annotate planemo/lib/python3.7/site-packages/networkx/__init__.py @ 1:56ad4e20f292 draft

"planemo upload commit 6eee67778febed82ddd413c3ca40b3183a3898f1"
author guerler
date Fri, 31 Jul 2020 00:32:28 -0400
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1
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1 """
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2 NetworkX
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3 ========
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4
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5 NetworkX is a Python package for the creation, manipulation,
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6 and study of the structure, dynamics, and functions
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7 of complex networks.
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8
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9 Website (including documentation)::
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10
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11 http://networkx.github.io
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12
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13 Mailing list::
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14
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15 https://groups.google.com/forum/#!forum/networkx-discuss
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16
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17 Source::
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18
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19 https://github.com/networkx/networkx
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20
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21 Bug reports::
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22
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23 https://github.com/networkx/networkx/issues
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24
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25 Simple example
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26 --------------
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27
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28 Find the shortest path between two nodes in an undirected graph::
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29
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30 >>> import networkx as nx
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31 >>> G = nx.Graph()
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32 >>> G.add_edge('A', 'B', weight=4)
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33 >>> G.add_edge('B', 'D', weight=2)
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34 >>> G.add_edge('A', 'C', weight=3)
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35 >>> G.add_edge('C', 'D', weight=4)
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36 >>> nx.shortest_path(G, 'A', 'D', weight='weight')
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37 ['A', 'B', 'D']
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38
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39 Bugs
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40 ----
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41
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42 Please report any bugs that you find `here <https://github.com/networkx/networkx/issues>`_.
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43 Or, even better, fork the repository on GitHub and create a pull request (PR).
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44
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45 License
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46 -------
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47
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48 Released under the 3-Clause BSD license::
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49
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50 Copyright (C) 2004-2019 NetworkX Developers
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51 Aric Hagberg <hagberg@lanl.gov>
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52 Dan Schult <dschult@colgate.edu>
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53 Pieter Swart <swart@lanl.gov>
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54 """
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55 # Copyright (C) 2004-2019 by
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56 # Aric Hagberg <hagberg@lanl.gov>
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57 # Dan Schult <dschult@colgate.edu>
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58 # Pieter Swart <swart@lanl.gov>
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59 # All rights reserved.
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60 # BSD license.
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61 #
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62 # Add platform dependent shared library path to sys.path
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63 #
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64
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65 import sys
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66 if sys.version_info[:2] < (3, 5):
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67 m = "Python 3.5 or later is required for NetworkX (%d.%d detected)."
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68 raise ImportError(m % sys.version_info[:2])
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69 del sys
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70
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71 # Release data
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72 from networkx import release
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73
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74 __author__ = '%s <%s>\n%s <%s>\n%s <%s>' % \
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75 (release.authors['Hagberg'] + release.authors['Schult'] +
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76 release.authors['Swart'])
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77 __license__ = release.license
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78
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79 __date__ = release.date
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80 __version__ = release.version
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81
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82 __bibtex__ = """@inproceedings{hagberg-2008-exploring,
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83 author = {Aric A. Hagberg and Daniel A. Schult and Pieter J. Swart},
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84 title = {Exploring network structure, dynamics, and function using {NetworkX}},
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85 year = {2008},
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86 month = Aug,
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87 urlpdf = {http://math.lanl.gov/~hagberg/Papers/hagberg-2008-exploring.pdf},
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88 booktitle = {Proceedings of the 7th Python in Science Conference (SciPy2008)},
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89 editors = {G\"{a}el Varoquaux, Travis Vaught, and Jarrod Millman},
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90 address = {Pasadena, CA USA},
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91 pages = {11--15}
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92 }"""
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93
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94 # These are import orderwise
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95 from networkx.exception import *
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96 import networkx.utils
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97
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98 import networkx.classes.filters
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99 import networkx.classes
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100 from networkx.classes import *
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101
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102 import networkx.convert
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103 from networkx.convert import *
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104
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105 import networkx.convert_matrix
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106 from networkx.convert_matrix import *
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107
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108
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109 import networkx.relabel
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110 from networkx.relabel import *
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111
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112 import networkx.generators
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113 from networkx.generators import *
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114
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115 import networkx.readwrite
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116 from networkx.readwrite import *
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117
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118 # Need to test with SciPy, when available
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119 import networkx.algorithms
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120 from networkx.algorithms import *
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121 import networkx.linalg
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122
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123 from networkx.linalg import *
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124 from networkx.testing.test import run as test
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125
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126 import networkx.drawing
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127 from networkx.drawing import *