myexperiment-rest 0.2.7 → 0.2.8

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  1. data/CHANGES +3 -0
  2. data/README +1 -1
  3. data/Rakefile +7 -7
  4. data/bin/get_workflow_data.rb +7 -0
  5. data/doc/rdoc/CHANGES.html +123 -0
  6. data/doc/rdoc/LICENSE.html +121 -0
  7. data/doc/rdoc/MyExperimentREST.html +160 -0
  8. data/doc/rdoc/MyExperimentREST/TavernaIOData.html +255 -0
  9. data/doc/rdoc/MyExperimentREST/TavernaUser.html +303 -0
  10. data/doc/rdoc/MyExperimentREST/TavernaWorkflow.html +346 -0
  11. data/doc/rdoc/MyExperimentREST/Workflows.html +258 -0
  12. data/doc/rdoc/README.html +138 -0
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  35. data/doc/rdoc/js/darkfish.js +116 -0
  36. data/doc/rdoc/js/jquery.js +32 -0
  37. data/doc/rdoc/js/quicksearch.js +114 -0
  38. data/doc/rdoc/js/thickbox-compressed.js +10 -0
  39. data/doc/rdoc/lib/myexperiment-rest/myexperiment_rest_rb.html +60 -0
  40. data/doc/rdoc/lib/myexperiment-rest_rb.html +54 -0
  41. data/doc/rdoc/rdoc.css +763 -0
  42. data/lib/myexperiment-rest/myexperiment_rest.rb +53 -9
  43. metadata +41 -52
  44. data/doc/classes/MyExperimentREST.html +0 -113
  45. data/doc/classes/MyExperimentREST/IOData.html +0 -169
  46. data/doc/classes/MyExperimentREST/IOData.src/M000003.html +0 -20
  47. data/doc/classes/MyExperimentREST/ReadWorkflow.html +0 -184
  48. data/doc/classes/MyExperimentREST/ReadWorkflow.src/M000002.html +0 -39
  49. data/doc/classes/MyExperimentREST/ReadWorkflow.src/M000005.html +0 -41
  50. data/doc/classes/MyExperimentREST/TavernaIOData.html +0 -167
  51. data/doc/classes/MyExperimentREST/TavernaIOData.src/M000006.html +0 -20
  52. data/doc/classes/MyExperimentREST/TavernaIOData.src/M000007.html +0 -20
  53. data/doc/classes/MyExperimentREST/TavernaWorkflow.html +0 -209
  54. data/doc/classes/MyExperimentREST/TavernaWorkflow.src/M000005.html +0 -23
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  56. data/doc/classes/MyExperimentREST/Workflow.html +0 -172
  57. data/doc/classes/MyExperimentREST/Workflow.src/M000001.html +0 -21
  58. data/doc/classes/MyExperimentREST/Workflows.html +0 -167
  59. data/doc/classes/MyExperimentREST/Workflows.src/M000004.html +0 -41
  60. data/doc/classes/TestReadWorkflow.html +0 -167
  61. data/doc/classes/TestReadWorkflow.src/M000001.html +0 -18
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  66. data/doc/files/README.html +0 -148
  67. data/doc/files/bin/get_workflow_data_rb.html +0 -116
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  77. data/doc/rdoc/classes/MyExperimentREST.html +0 -117
  78. data/doc/rdoc/classes/MyExperimentREST/TavernaIOData.html +0 -178
  79. data/doc/rdoc/classes/MyExperimentREST/TavernaWorkflow.html +0 -223
  80. data/doc/rdoc/classes/MyExperimentREST/Workflows.html +0 -199
  81. data/doc/rdoc/files/CHANGES.html +0 -130
  82. data/doc/rdoc/files/LICENSE.html +0 -133
  83. data/doc/rdoc/files/README.html +0 -146
  84. data/doc/rdoc/files/lib/myexperiment-rest/myexperiment_rest_rb.html +0 -110
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data/doc/classes/MyExperimentREST/Workflow.src/M000001.html DELETED
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- <pre><span class="ruby-comment cmt"># File lib/myexperiment-rest/my_experiment_rest.rb, line 97</span>
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- <span class="ruby-keyword kw">def</span> <span class="ruby-identifier">initialize</span>(<span class="ruby-identifier">title</span>, <span class="ruby-identifier">description</span>, <span class="ruby-identifier">inputs</span>, <span class="ruby-identifier">outputs</span>)
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- <span class="ruby-ivar">@title</span> = <span class="ruby-identifier">title</span>
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- <span class="ruby-ivar">@description</span> = <span class="ruby-identifier">description</span>
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- <span class="ruby-ivar">@inputs</span> = <span class="ruby-identifier">inputs</span>
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- <span class="ruby-ivar">@outputs</span> = <span class="ruby-identifier">outputs</span>
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data/doc/classes/MyExperimentREST/Workflows.html DELETED
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- <td class="class-name-in-header">MyExperimentREST::Workflows</td>
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- <td><strong>In:</strong></td>
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- <a href="../../files/lib/myexperiment-rest/myexperiment_rest_rb.html">
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- lib/myexperiment-rest/myexperiment_rest.rb
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- Connects to myExperiment REST API and creates a <em><a
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- <tr class="top-aligned-row context-row">
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- <td class="context-item-name">uri</td>
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- Requires the URI of the workflow in the repository as a String.
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- <span class="ruby-ivar">@wkf</span> = <span class="ruby-constant">Workflows</span>.<span class="ruby-identifier">new</span>.<span class="ruby-identifier">read</span>(<span class="ruby-value str">'http://www.myexperiment.org/workflows/74/download/bioaid_proteindiscovery_221429.xml?version=3'</span>)
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- <pre><span class="ruby-comment cmt"># File test/test_read_workflow.rb, line 15</span>
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- <span class="ruby-identifier">assert_equal</span> <span class="ruby-value str">'myexperiment'</span>, <span class="ruby-ivar">@wkf</span>.<span class="ruby-identifier">input_type</span>, <span class="ruby-value str">&quot;Workflow's input type not properly initialized!&quot;</span>
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- <span class="ruby-identifier">assert_equal</span> <span class="ruby-value str">'http://www.myexperiment.org/workflows/74/download/bioaid_proteindiscovery_221429.xml'</span>, <span class="ruby-ivar">@wkf</span>.<span class="ruby-identifier">xml_uri</span>, <span class="ruby-value str">&quot;Workflow's XML URI not properly initialized!&quot;</span>
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- <span class="ruby-ivar">@wkf</span>.<span class="ruby-identifier">description</span>, <span class="ruby-value str">&quot;Workflow's description not properly initialized!&quot;</span>
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- <pre><span class="ruby-comment cmt"># File test/test_read_workflow.rb, line 25</span>
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- <span class="ruby-keyword kw">def</span> <span class="ruby-identifier">test_workflows_ios</span>
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- <span class="ruby-identifier">assert_equal</span> <span class="ruby-value str">'Query'</span>, <span class="ruby-ivar">@wkf</span>.<span class="ruby-identifier">inputs</span>[<span class="ruby-value">0</span>].<span class="ruby-identifier">name</span>, <span class="ruby-value str">&quot;Workflow's first input name not properly initialized!&quot;</span>
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- <span class="ruby-identifier">assert_equal</span> <span class="ruby-value str">'Maximum number of documents to extract proteins from.'</span>, <span class="ruby-ivar">@wkf</span>.<span class="ruby-identifier">inputs</span>[<span class="ruby-value">1</span>].<span class="ruby-identifier">descriptions</span>[<span class="ruby-value">1</span>], <span class="ruby-value str">&quot;Workflow's second input's description not properly initialized!&quot;</span>
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- <span class="ruby-identifier">assert_equal</span> <span class="ruby-value str">'&quot;transmembrane proteins&quot; AND amyloid'</span>, <span class="ruby-ivar">@wkf</span>.<span class="ruby-identifier">inputs</span>[<span class="ruby-value">0</span>].<span class="ruby-identifier">examples</span>[<span class="ruby-value">0</span>], <span class="ruby-value str">&quot;Workflow's first input's example not properly initialized!&quot;</span>
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