myexperiment-rest 0.2.8 → 0.3.0

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Files changed (26) hide show
  1. data/CHANGES +13 -0
  2. data/README +3 -3
  3. data/Rakefile +4 -9
  4. data/bin/get_workflow_data.rb +27 -9
  5. data/doc/rdoc/CHANGES.html +30 -4
  6. data/doc/rdoc/LICENSE.html +8 -4
  7. data/doc/rdoc/MyExperimentREST.html +101 -10
  8. data/doc/rdoc/MyExperimentREST/{TavernaIOData.html → MyExperimentIOData.html} +76 -14
  9. data/doc/rdoc/MyExperimentREST/{TavernaUser.html → MyExperimentUser.html} +122 -22
  10. data/doc/rdoc/MyExperimentREST/{TavernaWorkflow.html → MyExperimentWorkflow.html} +87 -62
  11. data/doc/rdoc/MyExperimentREST/Urls.html +168 -0
  12. data/doc/rdoc/MyExperimentREST/User.html +260 -0
  13. data/doc/rdoc/MyExperimentREST/{Workflows.html → Workflow.html} +72 -61
  14. data/doc/rdoc/README.html +12 -7
  15. data/doc/rdoc/created.rid +7 -5
  16. data/doc/rdoc/index.html +30 -11
  17. data/doc/rdoc/lib/myexperiment-rest/constants_rb.html +52 -0
  18. data/doc/rdoc/lib/myexperiment-rest/{myexperiment_rest_rb.html → user_rb.html} +2 -8
  19. data/doc/rdoc/lib/myexperiment-rest/workflow_rb.html +54 -0
  20. data/doc/rdoc/lib/myexperiment-rest_rb.html +10 -2
  21. data/lib/myexperiment-rest.rb +42 -1
  22. data/lib/myexperiment-rest/constants.rb +11 -0
  23. data/lib/myexperiment-rest/user.rb +83 -0
  24. data/lib/myexperiment-rest/workflow.rb +145 -0
  25. metadata +21 -15
  26. data/lib/myexperiment-rest/myexperiment_rest.rb +0 -190
data/doc/rdoc/MyExperimentREST/User.html ADDED
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+ <?xml version="1.0" encoding="UTF-8"?>
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+ <!DOCTYPE html PUBLIC "-//W3C//DTD XHTML 1.0 Strict//EN"
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+ "http://www.w3.org/TR/xhtml1/DTD/xhtml1-strict.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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+ <meta content="text/html; charset=UTF-8" http-equiv="Content-Type" />
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+
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+ <title>Class: MyExperimentREST::User</title>
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+
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+ <link rel="stylesheet" href="../rdoc.css" type="text/css" media="screen" />
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+
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+ <script src="../js/jquery.js" type="text/javascript" charset="utf-8"></script>
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+ <script src="../js/thickbox-compressed.js" type="text/javascript" charset="utf-8"></script>
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+ <script src="../js/quicksearch.js" type="text/javascript" charset="utf-8"></script>
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+ <script src="../js/darkfish.js" type="text/javascript" charset="utf-8"></script>
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+
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+ </head>
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+ <body id="top" class="class">
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+
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+ <div id="metadata">
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+ <div id="home-metadata">
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+ <div id="home-section" class="section">
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+ <h3 class="section-header">
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+ <a href="../index.html">Home</a>
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+ <a href="../index.html#classes">Classes</a>
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+ <a href="../index.html#methods">Methods</a>
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+ </h3>
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+ </div>
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+ </div>
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+
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+ <div id="file-metadata">
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+ <div id="file-list-section" class="section">
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+ <h3 class="section-header">In Files</h3>
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+ <div class="section-body">
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+ <ul>
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+
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+ <li><a href="../lib/myexperiment-rest/user_rb.html?TB_iframe=true&amp;height=550&amp;width=785"
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+ class="thickbox" title="lib/myexperiment-rest/user.rb">lib/myexperiment-rest/user.rb</a></li>
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+
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+ </ul>
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+ </div>
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+ </div>
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+
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+
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+ </div>
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+
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+ <div id="class-metadata">
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+
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+ <!-- Parent Class -->
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+ <div id="parent-class-section" class="section">
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+ <h3 class="section-header">Parent</h3>
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+
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+ <p class="link">Object</p>
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+
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+ </div>
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+
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+
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+
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+
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+
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+ <!-- Method Quickref -->
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+ <div id="method-list-section" class="section">
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+ <h3 class="section-header">Methods</h3>
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+ <ul class="link-list">
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+
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+ <li><a href="#method-c-from_id">::from_id</a></li>
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+ <li><a href="#method-c-from_uri">::from_uri</a></li>
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+
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+ </ul>
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+ </div>
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+
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+
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+ </div>
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+
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+ <div id="project-metadata">
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+ <div id="fileindex-section" class="section project-section">
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+ <h3 class="section-header">Files</h3>
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+ <ul>
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+
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+ <li class="file"><a href="../CHANGES.html">CHANGES</a></li>
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+
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+ <li class="file"><a href="../LICENSE.html">LICENSE</a></li>
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+
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+ <li class="file"><a href="../README.html">README</a></li>
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+
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+ </ul>
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+ </div>
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+
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+
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+ <div id="classindex-section" class="section project-section">
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+ <h3 class="section-header">Class/Module Index
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+ <span class="search-toggle"><img src="../images/find.png"
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+ height="16" width="16" alt="[+]"
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+ title="show/hide quicksearch" /></span></h3>
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+ <form action="#" method="get" accept-charset="utf-8" class="initially-hidden">
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+ <fieldset>
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+ <legend>Quicksearch</legend>
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+ <input type="text" name="quicksearch" value=""
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+ class="quicksearch-field" />
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+ </fieldset>
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+ </form>
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+
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+ <ul class="link-list">
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+
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+ <li><a href="../MyExperimentREST.html">MyExperimentREST</a></li>
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+
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+ <li><a href="../MyExperimentREST/MyExperimentIOData.html">MyExperimentREST::MyExperimentIOData</a></li>
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+
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+ <li><a href="../MyExperimentREST/MyExperimentUser.html">MyExperimentREST::MyExperimentUser</a></li>
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+
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+ <li><a href="../MyExperimentREST/MyExperimentWorkflow.html">MyExperimentREST::MyExperimentWorkflow</a></li>
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+
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+ <li><a href="../MyExperimentREST/Urls.html">MyExperimentREST::Urls</a></li>
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+
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+ <li><a href="../MyExperimentREST/User.html">MyExperimentREST::User</a></li>
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+
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+ <li><a href="../MyExperimentREST/Workflow.html">MyExperimentREST::Workflow</a></li>
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+
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+ </ul>
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+ <div id="no-class-search-results" style="display: none;">No matching classes.</div>
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+ </div>
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+
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+ </div>
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+ </div>
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+
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+ <div id="documentation">
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+ <h1 class="class">MyExperimentREST::User</h1>
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+
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+ <div id="description" class="description">
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+
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+ <p>Connects to myExperiment REST API and creates a <em><a
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+ href="MyExperimentUser.html">MyExperimentUser</a></em> object.</p>
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+
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+ </div><!-- description -->
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+
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+ <div id="5Buntitled-5D" class="documentation-section">
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+
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+
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+
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+
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+
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+ <!-- Methods -->
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+
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+ <div id="public-class-method-details" class="method-section section">
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+ <h3 class="section-header">Public Class Methods</h3>
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+
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+
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+ <div id="from_id-method" class="method-detail ">
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+ <a name="method-c-from_id"></a>
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+
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+
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+ <div class="method-heading">
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+ <span class="method-name">from_id</span><span
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+ class="method-args">(user_id)</span>
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+ <span class="method-click-advice">click to toggle source</span>
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+ </div>
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+
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+
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+ <div class="method-description">
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+
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+ <p>Returns a <em><a href="MyExperimentUser.html">MyExperimentUser</a></em>
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+ object given a myExperiment id for that user.</p>
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+
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+
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+
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+ <div class="method-source-code" id="from_id-source">
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+ <pre>
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+ <span class="ruby-comment"># File lib/myexperiment-rest/user.rb, line 31</span>
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+ <span class="ruby-keyword">def</span> <span class="ruby-keyword">self</span>.<span class="ruby-identifier">from_id</span>(<span class="ruby-identifier">user_id</span>)
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+
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+ <span class="ruby-comment"># Get user resource information</span>
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+ <span class="ruby-identifier">xml</span> = <span class="ruby-constant">MyExperimentREST</span>.<span class="ruby-identifier">get_myexperiment_data</span>(<span class="ruby-constant">Urls</span><span class="ruby-operator">::</span><span class="ruby-constant">USER_URL</span>, <span class="ruby-value">:id</span> =<span class="ruby-operator">&gt;</span> <span class="ruby-identifier">user_id</span>)
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+
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+ <span class="ruby-constant">MyExperimentUser</span>.<span class="ruby-identifier">parse</span>(<span class="ruby-identifier">xml</span>)
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+ <span class="ruby-keyword">end</span></pre>
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+ </div><!-- from_id-source -->
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+
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+ </div>
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+
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+
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+ </div><!-- from_id-method -->
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+
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+
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+ <div id="from_uri-method" class="method-detail ">
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+ <a name="method-c-from_uri"></a>
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+
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+ <div class="method-heading">
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+ <span class="method-name">from_uri</span><span
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+ class="method-args">(uri)</span>
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+ <span class="method-click-advice">click to toggle source</span>
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+ </div>
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+
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+
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+ <div class="method-description">
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+
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+ <p>Returns a <em><a href="MyExperimentUser.html">MyExperimentUser</a></em>
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+ object given a URI of the user in the repository as a String.</p>
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+
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+
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+
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+ <div class="method-source-code" id="from_uri-source">
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+ <pre>
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+ <span class="ruby-comment"># File lib/myexperiment-rest/user.rb, line 11</span>
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+ <span class="ruby-keyword">def</span> <span class="ruby-keyword">self</span>.<span class="ruby-identifier">from_uri</span>(<span class="ruby-identifier">uri</span>)
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+
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+ <span class="ruby-identifier">user_id</span> = <span class="ruby-string">''</span>
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+
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+ <span class="ruby-comment"># Get user id - will match both user/74 and users.xml?id=74</span>
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+ <span class="ruby-identifier">uri_id</span> = <span class="ruby-identifier">uri</span>.<span class="ruby-identifier">match</span>(<span class="ruby-regexp">/user.*[\/?](id=)?(\d+)/</span>)
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+ <span class="ruby-keyword">if</span> <span class="ruby-identifier">uri_id</span> <span class="ruby-operator">!=</span> <span class="ruby-keyword">nil</span>
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+ <span class="ruby-identifier">user_id</span> = <span class="ruby-identifier">uri_id</span>[<span class="ruby-value">2</span>]
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+ <span class="ruby-keyword">else</span>
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+ <span class="ruby-identifier">raise</span> <span class="ruby-string">&quot;Could not match user id.&quot;</span>
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+ <span class="ruby-keyword">end</span>
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+
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+ <span class="ruby-comment"># Get user resource information</span>
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+ <span class="ruby-identifier">xml</span> = <span class="ruby-constant">MyExperimentREST</span>.<span class="ruby-identifier">get_myexperiment_data</span>(<span class="ruby-constant">Urls</span><span class="ruby-operator">::</span><span class="ruby-constant">USER_URL</span>, <span class="ruby-value">:id</span> =<span class="ruby-operator">&gt;</span> <span class="ruby-identifier">user_id</span>)
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+
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+ <span class="ruby-constant">MyExperimentUser</span>.<span class="ruby-identifier">parse</span>(<span class="ruby-identifier">xml</span>)
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+ <span class="ruby-keyword">end</span></pre>
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+ </div><!-- from_uri-source -->
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+
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+ </div>
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+ </div><!-- from_uri-method -->
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+ </div><!-- public-class-method-details -->
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+
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+ </div><!-- 5Buntitled-5D -->
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+
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+
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+ </div><!-- documentation -->
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+
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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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+ <p><small>Generated with the <a href="http://deveiate.org/projects/Darkfish-Rdoc/">Darkfish
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+ Rdoc Generator</a> 2</small>.</p>
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+ </div>
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+
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+ </body>
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+ </html>
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+
data/doc/rdoc/MyExperimentREST/{Workflows.html → Workflow.html} RENAMED
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  <head>
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  <meta content="text/html; charset=UTF-8" http-equiv="Content-Type" />
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- <title>Class: MyExperimentREST::Workflows</title>
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+ <title>Class: MyExperimentREST::Workflow</title>
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@@ -34,8 +34,8 @@
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  <div class="section-body">
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  <ul>
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- <li><a href="../lib/myexperiment-rest/myexperiment_rest_rb.html?TB_iframe=true&amp;height=550&amp;width=785"
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- class="thickbox" title="lib/myexperiment-rest/myexperiment_rest.rb">lib/myexperiment-rest/myexperiment_rest.rb</a></li>
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+ <li><a href="../lib/myexperiment-rest/workflow_rb.html?TB_iframe=true&amp;height=550&amp;width=785"
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+ class="thickbox" title="lib/myexperiment-rest/workflow.rb">lib/myexperiment-rest/workflow.rb</a></li>
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  <ul class="link-list">
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+ <li><a href="#method-c-from_id_and_version">::from_id_and_version</a></li>
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+ <li><a href="#method-c-from_uri">::from_uri</a></li>
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  </ul>
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@@ -120,13 +110,17 @@
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  <li><a href="../MyExperimentREST.html">MyExperimentREST</a></li>
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- <li><a href="../MyExperimentREST/TavernaIOData.html">MyExperimentREST::TavernaIOData</a></li>
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+ <li><a href="../MyExperimentREST/MyExperimentIOData.html">MyExperimentREST::MyExperimentIOData</a></li>
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+ <li><a href="../MyExperimentREST/MyExperimentUser.html">MyExperimentREST::MyExperimentUser</a></li>
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+ <li><a href="../MyExperimentREST/MyExperimentWorkflow.html">MyExperimentREST::MyExperimentWorkflow</a></li>
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- <li><a href="../MyExperimentREST/TavernaUser.html">MyExperimentREST::TavernaUser</a></li>
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+ <li><a href="../MyExperimentREST/Urls.html">MyExperimentREST::Urls</a></li>
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- <li><a href="../MyExperimentREST/TavernaWorkflow.html">MyExperimentREST::TavernaWorkflow</a></li>
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+ <li><a href="../MyExperimentREST/User.html">MyExperimentREST::User</a></li>
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- <li><a href="../MyExperimentREST/Workflows.html">MyExperimentREST::Workflows</a></li>
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+ <li><a href="../MyExperimentREST/Workflow.html">MyExperimentREST::Workflow</a></li>
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@@ -137,12 +131,12 @@
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  <p>Connects to myExperiment REST API and creates a <em><a
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- href="TavernaWorkflow.html">TavernaWorkflow</a></em> object.</p>
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+ href="MyExperimentWorkflow.html">MyExperimentWorkflow</a></em> object.</p>
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@@ -155,41 +149,58 @@ href="TavernaWorkflow.html">TavernaWorkflow</a></em> object.</p>
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+ <!-- Methods -->
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+ <h3 class="section-header">Public Class Methods</h3>
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+ <div id="from_id_and_version-method" class="method-detail ">
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+ <a name="method-c-from_id_and_version"></a>
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- class="attribute-access-type">[R]</span>
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+ <div class="method-heading">
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+ <span class="method-name">from_id_and_version</span><span
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+ class="method-args">(id, version='')</span>
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+ <span class="method-click-advice">click to toggle source</span>
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+ <p>Returns a <em><a
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+ <div class="method-source-code" id="from_id_and_version-source">
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+ <pre>
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+ <span class="ruby-comment"># File lib/myexperiment-rest/workflow.rb, line 38</span>
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+ <span class="ruby-keyword">def</span> <span class="ruby-keyword">self</span>.<span class="ruby-identifier">from_id_and_version</span>(<span class="ruby-identifier">id</span>, <span class="ruby-identifier">version</span>=<span class="ruby-string">''</span>)
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+
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+ <span class="ruby-comment"># Get workflow resource information</span>
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+ <span class="ruby-identifier">xml</span> = <span class="ruby-constant">MyExperimentREST</span>.<span class="ruby-identifier">get_myexperiment_data</span>(<span class="ruby-constant">Urls</span><span class="ruby-operator">::</span><span class="ruby-constant">WORKFLOW_URL</span>, <span class="ruby-value">:id</span> =<span class="ruby-operator">&gt;</span> <span class="ruby-identifier">id</span>, <span class="ruby-value">:version</span> =<span class="ruby-operator">&gt;</span> <span class="ruby-identifier">version</span>)
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+
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+ <span class="ruby-constant">MyExperimentWorkflow</span>.<span class="ruby-identifier">parse</span>(<span class="ruby-identifier">xml</span>)
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+ <span class="ruby-keyword">end</span></pre>
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+ </div><!-- from_id_and_version-source -->
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+ <a name="method-c-from_uri"></a>
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  </div>
@@ -197,22 +208,24 @@ href="TavernaWorkflow.html">TavernaWorkflow</a></em> object.</p>
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- <p>Requires the URI of the workflow in the repository as a String.</p>
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+ <p>Returns a <em><a
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+ href="MyExperimentWorkflow.html">MyExperimentWorkflow</a></em> object given
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+ a URI of the workflow in the repository as a String.</p>
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  <pre>
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- <span class="ruby-comment"># File lib/myexperiment-rest/myexperiment_rest.rb, line 20</span>
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- <span class="ruby-keyword">def</span> <span class="ruby-identifier">read</span>(<span class="ruby-identifier">uri</span>)
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+ <span class="ruby-comment"># File lib/myexperiment-rest/workflow.rb, line 11</span>
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+ <span class="ruby-keyword">def</span> <span class="ruby-keyword">self</span>.<span class="ruby-identifier">from_uri</span>(<span class="ruby-identifier">uri</span>)
208
221
 
209
222
  <span class="ruby-identifier">workflow_id</span> = <span class="ruby-string">''</span>
210
223
  <span class="ruby-identifier">workflow_version</span> = <span class="ruby-string">''</span>
211
224
 
212
- <span class="ruby-comment"># Get workflow id</span>
213
- <span class="ruby-identifier">uri_id</span> = <span class="ruby-identifier">uri</span>.<span class="ruby-identifier">match</span>(<span class="ruby-regexp">/workflows\/(\d+)/</span>)
225
+ <span class="ruby-comment"># Get workflow id - will match both workflow/74 and workflows.xml?id=74</span>
226
+ <span class="ruby-identifier">uri_id</span> = <span class="ruby-identifier">uri</span>.<span class="ruby-identifier">match</span>(<span class="ruby-regexp">/workflow.*[\/?](id=)?(\d+)/</span>)
214
227
  <span class="ruby-keyword">if</span> <span class="ruby-identifier">uri_id</span> <span class="ruby-operator">!=</span> <span class="ruby-keyword">nil</span>
215
- <span class="ruby-identifier">workflow_id</span> = <span class="ruby-identifier">uri_id</span>[<span class="ruby-value">1</span>]
228
+ <span class="ruby-identifier">workflow_id</span> = <span class="ruby-identifier">uri_id</span>[<span class="ruby-value">2</span>]
216
229
  <span class="ruby-keyword">else</span>
217
230
  <span class="ruby-identifier">raise</span> <span class="ruby-string">&quot;Could not match workflow id.&quot;</span>
218
231
  <span class="ruby-keyword">end</span>
@@ -223,24 +236,22 @@ href="TavernaWorkflow.html">TavernaWorkflow</a></em> object.</p>
223
236
  <span class="ruby-identifier">workflow_version</span> = <span class="ruby-identifier">uri_version</span>[<span class="ruby-value">1</span>]
224
237
  <span class="ruby-keyword">end</span>
225
238
 
226
- <span class="ruby-comment"># Get workflow resource information -- if version is empty it returns the current version</span>
227
- <span class="ruby-identifier">response</span> = <span class="ruby-constant">RestClient</span>.<span class="ruby-identifier">get</span>(<span class="ruby-string">'http://www.myexperiment.org/workflow.xml'</span>, {<span class="ruby-value">:params</span> =<span class="ruby-operator">&gt;</span> {<span class="ruby-string">'id'</span> =<span class="ruby-operator">&gt;</span> <span class="ruby-node">&quot;#{workflow_id}&quot;</span>,
228
- <span class="ruby-string">'version'</span> =<span class="ruby-operator">&gt;</span> <span class="ruby-node">&quot;#{workflow_version}&quot;</span>,
229
- <span class="ruby-string">'elements'</span> =<span class="ruby-operator">&gt;</span> <span class="ruby-string">'title,description,content-uri,components,uploader'</span>} } )
230
-
231
- <span class="ruby-identifier">populate_workflow</span>(<span class="ruby-identifier">response</span>)
239
+ <span class="ruby-comment"># Get workflow resource information </span>
240
+ <span class="ruby-identifier">xml</span> = <span class="ruby-constant">MyExperimentREST</span>.<span class="ruby-identifier">get_myexperiment_data</span>(<span class="ruby-constant">Urls</span><span class="ruby-operator">::</span><span class="ruby-constant">WORKFLOW_URL</span>, <span class="ruby-value">:id</span> =<span class="ruby-operator">&gt;</span> <span class="ruby-identifier">workflow_id</span>, <span class="ruby-value">:version</span> =<span class="ruby-operator">&gt;</span> <span class="ruby-identifier">workflow_version</span>)
241
+
242
+ <span class="ruby-constant">MyExperimentWorkflow</span>.<span class="ruby-identifier">parse</span>(<span class="ruby-identifier">xml</span>)
232
243
  <span class="ruby-keyword">end</span></pre>
233
- </div><!-- read-source -->
244
+ </div><!-- from_uri-source -->
234
245
 
235
246
  </div>
236
247
 
237
248
 
238
249
 
239
250
 
240
- </div><!-- read-method -->
251
+ </div><!-- from_uri-method -->
241
252
 
242
253
 
243
- </div><!-- public-instance-method-details -->
254
+ </div><!-- public-class-method-details -->
244
255
 
245
256
  </div><!-- 5Buntitled-5D -->
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257