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| -rw-r--r-- | rdoc/classes/OpenTox/Dataset.html | 331 |
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diff --git a/rdoc/classes/OpenTox/Dataset.html b/rdoc/classes/OpenTox/Dataset.html deleted file mode 100644 index f6966f7..0000000 --- a/rdoc/classes/OpenTox/Dataset.html +++ /dev/null @@ -1,331 +0,0 @@ -<?xml version="1.0" encoding="iso-8859-1"?> -<!DOCTYPE html - PUBLIC "-//W3C//DTD XHTML 1.0 Transitional//EN" - "http://www.w3.org/TR/xhtml1/DTD/xhtml1-transitional.dtd"> - -<html xmlns="http://www.w3.org/1999/xhtml" xml:lang="en" lang="en"> -<head> - <title>Class: OpenTox::Dataset</title> - <meta http-equiv="Content-Type" content="text/html; charset=iso-8859-1" /> - <meta http-equiv="Content-Script-Type" content="text/javascript" /> - <link rel="stylesheet" href="../.././rdoc-style.css" type="text/css" media="screen" /> - <script type="text/javascript"> - // <![CDATA[ - - function popupCode( url ) { - window.open(url, "Code", "resizable=yes,scrollbars=yes,toolbar=no,status=no,height=150,width=400") - } - - function toggleCode( id ) { - if ( document.getElementById ) - elem = document.getElementById( id ); - else if ( document.all ) - elem = eval( "document.all." + id ); - else - return false; - - elemStyle = elem.style; - - if ( elemStyle.display != "block" ) { - elemStyle.display = "block" - } else { - elemStyle.display = "none" - } - - return true; - } - - // Make codeblocks hidden by default - document.writeln( "<style type=\"text/css\">div.method-source-code { display: none }</style>" ) - - // ]]> - </script> - -</head> -<body> - - - - <div id="classHeader"> - <table class="header-table"> - <tr class="top-aligned-row"> - <td><strong>Class</strong></td> - <td class="class-name-in-header">OpenTox::Dataset</td> - </tr> - <tr class="top-aligned-row"> - <td><strong>In:</strong></td> - <td> - <a href="../../files/lib/opentox-ruby-api-wrapper_rb.html"> - lib/opentox-ruby-api-wrapper.rb - </a> - <br /> - </td> - </tr> - - <tr class="top-aligned-row"> - <td><strong>Parent:</strong></td> - <td> - <a href="OpenTox.html"> - OpenTox - </a> - </td> - </tr> - </table> - </div> - <!-- banner header --> - - <div id="bodyContent"> - - - - <div id="contextContent"> - - - - </div> - - <div id="method-list"> - <h3 class="section-bar">Methods</h3> - - <div class="name-list"> - <a href="#M000016">add</a> - <a href="#M000013">all_compounds_and_features</a> - <a href="#M000014">all_features</a> - <a href="#M000012">compounds</a> - <a href="#M000015">features</a> - <a href="#M000011">name</a> - <a href="#M000010">new</a> - </div> - </div> - - </div> - - - <!-- if includes --> - - <div id="section"> - - - - - - - - - <!-- if method_list --> - <div id="methods"> - <h3 class="section-bar">Public Class methods</h3> - - <div id="method-M000010" class="method-detail"> - <a name="M000010"></a> - - <div class="method-heading"> - <a href="#M000010" class="method-signature"> - <span class="method-name">new</span><span class="method-args">(params)</span> - </a> - </div> - - <div class="method-description"> - <p> -Initialize with <tt>:uri => uri</tt> or <tt>:<a -href="Dataset.html#M000011">name</a> => <a -href="Dataset.html#M000011">name</a></tt> (creates a <a -href="Dataset.html#M000010">new</a> dataset) -</p> - <p><a class="source-toggle" href="#" - onclick="toggleCode('M000010-source');return false;">[Source]</a></p> - <div class="method-source-code" id="M000010-source"> -<pre> -<span class="ruby-comment cmt"># File lib/opentox-ruby-api-wrapper.rb, line 78</span> - <span class="ruby-keyword kw">def</span> <span class="ruby-identifier">initialize</span>(<span class="ruby-identifier">params</span>) - <span class="ruby-keyword kw">if</span> <span class="ruby-identifier">params</span>[<span class="ruby-identifier">:uri</span>] - <span class="ruby-ivar">@uri</span> = <span class="ruby-identifier">params</span>[<span class="ruby-identifier">:uri</span>].<span class="ruby-identifier">to_s</span> - <span class="ruby-keyword kw">elsif</span> <span class="ruby-identifier">params</span>[<span class="ruby-identifier">:name</span>] - <span class="ruby-ivar">@uri</span> = <span class="ruby-constant">RestClient</span>.<span class="ruby-identifier">post</span> <span class="ruby-constant">ENV</span>[<span class="ruby-value str">'OPENTOX_DATASETS'</span>], <span class="ruby-identifier">:name</span> =<span class="ruby-operator">></span> <span class="ruby-identifier">params</span>[<span class="ruby-identifier">:name</span>] - <span class="ruby-constant">RestClient</span>.<span class="ruby-identifier">delete</span> <span class="ruby-ivar">@uri</span> <span class="ruby-operator">+</span> <span class="ruby-value str">'/associations'</span> - <span class="ruby-keyword kw">end</span> - <span class="ruby-keyword kw">end</span> -</pre> - </div> - </div> - </div> - - <h3 class="section-bar">Public Instance methods</h3> - - <div id="method-M000016" class="method-detail"> - <a name="M000016"></a> - - <div class="method-heading"> - <a href="#M000016" class="method-signature"> - <span class="method-name">add</span><span class="method-args">(compound,feature)</span> - </a> - </div> - - <div class="method-description"> - <p> -Add a compound and a feature to a dataset -</p> - <p><a class="source-toggle" href="#" - onclick="toggleCode('M000016-source');return false;">[Source]</a></p> - <div class="method-source-code" id="M000016-source"> -<pre> -<span class="ruby-comment cmt"># File lib/opentox-ruby-api-wrapper.rb, line 118</span> - <span class="ruby-keyword kw">def</span> <span class="ruby-identifier">add</span>(<span class="ruby-identifier">compound</span>,<span class="ruby-identifier">feature</span>) - <span class="ruby-constant">RestClient</span>.<span class="ruby-identifier">put</span> <span class="ruby-ivar">@uri</span>, <span class="ruby-identifier">:compound_uri</span> =<span class="ruby-operator">></span> <span class="ruby-identifier">compound</span>.<span class="ruby-identifier">uri</span>, <span class="ruby-identifier">:feature_uri</span> =<span class="ruby-operator">></span> <span class="ruby-identifier">feature</span>.<span class="ruby-identifier">uri</span> - <span class="ruby-keyword kw">end</span> -</pre> - </div> - </div> - </div> - - <div id="method-M000013" class="method-detail"> - <a name="M000013"></a> - - <div class="method-heading"> - <a href="#M000013" class="method-signature"> - <span class="method-name">all_compounds_and_features</span><span class="method-args">()</span> - </a> - </div> - - <div class="method-description"> - <p> -Get all <a href="Dataset.html#M000012">compounds</a> and <a -href="Dataset.html#M000015">features</a> from a dataset, returns a hash -with compound_uris as keys and arrays of <a -href="Dataset.html#M000015">features</a> as values -</p> - <p><a class="source-toggle" href="#" - onclick="toggleCode('M000013-source');return false;">[Source]</a></p> - <div class="method-source-code" id="M000013-source"> -<pre> -<span class="ruby-comment cmt"># File lib/opentox-ruby-api-wrapper.rb, line 98</span> - <span class="ruby-keyword kw">def</span> <span class="ruby-identifier">all_compounds_and_features</span> - <span class="ruby-identifier">compounds</span> = {} - <span class="ruby-constant">Crack</span><span class="ruby-operator">::</span><span class="ruby-constant">XML</span>.<span class="ruby-identifier">parse</span>(<span class="ruby-constant">RestClient</span>.<span class="ruby-identifier">get</span> <span class="ruby-ivar">@uri</span> <span class="ruby-operator">+</span> <span class="ruby-value str">'/compounds/features'</span>)[<span class="ruby-value str">'dataset'</span>][<span class="ruby-value str">'compound'</span>].<span class="ruby-identifier">each</span> <span class="ruby-keyword kw">do</span> <span class="ruby-operator">|</span><span class="ruby-identifier">c</span><span class="ruby-operator">|</span> - <span class="ruby-identifier">features</span> = <span class="ruby-identifier">c</span>[<span class="ruby-value str">'feature_uri'</span>].<span class="ruby-identifier">collect</span>{ <span class="ruby-operator">|</span><span class="ruby-identifier">f</span><span class="ruby-operator">|</span> <span class="ruby-constant">Feature</span>.<span class="ruby-identifier">new</span> <span class="ruby-identifier">:uri</span> =<span class="ruby-operator">></span> <span class="ruby-identifier">f</span> } - <span class="ruby-identifier">compounds</span>[<span class="ruby-identifier">c</span>[<span class="ruby-value str">'uri'</span>]] = <span class="ruby-identifier">features</span> - <span class="ruby-keyword kw">end</span> - <span class="ruby-identifier">compounds</span> - <span class="ruby-keyword kw">end</span> -</pre> - </div> - </div> - </div> - - <div id="method-M000014" class="method-detail"> - <a name="M000014"></a> - - <div class="method-heading"> - <a href="#M000014" class="method-signature"> - <span class="method-name">all_features</span><span class="method-args">()</span> - </a> - </div> - - <div class="method-description"> - <p> -Get all <a href="Dataset.html#M000015">features</a> from a dataset -</p> - <p><a class="source-toggle" href="#" - onclick="toggleCode('M000014-source');return false;">[Source]</a></p> - <div class="method-source-code" id="M000014-source"> -<pre> -<span class="ruby-comment cmt"># File lib/opentox-ruby-api-wrapper.rb, line 108</span> - <span class="ruby-keyword kw">def</span> <span class="ruby-identifier">all_features</span> - <span class="ruby-constant">RestClient</span>.<span class="ruby-identifier">get</span>(<span class="ruby-ivar">@uri</span> <span class="ruby-operator">+</span> <span class="ruby-value str">'/features'</span>).<span class="ruby-identifier">split</span>(<span class="ruby-value str">"\n"</span>).<span class="ruby-identifier">collect</span>{<span class="ruby-operator">|</span><span class="ruby-identifier">f</span><span class="ruby-operator">|</span> <span class="ruby-constant">Feature</span>.<span class="ruby-identifier">new</span>(<span class="ruby-identifier">:uri</span> =<span class="ruby-operator">></span> <span class="ruby-identifier">f</span>)} - <span class="ruby-keyword kw">end</span> -</pre> - </div> - </div> - </div> - - <div id="method-M000012" class="method-detail"> - <a name="M000012"></a> - - <div class="method-heading"> - <a href="#M000012" class="method-signature"> - <span class="method-name">compounds</span><span class="method-args">()</span> - </a> - </div> - - <div class="method-description"> - <p> -Get all <a href="Dataset.html#M000012">compounds</a> from a dataset -</p> - <p><a class="source-toggle" href="#" - onclick="toggleCode('M000012-source');return false;">[Source]</a></p> - <div class="method-source-code" id="M000012-source"> -<pre> -<span class="ruby-comment cmt"># File lib/opentox-ruby-api-wrapper.rb, line 93</span> - <span class="ruby-keyword kw">def</span> <span class="ruby-identifier">compounds</span> - <span class="ruby-constant">RestClient</span>.<span class="ruby-identifier">get</span>(<span class="ruby-ivar">@uri</span> <span class="ruby-operator">+</span> <span class="ruby-value str">'/compounds'</span>).<span class="ruby-identifier">split</span>(<span class="ruby-value str">"\n"</span>).<span class="ruby-identifier">collect</span>{ <span class="ruby-operator">|</span><span class="ruby-identifier">c</span><span class="ruby-operator">|</span> <span class="ruby-constant">Compound</span>.<span class="ruby-identifier">new</span>(<span class="ruby-identifier">:uri</span> =<span class="ruby-operator">></span> <span class="ruby-identifier">c</span>) } - <span class="ruby-keyword kw">end</span> -</pre> - </div> - </div> - </div> - - <div id="method-M000015" class="method-detail"> - <a name="M000015"></a> - - <div class="method-heading"> - <a href="#M000015" class="method-signature"> - <span class="method-name">features</span><span class="method-args">(compound)</span> - </a> - </div> - - <div class="method-description"> - <p> -Get all <a href="Dataset.html#M000015">features</a> for a compound -</p> - <p><a class="source-toggle" href="#" - onclick="toggleCode('M000015-source');return false;">[Source]</a></p> - <div class="method-source-code" id="M000015-source"> -<pre> -<span class="ruby-comment cmt"># File lib/opentox-ruby-api-wrapper.rb, line 113</span> - <span class="ruby-keyword kw">def</span> <span class="ruby-identifier">features</span>(<span class="ruby-identifier">compound</span>) - <span class="ruby-constant">RestClient</span>.<span class="ruby-identifier">get</span>(<span class="ruby-ivar">@uri</span> <span class="ruby-operator">+</span> <span class="ruby-value str">'/compound/'</span> <span class="ruby-operator">+</span> <span class="ruby-identifier">uri_escape</span>(<span class="ruby-identifier">compound</span>.<span class="ruby-identifier">uri</span>) <span class="ruby-operator">+</span> <span class="ruby-value str">'/features'</span>).<span class="ruby-identifier">split</span>(<span class="ruby-value str">"\n"</span>).<span class="ruby-identifier">collect</span>{<span class="ruby-operator">|</span><span class="ruby-identifier">f</span><span class="ruby-operator">|</span> <span class="ruby-constant">Feature</span>.<span class="ruby-identifier">new</span>(<span class="ruby-identifier">:uri</span> =<span class="ruby-operator">></span> <span class="ruby-identifier">f</span>) } - <span class="ruby-keyword kw">end</span> -</pre> - </div> - </div> - </div> - - <div id="method-M000011" class="method-detail"> - <a name="M000011"></a> - - <div class="method-heading"> - <a href="#M000011" class="method-signature"> - <span class="method-name">name</span><span class="method-args">()</span> - </a> - </div> - - <div class="method-description"> - <p> -Get the dataset <a href="Dataset.html#M000011">name</a> -</p> - <p><a class="source-toggle" href="#" - onclick="toggleCode('M000011-source');return false;">[Source]</a></p> - <div class="method-source-code" id="M000011-source"> -<pre> -<span class="ruby-comment cmt"># File lib/opentox-ruby-api-wrapper.rb, line 88</span> - <span class="ruby-keyword kw">def</span> <span class="ruby-identifier">name</span> - <span class="ruby-constant">RestClient</span>.<span class="ruby-identifier">get</span> <span class="ruby-ivar">@uri</span> <span class="ruby-operator">+</span> <span class="ruby-value str">'/name'</span> - <span class="ruby-keyword kw">end</span> -</pre> - </div> - </div> - </div> - - - </div> - - - </div> - - -<div id="validator-badges"> - <p><small><a href="http://validator.w3.org/check/referer">[Validate]</a></small></p> -</div> - -</body> -</html>
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