Mercurial > repos > shellac > sam_consensus_v3

annotate env/lib/python3.9/site-packages/rdflib/graph.py @ 0:4f3585e2f14b draft default tip

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"planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
author shellac
date Mon, 22 Mar 2021 18:12:50 +0000
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1 from __future__ import absolute_import
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2 from __future__ import division
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3 from __future__ import print_function
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4
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5 from rdflib.term import Literal # required for doctests
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6
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7 assert Literal # avoid warning
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8 from rdflib.namespace import Namespace # required for doctests
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9
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10 assert Namespace # avoid warning
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11
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12
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13 __doc__ = """\
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14
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15 RDFLib defines the following kinds of Graphs:
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16
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17 * :class:`~rdflib.graph.Graph`
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18 * :class:`~rdflib.graph.QuotedGraph`
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19 * :class:`~rdflib.graph.ConjunctiveGraph`
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20 * :class:`~rdflib.graph.Dataset`
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21
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22 Graph
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23 -----
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24
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25 An RDF graph is a set of RDF triples. Graphs support the python ``in``
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26 operator, as well as iteration and some operations like union,
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27 difference and intersection.
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28
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29 see :class:`~rdflib.graph.Graph`
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30
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31 Conjunctive Graph
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32 -----------------
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33
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34 A Conjunctive Graph is the most relevant collection of graphs that are
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35 considered to be the boundary for closed world assumptions. This
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36 boundary is equivalent to that of the store instance (which is itself
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37 uniquely identified and distinct from other instances of
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38 :class:`Store` that signify other Conjunctive Graphs). It is
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39 equivalent to all the named graphs within it and associated with a
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40 ``_default_`` graph which is automatically assigned a :class:`BNode`
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41 for an identifier - if one isn't given.
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42
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43 see :class:`~rdflib.graph.ConjunctiveGraph`
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44
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45 Quoted graph
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46 ------------
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47
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48 The notion of an RDF graph [14] is extended to include the concept of
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49 a formula node. A formula node may occur wherever any other kind of
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50 node can appear. Associated with a formula node is an RDF graph that
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51 is completely disjoint from all other graphs; i.e. has no nodes in
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52 common with any other graph. (It may contain the same labels as other
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53 RDF graphs; because this is, by definition, a separate graph,
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54 considerations of tidiness do not apply between the graph at a formula
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55 node and any other graph.)
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56
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57 This is intended to map the idea of "{ N3-expression }" that is used
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58 by N3 into an RDF graph upon which RDF semantics is defined.
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59
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60 see :class:`~rdflib.graph.QuotedGraph`
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61
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62 Dataset
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63 -------
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64
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65 The RDF 1.1 Dataset, a small extension to the Conjunctive Graph. The
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66 primary term is "graphs in the datasets" and not "contexts with quads"
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67 so there is a separate method to set/retrieve a graph in a dataset and
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68 to operate with dataset graphs. As a consequence of this approach,
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69 dataset graphs cannot be identified with blank nodes, a name is always
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70 required (RDFLib will automatically add a name if one is not provided
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71 at creation time). This implementation includes a convenience method
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72 to directly add a single quad to a dataset graph.
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73
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74 see :class:`~rdflib.graph.Dataset`
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75
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76 Working with graphs
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77 ===================
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78
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79 Instantiating Graphs with default store (IOMemory) and default identifier
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80 (a BNode):
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81
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82 >>> g = Graph()
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83 >>> g.store.__class__
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84 <class 'rdflib.plugins.memory.IOMemory'>
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85 >>> g.identifier.__class__
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86 <class 'rdflib.term.BNode'>
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87
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88 Instantiating Graphs with a IOMemory store and an identifier -
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89 <http://rdflib.net>:
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90
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91 >>> g = Graph('IOMemory', URIRef("http://rdflib.net"))
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92 >>> g.identifier
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93 rdflib.term.URIRef('http://rdflib.net')
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94 >>> str(g) # doctest: +NORMALIZE_WHITESPACE
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95 "<http://rdflib.net> a rdfg:Graph;rdflib:storage
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96 [a rdflib:Store;rdfs:label 'IOMemory']."
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97
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98 Creating a ConjunctiveGraph - The top level container for all named Graphs
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99 in a "database":
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100
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101 >>> g = ConjunctiveGraph()
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102 >>> str(g.default_context)
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103 "[a rdfg:Graph;rdflib:storage [a rdflib:Store;rdfs:label 'IOMemory']]."
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104
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105 Adding / removing reified triples to Graph and iterating over it directly or
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106 via triple pattern:
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107
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108 >>> g = Graph()
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109 >>> statementId = BNode()
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110 >>> print(len(g))
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111 0
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112 >>> g.add((statementId, RDF.type, RDF.Statement))
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113 >>> g.add((statementId, RDF.subject,
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114 ... URIRef("http://rdflib.net/store/ConjunctiveGraph")))
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115 >>> g.add((statementId, RDF.predicate, RDFS.label))
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116 >>> g.add((statementId, RDF.object, Literal("Conjunctive Graph")))
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117 >>> print(len(g))
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118 4
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119 >>> for s, p, o in g:
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120 ... print(type(s))
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121 ...
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122 <class 'rdflib.term.BNode'>
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123 <class 'rdflib.term.BNode'>
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124 <class 'rdflib.term.BNode'>
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125 <class 'rdflib.term.BNode'>
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126
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127 >>> for s, p, o in g.triples((None, RDF.object, None)):
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128 ... print(o)
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129 ...
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130 Conjunctive Graph
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131 >>> g.remove((statementId, RDF.type, RDF.Statement))
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132 >>> print(len(g))
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133 3
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134
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135 ``None`` terms in calls to :meth:`~rdflib.graph.Graph.triples` can be
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136 thought of as "open variables".
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137
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138 Graph support set-theoretic operators, you can add/subtract graphs, as
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139 well as intersection (with multiplication operator g1*g2) and xor (g1
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140 ^ g2).
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141
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142 Note that BNode IDs are kept when doing set-theoretic operations, this
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143 may or may not be what you want. Two named graphs within the same
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144 application probably want share BNode IDs, two graphs with data from
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145 different sources probably not. If your BNode IDs are all generated
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146 by RDFLib they are UUIDs and unique.
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147
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148 >>> g1 = Graph()
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149 >>> g2 = Graph()
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150 >>> u = URIRef("http://example.com/foo")
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151 >>> g1.add([u, RDFS.label, Literal("foo")])
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152 >>> g1.add([u, RDFS.label, Literal("bar")])
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153 >>> g2.add([u, RDFS.label, Literal("foo")])
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154 >>> g2.add([u, RDFS.label, Literal("bing")])
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155 >>> len(g1 + g2) # adds bing as label
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156 3
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157 >>> len(g1 - g2) # removes foo
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158 1
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159 >>> len(g1 * g2) # only foo
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160 1
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161 >>> g1 += g2 # now g1 contains everything
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162
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163
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164 Graph Aggregation - ConjunctiveGraphs and ReadOnlyGraphAggregate within
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165 the same store:
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166
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167 >>> store = plugin.get("IOMemory", Store)()
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168 >>> g1 = Graph(store)
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169 >>> g2 = Graph(store)
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170 >>> g3 = Graph(store)
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171 >>> stmt1 = BNode()
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172 >>> stmt2 = BNode()
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173 >>> stmt3 = BNode()
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174 >>> g1.add((stmt1, RDF.type, RDF.Statement))
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175 >>> g1.add((stmt1, RDF.subject,
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176 ... URIRef('http://rdflib.net/store/ConjunctiveGraph')))
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177 >>> g1.add((stmt1, RDF.predicate, RDFS.label))
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178 >>> g1.add((stmt1, RDF.object, Literal('Conjunctive Graph')))
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179 >>> g2.add((stmt2, RDF.type, RDF.Statement))
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180 >>> g2.add((stmt2, RDF.subject,
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181 ... URIRef('http://rdflib.net/store/ConjunctiveGraph')))
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182 >>> g2.add((stmt2, RDF.predicate, RDF.type))
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183 >>> g2.add((stmt2, RDF.object, RDFS.Class))
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184 >>> g3.add((stmt3, RDF.type, RDF.Statement))
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185 >>> g3.add((stmt3, RDF.subject,
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186 ... URIRef('http://rdflib.net/store/ConjunctiveGraph')))
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187 >>> g3.add((stmt3, RDF.predicate, RDFS.comment))
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188 >>> g3.add((stmt3, RDF.object, Literal(
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189 ... 'The top-level aggregate graph - The sum ' +
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190 ... 'of all named graphs within a Store')))
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191 >>> len(list(ConjunctiveGraph(store).subjects(RDF.type, RDF.Statement)))
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192 3
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193 >>> len(list(ReadOnlyGraphAggregate([g1,g2]).subjects(
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194 ... RDF.type, RDF.Statement)))
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195 2
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196
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197 ConjunctiveGraphs have a :meth:`~rdflib.graph.ConjunctiveGraph.quads` method
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198 which returns quads instead of triples, where the fourth item is the Graph
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199 (or subclass thereof) instance in which the triple was asserted:
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200
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201 >>> uniqueGraphNames = set(
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202 ... [graph.identifier for s, p, o, graph in ConjunctiveGraph(store
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203 ... ).quads((None, RDF.predicate, None))])
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204 >>> len(uniqueGraphNames)
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205 3
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206 >>> unionGraph = ReadOnlyGraphAggregate([g1, g2])
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207 >>> uniqueGraphNames = set(
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208 ... [graph.identifier for s, p, o, graph in unionGraph.quads(
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209 ... (None, RDF.predicate, None))])
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210 >>> len(uniqueGraphNames)
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211 2
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212
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213 Parsing N3 from a string
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214
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215 >>> g2 = Graph()
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216 >>> src = '''
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217 ... @prefix rdf: <http://www.w3.org/1999/02/22-rdf-syntax-ns#> .
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218 ... @prefix rdfs: <http://www.w3.org/2000/01/rdf-schema#> .
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219 ... [ a rdf:Statement ;
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220 ... rdf:subject <http://rdflib.net/store#ConjunctiveGraph>;
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221 ... rdf:predicate rdfs:label;
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222 ... rdf:object "Conjunctive Graph" ] .
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223 ... '''
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224 >>> g2 = g2.parse(data=src, format="n3")
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225 >>> print(len(g2))
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226 4
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227
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228 Using Namespace class:
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229
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230 >>> RDFLib = Namespace("http://rdflib.net/")
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231 >>> RDFLib.ConjunctiveGraph
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232 rdflib.term.URIRef('http://rdflib.net/ConjunctiveGraph')
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233 >>> RDFLib["Graph"]
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234 rdflib.term.URIRef('http://rdflib.net/Graph')
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235
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236 """
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237
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238 import logging
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239
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240 logger = logging.getLogger(__name__)
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241
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242 import random
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243 from rdflib.namespace import RDF, RDFS, SKOS
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244 from rdflib import plugin, exceptions, query
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245 from rdflib.term import Node, URIRef, Genid
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246 from rdflib.term import BNode
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247 import rdflib.term
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248 from rdflib.paths import Path
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249 from rdflib.store import Store
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250 from rdflib.serializer import Serializer
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251 from rdflib.parser import Parser
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252 from rdflib.parser import create_input_source
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253 from rdflib.namespace import NamespaceManager
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254 from rdflib.resource import Resource
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255 from rdflib.collection import Collection
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256
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257 import os
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258 import shutil
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259 import tempfile
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260
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261 from six import BytesIO
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262 from six import b
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263 from six.moves.urllib.parse import urlparse
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264
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265 __all__ = [
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266 "Graph",
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267 "ConjunctiveGraph",
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268 "QuotedGraph",
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269 "Seq",
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270 "ModificationException",
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271 "Dataset",
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272 "UnSupportedAggregateOperation",
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273 "ReadOnlyGraphAggregate",
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274 ]
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275
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276
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277 class Graph(Node):
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278 """An RDF Graph
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279
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280 The constructor accepts one argument, the "store"
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281 that will be used to store the graph data (see the "store"
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282 package for stores currently shipped with rdflib).
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283
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284 Stores can be context-aware or unaware. Unaware stores take up
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285 (some) less space but cannot support features that require
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286 context, such as true merging/demerging of sub-graphs and
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287 provenance.
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288
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289 The Graph constructor can take an identifier which identifies the Graph
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290 by name. If none is given, the graph is assigned a BNode for its
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291 identifier.
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292
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293 For more on named graphs, see: http://www.w3.org/2004/03/trix/
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294 """
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295
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296 def __init__(self, store="default", identifier=None, namespace_manager=None, base=None):
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297 super(Graph, self).__init__()
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298 self.base = base
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299 self.__identifier = identifier or BNode()
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300
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301 if not isinstance(self.__identifier, Node):
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302 self.__identifier = URIRef(self.__identifier)
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303
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304 if not isinstance(store, Store):
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305 # TODO: error handling
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306 self.__store = store = plugin.get(store, Store)()
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307 else:
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308 self.__store = store
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309 self.__namespace_manager = namespace_manager
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310 self.context_aware = False
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311 self.formula_aware = False
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312 self.default_union = False
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313
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314 def __get_store(self):
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315 return self.__store
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316
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317 store = property(__get_store) # read-only attr
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318
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319 def __get_identifier(self):
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320 return self.__identifier
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321
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322 identifier = property(__get_identifier) # read-only attr
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323
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324 def _get_namespace_manager(self):
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325 if self.__namespace_manager is None:
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326 self.__namespace_manager = NamespaceManager(self)
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327 return self.__namespace_manager
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328
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329 def _set_namespace_manager(self, nm):
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330 self.__namespace_manager = nm
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331
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332 namespace_manager = property(
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333 _get_namespace_manager,
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334 _set_namespace_manager,
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335 doc="this graph's namespace-manager",
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336 )
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337
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338 def __repr__(self):
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339 return "<Graph identifier=%s (%s)>" % (self.identifier, type(self))
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340
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341 def __str__(self):
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342 if isinstance(self.identifier, URIRef):
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343 return (
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344 "%s a rdfg:Graph;rdflib:storage " + "[a rdflib:Store;rdfs:label '%s']."
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345 ) % (self.identifier.n3(), self.store.__class__.__name__)
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346 else:
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347 return (
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348 "[a rdfg:Graph;rdflib:storage " + "[a rdflib:Store;rdfs:label '%s']]."
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349 ) % self.store.__class__.__name__
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350
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351 def toPython(self):
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352 return self
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353
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354 def destroy(self, configuration):
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355 """Destroy the store identified by `configuration` if supported"""
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356 self.__store.destroy(configuration)
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357
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358 # Transactional interfaces (optional)
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359 def commit(self):
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360 """Commits active transactions"""
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361 self.__store.commit()
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362
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363 def rollback(self):
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364 """Rollback active transactions"""
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365 self.__store.rollback()
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366
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367 def open(self, configuration, create=False):
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368 """Open the graph store
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369
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370 Might be necessary for stores that require opening a connection to a
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371 database or acquiring some resource.
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372 """
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373 return self.__store.open(configuration, create)
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374
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375 def close(self, commit_pending_transaction=False):
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376 """Close the graph store
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377
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378 Might be necessary for stores that require closing a connection to a
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379 database or releasing some resource.
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380 """
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381 self.__store.close(commit_pending_transaction=commit_pending_transaction)
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382
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383 def add(self, triple):
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384 """Add a triple with self as context"""
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385 s, p, o = triple
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386 assert isinstance(s, Node), "Subject %s must be an rdflib term" % (s,)
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387 assert isinstance(p, Node), "Predicate %s must be an rdflib term" % (p,)
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388 assert isinstance(o, Node), "Object %s must be an rdflib term" % (o,)
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389 self.__store.add((s, p, o), self, quoted=False)
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390
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391 def addN(self, quads):
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392 """Add a sequence of triple with context"""
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393
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394 self.__store.addN(
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395 (s, p, o, c)
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396 for s, p, o, c in quads
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397 if isinstance(c, Graph)
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398 and c.identifier is self.identifier
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399 and _assertnode(s, p, o)
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400 )
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401
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402 def remove(self, triple):
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403 """Remove a triple from the graph
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404
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405 If the triple does not provide a context attribute, removes the triple
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406 from all contexts.
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407 """
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408 self.__store.remove(triple, context=self)
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409
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410 def triples(self, triple):
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411 """Generator over the triple store
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412
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413 Returns triples that match the given triple pattern. If triple pattern
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414 does not provide a context, all contexts will be searched.
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415 """
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416 s, p, o = triple
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417 if isinstance(p, Path):
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418 for _s, _o in p.eval(self, s, o):
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419 yield _s, p, _o
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420 else:
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421 for (s, p, o), cg in self.__store.triples((s, p, o), context=self):
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422 yield s, p, o
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423
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424 def __getitem__(self, item):
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425 """
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426 A graph can be "sliced" as a shortcut for the triples method
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427 The python slice syntax is (ab)used for specifying triples.
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428 A generator over matches is returned,
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429 the returned tuples include only the parts not given
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430
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431 >>> import rdflib
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432 >>> g = rdflib.Graph()
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433 >>> g.add((rdflib.URIRef("urn:bob"), rdflib.RDFS.label, rdflib.Literal("Bob")))
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434
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435 >>> list(g[rdflib.URIRef("urn:bob")]) # all triples about bob
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436 [(rdflib.term.URIRef('http://www.w3.org/2000/01/rdf-schema#label'), rdflib.term.Literal('Bob'))]
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437
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438 >>> list(g[:rdflib.RDFS.label]) # all label triples
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439 [(rdflib.term.URIRef('urn:bob'), rdflib.term.Literal('Bob'))]
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440
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441 >>> list(g[::rdflib.Literal("Bob")]) # all triples with bob as object
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442 [(rdflib.term.URIRef('urn:bob'), rdflib.term.URIRef('http://www.w3.org/2000/01/rdf-schema#label'))]
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443
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444 Combined with SPARQL paths, more complex queries can be
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445 written concisely:
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446
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447 Name of all Bobs friends:
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448
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449 g[bob : FOAF.knows/FOAF.name ]
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450
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451 Some label for Bob:
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452
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453 g[bob : DC.title|FOAF.name|RDFS.label]
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454
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455 All friends and friends of friends of Bob
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456
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457 g[bob : FOAF.knows * "+"]
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458
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459 etc.
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460
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461 .. versionadded:: 4.0
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462
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463 """
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464
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465 if isinstance(item, slice):
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466
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467 s, p, o = item.start, item.stop, item.step
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468 if s is None and p is None and o is None:
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469 return self.triples((s, p, o))
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470 elif s is None and p is None:
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471 return self.subject_predicates(o)
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472 elif s is None and o is None:
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473 return self.subject_objects(p)
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474 elif p is None and o is None:
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475 return self.predicate_objects(s)
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476 elif s is None:
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477 return self.subjects(p, o)
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478 elif p is None:
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479 return self.predicates(s, o)
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480 elif o is None:
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481 return self.objects(s, p)
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482 else:
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483 # all given
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484 return (s, p, o) in self
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485
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486 elif isinstance(item, (Path, Node)):
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487
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488 return self.predicate_objects(item)
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489
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490 else:
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491 raise TypeError(
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492 "You can only index a graph by a single rdflib term or path, or a slice of rdflib terms."
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493 )
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494
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495 def __len__(self):
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496 """Returns the number of triples in the graph
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497
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498 If context is specified then the number of triples in the context is
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499 returned instead.
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500 """
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501 return self.__store.__len__(context=self)
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502
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503 def __iter__(self):
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504 """Iterates over all triples in the store"""
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parents:
diff changeset
505 return self.triples((None, None, None))
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parents:
diff changeset
506
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parents:
diff changeset
507 def __contains__(self, triple):
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parents:
diff changeset
508 """Support for 'triple in graph' syntax"""
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parents:
diff changeset
509 for triple in self.triples(triple):
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parents:
diff changeset
510 return True
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parents:
diff changeset
511 return False
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parents:
diff changeset
512
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parents:
diff changeset
513 def __hash__(self):
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parents:
diff changeset
514 return hash(self.identifier)
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parents:
diff changeset
515
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parents:
diff changeset
516 def __cmp__(self, other):
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parents:
diff changeset
517 if other is None:
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parents:
diff changeset
518 return -1
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parents:
diff changeset
519 elif isinstance(other, Graph):
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parents:
diff changeset
520 return (self.identifier > other.identifier) - (
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parents:
diff changeset
521 self.identifier < other.identifier
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parents:
diff changeset
522 )
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parents:
diff changeset
523 else:
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parents:
diff changeset
524 # Note if None is considered equivalent to owl:Nothing
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parents:
diff changeset
525 # Then perhaps a graph with length 0 should be considered
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parents:
diff changeset
526 # equivalent to None (if compared to it)?
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parents:
diff changeset
527 return 1
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parents:
diff changeset
528
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parents:
diff changeset
529 def __eq__(self, other):
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parents:
diff changeset
530 return isinstance(other, Graph) and self.identifier == other.identifier
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parents:
diff changeset
531
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parents:
diff changeset
532 def __lt__(self, other):
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parents:
diff changeset
533 return (other is None) or (
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parents:
diff changeset
534 isinstance(other, Graph) and self.identifier < other.identifier
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parents:
diff changeset
535 )
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parents:
diff changeset
536
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parents:
diff changeset
537 def __le__(self, other):
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parents:
diff changeset
538 return self < other or self == other
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parents:
diff changeset
539
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parents:
diff changeset
540 def __gt__(self, other):
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parents:
diff changeset
541 return (isinstance(other, Graph) and self.identifier > other.identifier) or (
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parents:
diff changeset
542 other is not None
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parents:
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543 )
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parents:
diff changeset
544
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parents:
diff changeset
545 def __ge__(self, other):
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parents:
diff changeset
546 return self > other or self == other
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parents:
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547
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parents:
diff changeset
548 def __iadd__(self, other):
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parents:
diff changeset
549 """Add all triples in Graph other to Graph.
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parents:
diff changeset
550 BNode IDs are not changed."""
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parents:
diff changeset
551 self.addN((s, p, o, self) for s, p, o in other)
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parents:
diff changeset
552 return self
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553
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diff changeset
554 def __isub__(self, other):
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parents:
diff changeset
555 """Subtract all triples in Graph other from Graph.
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parents:
diff changeset
556 BNode IDs are not changed."""
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parents:
diff changeset
557 for triple in other:
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parents:
diff changeset
558 self.remove(triple)
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parents:
diff changeset
559 return self
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parents:
diff changeset
560
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parents:
diff changeset
561 def __add__(self, other):
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parents:
diff changeset
562 """Set-theoretic union
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parents:
diff changeset
563 BNode IDs are not changed."""
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parents:
diff changeset
564 retval = Graph()
4f3585e2f14b "planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
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parents:
diff changeset
565 for (prefix, uri) in set(list(self.namespaces()) + list(other.namespaces())):
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diff changeset
566 retval.bind(prefix, uri)
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567 for x in self:
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568 retval.add(x)
4f3585e2f14b "planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
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parents:
diff changeset
569 for y in other:
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570 retval.add(y)
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diff changeset
571 return retval
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572
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573 def __mul__(self, other):
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diff changeset
574 """Set-theoretic intersection.
4f3585e2f14b "planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
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parents:
diff changeset
575 BNode IDs are not changed."""
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diff changeset
576 retval = Graph()
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diff changeset
577 for x in other:
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parents:
diff changeset
578 if x in self:
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parents:
diff changeset
579 retval.add(x)
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diff changeset
580 return retval
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diff changeset
581
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diff changeset
582 def __sub__(self, other):
4f3585e2f14b "planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
shellac
parents:
diff changeset
583 """Set-theoretic difference.
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shellac
parents:
diff changeset
584 BNode IDs are not changed."""
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diff changeset
585 retval = Graph()
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parents:
diff changeset
586 for x in self:
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parents:
diff changeset
587 if x not in other:
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diff changeset
588 retval.add(x)
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parents:
diff changeset
589 return retval
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diff changeset
590
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diff changeset
591 def __xor__(self, other):
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parents:
diff changeset
592 """Set-theoretic XOR.
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parents:
diff changeset
593 BNode IDs are not changed."""
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parents:
diff changeset
594 return (self - other) + (other - self)
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parents:
diff changeset
595
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parents:
diff changeset
596 __or__ = __add__
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diff changeset
597 __and__ = __mul__
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parents:
diff changeset
598
4f3585e2f14b "planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
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parents:
diff changeset
599 # Conv. methods
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parents:
diff changeset
600
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parents:
diff changeset
601 def set(self, triple):
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parents:
diff changeset
602 """Convenience method to update the value of object
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parents:
diff changeset
603
4f3585e2f14b "planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
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parents:
diff changeset
604 Remove any existing triples for subject and predicate before adding
4f3585e2f14b "planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
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parents:
diff changeset
605 (subject, predicate, object).
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parents:
diff changeset
606 """
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parents:
diff changeset
607 (subject, predicate, object_) = triple
4f3585e2f14b "planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
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parents:
diff changeset
608 assert (
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parents:
diff changeset
609 subject is not None
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parents:
diff changeset
610 ), "s can't be None in .set([s,p,o]), as it would remove (*, p, *)"
4f3585e2f14b "planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
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parents:
diff changeset
611 assert (
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parents:
diff changeset
612 predicate is not None
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613 ), "p can't be None in .set([s,p,o]), as it would remove (s, *, *)"
4f3585e2f14b "planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
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parents:
diff changeset
614 self.remove((subject, predicate, None))
4f3585e2f14b "planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
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parents:
diff changeset
615 self.add((subject, predicate, object_))
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parents:
diff changeset
616
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diff changeset
617 def subjects(self, predicate=None, object=None):
4f3585e2f14b "planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
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diff changeset
618 """A generator of subjects with the given predicate and object"""
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parents:
diff changeset
619 for s, p, o in self.triples((None, predicate, object)):
4f3585e2f14b "planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
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diff changeset
620 yield s
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621
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diff changeset
622 def predicates(self, subject=None, object=None):
4f3585e2f14b "planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
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parents:
diff changeset
623 """A generator of predicates with the given subject and object"""
4f3585e2f14b "planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
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parents:
diff changeset
624 for s, p, o in self.triples((subject, None, object)):
4f3585e2f14b "planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
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parents:
diff changeset
625 yield p
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626
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diff changeset
627 def objects(self, subject=None, predicate=None):
4f3585e2f14b "planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
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diff changeset
628 """A generator of objects with the given subject and predicate"""
4f3585e2f14b "planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
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parents:
diff changeset
629 for s, p, o in self.triples((subject, predicate, None)):
4f3585e2f14b "planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
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parents:
diff changeset
630 yield o
4f3585e2f14b "planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
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parents:
diff changeset
631
4f3585e2f14b "planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
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diff changeset
632 def subject_predicates(self, object=None):
4f3585e2f14b "planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
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parents:
diff changeset
633 """A generator of (subject, predicate) tuples for the given object"""
4f3585e2f14b "planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
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634 for s, p, o in self.triples((None, None, object)):
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diff changeset
635 yield s, p
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636
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diff changeset
637 def subject_objects(self, predicate=None):
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diff changeset
638 """A generator of (subject, object) tuples for the given predicate"""
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diff changeset
639 for s, p, o in self.triples((None, predicate, None)):
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parents:
diff changeset
640 yield s, o
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641
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642 def predicate_objects(self, subject=None):
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diff changeset
643 """A generator of (predicate, object) tuples for the given subject"""
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diff changeset
644 for s, p, o in self.triples((subject, None, None)):
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parents:
diff changeset
645 yield p, o
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parents:
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646
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diff changeset
647 def triples_choices(self, triple, context=None):
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diff changeset
648 subject, predicate, object_ = triple
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diff changeset
649 for (s, p, o), cg in self.store.triples_choices(
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diff changeset
650 (subject, predicate, object_), context=self
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651 ):
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652 yield s, p, o
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parents:
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653
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654 def value(
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655 self, subject=None, predicate=RDF.value, object=None, default=None, any=True
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656 ):
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diff changeset
657 """Get a value for a pair of two criteria
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parents:
diff changeset
658
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659 Exactly one of subject, predicate, object must be None. Useful if one
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parents:
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660 knows that there may only be one value.
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parents:
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661
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662 It is one of those situations that occur a lot, hence this
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663 'macro' like utility
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664
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665 Parameters:
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666 subject, predicate, object -- exactly one must be None
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667 default -- value to be returned if no values found
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668 any -- if True, return any value in the case there is more than one,
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669 else, raise UniquenessError
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670 """
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671 retval = default
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672
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diff changeset
673 if (
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diff changeset
674 (subject is None and predicate is None)
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parents:
diff changeset
675 or (subject is None and object is None)
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parents:
diff changeset
676 or (predicate is None and object is None)
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diff changeset
677 ):
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678 return None
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679
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680 if object is None:
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diff changeset
681 values = self.objects(subject, predicate)
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682 if subject is None:
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683 values = self.subjects(predicate, object)
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684 if predicate is None:
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diff changeset
685 values = self.predicates(subject, object)
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diff changeset
686
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687 try:
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688 retval = next(values)
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diff changeset
689 except StopIteration:
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690 retval = default
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691 else:
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692 if any is False:
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693 try:
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diff changeset
694 next(values)
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diff changeset
695 msg = (
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diff changeset
696 "While trying to find a value for (%s, %s, %s) the"
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diff changeset
697 " following multiple values where found:\n"
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parents:
diff changeset
698 % (subject, predicate, object)
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diff changeset
699 )
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diff changeset
700 triples = self.store.triples((subject, predicate, object), None)
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diff changeset
701 for (s, p, o), contexts in triples:
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diff changeset
702 msg += "(%s, %s, %s)\n (contexts: %s)\n" % (
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parents:
diff changeset
703 s,
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parents:
diff changeset
704 p,
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parents:
diff changeset
705 o,
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parents:
diff changeset
706 list(contexts),
4f3585e2f14b "planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
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parents:
diff changeset
707 )
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parents:
diff changeset
708 raise exceptions.UniquenessError(msg)
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parents:
diff changeset
709 except StopIteration:
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parents:
diff changeset
710 pass
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parents:
diff changeset
711 return retval
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parents:
diff changeset
712
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parents:
diff changeset
713 def label(self, subject, default=""):
4f3585e2f14b "planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
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parents:
diff changeset
714 """Query for the RDFS.label of the subject
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parents:
diff changeset
715
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parents:
diff changeset
716 Return default if no label exists or any label if multiple exist.
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parents:
diff changeset
717 """
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parents:
diff changeset
718 if subject is None:
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parents:
diff changeset
719 return default
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parents:
diff changeset
720 return self.value(subject, RDFS.label, default=default, any=True)
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parents:
diff changeset
721
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parents:
diff changeset
722 def preferredLabel(
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parents:
diff changeset
723 self,
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parents:
diff changeset
724 subject,
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parents:
diff changeset
725 lang=None,
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parents:
diff changeset
726 default=None,
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parents:
diff changeset
727 labelProperties=(SKOS.prefLabel, RDFS.label),
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parents:
diff changeset
728 ):
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parents:
diff changeset
729 """
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parents:
diff changeset
730 Find the preferred label for subject.
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parents:
diff changeset
731
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parents:
diff changeset
732 By default prefers skos:prefLabels over rdfs:labels. In case at least
4f3585e2f14b "planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
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parents:
diff changeset
733 one prefLabel is found returns those, else returns labels. In case a
4f3585e2f14b "planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
shellac
parents:
diff changeset
734 language string (e.g., "en", "de" or even "" for no lang-tagged
4f3585e2f14b "planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
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parents:
diff changeset
735 literals) is given, only such labels will be considered.
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parents:
diff changeset
736
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parents:
diff changeset
737 Return a list of (labelProp, label) pairs, where labelProp is either
4f3585e2f14b "planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
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parents:
diff changeset
738 skos:prefLabel or rdfs:label.
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parents:
diff changeset
739
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parents:
diff changeset
740 >>> from rdflib import ConjunctiveGraph, URIRef, RDFS, Literal
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shellac
parents:
diff changeset
741 >>> from rdflib.namespace import SKOS
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parents:
diff changeset
742 >>> from pprint import pprint
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parents:
diff changeset
743 >>> g = ConjunctiveGraph()
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parents:
diff changeset
744 >>> u = URIRef("http://example.com/foo")
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parents:
diff changeset
745 >>> g.add([u, RDFS.label, Literal("foo")])
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parents:
diff changeset
746 >>> g.add([u, RDFS.label, Literal("bar")])
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parents:
diff changeset
747 >>> pprint(sorted(g.preferredLabel(u)))
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parents:
diff changeset
748 [(rdflib.term.URIRef('http://www.w3.org/2000/01/rdf-schema#label'),
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parents:
diff changeset
749 rdflib.term.Literal('bar')),
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parents:
diff changeset
750 (rdflib.term.URIRef('http://www.w3.org/2000/01/rdf-schema#label'),
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parents:
diff changeset
751 rdflib.term.Literal('foo'))]
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parents:
diff changeset
752 >>> g.add([u, SKOS.prefLabel, Literal("bla")])
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parents:
diff changeset
753 >>> pprint(g.preferredLabel(u))
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parents:
diff changeset
754 [(rdflib.term.URIRef('http://www.w3.org/2004/02/skos/core#prefLabel'),
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parents:
diff changeset
755 rdflib.term.Literal('bla'))]
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parents:
diff changeset
756 >>> g.add([u, SKOS.prefLabel, Literal("blubb", lang="en")])
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parents:
diff changeset
757 >>> sorted(g.preferredLabel(u)) #doctest: +NORMALIZE_WHITESPACE
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parents:
diff changeset
758 [(rdflib.term.URIRef('http://www.w3.org/2004/02/skos/core#prefLabel'),
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parents:
diff changeset
759 rdflib.term.Literal('bla')),
4f3585e2f14b "planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
shellac
parents:
diff changeset
760 (rdflib.term.URIRef('http://www.w3.org/2004/02/skos/core#prefLabel'),
4f3585e2f14b "planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
shellac
parents:
diff changeset
761 rdflib.term.Literal('blubb', lang='en'))]
4f3585e2f14b "planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
shellac
parents:
diff changeset
762 >>> g.preferredLabel(u, lang="") #doctest: +NORMALIZE_WHITESPACE
4f3585e2f14b "planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
shellac
parents:
diff changeset
763 [(rdflib.term.URIRef('http://www.w3.org/2004/02/skos/core#prefLabel'),
4f3585e2f14b "planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
shellac
parents:
diff changeset
764 rdflib.term.Literal('bla'))]
4f3585e2f14b "planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
shellac
parents:
diff changeset
765 >>> pprint(g.preferredLabel(u, lang="en"))
4f3585e2f14b "planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
shellac
parents:
diff changeset
766 [(rdflib.term.URIRef('http://www.w3.org/2004/02/skos/core#prefLabel'),
4f3585e2f14b "planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
shellac
parents:
diff changeset
767 rdflib.term.Literal('blubb', lang='en'))]
4f3585e2f14b "planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
shellac
parents:
diff changeset
768 """
4f3585e2f14b "planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
shellac
parents:
diff changeset
769
4f3585e2f14b "planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
shellac
parents:
diff changeset
770 if default is None:
4f3585e2f14b "planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
shellac
parents:
diff changeset
771 default = []
4f3585e2f14b "planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
shellac
parents:
diff changeset
772
4f3585e2f14b "planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
shellac
parents:
diff changeset
773 # setup the language filtering
4f3585e2f14b "planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
shellac
parents:
diff changeset
774 if lang is not None:
4f3585e2f14b "planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
shellac
parents:
diff changeset
775 if lang == "": # we only want not language-tagged literals
4f3585e2f14b "planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
shellac
parents:
diff changeset
776
4f3585e2f14b "planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
shellac
parents:
diff changeset
777 def langfilter(l):
4f3585e2f14b "planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
shellac
parents:
diff changeset
778 return l.language is None
4f3585e2f14b "planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
shellac
parents:
diff changeset
779
4f3585e2f14b "planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
shellac
parents:
diff changeset
780 else:
4f3585e2f14b "planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
shellac
parents:
diff changeset
781
4f3585e2f14b "planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
shellac
parents:
diff changeset
782 def langfilter(l):
4f3585e2f14b "planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
shellac
parents:
diff changeset
783 return l.language == lang
4f3585e2f14b "planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
shellac
parents:
diff changeset
784
4f3585e2f14b "planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
shellac
parents:
diff changeset
785 else: # we don't care about language tags
4f3585e2f14b "planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
shellac
parents:
diff changeset
786
4f3585e2f14b "planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
shellac
parents:
diff changeset
787 def langfilter(l):
4f3585e2f14b "planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
shellac
parents:
diff changeset
788 return True
4f3585e2f14b "planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
shellac
parents:
diff changeset
789
4f3585e2f14b "planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
shellac
parents:
diff changeset
790 for labelProp in labelProperties:
4f3585e2f14b "planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
shellac
parents:
diff changeset
791 labels = list(filter(langfilter, self.objects(subject, labelProp)))
4f3585e2f14b "planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
shellac
parents:
diff changeset
792 if len(labels) == 0:
4f3585e2f14b "planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
shellac
parents:
diff changeset
793 continue
4f3585e2f14b "planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
shellac
parents:
diff changeset
794 else:
4f3585e2f14b "planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
shellac
parents:
diff changeset
795 return [(labelProp, l) for l in labels]
4f3585e2f14b "planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
shellac
parents:
diff changeset
796 return default
4f3585e2f14b "planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
shellac
parents:
diff changeset
797
4f3585e2f14b "planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
shellac
parents:
diff changeset
798 def comment(self, subject, default=""):
4f3585e2f14b "planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
shellac
parents:
diff changeset
799 """Query for the RDFS.comment of the subject
4f3585e2f14b "planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
shellac
parents:
diff changeset
800
4f3585e2f14b "planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
shellac
parents:
diff changeset
801 Return default if no comment exists
4f3585e2f14b "planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
shellac
parents:
diff changeset
802 """
4f3585e2f14b "planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
shellac
parents:
diff changeset
803 if subject is None:
4f3585e2f14b "planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
shellac
parents:
diff changeset
804 return default
4f3585e2f14b "planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
shellac
parents:
diff changeset
805 return self.value(subject, RDFS.comment, default=default, any=True)
4f3585e2f14b "planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
shellac
parents:
diff changeset
806
4f3585e2f14b "planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
shellac
parents:
diff changeset
807 def items(self, list):
4f3585e2f14b "planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
shellac
parents:
diff changeset
808 """Generator over all items in the resource specified by list
4f3585e2f14b "planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
shellac
parents:
diff changeset
809
4f3585e2f14b "planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
shellac
parents:
diff changeset
810 list is an RDF collection.
4f3585e2f14b "planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
shellac
parents:
diff changeset
811 """
4f3585e2f14b "planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
shellac
parents:
diff changeset
812 chain = set([list])
4f3585e2f14b "planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
shellac
parents:
diff changeset
813 while list:
4f3585e2f14b "planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
shellac
parents:
diff changeset
814 item = self.value(list, RDF.first)
4f3585e2f14b "planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
shellac
parents:
diff changeset
815 if item is not None:
4f3585e2f14b "planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
shellac
parents:
diff changeset
816 yield item
4f3585e2f14b "planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
shellac
parents:
diff changeset
817 list = self.value(list, RDF.rest)
4f3585e2f14b "planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
shellac
parents:
diff changeset
818 if list in chain:
4f3585e2f14b "planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
shellac
parents:
diff changeset
819 raise ValueError("List contains a recursive rdf:rest reference")
4f3585e2f14b "planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
shellac
parents:
diff changeset
820 chain.add(list)
4f3585e2f14b "planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
shellac
parents:
diff changeset
821
4f3585e2f14b "planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
shellac
parents:
diff changeset
822 def transitiveClosure(self, func, arg, seen=None):
4f3585e2f14b "planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
shellac
parents:
diff changeset
823 """
4f3585e2f14b "planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
shellac
parents:
diff changeset
824 Generates transitive closure of a user-defined
4f3585e2f14b "planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
shellac
parents:
diff changeset
825 function against the graph
4f3585e2f14b "planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
shellac
parents:
diff changeset
826
4f3585e2f14b "planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
shellac
parents:
diff changeset
827 >>> from rdflib.collection import Collection
4f3585e2f14b "planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
shellac
parents:
diff changeset
828 >>> g=Graph()
4f3585e2f14b "planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
shellac
parents:
diff changeset
829 >>> a=BNode("foo")
4f3585e2f14b "planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
shellac
parents:
diff changeset
830 >>> b=BNode("bar")
4f3585e2f14b "planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
shellac
parents:
diff changeset
831 >>> c=BNode("baz")
4f3585e2f14b "planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
shellac
parents:
diff changeset
832 >>> g.add((a,RDF.first,RDF.type))
4f3585e2f14b "planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
shellac
parents:
diff changeset
833 >>> g.add((a,RDF.rest,b))
4f3585e2f14b "planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
shellac
parents:
diff changeset
834 >>> g.add((b,RDF.first,RDFS.label))
4f3585e2f14b "planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
shellac
parents:
diff changeset
835 >>> g.add((b,RDF.rest,c))
4f3585e2f14b "planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
shellac
parents:
diff changeset
836 >>> g.add((c,RDF.first,RDFS.comment))
4f3585e2f14b "planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
shellac
parents:
diff changeset
837 >>> g.add((c,RDF.rest,RDF.nil))
4f3585e2f14b "planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
shellac
parents:
diff changeset
838 >>> def topList(node,g):
4f3585e2f14b "planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
shellac
parents:
diff changeset
839 ... for s in g.subjects(RDF.rest, node):
4f3585e2f14b "planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
shellac
parents:
diff changeset
840 ... yield s
4f3585e2f14b "planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
shellac
parents:
diff changeset
841 >>> def reverseList(node,g):
4f3585e2f14b "planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
shellac
parents:
diff changeset
842 ... for f in g.objects(node, RDF.first):
4f3585e2f14b "planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
shellac
parents:
diff changeset
843 ... print(f)
4f3585e2f14b "planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
shellac
parents:
diff changeset
844 ... for s in g.subjects(RDF.rest, node):
4f3585e2f14b "planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
shellac
parents:
diff changeset
845 ... yield s
4f3585e2f14b "planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
shellac
parents:
diff changeset
846
4f3585e2f14b "planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
shellac
parents:
diff changeset
847 >>> [rt for rt in g.transitiveClosure(
4f3585e2f14b "planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
shellac
parents:
diff changeset
848 ... topList,RDF.nil)] # doctest: +NORMALIZE_WHITESPACE
4f3585e2f14b "planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
shellac
parents:
diff changeset
849 [rdflib.term.BNode('baz'),
4f3585e2f14b "planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
shellac
parents:
diff changeset
850 rdflib.term.BNode('bar'),
4f3585e2f14b "planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
shellac
parents:
diff changeset
851 rdflib.term.BNode('foo')]
4f3585e2f14b "planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
shellac
parents:
diff changeset
852
4f3585e2f14b "planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
shellac
parents:
diff changeset
853 >>> [rt for rt in g.transitiveClosure(
4f3585e2f14b "planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
shellac
parents:
diff changeset
854 ... reverseList,RDF.nil)] # doctest: +NORMALIZE_WHITESPACE
4f3585e2f14b "planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
shellac
parents:
diff changeset
855 http://www.w3.org/2000/01/rdf-schema#comment
4f3585e2f14b "planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
shellac
parents:
diff changeset
856 http://www.w3.org/2000/01/rdf-schema#label
4f3585e2f14b "planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
shellac
parents:
diff changeset
857 http://www.w3.org/1999/02/22-rdf-syntax-ns#type
4f3585e2f14b "planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
shellac
parents:
diff changeset
858 [rdflib.term.BNode('baz'),
4f3585e2f14b "planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
shellac
parents:
diff changeset
859 rdflib.term.BNode('bar'),
4f3585e2f14b "planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
shellac
parents:
diff changeset
860 rdflib.term.BNode('foo')]
4f3585e2f14b "planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
shellac
parents:
diff changeset
861
4f3585e2f14b "planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
shellac
parents:
diff changeset
862 """
4f3585e2f14b "planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
shellac
parents:
diff changeset
863 if seen is None:
4f3585e2f14b "planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
shellac
parents:
diff changeset
864 seen = {}
4f3585e2f14b "planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
shellac
parents:
diff changeset
865 elif arg in seen:
4f3585e2f14b "planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
shellac
parents:
diff changeset
866 return
4f3585e2f14b "planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
shellac
parents:
diff changeset
867 seen[arg] = 1
4f3585e2f14b "planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
shellac
parents:
diff changeset
868 for rt in func(arg, self):
4f3585e2f14b "planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
shellac
parents:
diff changeset
869 yield rt
4f3585e2f14b "planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
shellac
parents:
diff changeset
870 for rt_2 in self.transitiveClosure(func, rt, seen):
4f3585e2f14b "planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
shellac
parents:
diff changeset
871 yield rt_2
4f3585e2f14b "planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
shellac
parents:
diff changeset
872
4f3585e2f14b "planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
shellac
parents:
diff changeset
873 def transitive_objects(self, subject, property, remember=None):
4f3585e2f14b "planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
shellac
parents:
diff changeset
874 """Transitively generate objects for the ``property`` relationship
4f3585e2f14b "planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
shellac
parents:
diff changeset
875
4f3585e2f14b "planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
shellac
parents:
diff changeset
876 Generated objects belong to the depth first transitive closure of the
4f3585e2f14b "planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
shellac
parents:
diff changeset
877 ``property`` relationship starting at ``subject``.
4f3585e2f14b "planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
shellac
parents:
diff changeset
878 """
4f3585e2f14b "planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
shellac
parents:
diff changeset
879 if remember is None:
4f3585e2f14b "planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
shellac
parents:
diff changeset
880 remember = {}
4f3585e2f14b "planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
shellac
parents:
diff changeset
881 if subject in remember:
4f3585e2f14b "planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
shellac
parents:
diff changeset
882 return
4f3585e2f14b "planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
shellac
parents:
diff changeset
883 remember[subject] = 1
4f3585e2f14b "planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
shellac
parents:
diff changeset
884 yield subject
4f3585e2f14b "planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
shellac
parents:
diff changeset
885 for object in self.objects(subject, property):
4f3585e2f14b "planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
shellac
parents:
diff changeset
886 for o in self.transitive_objects(object, property, remember):
4f3585e2f14b "planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
shellac
parents:
diff changeset
887 yield o
4f3585e2f14b "planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
shellac
parents:
diff changeset
888
4f3585e2f14b "planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
shellac
parents:
diff changeset
889 def transitive_subjects(self, predicate, object, remember=None):
4f3585e2f14b "planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
shellac
parents:
diff changeset
890 """Transitively generate objects for the ``property`` relationship
4f3585e2f14b "planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
shellac
parents:
diff changeset
891
4f3585e2f14b "planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
shellac
parents:
diff changeset
892 Generated objects belong to the depth first transitive closure of the
4f3585e2f14b "planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
shellac
parents:
diff changeset
893 ``property`` relationship starting at ``subject``.
4f3585e2f14b "planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
shellac
parents:
diff changeset
894 """
4f3585e2f14b "planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
shellac
parents:
diff changeset
895 if remember is None:
4f3585e2f14b "planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
shellac
parents:
diff changeset
896 remember = {}
4f3585e2f14b "planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
shellac
parents:
diff changeset
897 if object in remember:
4f3585e2f14b "planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
shellac
parents:
diff changeset
898 return
4f3585e2f14b "planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
shellac
parents:
diff changeset
899 remember[object] = 1
4f3585e2f14b "planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
shellac
parents:
diff changeset
900 yield object
4f3585e2f14b "planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
shellac
parents:
diff changeset
901 for subject in self.subjects(predicate, object):
4f3585e2f14b "planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
shellac
parents:
diff changeset
902 for s in self.transitive_subjects(predicate, subject, remember):
4f3585e2f14b "planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
shellac
parents:
diff changeset
903 yield s
4f3585e2f14b "planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
shellac
parents:
diff changeset
904
4f3585e2f14b "planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
shellac
parents:
diff changeset
905 def seq(self, subject):
4f3585e2f14b "planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
shellac
parents:
diff changeset
906 """Check if subject is an rdf:Seq
4f3585e2f14b "planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
shellac
parents:
diff changeset
907
4f3585e2f14b "planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
shellac
parents:
diff changeset
908 If yes, it returns a Seq class instance, None otherwise.
4f3585e2f14b "planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
shellac
parents:
diff changeset
909 """
4f3585e2f14b "planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
shellac
parents:
diff changeset
910 if (subject, RDF.type, RDF.Seq) in self:
4f3585e2f14b "planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
shellac
parents:
diff changeset
911 return Seq(self, subject)
4f3585e2f14b "planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
shellac
parents:
diff changeset
912 else:
4f3585e2f14b "planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
shellac
parents:
diff changeset
913 return None
4f3585e2f14b "planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
shellac
parents:
diff changeset
914
4f3585e2f14b "planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
shellac
parents:
diff changeset
915 def qname(self, uri):
4f3585e2f14b "planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
shellac
parents:
diff changeset
916 return self.namespace_manager.qname(uri)
4f3585e2f14b "planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
shellac
parents:
diff changeset
917
4f3585e2f14b "planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
shellac
parents:
diff changeset
918 def compute_qname(self, uri, generate=True):
4f3585e2f14b "planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
shellac
parents:
diff changeset
919 return self.namespace_manager.compute_qname(uri, generate)
4f3585e2f14b "planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
shellac
parents:
diff changeset
920
4f3585e2f14b "planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
shellac
parents:
diff changeset
921 def bind(self, prefix, namespace, override=True, replace=False):
4f3585e2f14b "planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
shellac
parents:
diff changeset
922 """Bind prefix to namespace
4f3585e2f14b "planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
shellac
parents:
diff changeset
923
4f3585e2f14b "planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
shellac
parents:
diff changeset
924 If override is True will bind namespace to given prefix even
4f3585e2f14b "planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
shellac
parents:
diff changeset
925 if namespace was already bound to a different prefix.
4f3585e2f14b "planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
shellac
parents:
diff changeset
926
4f3585e2f14b "planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
shellac
parents:
diff changeset
927 if replace, replace any existing prefix with the new namespace
4f3585e2f14b "planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
shellac
parents:
diff changeset
928
4f3585e2f14b "planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
shellac
parents:
diff changeset
929 for example: graph.bind("foaf", "http://xmlns.com/foaf/0.1/")
4f3585e2f14b "planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
shellac
parents:
diff changeset
930
4f3585e2f14b "planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
shellac
parents:
diff changeset
931 """
4f3585e2f14b "planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
shellac
parents:
diff changeset
932 return self.namespace_manager.bind(
4f3585e2f14b "planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
shellac
parents:
diff changeset
933 prefix, namespace, override=override, replace=replace
4f3585e2f14b "planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
shellac
parents:
diff changeset
934 )
4f3585e2f14b "planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
shellac
parents:
diff changeset
935
4f3585e2f14b "planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
shellac
parents:
diff changeset
936 def namespaces(self):
4f3585e2f14b "planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
shellac
parents:
diff changeset
937 """Generator over all the prefix, namespace tuples"""
4f3585e2f14b "planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
shellac
parents:
diff changeset
938 for prefix, namespace in self.namespace_manager.namespaces():
4f3585e2f14b "planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
shellac
parents:
diff changeset
939 yield prefix, namespace
4f3585e2f14b "planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
shellac
parents:
diff changeset
940
4f3585e2f14b "planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
shellac
parents:
diff changeset
941 def absolutize(self, uri, defrag=1):
4f3585e2f14b "planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
shellac
parents:
diff changeset
942 """Turn uri into an absolute URI if it's not one already"""
4f3585e2f14b "planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
shellac
parents:
diff changeset
943 return self.namespace_manager.absolutize(uri, defrag)
4f3585e2f14b "planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
shellac
parents:
diff changeset
944
4f3585e2f14b "planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
shellac
parents:
diff changeset
945 def serialize(
4f3585e2f14b "planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
shellac
parents:
diff changeset
946 self, destination=None, format="xml", base=None, encoding=None, **args
4f3585e2f14b "planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
shellac
parents:
diff changeset
947 ):
4f3585e2f14b "planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
shellac
parents:
diff changeset
948 """Serialize the Graph to destination
4f3585e2f14b "planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
shellac
parents:
diff changeset
949
4f3585e2f14b "planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
shellac
parents:
diff changeset
950 If destination is None serialize method returns the serialization as a
4f3585e2f14b "planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
shellac
parents:
diff changeset
951 string. Format defaults to xml (AKA rdf/xml).
4f3585e2f14b "planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
shellac
parents:
diff changeset
952
4f3585e2f14b "planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
shellac
parents:
diff changeset
953 Format support can be extended with plugins,
4f3585e2f14b "planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
shellac
parents:
diff changeset
954 but "xml", "n3", "turtle", "nt", "pretty-xml", "trix", "trig" and "nquads" are built in.
4f3585e2f14b "planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
shellac
parents:
diff changeset
955 """
4f3585e2f14b "planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
shellac
parents:
diff changeset
956
4f3585e2f14b "planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
shellac
parents:
diff changeset
957 # if base is not given as attribute use the base set for the graph
4f3585e2f14b "planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
shellac
parents:
diff changeset
958 if base is None:
4f3585e2f14b "planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
shellac
parents:
diff changeset
959 base = self.base
4f3585e2f14b "planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
shellac
parents:
diff changeset
960
4f3585e2f14b "planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
shellac
parents:
diff changeset
961 serializer = plugin.get(format, Serializer)(self)
4f3585e2f14b "planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
shellac
parents:
diff changeset
962 if destination is None:
4f3585e2f14b "planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
shellac
parents:
diff changeset
963 stream = BytesIO()
4f3585e2f14b "planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
shellac
parents:
diff changeset
964 serializer.serialize(stream, base=base, encoding=encoding, **args)
4f3585e2f14b "planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
shellac
parents:
diff changeset
965 return stream.getvalue()
4f3585e2f14b "planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
shellac
parents:
diff changeset
966 if hasattr(destination, "write"):
4f3585e2f14b "planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
shellac
parents:
diff changeset
967 stream = destination
4f3585e2f14b "planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
shellac
parents:
diff changeset
968 serializer.serialize(stream, base=base, encoding=encoding, **args)
4f3585e2f14b "planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
shellac
parents:
diff changeset
969 else:
4f3585e2f14b "planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
shellac
parents:
diff changeset
970 location = destination
4f3585e2f14b "planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
shellac
parents:
diff changeset
971 scheme, netloc, path, params, _query, fragment = urlparse(location)
4f3585e2f14b "planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
shellac
parents:
diff changeset
972 if netloc != "":
4f3585e2f14b "planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
shellac
parents:
diff changeset
973 print(
4f3585e2f14b "planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
shellac
parents:
diff changeset
974 "WARNING: not saving as location" + "is not a local file reference"
4f3585e2f14b "planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
shellac
parents:
diff changeset
975 )
4f3585e2f14b "planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
shellac
parents:
diff changeset
976 return
4f3585e2f14b "planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
shellac
parents:
diff changeset
977 fd, name = tempfile.mkstemp()
4f3585e2f14b "planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
shellac
parents:
diff changeset
978 stream = os.fdopen(fd, "wb")
4f3585e2f14b "planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
shellac
parents:
diff changeset
979 serializer.serialize(stream, base=base, encoding=encoding, **args)
4f3585e2f14b "planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
shellac
parents:
diff changeset
980 stream.close()
4f3585e2f14b "planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
shellac
parents:
diff changeset
981 if hasattr(shutil, "move"):
4f3585e2f14b "planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
shellac
parents:
diff changeset
982 shutil.move(name, path)
4f3585e2f14b "planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
shellac
parents:
diff changeset
983 else:
4f3585e2f14b "planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
shellac
parents:
diff changeset
984 shutil.copy(name, path)
4f3585e2f14b "planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
shellac
parents:
diff changeset
985 os.remove(name)
4f3585e2f14b "planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
shellac
parents:
diff changeset
986
4f3585e2f14b "planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
shellac
parents:
diff changeset
987 def parse(
4f3585e2f14b "planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
shellac
parents:
diff changeset
988 self,
4f3585e2f14b "planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
shellac
parents:
diff changeset
989 source=None,
4f3585e2f14b "planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
shellac
parents:
diff changeset
990 publicID=None,
4f3585e2f14b "planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
shellac
parents:
diff changeset
991 format=None,
4f3585e2f14b "planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
shellac
parents:
diff changeset
992 location=None,
4f3585e2f14b "planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
shellac
parents:
diff changeset
993 file=None,
4f3585e2f14b "planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
shellac
parents:
diff changeset
994 data=None,
4f3585e2f14b "planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
shellac
parents:
diff changeset
995 **args
4f3585e2f14b "planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
shellac
parents:
diff changeset
996 ):
4f3585e2f14b "planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
shellac
parents:
diff changeset
997 """
4f3585e2f14b "planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
shellac
parents:
diff changeset
998 Parse source adding the resulting triples to the Graph.
4f3585e2f14b "planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
shellac
parents:
diff changeset
999
4f3585e2f14b "planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
shellac
parents:
diff changeset
1000 The source is specified using one of source, location, file or
4f3585e2f14b "planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
shellac
parents:
diff changeset
1001 data.
4f3585e2f14b "planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
shellac
parents:
diff changeset
1002
4f3585e2f14b "planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
shellac
parents:
diff changeset
1003 :Parameters:
4f3585e2f14b "planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
shellac
parents:
diff changeset
1004
4f3585e2f14b "planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
shellac
parents:
diff changeset
1005 - `source`: An InputSource, file-like object, or string. In the case
4f3585e2f14b "planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
shellac
parents:
diff changeset
1006 of a string the string is the location of the source.
4f3585e2f14b "planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
shellac
parents:
diff changeset
1007 - `location`: A string indicating the relative or absolute URL of the
4f3585e2f14b "planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
shellac
parents:
diff changeset
1008 source. Graph's absolutize method is used if a relative location
4f3585e2f14b "planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
shellac
parents:
diff changeset
1009 is specified.
4f3585e2f14b "planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
shellac
parents:
diff changeset
1010 - `file`: A file-like object.
4f3585e2f14b "planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
shellac
parents:
diff changeset
1011 - `data`: A string containing the data to be parsed.
4f3585e2f14b "planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
shellac
parents:
diff changeset
1012 - `format`: Used if format can not be determined from source.
4f3585e2f14b "planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
shellac
parents:
diff changeset
1013 Defaults to rdf/xml. Format support can be extended with plugins,
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1014 but "xml", "n3", "nt" & "trix" are built in.
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1015 - `publicID`: the logical URI to use as the document base. If None
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1016 specified the document location is used (at least in the case where
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1017 there is a document location).
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1018
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1019 :Returns:
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1020
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1021 - self, the graph instance.
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1022
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1023 Examples:
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1024
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1025 >>> my_data = '''
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1026 ... <rdf:RDF
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1027 ... xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#"
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1028 ... xmlns:rdfs="http://www.w3.org/2000/01/rdf-schema#"
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1029 ... >
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1030 ... <rdf:Description>
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1031 ... <rdfs:label>Example</rdfs:label>
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1032 ... <rdfs:comment>This is really just an example.</rdfs:comment>
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1033 ... </rdf:Description>
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1034 ... </rdf:RDF>
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1035 ... '''
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1036 >>> import tempfile
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1037 >>> fd, file_name = tempfile.mkstemp()
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1038 >>> f = os.fdopen(fd, "w")
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1039 >>> dummy = f.write(my_data) # Returns num bytes written on py3
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1040 >>> f.close()
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1041
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1042 >>> g = Graph()
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1043 >>> result = g.parse(data=my_data, format="application/rdf+xml")
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1044 >>> len(g)
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1045 2
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1046
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1047 >>> g = Graph()
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1048 >>> result = g.parse(location=file_name, format="application/rdf+xml")
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1049 >>> len(g)
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1050 2
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1051
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1052 >>> g = Graph()
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1053 >>> with open(file_name, "r") as f:
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1054 ... result = g.parse(f, format="application/rdf+xml")
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1055 >>> len(g)
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1056 2
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1057
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1058 >>> os.remove(file_name)
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1059
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1060 """
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1061
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1062 source = create_input_source(
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1063 source=source,
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1064 publicID=publicID,
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1065 location=location,
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1066 file=file,
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1067 data=data,
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1068 format=format,
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1069 )
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1070 if format is None:
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1071 format = source.content_type
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1072 if format is None:
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1073 # raise Exception("Could not determine format for %r. You can" + \
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1074 # "expicitly specify one with the format argument." % source)
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1075 format = "application/rdf+xml"
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1076 parser = plugin.get(format, Parser)()
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1077 try:
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1078 parser.parse(source, self, **args)
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1079 finally:
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1080 if source.auto_close:
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1081 source.close()
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1082 return self
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1083
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1084 def load(self, source, publicID=None, format="xml"):
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1085 self.parse(source, publicID, format)
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1086
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1087 def query(
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1088 self,
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1089 query_object,
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1090 processor="sparql",
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1091 result="sparql",
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1092 initNs=None,
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1093 initBindings=None,
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1094 use_store_provided=True,
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1095 **kwargs
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1096 ):
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1097 """
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1098 Query this graph.
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1099
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1100 A type of 'prepared queries' can be realised by providing
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1101 initial variable bindings with initBindings
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1102
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1103 Initial namespaces are used to resolve prefixes used in the query,
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1104 if none are given, the namespaces from the graph's namespace manager
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1105 are used.
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1106
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1107 :returntype: rdflib.query.QueryResult
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1108
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1109 """
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1110
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1111 initBindings = initBindings or {}
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1112 initNs = initNs or dict(self.namespaces())
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1113
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1114 if hasattr(self.store, "query") and use_store_provided:
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1115 try:
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1116 return self.store.query(
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1117 query_object,
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1118 initNs,
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1119 initBindings,
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1120 self.default_union and "__UNION__" or self.identifier,
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1121 **kwargs
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1122 )
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1123 except NotImplementedError:
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1124 pass # store has no own implementation
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1125
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1126 if not isinstance(result, query.Result):
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1127 result = plugin.get(result, query.Result)
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1128 if not isinstance(processor, query.Processor):
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1129 processor = plugin.get(processor, query.Processor)(self)
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1130
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1131 return result(processor.query(query_object, initBindings, initNs, **kwargs))
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1132
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1133 def update(
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1134 self,
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1135 update_object,
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1136 processor="sparql",
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1137 initNs=None,
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1138 initBindings=None,
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1139 use_store_provided=True,
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1140 **kwargs
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1141 ):
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shellac
parents:
diff changeset
1142 """Update this graph with the given update query."""
4f3585e2f14b "planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
shellac
parents:
diff changeset
1143 initBindings = initBindings or {}
4f3585e2f14b "planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
shellac
parents:
diff changeset
1144 initNs = initNs or dict(self.namespaces())
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shellac
parents:
diff changeset
1145
4f3585e2f14b "planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
shellac
parents:
diff changeset
1146 if hasattr(self.store, "update") and use_store_provided:
4f3585e2f14b "planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
shellac
parents:
diff changeset
1147 try:
4f3585e2f14b "planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
shellac
parents:
diff changeset
1148 return self.store.update(
4f3585e2f14b "planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
shellac
parents:
diff changeset
1149 update_object,
4f3585e2f14b "planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
shellac
parents:
diff changeset
1150 initNs,
4f3585e2f14b "planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
shellac
parents:
diff changeset
1151 initBindings,
4f3585e2f14b "planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
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parents:
diff changeset
1152 self.default_union and "__UNION__" or self.identifier,
4f3585e2f14b "planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
shellac
parents:
diff changeset
1153 **kwargs
4f3585e2f14b "planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
shellac
parents:
diff changeset
1154 )
4f3585e2f14b "planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
shellac
parents:
diff changeset
1155 except NotImplementedError:
4f3585e2f14b "planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
shellac
parents:
diff changeset
1156 pass # store has no own implementation
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parents:
diff changeset
1157
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parents:
diff changeset
1158 if not isinstance(processor, query.UpdateProcessor):
4f3585e2f14b "planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
shellac
parents:
diff changeset
1159 processor = plugin.get(processor, query.UpdateProcessor)(self)
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shellac
parents:
diff changeset
1160
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shellac
parents:
diff changeset
1161 return processor.update(update_object, initBindings, initNs, **kwargs)
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shellac
parents:
diff changeset
1162
4f3585e2f14b "planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
shellac
parents:
diff changeset
1163 def n3(self):
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shellac
parents:
diff changeset
1164 """return an n3 identifier for the Graph"""
4f3585e2f14b "planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
shellac
parents:
diff changeset
1165 return "[%s]" % self.identifier.n3()
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shellac
parents:
diff changeset
1166
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parents:
diff changeset
1167 def __reduce__(self):
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parents:
diff changeset
1168 return (Graph, (self.store, self.identifier,))
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parents:
diff changeset
1169
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shellac
parents:
diff changeset
1170 def isomorphic(self, other):
4f3585e2f14b "planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
shellac
parents:
diff changeset
1171 """
4f3585e2f14b "planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
shellac
parents:
diff changeset
1172 does a very basic check if these graphs are the same
4f3585e2f14b "planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
shellac
parents:
diff changeset
1173 If no BNodes are involved, this is accurate.
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shellac
parents:
diff changeset
1174
4f3585e2f14b "planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
shellac
parents:
diff changeset
1175 See rdflib.compare for a correct implementation of isomorphism checks
4f3585e2f14b "planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
shellac
parents:
diff changeset
1176 """
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shellac
parents:
diff changeset
1177 # TODO: this is only an approximation.
4f3585e2f14b "planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
shellac
parents:
diff changeset
1178 if len(self) != len(other):
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shellac
parents:
diff changeset
1179 return False
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shellac
parents:
diff changeset
1180 for s, p, o in self:
4f3585e2f14b "planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
shellac
parents:
diff changeset
1181 if not isinstance(s, BNode) and not isinstance(o, BNode):
4f3585e2f14b "planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
shellac
parents:
diff changeset
1182 if not (s, p, o) in other:
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shellac
parents:
diff changeset
1183 return False
4f3585e2f14b "planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
shellac
parents:
diff changeset
1184 for s, p, o in other:
4f3585e2f14b "planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
shellac
parents:
diff changeset
1185 if not isinstance(s, BNode) and not isinstance(o, BNode):
4f3585e2f14b "planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
shellac
parents:
diff changeset
1186 if not (s, p, o) in self:
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shellac
parents:
diff changeset
1187 return False
4f3585e2f14b "planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
shellac
parents:
diff changeset
1188 # TODO: very well could be a false positive at this point yet.
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shellac
parents:
diff changeset
1189 return True
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shellac
parents:
diff changeset
1190
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parents:
diff changeset
1191 def connected(self):
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shellac
parents:
diff changeset
1192 """Check if the Graph is connected
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shellac
parents:
diff changeset
1193
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parents:
diff changeset
1194 The Graph is considered undirectional.
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parents:
diff changeset
1195
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parents:
diff changeset
1196 Performs a search on the Graph, starting from a random node. Then
4f3585e2f14b "planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
shellac
parents:
diff changeset
1197 iteratively goes depth-first through the triplets where the node is
4f3585e2f14b "planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
shellac
parents:
diff changeset
1198 subject and object. Return True if all nodes have been visited and
4f3585e2f14b "planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
shellac
parents:
diff changeset
1199 False if it cannot continue and there are still unvisited nodes left.
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shellac
parents:
diff changeset
1200 """
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shellac
parents:
diff changeset
1201 all_nodes = list(self.all_nodes())
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shellac
parents:
diff changeset
1202 discovered = []
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shellac
parents:
diff changeset
1203
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shellac
parents:
diff changeset
1204 # take a random one, could also always take the first one, doesn't
4f3585e2f14b "planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
shellac
parents:
diff changeset
1205 # really matter.
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shellac
parents:
diff changeset
1206 if not all_nodes:
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shellac
parents:
diff changeset
1207 return False
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shellac
parents:
diff changeset
1208
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shellac
parents:
diff changeset
1209 visiting = [all_nodes[random.randrange(len(all_nodes))]]
4f3585e2f14b "planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
shellac
parents:
diff changeset
1210 while visiting:
4f3585e2f14b "planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
shellac
parents:
diff changeset
1211 x = visiting.pop()
4f3585e2f14b "planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
shellac
parents:
diff changeset
1212 if x not in discovered:
4f3585e2f14b "planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
shellac
parents:
diff changeset
1213 discovered.append(x)
4f3585e2f14b "planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
shellac
parents:
diff changeset
1214 for new_x in self.objects(subject=x):
4f3585e2f14b "planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
shellac
parents:
diff changeset
1215 if new_x not in discovered and new_x not in visiting:
4f3585e2f14b "planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
shellac
parents:
diff changeset
1216 visiting.append(new_x)
4f3585e2f14b "planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
shellac
parents:
diff changeset
1217 for new_x in self.subjects(object=x):
4f3585e2f14b "planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
shellac
parents:
diff changeset
1218 if new_x not in discovered and new_x not in visiting:
4f3585e2f14b "planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
shellac
parents:
diff changeset
1219 visiting.append(new_x)
4f3585e2f14b "planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
shellac
parents:
diff changeset
1220
4f3585e2f14b "planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
shellac
parents:
diff changeset
1221 # optimisation by only considering length, since no new objects can
4f3585e2f14b "planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
shellac
parents:
diff changeset
1222 # be introduced anywhere.
4f3585e2f14b "planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
shellac
parents:
diff changeset
1223 if len(all_nodes) == len(discovered):
4f3585e2f14b "planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
shellac
parents:
diff changeset
1224 return True
4f3585e2f14b "planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
shellac
parents:
diff changeset
1225 else:
4f3585e2f14b "planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
shellac
parents:
diff changeset
1226 return False
4f3585e2f14b "planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
shellac
parents:
diff changeset
1227
4f3585e2f14b "planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
shellac
parents:
diff changeset
1228 def all_nodes(self):
4f3585e2f14b "planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
shellac
parents:
diff changeset
1229 res = set(self.objects())
4f3585e2f14b "planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
shellac
parents:
diff changeset
1230 res.update(self.subjects())
4f3585e2f14b "planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
shellac
parents:
diff changeset
1231 return res
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shellac
parents:
diff changeset
1232
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shellac
parents:
diff changeset
1233 def collection(self, identifier):
4f3585e2f14b "planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
shellac
parents:
diff changeset
1234 """Create a new ``Collection`` instance.
4f3585e2f14b "planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
shellac
parents:
diff changeset
1235
4f3585e2f14b "planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
shellac
parents:
diff changeset
1236 Parameters:
4f3585e2f14b "planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
shellac
parents:
diff changeset
1237
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shellac
parents:
diff changeset
1238 - ``identifier``: a URIRef or BNode instance.
4f3585e2f14b "planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
shellac
parents:
diff changeset
1239
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shellac
parents:
diff changeset
1240 Example::
4f3585e2f14b "planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
shellac
parents:
diff changeset
1241
4f3585e2f14b "planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
shellac
parents:
diff changeset
1242 >>> graph = Graph()
4f3585e2f14b "planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
shellac
parents:
diff changeset
1243 >>> uri = URIRef("http://example.org/resource")
4f3585e2f14b "planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
shellac
parents:
diff changeset
1244 >>> collection = graph.collection(uri)
4f3585e2f14b "planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
shellac
parents:
diff changeset
1245 >>> assert isinstance(collection, Collection)
4f3585e2f14b "planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
shellac
parents:
diff changeset
1246 >>> assert collection.uri is uri
4f3585e2f14b "planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
shellac
parents:
diff changeset
1247 >>> assert collection.graph is graph
4f3585e2f14b "planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
shellac
parents:
diff changeset
1248 >>> collection += [ Literal(1), Literal(2) ]
4f3585e2f14b "planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
shellac
parents:
diff changeset
1249 """
4f3585e2f14b "planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
shellac
parents:
diff changeset
1250
4f3585e2f14b "planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
shellac
parents:
diff changeset
1251 return Collection(self, identifier)
4f3585e2f14b "planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
shellac
parents:
diff changeset
1252
4f3585e2f14b "planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
shellac
parents:
diff changeset
1253 def resource(self, identifier):
4f3585e2f14b "planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
shellac
parents:
diff changeset
1254 """Create a new ``Resource`` instance.
4f3585e2f14b "planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
shellac
parents:
diff changeset
1255
4f3585e2f14b "planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
shellac
parents:
diff changeset
1256 Parameters:
4f3585e2f14b "planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
shellac
parents:
diff changeset
1257
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shellac
parents:
diff changeset
1258 - ``identifier``: a URIRef or BNode instance.
4f3585e2f14b "planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
shellac
parents:
diff changeset
1259
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shellac
parents:
diff changeset
1260 Example::
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shellac
parents:
diff changeset
1261
4f3585e2f14b "planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
shellac
parents:
diff changeset
1262 >>> graph = Graph()
4f3585e2f14b "planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
shellac
parents:
diff changeset
1263 >>> uri = URIRef("http://example.org/resource")
4f3585e2f14b "planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
shellac
parents:
diff changeset
1264 >>> resource = graph.resource(uri)
4f3585e2f14b "planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
shellac
parents:
diff changeset
1265 >>> assert isinstance(resource, Resource)
4f3585e2f14b "planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
shellac
parents:
diff changeset
1266 >>> assert resource.identifier is uri
4f3585e2f14b "planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
shellac
parents:
diff changeset
1267 >>> assert resource.graph is graph
4f3585e2f14b "planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
shellac
parents:
diff changeset
1268
4f3585e2f14b "planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
shellac
parents:
diff changeset
1269 """
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1270 if not isinstance(identifier, Node):
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parents:
diff changeset
1271 identifier = URIRef(identifier)
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parents:
diff changeset
1272 return Resource(self, identifier)
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diff changeset
1273
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diff changeset
1274 def _process_skolem_tuples(self, target, func):
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parents:
diff changeset
1275 for t in self.triples((None, None, None)):
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parents:
diff changeset
1276 target.add(func(t))
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diff changeset
1277
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1278 def skolemize(self, new_graph=None, bnode=None, authority=None, basepath=None):
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parents:
diff changeset
1279 def do_skolemize(bnode, t):
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parents:
diff changeset
1280 (s, p, o) = t
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parents:
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1281 if s == bnode:
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diff changeset
1282 s = s.skolemize(authority=authority, basepath=basepath)
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1283 if o == bnode:
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diff changeset
1284 o = o.skolemize(authority=authority, basepath=basepath)
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parents:
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1285 return s, p, o
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1286
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1287 def do_skolemize2(t):
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parents:
diff changeset
1288 (s, p, o) = t
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1289 if isinstance(s, BNode):
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1290 s = s.skolemize(authority=authority, basepath=basepath)
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1291 if isinstance(o, BNode):
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diff changeset
1292 o = o.skolemize(authority=authority, basepath=basepath)
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1293 return s, p, o
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1294
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1295 retval = Graph() if new_graph is None else new_graph
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1296
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1297 if bnode is None:
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diff changeset
1298 self._process_skolem_tuples(retval, do_skolemize2)
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1299 elif isinstance(bnode, BNode):
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diff changeset
1300 self._process_skolem_tuples(retval, lambda t: do_skolemize(bnode, t))
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diff changeset
1301
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1302 return retval
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diff changeset
1303
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1304 def de_skolemize(self, new_graph=None, uriref=None):
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parents:
diff changeset
1305 def do_de_skolemize(uriref, t):
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diff changeset
1306 (s, p, o) = t
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diff changeset
1307 if s == uriref:
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diff changeset
1308 s = s.de_skolemize()
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parents:
diff changeset
1309 if o == uriref:
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parents:
diff changeset
1310 o = o.de_skolemize()
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parents:
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1311 return s, p, o
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1312
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diff changeset
1313 def do_de_skolemize2(t):
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diff changeset
1314 (s, p, o) = t
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diff changeset
1315 if isinstance(s, Genid):
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diff changeset
1316 s = s.de_skolemize()
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diff changeset
1317 if isinstance(o, Genid):
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diff changeset
1318 o = o.de_skolemize()
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diff changeset
1319 return s, p, o
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1320
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1321 retval = Graph() if new_graph is None else new_graph
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1322
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1323 if uriref is None:
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diff changeset
1324 self._process_skolem_tuples(retval, do_de_skolemize2)
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1325 elif isinstance(uriref, Genid):
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diff changeset
1326 self._process_skolem_tuples(retval, lambda t: do_de_skolemize(uriref, t))
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1327
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1328 return retval
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1329
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1330
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diff changeset
1331 class ConjunctiveGraph(Graph):
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parents:
diff changeset
1332 """A ConjunctiveGraph is an (unnamed) aggregation of all the named
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diff changeset
1333 graphs in a store.
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1334
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1335 It has a ``default`` graph, whose name is associated with the
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diff changeset
1336 graph throughout its life. :meth:`__init__` can take an identifier
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diff changeset
1337 to use as the name of this default graph or it will assign a
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diff changeset
1338 BNode.
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1339
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1340 All methods that add triples work against this default graph.
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1341
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1342 All queries are carried out against the union of all graphs.
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diff changeset
1343 """
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1344
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1345 def __init__(self, store="default", identifier=None, default_graph_base=None):
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diff changeset
1346 super(ConjunctiveGraph, self).__init__(store, identifier=identifier)
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parents:
diff changeset
1347 assert self.store.context_aware, (
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diff changeset
1348 "ConjunctiveGraph must be backed by" " a context aware store."
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diff changeset
1349 )
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diff changeset
1350 self.context_aware = True
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diff changeset
1351 self.default_union = True # Conjunctive!
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parents:
diff changeset
1352 self.default_context = Graph(
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parents:
diff changeset
1353 store=self.store, identifier=identifier or BNode(), base=default_graph_base
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diff changeset
1354 )
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diff changeset
1355
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1356 def __str__(self):
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diff changeset
1357 pattern = (
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diff changeset
1358 "[a rdflib:ConjunctiveGraph;rdflib:storage "
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diff changeset
1359 "[a rdflib:Store;rdfs:label '%s']]"
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diff changeset
1360 )
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diff changeset
1361 return pattern % self.store.__class__.__name__
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diff changeset
1362
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1363 def _spoc(self, triple_or_quad, default=False):
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1364 """
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diff changeset
1365 helper method for having methods that support
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1366 either triples or quads
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diff changeset
1367 """
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diff changeset
1368 if triple_or_quad is None:
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diff changeset
1369 return (None, None, None, self.default_context if default else None)
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diff changeset
1370 if len(triple_or_quad) == 3:
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diff changeset
1371 c = self.default_context if default else None
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1372 (s, p, o) = triple_or_quad
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diff changeset
1373 elif len(triple_or_quad) == 4:
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diff changeset
1374 (s, p, o, c) = triple_or_quad
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diff changeset
1375 c = self._graph(c)
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diff changeset
1376 return s, p, o, c
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diff changeset
1377
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1378 def __contains__(self, triple_or_quad):
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diff changeset
1379 """Support for 'triple/quad in graph' syntax"""
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diff changeset
1380 s, p, o, c = self._spoc(triple_or_quad)
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diff changeset
1381 for t in self.triples((s, p, o), context=c):
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diff changeset
1382 return True
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diff changeset
1383 return False
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1384
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1385 def add(self, triple_or_quad):
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diff changeset
1386 """
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diff changeset
1387 Add a triple or quad to the store.
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diff changeset
1388
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diff changeset
1389 if a triple is given it is added to the default context
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diff changeset
1390 """
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diff changeset
1391
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diff changeset
1392 s, p, o, c = self._spoc(triple_or_quad, default=True)
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diff changeset
1393
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shellac
parents:
diff changeset
1394 _assertnode(s, p, o)
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parents:
diff changeset
1395
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parents:
diff changeset
1396 self.store.add((s, p, o), context=c, quoted=False)
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parents:
diff changeset
1397
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shellac
parents:
diff changeset
1398 def _graph(self, c):
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parents:
diff changeset
1399 if c is None:
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shellac
parents:
diff changeset
1400 return None
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shellac
parents:
diff changeset
1401 if not isinstance(c, Graph):
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shellac
parents:
diff changeset
1402 return self.get_context(c)
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shellac
parents:
diff changeset
1403 else:
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shellac
parents:
diff changeset
1404 return c
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shellac
parents:
diff changeset
1405
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shellac
parents:
diff changeset
1406 def addN(self, quads):
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shellac
parents:
diff changeset
1407 """Add a sequence of triples with context"""
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shellac
parents:
diff changeset
1408
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shellac
parents:
diff changeset
1409 self.store.addN(
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shellac
parents:
diff changeset
1410 (s, p, o, self._graph(c)) for s, p, o, c in quads if _assertnode(s, p, o)
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shellac
parents:
diff changeset
1411 )
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shellac
parents:
diff changeset
1412
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parents:
diff changeset
1413 def remove(self, triple_or_quad):
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shellac
parents:
diff changeset
1414 """
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shellac
parents:
diff changeset
1415 Removes a triple or quads
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shellac
parents:
diff changeset
1416
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shellac
parents:
diff changeset
1417 if a triple is given it is removed from all contexts
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shellac
parents:
diff changeset
1418
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shellac
parents:
diff changeset
1419 a quad is removed from the given context only
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shellac
parents:
diff changeset
1420
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shellac
parents:
diff changeset
1421 """
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shellac
parents:
diff changeset
1422 s, p, o, c = self._spoc(triple_or_quad)
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shellac
parents:
diff changeset
1423
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shellac
parents:
diff changeset
1424 self.store.remove((s, p, o), context=c)
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shellac
parents:
diff changeset
1425
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shellac
parents:
diff changeset
1426 def triples(self, triple_or_quad, context=None):
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shellac
parents:
diff changeset
1427 """
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shellac
parents:
diff changeset
1428 Iterate over all the triples in the entire conjunctive graph
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shellac
parents:
diff changeset
1429
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shellac
parents:
diff changeset
1430 For legacy reasons, this can take the context to query either
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shellac
parents:
diff changeset
1431 as a fourth element of the quad, or as the explicit context
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shellac
parents:
diff changeset
1432 keyword parameter. The kw param takes precedence.
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shellac
parents:
diff changeset
1433 """
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shellac
parents:
diff changeset
1434
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shellac
parents:
diff changeset
1435 s, p, o, c = self._spoc(triple_or_quad)
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shellac
parents:
diff changeset
1436 context = self._graph(context or c)
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shellac
parents:
diff changeset
1437
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shellac
parents:
diff changeset
1438 if self.default_union:
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shellac
parents:
diff changeset
1439 if context == self.default_context:
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shellac
parents:
diff changeset
1440 context = None
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shellac
parents:
diff changeset
1441 else:
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shellac
parents:
diff changeset
1442 if context is None:
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shellac
parents:
diff changeset
1443 context = self.default_context
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shellac
parents:
diff changeset
1444
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shellac
parents:
diff changeset
1445 if isinstance(p, Path):
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shellac
parents:
diff changeset
1446 if context is None:
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shellac
parents:
diff changeset
1447 context = self
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shellac
parents:
diff changeset
1448
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shellac
parents:
diff changeset
1449 for s, o in p.eval(context, s, o):
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shellac
parents:
diff changeset
1450 yield s, p, o
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shellac
parents:
diff changeset
1451 else:
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shellac
parents:
diff changeset
1452 for (s, p, o), cg in self.store.triples((s, p, o), context=context):
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shellac
parents:
diff changeset
1453 yield s, p, o
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shellac
parents:
diff changeset
1454
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shellac
parents:
diff changeset
1455 def quads(self, triple_or_quad=None):
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shellac
parents:
diff changeset
1456 """Iterate over all the quads in the entire conjunctive graph"""
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shellac
parents:
diff changeset
1457
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shellac
parents:
diff changeset
1458 s, p, o, c = self._spoc(triple_or_quad)
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shellac
parents:
diff changeset
1459
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shellac
parents:
diff changeset
1460 for (s, p, o), cg in self.store.triples((s, p, o), context=c):
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shellac
parents:
diff changeset
1461 for ctx in cg:
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shellac
parents:
diff changeset
1462 yield s, p, o, ctx
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shellac
parents:
diff changeset
1463
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shellac
parents:
diff changeset
1464 def triples_choices(self, triple, context=None):
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shellac
parents:
diff changeset
1465 """Iterate over all the triples in the entire conjunctive graph"""
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shellac
parents:
diff changeset
1466 s, p, o = triple
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shellac
parents:
diff changeset
1467 if context is None:
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shellac
parents:
diff changeset
1468 if not self.default_union:
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shellac
parents:
diff changeset
1469 context = self.default_context
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shellac
parents:
diff changeset
1470 else:
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shellac
parents:
diff changeset
1471 context = self._graph(context)
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shellac
parents:
diff changeset
1472
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shellac
parents:
diff changeset
1473 for (s1, p1, o1), cg in self.store.triples_choices((s, p, o), context=context):
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shellac
parents:
diff changeset
1474 yield s1, p1, o1
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shellac
parents:
diff changeset
1475
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shellac
parents:
diff changeset
1476 def __len__(self):
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shellac
parents:
diff changeset
1477 """Number of triples in the entire conjunctive graph"""
4f3585e2f14b "planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
shellac
parents:
diff changeset
1478 return self.store.__len__()
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shellac
parents:
diff changeset
1479
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shellac
parents:
diff changeset
1480 def contexts(self, triple=None):
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shellac
parents:
diff changeset
1481 """Iterate over all contexts in the graph
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shellac
parents:
diff changeset
1482
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shellac
parents:
diff changeset
1483 If triple is specified, iterate over all contexts the triple is in.
4f3585e2f14b "planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
shellac
parents:
diff changeset
1484 """
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shellac
parents:
diff changeset
1485 for context in self.store.contexts(triple):
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shellac
parents:
diff changeset
1486 if isinstance(context, Graph):
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shellac
parents:
diff changeset
1487 # TODO: One of these should never happen and probably
4f3585e2f14b "planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
shellac
parents:
diff changeset
1488 # should raise an exception rather than smoothing over
4f3585e2f14b "planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
shellac
parents:
diff changeset
1489 # the weirdness - see #225
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shellac
parents:
diff changeset
1490 yield context
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shellac
parents:
diff changeset
1491 else:
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shellac
parents:
diff changeset
1492 yield self.get_context(context)
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shellac
parents:
diff changeset
1493
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shellac
parents:
diff changeset
1494 def get_context(self, identifier, quoted=False, base=None):
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shellac
parents:
diff changeset
1495 """Return a context graph for the given identifier
4f3585e2f14b "planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
shellac
parents:
diff changeset
1496
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shellac
parents:
diff changeset
1497 identifier must be a URIRef or BNode.
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shellac
parents:
diff changeset
1498 """
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shellac
parents:
diff changeset
1499 return Graph(store=self.store, identifier=identifier, namespace_manager=self, base=base)
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shellac
parents:
diff changeset
1500
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shellac
parents:
diff changeset
1501 def remove_context(self, context):
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shellac
parents:
diff changeset
1502 """Removes the given context from the graph"""
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shellac
parents:
diff changeset
1503 self.store.remove((None, None, None), context)
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shellac
parents:
diff changeset
1504
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shellac
parents:
diff changeset
1505 def context_id(self, uri, context_id=None):
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shellac
parents:
diff changeset
1506 """URI#context"""
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shellac
parents:
diff changeset
1507 uri = uri.split("#", 1)[0]
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shellac
parents:
diff changeset
1508 if context_id is None:
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shellac
parents:
diff changeset
1509 context_id = "#context"
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shellac
parents:
diff changeset
1510 return URIRef(context_id, base=uri)
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shellac
parents:
diff changeset
1511
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shellac
parents:
diff changeset
1512 def parse(
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shellac
parents:
diff changeset
1513 self,
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shellac
parents:
diff changeset
1514 source=None,
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shellac
parents:
diff changeset
1515 publicID=None,
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shellac
parents:
diff changeset
1516 format="xml",
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shellac
parents:
diff changeset
1517 location=None,
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shellac
parents:
diff changeset
1518 file=None,
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shellac
parents:
diff changeset
1519 data=None,
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shellac
parents:
diff changeset
1520 **args
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diff changeset
1521 ):
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diff changeset
1522 """
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diff changeset
1523 Parse source adding the resulting triples to its own context
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parents:
diff changeset
1524 (sub graph of this graph).
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1525
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diff changeset
1526 See :meth:`rdflib.graph.Graph.parse` for documentation on arguments.
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diff changeset
1527
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diff changeset
1528 :Returns:
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parents:
diff changeset
1529
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parents:
diff changeset
1530 The graph into which the source was parsed. In the case of n3
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parents:
diff changeset
1531 it returns the root context.
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parents:
diff changeset
1532 """
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parents:
diff changeset
1533
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parents:
diff changeset
1534 source = create_input_source(
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parents:
diff changeset
1535 source=source,
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parents:
diff changeset
1536 publicID=publicID,
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parents:
diff changeset
1537 location=location,
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parents:
diff changeset
1538 file=file,
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parents:
diff changeset
1539 data=data,
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parents:
diff changeset
1540 format=format,
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parents:
diff changeset
1541 )
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diff changeset
1542
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diff changeset
1543 g_id = publicID and publicID or source.getPublicId()
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parents:
diff changeset
1544 if not isinstance(g_id, Node):
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parents:
diff changeset
1545 g_id = URIRef(g_id)
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parents:
diff changeset
1546
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parents:
diff changeset
1547 context = Graph(store=self.store, identifier=g_id)
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parents:
diff changeset
1548 context.remove((None, None, None)) # hmm ?
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parents:
diff changeset
1549 context.parse(source, publicID=publicID, format=format, **args)
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diff changeset
1550 return context
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diff changeset
1551
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1552 def __reduce__(self):
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parents:
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1553 return ConjunctiveGraph, (self.store, self.identifier)
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parents:
diff changeset
1554
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diff changeset
1555
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diff changeset
1556 DATASET_DEFAULT_GRAPH_ID = URIRef("urn:x-rdflib:default")
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parents:
diff changeset
1557
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diff changeset
1558
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parents:
diff changeset
1559 class Dataset(ConjunctiveGraph):
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parents:
diff changeset
1560 __doc__ = """
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parents:
diff changeset
1561 RDF 1.1 Dataset. Small extension to the Conjunctive Graph:
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parents:
diff changeset
1562 - the primary term is graphs in the datasets and not contexts with quads,
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parents:
diff changeset
1563 so there is a separate method to set/retrieve a graph in a dataset and
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parents:
diff changeset
1564 operate with graphs
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parents:
diff changeset
1565 - graphs cannot be identified with blank nodes
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parents:
diff changeset
1566 - added a method to directly add a single quad
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parents:
diff changeset
1567
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parents:
diff changeset
1568 Examples of usage:
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parents:
diff changeset
1569
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parents:
diff changeset
1570 >>> # Create a new Dataset
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parents:
diff changeset
1571 >>> ds = Dataset()
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parents:
diff changeset
1572 >>> # simple triples goes to default graph
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parents:
diff changeset
1573 >>> ds.add((URIRef("http://example.org/a"),
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parents:
diff changeset
1574 ... URIRef("http://www.example.org/b"),
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parents:
diff changeset
1575 ... Literal("foo")))
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parents:
diff changeset
1576 >>>
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parents:
diff changeset
1577 >>> # Create a graph in the dataset, if the graph name has already been
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parents:
diff changeset
1578 >>> # used, the corresponding graph will be returned
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parents:
diff changeset
1579 >>> # (ie, the Dataset keeps track of the constituent graphs)
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parents:
diff changeset
1580 >>> g = ds.graph(URIRef("http://www.example.com/gr"))
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parents:
diff changeset
1581 >>>
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parents:
diff changeset
1582 >>> # add triples to the new graph as usual
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parents:
diff changeset
1583 >>> g.add(
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parents:
diff changeset
1584 ... (URIRef("http://example.org/x"),
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parents:
diff changeset
1585 ... URIRef("http://example.org/y"),
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parents:
diff changeset
1586 ... Literal("bar")) )
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parents:
diff changeset
1587 >>> # alternatively: add a quad to the dataset -> goes to the graph
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parents:
diff changeset
1588 >>> ds.add(
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parents:
diff changeset
1589 ... (URIRef("http://example.org/x"),
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parents:
diff changeset
1590 ... URIRef("http://example.org/z"),
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shellac
parents:
diff changeset
1591 ... Literal("foo-bar"),g) )
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parents:
diff changeset
1592 >>>
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parents:
diff changeset
1593 >>> # querying triples return them all regardless of the graph
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parents:
diff changeset
1594 >>> for t in ds.triples((None,None,None)): # doctest: +SKIP
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parents:
diff changeset
1595 ... print(t) # doctest: +NORMALIZE_WHITESPACE
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shellac
parents:
diff changeset
1596 (rdflib.term.URIRef("http://example.org/a"),
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parents:
diff changeset
1597 rdflib.term.URIRef("http://www.example.org/b"),
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parents:
diff changeset
1598 rdflib.term.Literal("foo"))
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parents:
diff changeset
1599 (rdflib.term.URIRef("http://example.org/x"),
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parents:
diff changeset
1600 rdflib.term.URIRef("http://example.org/z"),
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parents:
diff changeset
1601 rdflib.term.Literal("foo-bar"))
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parents:
diff changeset
1602 (rdflib.term.URIRef("http://example.org/x"),
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parents:
diff changeset
1603 rdflib.term.URIRef("http://example.org/y"),
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parents:
diff changeset
1604 rdflib.term.Literal("bar"))
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shellac
parents:
diff changeset
1605 >>>
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parents:
diff changeset
1606 >>> # querying quads return quads; the fourth argument can be unrestricted
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shellac
parents:
diff changeset
1607 >>> # or restricted to a graph
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parents:
diff changeset
1608 >>> for q in ds.quads((None, None, None, None)): # doctest: +SKIP
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parents:
diff changeset
1609 ... print(q) # doctest: +NORMALIZE_WHITESPACE
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shellac
parents:
diff changeset
1610 (rdflib.term.URIRef("http://example.org/a"),
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parents:
diff changeset
1611 rdflib.term.URIRef("http://www.example.org/b"),
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parents:
diff changeset
1612 rdflib.term.Literal("foo"),
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parents:
diff changeset
1613 None)
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parents:
diff changeset
1614 (rdflib.term.URIRef("http://example.org/x"),
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parents:
diff changeset
1615 rdflib.term.URIRef("http://example.org/y"),
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parents:
diff changeset
1616 rdflib.term.Literal("bar"),
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parents:
diff changeset
1617 rdflib.term.URIRef("http://www.example.com/gr"))
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parents:
diff changeset
1618 (rdflib.term.URIRef("http://example.org/x"),
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parents:
diff changeset
1619 rdflib.term.URIRef("http://example.org/z"),
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parents:
diff changeset
1620 rdflib.term.Literal("foo-bar"),
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parents:
diff changeset
1621 rdflib.term.URIRef("http://www.example.com/gr"))
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parents:
diff changeset
1622 >>>
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parents:
diff changeset
1623 >>> for q in ds.quads((None,None,None,g)): # doctest: +SKIP
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shellac
parents:
diff changeset
1624 ... print(q) # doctest: +NORMALIZE_WHITESPACE
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parents:
diff changeset
1625 (rdflib.term.URIRef("http://example.org/x"),
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parents:
diff changeset
1626 rdflib.term.URIRef("http://example.org/y"),
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shellac
parents:
diff changeset
1627 rdflib.term.Literal("bar"),
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parents:
diff changeset
1628 rdflib.term.URIRef("http://www.example.com/gr"))
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parents:
diff changeset
1629 (rdflib.term.URIRef("http://example.org/x"),
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parents:
diff changeset
1630 rdflib.term.URIRef("http://example.org/z"),
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parents:
diff changeset
1631 rdflib.term.Literal("foo-bar"),
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parents:
diff changeset
1632 rdflib.term.URIRef("http://www.example.com/gr"))
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parents:
diff changeset
1633 >>> # Note that in the call above -
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parents:
diff changeset
1634 >>> # ds.quads((None,None,None,"http://www.example.com/gr"))
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shellac
parents:
diff changeset
1635 >>> # would have been accepted, too
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shellac
parents:
diff changeset
1636 >>>
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parents:
diff changeset
1637 >>> # graph names in the dataset can be queried:
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parents:
diff changeset
1638 >>> for c in ds.graphs(): # doctest: +SKIP
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shellac
parents:
diff changeset
1639 ... print(c) # doctest:
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parents:
diff changeset
1640 DEFAULT
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parents:
diff changeset
1641 http://www.example.com/gr
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parents:
diff changeset
1642 >>> # A graph can be created without specifying a name; a skolemized genid
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parents:
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1643 >>> # is created on the fly
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parents:
diff changeset
1644 >>> h = ds.graph()
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parents:
diff changeset
1645 >>> for c in ds.graphs(): # doctest: +SKIP
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parents:
diff changeset
1646 ... print(c) # doctest: +NORMALIZE_WHITESPACE +ELLIPSIS
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parents:
diff changeset
1647 DEFAULT
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parents:
diff changeset
1648 http://rdlib.net/.well-known/genid/rdflib/N...
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parents:
diff changeset
1649 http://www.example.com/gr
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parents:
diff changeset
1650 >>> # Note that the Dataset.graphs() call returns names of empty graphs,
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parents:
diff changeset
1651 >>> # too. This can be restricted:
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parents:
diff changeset
1652 >>> for c in ds.graphs(empty=False): # doctest: +SKIP
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parents:
diff changeset
1653 ... print(c) # doctest: +NORMALIZE_WHITESPACE
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parents:
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1654 DEFAULT
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parents:
diff changeset
1655 http://www.example.com/gr
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parents:
diff changeset
1656 >>>
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parents:
diff changeset
1657 >>> # a graph can also be removed from a dataset via ds.remove_graph(g)
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1658
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1659 .. versionadded:: 4.0
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parents:
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1660 """
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1661
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diff changeset
1662 def __init__(self, store="default", default_union=False, default_graph_base=None):
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diff changeset
1663 super(Dataset, self).__init__(store=store, identifier=None)
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1664
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diff changeset
1665 if not self.store.graph_aware:
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parents:
diff changeset
1666 raise Exception("DataSet must be backed by a graph-aware store!")
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1667 self.default_context = Graph(
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diff changeset
1668 store=self.store, identifier=DATASET_DEFAULT_GRAPH_ID, base=default_graph_base
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diff changeset
1669 )
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1670
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1671 self.default_union = default_union
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1672
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1673 def __str__(self):
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diff changeset
1674 pattern = (
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parents:
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1675 "[a rdflib:Dataset;rdflib:storage " "[a rdflib:Store;rdfs:label '%s']]"
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1676 )
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parents:
diff changeset
1677 return pattern % self.store.__class__.__name__
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1678
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parents:
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1679 def graph(self, identifier=None, base=None):
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parents:
diff changeset
1680 if identifier is None:
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parents:
diff changeset
1681 from rdflib.term import rdflib_skolem_genid
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1682
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1683 self.bind(
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parents:
diff changeset
1684 "genid", "http://rdflib.net" + rdflib_skolem_genid, override=False
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diff changeset
1685 )
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parents:
diff changeset
1686 identifier = BNode().skolemize()
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parents:
diff changeset
1687
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diff changeset
1688 g = self._graph(identifier)
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parents:
diff changeset
1689 g.base = base
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1690
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diff changeset
1691 self.store.add_graph(g)
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parents:
diff changeset
1692 return g
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1693
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diff changeset
1694 def parse(
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parents:
diff changeset
1695 self,
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diff changeset
1696 source=None,
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diff changeset
1697 publicID=None,
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diff changeset
1698 format="xml",
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diff changeset
1699 location=None,
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diff changeset
1700 file=None,
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diff changeset
1701 data=None,
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parents:
diff changeset
1702 **args
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1703 ):
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diff changeset
1704 c = ConjunctiveGraph.parse(
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parents:
diff changeset
1705 self, source, publicID, format, location, file, data, **args
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parents:
diff changeset
1706 )
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parents:
diff changeset
1707 self.graph(c)
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parents:
diff changeset
1708 return c
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1709
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diff changeset
1710 def add_graph(self, g):
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parents:
diff changeset
1711 """alias of graph for consistency"""
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parents:
diff changeset
1712 return self.graph(g)
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diff changeset
1713
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diff changeset
1714 def remove_graph(self, g):
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parents:
diff changeset
1715 if not isinstance(g, Graph):
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parents:
diff changeset
1716 g = self.get_context(g)
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diff changeset
1717
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diff changeset
1718 self.store.remove_graph(g)
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parents:
diff changeset
1719 if g is None or g == self.default_context:
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parents:
diff changeset
1720 # default graph cannot be removed
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diff changeset
1721 # only triples deleted, so add it back in
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parents:
diff changeset
1722 self.store.add_graph(self.default_context)
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parents:
diff changeset
1723
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diff changeset
1724 def contexts(self, triple=None):
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parents:
diff changeset
1725 default = False
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parents:
diff changeset
1726 for c in super(Dataset, self).contexts(triple):
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parents:
diff changeset
1727 default |= c.identifier == DATASET_DEFAULT_GRAPH_ID
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parents:
diff changeset
1728 yield c
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diff changeset
1729 if not default:
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parents:
diff changeset
1730 yield self.graph(DATASET_DEFAULT_GRAPH_ID)
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parents:
diff changeset
1731
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parents:
diff changeset
1732 graphs = contexts
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diff changeset
1733
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diff changeset
1734 def quads(self, quad):
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parents:
diff changeset
1735 for s, p, o, c in super(Dataset, self).quads(quad):
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parents:
diff changeset
1736 if c.identifier == self.default_context:
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parents:
diff changeset
1737 yield s, p, o, None
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parents:
diff changeset
1738 else:
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parents:
diff changeset
1739 yield s, p, o, c.identifier
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parents:
diff changeset
1740
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diff changeset
1741
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diff changeset
1742 class QuotedGraph(Graph):
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parents:
diff changeset
1743 """
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parents:
diff changeset
1744 Quoted Graphs are intended to implement Notation 3 formulae. They are
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shellac
parents:
diff changeset
1745 associated with a required identifier that the N3 parser *must* provide
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parents:
diff changeset
1746 in order to maintain consistent formulae identification for scenarios
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parents:
diff changeset
1747 such as implication and other such processing.
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parents:
diff changeset
1748 """
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diff changeset
1749
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diff changeset
1750 def __init__(self, store, identifier):
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parents:
diff changeset
1751 super(QuotedGraph, self).__init__(store, identifier)
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1752
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1753 def add(self, triple):
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diff changeset
1754 """Add a triple with self as context"""
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parents:
diff changeset
1755 s, p, o = triple
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diff changeset
1756 assert isinstance(s, Node), "Subject %s must be an rdflib term" % (s,)
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parents:
diff changeset
1757 assert isinstance(p, Node), "Predicate %s must be an rdflib term" % (p,)
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parents:
diff changeset
1758 assert isinstance(o, Node), "Object %s must be an rdflib term" % (o,)
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1759
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diff changeset
1760 self.store.add((s, p, o), self, quoted=True)
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1761
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1762 def addN(self, quads):
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parents:
diff changeset
1763 """Add a sequence of triple with context"""
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parents:
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1764
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diff changeset
1765 self.store.addN(
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diff changeset
1766 (s, p, o, c)
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parents:
diff changeset
1767 for s, p, o, c in quads
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parents:
diff changeset
1768 if isinstance(c, QuotedGraph)
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parents:
diff changeset
1769 and c.identifier is self.identifier
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parents:
diff changeset
1770 and _assertnode(s, p, o)
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parents:
diff changeset
1771 )
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parents:
diff changeset
1772
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parents:
diff changeset
1773 def n3(self):
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parents:
diff changeset
1774 """Return an n3 identifier for the Graph"""
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parents:
diff changeset
1775 return "{%s}" % self.identifier.n3()
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parents:
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1776
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parents:
diff changeset
1777 def __str__(self):
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parents:
diff changeset
1778 identifier = self.identifier.n3()
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parents:
diff changeset
1779 label = self.store.__class__.__name__
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parents:
diff changeset
1780 pattern = (
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parents:
diff changeset
1781 "{this rdflib.identifier %s;rdflib:storage "
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parents:
diff changeset
1782 "[a rdflib:Store;rdfs:label '%s']}"
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1783 )
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1784 return pattern % (identifier, label)
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parents:
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1785
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diff changeset
1786 def __reduce__(self):
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diff changeset
1787 return QuotedGraph, (self.store, self.identifier)
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1788
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diff changeset
1789
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diff changeset
1790 # Make sure QuotedGraph is ordered correctly
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diff changeset
1791 # wrt to other Terms.
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diff changeset
1792 # this must be done here, as the QuotedGraph cannot be
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parents:
diff changeset
1793 # circularily imported in term.py
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diff changeset
1794 rdflib.term._ORDERING[QuotedGraph] = 11
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parents:
diff changeset
1795
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diff changeset
1796
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parents:
diff changeset
1797 class Seq(object):
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parents:
diff changeset
1798 """Wrapper around an RDF Seq resource
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parents:
diff changeset
1799
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parents:
diff changeset
1800 It implements a container type in Python with the order of the items
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parents:
diff changeset
1801 returned corresponding to the Seq content. It is based on the natural
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parents:
diff changeset
1802 ordering of the predicate names _1, _2, _3, etc, which is the
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parents:
diff changeset
1803 'implementation' of a sequence in RDF terms.
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parents:
diff changeset
1804 """
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parents:
diff changeset
1805
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diff changeset
1806 def __init__(self, graph, subject):
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parents:
diff changeset
1807 """Parameters:
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diff changeset
1808
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parents:
diff changeset
1809 - graph:
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parents:
diff changeset
1810 the graph containing the Seq
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parents:
diff changeset
1811
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parents:
diff changeset
1812 - subject:
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parents:
diff changeset
1813 the subject of a Seq. Note that the init does not
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parents:
diff changeset
1814 check whether this is a Seq, this is done in whoever
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parents:
diff changeset
1815 creates this instance!
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parents:
diff changeset
1816 """
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parents:
diff changeset
1817
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diff changeset
1818 _list = self._list = list()
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parents:
diff changeset
1819 LI_INDEX = URIRef(str(RDF) + "_")
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parents:
diff changeset
1820 for (p, o) in graph.predicate_objects(subject):
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parents:
diff changeset
1821 if p.startswith(LI_INDEX): # != RDF.Seq: #
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parents:
diff changeset
1822 i = int(p.replace(LI_INDEX, ""))
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parents:
diff changeset
1823 _list.append((i, o))
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parents:
diff changeset
1824
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parents:
diff changeset
1825 # here is the trick: the predicates are _1, _2, _3, etc. Ie,
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parents:
diff changeset
1826 # by sorting the keys (by integer) we have what we want!
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parents:
diff changeset
1827 _list.sort()
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parents:
diff changeset
1828
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parents:
diff changeset
1829 def toPython(self):
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parents:
diff changeset
1830 return self
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parents:
diff changeset
1831
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parents:
diff changeset
1832 def __iter__(self):
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parents:
diff changeset
1833 """Generator over the items in the Seq"""
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parents:
diff changeset
1834 for _, item in self._list:
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parents:
diff changeset
1835 yield item
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parents:
diff changeset
1836
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parents:
diff changeset
1837 def __len__(self):
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parents:
diff changeset
1838 """Length of the Seq"""
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parents:
diff changeset
1839 return len(self._list)
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diff changeset
1840
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diff changeset
1841 def __getitem__(self, index):
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parents:
diff changeset
1842 """Item given by index from the Seq"""
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shellac
parents:
diff changeset
1843 index, item = self._list.__getitem__(index)
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parents:
diff changeset
1844 return item
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parents:
diff changeset
1845
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diff changeset
1846
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parents:
diff changeset
1847 class ModificationException(Exception):
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parents:
diff changeset
1848 def __init__(self):
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parents:
diff changeset
1849 pass
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parents:
diff changeset
1850
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parents:
diff changeset
1851 def __str__(self):
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parents:
diff changeset
1852 return (
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parents:
diff changeset
1853 "Modifications and transactional operations not allowed on "
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shellac
parents:
diff changeset
1854 "ReadOnlyGraphAggregate instances"
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parents:
diff changeset
1855 )
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parents:
diff changeset
1856
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parents:
diff changeset
1857
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parents:
diff changeset
1858 class UnSupportedAggregateOperation(Exception):
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parents:
diff changeset
1859 def __init__(self):
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parents:
diff changeset
1860 pass
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parents:
diff changeset
1861
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parents:
diff changeset
1862 def __str__(self):
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parents:
diff changeset
1863 return "This operation is not supported by ReadOnlyGraphAggregate " "instances"
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parents:
diff changeset
1864
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parents:
diff changeset
1865
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parents:
diff changeset
1866 class ReadOnlyGraphAggregate(ConjunctiveGraph):
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parents:
diff changeset
1867 """Utility class for treating a set of graphs as a single graph
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shellac
parents:
diff changeset
1868
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diff changeset
1869 Only read operations are supported (hence the name). Essentially a
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parents:
diff changeset
1870 ConjunctiveGraph over an explicit subset of the entire store.
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shellac
parents:
diff changeset
1871 """
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parents:
diff changeset
1872
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parents:
diff changeset
1873 def __init__(self, graphs, store="default"):
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parents:
diff changeset
1874 if store is not None:
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parents:
diff changeset
1875 super(ReadOnlyGraphAggregate, self).__init__(store)
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parents:
diff changeset
1876 Graph.__init__(self, store)
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parents:
diff changeset
1877 self.__namespace_manager = None
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parents:
diff changeset
1878
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parents:
diff changeset
1879 assert (
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parents:
diff changeset
1880 isinstance(graphs, list)
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diff changeset
1881 and graphs
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diff changeset
1882 and [g for g in graphs if isinstance(g, Graph)]
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parents:
diff changeset
1883 ), "graphs argument must be a list of Graphs!!"
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parents:
diff changeset
1884 self.graphs = graphs
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parents:
diff changeset
1885
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diff changeset
1886 def __repr__(self):
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parents:
diff changeset
1887 return "<ReadOnlyGraphAggregate: %s graphs>" % len(self.graphs)
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parents:
diff changeset
1888
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diff changeset
1889 def destroy(self, configuration):
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parents:
diff changeset
1890 raise ModificationException()
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parents:
diff changeset
1891
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parents:
diff changeset
1892 # Transactional interfaces (optional)
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parents:
diff changeset
1893 def commit(self):
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shellac
parents:
diff changeset
1894 raise ModificationException()
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parents:
diff changeset
1895
4f3585e2f14b "planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
shellac
parents:
diff changeset
1896 def rollback(self):
4f3585e2f14b "planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
shellac
parents:
diff changeset
1897 raise ModificationException()
4f3585e2f14b "planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
shellac
parents:
diff changeset
1898
4f3585e2f14b "planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
shellac
parents:
diff changeset
1899 def open(self, configuration, create=False):
4f3585e2f14b "planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
shellac
parents:
diff changeset
1900 # TODO: is there a use case for this method?
4f3585e2f14b "planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
shellac
parents:
diff changeset
1901 for graph in self.graphs:
4f3585e2f14b "planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
shellac
parents:
diff changeset
1902 graph.open(self, configuration, create)
4f3585e2f14b "planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
shellac
parents:
diff changeset
1903
4f3585e2f14b "planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
shellac
parents:
diff changeset
1904 def close(self):
4f3585e2f14b "planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
shellac
parents:
diff changeset
1905 for graph in self.graphs:
4f3585e2f14b "planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
shellac
parents:
diff changeset
1906 graph.close()
4f3585e2f14b "planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
shellac
parents:
diff changeset
1907
4f3585e2f14b "planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
shellac
parents:
diff changeset
1908 def add(self, triple):
4f3585e2f14b "planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
shellac
parents:
diff changeset
1909 raise ModificationException()
4f3585e2f14b "planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
shellac
parents:
diff changeset
1910
4f3585e2f14b "planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
shellac
parents:
diff changeset
1911 def addN(self, quads):
4f3585e2f14b "planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
shellac
parents:
diff changeset
1912 raise ModificationException()
4f3585e2f14b "planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
shellac
parents:
diff changeset
1913
4f3585e2f14b "planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
shellac
parents:
diff changeset
1914 def remove(self, triple):
4f3585e2f14b "planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
shellac
parents:
diff changeset
1915 raise ModificationException()
4f3585e2f14b "planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
shellac
parents:
diff changeset
1916
4f3585e2f14b "planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
shellac
parents:
diff changeset
1917 def triples(self, triple):
4f3585e2f14b "planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
shellac
parents:
diff changeset
1918 s, p, o = triple
4f3585e2f14b "planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
shellac
parents:
diff changeset
1919 for graph in self.graphs:
4f3585e2f14b "planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
shellac
parents:
diff changeset
1920 if isinstance(p, Path):
4f3585e2f14b "planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
shellac
parents:
diff changeset
1921 for s, o in p.eval(self, s, o):
4f3585e2f14b "planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
shellac
parents:
diff changeset
1922 yield s, p, o
4f3585e2f14b "planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
shellac
parents:
diff changeset
1923 else:
4f3585e2f14b "planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
shellac
parents:
diff changeset
1924 for s1, p1, o1 in graph.triples((s, p, o)):
4f3585e2f14b "planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
shellac
parents:
diff changeset
1925 yield s1, p1, o1
4f3585e2f14b "planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
shellac
parents:
diff changeset
1926
4f3585e2f14b "planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
shellac
parents:
diff changeset
1927 def __contains__(self, triple_or_quad):
4f3585e2f14b "planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
shellac
parents:
diff changeset
1928 context = None
4f3585e2f14b "planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
shellac
parents:
diff changeset
1929 if len(triple_or_quad) == 4:
4f3585e2f14b "planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
shellac
parents:
diff changeset
1930 context = triple_or_quad[3]
4f3585e2f14b "planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
shellac
parents:
diff changeset
1931 for graph in self.graphs:
4f3585e2f14b "planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
shellac
parents:
diff changeset
1932 if context is None or graph.identifier == context.identifier:
4f3585e2f14b "planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
shellac
parents:
diff changeset
1933 if triple_or_quad[:3] in graph:
4f3585e2f14b "planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
shellac
parents:
diff changeset
1934 return True
4f3585e2f14b "planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
shellac
parents:
diff changeset
1935 return False
4f3585e2f14b "planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
shellac
parents:
diff changeset
1936
4f3585e2f14b "planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
shellac
parents:
diff changeset
1937 def quads(self, triple):
4f3585e2f14b "planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
shellac
parents:
diff changeset
1938 """Iterate over all the quads in the entire aggregate graph"""
4f3585e2f14b "planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
shellac
parents:
diff changeset
1939 s, p, o = triple
4f3585e2f14b "planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
shellac
parents:
diff changeset
1940 for graph in self.graphs:
4f3585e2f14b "planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
shellac
parents:
diff changeset
1941 for s1, p1, o1 in graph.triples((s, p, o)):
4f3585e2f14b "planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
shellac
parents:
diff changeset
1942 yield s1, p1, o1, graph
4f3585e2f14b "planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
shellac
parents:
diff changeset
1943
4f3585e2f14b "planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
shellac
parents:
diff changeset
1944 def __len__(self):
4f3585e2f14b "planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
shellac
parents:
diff changeset
1945 return sum(len(g) for g in self.graphs)
4f3585e2f14b "planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
shellac
parents:
diff changeset
1946
4f3585e2f14b "planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
shellac
parents:
diff changeset
1947 def __hash__(self):
4f3585e2f14b "planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
shellac
parents:
diff changeset
1948 raise UnSupportedAggregateOperation()
4f3585e2f14b "planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
shellac
parents:
diff changeset
1949
4f3585e2f14b "planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
shellac
parents:
diff changeset
1950 def __cmp__(self, other):
4f3585e2f14b "planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
shellac
parents:
diff changeset
1951 if other is None:
4f3585e2f14b "planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
shellac
parents:
diff changeset
1952 return -1
4f3585e2f14b "planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
shellac
parents:
diff changeset
1953 elif isinstance(other, Graph):
4f3585e2f14b "planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
shellac
parents:
diff changeset
1954 return -1
4f3585e2f14b "planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
shellac
parents:
diff changeset
1955 elif isinstance(other, ReadOnlyGraphAggregate):
4f3585e2f14b "planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
shellac
parents:
diff changeset
1956 return (self.graphs > other.graphs) - (self.graphs < other.graphs)
4f3585e2f14b "planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
shellac
parents:
diff changeset
1957 else:
4f3585e2f14b "planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
shellac
parents:
diff changeset
1958 return -1
4f3585e2f14b "planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
shellac
parents:
diff changeset
1959
4f3585e2f14b "planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
shellac
parents:
diff changeset
1960 def __iadd__(self, other):
4f3585e2f14b "planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
shellac
parents:
diff changeset
1961 raise ModificationException()
4f3585e2f14b "planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
shellac
parents:
diff changeset
1962
4f3585e2f14b "planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
shellac
parents:
diff changeset
1963 def __isub__(self, other):
4f3585e2f14b "planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
shellac
parents:
diff changeset
1964 raise ModificationException()
4f3585e2f14b "planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
shellac
parents:
diff changeset
1965
4f3585e2f14b "planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
shellac
parents:
diff changeset
1966 # Conv. methods
4f3585e2f14b "planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
shellac
parents:
diff changeset
1967
4f3585e2f14b "planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
shellac
parents:
diff changeset
1968 def triples_choices(self, triple, context=None):
4f3585e2f14b "planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
shellac
parents:
diff changeset
1969 subject, predicate, object_ = triple
4f3585e2f14b "planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
shellac
parents:
diff changeset
1970 for graph in self.graphs:
4f3585e2f14b "planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
shellac
parents:
diff changeset
1971 choices = graph.triples_choices((subject, predicate, object_))
4f3585e2f14b "planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
shellac
parents:
diff changeset
1972 for (s, p, o) in choices:
4f3585e2f14b "planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
shellac
parents:
diff changeset
1973 yield s, p, o
4f3585e2f14b "planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
shellac
parents:
diff changeset
1974
4f3585e2f14b "planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
shellac
parents:
diff changeset
1975 def qname(self, uri):
4f3585e2f14b "planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
shellac
parents:
diff changeset
1976 if hasattr(self, "namespace_manager") and self.namespace_manager:
4f3585e2f14b "planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
shellac
parents:
diff changeset
1977 return self.namespace_manager.qname(uri)
4f3585e2f14b "planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
shellac
parents:
diff changeset
1978 raise UnSupportedAggregateOperation()
4f3585e2f14b "planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
shellac
parents:
diff changeset
1979
4f3585e2f14b "planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
shellac
parents:
diff changeset
1980 def compute_qname(self, uri, generate=True):
4f3585e2f14b "planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
shellac
parents:
diff changeset
1981 if hasattr(self, "namespace_manager") and self.namespace_manager:
4f3585e2f14b "planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
shellac
parents:
diff changeset
1982 return self.namespace_manager.compute_qname(uri, generate)
4f3585e2f14b "planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
shellac
parents:
diff changeset
1983 raise UnSupportedAggregateOperation()
4f3585e2f14b "planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
shellac
parents:
diff changeset
1984
4f3585e2f14b "planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
shellac
parents:
diff changeset
1985 def bind(self, prefix, namespace, override=True):
4f3585e2f14b "planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
shellac
parents:
diff changeset
1986 raise UnSupportedAggregateOperation()
4f3585e2f14b "planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
shellac
parents:
diff changeset
1987
4f3585e2f14b "planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
shellac
parents:
diff changeset
1988 def namespaces(self):
4f3585e2f14b "planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
shellac
parents:
diff changeset
1989 if hasattr(self, "namespace_manager"):
4f3585e2f14b "planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
shellac
parents:
diff changeset
1990 for prefix, namespace in self.namespace_manager.namespaces():
4f3585e2f14b "planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
shellac
parents:
diff changeset
1991 yield prefix, namespace
4f3585e2f14b "planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
shellac
parents:
diff changeset
1992 else:
4f3585e2f14b "planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
shellac
parents:
diff changeset
1993 for graph in self.graphs:
4f3585e2f14b "planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
shellac
parents:
diff changeset
1994 for prefix, namespace in graph.namespaces():
4f3585e2f14b "planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
shellac
parents:
diff changeset
1995 yield prefix, namespace
4f3585e2f14b "planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
shellac
parents:
diff changeset
1996
4f3585e2f14b "planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
shellac
parents:
diff changeset
1997 def absolutize(self, uri, defrag=1):
4f3585e2f14b "planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
shellac
parents:
diff changeset
1998 raise UnSupportedAggregateOperation()
4f3585e2f14b "planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
shellac
parents:
diff changeset
1999
4f3585e2f14b "planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
shellac
parents:
diff changeset
2000 def parse(self, source, publicID=None, format="xml", **args):
4f3585e2f14b "planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
shellac
parents:
diff changeset
2001 raise ModificationException()
4f3585e2f14b "planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
shellac
parents:
diff changeset
2002
4f3585e2f14b "planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
shellac
parents:
diff changeset
2003 def n3(self):
4f3585e2f14b "planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
shellac
parents:
diff changeset
2004 raise UnSupportedAggregateOperation()
4f3585e2f14b "planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
shellac
parents:
diff changeset
2005
4f3585e2f14b "planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
shellac
parents:
diff changeset
2006 def __reduce__(self):
4f3585e2f14b "planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
shellac
parents:
diff changeset
2007 raise UnSupportedAggregateOperation()
4f3585e2f14b "planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
shellac
parents:
diff changeset
2008
4f3585e2f14b "planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
shellac
parents:
diff changeset
2009
4f3585e2f14b "planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
shellac
parents:
diff changeset
2010 def _assertnode(*terms):
4f3585e2f14b "planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
shellac
parents:
diff changeset
2011 for t in terms:
4f3585e2f14b "planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
shellac
parents:
diff changeset
2012 assert isinstance(t, Node), "Term %s must be an rdflib term" % (t,)
4f3585e2f14b "planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
shellac
parents:
diff changeset
2013 return True
4f3585e2f14b "planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
shellac
parents:
diff changeset
2014
4f3585e2f14b "planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
shellac
parents:
diff changeset
2015
4f3585e2f14b "planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
shellac
parents:
diff changeset
2016 def test():
4f3585e2f14b "planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
shellac
parents:
diff changeset
2017 import doctest
4f3585e2f14b "planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
shellac
parents:
diff changeset
2018
4f3585e2f14b "planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
shellac
parents:
diff changeset
2019 doctest.testmod()
4f3585e2f14b "planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
shellac
parents:
diff changeset
2020
4f3585e2f14b "planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
shellac
parents:
diff changeset
2021
4f3585e2f14b "planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
shellac
parents:
diff changeset
2022 if __name__ == "__main__":
4f3585e2f14b "planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
shellac
parents:
diff changeset
2023 test()