pho 0.5 → 0.6

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Files changed (80) hide show
  1. data/CHANGES +17 -0
  2. data/Rakefile +10 -2
  3. data/bin/talis_store +37 -92
  4. data/doc/rdoc/classes/Pho.html +11 -0
  5. data/doc/rdoc/classes/Pho/CommandLine.html +508 -0
  6. data/doc/rdoc/classes/Pho/DatatypeProperty.html +15 -15
  7. data/doc/rdoc/classes/Pho/Enrichment.html +1 -1
  8. data/doc/rdoc/classes/Pho/Enrichment/{ResourceEnricher.html → StoreEnricher.html} +158 -58
  9. data/doc/rdoc/classes/Pho/Etags.html +36 -36
  10. data/doc/rdoc/classes/Pho/Facet/Results.html +19 -19
  11. data/doc/rdoc/classes/Pho/Facet/Term.html +6 -6
  12. data/doc/rdoc/classes/Pho/FieldPredicateMap.html +94 -94
  13. data/doc/rdoc/classes/Pho/FieldWeighting.html +14 -14
  14. data/doc/rdoc/classes/Pho/FileManagement/AbstractFileManager.html +126 -91
  15. data/doc/rdoc/classes/Pho/FileManagement/FileManager.html +68 -62
  16. data/doc/rdoc/classes/Pho/FileManagement/RDFManager.html +22 -57
  17. data/doc/rdoc/classes/Pho/Job.html +68 -67
  18. data/doc/rdoc/classes/Pho/Jobs.html +62 -62
  19. data/doc/rdoc/classes/Pho/QueryProfile.html +64 -64
  20. data/doc/rdoc/classes/Pho/RDF.html +120 -0
  21. data/doc/rdoc/classes/Pho/RDF/Parser.html +277 -0
  22. data/doc/rdoc/classes/Pho/ResourceHash.html +1 -1
  23. data/doc/rdoc/classes/Pho/ResourceHash/Converter.html +48 -46
  24. data/doc/rdoc/classes/Pho/ResourceHash/SetAlgebra.html +15 -14
  25. data/doc/rdoc/classes/Pho/Snapshot.html +36 -36
  26. data/doc/rdoc/classes/Pho/Sparql.html +50 -0
  27. data/doc/rdoc/classes/Pho/Sparql/SparqlClient.html +147 -68
  28. data/doc/rdoc/classes/Pho/Sparql/SparqlHelper.html +195 -114
  29. data/doc/rdoc/classes/Pho/Status.html +26 -26
  30. data/doc/rdoc/classes/Pho/Store.html +271 -264
  31. data/doc/rdoc/classes/Pho/StoreSparqlClient.html +183 -0
  32. data/doc/rdoc/classes/Pho/Update.html +1 -0
  33. data/doc/rdoc/classes/Pho/Update/Changeset.html +69 -68
  34. data/doc/rdoc/classes/Pho/Update/ChangesetBuilder.html +24 -24
  35. data/doc/rdoc/classes/Pho/Update/Changesets.html +15 -14
  36. data/doc/rdoc/classes/Pho/Update/LiteralStatement.html +18 -18
  37. data/doc/rdoc/classes/Pho/Update/ResourceStatement.html +24 -24
  38. data/doc/rdoc/classes/Pho/Update/Statement.html +28 -27
  39. data/doc/rdoc/classes/String.html +1 -1
  40. data/doc/rdoc/created.rid +1 -1
  41. data/doc/rdoc/files/CHANGES.html +53 -1
  42. data/doc/rdoc/files/lib/pho/changeset_rb.html +1 -1
  43. data/doc/rdoc/files/lib/pho/command_line_rb.html +101 -0
  44. data/doc/rdoc/files/lib/pho/converter_rb.html +1 -1
  45. data/doc/rdoc/files/lib/pho/enrichment_rb.html +1 -1
  46. data/doc/rdoc/files/lib/pho/file_management_rb.html +1 -1
  47. data/doc/rdoc/files/lib/pho/file_manager_rb.html +1 -1
  48. data/doc/rdoc/files/lib/pho/rdf_collection_rb.html +1 -1
  49. data/doc/rdoc/files/lib/pho/rdf_rb.html +108 -0
  50. data/doc/rdoc/files/lib/pho/sparql_rb.html +1 -1
  51. data/doc/rdoc/files/lib/pho/store_rb.html +8 -1
  52. data/doc/rdoc/files/lib/pho_rb.html +4 -2
  53. data/doc/rdoc/fr_class_index.html +6 -1
  54. data/doc/rdoc/fr_file_index.html +2 -0
  55. data/doc/rdoc/fr_method_index.html +192 -172
  56. data/examples/calais/bio.txt +7 -0
  57. data/examples/calais/dump.rb +17 -0
  58. data/examples/calais/enlighten.rb +23 -0
  59. data/examples/calais/output.rdf +25 -0
  60. data/examples/sinatra/viewer.rb +20 -0
  61. data/lib/pho.rb +4 -1
  62. data/lib/pho/changeset.rb +17 -1
  63. data/lib/pho/command_line.rb +166 -0
  64. data/lib/pho/converter.rb +8 -3
  65. data/lib/pho/enrichment.rb +93 -28
  66. data/lib/pho/file_management.rb +32 -19
  67. data/lib/pho/file_manager.rb +22 -26
  68. data/lib/pho/rdf.rb +74 -0
  69. data/lib/pho/rdf_collection.rb +2 -17
  70. data/lib/pho/sparql.rb +150 -38
  71. data/lib/pho/store.rb +28 -2
  72. data/tests/tc_contentbox.rb +41 -0
  73. data/tests/tc_enrichment.rb +41 -4
  74. data/tests/tc_file_manager.rb +97 -7
  75. data/tests/tc_rdf_collection.rb +25 -13
  76. data/tests/tc_rdf_parser.rb +37 -0
  77. data/tests/tc_sparql.rb +72 -2
  78. data/tests/tc_sparql_helper.rb +16 -0
  79. data/tests/ts_pho.rb +2 -1
  80. metadata +20 -3
data/doc/rdoc/classes/String.html CHANGED
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  onclick="toggleCode('M000001-source');return false;">[Source]</a></p>
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  <div class="method-source-code" id="M000001-source">
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  <pre>
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- <span class="ruby-comment cmt"># File lib/pho.rb, line 27</span>
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+ <span class="ruby-comment cmt"># File lib/pho.rb, line 30</span>
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  <span class="ruby-keyword kw">def</span> <span class="ruby-identifier">start_with?</span>(<span class="ruby-identifier">prefix</span>)
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  <span class="ruby-keyword kw">self</span>.<span class="ruby-identifier">index</span>(<span class="ruby-identifier">prefix</span>) <span class="ruby-operator">==</span> <span class="ruby-value">0</span>
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  <span class="ruby-keyword kw">end</span>
data/doc/rdoc/created.rid CHANGED
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- Thu, 04 Jun 2009 10:47:51 +0100
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+ Wed, 12 Aug 2009 15:30:14 +0100
data/doc/rdoc/files/CHANGES.html CHANGED
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  </tr>
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  <tr class="top-aligned-row">
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  <td><strong>Last Update:</strong></td>
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- <td>Thu Jun 04 10:46:50 +0100 2009</td>
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+ <td>Wed Aug 05 18:00:20 +0100 2009</td>
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  </tr>
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  </table>
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  </div>
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  <p>
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  Brief notes on significant changes and additions in each release
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  </p>
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+ <h2>Version 0.6</h2>
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+ <ul>
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+ <li>Refactored talis_store command extracting code into <a
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+ href="../classes/Pho/CommandLine.html">Pho::CommandLine</a>
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+
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+ </li>
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+ <li>Tweaked talis_store command, so attempt to store .nt file will trigger
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+ conversion into RDF/XML before submitting to Platform
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+
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+ </li>
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+ <li>Added <a href="../classes/Pho/RDF.html">Pho::RDF</a> module for general rdf
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+ utilities. Initially has method to convert ntriples into rdf/xml and to
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+ store that in the platform
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+
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+ </li>
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+ <li>At suggestion of @chrislowis added rescue around redland dependent
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+ requires.
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+
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+ </li>
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+ <li>talis_store command-line now supports &quot;upload&quot; option for storing
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+ individual files or directories
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+
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+ </li>
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+ <li>Added support for directory traversal to RDFManager and FileManager classes
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+
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+ </li>
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+ <li>Fixed bug in counting files being managed in RDFManager
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+
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+ </li>
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+ <li>Fixed file naming bug in AbstractFileManager, when path contains file
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+ extension
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+
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+ </li>
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+ <li>Added support for block to StoreEnricher.merge and StoreEnricher.infer
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+
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+ </li>
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+ <li>Renamed ResourceEnricher to StoreEnricher
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+
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+ </li>
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+ <li>Reimplemented ResourceEnricher.enrich method to support both a callback and
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+ a block
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+
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+ </li>
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+ <li>Added StoreSparqlClient to extend default client, and rewrite describe_uri
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+ queries as describe service calls
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+
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+ </li>
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+ <li>Added SparqlClient.describe_uri and SparqlHelper.describe_uri methods for
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+ generating different forms of Bounded Description for a resource
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+
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+ </li>
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+ </ul>
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  <h2>Version 0.5</h2>
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  <p>
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  NOTE: Released 0.4.1 version of the gem at this point to support earlier
data/doc/rdoc/files/lib/pho/changeset_rb.html CHANGED
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  </tr>
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  <td><strong>Last Update:</strong></td>
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- <td>Thu May 28 14:14:57 +0100 2009</td>
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+ <td>Wed Aug 05 18:32:26 +0100 2009</td>
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  </tr>
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  </table>
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  </div>
data/doc/rdoc/files/lib/pho/command_line_rb.html ADDED
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+ <?xml version="1.0" encoding="iso-8859-1"?>
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+ <!DOCTYPE html
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+ PUBLIC "-//W3C//DTD XHTML 1.0 Transitional//EN"
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+ "http://www.w3.org/TR/xhtml1/DTD/xhtml1-transitional.dtd">
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+
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+ <html xmlns="http://www.w3.org/1999/xhtml" xml:lang="en" lang="en">
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+ <head>
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+ <title>File: command_line.rb</title>
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+ <meta http-equiv="Content-Type" content="text/html; charset=iso-8859-1" />
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+ <meta http-equiv="Content-Script-Type" content="text/javascript" />
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+ <link rel="stylesheet" href="../../.././rdoc-style.css" type="text/css" media="screen" />
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+ <script type="text/javascript">
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+ // <![CDATA[
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+
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+ function popupCode( url ) {
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+ window.open(url, "Code", "resizable=yes,scrollbars=yes,toolbar=no,status=no,height=150,width=400")
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+ }
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+
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+ function toggleCode( id ) {
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+ if ( document.getElementById )
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+ elem = document.getElementById( id );
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+ else if ( document.all )
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+ elem = eval( "document.all." + id );
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+ else
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+ return false;
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+
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+ elemStyle = elem.style;
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+
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+ if ( elemStyle.display != "block" ) {
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+ elemStyle.display = "block"
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+ } else {
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+ elemStyle.display = "none"
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+ }
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+
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+ return true;
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+ }
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+
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+ // Make codeblocks hidden by default
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+ document.writeln( "<style type=\"text/css\">div.method-source-code { display: none }</style>" )
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+
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+ // ]]>
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+ </script>
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+
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+ </head>
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+ <body>
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+
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+
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+ <div id="fileHeader">
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+ <h1>command_line.rb</h1>
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+ <table class="header-table">
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+ <tr class="top-aligned-row">
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+ <td><strong>Path:</strong></td>
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+ <td>lib/pho/command_line.rb
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+ </td>
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+ </tr>
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+ <tr class="top-aligned-row">
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+ <td><strong>Last Update:</strong></td>
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+ <td>Wed Aug 05 18:07:22 +0100 2009</td>
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+ </tr>
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+ </table>
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+ </div>
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+ <!-- banner header -->
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+
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+ <div id="bodyContent">
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+ <div id="contextContent">
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+ </div>
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+ </div>
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+ <!-- if includes -->
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+ <div id="section">
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+ <!-- if method_list -->
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+ </div>
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+ <div id="validator-badges">
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+ <p><small><a href="http://validator.w3.org/check/referer">[Validate]</a></small></p>
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+ </div>
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+ </body>
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+ </html>
data/doc/rdoc/files/lib/pho/converter_rb.html CHANGED
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  </tr>
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  <tr class="top-aligned-row">
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  <td><strong>Last Update:</strong></td>
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- <td>Tue Apr 28 17:30:56 +0100 2009</td>
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+ <td>Wed Aug 05 17:01:45 +0100 2009</td>
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  </tr>
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  </table>
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  </div>
data/doc/rdoc/files/lib/pho/enrichment_rb.html CHANGED
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  </tr>
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  <tr class="top-aligned-row">
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  <td><strong>Last Update:</strong></td>
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- <td>Thu Jun 04 10:43:06 +0100 2009</td>
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+ <td>Mon Jul 27 16:21:50 +0100 2009</td>
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  </tr>
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  </table>
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  </div>
data/doc/rdoc/files/lib/pho/file_management_rb.html CHANGED
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  </tr>
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  <td><strong>Last Update:</strong></td>
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- <td>Thu May 28 17:34:03 +0100 2009</td>
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+ <td>Tue Aug 04 18:01:34 +0100 2009</td>
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  </tr>
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  </table>
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  </div>
data/doc/rdoc/files/lib/pho/file_manager_rb.html CHANGED
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  <td><strong>Last Update:</strong></td>
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- <td>Thu May 28 17:54:00 +0100 2009</td>
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+ <td>Tue Aug 04 18:27:50 +0100 2009</td>
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  </tr>
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  </table>
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data/doc/rdoc/files/lib/pho/rdf_collection_rb.html CHANGED
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- <td>Thu May 28 16:54:49 +0100 2009</td>
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+ <td>Tue Aug 04 17:41:52 +0100 2009</td>
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  </table>
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data/doc/rdoc/files/lib/pho/rdf_rb.html ADDED
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+ <?xml version="1.0" encoding="iso-8859-1"?>
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+ <!DOCTYPE html
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+ PUBLIC "-//W3C//DTD XHTML 1.0 Transitional//EN"
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+ "http://www.w3.org/TR/xhtml1/DTD/xhtml1-transitional.dtd">
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+
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+ <html xmlns="http://www.w3.org/1999/xhtml" xml:lang="en" lang="en">
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+ <head>
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+ <title>File: rdf.rb</title>
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+ <meta http-equiv="Content-Type" content="text/html; charset=iso-8859-1" />
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+ <meta http-equiv="Content-Script-Type" content="text/javascript" />
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+ <link rel="stylesheet" href="../../.././rdoc-style.css" type="text/css" media="screen" />
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+ <script type="text/javascript">
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+ // <![CDATA[
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+
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+ function popupCode( url ) {
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+ window.open(url, "Code", "resizable=yes,scrollbars=yes,toolbar=no,status=no,height=150,width=400")
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+ }
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+
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+ function toggleCode( id ) {
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+ if ( document.getElementById )
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+ elem = document.getElementById( id );
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+ else if ( document.all )
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+ elem = eval( "document.all." + id );
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+ else
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+ return false;
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+ elemStyle = elem.style;
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+
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+ if ( elemStyle.display != "block" ) {
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+ elemStyle.display = "block"
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+ } else {
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+ elemStyle.display = "none"
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+ }
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+
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+ return true;
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+ }
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+
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+ // Make codeblocks hidden by default
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+ document.writeln( "<style type=\"text/css\">div.method-source-code { display: none }</style>" )
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+
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+ // ]]>
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+ </script>
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+ </head>
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+ <body>
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+ <h1>rdf.rb</h1>
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+ <table class="header-table">
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+ <tr class="top-aligned-row">
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+ <td><strong>Path:</strong></td>
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+ <td>lib/pho/rdf.rb
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+ </td>
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+ </tr>
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+ <tr class="top-aligned-row">
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+ <td><strong>Last Update:</strong></td>
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+ <td>Wed Aug 05 17:43:33 +0100 2009</td>
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+ </tr>
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+ </table>
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+ </div>
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+ <!-- banner header -->
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+ <div id="bodyContent">
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+ <h3 class="section-bar">Required files</h3>
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+ <div class="name-list">
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+ </div>
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+ </div>
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+ <p><small><a href="http://validator.w3.org/check/referer">[Validate]</a></small></p>
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+ </div>
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+ </body>
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+ </html>
data/doc/rdoc/files/lib/pho/sparql_rb.html CHANGED
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+ <td>Thu Jun 04 17:03:33 +0100 2009</td>
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data/doc/rdoc/files/lib/pho/store_rb.html CHANGED
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+ <td>Tue Aug 04 09:11:26 +0100 2009</td>
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  </table>
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  pho/rdf_collection&nbsp;&nbsp;
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  <a href="classes/Pho.html">Pho</a><br />
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  <a href="classes/Pho/Analyzers.html">Pho::Analyzers</a><br />
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+ <a href="classes/Pho/CommandLine.html">Pho::CommandLine</a><br />
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  <a href="classes/Pho/DatatypeProperty.html">Pho::DatatypeProperty</a><br />
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- <a href="classes/Pho/Enrichment/ResourceEnricher.html">Pho::Enrichment::ResourceEnricher</a><br />
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+ <a href="classes/Pho/Enrichment/StoreEnricher.html">Pho::Enrichment::StoreEnricher</a><br />
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  <a href="classes/Pho/Facet/Results.html">Pho::Facet::Results</a><br />
@@ -40,6 +41,8 @@
40
41
  <a href="classes/Pho/Jobs.html">Pho::Jobs</a><br />
41
42
  <a href="classes/Pho/Namespaces.html">Pho::Namespaces</a><br />
42
43
  <a href="classes/Pho/QueryProfile.html">Pho::QueryProfile</a><br />
44
+ <a href="classes/Pho/RDF.html">Pho::RDF</a><br />
45
+ <a href="classes/Pho/RDF/Parser.html">Pho::RDF::Parser</a><br />
43
46
  <a href="classes/Pho/RDFCollection.html">Pho::RDFCollection</a><br />
44
47
  <a href="classes/Pho/ResourceHash.html">Pho::ResourceHash</a><br />
45
48
  <a href="classes/Pho/ResourceHash/Converter.html">Pho::ResourceHash::Converter</a><br />
@@ -50,9 +53,11 @@
50
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  <a href="classes/Pho/Sparql/SparqlHelper.html">Pho::Sparql::SparqlHelper</a><br />
51
54
  <a href="classes/Pho/Status.html">Pho::Status</a><br />
52
55
  <a href="classes/Pho/Store.html">Pho::Store</a><br />
56
+ <a href="classes/Pho/StoreSparqlClient.html">Pho::StoreSparqlClient</a><br />
53
57
  <a href="classes/Pho/Update.html">Pho::Update</a><br />
54
58
  <a href="classes/Pho/Update/Changeset.html">Pho::Update::Changeset</a><br />
55
59
  <a href="classes/Pho/Update/ChangesetBuilder.html">Pho::Update::ChangesetBuilder</a><br />
60
+ <a href="classes/Pho/Update/ChangesetHelper.html">Pho::Update::ChangesetHelper</a><br />
56
61
  <a href="classes/Pho/Update/Changesets.html">Pho::Update::Changesets</a><br />
57
62
  <a href="classes/Pho/Update/LiteralStatement.html">Pho::Update::LiteralStatement</a><br />
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  <a href="classes/Pho/Update/ResourceStatement.html">Pho::Update::ResourceStatement</a><br />
data/doc/rdoc/fr_file_index.html CHANGED
@@ -25,6 +25,7 @@
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  <a href="files/lib/pho_rb.html">lib/pho.rb</a><br />
26
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  <a href="files/lib/pho/changeset_rb.html">lib/pho/changeset.rb</a><br />
27
27
  <a href="files/lib/pho/changeset_builder_rb.html">lib/pho/changeset_builder.rb</a><br />
28
+ <a href="files/lib/pho/command_line_rb.html">lib/pho/command_line.rb</a><br />
28
29
  <a href="files/lib/pho/converter_rb.html">lib/pho/converter.rb</a><br />
29
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  <a href="files/lib/pho/enrichment_rb.html">lib/pho/enrichment.rb</a><br />
30
31
  <a href="files/lib/pho/etags_rb.html">lib/pho/etags.rb</a><br />
@@ -34,6 +35,7 @@
34
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  <a href="files/lib/pho/file_manager_rb.html">lib/pho/file_manager.rb</a><br />
35
36
  <a href="files/lib/pho/job_rb.html">lib/pho/job.rb</a><br />
36
37
  <a href="files/lib/pho/query_profile_rb.html">lib/pho/query_profile.rb</a><br />
38
+ <a href="files/lib/pho/rdf_rb.html">lib/pho/rdf.rb</a><br />
37
39
  <a href="files/lib/pho/rdf_collection_rb.html">lib/pho/rdf_collection.rb</a><br />
38
40
  <a href="files/lib/pho/resource_hash_rb.html">lib/pho/resource_hash.rb</a><br />
39
41
  <a href="files/lib/pho/snapshot_rb.html">lib/pho/snapshot.rb</a><br />