Mercurial > repos > shellac > sam_consensus_v3
annotate env/lib/python3.9/site-packages/networkx/readwrite/leda.py @ 0:4f3585e2f14b draft default tip
"planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
author | shellac |
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date | Mon, 22 Mar 2021 18:12:50 +0000 |
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1 """ |
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2 Read graphs in LEDA format. |
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3 |
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4 LEDA is a C++ class library for efficient data types and algorithms. |
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5 |
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6 Format |
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7 ------ |
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8 See http://www.algorithmic-solutions.info/leda_guide/graphs/leda_native_graph_fileformat.html |
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9 |
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10 """ |
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11 # Original author: D. Eppstein, UC Irvine, August 12, 2003. |
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12 # The original code at http://www.ics.uci.edu/~eppstein/PADS/ is public domain. |
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13 |
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14 __all__ = ["read_leda", "parse_leda"] |
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15 |
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16 import networkx as nx |
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17 from networkx.exception import NetworkXError |
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18 from networkx.utils import open_file |
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19 |
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20 |
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21 @open_file(0, mode="rb") |
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22 def read_leda(path, encoding="UTF-8"): |
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23 """Read graph in LEDA format from path. |
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24 |
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25 Parameters |
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26 ---------- |
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27 path : file or string |
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28 File or filename to read. Filenames ending in .gz or .bz2 will be |
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29 uncompressed. |
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30 |
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31 Returns |
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32 ------- |
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33 G : NetworkX graph |
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34 |
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35 Examples |
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36 -------- |
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37 G=nx.read_leda('file.leda') |
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38 |
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39 References |
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40 ---------- |
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41 .. [1] http://www.algorithmic-solutions.info/leda_guide/graphs/leda_native_graph_fileformat.html |
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42 """ |
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43 lines = (line.decode(encoding) for line in path) |
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44 G = parse_leda(lines) |
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45 return G |
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46 |
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47 |
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48 def parse_leda(lines): |
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49 """Read graph in LEDA format from string or iterable. |
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50 |
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51 Parameters |
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52 ---------- |
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53 lines : string or iterable |
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54 Data in LEDA format. |
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55 |
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56 Returns |
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57 ------- |
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58 G : NetworkX graph |
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59 |
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60 Examples |
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61 -------- |
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62 G=nx.parse_leda(string) |
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63 |
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64 References |
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65 ---------- |
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66 .. [1] http://www.algorithmic-solutions.info/leda_guide/graphs/leda_native_graph_fileformat.html |
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67 """ |
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68 if isinstance(lines, str): |
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69 lines = iter(lines.split("\n")) |
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70 lines = iter( |
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71 [ |
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72 line.rstrip("\n") |
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73 for line in lines |
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74 if not (line.startswith("#") or line.startswith("\n") or line == "") |
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75 ] |
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76 ) |
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77 for i in range(3): |
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78 next(lines) |
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79 # Graph |
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80 du = int(next(lines)) # -1=directed, -2=undirected |
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81 if du == -1: |
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82 G = nx.DiGraph() |
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83 else: |
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84 G = nx.Graph() |
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85 |
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86 # Nodes |
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87 n = int(next(lines)) # number of nodes |
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88 node = {} |
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89 for i in range(1, n + 1): # LEDA counts from 1 to n |
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90 symbol = next(lines).rstrip().strip("|{}| ") |
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91 if symbol == "": |
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92 symbol = str(i) # use int if no label - could be trouble |
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93 node[i] = symbol |
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94 |
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95 G.add_nodes_from([s for i, s in node.items()]) |
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96 |
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97 # Edges |
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98 m = int(next(lines)) # number of edges |
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99 for i in range(m): |
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100 try: |
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101 s, t, reversal, label = next(lines).split() |
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102 except BaseException as e: |
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103 raise NetworkXError(f"Too few fields in LEDA.GRAPH edge {i+1}") from e |
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104 # BEWARE: no handling of reversal edges |
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105 G.add_edge(node[int(s)], node[int(t)], label=label[2:-2]) |
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106 return G |