pho 0.5 → 0.6

This diff represents the content of publicly available package versions that have been released to one of the supported registries. The information contained in this diff is provided for informational purposes only and reflects changes between package versions as they appear in their respective public registries.
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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data/doc/rdoc/files/CHANGES.html CHANGED
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  </tr>
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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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  </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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+ function toggleCode( id ) {
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+ else if ( document.all )
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+ elem = eval( "document.all." + id );
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+ return false;
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+ elemStyle = elem.style;
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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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+ 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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+ <div id="bodyContent">
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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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  <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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  </tr>
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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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data/doc/rdoc/files/lib/pho/rdf_collection_rb.html CHANGED
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  <td><strong>Last Update:</strong></td>
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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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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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+ <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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+ <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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+ rdf/redland&nbsp;&nbsp;
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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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  </tr>
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  <td><strong>Last Update:</strong></td>
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- <td>Thu Jun 04 10:35:02 +0100 2009</td>
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+ <td>Thu Jun 04 17:03:33 +0100 2009</td>
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  </tr>
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  </table>
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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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  </tr>
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  </table>
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  </div>
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+ <h3 class="section-bar">Required files</h3>
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+ </div>
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+ <td>Wed Aug 05 18:00:42 +0100 2009</td>
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  </tr>
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  </table>
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  </div>
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  pho/rdf_collection&nbsp;&nbsp;
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  pho/file_manager&nbsp;&nbsp;
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  pho/resource_hash&nbsp;&nbsp;
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- pho/converter&nbsp;&nbsp;
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+ pho/converter&nbsp;&nbsp;
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  </div>
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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/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
53
  <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 />
58
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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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25
  <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
35
  <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 />