Mercurial > repos > shellac > sam_consensus_v3
annotate env/lib/python3.9/site-packages/networkx/classes/function.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 """Functional interface to graph methods and assorted utilities. |
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2 """ |
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3 |
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4 from collections import Counter |
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5 from itertools import chain |
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6 |
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7 import networkx as nx |
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8 from networkx.utils import pairwise, not_implemented_for |
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9 from networkx.classes.graphviews import subgraph_view, reverse_view |
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10 |
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11 |
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12 __all__ = [ |
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13 "nodes", |
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14 "edges", |
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15 "degree", |
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16 "degree_histogram", |
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17 "neighbors", |
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18 "number_of_nodes", |
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19 "number_of_edges", |
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20 "density", |
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21 "is_directed", |
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22 "info", |
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23 "freeze", |
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24 "is_frozen", |
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25 "subgraph", |
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26 "subgraph_view", |
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27 "induced_subgraph", |
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28 "reverse_view", |
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29 "edge_subgraph", |
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30 "restricted_view", |
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31 "to_directed", |
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32 "to_undirected", |
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33 "add_star", |
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34 "add_path", |
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35 "add_cycle", |
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36 "create_empty_copy", |
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37 "set_node_attributes", |
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38 "get_node_attributes", |
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39 "set_edge_attributes", |
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40 "get_edge_attributes", |
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41 "all_neighbors", |
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42 "non_neighbors", |
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43 "non_edges", |
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44 "common_neighbors", |
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45 "is_weighted", |
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46 "is_negatively_weighted", |
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47 "is_empty", |
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48 "selfloop_edges", |
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49 "nodes_with_selfloops", |
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50 "number_of_selfloops", |
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51 "path_weight", |
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52 "is_path", |
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53 ] |
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54 |
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55 |
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56 def nodes(G): |
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57 """Returns an iterator over the graph nodes.""" |
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58 return G.nodes() |
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59 |
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60 |
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61 def edges(G, nbunch=None): |
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62 """Returns an edge view of edges incident to nodes in nbunch. |
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63 |
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64 Return all edges if nbunch is unspecified or nbunch=None. |
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65 |
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66 For digraphs, edges=out_edges |
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67 """ |
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68 return G.edges(nbunch) |
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69 |
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70 |
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71 def degree(G, nbunch=None, weight=None): |
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72 """Returns a degree view of single node or of nbunch of nodes. |
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73 If nbunch is omitted, then return degrees of *all* nodes. |
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74 """ |
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75 return G.degree(nbunch, weight) |
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76 |
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77 |
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78 def neighbors(G, n): |
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79 """Returns a list of nodes connected to node n. """ |
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80 return G.neighbors(n) |
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81 |
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82 |
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83 def number_of_nodes(G): |
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84 """Returns the number of nodes in the graph.""" |
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85 return G.number_of_nodes() |
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86 |
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87 |
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88 def number_of_edges(G): |
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89 """Returns the number of edges in the graph. """ |
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90 return G.number_of_edges() |
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91 |
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92 |
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93 def density(G): |
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94 r"""Returns the density of a graph. |
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95 |
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96 The density for undirected graphs is |
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97 |
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98 .. math:: |
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99 |
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100 d = \frac{2m}{n(n-1)}, |
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101 |
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102 and for directed graphs is |
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103 |
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104 .. math:: |
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105 |
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106 d = \frac{m}{n(n-1)}, |
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107 |
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108 where `n` is the number of nodes and `m` is the number of edges in `G`. |
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109 |
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110 Notes |
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111 ----- |
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112 The density is 0 for a graph without edges and 1 for a complete graph. |
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113 The density of multigraphs can be higher than 1. |
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114 |
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115 Self loops are counted in the total number of edges so graphs with self |
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116 loops can have density higher than 1. |
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117 """ |
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118 n = number_of_nodes(G) |
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119 m = number_of_edges(G) |
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120 if m == 0 or n <= 1: |
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121 return 0 |
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122 d = m / (n * (n - 1)) |
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123 if not G.is_directed(): |
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124 d *= 2 |
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125 return d |
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126 |
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127 |
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128 def degree_histogram(G): |
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129 """Returns a list of the frequency of each degree value. |
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130 |
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131 Parameters |
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132 ---------- |
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133 G : Networkx graph |
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134 A graph |
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135 |
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136 Returns |
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137 ------- |
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138 hist : list |
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139 A list of frequencies of degrees. |
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140 The degree values are the index in the list. |
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141 |
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142 Notes |
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143 ----- |
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144 Note: the bins are width one, hence len(list) can be large |
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145 (Order(number_of_edges)) |
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146 """ |
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147 counts = Counter(d for n, d in G.degree()) |
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148 return [counts.get(i, 0) for i in range(max(counts) + 1)] |
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149 |
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150 |
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151 def is_directed(G): |
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152 """ Return True if graph is directed.""" |
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153 return G.is_directed() |
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154 |
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155 |
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156 def frozen(*args, **kwargs): |
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157 """Dummy method for raising errors when trying to modify frozen graphs""" |
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158 raise nx.NetworkXError("Frozen graph can't be modified") |
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159 |
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160 |
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161 def freeze(G): |
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162 """Modify graph to prevent further change by adding or removing |
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163 nodes or edges. |
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164 |
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165 Node and edge data can still be modified. |
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166 |
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167 Parameters |
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168 ---------- |
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169 G : graph |
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170 A NetworkX graph |
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171 |
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172 Examples |
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173 -------- |
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174 >>> G = nx.path_graph(4) |
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175 >>> G = nx.freeze(G) |
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176 >>> try: |
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177 ... G.add_edge(4, 5) |
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178 ... except nx.NetworkXError as e: |
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179 ... print(str(e)) |
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180 Frozen graph can't be modified |
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181 |
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182 Notes |
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183 ----- |
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184 To "unfreeze" a graph you must make a copy by creating a new graph object: |
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185 |
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186 >>> graph = nx.path_graph(4) |
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187 >>> frozen_graph = nx.freeze(graph) |
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188 >>> unfrozen_graph = nx.Graph(frozen_graph) |
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189 >>> nx.is_frozen(unfrozen_graph) |
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190 False |
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191 |
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192 See Also |
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193 -------- |
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194 is_frozen |
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195 """ |
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196 G.add_node = frozen |
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197 G.add_nodes_from = frozen |
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198 G.remove_node = frozen |
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199 G.remove_nodes_from = frozen |
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200 G.add_edge = frozen |
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201 G.add_edges_from = frozen |
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202 G.add_weighted_edges_from = frozen |
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203 G.remove_edge = frozen |
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204 G.remove_edges_from = frozen |
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205 G.clear = frozen |
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206 G.frozen = True |
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207 return G |
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208 |
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209 |
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210 def is_frozen(G): |
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211 """Returns True if graph is frozen. |
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212 |
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213 Parameters |
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214 ---------- |
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215 G : graph |
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216 A NetworkX graph |
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217 |
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218 See Also |
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219 -------- |
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220 freeze |
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221 """ |
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222 try: |
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223 return G.frozen |
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224 except AttributeError: |
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225 return False |
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226 |
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227 |
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228 def add_star(G_to_add_to, nodes_for_star, **attr): |
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229 """Add a star to Graph G_to_add_to. |
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230 |
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231 The first node in `nodes_for_star` is the middle of the star. |
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232 It is connected to all other nodes. |
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233 |
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234 Parameters |
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235 ---------- |
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236 G_to_add_to : graph |
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237 A NetworkX graph |
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238 nodes_for_star : iterable container |
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239 A container of nodes. |
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240 attr : keyword arguments, optional (default= no attributes) |
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241 Attributes to add to every edge in star. |
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242 |
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243 See Also |
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244 -------- |
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245 add_path, add_cycle |
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246 |
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247 Examples |
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248 -------- |
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249 >>> G = nx.Graph() |
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250 >>> nx.add_star(G, [0, 1, 2, 3]) |
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251 >>> nx.add_star(G, [10, 11, 12], weight=2) |
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252 """ |
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253 nlist = iter(nodes_for_star) |
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254 try: |
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255 v = next(nlist) |
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256 except StopIteration: |
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257 return |
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258 G_to_add_to.add_node(v) |
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259 edges = ((v, n) for n in nlist) |
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260 G_to_add_to.add_edges_from(edges, **attr) |
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261 |
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262 |
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263 def add_path(G_to_add_to, nodes_for_path, **attr): |
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264 """Add a path to the Graph G_to_add_to. |
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265 |
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266 Parameters |
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267 ---------- |
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268 G_to_add_to : graph |
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269 A NetworkX graph |
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270 nodes_for_path : iterable container |
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271 A container of nodes. A path will be constructed from |
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272 the nodes (in order) and added to the graph. |
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273 attr : keyword arguments, optional (default= no attributes) |
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274 Attributes to add to every edge in path. |
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275 |
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276 See Also |
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277 -------- |
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278 add_star, add_cycle |
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279 |
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280 Examples |
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281 -------- |
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282 >>> G = nx.Graph() |
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283 >>> nx.add_path(G, [0, 1, 2, 3]) |
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284 >>> nx.add_path(G, [10, 11, 12], weight=7) |
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285 """ |
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286 nlist = iter(nodes_for_path) |
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287 try: |
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288 first_node = next(nlist) |
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289 except StopIteration: |
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290 return |
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291 G_to_add_to.add_node(first_node) |
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292 G_to_add_to.add_edges_from(pairwise(chain((first_node,), nlist)), **attr) |
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293 |
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294 |
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295 def add_cycle(G_to_add_to, nodes_for_cycle, **attr): |
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296 """Add a cycle to the Graph G_to_add_to. |
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297 |
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298 Parameters |
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299 ---------- |
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300 G_to_add_to : graph |
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301 A NetworkX graph |
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302 nodes_for_cycle: iterable container |
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303 A container of nodes. A cycle will be constructed from |
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304 the nodes (in order) and added to the graph. |
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305 attr : keyword arguments, optional (default= no attributes) |
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306 Attributes to add to every edge in cycle. |
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307 |
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308 See Also |
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309 -------- |
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310 add_path, add_star |
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311 |
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312 Examples |
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313 -------- |
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314 >>> G = nx.Graph() # or DiGraph, MultiGraph, MultiDiGraph, etc |
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315 >>> nx.add_cycle(G, [0, 1, 2, 3]) |
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316 >>> nx.add_cycle(G, [10, 11, 12], weight=7) |
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317 """ |
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318 nlist = iter(nodes_for_cycle) |
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319 try: |
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320 first_node = next(nlist) |
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321 except StopIteration: |
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322 return |
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323 G_to_add_to.add_node(first_node) |
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324 G_to_add_to.add_edges_from( |
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325 pairwise(chain((first_node,), nlist), cyclic=True), **attr |
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326 ) |
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327 |
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328 |
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329 def subgraph(G, nbunch): |
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330 """Returns the subgraph induced on nodes in nbunch. |
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331 |
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332 Parameters |
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333 ---------- |
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334 G : graph |
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335 A NetworkX graph |
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336 |
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337 nbunch : list, iterable |
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338 A container of nodes that will be iterated through once (thus |
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339 it should be an iterator or be iterable). Each element of the |
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340 container should be a valid node type: any hashable type except |
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341 None. If nbunch is None, return all edges data in the graph. |
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342 Nodes in nbunch that are not in the graph will be (quietly) |
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343 ignored. |
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344 |
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345 Notes |
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346 ----- |
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347 subgraph(G) calls G.subgraph() |
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348 """ |
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349 return G.subgraph(nbunch) |
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350 |
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351 |
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352 def induced_subgraph(G, nbunch): |
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353 """Returns a SubGraph view of `G` showing only nodes in nbunch. |
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354 |
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355 The induced subgraph of a graph on a set of nodes N is the |
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356 graph with nodes N and edges from G which have both ends in N. |
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357 |
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358 Parameters |
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359 ---------- |
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360 G : NetworkX Graph |
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361 nbunch : node, container of nodes or None (for all nodes) |
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362 |
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363 Returns |
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364 ------- |
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365 subgraph : SubGraph View |
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366 A read-only view of the subgraph in `G` induced by the nodes. |
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367 Changes to the graph `G` will be reflected in the view. |
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368 |
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369 Notes |
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370 ----- |
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371 To create a mutable subgraph with its own copies of nodes |
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372 edges and attributes use `subgraph.copy()` or `Graph(subgraph)` |
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373 |
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374 For an inplace reduction of a graph to a subgraph you can remove nodes: |
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375 `G.remove_nodes_from(n in G if n not in set(nbunch))` |
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376 |
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377 If you are going to compute subgraphs of your subgraphs you could |
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378 end up with a chain of views that can be very slow once the chain |
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379 has about 15 views in it. If they are all induced subgraphs, you |
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380 can short-cut the chain by making them all subgraphs of the original |
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381 graph. The graph class method `G.subgraph` does this when `G` is |
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382 a subgraph. In contrast, this function allows you to choose to build |
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383 chains or not, as you wish. The returned subgraph is a view on `G`. |
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384 |
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385 Examples |
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386 -------- |
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387 >>> G = nx.path_graph(4) # or DiGraph, MultiGraph, MultiDiGraph, etc |
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388 >>> H = G.subgraph([0, 1, 2]) |
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389 >>> list(H.edges) |
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390 [(0, 1), (1, 2)] |
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391 """ |
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392 induced_nodes = nx.filters.show_nodes(G.nbunch_iter(nbunch)) |
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393 return nx.graphviews.subgraph_view(G, induced_nodes) |
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394 |
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395 |
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396 def edge_subgraph(G, edges): |
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397 """Returns a view of the subgraph induced by the specified edges. |
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398 |
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399 The induced subgraph contains each edge in `edges` and each |
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400 node incident to any of those edges. |
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401 |
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402 Parameters |
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403 ---------- |
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404 G : NetworkX Graph |
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405 edges : iterable |
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406 An iterable of edges. Edges not present in `G` are ignored. |
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407 |
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408 Returns |
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409 ------- |
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410 subgraph : SubGraph View |
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411 A read-only edge-induced subgraph of `G`. |
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412 Changes to `G` are reflected in the view. |
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413 |
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414 Notes |
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415 ----- |
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416 To create a mutable subgraph with its own copies of nodes |
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417 edges and attributes use `subgraph.copy()` or `Graph(subgraph)` |
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418 |
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419 If you create a subgraph of a subgraph recursively you can end up |
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420 with a chain of subgraphs that becomes very slow with about 15 |
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421 nested subgraph views. Luckily the edge_subgraph filter nests |
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422 nicely so you can use the original graph as G in this function |
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423 to avoid chains. We do not rule out chains programmatically so |
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424 that odd cases like an `edge_subgraph` of a `restricted_view` |
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425 can be created. |
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426 |
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427 Examples |
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428 -------- |
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429 >>> G = nx.path_graph(5) |
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430 >>> H = G.edge_subgraph([(0, 1), (3, 4)]) |
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431 >>> list(H.nodes) |
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432 [0, 1, 3, 4] |
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433 >>> list(H.edges) |
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434 [(0, 1), (3, 4)] |
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435 """ |
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436 nxf = nx.filters |
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437 edges = set(edges) |
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438 nodes = set() |
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439 for e in edges: |
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440 nodes.update(e[:2]) |
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441 induced_nodes = nxf.show_nodes(nodes) |
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442 if G.is_multigraph(): |
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443 if G.is_directed(): |
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444 induced_edges = nxf.show_multidiedges(edges) |
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445 else: |
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446 induced_edges = nxf.show_multiedges(edges) |
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447 else: |
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448 if G.is_directed(): |
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449 induced_edges = nxf.show_diedges(edges) |
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450 else: |
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451 induced_edges = nxf.show_edges(edges) |
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452 return nx.graphviews.subgraph_view(G, induced_nodes, induced_edges) |
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453 |
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454 |
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455 def restricted_view(G, nodes, edges): |
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456 """Returns a view of `G` with hidden nodes and edges. |
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457 |
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458 The resulting subgraph filters out node `nodes` and edges `edges`. |
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459 Filtered out nodes also filter out any of their edges. |
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460 |
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461 Parameters |
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462 ---------- |
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463 G : NetworkX Graph |
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464 nodes : iterable |
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465 An iterable of nodes. Nodes not present in `G` are ignored. |
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466 edges : iterable |
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467 An iterable of edges. Edges not present in `G` are ignored. |
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468 |
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469 Returns |
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470 ------- |
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471 subgraph : SubGraph View |
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472 A read-only restricted view of `G` filtering out nodes and edges. |
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473 Changes to `G` are reflected in the view. |
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474 |
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475 Notes |
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476 ----- |
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477 To create a mutable subgraph with its own copies of nodes |
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478 edges and attributes use `subgraph.copy()` or `Graph(subgraph)` |
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479 |
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480 If you create a subgraph of a subgraph recursively you may end up |
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481 with a chain of subgraph views. Such chains can get quite slow |
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482 for lengths near 15. To avoid long chains, try to make your subgraph |
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483 based on the original graph. We do not rule out chains programmatically |
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484 so that odd cases like an `edge_subgraph` of a `restricted_view` |
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485 can be created. |
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486 |
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487 Examples |
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488 -------- |
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489 >>> G = nx.path_graph(5) |
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490 >>> H = nx.restricted_view(G, [0], [(1, 2), (3, 4)]) |
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491 >>> list(H.nodes) |
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492 [1, 2, 3, 4] |
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493 >>> list(H.edges) |
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494 [(2, 3)] |
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495 """ |
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496 nxf = nx.filters |
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497 hide_nodes = nxf.hide_nodes(nodes) |
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498 if G.is_multigraph(): |
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499 if G.is_directed(): |
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500 hide_edges = nxf.hide_multidiedges(edges) |
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501 else: |
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502 hide_edges = nxf.hide_multiedges(edges) |
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503 else: |
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504 if G.is_directed(): |
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505 hide_edges = nxf.hide_diedges(edges) |
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506 else: |
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507 hide_edges = nxf.hide_edges(edges) |
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508 return nx.graphviews.subgraph_view(G, hide_nodes, hide_edges) |
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509 |
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510 |
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511 def to_directed(graph): |
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512 """Returns a directed view of the graph `graph`. |
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513 |
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514 Identical to graph.to_directed(as_view=True) |
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515 Note that graph.to_directed defaults to `as_view=False` |
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516 while this function always provides a view. |
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517 """ |
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518 return graph.to_directed(as_view=True) |
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519 |
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520 |
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521 def to_undirected(graph): |
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522 """Returns an undirected view of the graph `graph`. |
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523 |
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524 Identical to graph.to_undirected(as_view=True) |
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525 Note that graph.to_undirected defaults to `as_view=False` |
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526 while this function always provides a view. |
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527 """ |
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528 return graph.to_undirected(as_view=True) |
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529 |
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530 |
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531 def create_empty_copy(G, with_data=True): |
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532 """Returns a copy of the graph G with all of the edges removed. |
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533 |
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534 Parameters |
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535 ---------- |
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536 G : graph |
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537 A NetworkX graph |
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538 |
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539 with_data : bool (default=True) |
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540 Propagate Graph and Nodes data to the new graph. |
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541 |
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542 See Also |
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543 ----- |
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544 empty_graph |
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545 |
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546 """ |
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547 H = G.__class__() |
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548 H.add_nodes_from(G.nodes(data=with_data)) |
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549 if with_data: |
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550 H.graph.update(G.graph) |
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551 return H |
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552 |
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553 |
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554 def info(G, n=None): |
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555 """Return a summary of information for the graph G or a single node n. |
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556 |
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557 The summary includes the number of nodes and edges (or neighbours for a single |
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558 node), and their average degree. |
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559 |
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560 Parameters |
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561 ---------- |
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562 G : Networkx graph |
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563 A graph |
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564 n : node (any hashable) |
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565 A node in the graph G |
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566 |
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567 Returns |
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568 ------- |
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569 info : str |
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570 A string containing the short summary |
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571 |
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572 Raises |
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573 ------ |
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574 NetworkXError |
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575 If n is not in the graph G |
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576 |
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577 """ |
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578 info = "" # append this all to a string |
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579 if n is None: |
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580 info += f"Name: {G.name}\n" |
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581 type_name = [type(G).__name__] |
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582 info += f"Type: {','.join(type_name)}\n" |
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583 info += f"Number of nodes: {G.number_of_nodes()}\n" |
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584 info += f"Number of edges: {G.number_of_edges()}\n" |
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585 nnodes = G.number_of_nodes() |
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586 if len(G) > 0: |
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587 if G.is_directed(): |
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588 deg = sum(d for n, d in G.in_degree()) / float(nnodes) |
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589 info += f"Average in degree: {deg:8.4f}\n" |
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590 deg = sum(d for n, d in G.out_degree()) / float(nnodes) |
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591 info += f"Average out degree: {deg:8.4f}" |
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592 else: |
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593 s = sum(dict(G.degree()).values()) |
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594 info += f"Average degree: {(float(s) / float(nnodes)):8.4f}" |
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595 else: |
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596 if n not in G: |
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597 raise nx.NetworkXError(f"node {n} not in graph") |
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598 info += f"Node {n} has the following properties:\n" |
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599 info += f"Degree: {G.degree(n)}\n" |
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600 info += "Neighbors: " |
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601 info += " ".join(str(nbr) for nbr in G.neighbors(n)) |
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602 return info |
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603 |
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604 |
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605 def set_node_attributes(G, values, name=None): |
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606 """Sets node attributes from a given value or dictionary of values. |
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607 |
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608 .. Warning:: The call order of arguments `values` and `name` |
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609 switched between v1.x & v2.x. |
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610 |
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611 Parameters |
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612 ---------- |
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613 G : NetworkX Graph |
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614 |
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615 values : scalar value, dict-like |
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616 What the node attribute should be set to. If `values` is |
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617 not a dictionary, then it is treated as a single attribute value |
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618 that is then applied to every node in `G`. This means that if |
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619 you provide a mutable object, like a list, updates to that object |
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620 will be reflected in the node attribute for every node. |
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621 The attribute name will be `name`. |
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622 |
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623 If `values` is a dict or a dict of dict, it should be keyed |
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624 by node to either an attribute value or a dict of attribute key/value |
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625 pairs used to update the node's attributes. |
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626 |
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627 name : string (optional, default=None) |
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628 Name of the node attribute to set if values is a scalar. |
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629 |
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630 Examples |
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631 -------- |
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632 After computing some property of the nodes of a graph, you may want |
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633 to assign a node attribute to store the value of that property for |
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634 each node:: |
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635 |
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636 >>> G = nx.path_graph(3) |
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637 >>> bb = nx.betweenness_centrality(G) |
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638 >>> isinstance(bb, dict) |
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639 True |
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640 >>> nx.set_node_attributes(G, bb, "betweenness") |
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641 >>> G.nodes[1]["betweenness"] |
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642 1.0 |
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643 |
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644 If you provide a list as the second argument, updates to the list |
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645 will be reflected in the node attribute for each node:: |
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646 |
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647 >>> G = nx.path_graph(3) |
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648 >>> labels = [] |
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649 >>> nx.set_node_attributes(G, labels, "labels") |
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650 >>> labels.append("foo") |
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651 >>> G.nodes[0]["labels"] |
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652 ['foo'] |
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653 >>> G.nodes[1]["labels"] |
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654 ['foo'] |
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655 >>> G.nodes[2]["labels"] |
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656 ['foo'] |
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657 |
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658 If you provide a dictionary of dictionaries as the second argument, |
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659 the outer dictionary is assumed to be keyed by node to an inner |
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660 dictionary of node attributes for that node:: |
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661 |
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662 >>> G = nx.path_graph(3) |
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663 >>> attrs = {0: {"attr1": 20, "attr2": "nothing"}, 1: {"attr2": 3}} |
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664 >>> nx.set_node_attributes(G, attrs) |
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665 >>> G.nodes[0]["attr1"] |
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666 20 |
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667 >>> G.nodes[0]["attr2"] |
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668 'nothing' |
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669 >>> G.nodes[1]["attr2"] |
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670 3 |
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671 >>> G.nodes[2] |
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672 {} |
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673 |
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674 """ |
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675 # Set node attributes based on type of `values` |
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676 if name is not None: # `values` must not be a dict of dict |
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677 try: # `values` is a dict |
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678 for n, v in values.items(): |
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679 try: |
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680 G.nodes[n][name] = values[n] |
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681 except KeyError: |
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682 pass |
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683 except AttributeError: # `values` is a constant |
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684 for n in G: |
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685 G.nodes[n][name] = values |
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686 else: # `values` must be dict of dict |
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687 for n, d in values.items(): |
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688 try: |
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689 G.nodes[n].update(d) |
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690 except KeyError: |
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691 pass |
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692 |
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693 |
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694 def get_node_attributes(G, name): |
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695 """Get node attributes from graph |
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696 |
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697 Parameters |
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698 ---------- |
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699 G : NetworkX Graph |
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700 |
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701 name : string |
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702 Attribute name |
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703 |
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704 Returns |
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705 ------- |
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706 Dictionary of attributes keyed by node. |
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707 |
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|
708 Examples |
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709 -------- |
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|
710 >>> G = nx.Graph() |
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|
711 >>> G.add_nodes_from([1, 2, 3], color="red") |
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712 >>> color = nx.get_node_attributes(G, "color") |
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713 >>> color[1] |
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714 'red' |
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715 """ |
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716 return {n: d[name] for n, d in G.nodes.items() if name in d} |
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717 |
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718 |
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719 def set_edge_attributes(G, values, name=None): |
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720 """Sets edge attributes from a given value or dictionary of values. |
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721 |
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722 .. Warning:: The call order of arguments `values` and `name` |
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723 switched between v1.x & v2.x. |
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724 |
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725 Parameters |
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726 ---------- |
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727 G : NetworkX Graph |
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728 |
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729 values : scalar value, dict-like |
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|
730 What the edge attribute should be set to. If `values` is |
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731 not a dictionary, then it is treated as a single attribute value |
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732 that is then applied to every edge in `G`. This means that if |
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733 you provide a mutable object, like a list, updates to that object |
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734 will be reflected in the edge attribute for each edge. The attribute |
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735 name will be `name`. |
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736 |
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737 If `values` is a dict or a dict of dict, it should be keyed |
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738 by edge tuple to either an attribute value or a dict of attribute |
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739 key/value pairs used to update the edge's attributes. |
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740 For multigraphs, the edge tuples must be of the form ``(u, v, key)``, |
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741 where `u` and `v` are nodes and `key` is the edge key. |
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742 For non-multigraphs, the keys must be tuples of the form ``(u, v)``. |
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743 |
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744 name : string (optional, default=None) |
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745 Name of the edge attribute to set if values is a scalar. |
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746 |
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747 Examples |
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748 -------- |
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749 After computing some property of the edges of a graph, you may want |
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750 to assign a edge attribute to store the value of that property for |
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751 each edge:: |
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752 |
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753 >>> G = nx.path_graph(3) |
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754 >>> bb = nx.edge_betweenness_centrality(G, normalized=False) |
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755 >>> nx.set_edge_attributes(G, bb, "betweenness") |
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756 >>> G.edges[1, 2]["betweenness"] |
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757 2.0 |
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758 |
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759 If you provide a list as the second argument, updates to the list |
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760 will be reflected in the edge attribute for each edge:: |
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761 |
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762 >>> labels = [] |
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763 >>> nx.set_edge_attributes(G, labels, "labels") |
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764 >>> labels.append("foo") |
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765 >>> G.edges[0, 1]["labels"] |
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766 ['foo'] |
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767 >>> G.edges[1, 2]["labels"] |
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768 ['foo'] |
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769 |
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770 If you provide a dictionary of dictionaries as the second argument, |
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771 the entire dictionary will be used to update edge attributes:: |
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772 |
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773 >>> G = nx.path_graph(3) |
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774 >>> attrs = {(0, 1): {"attr1": 20, "attr2": "nothing"}, (1, 2): {"attr2": 3}} |
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775 >>> nx.set_edge_attributes(G, attrs) |
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776 >>> G[0][1]["attr1"] |
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|
777 20 |
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778 >>> G[0][1]["attr2"] |
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779 'nothing' |
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780 >>> G[1][2]["attr2"] |
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781 3 |
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|
782 |
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|
783 """ |
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784 if name is not None: |
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785 # `values` does not contain attribute names |
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786 try: |
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787 # if `values` is a dict using `.items()` => {edge: value} |
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788 if G.is_multigraph(): |
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789 for (u, v, key), value in values.items(): |
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790 try: |
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791 G[u][v][key][name] = value |
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792 except KeyError: |
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|
793 pass |
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794 else: |
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795 for (u, v), value in values.items(): |
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796 try: |
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797 G[u][v][name] = value |
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798 except KeyError: |
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|
799 pass |
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800 except AttributeError: |
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801 # treat `values` as a constant |
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802 for u, v, data in G.edges(data=True): |
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803 data[name] = values |
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|
804 else: |
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parents:
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changeset
|
805 # `values` consists of doct-of-dict {edge: {attr: value}} shape |
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parents:
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changeset
|
806 if G.is_multigraph(): |
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"planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
shellac
parents:
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changeset
|
807 for (u, v, key), d in values.items(): |
4f3585e2f14b
"planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
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parents:
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changeset
|
808 try: |
4f3585e2f14b
"planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
shellac
parents:
diff
changeset
|
809 G[u][v][key].update(d) |
4f3585e2f14b
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shellac
parents:
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changeset
|
810 except KeyError: |
4f3585e2f14b
"planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
shellac
parents:
diff
changeset
|
811 pass |
4f3585e2f14b
"planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
shellac
parents:
diff
changeset
|
812 else: |
4f3585e2f14b
"planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
shellac
parents:
diff
changeset
|
813 for (u, v), d in values.items(): |
4f3585e2f14b
"planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
shellac
parents:
diff
changeset
|
814 try: |
4f3585e2f14b
"planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
shellac
parents:
diff
changeset
|
815 G[u][v].update(d) |
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"planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
shellac
parents:
diff
changeset
|
816 except KeyError: |
4f3585e2f14b
"planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
shellac
parents:
diff
changeset
|
817 pass |
4f3585e2f14b
"planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
shellac
parents:
diff
changeset
|
818 |
4f3585e2f14b
"planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
shellac
parents:
diff
changeset
|
819 |
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"planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
shellac
parents:
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changeset
|
820 def get_edge_attributes(G, name): |
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shellac
parents:
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changeset
|
821 """Get edge attributes from graph |
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parents:
diff
changeset
|
822 |
4f3585e2f14b
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parents:
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changeset
|
823 Parameters |
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"planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
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parents:
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changeset
|
824 ---------- |
4f3585e2f14b
"planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
shellac
parents:
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changeset
|
825 G : NetworkX Graph |
4f3585e2f14b
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parents:
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|
826 |
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"planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
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parents:
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|
827 name : string |
4f3585e2f14b
"planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
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parents:
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changeset
|
828 Attribute name |
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parents:
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changeset
|
829 |
4f3585e2f14b
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parents:
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changeset
|
830 Returns |
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shellac
parents:
diff
changeset
|
831 ------- |
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"planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
shellac
parents:
diff
changeset
|
832 Dictionary of attributes keyed by edge. For (di)graphs, the keys are |
4f3585e2f14b
"planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
shellac
parents:
diff
changeset
|
833 2-tuples of the form: (u, v). For multi(di)graphs, the keys are 3-tuples of |
4f3585e2f14b
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shellac
parents:
diff
changeset
|
834 the form: (u, v, key). |
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parents:
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changeset
|
835 |
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shellac
parents:
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changeset
|
836 Examples |
4f3585e2f14b
"planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
shellac
parents:
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changeset
|
837 -------- |
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parents:
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changeset
|
838 >>> G = nx.Graph() |
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parents:
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changeset
|
839 >>> nx.add_path(G, [1, 2, 3], color="red") |
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parents:
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|
840 >>> color = nx.get_edge_attributes(G, "color") |
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parents:
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|
841 >>> color[(1, 2)] |
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shellac
parents:
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changeset
|
842 'red' |
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shellac
parents:
diff
changeset
|
843 """ |
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shellac
parents:
diff
changeset
|
844 if G.is_multigraph(): |
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parents:
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|
845 edges = G.edges(keys=True, data=True) |
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shellac
parents:
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|
846 else: |
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shellac
parents:
diff
changeset
|
847 edges = G.edges(data=True) |
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shellac
parents:
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changeset
|
848 return {x[:-1]: x[-1][name] for x in edges if name in x[-1]} |
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parents:
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|
849 |
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parents:
diff
changeset
|
850 |
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parents:
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changeset
|
851 def all_neighbors(graph, node): |
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parents:
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|
852 """Returns all of the neighbors of a node in the graph. |
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parents:
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|
853 |
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parents:
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changeset
|
854 If the graph is directed returns predecessors as well as successors. |
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parents:
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changeset
|
855 |
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parents:
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changeset
|
856 Parameters |
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parents:
diff
changeset
|
857 ---------- |
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parents:
diff
changeset
|
858 graph : NetworkX graph |
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shellac
parents:
diff
changeset
|
859 Graph to find neighbors. |
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parents:
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changeset
|
860 |
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parents:
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|
861 node : node |
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parents:
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changeset
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862 The node whose neighbors will be returned. |
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parents:
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changeset
|
863 |
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parents:
diff
changeset
|
864 Returns |
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parents:
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changeset
|
865 ------- |
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"planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
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parents:
diff
changeset
|
866 neighbors : iterator |
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parents:
diff
changeset
|
867 Iterator of neighbors |
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parents:
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|
868 """ |
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parents:
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changeset
|
869 if graph.is_directed(): |
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shellac
parents:
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changeset
|
870 values = chain(graph.predecessors(node), graph.successors(node)) |
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"planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
shellac
parents:
diff
changeset
|
871 else: |
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shellac
parents:
diff
changeset
|
872 values = graph.neighbors(node) |
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shellac
parents:
diff
changeset
|
873 return values |
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shellac
parents:
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changeset
|
874 |
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"planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
shellac
parents:
diff
changeset
|
875 |
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"planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
shellac
parents:
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changeset
|
876 def non_neighbors(graph, node): |
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shellac
parents:
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changeset
|
877 """Returns the non-neighbors of the node in the graph. |
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shellac
parents:
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changeset
|
878 |
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parents:
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changeset
|
879 Parameters |
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parents:
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changeset
|
880 ---------- |
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shellac
parents:
diff
changeset
|
881 graph : NetworkX graph |
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parents:
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changeset
|
882 Graph to find neighbors. |
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shellac
parents:
diff
changeset
|
883 |
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shellac
parents:
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changeset
|
884 node : node |
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parents:
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|
885 The node whose neighbors will be returned. |
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shellac
parents:
diff
changeset
|
886 |
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parents:
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changeset
|
887 Returns |
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parents:
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changeset
|
888 ------- |
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parents:
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|
889 non_neighbors : iterator |
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parents:
diff
changeset
|
890 Iterator of nodes in the graph that are not neighbors of the node. |
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parents:
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changeset
|
891 """ |
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parents:
diff
changeset
|
892 nbors = set(neighbors(graph, node)) | {node} |
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parents:
diff
changeset
|
893 return (nnode for nnode in graph if nnode not in nbors) |
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"planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
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parents:
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changeset
|
894 |
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"planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
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parents:
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changeset
|
895 |
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parents:
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changeset
|
896 def non_edges(graph): |
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parents:
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changeset
|
897 """Returns the non-existent edges in the graph. |
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parents:
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changeset
|
898 |
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"planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
shellac
parents:
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changeset
|
899 Parameters |
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"planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
shellac
parents:
diff
changeset
|
900 ---------- |
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"planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
shellac
parents:
diff
changeset
|
901 graph : NetworkX graph. |
4f3585e2f14b
"planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
shellac
parents:
diff
changeset
|
902 Graph to find non-existent edges. |
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"planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
shellac
parents:
diff
changeset
|
903 |
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"planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
shellac
parents:
diff
changeset
|
904 Returns |
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"planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
shellac
parents:
diff
changeset
|
905 ------- |
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"planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
shellac
parents:
diff
changeset
|
906 non_edges : iterator |
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"planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
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parents:
diff
changeset
|
907 Iterator of edges that are not in the graph. |
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"planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
shellac
parents:
diff
changeset
|
908 """ |
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"planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
shellac
parents:
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changeset
|
909 if graph.is_directed(): |
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"planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
shellac
parents:
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changeset
|
910 for u in graph: |
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parents:
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changeset
|
911 for v in non_neighbors(graph, u): |
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"planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
shellac
parents:
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changeset
|
912 yield (u, v) |
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"planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
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parents:
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changeset
|
913 else: |
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parents:
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914 nodes = set(graph) |
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"planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
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parents:
diff
changeset
|
915 while nodes: |
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shellac
parents:
diff
changeset
|
916 u = nodes.pop() |
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"planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
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parents:
diff
changeset
|
917 for v in nodes - set(graph[u]): |
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"planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
shellac
parents:
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changeset
|
918 yield (u, v) |
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parents:
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changeset
|
919 |
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parents:
diff
changeset
|
920 |
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shellac
parents:
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changeset
|
921 @not_implemented_for("directed") |
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922 def common_neighbors(G, u, v): |
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923 """Returns the common neighbors of two nodes in a graph. |
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924 |
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925 Parameters |
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926 ---------- |
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927 G : graph |
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928 A NetworkX undirected graph. |
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929 |
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930 u, v : nodes |
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931 Nodes in the graph. |
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932 |
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933 Returns |
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934 ------- |
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935 cnbors : iterator |
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936 Iterator of common neighbors of u and v in the graph. |
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937 |
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938 Raises |
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939 ------ |
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940 NetworkXError |
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941 If u or v is not a node in the graph. |
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942 |
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943 Examples |
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944 -------- |
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945 >>> G = nx.complete_graph(5) |
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946 >>> sorted(nx.common_neighbors(G, 0, 1)) |
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947 [2, 3, 4] |
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948 """ |
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949 if u not in G: |
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950 raise nx.NetworkXError("u is not in the graph.") |
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951 if v not in G: |
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952 raise nx.NetworkXError("v is not in the graph.") |
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953 |
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954 # Return a generator explicitly instead of yielding so that the above |
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955 # checks are executed eagerly. |
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956 return (w for w in G[u] if w in G[v] and w not in (u, v)) |
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957 |
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958 |
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959 def is_weighted(G, edge=None, weight="weight"): |
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960 """Returns True if `G` has weighted edges. |
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961 |
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962 Parameters |
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963 ---------- |
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964 G : graph |
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965 A NetworkX graph. |
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966 |
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967 edge : tuple, optional |
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968 A 2-tuple specifying the only edge in `G` that will be tested. If |
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969 None, then every edge in `G` is tested. |
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970 |
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971 weight: string, optional |
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972 The attribute name used to query for edge weights. |
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973 |
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974 Returns |
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975 ------- |
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976 bool |
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977 A boolean signifying if `G`, or the specified edge, is weighted. |
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978 |
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979 Raises |
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980 ------ |
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981 NetworkXError |
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982 If the specified edge does not exist. |
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983 |
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984 Examples |
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985 -------- |
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986 >>> G = nx.path_graph(4) |
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987 >>> nx.is_weighted(G) |
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988 False |
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989 >>> nx.is_weighted(G, (2, 3)) |
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990 False |
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991 |
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992 >>> G = nx.DiGraph() |
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993 >>> G.add_edge(1, 2, weight=1) |
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994 >>> nx.is_weighted(G) |
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995 True |
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996 |
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997 """ |
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998 if edge is not None: |
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999 data = G.get_edge_data(*edge) |
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1000 if data is None: |
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1001 msg = f"Edge {edge!r} does not exist." |
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1002 raise nx.NetworkXError(msg) |
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1003 return weight in data |
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1004 |
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1005 if is_empty(G): |
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1006 # Special handling required since: all([]) == True |
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1007 return False |
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1008 |
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1009 return all(weight in data for u, v, data in G.edges(data=True)) |
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1010 |
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1011 |
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1012 def is_negatively_weighted(G, edge=None, weight="weight"): |
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1013 """Returns True if `G` has negatively weighted edges. |
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1014 |
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1015 Parameters |
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1016 ---------- |
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1017 G : graph |
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1018 A NetworkX graph. |
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1019 |
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1020 edge : tuple, optional |
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1021 A 2-tuple specifying the only edge in `G` that will be tested. If |
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1022 None, then every edge in `G` is tested. |
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1023 |
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1024 weight: string, optional |
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1025 The attribute name used to query for edge weights. |
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1026 |
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1027 Returns |
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1028 ------- |
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1029 bool |
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1030 A boolean signifying if `G`, or the specified edge, is negatively |
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1031 weighted. |
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1032 |
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1033 Raises |
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1034 ------ |
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1035 NetworkXError |
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1036 If the specified edge does not exist. |
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1037 |
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1038 Examples |
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1039 -------- |
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1040 >>> G = nx.Graph() |
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1041 >>> G.add_edges_from([(1, 3), (2, 4), (2, 6)]) |
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1042 >>> G.add_edge(1, 2, weight=4) |
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1043 >>> nx.is_negatively_weighted(G, (1, 2)) |
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1044 False |
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1045 >>> G[2][4]["weight"] = -2 |
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1046 >>> nx.is_negatively_weighted(G) |
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1047 True |
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1048 >>> G = nx.DiGraph() |
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1049 >>> edges = [("0", "3", 3), ("0", "1", -5), ("1", "0", -2)] |
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1050 >>> G.add_weighted_edges_from(edges) |
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1051 >>> nx.is_negatively_weighted(G) |
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1052 True |
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1053 |
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1054 """ |
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1055 if edge is not None: |
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1056 data = G.get_edge_data(*edge) |
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1057 if data is None: |
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1058 msg = f"Edge {edge!r} does not exist." |
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1059 raise nx.NetworkXError(msg) |
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1060 return weight in data and data[weight] < 0 |
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1061 |
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1062 return any(weight in data and data[weight] < 0 for u, v, data in G.edges(data=True)) |
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1063 |
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1064 |
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1065 def is_empty(G): |
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1066 """Returns True if `G` has no edges. |
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1067 |
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1068 Parameters |
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1069 ---------- |
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1070 G : graph |
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1071 A NetworkX graph. |
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1072 |
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1073 Returns |
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1074 ------- |
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1075 bool |
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1076 True if `G` has no edges, and False otherwise. |
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1077 |
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1078 Notes |
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1079 ----- |
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1080 An empty graph can have nodes but not edges. The empty graph with zero |
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1081 nodes is known as the null graph. This is an $O(n)$ operation where n |
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1082 is the number of nodes in the graph. |
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1083 |
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1084 """ |
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1085 return not any(G.adj.values()) |
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1086 |
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1087 |
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1088 def nodes_with_selfloops(G): |
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1089 """Returns an iterator over nodes with self loops. |
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1090 |
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1091 A node with a self loop has an edge with both ends adjacent |
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1092 to that node. |
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1093 |
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1094 Returns |
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1095 ------- |
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1096 nodelist : iterator |
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1097 A iterator over nodes with self loops. |
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1098 |
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1099 See Also |
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1100 -------- |
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1101 selfloop_edges, number_of_selfloops |
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1102 |
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1103 Examples |
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1104 -------- |
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1105 >>> G = nx.Graph() # or DiGraph, MultiGraph, MultiDiGraph, etc |
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1106 >>> G.add_edge(1, 1) |
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1107 >>> G.add_edge(1, 2) |
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1108 >>> list(nx.nodes_with_selfloops(G)) |
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1109 [1] |
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1110 |
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1111 """ |
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1112 return (n for n, nbrs in G.adj.items() if n in nbrs) |
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1113 |
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1114 |
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1115 def selfloop_edges(G, data=False, keys=False, default=None): |
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1116 """Returns an iterator over selfloop edges. |
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1117 |
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1118 A selfloop edge has the same node at both ends. |
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1119 |
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1120 Parameters |
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1121 ---------- |
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1122 data : string or bool, optional (default=False) |
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1123 Return selfloop edges as two tuples (u, v) (data=False) |
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1124 or three-tuples (u, v, datadict) (data=True) |
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1125 or three-tuples (u, v, datavalue) (data='attrname') |
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1126 keys : bool, optional (default=False) |
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1127 If True, return edge keys with each edge. |
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1128 default : value, optional (default=None) |
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1129 Value used for edges that don't have the requested attribute. |
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1130 Only relevant if data is not True or False. |
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1131 |
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1132 Returns |
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1133 ------- |
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1134 edgeiter : iterator over edge tuples |
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1135 An iterator over all selfloop edges. |
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1136 |
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1137 See Also |
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1138 -------- |
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1139 nodes_with_selfloops, number_of_selfloops |
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1140 |
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1141 Examples |
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1142 -------- |
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1143 >>> G = nx.MultiGraph() # or Graph, DiGraph, MultiDiGraph, etc |
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1144 >>> ekey = G.add_edge(1, 1) |
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1145 >>> ekey = G.add_edge(1, 2) |
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1146 >>> list(nx.selfloop_edges(G)) |
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1147 [(1, 1)] |
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1148 >>> list(nx.selfloop_edges(G, data=True)) |
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1149 [(1, 1, {})] |
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1150 >>> list(nx.selfloop_edges(G, keys=True)) |
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1151 [(1, 1, 0)] |
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"planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
shellac
parents:
diff
changeset
|
1152 >>> list(nx.selfloop_edges(G, keys=True, data=True)) |
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"planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
shellac
parents:
diff
changeset
|
1153 [(1, 1, 0, {})] |
4f3585e2f14b
"planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
shellac
parents:
diff
changeset
|
1154 """ |
4f3585e2f14b
"planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
shellac
parents:
diff
changeset
|
1155 if data is True: |
4f3585e2f14b
"planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
shellac
parents:
diff
changeset
|
1156 if G.is_multigraph(): |
4f3585e2f14b
"planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
shellac
parents:
diff
changeset
|
1157 if keys is True: |
4f3585e2f14b
"planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
shellac
parents:
diff
changeset
|
1158 return ( |
4f3585e2f14b
"planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
shellac
parents:
diff
changeset
|
1159 (n, n, k, d) |
4f3585e2f14b
"planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
shellac
parents:
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changeset
|
1160 for n, nbrs in G.adj.items() |
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"planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
shellac
parents:
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changeset
|
1161 if n in nbrs |
4f3585e2f14b
"planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
shellac
parents:
diff
changeset
|
1162 for k, d in nbrs[n].items() |
4f3585e2f14b
"planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
shellac
parents:
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|
1163 ) |
4f3585e2f14b
"planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
shellac
parents:
diff
changeset
|
1164 else: |
4f3585e2f14b
"planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
shellac
parents:
diff
changeset
|
1165 return ( |
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"planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
shellac
parents:
diff
changeset
|
1166 (n, n, d) |
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"planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
shellac
parents:
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changeset
|
1167 for n, nbrs in G.adj.items() |
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"planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
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parents:
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|
1168 if n in nbrs |
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"planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
shellac
parents:
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|
1169 for d in nbrs[n].values() |
4f3585e2f14b
"planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
shellac
parents:
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|
1170 ) |
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"planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
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parents:
diff
changeset
|
1171 else: |
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shellac
parents:
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|
1172 return ((n, n, nbrs[n]) for n, nbrs in G.adj.items() if n in nbrs) |
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parents:
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|
1173 elif data is not False: |
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"planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
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parents:
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|
1174 if G.is_multigraph(): |
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"planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
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parents:
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|
1175 if keys is True: |
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"planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
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parents:
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|
1176 return ( |
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parents:
diff
changeset
|
1177 (n, n, k, d.get(data, default)) |
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"planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
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parents:
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changeset
|
1178 for n, nbrs in G.adj.items() |
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"planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
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parents:
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|
1179 if n in nbrs |
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"planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
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parents:
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changeset
|
1180 for k, d in nbrs[n].items() |
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"planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
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|
1181 ) |
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"planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
shellac
parents:
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|
1182 else: |
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parents:
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changeset
|
1183 return ( |
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parents:
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changeset
|
1184 (n, n, d.get(data, default)) |
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"planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
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parents:
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changeset
|
1185 for n, nbrs in G.adj.items() |
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"planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
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parents:
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|
1186 if n in nbrs |
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shellac
parents:
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changeset
|
1187 for d in nbrs[n].values() |
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shellac
parents:
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|
1188 ) |
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"planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
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parents:
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|
1189 else: |
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parents:
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changeset
|
1190 return ( |
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parents:
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|
1191 (n, n, nbrs[n].get(data, default)) |
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parents:
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|
1192 for n, nbrs in G.adj.items() |
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parents:
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|
1193 if n in nbrs |
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parents:
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|
1194 ) |
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parents:
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|
1195 else: |
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parents:
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|
1196 if G.is_multigraph(): |
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"planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
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parents:
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|
1197 if keys is True: |
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parents:
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changeset
|
1198 return ( |
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shellac
parents:
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|
1199 (n, n, k) for n, nbrs in G.adj.items() if n in nbrs for k in nbrs[n] |
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|
1200 ) |
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parents:
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changeset
|
1201 else: |
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parents:
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changeset
|
1202 return ( |
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parents:
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changeset
|
1203 (n, n) |
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parents:
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|
1204 for n, nbrs in G.adj.items() |
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"planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
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parents:
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changeset
|
1205 if n in nbrs |
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shellac
parents:
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|
1206 for i in range(len(nbrs[n])) # for easy edge removal (#4068) |
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|
1207 ) |
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parents:
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|
1208 else: |
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shellac
parents:
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changeset
|
1209 return ((n, n) for n, nbrs in G.adj.items() if n in nbrs) |
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parents:
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|
1210 |
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"planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
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parents:
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|
1211 |
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"planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
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parents:
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changeset
|
1212 def number_of_selfloops(G): |
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parents:
diff
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|
1213 """Returns the number of selfloop edges. |
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|
1214 |
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parents:
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changeset
|
1215 A selfloop edge has the same node at both ends. |
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parents:
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|
1216 |
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shellac
parents:
diff
changeset
|
1217 Returns |
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shellac
parents:
diff
changeset
|
1218 ------- |
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parents:
diff
changeset
|
1219 nloops : int |
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shellac
parents:
diff
changeset
|
1220 The number of selfloops. |
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shellac
parents:
diff
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|
1221 |
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parents:
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changeset
|
1222 See Also |
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shellac
parents:
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|
1223 -------- |
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parents:
diff
changeset
|
1224 nodes_with_selfloops, selfloop_edges |
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parents:
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|
1225 |
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shellac
parents:
diff
changeset
|
1226 Examples |
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shellac
parents:
diff
changeset
|
1227 -------- |
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shellac
parents:
diff
changeset
|
1228 >>> G = nx.Graph() # or DiGraph, MultiGraph, MultiDiGraph, etc |
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"planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
shellac
parents:
diff
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|
1229 >>> G.add_edge(1, 1) |
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shellac
parents:
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|
1230 >>> G.add_edge(1, 2) |
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shellac
parents:
diff
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|
1231 >>> nx.number_of_selfloops(G) |
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shellac
parents:
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|
1232 1 |
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"planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
shellac
parents:
diff
changeset
|
1233 """ |
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shellac
parents:
diff
changeset
|
1234 return sum(1 for _ in nx.selfloop_edges(G)) |
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shellac
parents:
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|
1235 |
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shellac
parents:
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changeset
|
1236 |
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shellac
parents:
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changeset
|
1237 def is_path(G, path): |
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shellac
parents:
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|
1238 """Returns whether or not the specified path exists |
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shellac
parents:
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|
1239 |
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shellac
parents:
diff
changeset
|
1240 Parameters |
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parents:
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changeset
|
1241 ---------- |
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shellac
parents:
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|
1242 G : graph |
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shellac
parents:
diff
changeset
|
1243 A NetworkX graph. |
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"planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
shellac
parents:
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changeset
|
1244 |
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"planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
shellac
parents:
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changeset
|
1245 path: list |
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shellac
parents:
diff
changeset
|
1246 A list of node labels which defines the path to traverse |
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shellac
parents:
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changeset
|
1247 |
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shellac
parents:
diff
changeset
|
1248 Returns |
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shellac
parents:
diff
changeset
|
1249 ------- |
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"planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
shellac
parents:
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changeset
|
1250 isPath: bool |
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parents:
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changeset
|
1251 A boolean representing whether or not the path exists |
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"planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
shellac
parents:
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changeset
|
1252 |
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shellac
parents:
diff
changeset
|
1253 """ |
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"planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
shellac
parents:
diff
changeset
|
1254 for node, nbr in nx.utils.pairwise(path): |
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"planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
shellac
parents:
diff
changeset
|
1255 if nbr not in G[node]: |
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"planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
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parents:
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changeset
|
1256 return False |
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parents:
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|
1257 return True |
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shellac
parents:
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changeset
|
1258 |
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shellac
parents:
diff
changeset
|
1259 |
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"planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
shellac
parents:
diff
changeset
|
1260 def path_weight(G, path, weight): |
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"planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
shellac
parents:
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|
1261 """Returns total cost associated with specified path and weight |
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"planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
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parents:
diff
changeset
|
1262 |
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"planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
shellac
parents:
diff
changeset
|
1263 Parameters |
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shellac
parents:
diff
changeset
|
1264 ---------- |
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"planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
shellac
parents:
diff
changeset
|
1265 G : graph |
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shellac
parents:
diff
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1266 A NetworkX graph. |
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1267 |
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1268 path: list |
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1269 A list of node labels which defines the path to traverse |
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1270 |
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1271 weight: string |
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1272 A string indicating which edge attribute to use for path cost |
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1273 |
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1274 Returns |
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1275 ------- |
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1276 cost: int |
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1277 A integer representing the total cost with respect to the |
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1278 specified weight of the specified path |
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1279 |
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1280 Raises |
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1281 ------ |
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1282 NetworkXNoPath |
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1283 If the specified edge does not exist. |
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1284 """ |
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1285 multigraph = G.is_multigraph() |
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1286 cost = 0 |
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1287 |
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1288 if not nx.is_path(G, path): |
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1289 raise nx.NetworkXNoPath("path does not exist") |
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1290 for node, nbr in nx.utils.pairwise(path): |
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1291 if multigraph: |
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1292 cost += min([v[weight] for v in G[node][nbr].values()]) |
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1293 else: |
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1294 cost += G[node][nbr][weight] |
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1295 return cost |