/> |
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262 <node id="n1"/> |
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263 <node id="n2"/> |
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264 <node id="n10"/> |
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265 <edge source="n0" target="n2"/> |
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266 <edge id="e1" source="n1" target="n2"/> |
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267 <edge id="e2" source="n2" target="n1"/> |
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268 </graph> |
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269 </graphml>""" |
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270 cls.multigraph_only_ids_for_multiedges = nx.MultiGraph() |
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271 cls.multigraph_only_ids_for_multiedges.add_node("n10") |
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272 cls.multigraph_only_ids_for_multiedges.add_edge("n0", "n2") |
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273 cls.multigraph_only_ids_for_multiedges.add_edge("n1", "n2", id="e1") |
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274 cls.multigraph_only_ids_for_multiedges.add_edge("n2", "n1", id="e2") |
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275 fh = io.BytesIO(cls.multigraph_only_ids_for_multiedges_data.encode("UTF-8")) |
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276 cls.multigraph_only_ids_for_multiedges_fh = fh |
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277 |
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278 |
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279 class TestReadGraphML(BaseGraphML): |
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280 def test_read_simple_directed_graphml(self): |
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281 G = self.simple_directed_graph |
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282 H = nx.read_graphml(self.simple_directed_fh) |
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283 assert sorted(G.nodes()) == sorted(H.nodes()) |
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284 assert sorted(G.edges()) == sorted(H.edges()) |
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285 assert sorted(G.edges(data=True)) == sorted(H.edges(data=True)) |
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286 self.simple_directed_fh.seek(0) |
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287 |
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288 PG = nx.parse_graphml(self.simple_directed_data) |
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289 assert sorted(G.nodes()) == sorted(PG.nodes()) |
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290 assert sorted(G.edges()) == sorted(PG.edges()) |
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291 assert sorted(G.edges(data=True)) == sorted(PG.edges(data=True)) |
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292 |
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293 def test_read_simple_undirected_graphml(self): |
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294 G = self.simple_undirected_graph |
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295 H = nx.read_graphml(self.simple_undirected_fh) |
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296 assert_nodes_equal(G.nodes(), H.nodes()) |
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297 assert_edges_equal(G.edges(), H.edges()) |
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298 self.simple_undirected_fh.seek(0) |
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299 |
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300 PG = nx.parse_graphml(self.simple_undirected_data) |
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301 assert_nodes_equal(G.nodes(), PG.nodes()) |
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302 assert_edges_equal(G.edges(), PG.edges()) |
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303 |
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304 def test_read_undirected_multigraph_graphml(self): |
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305 G = self.undirected_multigraph |
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306 H = nx.read_graphml(self.undirected_multigraph_fh) |
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307 assert_nodes_equal(G.nodes(), H.nodes()) |
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308 assert_edges_equal(G.edges(), H.edges()) |
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309 self.undirected_multigraph_fh.seek(0) |
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310 |
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311 PG = nx.parse_graphml(self.undirected_multigraph_data) |
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312 assert_nodes_equal(G.nodes(), PG.nodes()) |
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313 assert_edges_equal(G.edges(), PG.edges()) |
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314 |
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315 def test_read_undirected_multigraph_no_multiedge_graphml(self): |
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316 G = self.undirected_multigraph_no_multiedge |
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317 H = nx.read_graphml(self.undirected_multigraph_no_multiedge_fh) |
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318 assert_nodes_equal(G.nodes(), H.nodes()) |
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319 assert_edges_equal(G.edges(), H.edges()) |
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320 self.undirected_multigraph_no_multiedge_fh.seek(0) |
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321 |
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322 PG = nx.parse_graphml(self.undirected_multigraph_no_multiedge_data) |
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323 assert_nodes_equal(G.nodes(), PG.nodes()) |
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324 assert_edges_equal(G.edges(), PG.edges()) |
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325 |
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326 def test_read_undirected_multigraph_only_ids_for_multiedges_graphml(self): |
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327 G = self.multigraph_only_ids_for_multiedges |
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328 H = nx.read_graphml(self.multigraph_only_ids_for_multiedges_fh) |
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329 assert_nodes_equal(G.nodes(), H.nodes()) |
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330 assert_edges_equal(G.edges(), H.edges()) |
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331 self.multigraph_only_ids_for_multiedges_fh.seek(0) |
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332 |
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333 PG = nx.parse_graphml(self.multigraph_only_ids_for_multiedges_data) |
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334 assert_nodes_equal(G.nodes(), PG.nodes()) |
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335 assert_edges_equal(G.edges(), PG.edges()) |
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336 |
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337 def test_read_attribute_graphml(self): |
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338 G = self.attribute_graph |
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339 H = nx.read_graphml(self.attribute_fh) |
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340 assert_nodes_equal(G.nodes(True), sorted(H.nodes(data=True))) |
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341 ge = sorted(G.edges(data=True)) |
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342 he = sorted(H.edges(data=True)) |
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343 for a, b in zip(ge, he): |
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344 assert a == b |
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345 self.attribute_fh.seek(0) |
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346 |
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347 PG = nx.parse_graphml(self.attribute_data) |
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348 assert sorted(G.nodes(True)) == sorted(PG.nodes(data=True)) |
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349 ge = sorted(G.edges(data=True)) |
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350 he = sorted(PG.edges(data=True)) |
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351 for a, b in zip(ge, he): |
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352 assert a == b |
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353 |
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354 def test_directed_edge_in_undirected(self): |
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355 s = """<?xml version="1.0" encoding="UTF-8"?> |
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356 <graphml xmlns="http://graphml.graphdrawing.org/xmlns" |
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357 xmlns:xsi="http://www.w3.org/2001/XMLSchema-instance" |
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358 xsi:schemaLocation="http://graphml.graphdrawing.org/xmlns |
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359 http://graphml.graphdrawing.org/xmlns/1.0/graphml.xsd"> |
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360 <graph id="G"> |
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361 <node id="n0"/> |
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362 <node id="n1"/> |
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363 <node id="n2"/> |
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364 <edge source="n0" target="n1"/> |
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365 <edge source="n1" target="n2" directed='true'/> |
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366 </graph> |
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367 </graphml>""" |
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368 fh = io.BytesIO(s.encode("UTF-8")) |
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369 pytest.raises(nx.NetworkXError, nx.read_graphml, fh) |
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370 pytest.raises(nx.NetworkXError, nx.parse_graphml, s) |
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371 |
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372 def test_undirected_edge_in_directed(self): |
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373 s = """<?xml version="1.0" encoding="UTF-8"?> |
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374 <graphml xmlns="http://graphml.graphdrawing.org/xmlns" |
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375 xmlns:xsi="http://www.w3.org/2001/XMLSchema-instance" |
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376 xsi:schemaLocation="http://graphml.graphdrawing.org/xmlns |
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377 http://graphml.graphdrawing.org/xmlns/1.0/graphml.xsd"> |
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378 <graph id="G" edgedefault='directed'> |
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379 <node id="n0"/> |
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380 <node id="n1"/> |
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381 <node id="n2"/> |
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382 <edge source="n0" target="n1"/> |
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383 <edge source="n1" target="n2" directed='false'/> |
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384 </graph> |
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385 </graphml>""" |
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386 fh = io.BytesIO(s.encode("UTF-8")) |
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387 pytest.raises(nx.NetworkXError, nx.read_graphml, fh) |
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388 pytest.raises(nx.NetworkXError, nx.parse_graphml, s) |
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389 |
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390 def test_key_raise(self): |
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391 s = """<?xml version="1.0" encoding="UTF-8"?> |
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392 <graphml xmlns="http://graphml.graphdrawing.org/xmlns" |
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393 xmlns:xsi="http://www.w3.org/2001/XMLSchema-instance" |
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394 xsi:schemaLocation="http://graphml.graphdrawing.org/xmlns |
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395 http://graphml.graphdrawing.org/xmlns/1.0/graphml.xsd"> |
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396 <key id="d0" for="node" attr.name="color" attr.type="string"> |
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397 <default>yellow</default> |
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398 </key> |
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399 <key id="d1" for="edge" attr.name="weight" attr.type="double"/> |
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400 <graph id="G" edgedefault="directed"> |
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401 <node id="n0"> |
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402 <data key="d0">green</data> |
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403 </node> |
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404 <node id="n1"/> |
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405 <node id="n2"> |
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406 <data key="d0">blue</data> |
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407 </node> |
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408 <edge id="e0" source="n0" target="n2"> |
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409 <data key="d2">1.0</data> |
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410 </edge> |
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411 </graph> |
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412 </graphml> |
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413 """ |
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414 fh = io.BytesIO(s.encode("UTF-8")) |
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415 pytest.raises(nx.NetworkXError, nx.read_graphml, fh) |
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416 pytest.raises(nx.NetworkXError, nx.parse_graphml, s) |
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417 |
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418 def test_hyperedge_raise(self): |
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419 s = """<?xml version="1.0" encoding="UTF-8"?> |
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420 <graphml xmlns="http://graphml.graphdrawing.org/xmlns" |
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421 xmlns:xsi="http://www.w3.org/2001/XMLSchema-instance" |
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422 xsi:schemaLocation="http://graphml.graphdrawing.org/xmlns |
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423 http://graphml.graphdrawing.org/xmlns/1.0/graphml.xsd"> |
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424 <key id="d0" for="node" attr.name="color" attr.type="string"> |
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425 <default>yellow</default> |
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426 </key> |
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427 <key id="d1" for="edge" attr.name="weight" attr.type="double"/> |
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428 <graph id="G" edgedefault="directed"> |
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429 <node id="n0"> |
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430 <data key="d0">green</data> |
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431 </node> |
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432 <node id="n1"/> |
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433 <node id="n2"> |
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434 <data key="d0">blue</data> |
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435 </node> |
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436 <hyperedge id="e0" source="n0" target="n2"> |
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437 <endpoint node="n0"/> |
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438 <endpoint node="n1"/> |
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439 <endpoint node="n2"/> |
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440 </hyperedge> |
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441 </graph> |
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442 </graphml> |
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443 """ |
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444 fh = io.BytesIO(s.encode("UTF-8")) |
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445 pytest.raises(nx.NetworkXError, nx.read_graphml, fh) |
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446 pytest.raises(nx.NetworkXError, nx.parse_graphml, s) |
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447 |
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448 def test_multigraph_keys(self): |
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449 # Test that reading multigraphs uses edge id attributes as keys |
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450 s = """<?xml version="1.0" encoding="UTF-8"?> |
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451 <graphml xmlns="http://graphml.graphdrawing.org/xmlns" |
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452 xmlns:xsi="http://www.w3.org/2001/XMLSchema-instance" |
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453 xsi:schemaLocation="http://graphml.graphdrawing.org/xmlns |
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454 http://graphml.graphdrawing.org/xmlns/1.0/graphml.xsd"> |
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455 <graph id="G" edgedefault="directed"> |
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456 <node id="n0"/> |
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457 <node id="n1"/> |
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458 <edge id="e0" source="n0" target="n1"/> |
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459 <edge id="e1" source="n0" target="n1"/> |
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460 </graph> |
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461 </graphml> |
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462 """ |
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463 fh = io.BytesIO(s.encode("UTF-8")) |
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464 G = nx.read_graphml(fh) |
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465 expected = [("n0", "n1", "e0"), ("n0", "n1", "e1")] |
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466 assert sorted(G.edges(keys=True)) == expected |
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467 fh.seek(0) |
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468 H = nx.parse_graphml(s) |
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469 assert sorted(H.edges(keys=True)) == expected |
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470 |
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471 def test_preserve_multi_edge_data(self): |
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472 """ |
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473 Test that data and keys of edges are preserved on consequent |
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474 write and reads |
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475 """ |
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476 G = nx.MultiGraph() |
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477 G.add_node(1) |
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478 G.add_node(2) |
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479 G.add_edges_from( |
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480 [ |
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481 # edges with no data, no keys: |
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482 (1, 2), |
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483 # edges with only data: |
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484 (1, 2, dict(key="data_key1")), |
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485 (1, 2, dict(id="data_id2")), |
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486 (1, 2, dict(key="data_key3", id="data_id3")), |
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487 # edges with both data and keys: |
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488 (1, 2, 103, dict(key="data_key4")), |
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489 (1, 2, 104, dict(id="data_id5")), |
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490 (1, 2, 105, dict(key="data_key6", id="data_id7")), |
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491 ] |
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492 ) |
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493 fh = io.BytesIO() |
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494 nx.write_graphml(G, fh) |
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495 fh.seek(0) |
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496 H = nx.read_graphml(fh, node_type=int) |
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497 assert_edges_equal(G.edges(data=True, keys=True), H.edges(data=True, keys=True)) |
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498 assert G._adj == H._adj |
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499 |
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500 Gadj = { |
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501 str(node): { |
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502 str(nbr): {str(ekey): dd for ekey, dd in key_dict.items()} |
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503 for nbr, key_dict in nbr_dict.items() |
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504 } |
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505 for node, nbr_dict in G._adj.items() |
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506 } |
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507 fh.seek(0) |
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508 HH = nx.read_graphml(fh, node_type=str, edge_key_type=str) |
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509 assert Gadj == HH._adj |
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510 |
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511 fh.seek(0) |
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512 string_fh = fh.read() |
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513 HH = nx.parse_graphml(string_fh, node_type=str, edge_key_type=str) |
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514 assert Gadj == HH._adj |
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515 |
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516 def test_yfiles_extension(self): |
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517 data = """<?xml version="1.0" encoding="UTF-8" standalone="no"?> |
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518 <graphml xmlns="http://graphml.graphdrawing.org/xmlns" |
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519 xmlns:xsi="http://www.w3.org/2001/XMLSchema-instance" |
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520 xmlns:y="http://www.yworks.com/xml/graphml" |
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521 xmlns:yed="http://www.yworks.com/xml/yed/3" |
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522 xsi:schemaLocation="http://graphml.graphdrawing.org/xmlns |
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523 http://graphml.graphdrawing.org/xmlns/1.0/graphml.xsd"> |
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524 <!--Created by yFiles for Java 2.7--> |
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525 <key for="graphml" id="d0" yfiles.type="resources"/> |
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526 <key attr.name="url" attr.type="string" for="node" id="d1"/> |
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527 <key attr.name="description" attr.type="string" for="node" id="d2"/> |
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528 <key for="node" id="d3" yfiles.type="nodegraphics"/> |
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changeset
|
529 <key attr.name="Description" attr.type="string" for="graph" id="d4"> |
4f3585e2f14b
"planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
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parents:
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|
530 <default/> |
4f3585e2f14b
"planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
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parents:
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changeset
|
531 </key> |
4f3585e2f14b
"planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
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parents:
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changeset
|
532 <key attr.name="url" attr.type="string" for="edge" id="d5"/> |
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"planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
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|
533 <key attr.name="description" attr.type="string" for="edge" id="d6"/> |
4f3585e2f14b
"planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
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|
534 <key for="edge" id="d7" yfiles.type="edgegraphics"/> |
4f3585e2f14b
"planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
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parents:
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|
535 <graph edgedefault="directed" id="G"> |
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"planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
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parents:
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changeset
|
536 <node id="n0"> |
4f3585e2f14b
"planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
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parents:
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changeset
|
537 <data key="d3"> |
4f3585e2f14b
"planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
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parents:
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changeset
|
538 <y:ShapeNode> |
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"planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
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parents:
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|
539 <y:Geometry height="30.0" width="30.0" x="125.0" y="100.0"/> |
4f3585e2f14b
"planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
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|
540 <y:Fill color="#FFCC00" transparent="false"/> |
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"planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
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541 <y:BorderStyle color="#000000" type="line" width="1.0"/> |
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"planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
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|
542 <y:NodeLabel alignment="center" autoSizePolicy="content" |
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"planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
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543 borderDistance="0.0" fontFamily="Dialog" fontSize="13" |
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"planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
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544 fontStyle="plain" hasBackgroundColor="false" hasLineColor="false" |
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"planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
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545 height="19.1328125" modelName="internal" modelPosition="c" |
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"planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
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546 textColor="#000000" visible="true" width="12.27099609375" |
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"planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
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|
547 x="8.864501953125" y="5.43359375">1</y:NodeLabel> |
4f3585e2f14b
"planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
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548 <y:Shape type="rectangle"/> |
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"planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
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549 </y:ShapeNode> |
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"planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
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550 </data> |
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551 </node> |
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changeset
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552 <node id="n1"> |
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parents:
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553 <data key="d3"> |
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"planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
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554 <y:ShapeNode> |
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555 <y:Geometry height="30.0" width="30.0" x="183.0" y="205.0"/> |
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|
556 <y:Fill color="#FFCC00" transparent="false"/> |
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557 <y:BorderStyle color="#000000" type="line" width="1.0"/> |
4f3585e2f14b
"planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
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558 <y:NodeLabel alignment="center" autoSizePolicy="content" |
4f3585e2f14b
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559 borderDistance="0.0" fontFamily="Dialog" fontSize="13" |
4f3585e2f14b
"planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
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560 fontStyle="plain" hasBackgroundColor="false" hasLineColor="false" |
4f3585e2f14b
"planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
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561 height="19.1328125" modelName="internal" modelPosition="c" |
4f3585e2f14b
"planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
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562 textColor="#000000" visible="true" width="12.27099609375" |
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563 x="8.864501953125" y="5.43359375">2</y:NodeLabel> |
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564 <y:Shape type="rectangle"/> |
4f3585e2f14b
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|
565 </y:ShapeNode> |
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|
566 </data> |
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567 </node> |
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"planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
shellac
parents:
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|
568 <edge id="e0" source="n0" target="n1"> |
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shellac
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|
569 <data key="d7"> |
4f3585e2f14b
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|
570 <y:PolyLineEdge> |
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"planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
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571 <y:Path sx="0.0" sy="0.0" tx="0.0" ty="0.0"/> |
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"planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
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572 <y:LineStyle color="#000000" type="line" width="1.0"/> |
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"planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
shellac
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573 <y:Arrows source="none" target="standard"/> |
4f3585e2f14b
"planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
shellac
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574 <y:BendStyle smoothed="false"/> |
4f3585e2f14b
"planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
shellac
parents:
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575 </y:PolyLineEdge> |
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"planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
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576 </data> |
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shellac
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|
577 </edge> |
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parents:
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|
578 </graph> |
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"planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
shellac
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|
579 <data key="d0"> |
4f3585e2f14b
"planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
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parents:
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|
580 <y:Resources/> |
4f3585e2f14b
"planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
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parents:
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changeset
|
581 </data> |
4f3585e2f14b
"planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
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parents:
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|
582 </graphml> |
4f3585e2f14b
"planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
shellac
parents:
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583 """ |
4f3585e2f14b
"planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
shellac
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584 fh = io.BytesIO(data.encode("UTF-8")) |
4f3585e2f14b
"planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
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|
585 G = nx.read_graphml(fh, force_multigraph=True) |
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"planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
shellac
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|
586 assert list(G.edges()) == [("n0", "n1")] |
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shellac
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|
587 assert G.has_edge("n0", "n1", key="e0") |
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"planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
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changeset
|
588 assert G.nodes["n0"]["label"] == "1" |
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"planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
shellac
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589 assert G.nodes["n1"]["label"] == "2" |
4f3585e2f14b
"planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
shellac
parents:
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590 fh.seek(0) |
4f3585e2f14b
"planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
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591 G = nx.read_graphml(fh) |
4f3585e2f14b
"planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
shellac
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|
592 assert list(G.edges()) == [("n0", "n1")] |
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"planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
shellac
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593 assert G["n0"]["n1"]["id"] == "e0" |
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594 assert G.nodes["n0"]["label"] == "1" |
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|
595 assert G.nodes["n1"]["label"] == "2" |
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parents:
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|
596 |
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parents:
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597 H = nx.parse_graphml(data, force_multigraph=True) |
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"planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
shellac
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598 assert list(H.edges()) == [("n0", "n1")] |
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shellac
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|
599 assert H.has_edge("n0", "n1", key="e0") |
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"planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
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|
600 assert H.nodes["n0"]["label"] == "1" |
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"planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
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|
601 assert H.nodes["n1"]["label"] == "2" |
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"planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
shellac
parents:
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|
602 |
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"planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
shellac
parents:
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603 H = nx.parse_graphml(data) |
4f3585e2f14b
"planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
shellac
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changeset
|
604 assert list(H.edges()) == [("n0", "n1")] |
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"planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
shellac
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|
605 assert H["n0"]["n1"]["id"] == "e0" |
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"planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
shellac
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changeset
|
606 assert H.nodes["n0"]["label"] == "1" |
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"planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
shellac
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changeset
|
607 assert H.nodes["n1"]["label"] == "2" |
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"planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
shellac
parents:
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|
608 |
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"planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
shellac
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609 def test_bool(self): |
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"planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
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610 s = """<?xml version="1.0" encoding="UTF-8"?> |
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"planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
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611 <graphml xmlns="http://graphml.graphdrawing.org/xmlns" |
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"planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
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|
612 xmlns:xsi="http://www.w3.org/2001/XMLSchema-instance" |
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613 xsi:schemaLocation="http://graphml.graphdrawing.org/xmlns |
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"planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
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614 http://graphml.graphdrawing.org/xmlns/1.0/graphml.xsd"> |
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"planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
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parents:
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|
615 <key id="d0" for="node" attr.name="test" attr.type="boolean"> |
4f3585e2f14b
"planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
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|
616 <default>false</default> |
4f3585e2f14b
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|
617 </key> |
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parents:
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618 <graph id="G" edgedefault="directed"> |
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"planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
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|
619 <node id="n0"> |
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620 <data key="d0">true</data> |
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621 </node> |
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622 <node id="n1"/> |
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parents:
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|
623 <node id="n2"> |
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"planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
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624 <data key="d0">false</data> |
4f3585e2f14b
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parents:
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changeset
|
625 </node> |
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changeset
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626 <node id="n3"> |
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"planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
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parents:
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|
627 <data key="d0">FaLsE</data> |
4f3585e2f14b
"planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
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parents:
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changeset
|
628 </node> |
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629 <node id="n4"> |
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630 <data key="d0">True</data> |
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parents:
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changeset
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631 </node> |
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"planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
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|
632 <node id="n5"> |
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"planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
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parents:
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changeset
|
633 <data key="d0">0</data> |
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parents:
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634 </node> |
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635 <node id="n6"> |
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"planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
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parents:
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|
636 <data key="d0">1</data> |
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637 </node> |
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638 </graph> |
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639 </graphml> |
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640 """ |
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641 fh = io.BytesIO(s.encode("UTF-8")) |
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642 G = nx.read_graphml(fh) |
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643 H = nx.parse_graphml(s) |
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644 for graph in [G, H]: |
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645 assert graph.nodes["n0"]["test"] |
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646 assert not graph.nodes["n2"]["test"] |
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647 assert not graph.nodes["n3"]["test"] |
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648 assert graph.nodes["n4"]["test"] |
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649 assert not graph.nodes["n5"]["test"] |
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650 assert graph.nodes["n6"]["test"] |
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651 |
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652 def test_graphml_header_line(self): |
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653 good = """<?xml version="1.0" encoding="UTF-8" standalone="no"?> |
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654 <graphml xmlns="http://graphml.graphdrawing.org/xmlns" |
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655 xmlns:xsi="http://www.w3.org/2001/XMLSchema-instance" |
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656 xsi:schemaLocation="http://graphml.graphdrawing.org/xmlns |
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657 http://graphml.graphdrawing.org/xmlns/1.0/graphml.xsd"> |
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658 <key id="d0" for="node" attr.name="test" attr.type="boolean"> |
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659 <default>false</default> |
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660 </key> |
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661 <graph id="G"> |
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662 <node id="n0"> |
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663 <data key="d0">true</data> |
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664 </node> |
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665 </graph> |
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666 </graphml> |
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667 """ |
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668 bad = """<?xml version="1.0" encoding="UTF-8" standalone="no"?> |
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669 <graphml> |
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670 <key id="d0" for="node" attr.name="test" attr.type="boolean"> |
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671 <default>false</default> |
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672 </key> |
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673 <graph id="G"> |
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674 <node id="n0"> |
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675 <data key="d0">true</data> |
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676 </node> |
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677 </graph> |
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678 </graphml> |
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679 """ |
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680 ugly = """<?xml version="1.0" encoding="UTF-8" standalone="no"?> |
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681 <graphml xmlns="https://ghghgh"> |
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682 <key id="d0" for="node" attr.name="test" attr.type="boolean"> |
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683 <default>false</default> |
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684 </key> |
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685 <graph id="G"> |
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686 <node id="n0"> |
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687 <data key="d0">true</data> |
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688 </node> |
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689 </graph> |
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690 </graphml> |
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691 """ |
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692 for s in (good, bad): |
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693 fh = io.BytesIO(s.encode("UTF-8")) |
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694 G = nx.read_graphml(fh) |
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695 H = nx.parse_graphml(s) |
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696 for graph in [G, H]: |
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697 assert graph.nodes["n0"]["test"] |
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698 |
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699 fh = io.BytesIO(ugly.encode("UTF-8")) |
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700 pytest.raises(nx.NetworkXError, nx.read_graphml, fh) |
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701 pytest.raises(nx.NetworkXError, nx.parse_graphml, ugly) |
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702 |
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703 def test_read_attributes_with_groups(self): |
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704 data = """\ |
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705 <?xml version="1.0" encoding="UTF-8" standalone="no"?> |
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706 <graphml xmlns="http://graphml.graphdrawing.org/xmlns" xmlns:java="http://www.yworks.com/xml/yfiles-common/1.0/java" xmlns:sys="http://www.yworks.com/xml/yfiles-common/markup/primitives/2.0" xmlns:x="http://www.yworks.com/xml/yfiles-common/markup/2.0" xmlns:xsi="http://www.w3.org/2001/XMLSchema-instance" xmlns:y="http://www.yworks.com/xml/graphml" xmlns:yed="http://www.yworks.com/xml/yed/3" xsi:schemaLocation="http://graphml.graphdrawing.org/xmlns http://www.yworks.com/xml/schema/graphml/1.1/ygraphml.xsd"> |
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707 <!--Created by yEd 3.17--> |
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708 <key attr.name="Description" attr.type="string" for="graph" id="d0"/> |
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709 <key for="port" id="d1" yfiles.type="portgraphics"/> |
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710 <key for="port" id="d2" yfiles.type="portgeometry"/> |
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711 <key for="port" id="d3" yfiles.type="portuserdata"/> |
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712 <key attr.name="CustomProperty" attr.type="string" for="node" id="d4"> |
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713 <default/> |
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714 </key> |
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715 <key attr.name="url" attr.type="string" for="node" id="d5"/> |
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716 <key attr.name="description" attr.type="string" for="node" id="d6"/> |
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717 <key for="node" id="d7" yfiles.type="nodegraphics"/> |
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718 <key for="graphml" id="d8" yfiles.type="resources"/> |
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719 <key attr.name="url" attr.type="string" for="edge" id="d9"/> |
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720 <key attr.name="description" attr.type="string" for="edge" id="d10"/> |
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721 <key for="edge" id="d11" yfiles.type="edgegraphics"/> |
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722 <graph edgedefault="directed" id="G"> |
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723 <data key="d0"/> |
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724 <node id="n0"> |
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725 <data key="d4"><![CDATA[CustomPropertyValue]]></data> |
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726 <data key="d6"/> |
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727 <data key="d7"> |
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728 <y:ShapeNode> |
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729 <y:Geometry height="30.0" width="30.0" x="125.0" y="-255.4611111111111"/> |
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730 <y:Fill color="#FFCC00" transparent="false"/> |
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731 <y:BorderStyle color="#000000" raised="false" type="line" width="1.0"/> |
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732 <y:NodeLabel alignment="center" autoSizePolicy="content" fontFamily="Dialog" fontSize="12" fontStyle="plain" hasBackgroundColor="false" hasLineColor="false" height="17.96875" horizontalTextPosition="center" iconTextGap="4" modelName="custom" textColor="#000000" verticalTextPosition="bottom" visible="true" width="11.634765625" x="9.1826171875" y="6.015625">2<y:LabelModel> |
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733 <y:SmartNodeLabelModel distance="4.0"/> |
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734 </y:LabelModel> |
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735 <y:ModelParameter> |
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736 <y:SmartNodeLabelModelParameter labelRatioX="0.0" labelRatioY="0.0" nodeRatioX="0.0" nodeRatioY="0.0" offsetX="0.0" offsetY="0.0" upX="0.0" upY="-1.0"/> |
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737 </y:ModelParameter> |
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738 </y:NodeLabel> |
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739 <y:Shape type="rectangle"/> |
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740 </y:ShapeNode> |
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741 </data> |
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742 </node> |
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743 <node id="n1" yfiles.foldertype="group"> |
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744 <data key="d4"><![CDATA[CustomPropertyValue]]></data> |
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745 <data key="d5"/> |
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746 <data key="d6"/> |
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747 <data key="d7"> |
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748 <y:ProxyAutoBoundsNode> |
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749 <y:Realizers active="0"> |
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750 <y:GroupNode> |
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751 <y:Geometry height="250.38333333333333" width="140.0" x="-30.0" y="-330.3833333333333"/> |
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752 <y:Fill color="#F5F5F5" transparent="false"/> |
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753 <y:BorderStyle color="#000000" type="dashed" width="1.0"/> |
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754 <y:NodeLabel alignment="right" autoSizePolicy="node_width" backgroundColor="#EBEBEB" borderDistance="0.0" fontFamily="Dialog" fontSize="15" fontStyle="plain" hasLineColor="false" height="21.4609375" horizontalTextPosition="center" iconTextGap="4" modelName="internal" modelPosition="t" textColor="#000000" verticalTextPosition="bottom" visible="true" width="140.0" x="0.0" y="0.0">Group 3</y:NodeLabel> |
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755 <y:Shape type="roundrectangle"/> |
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756 <y:State closed="false" closedHeight="50.0" closedWidth="50.0" innerGraphDisplayEnabled="false"/> |
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757 <y:Insets bottom="15" bottomF="15.0" left="15" leftF="15.0" right="15" rightF="15.0" top="15" topF="15.0"/> |
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758 <y:BorderInsets bottom="1" bottomF="1.0" left="0" leftF="0.0" right="0" rightF="0.0" top="1" topF="1.0001736111111086"/> |
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|
759 </y:GroupNode> |
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760 <y:GroupNode> |
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761 <y:Geometry height="50.0" width="50.0" x="0.0" y="60.0"/> |
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762 <y:Fill color="#F5F5F5" transparent="false"/> |
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763 <y:BorderStyle color="#000000" type="dashed" width="1.0"/> |
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764 <y:NodeLabel alignment="right" autoSizePolicy="node_width" backgroundColor="#EBEBEB" borderDistance="0.0" fontFamily="Dialog" fontSize="15" fontStyle="plain" hasLineColor="false" height="21.4609375" horizontalTextPosition="center" iconTextGap="4" modelName="internal" modelPosition="t" textColor="#000000" verticalTextPosition="bottom" visible="true" width="65.201171875" x="-7.6005859375" y="0.0">Folder 3</y:NodeLabel> |
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765 <y:Shape type="roundrectangle"/> |
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766 <y:State closed="true" closedHeight="50.0" closedWidth="50.0" innerGraphDisplayEnabled="false"/> |
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767 <y:Insets bottom="5" bottomF="5.0" left="5" leftF="5.0" right="5" rightF="5.0" top="5" topF="5.0"/> |
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768 <y:BorderInsets bottom="0" bottomF="0.0" left="0" leftF="0.0" right="0" rightF="0.0" top="0" topF="0.0"/> |
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769 </y:GroupNode> |
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770 </y:Realizers> |
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771 </y:ProxyAutoBoundsNode> |
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772 </data> |
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773 <graph edgedefault="directed" id="n1:"> |
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774 <node id="n1::n0" yfiles.foldertype="group"> |
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775 <data key="d4"><![CDATA[CustomPropertyValue]]></data> |
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776 <data key="d5"/> |
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777 <data key="d6"/> |
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778 <data key="d7"> |
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|
779 <y:ProxyAutoBoundsNode> |
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780 <y:Realizers active="0"> |
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781 <y:GroupNode> |
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|
782 <y:Geometry height="83.46111111111111" width="110.0" x="-15.0" y="-292.9222222222222"/> |
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|
783 <y:Fill color="#F5F5F5" transparent="false"/> |
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|
784 <y:BorderStyle color="#000000" type="dashed" width="1.0"/> |
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|
785 <y:NodeLabel alignment="right" autoSizePolicy="node_width" backgroundColor="#EBEBEB" borderDistance="0.0" fontFamily="Dialog" fontSize="15" fontStyle="plain" hasLineColor="false" height="21.4609375" horizontalTextPosition="center" iconTextGap="4" modelName="internal" modelPosition="t" textColor="#000000" verticalTextPosition="bottom" visible="true" width="110.0" x="0.0" y="0.0">Group 1</y:NodeLabel> |
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786 <y:Shape type="roundrectangle"/> |
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787 <y:State closed="false" closedHeight="50.0" closedWidth="50.0" innerGraphDisplayEnabled="false"/> |
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788 <y:Insets bottom="15" bottomF="15.0" left="15" leftF="15.0" right="15" rightF="15.0" top="15" topF="15.0"/> |
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789 <y:BorderInsets bottom="1" bottomF="1.0" left="0" leftF="0.0" right="0" rightF="0.0" top="1" topF="1.0001736111111086"/> |
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|
790 </y:GroupNode> |
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|
791 <y:GroupNode> |
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|
792 <y:Geometry height="50.0" width="50.0" x="0.0" y="60.0"/> |
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|
793 <y:Fill color="#F5F5F5" transparent="false"/> |
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|
794 <y:BorderStyle color="#000000" type="dashed" width="1.0"/> |
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|
795 <y:NodeLabel alignment="right" autoSizePolicy="node_width" backgroundColor="#EBEBEB" borderDistance="0.0" fontFamily="Dialog" fontSize="15" fontStyle="plain" hasLineColor="false" height="21.4609375" horizontalTextPosition="center" iconTextGap="4" modelName="internal" modelPosition="t" textColor="#000000" verticalTextPosition="bottom" visible="true" width="65.201171875" x="-7.6005859375" y="0.0">Folder 1</y:NodeLabel> |
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|
796 <y:Shape type="roundrectangle"/> |
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|
797 <y:State closed="true" closedHeight="50.0" closedWidth="50.0" innerGraphDisplayEnabled="false"/> |
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|
798 <y:Insets bottom="5" bottomF="5.0" left="5" leftF="5.0" right="5" rightF="5.0" top="5" topF="5.0"/> |
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|
799 <y:BorderInsets bottom="0" bottomF="0.0" left="0" leftF="0.0" right="0" rightF="0.0" top="0" topF="0.0"/> |
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|
800 </y:GroupNode> |
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|
801 </y:Realizers> |
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|
802 </y:ProxyAutoBoundsNode> |
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|
803 </data> |
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|
804 <graph edgedefault="directed" id="n1::n0:"> |
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|
805 <node id="n1::n0::n0"> |
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|
806 <data key="d4"><![CDATA[CustomPropertyValue]]></data> |
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|
807 <data key="d6"/> |
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|
808 <data key="d7"> |
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809 <y:ShapeNode> |
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|
810 <y:Geometry height="30.0" width="30.0" x="50.0" y="-255.4611111111111"/> |
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|
811 <y:Fill color="#FFCC00" transparent="false"/> |
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812 <y:BorderStyle color="#000000" raised="false" type="line" width="1.0"/> |
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|
813 <y:NodeLabel alignment="center" autoSizePolicy="content" fontFamily="Dialog" fontSize="12" fontStyle="plain" hasBackgroundColor="false" hasLineColor="false" height="17.96875" horizontalTextPosition="center" iconTextGap="4" modelName="custom" textColor="#000000" verticalTextPosition="bottom" visible="true" width="11.634765625" x="9.1826171875" y="6.015625">1<y:LabelModel> |
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814 <y:SmartNodeLabelModel distance="4.0"/> |
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815 </y:LabelModel> |
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816 <y:ModelParameter> |
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817 <y:SmartNodeLabelModelParameter labelRatioX="0.0" labelRatioY="0.0" nodeRatioX="0.0" nodeRatioY="0.0" offsetX="0.0" offsetY="0.0" upX="0.0" upY="-1.0"/> |
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818 </y:ModelParameter> |
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819 </y:NodeLabel> |
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820 <y:Shape type="rectangle"/> |
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821 </y:ShapeNode> |
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822 </data> |
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823 </node> |
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824 <node id="n1::n0::n1"> |
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825 <data key="d4"><![CDATA[CustomPropertyValue]]></data> |
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|
826 <data key="d6"/> |
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827 <data key="d7"> |
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|
828 <y:ShapeNode> |
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|
829 <y:Geometry height="30.0" width="30.0" x="0.0" y="-255.4611111111111"/> |
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|
830 <y:Fill color="#FFCC00" transparent="false"/> |
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831 <y:BorderStyle color="#000000" raised="false" type="line" width="1.0"/> |
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|
832 <y:NodeLabel alignment="center" autoSizePolicy="content" fontFamily="Dialog" fontSize="12" fontStyle="plain" hasBackgroundColor="false" hasLineColor="false" height="17.96875" horizontalTextPosition="center" iconTextGap="4" modelName="custom" textColor="#000000" verticalTextPosition="bottom" visible="true" width="11.634765625" x="9.1826171875" y="6.015625">3<y:LabelModel> |
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833 <y:SmartNodeLabelModel distance="4.0"/> |
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834 </y:LabelModel> |
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835 <y:ModelParameter> |
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836 <y:SmartNodeLabelModelParameter labelRatioX="0.0" labelRatioY="0.0" nodeRatioX="0.0" nodeRatioY="0.0" offsetX="0.0" offsetY="0.0" upX="0.0" upY="-1.0"/> |
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837 </y:ModelParameter> |
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838 </y:NodeLabel> |
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839 <y:Shape type="rectangle"/> |
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840 </y:ShapeNode> |
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841 </data> |
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842 </node> |
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843 </graph> |
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844 </node> |
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845 <node id="n1::n1" yfiles.foldertype="group"> |
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846 <data key="d4"><![CDATA[CustomPropertyValue]]></data> |
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847 <data key="d5"/> |
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848 <data key="d6"/> |
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849 <data key="d7"> |
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850 <y:ProxyAutoBoundsNode> |
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851 <y:Realizers active="0"> |
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852 <y:GroupNode> |
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853 <y:Geometry height="83.46111111111111" width="110.0" x="-15.0" y="-179.4611111111111"/> |
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854 <y:Fill color="#F5F5F5" transparent="false"/> |
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855 <y:BorderStyle color="#000000" type="dashed" width="1.0"/> |
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856 <y:NodeLabel alignment="right" autoSizePolicy="node_width" backgroundColor="#EBEBEB" borderDistance="0.0" fontFamily="Dialog" fontSize="15" fontStyle="plain" hasLineColor="false" height="21.4609375" horizontalTextPosition="center" iconTextGap="4" modelName="internal" modelPosition="t" textColor="#000000" verticalTextPosition="bottom" visible="true" width="110.0" x="0.0" y="0.0">Group 2</y:NodeLabel> |
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857 <y:Shape type="roundrectangle"/> |
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858 <y:State closed="false" closedHeight="50.0" closedWidth="50.0" innerGraphDisplayEnabled="false"/> |
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859 <y:Insets bottom="15" bottomF="15.0" left="15" leftF="15.0" right="15" rightF="15.0" top="15" topF="15.0"/> |
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860 <y:BorderInsets bottom="1" bottomF="1.0" left="0" leftF="0.0" right="0" rightF="0.0" top="1" topF="1.0001736111111086"/> |
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861 </y:GroupNode> |
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862 <y:GroupNode> |
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863 <y:Geometry height="50.0" width="50.0" x="0.0" y="60.0"/> |
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864 <y:Fill color="#F5F5F5" transparent="false"/> |
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865 <y:BorderStyle color="#000000" type="dashed" width="1.0"/> |
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866 <y:NodeLabel alignment="right" autoSizePolicy="node_width" backgroundColor="#EBEBEB" borderDistance="0.0" fontFamily="Dialog" fontSize="15" fontStyle="plain" hasLineColor="false" height="21.4609375" horizontalTextPosition="center" iconTextGap="4" modelName="internal" modelPosition="t" textColor="#000000" verticalTextPosition="bottom" visible="true" width="65.201171875" x="-7.6005859375" y="0.0">Folder 2</y:NodeLabel> |
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867 <y:Shape type="roundrectangle"/> |
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868 <y:State closed="true" closedHeight="50.0" closedWidth="50.0" innerGraphDisplayEnabled="false"/> |
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869 <y:Insets bottom="5" bottomF="5.0" left="5" leftF="5.0" right="5" rightF="5.0" top="5" topF="5.0"/> |
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870 <y:BorderInsets bottom="0" bottomF="0.0" left="0" leftF="0.0" right="0" rightF="0.0" top="0" topF="0.0"/> |
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871 </y:GroupNode> |
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872 </y:Realizers> |
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873 </y:ProxyAutoBoundsNode> |
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874 </data> |
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875 <graph edgedefault="directed" id="n1::n1:"> |
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876 <node id="n1::n1::n0"> |
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877 <data key="d4"><![CDATA[CustomPropertyValue]]></data> |
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|
878 <data key="d6"/> |
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879 <data key="d7"> |
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880 <y:ShapeNode> |
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881 <y:Geometry height="30.0" width="30.0" x="0.0" y="-142.0"/> |
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|
882 <y:Fill color="#FFCC00" transparent="false"/> |
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883 <y:BorderStyle color="#000000" raised="false" type="line" width="1.0"/> |
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884 <y:NodeLabel alignment="center" autoSizePolicy="content" fontFamily="Dialog" fontSize="12" fontStyle="plain" hasBackgroundColor="false" hasLineColor="false" height="17.96875" horizontalTextPosition="center" iconTextGap="4" modelName="custom" textColor="#000000" verticalTextPosition="bottom" visible="true" width="11.634765625" x="9.1826171875" y="6.015625">5<y:LabelModel> |
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885 <y:SmartNodeLabelModel distance="4.0"/> |
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886 </y:LabelModel> |
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887 <y:ModelParameter> |
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888 <y:SmartNodeLabelModelParameter labelRatioX="0.0" labelRatioY="0.0" nodeRatioX="0.0" nodeRatioY="0.0" offsetX="0.0" offsetY="0.0" upX="0.0" upY="-1.0"/> |
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889 </y:ModelParameter> |
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890 </y:NodeLabel> |
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891 <y:Shape type="rectangle"/> |
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892 </y:ShapeNode> |
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893 </data> |
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894 </node> |
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895 <node id="n1::n1::n1"> |
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896 <data key="d4"><![CDATA[CustomPropertyValue]]></data> |
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897 <data key="d6"/> |
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898 <data key="d7"> |
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899 <y:ShapeNode> |
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900 <y:Geometry height="30.0" width="30.0" x="50.0" y="-142.0"/> |
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901 <y:Fill color="#FFCC00" transparent="false"/> |
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902 <y:BorderStyle color="#000000" raised="false" type="line" width="1.0"/> |
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903 <y:NodeLabel alignment="center" autoSizePolicy="content" fontFamily="Dialog" fontSize="12" fontStyle="plain" hasBackgroundColor="false" hasLineColor="false" height="17.96875" horizontalTextPosition="center" iconTextGap="4" modelName="custom" textColor="#000000" verticalTextPosition="bottom" visible="true" width="11.634765625" x="9.1826171875" y="6.015625">6<y:LabelModel> |
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904 <y:SmartNodeLabelModel distance="4.0"/> |
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905 </y:LabelModel> |
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906 <y:ModelParameter> |
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907 <y:SmartNodeLabelModelParameter labelRatioX="0.0" labelRatioY="0.0" nodeRatioX="0.0" nodeRatioY="0.0" offsetX="0.0" offsetY="0.0" upX="0.0" upY="-1.0"/> |
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908 </y:ModelParameter> |
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909 </y:NodeLabel> |
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910 <y:Shape type="rectangle"/> |
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911 </y:ShapeNode> |
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912 </data> |
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913 </node> |
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914 </graph> |
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915 </node> |
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916 </graph> |
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917 </node> |
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918 <node id="n2"> |
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919 <data key="d4"><![CDATA[CustomPropertyValue]]></data> |
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920 <data key="d6"/> |
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921 <data key="d7"> |
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922 <y:ShapeNode> |
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923 <y:Geometry height="30.0" width="30.0" x="125.0" y="-142.0"/> |
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924 <y:Fill color="#FFCC00" transparent="false"/> |
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925 <y:BorderStyle color="#000000" raised="false" type="line" width="1.0"/> |
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926 <y:NodeLabel alignment="center" autoSizePolicy="content" fontFamily="Dialog" fontSize="12" fontStyle="plain" hasBackgroundColor="false" hasLineColor="false" height="17.96875" horizontalTextPosition="center" iconTextGap="4" modelName="custom" textColor="#000000" verticalTextPosition="bottom" visible="true" width="11.634765625" x="9.1826171875" y="6.015625">9<y:LabelModel> |
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927 <y:SmartNodeLabelModel distance="4.0"/> |
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|
928 </y:LabelModel> |
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929 <y:ModelParameter> |
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930 <y:SmartNodeLabelModelParameter labelRatioX="0.0" labelRatioY="0.0" nodeRatioX="0.0" nodeRatioY="0.0" offsetX="0.0" offsetY="0.0" upX="0.0" upY="-1.0"/> |
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931 </y:ModelParameter> |
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932 </y:NodeLabel> |
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|
933 <y:Shape type="rectangle"/> |
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934 </y:ShapeNode> |
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935 </data> |
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936 </node> |
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937 <edge id="n1::n1::e0" source="n1::n1::n0" target="n1::n1::n1"> |
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938 <data key="d10"/> |
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939 <data key="d11"> |
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940 <y:PolyLineEdge> |
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941 <y:Path sx="15.0" sy="-0.0" tx="-15.0" ty="-0.0"/> |
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942 <y:LineStyle color="#000000" type="line" width="1.0"/> |
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943 <y:Arrows source="none" target="standard"/> |
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944 <y:BendStyle smoothed="false"/> |
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945 </y:PolyLineEdge> |
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946 </data> |
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947 </edge> |
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948 <edge id="n1::n0::e0" source="n1::n0::n1" target="n1::n0::n0"> |
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949 <data key="d10"/> |
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950 <data key="d11"> |
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951 <y:PolyLineEdge> |
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952 <y:Path sx="15.0" sy="-0.0" tx="-15.0" ty="-0.0"/> |
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953 <y:LineStyle color="#000000" type="line" width="1.0"/> |
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954 <y:Arrows source="none" target="standard"/> |
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955 <y:BendStyle smoothed="false"/> |
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956 </y:PolyLineEdge> |
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957 </data> |
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958 </edge> |
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959 <edge id="e0" source="n1::n0::n0" target="n0"> |
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960 <data key="d10"/> |
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961 <data key="d11"> |
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962 <y:PolyLineEdge> |
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963 <y:Path sx="15.0" sy="-0.0" tx="-15.0" ty="-0.0"/> |
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964 <y:LineStyle color="#000000" type="line" width="1.0"/> |
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965 <y:Arrows source="none" target="standard"/> |
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966 <y:BendStyle smoothed="false"/> |
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967 </y:PolyLineEdge> |
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968 </data> |
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969 </edge> |
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970 <edge id="e1" source="n1::n1::n1" target="n2"> |
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971 <data key="d10"/> |
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972 <data key="d11"> |
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973 <y:PolyLineEdge> |
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974 <y:Path sx="15.0" sy="-0.0" tx="-15.0" ty="-0.0"/> |
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975 <y:LineStyle color="#000000" type="line" width="1.0"/> |
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976 <y:Arrows source="none" target="standard"/> |
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977 <y:BendStyle smoothed="false"/> |
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978 </y:PolyLineEdge> |
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979 </data> |
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980 </edge> |
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981 </graph> |
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982 <data key="d8"> |
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983 <y:Resources/> |
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984 </data> |
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985 </graphml> |
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986 """ |
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987 # verify that nodes / attributes are correctly read when part of a group |
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988 fh = io.BytesIO(data.encode("UTF-8")) |
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989 G = nx.read_graphml(fh) |
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990 data = [x for _, x in G.nodes(data=True)] |
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991 assert len(data) == 9 |
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992 for node_data in data: |
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993 assert node_data["CustomProperty"] != "" |
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994 |
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995 |
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996 class TestWriteGraphML(BaseGraphML): |
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997 writer = staticmethod(nx.write_graphml_lxml) |
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998 |
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999 @classmethod |
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1000 def setup_class(cls): |
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1001 BaseGraphML.setup_class() |
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1002 _ = pytest.importorskip("lxml.etree") |
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1003 |
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1004 def test_write_interface(self): |
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1005 try: |
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1006 import lxml.etree |
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1007 |
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1008 assert nx.write_graphml == nx.write_graphml_lxml |
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1009 except ImportError: |
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1010 assert nx.write_graphml == nx.write_graphml_xml |
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1011 |
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1012 def test_write_read_simple_directed_graphml(self): |
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1013 G = self.simple_directed_graph |
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1014 G.graph["hi"] = "there" |
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1015 fh = io.BytesIO() |
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1016 self.writer(G, fh) |
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1017 fh.seek(0) |
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1018 H = nx.read_graphml(fh) |
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1019 assert sorted(G.nodes()) == sorted(H.nodes()) |
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1020 assert sorted(G.edges()) == sorted(H.edges()) |
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1021 assert sorted(G.edges(data=True)) == sorted(H.edges(data=True)) |
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1022 self.simple_directed_fh.seek(0) |
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1023 |
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1024 def test_write_read_attribute_named_key_ids_graphml(self): |
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1025 from xml.etree.ElementTree import parse |
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1026 |
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1027 G = self.attribute_named_key_ids_graph |
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1028 fh = io.BytesIO() |
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1029 self.writer(G, fh, named_key_ids=True) |
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1030 fh.seek(0) |
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1031 H = nx.read_graphml(fh) |
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1032 fh.seek(0) |
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1033 |
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1034 assert_nodes_equal(G.nodes(), H.nodes()) |
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1035 assert_edges_equal(G.edges(), H.edges()) |
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1036 assert_edges_equal(G.edges(data=True), H.edges(data=True)) |
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1037 self.attribute_named_key_ids_fh.seek(0) |
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1038 |
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1039 xml = parse(fh) |
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1040 # Children are the key elements, and the graph element |
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1041 children = list(xml.getroot()) |
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1042 assert len(children) == 4 |
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1043 |
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1044 keys = [child.items() for child in children[:3]] |
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1045 |
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1046 assert len(keys) == 3 |
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1047 assert ("id", "edge_prop") in keys[0] |
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1048 assert ("attr.name", "edge_prop") in keys[0] |
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1049 assert ("id", "prop2") in keys[1] |
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1050 assert ("attr.name", "prop2") in keys[1] |
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1051 assert ("id", "prop1") in keys[2] |
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1052 assert ("attr.name", "prop1") in keys[2] |
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1053 |
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1054 # Confirm the read graph nodes/edge are identical when compared to |
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1055 # default writing behavior. |
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1056 default_behavior_fh = io.BytesIO() |
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1057 nx.write_graphml(G, default_behavior_fh) |
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1058 default_behavior_fh.seek(0) |
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1059 H = nx.read_graphml(default_behavior_fh) |
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1060 |
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1061 named_key_ids_behavior_fh = io.BytesIO() |
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1062 nx.write_graphml(G, named_key_ids_behavior_fh, named_key_ids=True) |
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1063 named_key_ids_behavior_fh.seek(0) |
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1064 J = nx.read_graphml(named_key_ids_behavior_fh) |
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1065 |
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1066 assert all(n1 == n2 for (n1, n2) in zip(H.nodes, J.nodes)) |
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1067 assert all(e1 == e2 for (e1, e2) in zip(H.edges, J.edges)) |
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1068 |
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1069 def test_write_read_attribute_numeric_type_graphml(self): |
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1070 from xml.etree.ElementTree import parse |
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1071 |
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1072 G = self.attribute_numeric_type_graph |
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1073 fh = io.BytesIO() |
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1074 self.writer(G, fh, infer_numeric_types=True) |
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1075 fh.seek(0) |
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1076 H = nx.read_graphml(fh) |
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1077 fh.seek(0) |
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1078 |
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1079 assert_nodes_equal(G.nodes(), H.nodes()) |
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1080 assert_edges_equal(G.edges(), H.edges()) |
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1081 assert_edges_equal(G.edges(data=True), H.edges(data=True)) |
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1082 self.attribute_numeric_type_fh.seek(0) |
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1083 |
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1084 xml = parse(fh) |
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1085 # Children are the key elements, and the graph element |
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1086 children = list(xml.getroot()) |
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1087 assert len(children) == 3 |
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1088 |
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1089 keys = [child.items() for child in children[:2]] |
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1090 |
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1091 assert len(keys) == 2 |
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1092 assert ("attr.type", "double") in keys[0] |
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1093 assert ("attr.type", "double") in keys[1] |
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1094 |
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1095 def test_more_multigraph_keys(self): |
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1096 """Writing keys as edge id attributes means keys become strings. |
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1097 The original keys are stored as data, so read them back in |
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1098 if `str(key) == edge_id` |
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1099 This allows the adjacency to remain the same. |
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1100 """ |
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1101 G = nx.MultiGraph() |
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1102 G.add_edges_from([("a", "b", 2), ("a", "b", 3)]) |
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1103 fd, fname = tempfile.mkstemp() |
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1104 self.writer(G, fname) |
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1105 H = nx.read_graphml(fname) |
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1106 assert H.is_multigraph() |
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1107 assert_edges_equal(G.edges(keys=True), H.edges(keys=True)) |
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1108 assert G._adj == H._adj |
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1109 os.close(fd) |
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1110 os.unlink(fname) |
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1111 |
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1112 def test_default_attribute(self): |
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1113 G = nx.Graph(name="Fred") |
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1114 G.add_node(1, label=1, color="green") |
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1115 nx.add_path(G, [0, 1, 2, 3]) |
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1116 G.add_edge(1, 2, weight=3) |
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1117 G.graph["node_default"] = {"color": "yellow"} |
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1118 G.graph["edge_default"] = {"weight": 7} |
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1119 fh = io.BytesIO() |
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1120 self.writer(G, fh) |
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1121 fh.seek(0) |
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1122 H = nx.read_graphml(fh, node_type=int) |
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1123 assert_nodes_equal(G.nodes(), H.nodes()) |
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1124 assert_edges_equal(G.edges(), H.edges()) |
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1125 assert G.graph == H.graph |
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1126 |
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1127 def test_mixed_type_attributes(self): |
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1128 G = nx.MultiGraph() |
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1129 G.add_node("n0", special=False) |
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1130 G.add_node("n1", special=0) |
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1131 G.add_edge("n0", "n1", special=False) |
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1132 G.add_edge("n0", "n1", special=0) |
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1133 fh = io.BytesIO() |
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1134 self.writer(G, fh) |
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1135 fh.seek(0) |
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1136 H = nx.read_graphml(fh) |
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1137 assert not H.nodes["n0"]["special"] |
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1138 assert H.nodes["n1"]["special"] == 0 |
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1139 assert not H.edges["n0", "n1", 0]["special"] |
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1140 assert H.edges["n0", "n1", 1]["special"] == 0 |
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1141 |
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1142 def test_numpy_float(self): |
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1143 np = pytest.importorskip("numpy") |
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1144 wt = np.float(3.4) |
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1145 G = nx.Graph([(1, 2, {"weight": wt})]) |
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1146 fd, fname = tempfile.mkstemp() |
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1147 self.writer(G, fname) |
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1148 H = nx.read_graphml(fname, node_type=int) |
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1149 assert G._adj == H._adj |
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1150 os.close(fd) |
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1151 os.unlink(fname) |
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1152 |
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1153 def test_multigraph_to_graph(self): |
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1154 # test converting multigraph to graph if no parallel edges found |
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1155 G = nx.MultiGraph() |
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1156 G.add_edges_from([("a", "b", 2), ("b", "c", 3)]) # no multiedges |
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1157 fd, fname = tempfile.mkstemp() |
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1158 self.writer(G, fname) |
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1159 H = nx.read_graphml(fname) |
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1160 assert not H.is_multigraph() |
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1161 H = nx.read_graphml(fname, force_multigraph=True) |
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1162 assert H.is_multigraph() |
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1163 os.close(fd) |
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1164 os.unlink(fname) |
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1165 |
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1166 # add a multiedge |
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1167 G.add_edge("a", "b", "e-id") |
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1168 fd, fname = tempfile.mkstemp() |
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1169 self.writer(G, fname) |
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1170 H = nx.read_graphml(fname) |
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1171 assert H.is_multigraph() |
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1172 H = nx.read_graphml(fname, force_multigraph=True) |
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1173 assert H.is_multigraph() |
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1174 os.close(fd) |
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1175 os.unlink(fname) |
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1176 |
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1177 def test_numpy_float64(self): |
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1178 np = pytest.importorskip("numpy") |
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1179 wt = np.float64(3.4) |
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1180 G = nx.Graph([(1, 2, {"weight": wt})]) |
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1181 fd, fname = tempfile.mkstemp() |
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1182 self.writer(G, fname) |
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1183 H = nx.read_graphml(fname, node_type=int) |
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1184 assert G.edges == H.edges |
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1185 wtG = G[1][2]["weight"] |
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1186 wtH = H[1][2]["weight"] |
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1187 assert almost_equal(wtG, wtH, places=6) |
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1188 assert type(wtG) == np.float64 |
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1189 assert type(wtH) == float |
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1190 os.close(fd) |
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1191 os.unlink(fname) |
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1192 |
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1193 def test_numpy_float32(self): |
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1194 np = pytest.importorskip("numpy") |
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1195 wt = np.float32(3.4) |
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1196 G = nx.Graph([(1, 2, {"weight": wt})]) |
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1197 fd, fname = tempfile.mkstemp() |
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1198 self.writer(G, fname) |
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1199 H = nx.read_graphml(fname, node_type=int) |
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1200 assert G.edges == H.edges |
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1201 wtG = G[1][2]["weight"] |
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1202 wtH = H[1][2]["weight"] |
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1203 assert almost_equal(wtG, wtH, places=6) |
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1204 assert type(wtG) == np.float32 |
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1205 assert type(wtH) == float |
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1206 os.close(fd) |
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1207 os.unlink(fname) |
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1208 |
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1209 def test_numpy_float64_inference(self): |
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1210 np = pytest.importorskip("numpy") |
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1211 G = self.attribute_numeric_type_graph |
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1212 G.edges[("n1", "n1")]["weight"] = np.float64(1.1) |
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1213 fd, fname = tempfile.mkstemp() |
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1214 self.writer(G, fname, infer_numeric_types=True) |
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1215 H = nx.read_graphml(fname) |
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1216 assert G._adj == H._adj |
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1217 os.close(fd) |
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1218 os.unlink(fname) |
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1219 |
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1220 def test_unicode_attributes(self): |
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1221 G = nx.Graph() |
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1222 name1 = chr(2344) + chr(123) + chr(6543) |
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1223 name2 = chr(5543) + chr(1543) + chr(324) |
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1224 node_type = str |
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1225 G.add_edge(name1, "Radiohead", foo=name2) |
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1226 fd, fname = tempfile.mkstemp() |
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1227 self.writer(G, fname) |
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1228 H = nx.read_graphml(fname, node_type=node_type) |
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1229 assert G._adj == H._adj |
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1230 os.close(fd) |
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1231 os.unlink(fname) |
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1232 |
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1233 def test_unicode_escape(self): |
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1234 # test for handling json escaped stings in python 2 Issue #1880 |
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1235 import json |
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1236 |
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1237 a = dict(a='{"a": "123"}') # an object with many chars to escape |
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1238 sa = json.dumps(a) |
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1239 G = nx.Graph() |
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1240 G.graph["test"] = sa |
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1241 fh = io.BytesIO() |
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1242 self.writer(G, fh) |
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1243 fh.seek(0) |
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1244 H = nx.read_graphml(fh) |
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1245 assert G.graph["test"] == H.graph["test"] |
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1246 |
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1247 |
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1248 class TestXMLGraphML(TestWriteGraphML): |
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1249 writer = staticmethod(nx.write_graphml_xml) |
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1250 |
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1251 @classmethod |
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1252 def setup_class(cls): |
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1253 TestWriteGraphML.setup_class() |
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"planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
shellac
parents:
diff
changeset
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1254 pytest.importorskip("xml.etree.ElementTree") |