Mercurial > repos > shellac > guppy_basecaller

annotate env/lib/python3.7/site-packages/networkx/classes/multigraph.py @ 0:26e78fe6e8c4 draft

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"planemo upload commit c699937486c35866861690329de38ec1a5d9f783"
author shellac
date Sat, 02 May 2020 07:14:21 -0400
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1 # Copyright (C) 2004-2019 by
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2 # Aric Hagberg <hagberg@lanl.gov>
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3 # Dan Schult <dschult@colgate.edu>
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4 # Pieter Swart <swart@lanl.gov>
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5 # All rights reserved.
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6 # BSD license.
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7 #
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8 # Authors: Aric Hagberg <hagberg@lanl.gov>
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9 # Dan Schult <dschult@colgate.edu>
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10 # Pieter Swart <swart@lanl.gov>
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11 """Base class for MultiGraph."""
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12 from copy import deepcopy
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13
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14 import networkx as nx
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15 from networkx.classes.graph import Graph
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16 from networkx.classes.coreviews import MultiAdjacencyView
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17 from networkx.classes.reportviews import MultiEdgeView, MultiDegreeView
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18 from networkx import NetworkXError
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19 from networkx.utils import iterable
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20
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21
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22 class MultiGraph(Graph):
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23 """
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24 An undirected graph class that can store multiedges.
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25
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26 Multiedges are multiple edges between two nodes. Each edge
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27 can hold optional data or attributes.
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28
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29 A MultiGraph holds undirected edges. Self loops are allowed.
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30
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31 Nodes can be arbitrary (hashable) Python objects with optional
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32 key/value attributes. By convention `None` is not used as a node.
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33
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34 Edges are represented as links between nodes with optional
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35 key/value attributes.
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36
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37 Parameters
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38 ----------
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39 incoming_graph_data : input graph (optional, default: None)
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40 Data to initialize graph. If None (default) an empty
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41 graph is created. The data can be any format that is supported
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42 by the to_networkx_graph() function, currently including edge list,
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43 dict of dicts, dict of lists, NetworkX graph, NumPy matrix
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44 or 2d ndarray, SciPy sparse matrix, or PyGraphviz graph.
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45
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46 attr : keyword arguments, optional (default= no attributes)
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47 Attributes to add to graph as key=value pairs.
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48
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49 See Also
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50 --------
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51 Graph
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52 DiGraph
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53 MultiDiGraph
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54 OrderedMultiGraph
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55
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56 Examples
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57 --------
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58 Create an empty graph structure (a "null graph") with no nodes and
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59 no edges.
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60
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61 >>> G = nx.MultiGraph()
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62
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63 G can be grown in several ways.
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64
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65 **Nodes:**
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66
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67 Add one node at a time:
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68
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69 >>> G.add_node(1)
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70
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71 Add the nodes from any container (a list, dict, set or
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72 even the lines from a file or the nodes from another graph).
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73
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74 >>> G.add_nodes_from([2, 3])
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75 >>> G.add_nodes_from(range(100, 110))
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76 >>> H = nx.path_graph(10)
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77 >>> G.add_nodes_from(H)
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78
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79 In addition to strings and integers any hashable Python object
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80 (except None) can represent a node, e.g. a customized node object,
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81 or even another Graph.
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82
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83 >>> G.add_node(H)
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84
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85 **Edges:**
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86
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87 G can also be grown by adding edges.
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88
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89 Add one edge,
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90
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91 >>> key = G.add_edge(1, 2)
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92
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93 a list of edges,
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94
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95 >>> keys = G.add_edges_from([(1, 2), (1, 3)])
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96
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97 or a collection of edges,
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98
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99 >>> keys = G.add_edges_from(H.edges)
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100
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101 If some edges connect nodes not yet in the graph, the nodes
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102 are added automatically. If an edge already exists, an additional
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103 edge is created and stored using a key to identify the edge.
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104 By default the key is the lowest unused integer.
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105
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106 >>> keys = G.add_edges_from([(4,5,{'route':28}), (4,5,{'route':37})])
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107 >>> G[4]
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108 AdjacencyView({3: {0: {}}, 5: {0: {}, 1: {'route': 28}, 2: {'route': 37}}})
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109
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110 **Attributes:**
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111
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112 Each graph, node, and edge can hold key/value attribute pairs
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113 in an associated attribute dictionary (the keys must be hashable).
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114 By default these are empty, but can be added or changed using
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115 add_edge, add_node or direct manipulation of the attribute
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116 dictionaries named graph, node and edge respectively.
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117
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118 >>> G = nx.MultiGraph(day="Friday")
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119 >>> G.graph
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120 {'day': 'Friday'}
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121
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122 Add node attributes using add_node(), add_nodes_from() or G.nodes
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123
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124 >>> G.add_node(1, time='5pm')
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125 >>> G.add_nodes_from([3], time='2pm')
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126 >>> G.nodes[1]
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127 {'time': '5pm'}
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128 >>> G.nodes[1]['room'] = 714
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129 >>> del G.nodes[1]['room'] # remove attribute
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130 >>> list(G.nodes(data=True))
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131 [(1, {'time': '5pm'}), (3, {'time': '2pm'})]
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132
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133 Add edge attributes using add_edge(), add_edges_from(), subscript
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134 notation, or G.edges.
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135
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136 >>> key = G.add_edge(1, 2, weight=4.7 )
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137 >>> keys = G.add_edges_from([(3, 4), (4, 5)], color='red')
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138 >>> keys = G.add_edges_from([(1,2,{'color':'blue'}), (2,3,{'weight':8})])
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139 >>> G[1][2][0]['weight'] = 4.7
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140 >>> G.edges[1, 2, 0]['weight'] = 4
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141
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142 Warning: we protect the graph data structure by making `G.edges[1, 2]` a
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143 read-only dict-like structure. However, you can assign to attributes
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144 in e.g. `G.edges[1, 2]`. Thus, use 2 sets of brackets to add/change
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145 data attributes: `G.edges[1, 2]['weight'] = 4`
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146 (For multigraphs: `MG.edges[u, v, key][name] = value`).
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147
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148 **Shortcuts:**
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149
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150 Many common graph features allow python syntax to speed reporting.
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151
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152 >>> 1 in G # check if node in graph
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153 True
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154 >>> [n for n in G if n<3] # iterate through nodes
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155 [1, 2]
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156 >>> len(G) # number of nodes in graph
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157 5
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158 >>> G[1] # adjacency dict-like view keyed by neighbor to edge attributes
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159 AdjacencyView({2: {0: {'weight': 4}, 1: {'color': 'blue'}}})
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160
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161 Often the best way to traverse all edges of a graph is via the neighbors.
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162 The neighbors are reported as an adjacency-dict `G.adj` or `G.adjacency()`.
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163
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164 >>> for n, nbrsdict in G.adjacency():
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165 ... for nbr, keydict in nbrsdict.items():
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166 ... for key, eattr in keydict.items():
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167 ... if 'weight' in eattr:
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168 ... # Do something useful with the edges
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169 ... pass
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170
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171 But the edges() method is often more convenient:
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172
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173 >>> for u, v, keys, weight in G.edges(data='weight', keys=True):
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174 ... if weight is not None:
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175 ... # Do something useful with the edges
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176 ... pass
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177
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178 **Reporting:**
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179
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180 Simple graph information is obtained using methods and object-attributes.
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181 Reporting usually provides views instead of containers to reduce memory
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182 usage. The views update as the graph is updated similarly to dict-views.
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183 The objects `nodes, `edges` and `adj` provide access to data attributes
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184 via lookup (e.g. `nodes[n], `edges[u, v]`, `adj[u][v]`) and iteration
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185 (e.g. `nodes.items()`, `nodes.data('color')`,
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186 `nodes.data('color', default='blue')` and similarly for `edges`)
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187 Views exist for `nodes`, `edges`, `neighbors()`/`adj` and `degree`.
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188
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189 For details on these and other miscellaneous methods, see below.
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190
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191 **Subclasses (Advanced):**
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192
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193 The MultiGraph class uses a dict-of-dict-of-dict-of-dict data structure.
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194 The outer dict (node_dict) holds adjacency information keyed by node.
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195 The next dict (adjlist_dict) represents the adjacency information and holds
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196 edge_key dicts keyed by neighbor. The edge_key dict holds each edge_attr
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197 dict keyed by edge key. The inner dict (edge_attr_dict) represents
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198 the edge data and holds edge attribute values keyed by attribute names.
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199
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200 Each of these four dicts in the dict-of-dict-of-dict-of-dict
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201 structure can be replaced by a user defined dict-like object.
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202 In general, the dict-like features should be maintained but
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203 extra features can be added. To replace one of the dicts create
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204 a new graph class by changing the class(!) variable holding the
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205 factory for that dict-like structure. The variable names are
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206 node_dict_factory, node_attr_dict_factory, adjlist_inner_dict_factory,
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207 adjlist_outer_dict_factory, edge_key_dict_factory, edge_attr_dict_factory
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208 and graph_attr_dict_factory.
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209
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210 node_dict_factory : function, (default: dict)
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211 Factory function to be used to create the dict containing node
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212 attributes, keyed by node id.
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213 It should require no arguments and return a dict-like object
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214
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215 node_attr_dict_factory: function, (default: dict)
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216 Factory function to be used to create the node attribute
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217 dict which holds attribute values keyed by attribute name.
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218 It should require no arguments and return a dict-like object
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219
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220 adjlist_outer_dict_factory : function, (default: dict)
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221 Factory function to be used to create the outer-most dict
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222 in the data structure that holds adjacency info keyed by node.
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223 It should require no arguments and return a dict-like object.
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224
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225 adjlist_inner_dict_factory : function, (default: dict)
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226 Factory function to be used to create the adjacency list
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227 dict which holds multiedge key dicts keyed by neighbor.
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228 It should require no arguments and return a dict-like object.
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229
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230 edge_key_dict_factory : function, (default: dict)
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231 Factory function to be used to create the edge key dict
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232 which holds edge data keyed by edge key.
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233 It should require no arguments and return a dict-like object.
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234
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235 edge_attr_dict_factory : function, (default: dict)
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236 Factory function to be used to create the edge attribute
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237 dict which holds attribute values keyed by attribute name.
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238 It should require no arguments and return a dict-like object.
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239
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240 graph_attr_dict_factory : function, (default: dict)
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241 Factory function to be used to create the graph attribute
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242 dict which holds attribute values keyed by attribute name.
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243 It should require no arguments and return a dict-like object.
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244
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245 Typically, if your extension doesn't impact the data structure all
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246 methods will inherited without issue except: `to_directed/to_undirected`.
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247 By default these methods create a DiGraph/Graph class and you probably
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248 want them to create your extension of a DiGraph/Graph. To facilitate
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249 this we define two class variables that you can set in your subclass.
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250
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251 to_directed_class : callable, (default: DiGraph or MultiDiGraph)
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252 Class to create a new graph structure in the `to_directed` method.
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253 If `None`, a NetworkX class (DiGraph or MultiDiGraph) is used.
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254
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255 to_undirected_class : callable, (default: Graph or MultiGraph)
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256 Class to create a new graph structure in the `to_undirected` method.
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257 If `None`, a NetworkX class (Graph or MultiGraph) is used.
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258
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259 Examples
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260 --------
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261
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262 Please see :mod:`~networkx.classes.ordered` for examples of
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263 creating graph subclasses by overwriting the base class `dict` with
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264 a dictionary-like object.
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265 """
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266 # node_dict_factory = dict # already assigned in Graph
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267 # adjlist_outer_dict_factory = dict
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268 # adjlist_inner_dict_factory = dict
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269 edge_key_dict_factory = dict
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270 # edge_attr_dict_factory = dict
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271
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272 def to_directed_class(self):
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273 """Returns the class to use for empty directed copies.
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274
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275 If you subclass the base classes, use this to designate
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276 what directed class to use for `to_directed()` copies.
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277 """
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278 return nx.MultiDiGraph
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279
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280 def to_undirected_class(self):
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281 """Returns the class to use for empty undirected copies.
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282
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283 If you subclass the base classes, use this to designate
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284 what directed class to use for `to_directed()` copies.
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285 """
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286 return MultiGraph
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287
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288 def __init__(self, incoming_graph_data=None, **attr):
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289 """Initialize a graph with edges, name, or graph attributes.
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290
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291 Parameters
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292 ----------
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293 incoming_graph_data : input graph
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294 Data to initialize graph. If incoming_graph_data=None (default)
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295 an empty graph is created. The data can be an edge list, or any
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296 NetworkX graph object. If the corresponding optional Python
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297 packages are installed the data can also be a NumPy matrix
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298 or 2d ndarray, a SciPy sparse matrix, or a PyGraphviz graph.
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299
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300 attr : keyword arguments, optional (default= no attributes)
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301 Attributes to add to graph as key=value pairs.
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302
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303 See Also
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304 --------
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305 convert
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306
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307 Examples
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308 --------
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309 >>> G = nx.Graph() # or DiGraph, MultiGraph, MultiDiGraph, etc
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310 >>> G = nx.Graph(name='my graph')
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311 >>> e = [(1, 2), (2, 3), (3, 4)] # list of edges
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312 >>> G = nx.Graph(e)
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313
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314 Arbitrary graph attribute pairs (key=value) may be assigned
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315
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316 >>> G = nx.Graph(e, day="Friday")
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317 >>> G.graph
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318 {'day': 'Friday'}
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319
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320 """
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321 self.edge_key_dict_factory = self.edge_key_dict_factory
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322 Graph.__init__(self, incoming_graph_data, **attr)
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323
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324 @property
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325 def adj(self):
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326 """Graph adjacency object holding the neighbors of each node.
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327
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328 This object is a read-only dict-like structure with node keys
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329 and neighbor-dict values. The neighbor-dict is keyed by neighbor
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330 to the edgekey-data-dict. So `G.adj[3][2][0]['color'] = 'blue'` sets
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331 the color of the edge `(3, 2, 0)` to `"blue"`.
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332
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333 Iterating over G.adj behaves like a dict. Useful idioms include
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334 `for nbr, nbrdict in G.adj[n].items():`.
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335
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336 The neighbor information is also provided by subscripting the graph.
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337 So `for nbr, foovalue in G[node].data('foo', default=1):` works.
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338
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339 For directed graphs, `G.adj` holds outgoing (successor) info.
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340 """
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341 return MultiAdjacencyView(self._adj)
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342
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343 def new_edge_key(self, u, v):
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344 """Returns an unused key for edges between nodes `u` and `v`.
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345
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346 The nodes `u` and `v` do not need to be already in the graph.
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347
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348 Notes
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349 -----
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350 In the standard MultiGraph class the new key is the number of existing
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351 edges between `u` and `v` (increased if necessary to ensure unused).
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352 The first edge will have key 0, then 1, etc. If an edge is removed
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353 further new_edge_keys may not be in this order.
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354
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355 Parameters
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356 ----------
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357 u, v : nodes
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358
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359 Returns
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360 -------
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361 key : int
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362 """
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363 try:
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364 keydict = self._adj[u][v]
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365 except KeyError:
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366 return 0
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367 key = len(keydict)
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368 while key in keydict:
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369 key += 1
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370 return key
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371
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372 def add_edge(self, u_for_edge, v_for_edge, key=None, **attr):
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373 """Add an edge between u and v.
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374
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375 The nodes u and v will be automatically added if they are
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376 not already in the graph.
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377
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378 Edge attributes can be specified with keywords or by directly
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379 accessing the edge's attribute dictionary. See examples below.
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380
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381 Parameters
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382 ----------
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383 u_for_edge, v_for_edge : nodes
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384 Nodes can be, for example, strings or numbers.
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385 Nodes must be hashable (and not None) Python objects.
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386 key : hashable identifier, optional (default=lowest unused integer)
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387 Used to distinguish multiedges between a pair of nodes.
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388 attr : keyword arguments, optional
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389 Edge data (or labels or objects) can be assigned using
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390 keyword arguments.
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391
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392 Returns
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393 -------
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394 The edge key assigned to the edge.
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395
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396 See Also
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397 --------
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398 add_edges_from : add a collection of edges
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399
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400 Notes
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401 -----
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402 To replace/update edge data, use the optional key argument
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403 to identify a unique edge. Otherwise a new edge will be created.
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404
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405 NetworkX algorithms designed for weighted graphs cannot use
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406 multigraphs directly because it is not clear how to handle
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407 multiedge weights. Convert to Graph using edge attribute
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408 'weight' to enable weighted graph algorithms.
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409
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410 Default keys are generated using the method `new_edge_key()`.
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411 This method can be overridden by subclassing the base class and
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412 providing a custom `new_edge_key()` method.
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413
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414 Examples
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415 --------
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416 The following all add the edge e=(1, 2) to graph G:
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417
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418 >>> G = nx.MultiGraph()
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419 >>> e = (1, 2)
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420 >>> ekey = G.add_edge(1, 2) # explicit two-node form
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421 >>> G.add_edge(*e) # single edge as tuple of two nodes
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422 1
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423 >>> G.add_edges_from( [(1, 2)] ) # add edges from iterable container
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424 [2]
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425
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426 Associate data to edges using keywords:
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427
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428 >>> ekey = G.add_edge(1, 2, weight=3)
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429 >>> ekey = G.add_edge(1, 2, key=0, weight=4) # update data for key=0
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430 >>> ekey = G.add_edge(1, 3, weight=7, capacity=15, length=342.7)
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431
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432 For non-string attribute keys, use subscript notation.
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433
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434 >>> ekey = G.add_edge(1, 2)
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435 >>> G[1][2][0].update({0: 5})
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436 >>> G.edges[1, 2, 0].update({0: 5})
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437 """
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438 u, v = u_for_edge, v_for_edge
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439 # add nodes
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440 if u not in self._adj:
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441 self._adj[u] = self.adjlist_inner_dict_factory()
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442 self._node[u] = self.node_attr_dict_factory()
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443 if v not in self._adj:
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444 self._adj[v] = self.adjlist_inner_dict_factory()
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445 self._node[v] = self.node_attr_dict_factory()
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446 if key is None:
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447 key = self.new_edge_key(u, v)
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448 if v in self._adj[u]:
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449 keydict = self._adj[u][v]
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450 datadict = keydict.get(key, self.edge_attr_dict_factory())
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451 datadict.update(attr)
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452 keydict[key] = datadict
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453 else:
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454 # selfloops work this way without special treatment
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455 datadict = self.edge_attr_dict_factory()
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456 datadict.update(attr)
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457 keydict = self.edge_key_dict_factory()
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458 keydict[key] = datadict
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459 self._adj[u][v] = keydict
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460 self._adj[v][u] = keydict
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461 return key
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462
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463 def add_edges_from(self, ebunch_to_add, **attr):
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464 """Add all the edges in ebunch_to_add.
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465
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466 Parameters
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467 ----------
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468 ebunch_to_add : container of edges
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469 Each edge given in the container will be added to the
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470 graph. The edges can be:
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471
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472 - 2-tuples (u, v) or
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473 - 3-tuples (u, v, d) for an edge data dict d, or
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474 - 3-tuples (u, v, k) for not iterable key k, or
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475 - 4-tuples (u, v, k, d) for an edge with data and key k
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476
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477 attr : keyword arguments, optional
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478 Edge data (or labels or objects) can be assigned using
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479 keyword arguments.
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480
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481 Returns
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482 -------
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483 A list of edge keys assigned to the edges in `ebunch`.
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484
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485 See Also
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486 --------
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487 add_edge : add a single edge
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488 add_weighted_edges_from : convenient way to add weighted edges
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489
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490 Notes
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491 -----
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492 Adding the same edge twice has no effect but any edge data
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493 will be updated when each duplicate edge is added.
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494
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495 Edge attributes specified in an ebunch take precedence over
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496 attributes specified via keyword arguments.
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497
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498 Default keys are generated using the method ``new_edge_key()``.
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499 This method can be overridden by subclassing the base class and
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500 providing a custom ``new_edge_key()`` method.
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501
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502 Examples
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503 --------
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504 >>> G = nx.Graph() # or DiGraph, MultiGraph, MultiDiGraph, etc
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505 >>> G.add_edges_from([(0, 1), (1, 2)]) # using a list of edge tuples
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506 >>> e = zip(range(0, 3), range(1, 4))
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507 >>> G.add_edges_from(e) # Add the path graph 0-1-2-3
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508
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509 Associate data to edges
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parents:
diff changeset
510
26e78fe6e8c4 "planemo upload commit c699937486c35866861690329de38ec1a5d9f783"
shellac
parents:
diff changeset
511 >>> G.add_edges_from([(1, 2), (2, 3)], weight=3)
26e78fe6e8c4 "planemo upload commit c699937486c35866861690329de38ec1a5d9f783"
shellac
parents:
diff changeset
512 >>> G.add_edges_from([(3, 4), (1, 4)], label='WN2898')
26e78fe6e8c4 "planemo upload commit c699937486c35866861690329de38ec1a5d9f783"
shellac
parents:
diff changeset
513 """
26e78fe6e8c4 "planemo upload commit c699937486c35866861690329de38ec1a5d9f783"
shellac
parents:
diff changeset
514 keylist = []
26e78fe6e8c4 "planemo upload commit c699937486c35866861690329de38ec1a5d9f783"
shellac
parents:
diff changeset
515 for e in ebunch_to_add:
26e78fe6e8c4 "planemo upload commit c699937486c35866861690329de38ec1a5d9f783"
shellac
parents:
diff changeset
516 ne = len(e)
26e78fe6e8c4 "planemo upload commit c699937486c35866861690329de38ec1a5d9f783"
shellac
parents:
diff changeset
517 if ne == 4:
26e78fe6e8c4 "planemo upload commit c699937486c35866861690329de38ec1a5d9f783"
shellac
parents:
diff changeset
518 u, v, key, dd = e
26e78fe6e8c4 "planemo upload commit c699937486c35866861690329de38ec1a5d9f783"
shellac
parents:
diff changeset
519 elif ne == 3:
26e78fe6e8c4 "planemo upload commit c699937486c35866861690329de38ec1a5d9f783"
shellac
parents:
diff changeset
520 u, v, dd = e
26e78fe6e8c4 "planemo upload commit c699937486c35866861690329de38ec1a5d9f783"
shellac
parents:
diff changeset
521 key = None
26e78fe6e8c4 "planemo upload commit c699937486c35866861690329de38ec1a5d9f783"
shellac
parents:
diff changeset
522 elif ne == 2:
26e78fe6e8c4 "planemo upload commit c699937486c35866861690329de38ec1a5d9f783"
shellac
parents:
diff changeset
523 u, v = e
26e78fe6e8c4 "planemo upload commit c699937486c35866861690329de38ec1a5d9f783"
shellac
parents:
diff changeset
524 dd = {}
26e78fe6e8c4 "planemo upload commit c699937486c35866861690329de38ec1a5d9f783"
shellac
parents:
diff changeset
525 key = None
26e78fe6e8c4 "planemo upload commit c699937486c35866861690329de38ec1a5d9f783"
shellac
parents:
diff changeset
526 else:
26e78fe6e8c4 "planemo upload commit c699937486c35866861690329de38ec1a5d9f783"
shellac
parents:
diff changeset
527 msg = "Edge tuple {} must be a 2-tuple, 3-tuple or 4-tuple."
26e78fe6e8c4 "planemo upload commit c699937486c35866861690329de38ec1a5d9f783"
shellac
parents:
diff changeset
528 raise NetworkXError(msg.format(e))
26e78fe6e8c4 "planemo upload commit c699937486c35866861690329de38ec1a5d9f783"
shellac
parents:
diff changeset
529 ddd = {}
26e78fe6e8c4 "planemo upload commit c699937486c35866861690329de38ec1a5d9f783"
shellac
parents:
diff changeset
530 ddd.update(attr)
26e78fe6e8c4 "planemo upload commit c699937486c35866861690329de38ec1a5d9f783"
shellac
parents:
diff changeset
531 try:
26e78fe6e8c4 "planemo upload commit c699937486c35866861690329de38ec1a5d9f783"
shellac
parents:
diff changeset
532 ddd.update(dd)
26e78fe6e8c4 "planemo upload commit c699937486c35866861690329de38ec1a5d9f783"
shellac
parents:
diff changeset
533 except:
26e78fe6e8c4 "planemo upload commit c699937486c35866861690329de38ec1a5d9f783"
shellac
parents:
diff changeset
534 if ne != 3:
26e78fe6e8c4 "planemo upload commit c699937486c35866861690329de38ec1a5d9f783"
shellac
parents:
diff changeset
535 raise
26e78fe6e8c4 "planemo upload commit c699937486c35866861690329de38ec1a5d9f783"
shellac
parents:
diff changeset
536 key = dd
26e78fe6e8c4 "planemo upload commit c699937486c35866861690329de38ec1a5d9f783"
shellac
parents:
diff changeset
537 key = self.add_edge(u, v, key)
26e78fe6e8c4 "planemo upload commit c699937486c35866861690329de38ec1a5d9f783"
shellac
parents:
diff changeset
538 self[u][v][key].update(ddd)
26e78fe6e8c4 "planemo upload commit c699937486c35866861690329de38ec1a5d9f783"
shellac
parents:
diff changeset
539 keylist.append(key)
26e78fe6e8c4 "planemo upload commit c699937486c35866861690329de38ec1a5d9f783"
shellac
parents:
diff changeset
540 return keylist
26e78fe6e8c4 "planemo upload commit c699937486c35866861690329de38ec1a5d9f783"
shellac
parents:
diff changeset
541
26e78fe6e8c4 "planemo upload commit c699937486c35866861690329de38ec1a5d9f783"
shellac
parents:
diff changeset
542 def remove_edge(self, u, v, key=None):
26e78fe6e8c4 "planemo upload commit c699937486c35866861690329de38ec1a5d9f783"
shellac
parents:
diff changeset
543 """Remove an edge between u and v.
26e78fe6e8c4 "planemo upload commit c699937486c35866861690329de38ec1a5d9f783"
shellac
parents:
diff changeset
544
26e78fe6e8c4 "planemo upload commit c699937486c35866861690329de38ec1a5d9f783"
shellac
parents:
diff changeset
545 Parameters
26e78fe6e8c4 "planemo upload commit c699937486c35866861690329de38ec1a5d9f783"
shellac
parents:
diff changeset
546 ----------
26e78fe6e8c4 "planemo upload commit c699937486c35866861690329de38ec1a5d9f783"
shellac
parents:
diff changeset
547 u, v : nodes
26e78fe6e8c4 "planemo upload commit c699937486c35866861690329de38ec1a5d9f783"
shellac
parents:
diff changeset
548 Remove an edge between nodes u and v.
26e78fe6e8c4 "planemo upload commit c699937486c35866861690329de38ec1a5d9f783"
shellac
parents:
diff changeset
549 key : hashable identifier, optional (default=None)
26e78fe6e8c4 "planemo upload commit c699937486c35866861690329de38ec1a5d9f783"
shellac
parents:
diff changeset
550 Used to distinguish multiple edges between a pair of nodes.
26e78fe6e8c4 "planemo upload commit c699937486c35866861690329de38ec1a5d9f783"
shellac
parents:
diff changeset
551 If None remove a single (arbitrary) edge between u and v.
26e78fe6e8c4 "planemo upload commit c699937486c35866861690329de38ec1a5d9f783"
shellac
parents:
diff changeset
552
26e78fe6e8c4 "planemo upload commit c699937486c35866861690329de38ec1a5d9f783"
shellac
parents:
diff changeset
553 Raises
26e78fe6e8c4 "planemo upload commit c699937486c35866861690329de38ec1a5d9f783"
shellac
parents:
diff changeset
554 ------
26e78fe6e8c4 "planemo upload commit c699937486c35866861690329de38ec1a5d9f783"
shellac
parents:
diff changeset
555 NetworkXError
26e78fe6e8c4 "planemo upload commit c699937486c35866861690329de38ec1a5d9f783"
shellac
parents:
diff changeset
556 If there is not an edge between u and v, or
26e78fe6e8c4 "planemo upload commit c699937486c35866861690329de38ec1a5d9f783"
shellac
parents:
diff changeset
557 if there is no edge with the specified key.
26e78fe6e8c4 "planemo upload commit c699937486c35866861690329de38ec1a5d9f783"
shellac
parents:
diff changeset
558
26e78fe6e8c4 "planemo upload commit c699937486c35866861690329de38ec1a5d9f783"
shellac
parents:
diff changeset
559 See Also
26e78fe6e8c4 "planemo upload commit c699937486c35866861690329de38ec1a5d9f783"
shellac
parents:
diff changeset
560 --------
26e78fe6e8c4 "planemo upload commit c699937486c35866861690329de38ec1a5d9f783"
shellac
parents:
diff changeset
561 remove_edges_from : remove a collection of edges
26e78fe6e8c4 "planemo upload commit c699937486c35866861690329de38ec1a5d9f783"
shellac
parents:
diff changeset
562
26e78fe6e8c4 "planemo upload commit c699937486c35866861690329de38ec1a5d9f783"
shellac
parents:
diff changeset
563 Examples
26e78fe6e8c4 "planemo upload commit c699937486c35866861690329de38ec1a5d9f783"
shellac
parents:
diff changeset
564 --------
26e78fe6e8c4 "planemo upload commit c699937486c35866861690329de38ec1a5d9f783"
shellac
parents:
diff changeset
565 >>> G = nx.MultiGraph()
26e78fe6e8c4 "planemo upload commit c699937486c35866861690329de38ec1a5d9f783"
shellac
parents:
diff changeset
566 >>> nx.add_path(G, [0, 1, 2, 3])
26e78fe6e8c4 "planemo upload commit c699937486c35866861690329de38ec1a5d9f783"
shellac
parents:
diff changeset
567 >>> G.remove_edge(0, 1)
26e78fe6e8c4 "planemo upload commit c699937486c35866861690329de38ec1a5d9f783"
shellac
parents:
diff changeset
568 >>> e = (1, 2)
26e78fe6e8c4 "planemo upload commit c699937486c35866861690329de38ec1a5d9f783"
shellac
parents:
diff changeset
569 >>> G.remove_edge(*e) # unpacks e from an edge tuple
26e78fe6e8c4 "planemo upload commit c699937486c35866861690329de38ec1a5d9f783"
shellac
parents:
diff changeset
570
26e78fe6e8c4 "planemo upload commit c699937486c35866861690329de38ec1a5d9f783"
shellac
parents:
diff changeset
571 For multiple edges
26e78fe6e8c4 "planemo upload commit c699937486c35866861690329de38ec1a5d9f783"
shellac
parents:
diff changeset
572
26e78fe6e8c4 "planemo upload commit c699937486c35866861690329de38ec1a5d9f783"
shellac
parents:
diff changeset
573 >>> G = nx.MultiGraph() # or MultiDiGraph, etc
26e78fe6e8c4 "planemo upload commit c699937486c35866861690329de38ec1a5d9f783"
shellac
parents:
diff changeset
574 >>> G.add_edges_from([(1, 2), (1, 2), (1, 2)]) # key_list returned
26e78fe6e8c4 "planemo upload commit c699937486c35866861690329de38ec1a5d9f783"
shellac
parents:
diff changeset
575 [0, 1, 2]
26e78fe6e8c4 "planemo upload commit c699937486c35866861690329de38ec1a5d9f783"
shellac
parents:
diff changeset
576 >>> G.remove_edge(1, 2) # remove a single (arbitrary) edge
26e78fe6e8c4 "planemo upload commit c699937486c35866861690329de38ec1a5d9f783"
shellac
parents:
diff changeset
577
26e78fe6e8c4 "planemo upload commit c699937486c35866861690329de38ec1a5d9f783"
shellac
parents:
diff changeset
578 For edges with keys
26e78fe6e8c4 "planemo upload commit c699937486c35866861690329de38ec1a5d9f783"
shellac
parents:
diff changeset
579
26e78fe6e8c4 "planemo upload commit c699937486c35866861690329de38ec1a5d9f783"
shellac
parents:
diff changeset
580 >>> G = nx.MultiGraph() # or MultiDiGraph, etc
26e78fe6e8c4 "planemo upload commit c699937486c35866861690329de38ec1a5d9f783"
shellac
parents:
diff changeset
581 >>> G.add_edge(1, 2, key='first')
26e78fe6e8c4 "planemo upload commit c699937486c35866861690329de38ec1a5d9f783"
shellac
parents:
diff changeset
582 'first'
26e78fe6e8c4 "planemo upload commit c699937486c35866861690329de38ec1a5d9f783"
shellac
parents:
diff changeset
583 >>> G.add_edge(1, 2, key='second')
26e78fe6e8c4 "planemo upload commit c699937486c35866861690329de38ec1a5d9f783"
shellac
parents:
diff changeset
584 'second'
26e78fe6e8c4 "planemo upload commit c699937486c35866861690329de38ec1a5d9f783"
shellac
parents:
diff changeset
585 >>> G.remove_edge(1, 2, key='second')
26e78fe6e8c4 "planemo upload commit c699937486c35866861690329de38ec1a5d9f783"
shellac
parents:
diff changeset
586
26e78fe6e8c4 "planemo upload commit c699937486c35866861690329de38ec1a5d9f783"
shellac
parents:
diff changeset
587 """
26e78fe6e8c4 "planemo upload commit c699937486c35866861690329de38ec1a5d9f783"
shellac
parents:
diff changeset
588 try:
26e78fe6e8c4 "planemo upload commit c699937486c35866861690329de38ec1a5d9f783"
shellac
parents:
diff changeset
589 d = self._adj[u][v]
26e78fe6e8c4 "planemo upload commit c699937486c35866861690329de38ec1a5d9f783"
shellac
parents:
diff changeset
590 except KeyError:
26e78fe6e8c4 "planemo upload commit c699937486c35866861690329de38ec1a5d9f783"
shellac
parents:
diff changeset
591 raise NetworkXError(
26e78fe6e8c4 "planemo upload commit c699937486c35866861690329de38ec1a5d9f783"
shellac
parents:
diff changeset
592 "The edge %s-%s is not in the graph." % (u, v))
26e78fe6e8c4 "planemo upload commit c699937486c35866861690329de38ec1a5d9f783"
shellac
parents:
diff changeset
593 # remove the edge with specified data
26e78fe6e8c4 "planemo upload commit c699937486c35866861690329de38ec1a5d9f783"
shellac
parents:
diff changeset
594 if key is None:
26e78fe6e8c4 "planemo upload commit c699937486c35866861690329de38ec1a5d9f783"
shellac
parents:
diff changeset
595 d.popitem()
26e78fe6e8c4 "planemo upload commit c699937486c35866861690329de38ec1a5d9f783"
shellac
parents:
diff changeset
596 else:
26e78fe6e8c4 "planemo upload commit c699937486c35866861690329de38ec1a5d9f783"
shellac
parents:
diff changeset
597 try:
26e78fe6e8c4 "planemo upload commit c699937486c35866861690329de38ec1a5d9f783"
shellac
parents:
diff changeset
598 del d[key]
26e78fe6e8c4 "planemo upload commit c699937486c35866861690329de38ec1a5d9f783"
shellac
parents:
diff changeset
599 except KeyError:
26e78fe6e8c4 "planemo upload commit c699937486c35866861690329de38ec1a5d9f783"
shellac
parents:
diff changeset
600 msg = "The edge %s-%s with key %s is not in the graph."
26e78fe6e8c4 "planemo upload commit c699937486c35866861690329de38ec1a5d9f783"
shellac
parents:
diff changeset
601 raise NetworkXError(msg % (u, v, key))
26e78fe6e8c4 "planemo upload commit c699937486c35866861690329de38ec1a5d9f783"
shellac
parents:
diff changeset
602 if len(d) == 0:
26e78fe6e8c4 "planemo upload commit c699937486c35866861690329de38ec1a5d9f783"
shellac
parents:
diff changeset
603 # remove the key entries if last edge
26e78fe6e8c4 "planemo upload commit c699937486c35866861690329de38ec1a5d9f783"
shellac
parents:
diff changeset
604 del self._adj[u][v]
26e78fe6e8c4 "planemo upload commit c699937486c35866861690329de38ec1a5d9f783"
shellac
parents:
diff changeset
605 if u != v: # check for selfloop
26e78fe6e8c4 "planemo upload commit c699937486c35866861690329de38ec1a5d9f783"
shellac
parents:
diff changeset
606 del self._adj[v][u]
26e78fe6e8c4 "planemo upload commit c699937486c35866861690329de38ec1a5d9f783"
shellac
parents:
diff changeset
607
26e78fe6e8c4 "planemo upload commit c699937486c35866861690329de38ec1a5d9f783"
shellac
parents:
diff changeset
608 def remove_edges_from(self, ebunch):
26e78fe6e8c4 "planemo upload commit c699937486c35866861690329de38ec1a5d9f783"
shellac
parents:
diff changeset
609 """Remove all edges specified in ebunch.
26e78fe6e8c4 "planemo upload commit c699937486c35866861690329de38ec1a5d9f783"
shellac
parents:
diff changeset
610
26e78fe6e8c4 "planemo upload commit c699937486c35866861690329de38ec1a5d9f783"
shellac
parents:
diff changeset
611 Parameters
26e78fe6e8c4 "planemo upload commit c699937486c35866861690329de38ec1a5d9f783"
shellac
parents:
diff changeset
612 ----------
26e78fe6e8c4 "planemo upload commit c699937486c35866861690329de38ec1a5d9f783"
shellac
parents:
diff changeset
613 ebunch: list or container of edge tuples
26e78fe6e8c4 "planemo upload commit c699937486c35866861690329de38ec1a5d9f783"
shellac
parents:
diff changeset
614 Each edge given in the list or container will be removed
26e78fe6e8c4 "planemo upload commit c699937486c35866861690329de38ec1a5d9f783"
shellac
parents:
diff changeset
615 from the graph. The edges can be:
26e78fe6e8c4 "planemo upload commit c699937486c35866861690329de38ec1a5d9f783"
shellac
parents:
diff changeset
616
26e78fe6e8c4 "planemo upload commit c699937486c35866861690329de38ec1a5d9f783"
shellac
parents:
diff changeset
617 - 2-tuples (u, v) All edges between u and v are removed.
26e78fe6e8c4 "planemo upload commit c699937486c35866861690329de38ec1a5d9f783"
shellac
parents:
diff changeset
618 - 3-tuples (u, v, key) The edge identified by key is removed.
26e78fe6e8c4 "planemo upload commit c699937486c35866861690329de38ec1a5d9f783"
shellac
parents:
diff changeset
619 - 4-tuples (u, v, key, data) where data is ignored.
26e78fe6e8c4 "planemo upload commit c699937486c35866861690329de38ec1a5d9f783"
shellac
parents:
diff changeset
620
26e78fe6e8c4 "planemo upload commit c699937486c35866861690329de38ec1a5d9f783"
shellac
parents:
diff changeset
621 See Also
26e78fe6e8c4 "planemo upload commit c699937486c35866861690329de38ec1a5d9f783"
shellac
parents:
diff changeset
622 --------
26e78fe6e8c4 "planemo upload commit c699937486c35866861690329de38ec1a5d9f783"
shellac
parents:
diff changeset
623 remove_edge : remove a single edge
26e78fe6e8c4 "planemo upload commit c699937486c35866861690329de38ec1a5d9f783"
shellac
parents:
diff changeset
624
26e78fe6e8c4 "planemo upload commit c699937486c35866861690329de38ec1a5d9f783"
shellac
parents:
diff changeset
625 Notes
26e78fe6e8c4 "planemo upload commit c699937486c35866861690329de38ec1a5d9f783"
shellac
parents:
diff changeset
626 -----
26e78fe6e8c4 "planemo upload commit c699937486c35866861690329de38ec1a5d9f783"
shellac
parents:
diff changeset
627 Will fail silently if an edge in ebunch is not in the graph.
26e78fe6e8c4 "planemo upload commit c699937486c35866861690329de38ec1a5d9f783"
shellac
parents:
diff changeset
628
26e78fe6e8c4 "planemo upload commit c699937486c35866861690329de38ec1a5d9f783"
shellac
parents:
diff changeset
629 Examples
26e78fe6e8c4 "planemo upload commit c699937486c35866861690329de38ec1a5d9f783"
shellac
parents:
diff changeset
630 --------
26e78fe6e8c4 "planemo upload commit c699937486c35866861690329de38ec1a5d9f783"
shellac
parents:
diff changeset
631 >>> G = nx.path_graph(4) # or DiGraph, MultiGraph, MultiDiGraph, etc
26e78fe6e8c4 "planemo upload commit c699937486c35866861690329de38ec1a5d9f783"
shellac
parents:
diff changeset
632 >>> ebunch=[(1, 2), (2, 3)]
26e78fe6e8c4 "planemo upload commit c699937486c35866861690329de38ec1a5d9f783"
shellac
parents:
diff changeset
633 >>> G.remove_edges_from(ebunch)
26e78fe6e8c4 "planemo upload commit c699937486c35866861690329de38ec1a5d9f783"
shellac
parents:
diff changeset
634
26e78fe6e8c4 "planemo upload commit c699937486c35866861690329de38ec1a5d9f783"
shellac
parents:
diff changeset
635 Removing multiple copies of edges
26e78fe6e8c4 "planemo upload commit c699937486c35866861690329de38ec1a5d9f783"
shellac
parents:
diff changeset
636
26e78fe6e8c4 "planemo upload commit c699937486c35866861690329de38ec1a5d9f783"
shellac
parents:
diff changeset
637 >>> G = nx.MultiGraph()
26e78fe6e8c4 "planemo upload commit c699937486c35866861690329de38ec1a5d9f783"
shellac
parents:
diff changeset
638 >>> keys = G.add_edges_from([(1, 2), (1, 2), (1, 2)])
26e78fe6e8c4 "planemo upload commit c699937486c35866861690329de38ec1a5d9f783"
shellac
parents:
diff changeset
639 >>> G.remove_edges_from([(1, 2), (1, 2)])
26e78fe6e8c4 "planemo upload commit c699937486c35866861690329de38ec1a5d9f783"
shellac
parents:
diff changeset
640 >>> list(G.edges())
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parents:
diff changeset
641 [(1, 2)]
26e78fe6e8c4 "planemo upload commit c699937486c35866861690329de38ec1a5d9f783"
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parents:
diff changeset
642 >>> G.remove_edges_from([(1, 2), (1, 2)]) # silently ignore extra copy
26e78fe6e8c4 "planemo upload commit c699937486c35866861690329de38ec1a5d9f783"
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parents:
diff changeset
643 >>> list(G.edges) # now empty graph
26e78fe6e8c4 "planemo upload commit c699937486c35866861690329de38ec1a5d9f783"
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parents:
diff changeset
644 []
26e78fe6e8c4 "planemo upload commit c699937486c35866861690329de38ec1a5d9f783"
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parents:
diff changeset
645 """
26e78fe6e8c4 "planemo upload commit c699937486c35866861690329de38ec1a5d9f783"
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parents:
diff changeset
646 for e in ebunch:
26e78fe6e8c4 "planemo upload commit c699937486c35866861690329de38ec1a5d9f783"
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parents:
diff changeset
647 try:
26e78fe6e8c4 "planemo upload commit c699937486c35866861690329de38ec1a5d9f783"
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parents:
diff changeset
648 self.remove_edge(*e[:3])
26e78fe6e8c4 "planemo upload commit c699937486c35866861690329de38ec1a5d9f783"
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parents:
diff changeset
649 except NetworkXError:
26e78fe6e8c4 "planemo upload commit c699937486c35866861690329de38ec1a5d9f783"
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parents:
diff changeset
650 pass
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parents:
diff changeset
651
26e78fe6e8c4 "planemo upload commit c699937486c35866861690329de38ec1a5d9f783"
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parents:
diff changeset
652 def has_edge(self, u, v, key=None):
26e78fe6e8c4 "planemo upload commit c699937486c35866861690329de38ec1a5d9f783"
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parents:
diff changeset
653 """Returns True if the graph has an edge between nodes u and v.
26e78fe6e8c4 "planemo upload commit c699937486c35866861690329de38ec1a5d9f783"
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parents:
diff changeset
654
26e78fe6e8c4 "planemo upload commit c699937486c35866861690329de38ec1a5d9f783"
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parents:
diff changeset
655 This is the same as `v in G[u] or key in G[u][v]`
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parents:
diff changeset
656 without KeyError exceptions.
26e78fe6e8c4 "planemo upload commit c699937486c35866861690329de38ec1a5d9f783"
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parents:
diff changeset
657
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parents:
diff changeset
658 Parameters
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parents:
diff changeset
659 ----------
26e78fe6e8c4 "planemo upload commit c699937486c35866861690329de38ec1a5d9f783"
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parents:
diff changeset
660 u, v : nodes
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parents:
diff changeset
661 Nodes can be, for example, strings or numbers.
26e78fe6e8c4 "planemo upload commit c699937486c35866861690329de38ec1a5d9f783"
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parents:
diff changeset
662
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parents:
diff changeset
663 key : hashable identifier, optional (default=None)
26e78fe6e8c4 "planemo upload commit c699937486c35866861690329de38ec1a5d9f783"
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parents:
diff changeset
664 If specified return True only if the edge with
26e78fe6e8c4 "planemo upload commit c699937486c35866861690329de38ec1a5d9f783"
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parents:
diff changeset
665 key is found.
26e78fe6e8c4 "planemo upload commit c699937486c35866861690329de38ec1a5d9f783"
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parents:
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666
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parents:
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667 Returns
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parents:
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668 -------
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parents:
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669 edge_ind : bool
26e78fe6e8c4 "planemo upload commit c699937486c35866861690329de38ec1a5d9f783"
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diff changeset
670 True if edge is in the graph, False otherwise.
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parents:
diff changeset
671
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parents:
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672 Examples
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parents:
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673 --------
26e78fe6e8c4 "planemo upload commit c699937486c35866861690329de38ec1a5d9f783"
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parents:
diff changeset
674 Can be called either using two nodes u, v, an edge tuple (u, v),
26e78fe6e8c4 "planemo upload commit c699937486c35866861690329de38ec1a5d9f783"
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parents:
diff changeset
675 or an edge tuple (u, v, key).
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diff changeset
676
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diff changeset
677 >>> G = nx.MultiGraph() # or MultiDiGraph
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parents:
diff changeset
678 >>> nx.add_path(G, [0, 1, 2, 3])
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parents:
diff changeset
679 >>> G.has_edge(0, 1) # using two nodes
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parents:
diff changeset
680 True
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parents:
diff changeset
681 >>> e = (0, 1)
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parents:
diff changeset
682 >>> G.has_edge(*e) # e is a 2-tuple (u, v)
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parents:
diff changeset
683 True
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parents:
diff changeset
684 >>> G.add_edge(0, 1, key='a')
26e78fe6e8c4 "planemo upload commit c699937486c35866861690329de38ec1a5d9f783"
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parents:
diff changeset
685 'a'
26e78fe6e8c4 "planemo upload commit c699937486c35866861690329de38ec1a5d9f783"
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parents:
diff changeset
686 >>> G.has_edge(0, 1, key='a') # specify key
26e78fe6e8c4 "planemo upload commit c699937486c35866861690329de38ec1a5d9f783"
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parents:
diff changeset
687 True
26e78fe6e8c4 "planemo upload commit c699937486c35866861690329de38ec1a5d9f783"
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parents:
diff changeset
688 >>> e=(0, 1, 'a')
26e78fe6e8c4 "planemo upload commit c699937486c35866861690329de38ec1a5d9f783"
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parents:
diff changeset
689 >>> G.has_edge(*e) # e is a 3-tuple (u, v, 'a')
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parents:
diff changeset
690 True
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parents:
diff changeset
691
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parents:
diff changeset
692 The following syntax are equivalent:
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parents:
diff changeset
693
26e78fe6e8c4 "planemo upload commit c699937486c35866861690329de38ec1a5d9f783"
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parents:
diff changeset
694 >>> G.has_edge(0, 1)
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parents:
diff changeset
695 True
26e78fe6e8c4 "planemo upload commit c699937486c35866861690329de38ec1a5d9f783"
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parents:
diff changeset
696 >>> 1 in G[0] # though this gives :exc:`KeyError` if 0 not in G
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parents:
diff changeset
697 True
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parents:
diff changeset
698
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parents:
diff changeset
699 """
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parents:
diff changeset
700 try:
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parents:
diff changeset
701 if key is None:
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parents:
diff changeset
702 return v in self._adj[u]
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parents:
diff changeset
703 else:
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parents:
diff changeset
704 return key in self._adj[u][v]
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parents:
diff changeset
705 except KeyError:
26e78fe6e8c4 "planemo upload commit c699937486c35866861690329de38ec1a5d9f783"
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parents:
diff changeset
706 return False
26e78fe6e8c4 "planemo upload commit c699937486c35866861690329de38ec1a5d9f783"
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parents:
diff changeset
707
26e78fe6e8c4 "planemo upload commit c699937486c35866861690329de38ec1a5d9f783"
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parents:
diff changeset
708 @property
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parents:
diff changeset
709 def edges(self):
26e78fe6e8c4 "planemo upload commit c699937486c35866861690329de38ec1a5d9f783"
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parents:
diff changeset
710 """Returns an iterator over the edges.
26e78fe6e8c4 "planemo upload commit c699937486c35866861690329de38ec1a5d9f783"
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parents:
diff changeset
711
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parents:
diff changeset
712 edges(self, nbunch=None, data=False, keys=False, default=None)
26e78fe6e8c4 "planemo upload commit c699937486c35866861690329de38ec1a5d9f783"
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parents:
diff changeset
713
26e78fe6e8c4 "planemo upload commit c699937486c35866861690329de38ec1a5d9f783"
shellac
parents:
diff changeset
714 The EdgeView provides set-like operations on the edge-tuples
26e78fe6e8c4 "planemo upload commit c699937486c35866861690329de38ec1a5d9f783"
shellac
parents:
diff changeset
715 as well as edge attribute lookup. When called, it also provides
26e78fe6e8c4 "planemo upload commit c699937486c35866861690329de38ec1a5d9f783"
shellac
parents:
diff changeset
716 an EdgeDataView object which allows control of access to edge
26e78fe6e8c4 "planemo upload commit c699937486c35866861690329de38ec1a5d9f783"
shellac
parents:
diff changeset
717 attributes (but does not provide set-like operations).
26e78fe6e8c4 "planemo upload commit c699937486c35866861690329de38ec1a5d9f783"
shellac
parents:
diff changeset
718 Hence, `G.edges[u, v]['color']` provides the value of the color
26e78fe6e8c4 "planemo upload commit c699937486c35866861690329de38ec1a5d9f783"
shellac
parents:
diff changeset
719 attribute for edge `(u, v)` while
26e78fe6e8c4 "planemo upload commit c699937486c35866861690329de38ec1a5d9f783"
shellac
parents:
diff changeset
720 `for (u, v, c) in G.edges(data='color', default='red'):`
26e78fe6e8c4 "planemo upload commit c699937486c35866861690329de38ec1a5d9f783"
shellac
parents:
diff changeset
721 iterates through all the edges yielding the color attribute.
26e78fe6e8c4 "planemo upload commit c699937486c35866861690329de38ec1a5d9f783"
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parents:
diff changeset
722
26e78fe6e8c4 "planemo upload commit c699937486c35866861690329de38ec1a5d9f783"
shellac
parents:
diff changeset
723 Edges are returned as tuples with optional data and keys
26e78fe6e8c4 "planemo upload commit c699937486c35866861690329de38ec1a5d9f783"
shellac
parents:
diff changeset
724 in the order (node, neighbor, key, data).
26e78fe6e8c4 "planemo upload commit c699937486c35866861690329de38ec1a5d9f783"
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parents:
diff changeset
725
26e78fe6e8c4 "planemo upload commit c699937486c35866861690329de38ec1a5d9f783"
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parents:
diff changeset
726 Parameters
26e78fe6e8c4 "planemo upload commit c699937486c35866861690329de38ec1a5d9f783"
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parents:
diff changeset
727 ----------
26e78fe6e8c4 "planemo upload commit c699937486c35866861690329de38ec1a5d9f783"
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parents:
diff changeset
728 nbunch : single node, container, or all nodes (default= all nodes)
26e78fe6e8c4 "planemo upload commit c699937486c35866861690329de38ec1a5d9f783"
shellac
parents:
diff changeset
729 The view will only report edges incident to these nodes.
26e78fe6e8c4 "planemo upload commit c699937486c35866861690329de38ec1a5d9f783"
shellac
parents:
diff changeset
730 data : string or bool, optional (default=False)
26e78fe6e8c4 "planemo upload commit c699937486c35866861690329de38ec1a5d9f783"
shellac
parents:
diff changeset
731 The edge attribute returned in 3-tuple (u, v, ddict[data]).
26e78fe6e8c4 "planemo upload commit c699937486c35866861690329de38ec1a5d9f783"
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parents:
diff changeset
732 If True, return edge attribute dict in 3-tuple (u, v, ddict).
26e78fe6e8c4 "planemo upload commit c699937486c35866861690329de38ec1a5d9f783"
shellac
parents:
diff changeset
733 If False, return 2-tuple (u, v).
26e78fe6e8c4 "planemo upload commit c699937486c35866861690329de38ec1a5d9f783"
shellac
parents:
diff changeset
734 keys : bool, optional (default=False)
26e78fe6e8c4 "planemo upload commit c699937486c35866861690329de38ec1a5d9f783"
shellac
parents:
diff changeset
735 If True, return edge keys with each edge.
26e78fe6e8c4 "planemo upload commit c699937486c35866861690329de38ec1a5d9f783"
shellac
parents:
diff changeset
736 default : value, optional (default=None)
26e78fe6e8c4 "planemo upload commit c699937486c35866861690329de38ec1a5d9f783"
shellac
parents:
diff changeset
737 Value used for edges that don't have the requested attribute.
26e78fe6e8c4 "planemo upload commit c699937486c35866861690329de38ec1a5d9f783"
shellac
parents:
diff changeset
738 Only relevant if data is not True or False.
26e78fe6e8c4 "planemo upload commit c699937486c35866861690329de38ec1a5d9f783"
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parents:
diff changeset
739
26e78fe6e8c4 "planemo upload commit c699937486c35866861690329de38ec1a5d9f783"
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parents:
diff changeset
740 Returns
26e78fe6e8c4 "planemo upload commit c699937486c35866861690329de38ec1a5d9f783"
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parents:
diff changeset
741 -------
26e78fe6e8c4 "planemo upload commit c699937486c35866861690329de38ec1a5d9f783"
shellac
parents:
diff changeset
742 edges : MultiEdgeView
26e78fe6e8c4 "planemo upload commit c699937486c35866861690329de38ec1a5d9f783"
shellac
parents:
diff changeset
743 A view of edge attributes, usually it iterates over (u, v)
26e78fe6e8c4 "planemo upload commit c699937486c35866861690329de38ec1a5d9f783"
shellac
parents:
diff changeset
744 (u, v, k) or (u, v, k, d) tuples of edges, but can also be
26e78fe6e8c4 "planemo upload commit c699937486c35866861690329de38ec1a5d9f783"
shellac
parents:
diff changeset
745 used for attribute lookup as `edges[u, v, k]['foo']`.
26e78fe6e8c4 "planemo upload commit c699937486c35866861690329de38ec1a5d9f783"
shellac
parents:
diff changeset
746
26e78fe6e8c4 "planemo upload commit c699937486c35866861690329de38ec1a5d9f783"
shellac
parents:
diff changeset
747 Notes
26e78fe6e8c4 "planemo upload commit c699937486c35866861690329de38ec1a5d9f783"
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parents:
diff changeset
748 -----
26e78fe6e8c4 "planemo upload commit c699937486c35866861690329de38ec1a5d9f783"
shellac
parents:
diff changeset
749 Nodes in nbunch that are not in the graph will be (quietly) ignored.
26e78fe6e8c4 "planemo upload commit c699937486c35866861690329de38ec1a5d9f783"
shellac
parents:
diff changeset
750 For directed graphs this returns the out-edges.
26e78fe6e8c4 "planemo upload commit c699937486c35866861690329de38ec1a5d9f783"
shellac
parents:
diff changeset
751
26e78fe6e8c4 "planemo upload commit c699937486c35866861690329de38ec1a5d9f783"
shellac
parents:
diff changeset
752 Examples
26e78fe6e8c4 "planemo upload commit c699937486c35866861690329de38ec1a5d9f783"
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parents:
diff changeset
753 --------
26e78fe6e8c4 "planemo upload commit c699937486c35866861690329de38ec1a5d9f783"
shellac
parents:
diff changeset
754 >>> G = nx.MultiGraph() # or MultiDiGraph
26e78fe6e8c4 "planemo upload commit c699937486c35866861690329de38ec1a5d9f783"
shellac
parents:
diff changeset
755 >>> nx.add_path(G, [0, 1, 2])
26e78fe6e8c4 "planemo upload commit c699937486c35866861690329de38ec1a5d9f783"
shellac
parents:
diff changeset
756 >>> key = G.add_edge(2, 3, weight=5)
26e78fe6e8c4 "planemo upload commit c699937486c35866861690329de38ec1a5d9f783"
shellac
parents:
diff changeset
757 >>> [e for e in G.edges()]
26e78fe6e8c4 "planemo upload commit c699937486c35866861690329de38ec1a5d9f783"
shellac
parents:
diff changeset
758 [(0, 1), (1, 2), (2, 3)]
26e78fe6e8c4 "planemo upload commit c699937486c35866861690329de38ec1a5d9f783"
shellac
parents:
diff changeset
759 >>> G.edges.data() # default data is {} (empty dict)
26e78fe6e8c4 "planemo upload commit c699937486c35866861690329de38ec1a5d9f783"
shellac
parents:
diff changeset
760 MultiEdgeDataView([(0, 1, {}), (1, 2, {}), (2, 3, {'weight': 5})])
26e78fe6e8c4 "planemo upload commit c699937486c35866861690329de38ec1a5d9f783"
shellac
parents:
diff changeset
761 >>> G.edges.data('weight', default=1)
26e78fe6e8c4 "planemo upload commit c699937486c35866861690329de38ec1a5d9f783"
shellac
parents:
diff changeset
762 MultiEdgeDataView([(0, 1, 1), (1, 2, 1), (2, 3, 5)])
26e78fe6e8c4 "planemo upload commit c699937486c35866861690329de38ec1a5d9f783"
shellac
parents:
diff changeset
763 >>> G.edges(keys=True) # default keys are integers
26e78fe6e8c4 "planemo upload commit c699937486c35866861690329de38ec1a5d9f783"
shellac
parents:
diff changeset
764 MultiEdgeView([(0, 1, 0), (1, 2, 0), (2, 3, 0)])
26e78fe6e8c4 "planemo upload commit c699937486c35866861690329de38ec1a5d9f783"
shellac
parents:
diff changeset
765 >>> G.edges.data(keys=True)
26e78fe6e8c4 "planemo upload commit c699937486c35866861690329de38ec1a5d9f783"
shellac
parents:
diff changeset
766 MultiEdgeDataView([(0, 1, 0, {}), (1, 2, 0, {}), (2, 3, 0, {'weight': 5})])
26e78fe6e8c4 "planemo upload commit c699937486c35866861690329de38ec1a5d9f783"
shellac
parents:
diff changeset
767 >>> G.edges.data('weight', default=1, keys=True)
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768 MultiEdgeDataView([(0, 1, 0, 1), (1, 2, 0, 1), (2, 3, 0, 5)])
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parents:
diff changeset
769 >>> G.edges([0, 3])
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diff changeset
770 MultiEdgeDataView([(0, 1), (3, 2)])
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771 >>> G.edges(0)
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diff changeset
772 MultiEdgeDataView([(0, 1)])
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773 """
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774 return MultiEdgeView(self)
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775
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776 def get_edge_data(self, u, v, key=None, default=None):
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777 """Returns the attribute dictionary associated with edge (u, v).
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778
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diff changeset
779 This is identical to `G[u][v][key]` except the default is returned
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diff changeset
780 instead of an exception is the edge doesn't exist.
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781
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782 Parameters
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783 ----------
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784 u, v : nodes
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785
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786 default : any Python object (default=None)
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787 Value to return if the edge (u, v) is not found.
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788
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789 key : hashable identifier, optional (default=None)
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790 Return data only for the edge with specified key.
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791
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792 Returns
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793 -------
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794 edge_dict : dictionary
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795 The edge attribute dictionary.
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796
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797 Examples
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798 --------
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799 >>> G = nx.MultiGraph() # or MultiDiGraph
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diff changeset
800 >>> key = G.add_edge(0, 1, key='a', weight=7)
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801 >>> G[0][1]['a'] # key='a'
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802 {'weight': 7}
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803 >>> G.edges[0, 1, 'a'] # key='a'
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diff changeset
804 {'weight': 7}
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diff changeset
805
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diff changeset
806 Warning: we protect the graph data structure by making
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diff changeset
807 `G.edges` and `G[1][2]` read-only dict-like structures.
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808 However, you can assign values to attributes in e.g.
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809 `G.edges[1, 2, 'a']` or `G[1][2]['a']` using an additional
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parents:
diff changeset
810 bracket as shown next. You need to specify all edge info
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parents:
diff changeset
811 to assign to the edge data associated with an edge.
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812
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813 >>> G[0][1]['a']['weight'] = 10
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diff changeset
814 >>> G.edges[0, 1, 'a']['weight'] = 10
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815 >>> G[0][1]['a']['weight']
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816 10
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817 >>> G.edges[1, 0, 'a']['weight']
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diff changeset
818 10
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diff changeset
819
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820 >>> G = nx.MultiGraph() # or MultiDiGraph
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diff changeset
821 >>> nx.add_path(G, [0, 1, 2, 3])
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822 >>> G.get_edge_data(0, 1)
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823 {0: {}}
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824 >>> e = (0, 1)
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825 >>> G.get_edge_data(*e) # tuple form
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826 {0: {}}
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827 >>> G.get_edge_data('a', 'b', default=0) # edge not in graph, return 0
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828 0
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829 """
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830 try:
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831 if key is None:
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832 return self._adj[u][v]
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833 else:
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834 return self._adj[u][v][key]
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835 except KeyError:
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836 return default
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837
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838 @property
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diff changeset
839 def degree(self):
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840 """A DegreeView for the Graph as G.degree or G.degree().
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841
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842 The node degree is the number of edges adjacent to the node.
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diff changeset
843 The weighted node degree is the sum of the edge weights for
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diff changeset
844 edges incident to that node.
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845
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846 This object provides an iterator for (node, degree) as well as
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diff changeset
847 lookup for the degree for a single node.
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848
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849 Parameters
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850 ----------
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851 nbunch : single node, container, or all nodes (default= all nodes)
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diff changeset
852 The view will only report edges incident to these nodes.
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853
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854 weight : string or None, optional (default=None)
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diff changeset
855 The name of an edge attribute that holds the numerical value used
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parents:
diff changeset
856 as a weight. If None, then each edge has weight 1.
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diff changeset
857 The degree is the sum of the edge weights adjacent to the node.
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diff changeset
858
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859 Returns
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860 -------
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861 If a single node is requested
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diff changeset
862 deg : int
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diff changeset
863 Degree of the node, if a single node is passed as argument.
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864
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diff changeset
865 OR if multiple nodes are requested
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diff changeset
866 nd_iter : iterator
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diff changeset
867 The iterator returns two-tuples of (node, degree).
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868
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869 Examples
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870 --------
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871 >>> G = nx.Graph() # or DiGraph, MultiGraph, MultiDiGraph, etc
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diff changeset
872 >>> nx.add_path(G, [0, 1, 2, 3])
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873 >>> G.degree(0) # node 0 with degree 1
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874 1
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875 >>> list(G.degree([0, 1]))
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876 [(0, 1), (1, 2)]
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877
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878 """
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879 return MultiDegreeView(self)
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880
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881 def is_multigraph(self):
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diff changeset
882 """Returns True if graph is a multigraph, False otherwise."""
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883 return True
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884
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885 def is_directed(self):
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diff changeset
886 """Returns True if graph is directed, False otherwise."""
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887 return False
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888
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889 def copy(self, as_view=False):
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diff changeset
890 """Returns a copy of the graph.
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diff changeset
891
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892 The copy method by default returns an independent shallow copy
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diff changeset
893 of the graph and attributes. That is, if an attribute is a
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diff changeset
894 container, that container is shared by the original an the copy.
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diff changeset
895 Use Python's `copy.deepcopy` for new containers.
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896
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897 If `as_view` is True then a view is returned instead of a copy.
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898
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diff changeset
899 Notes
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diff changeset
900 -----
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901 All copies reproduce the graph structure, but data attributes
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diff changeset
902 may be handled in different ways. There are four types of copies
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diff changeset
903 of a graph that people might want.
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diff changeset
904
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905 Deepcopy -- A "deepcopy" copies the graph structure as well as
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diff changeset
906 all data attributes and any objects they might contain.
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diff changeset
907 The entire graph object is new so that changes in the copy
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908 do not affect the original object. (see Python's copy.deepcopy)
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diff changeset
909
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910 Data Reference (Shallow) -- For a shallow copy the graph structure
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911 is copied but the edge, node and graph attribute dicts are
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912 references to those in the original graph. This saves
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913 time and memory but could cause confusion if you change an attribute
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914 in one graph and it changes the attribute in the other.
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915 NetworkX does not provide this level of shallow copy.
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916
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917 Independent Shallow -- This copy creates new independent attribute
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918 dicts and then does a shallow copy of the attributes. That is, any
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919 attributes that are containers are shared between the new graph
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920 and the original. This is exactly what `dict.copy()` provides.
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921 You can obtain this style copy using:
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922
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923 >>> G = nx.path_graph(5)
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924 >>> H = G.copy()
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925 >>> H = G.copy(as_view=False)
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926 >>> H = nx.Graph(G)
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927 >>> H = G.__class__(G)
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928
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929 Fresh Data -- For fresh data, the graph structure is copied while
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930 new empty data attribute dicts are created. The resulting graph
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931 is independent of the original and it has no edge, node or graph
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932 attributes. Fresh copies are not enabled. Instead use:
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933
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934 >>> H = G.__class__()
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935 >>> H.add_nodes_from(G)
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936 >>> H.add_edges_from(G.edges)
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937
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938 View -- Inspired by dict-views, graph-views act like read-only
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939 versions of the original graph, providing a copy of the original
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940 structure without requiring any memory for copying the information.
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941
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942 See the Python copy module for more information on shallow
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diff changeset
943 and deep copies, https://docs.python.org/2/library/copy.html.
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944
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945 Parameters
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946 ----------
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947 as_view : bool, optional (default=False)
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948 If True, the returned graph-view provides a read-only view
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949 of the original graph without actually copying any data.
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950
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951 Returns
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952 -------
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953 G : Graph
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954 A copy of the graph.
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955
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956 See Also
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957 --------
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958 to_directed: return a directed copy of the graph.
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959
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960 Examples
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961 --------
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962 >>> G = nx.path_graph(4) # or DiGraph, MultiGraph, MultiDiGraph, etc
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963 >>> H = G.copy()
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964
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965 """
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966 if as_view is True:
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967 return nx.graphviews.generic_graph_view(self)
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968 G = self.__class__()
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969 G.graph.update(self.graph)
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970 G.add_nodes_from((n, d.copy()) for n, d in self._node.items())
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971 G.add_edges_from((u, v, key, datadict.copy())
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972 for u, nbrs in self._adj.items()
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973 for v, keydict in nbrs.items()
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974 for key, datadict in keydict.items())
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975 return G
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976
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977 def to_directed(self, as_view=False):
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978 """Returns a directed representation of the graph.
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979
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980 Returns
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981 -------
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982 G : MultiDiGraph
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983 A directed graph with the same name, same nodes, and with
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984 each edge (u, v, data) replaced by two directed edges
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985 (u, v, data) and (v, u, data).
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986
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987 Notes
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988 -----
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989 This returns a "deepcopy" of the edge, node, and
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990 graph attributes which attempts to completely copy
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991 all of the data and references.
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992
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993 This is in contrast to the similar D=DiGraph(G) which returns a
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994 shallow copy of the data.
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995
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996 See the Python copy module for more information on shallow
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997 and deep copies, https://docs.python.org/2/library/copy.html.
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998
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999 Warning: If you have subclassed MultiGraph to use dict-like objects
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1000 in the data structure, those changes do not transfer to the
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1001 MultiDiGraph created by this method.
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1002
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1003 Examples
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1004 --------
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1005 >>> G = nx.Graph() # or MultiGraph, etc
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1006 >>> G.add_edge(0, 1)
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1007 >>> H = G.to_directed()
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1008 >>> list(H.edges)
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1009 [(0, 1), (1, 0)]
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1010
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1011 If already directed, return a (deep) copy
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1012
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1013 >>> G = nx.DiGraph() # or MultiDiGraph, etc
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1014 >>> G.add_edge(0, 1)
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1015 >>> H = G.to_directed()
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1016 >>> list(H.edges)
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1017 [(0, 1)]
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1018 """
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1019 graph_class = self.to_directed_class()
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1020 if as_view is True:
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1021 return nx.graphviews.generic_graph_view(self, graph_class)
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1022 # deepcopy when not a view
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1023 G = graph_class()
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1024 G.graph.update(deepcopy(self.graph))
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1025 G.add_nodes_from((n, deepcopy(d)) for n, d in self._node.items())
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1026 G.add_edges_from((u, v, key, deepcopy(datadict))
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1027 for u, nbrs in self.adj.items()
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1028 for v, keydict in nbrs.items()
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1029 for key, datadict in keydict.items())
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1030 return G
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1031
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1032 def to_undirected(self, as_view=False):
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1033 """Returns an undirected copy of the graph.
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1034
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1035 Returns
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1036 -------
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1037 G : Graph/MultiGraph
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1038 A deepcopy of the graph.
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1039
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1040 See Also
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1041 --------
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1042 copy, add_edge, add_edges_from
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1043
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1044 Notes
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1045 -----
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1046 This returns a "deepcopy" of the edge, node, and
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1047 graph attributes which attempts to completely copy
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1048 all of the data and references.
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1049
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1050 This is in contrast to the similar `G = nx.MultiGraph(D)`
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1051 which returns a shallow copy of the data.
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1052
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1053 See the Python copy module for more information on shallow
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1054 and deep copies, https://docs.python.org/2/library/copy.html.
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1055
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1056 Warning: If you have subclassed MultiiGraph to use dict-like
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1057 objects in the data structure, those changes do not transfer
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1058 to the MultiGraph created by this method.
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1059
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1060 Examples
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1061 --------
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1062 >>> G = nx.path_graph(2) # or MultiGraph, etc
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1063 >>> H = G.to_directed()
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1064 >>> list(H.edges)
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1065 [(0, 1), (1, 0)]
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1066 >>> G2 = H.to_undirected()
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1067 >>> list(G2.edges)
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1068 [(0, 1)]
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1069 """
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1070 graph_class = self.to_undirected_class()
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1071 if as_view is True:
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1072 return nx.graphviews.generic_graph_view(self, graph_class)
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1073 # deepcopy when not a view
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1074 G = graph_class()
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1075 G.graph.update(deepcopy(self.graph))
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1076 G.add_nodes_from((n, deepcopy(d)) for n, d in self._node.items())
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1077 G.add_edges_from((u, v, key, deepcopy(datadict))
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1078 for u, nbrs in self._adj.items()
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1079 for v, keydict in nbrs.items()
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1080 for key, datadict in keydict.items())
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1081 return G
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1082
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1083 def number_of_edges(self, u=None, v=None):
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1084 """Returns the number of edges between two nodes.
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1085
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1086 Parameters
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1087 ----------
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1088 u, v : nodes, optional (Gefault=all edges)
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1089 If u and v are specified, return the number of edges between
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1090 u and v. Otherwise return the total number of all edges.
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1091
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1092 Returns
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1093 -------
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1094 nedges : int
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1095 The number of edges in the graph. If nodes `u` and `v` are
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1096 specified return the number of edges between those nodes. If
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1097 the graph is directed, this only returns the number of edges
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1098 from `u` to `v`.
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1099
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1100 See Also
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1101 --------
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1102 size
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1103
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1104 Examples
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1105 --------
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1106 For undirected multigraphs, this method counts the total number
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1107 of edges in the graph::
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1108
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1109 >>> G = nx.MultiGraph()
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1110 >>> G.add_edges_from([(0, 1), (0, 1), (1, 2)])
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1111 [0, 1, 0]
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1112 >>> G.number_of_edges()
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1113 3
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1114
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1115 If you specify two nodes, this counts the total number of edges
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1116 joining the two nodes::
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1117
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1118 >>> G.number_of_edges(0, 1)
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1119 2
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1120
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1121 For directed multigraphs, this method can count the total number
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1122 of directed edges from `u` to `v`::
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1123
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1124 >>> G = nx.MultiDiGraph()
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1125 >>> G.add_edges_from([(0, 1), (0, 1), (1, 0)])
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1126 [0, 1, 0]
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1127 >>> G.number_of_edges(0, 1)
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1128 2
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1129 >>> G.number_of_edges(1, 0)
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1130 1
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1131
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1132 """
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1133 if u is None:
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1134 return self.size()
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1135 try:
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1136 edgedata = self._adj[u][v]
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1137 except KeyError:
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1138 return 0 # no such edge
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1139 return len(edgedata)