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<a href="ControlledVocabulary_8h.html">Go to the documentation of this file.</a><div class="fragment"><div class="line"><a name="l00001"></a><span class="lineno">    1</span>&#160;<span class="comment">// --------------------------------------------------------------------------</span></div>
<div class="line"><a name="l00002"></a><span class="lineno">    2</span>&#160;<span class="comment">//                   OpenMS -- Open-Source Mass Spectrometry</span></div>
<div class="line"><a name="l00003"></a><span class="lineno">    3</span>&#160;<span class="comment">// --------------------------------------------------------------------------</span></div>
<div class="line"><a name="l00004"></a><span class="lineno">    4</span>&#160;<span class="comment">// Copyright The OpenMS Team -- Eberhard Karls University Tuebingen,</span></div>
<div class="line"><a name="l00005"></a><span class="lineno">    5</span>&#160;<span class="comment">// ETH Zurich, and Freie Universitaet Berlin 2002-2013.</span></div>
<div class="line"><a name="l00006"></a><span class="lineno">    6</span>&#160;<span class="comment">//</span></div>
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<div class="line"><a name="l00031"></a><span class="lineno">   31</span>&#160;<span class="comment">// $Maintainer: Andreas Bertsch $</span></div>
<div class="line"><a name="l00032"></a><span class="lineno">   32</span>&#160;<span class="comment">// $Authors: Marc Sturm, Andreas Bertsch, Mathias Walzer $</span></div>
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<div class="line"><a name="l00034"></a><span class="lineno">   34</span>&#160;</div>
<div class="line"><a name="l00035"></a><span class="lineno">   35</span>&#160;<span class="preprocessor">#ifndef OPENMS_FORMAT_CONTROLLEDVOCABULARY_H</span></div>
<div class="line"><a name="l00036"></a><span class="lineno">   36</span>&#160;<span class="preprocessor"></span><span class="preprocessor">#define OPENMS_FORMAT_CONTROLLEDVOCABULARY_H</span></div>
<div class="line"><a name="l00037"></a><span class="lineno">   37</span>&#160;<span class="preprocessor"></span></div>
<div class="line"><a name="l00038"></a><span class="lineno">   38</span>&#160;<span class="preprocessor">#include &lt;<a class="code" href="StringList_8h.html">OpenMS/DATASTRUCTURES/StringList.h</a>&gt;</span></div>
<div class="line"><a name="l00039"></a><span class="lineno">   39</span>&#160;<span class="preprocessor">#include &lt;<a class="code" href="Map_8h.html">OpenMS/DATASTRUCTURES/Map.h</a>&gt;</span></div>
<div class="line"><a name="l00040"></a><span class="lineno">   40</span>&#160;<span class="preprocessor">#include &lt;<a class="code" href="Exception_8h.html">OpenMS/CONCEPT/Exception.h</a>&gt;</span></div>
<div class="line"><a name="l00041"></a><span class="lineno">   41</span>&#160;</div>
<div class="line"><a name="l00042"></a><span class="lineno">   42</span>&#160;<span class="preprocessor">#include &lt;set&gt;</span></div>
<div class="line"><a name="l00043"></a><span class="lineno">   43</span>&#160;</div>
<div class="line"><a name="l00044"></a><span class="lineno">   44</span>&#160;<span class="keyword">namespace </span>OpenMS</div>
<div class="line"><a name="l00045"></a><span class="lineno">   45</span>&#160;{</div>
<div class="line"><a name="l00054"></a><span class="lineno"><a class="line" href="classOpenMS_1_1ControlledVocabulary.html">   54</a></span>&#160;  <span class="keyword">class </span>OPENMS_DLLAPI <a class="code" href="classOpenMS_1_1ControlledVocabulary.html">ControlledVocabulary</a></div>
<div class="line"><a name="l00055"></a><span class="lineno">   55</span>&#160;  {</div>
<div class="line"><a name="l00056"></a><span class="lineno">   56</span>&#160;    <span class="keyword">friend</span> OPENMS_DLLAPI std::ostream&amp; <a class="code" href="namespaceOpenMS.html#a74df8b74439d1f76961c8d987fb074fd">operator&lt;&lt;</a>(std::ostream&amp; os, <span class="keyword">const</span> <a class="code" href="classOpenMS_1_1ControlledVocabulary.html">ControlledVocabulary</a>&amp; cv);</div>
<div class="line"><a name="l00057"></a><span class="lineno">   57</span>&#160;</div>
<div class="line"><a name="l00058"></a><span class="lineno">   58</span>&#160;<span class="keyword">public</span>:</div>
<div class="line"><a name="l00060"></a><span class="lineno"><a class="line" href="structOpenMS_1_1ControlledVocabulary_1_1CVTerm.html">   60</a></span>&#160;    <span class="keyword">struct </span>OPENMS_DLLAPI <a class="code" href="structOpenMS_1_1ControlledVocabulary_1_1CVTerm.html">CVTerm</a></div>
<div class="line"><a name="l00061"></a><span class="lineno">   61</span>&#160;    {</div>
<div class="line"><a name="l00063"></a><span class="lineno"><a class="line" href="structOpenMS_1_1ControlledVocabulary_1_1CVTerm.html#ad05efb0dd6b623db53560c4f8f129a09">   63</a></span>&#160;      <span class="keyword">enum</span> <a class="code" href="structOpenMS_1_1ControlledVocabulary_1_1CVTerm.html#ad05efb0dd6b623db53560c4f8f129a09">XRefType</a></div>
<div class="line"><a name="l00064"></a><span class="lineno">   64</span>&#160;      {</div>
<div class="line"><a name="l00065"></a><span class="lineno"><a class="line" href="structOpenMS_1_1ControlledVocabulary_1_1CVTerm.html#ad05efb0dd6b623db53560c4f8f129a09a869ef254cbf763367b5f618642d94242">   65</a></span>&#160;        XSD_STRING = 0, <span class="comment">// xsd:string A string</span></div>
<div class="line"><a name="l00066"></a><span class="lineno"><a class="line" href="structOpenMS_1_1ControlledVocabulary_1_1CVTerm.html#ad05efb0dd6b623db53560c4f8f129a09ae39436e89ac71af5243d896a4acd6496">   66</a></span>&#160;        <a class="code" href="structOpenMS_1_1ControlledVocabulary_1_1CVTerm.html#ad05efb0dd6b623db53560c4f8f129a09ae39436e89ac71af5243d896a4acd6496">XSD_INTEGER</a>, <span class="comment">// xsd:integer Any integer</span></div>
<div class="line"><a name="l00067"></a><span class="lineno"><a class="line" href="structOpenMS_1_1ControlledVocabulary_1_1CVTerm.html#ad05efb0dd6b623db53560c4f8f129a09a9936481d5130ac6611cf2eff629207f3">   67</a></span>&#160;        <a class="code" href="structOpenMS_1_1ControlledVocabulary_1_1CVTerm.html#ad05efb0dd6b623db53560c4f8f129a09a9936481d5130ac6611cf2eff629207f3">XSD_DECIMAL</a>, <span class="comment">// xsd:decimal Any real number</span></div>
<div class="line"><a name="l00068"></a><span class="lineno"><a class="line" href="structOpenMS_1_1ControlledVocabulary_1_1CVTerm.html#ad05efb0dd6b623db53560c4f8f129a09a38d413e2b31af5d67c4c71f17f5f63d0">   68</a></span>&#160;        <a class="code" href="structOpenMS_1_1ControlledVocabulary_1_1CVTerm.html#ad05efb0dd6b623db53560c4f8f129a09a38d413e2b31af5d67c4c71f17f5f63d0">XSD_NEGATIVE_INTEGER</a>, <span class="comment">// xsd:negativeInteger Any negative integer</span></div>
<div class="line"><a name="l00069"></a><span class="lineno"><a class="line" href="structOpenMS_1_1ControlledVocabulary_1_1CVTerm.html#ad05efb0dd6b623db53560c4f8f129a09a4452061824c767b63771c808ac8db712">   69</a></span>&#160;        <a class="code" href="structOpenMS_1_1ControlledVocabulary_1_1CVTerm.html#ad05efb0dd6b623db53560c4f8f129a09a4452061824c767b63771c808ac8db712">XSD_POSITIVE_INTEGER</a>, <span class="comment">// xsd:positiveInteger Any integer &gt; 0</span></div>
<div class="line"><a name="l00070"></a><span class="lineno"><a class="line" href="structOpenMS_1_1ControlledVocabulary_1_1CVTerm.html#ad05efb0dd6b623db53560c4f8f129a09aab6ed9fc0d339bd90c445e066f13fd67">   70</a></span>&#160;        <a class="code" href="structOpenMS_1_1ControlledVocabulary_1_1CVTerm.html#ad05efb0dd6b623db53560c4f8f129a09aab6ed9fc0d339bd90c445e066f13fd67">XSD_NON_NEGATIVE_INTEGER</a>, <span class="comment">// xsd:nonNegativeInteger Any integer &gt;= 0</span></div>
<div class="line"><a name="l00071"></a><span class="lineno"><a class="line" href="structOpenMS_1_1ControlledVocabulary_1_1CVTerm.html#ad05efb0dd6b623db53560c4f8f129a09a6606dea51053a6eb746ba4ccaa37a1f3">   71</a></span>&#160;        <a class="code" href="structOpenMS_1_1ControlledVocabulary_1_1CVTerm.html#ad05efb0dd6b623db53560c4f8f129a09a6606dea51053a6eb746ba4ccaa37a1f3">XSD_NON_POSITIVE_INTEGER</a>, <span class="comment">// xsd:nonPositiveInteger Any integer &lt; 0</span></div>
<div class="line"><a name="l00072"></a><span class="lineno"><a class="line" href="structOpenMS_1_1ControlledVocabulary_1_1CVTerm.html#ad05efb0dd6b623db53560c4f8f129a09a37c55046249cf29275817e59967bb6ed">   72</a></span>&#160;        <a class="code" href="structOpenMS_1_1ControlledVocabulary_1_1CVTerm.html#ad05efb0dd6b623db53560c4f8f129a09a37c55046249cf29275817e59967bb6ed">XSD_BOOLEAN</a>, <span class="comment">// xsd:boolean True or false</span></div>
<div class="line"><a name="l00073"></a><span class="lineno"><a class="line" href="structOpenMS_1_1ControlledVocabulary_1_1CVTerm.html#ad05efb0dd6b623db53560c4f8f129a09a38016896f280e9e0f3481f8c96bbf3ff">   73</a></span>&#160;        <a class="code" href="structOpenMS_1_1ControlledVocabulary_1_1CVTerm.html#ad05efb0dd6b623db53560c4f8f129a09a38016896f280e9e0f3481f8c96bbf3ff">XSD_DATE</a>, <span class="comment">// xsd:date An XML-Schema date</span></div>
<div class="line"><a name="l00074"></a><span class="lineno"><a class="line" href="structOpenMS_1_1ControlledVocabulary_1_1CVTerm.html#ad05efb0dd6b623db53560c4f8f129a09ad199dd8f138e52d87fe22809df3a9a99">   74</a></span>&#160;        <a class="code" href="structOpenMS_1_1ControlledVocabulary_1_1CVTerm.html#ad05efb0dd6b623db53560c4f8f129a09ad199dd8f138e52d87fe22809df3a9a99">XSD_ANYURI</a>, <span class="comment">// xsd:anyURI uniform resource identifier</span></div>
<div class="line"><a name="l00075"></a><span class="lineno"><a class="line" href="structOpenMS_1_1ControlledVocabulary_1_1CVTerm.html#ad05efb0dd6b623db53560c4f8f129a09ac157bdf0b85a40d2619cbc8bc1ae5fe2">   75</a></span>&#160;        NONE</div>
<div class="line"><a name="l00076"></a><span class="lineno">   76</span>&#160;      };</div>
<div class="line"><a name="l00077"></a><span class="lineno">   77</span>&#160;</div>
<div class="line"><a name="l00078"></a><span class="lineno">   78</span>&#160;      <span class="keyword">static</span> <a class="code" href="classOpenMS_1_1String.html">String</a> getXRefTypeName(XRefType type);</div>
<div class="line"><a name="l00079"></a><span class="lineno">   79</span>&#160;</div>
<div class="line"><a name="l00080"></a><span class="lineno"><a class="line" href="structOpenMS_1_1ControlledVocabulary_1_1CVTerm.html#a9a2326f35466e54c36c070829245c557">   80</a></span>&#160;      <a class="code" href="classOpenMS_1_1String.html">String</a> <a class="code" href="structOpenMS_1_1ControlledVocabulary_1_1CVTerm.html#a9a2326f35466e54c36c070829245c557">name</a>; </div>
<div class="line"><a name="l00081"></a><span class="lineno"><a class="line" href="structOpenMS_1_1ControlledVocabulary_1_1CVTerm.html#a76010eef1edc0406cc2375c25d2a433d">   81</a></span>&#160;      <a class="code" href="classOpenMS_1_1String.html">String</a> <a class="code" href="structOpenMS_1_1ControlledVocabulary_1_1CVTerm.html#a76010eef1edc0406cc2375c25d2a433d">id</a>; </div>
<div class="line"><a name="l00082"></a><span class="lineno"><a class="line" href="structOpenMS_1_1ControlledVocabulary_1_1CVTerm.html#a27a6b607046872caa389a85926ab1f8f">   82</a></span>&#160;      std::set&lt;String&gt; <a class="code" href="structOpenMS_1_1ControlledVocabulary_1_1CVTerm.html#a27a6b607046872caa389a85926ab1f8f">parents</a>; </div>
<div class="line"><a name="l00083"></a><span class="lineno"><a class="line" href="structOpenMS_1_1ControlledVocabulary_1_1CVTerm.html#a570068a666b39c83101f0eb98258efde">   83</a></span>&#160;      std::set&lt;String&gt; <a class="code" href="structOpenMS_1_1ControlledVocabulary_1_1CVTerm.html#a570068a666b39c83101f0eb98258efde">children</a>; </div>
<div class="line"><a name="l00084"></a><span class="lineno"><a class="line" href="structOpenMS_1_1ControlledVocabulary_1_1CVTerm.html#a89015d9d8ecc70d84c1eeb2d6c983c03">   84</a></span>&#160;      <span class="keywordtype">bool</span> <a class="code" href="structOpenMS_1_1ControlledVocabulary_1_1CVTerm.html#a89015d9d8ecc70d84c1eeb2d6c983c03">obsolete</a>; </div>
<div class="line"><a name="l00085"></a><span class="lineno"><a class="line" href="structOpenMS_1_1ControlledVocabulary_1_1CVTerm.html#a76d2b0133d83c43dfd8a19286ac55325">   85</a></span>&#160;      <a class="code" href="classOpenMS_1_1String.html">String</a> <a class="code" href="structOpenMS_1_1ControlledVocabulary_1_1CVTerm.html#a76d2b0133d83c43dfd8a19286ac55325">description</a>; </div>
<div class="line"><a name="l00086"></a><span class="lineno"><a class="line" href="structOpenMS_1_1ControlledVocabulary_1_1CVTerm.html#a9e13456e444ef3c4f8cce5ee88106383">   86</a></span>&#160;      <a class="code" href="classOpenMS_1_1StringList.html">StringList</a> <a class="code" href="structOpenMS_1_1ControlledVocabulary_1_1CVTerm.html#a9e13456e444ef3c4f8cce5ee88106383">synonyms</a>; </div>
<div class="line"><a name="l00087"></a><span class="lineno"><a class="line" href="structOpenMS_1_1ControlledVocabulary_1_1CVTerm.html#a54b61ef827d2397055a3256a52945c16">   87</a></span>&#160;      <a class="code" href="classOpenMS_1_1StringList.html">StringList</a> <a class="code" href="structOpenMS_1_1ControlledVocabulary_1_1CVTerm.html#a54b61ef827d2397055a3256a52945c16">unparsed</a>; </div>
<div class="line"><a name="l00088"></a><span class="lineno"><a class="line" href="structOpenMS_1_1ControlledVocabulary_1_1CVTerm.html#aa730524a83fc19c0ba3a466fb9c62f95">   88</a></span>&#160;      <a class="code" href="structOpenMS_1_1ControlledVocabulary_1_1CVTerm.html#ad05efb0dd6b623db53560c4f8f129a09">XRefType</a> <a class="code" href="structOpenMS_1_1ControlledVocabulary_1_1CVTerm.html#aa730524a83fc19c0ba3a466fb9c62f95">xref_type</a>; </div>
<div class="line"><a name="l00089"></a><span class="lineno"><a class="line" href="structOpenMS_1_1ControlledVocabulary_1_1CVTerm.html#a736d8e7af644f3e78fb03ba6449f8c62">   89</a></span>&#160;      <a class="code" href="classOpenMS_1_1StringList.html">StringList</a> <a class="code" href="structOpenMS_1_1ControlledVocabulary_1_1CVTerm.html#a736d8e7af644f3e78fb03ba6449f8c62">xref_binary</a>; </div>
<div class="line"><a name="l00090"></a><span class="lineno"><a class="line" href="structOpenMS_1_1ControlledVocabulary_1_1CVTerm.html#ac4f913df36bce8c0f4beb4a8cae5a774">   90</a></span>&#160;      std::set&lt;String&gt; <a class="code" href="structOpenMS_1_1ControlledVocabulary_1_1CVTerm.html#ac4f913df36bce8c0f4beb4a8cae5a774">units</a>; </div>
<div class="line"><a name="l00091"></a><span class="lineno">   91</span>&#160;</div>
<div class="line"><a name="l00093"></a><span class="lineno">   93</span>&#160;      <a class="code" href="structOpenMS_1_1ControlledVocabulary_1_1CVTerm.html">CVTerm</a>();</div>
<div class="line"><a name="l00094"></a><span class="lineno">   94</span>&#160;</div>
<div class="line"><a name="l00095"></a><span class="lineno">   95</span>&#160;      <a class="code" href="structOpenMS_1_1ControlledVocabulary_1_1CVTerm.html">CVTerm</a>(<span class="keyword">const</span> <a class="code" href="structOpenMS_1_1ControlledVocabulary_1_1CVTerm.html">CVTerm</a>&amp; rhs);</div>
<div class="line"><a name="l00096"></a><span class="lineno">   96</span>&#160;</div>
<div class="line"><a name="l00097"></a><span class="lineno">   97</span>&#160;      <a class="code" href="structOpenMS_1_1ControlledVocabulary_1_1CVTerm.html">CVTerm</a>&amp; operator=(<span class="keyword">const</span> <a class="code" href="structOpenMS_1_1ControlledVocabulary_1_1CVTerm.html">CVTerm</a>&amp; rhs);</div>
<div class="line"><a name="l00098"></a><span class="lineno">   98</span>&#160;</div>
<div class="line"><a name="l00100"></a><span class="lineno">  100</span>&#160;      <a class="code" href="classOpenMS_1_1String.html">String</a> toXMLString(<span class="keyword">const</span> <a class="code" href="classOpenMS_1_1String.html">String</a>&amp; ref, <span class="keyword">const</span> <a class="code" href="classOpenMS_1_1String.html">String</a>&amp; value = <a class="code" href="classOpenMS_1_1String.html">String</a>(<span class="stringliteral">&quot;&quot;</span>)) <span class="keyword">const</span>;</div>
<div class="line"><a name="l00101"></a><span class="lineno">  101</span>&#160;</div>
<div class="line"><a name="l00103"></a><span class="lineno">  103</span>&#160;      <a class="code" href="classOpenMS_1_1String.html">String</a> toXMLString(<span class="keyword">const</span> <a class="code" href="classOpenMS_1_1String.html">String</a>&amp; ref, <span class="keyword">const</span> <a class="code" href="classOpenMS_1_1DataValue.html">DataValue</a>&amp; value) <span class="keyword">const</span>;</div>
<div class="line"><a name="l00104"></a><span class="lineno">  104</span>&#160;</div>
<div class="line"><a name="l00105"></a><span class="lineno">  105</span>&#160;    };</div>
<div class="line"><a name="l00106"></a><span class="lineno">  106</span>&#160;</div>
<div class="line"><a name="l00108"></a><span class="lineno">  108</span>&#160;    <a class="code" href="classOpenMS_1_1ControlledVocabulary.html">ControlledVocabulary</a>();</div>
<div class="line"><a name="l00109"></a><span class="lineno">  109</span>&#160;</div>
<div class="line"><a name="l00111"></a><span class="lineno">  111</span>&#160;    <span class="keyword">virtual</span> ~<a class="code" href="classOpenMS_1_1ControlledVocabulary.html">ControlledVocabulary</a>();</div>
<div class="line"><a name="l00112"></a><span class="lineno">  112</span>&#160;</div>
<div class="line"><a name="l00114"></a><span class="lineno">  114</span>&#160;    <span class="keyword">const</span> <a class="code" href="classOpenMS_1_1String.html">String</a>&amp; name() <span class="keyword">const</span>;</div>
<div class="line"><a name="l00115"></a><span class="lineno">  115</span>&#160;</div>
<div class="line"><a name="l00122"></a><span class="lineno">  122</span>&#160;    <span class="keywordtype">void</span> loadFromOBO(<span class="keyword">const</span> <a class="code" href="classOpenMS_1_1String.html">String</a>&amp; name, <span class="keyword">const</span> <a class="code" href="classOpenMS_1_1String.html">String</a>&amp; filename);</div>
<div class="line"><a name="l00123"></a><span class="lineno">  123</span>&#160;</div>
<div class="line"><a name="l00125"></a><span class="lineno">  125</span>&#160;    <span class="keywordtype">bool</span> exists(<span class="keyword">const</span> <a class="code" href="classOpenMS_1_1String.html">String</a>&amp; <span class="keywordtype">id</span>) <span class="keyword">const</span>;</div>
<div class="line"><a name="l00126"></a><span class="lineno">  126</span>&#160;</div>
<div class="line"><a name="l00128"></a><span class="lineno">  128</span>&#160;    <span class="keywordtype">bool</span> hasTermWithName(<span class="keyword">const</span> <a class="code" href="classOpenMS_1_1String.html">String</a>&amp; name) <span class="keyword">const</span>;</div>
<div class="line"><a name="l00129"></a><span class="lineno">  129</span>&#160;</div>
<div class="line"><a name="l00135"></a><span class="lineno">  135</span>&#160;    <span class="keyword">const</span> <a class="code" href="structOpenMS_1_1ControlledVocabulary_1_1CVTerm.html">CVTerm</a>&amp; getTerm(<span class="keyword">const</span> <a class="code" href="classOpenMS_1_1String.html">String</a>&amp; <span class="keywordtype">id</span>) <span class="keyword">const</span>;</div>
<div class="line"><a name="l00136"></a><span class="lineno">  136</span>&#160;</div>
<div class="line"><a name="l00142"></a><span class="lineno">  142</span>&#160;    <span class="keyword">const</span> <a class="code" href="structOpenMS_1_1ControlledVocabulary_1_1CVTerm.html">CVTerm</a>&amp; getTermByName(<span class="keyword">const</span> <a class="code" href="classOpenMS_1_1String.html">String</a>&amp; name, <span class="keyword">const</span> <a class="code" href="classOpenMS_1_1String.html">String</a>&amp; desc = <span class="stringliteral">&quot;&quot;</span>) <span class="keyword">const</span>;</div>
<div class="line"><a name="l00143"></a><span class="lineno">  143</span>&#160;</div>
<div class="line"><a name="l00144"></a><span class="lineno">  144</span>&#160;</div>
<div class="line"><a name="l00146"></a><span class="lineno">  146</span>&#160;    <span class="keyword">const</span> <a class="code" href="classOpenMS_1_1Map.html">Map&lt;String, CVTerm&gt;</a>&amp; getTerms() <span class="keyword">const</span>;</div>
<div class="line"><a name="l00147"></a><span class="lineno">  147</span>&#160;</div>
<div class="line"><a name="l00155"></a><span class="lineno">  155</span>&#160;    <span class="keywordtype">void</span> getAllChildTerms(std::set&lt;String&gt;&amp; terms, <span class="keyword">const</span> <a class="code" href="classOpenMS_1_1String.html">String</a>&amp; parent) <span class="keyword">const</span>;</div>
<div class="line"><a name="l00156"></a><span class="lineno">  156</span>&#160;</div>
<div class="line"><a name="l00162"></a><span class="lineno">  162</span>&#160;    <span class="keywordtype">bool</span> isChildOf(<span class="keyword">const</span> <a class="code" href="classOpenMS_1_1String.html">String</a>&amp; child, <span class="keyword">const</span> <a class="code" href="classOpenMS_1_1String.html">String</a>&amp; parent) <span class="keyword">const</span>;</div>
<div class="line"><a name="l00163"></a><span class="lineno">  163</span>&#160;</div>
<div class="line"><a name="l00164"></a><span class="lineno">  164</span>&#160;<span class="keyword">protected</span>:</div>
<div class="line"><a name="l00170"></a><span class="lineno">  170</span>&#160;    <span class="keywordtype">bool</span> checkName_(<span class="keyword">const</span> <a class="code" href="classOpenMS_1_1String.html">String</a>&amp; <span class="keywordtype">id</span>, <span class="keyword">const</span> <a class="code" href="classOpenMS_1_1String.html">String</a>&amp; name, <span class="keywordtype">bool</span> ignore_case = <span class="keyword">true</span>);</div>
<div class="line"><a name="l00171"></a><span class="lineno">  171</span>&#160;</div>
<div class="line"><a name="l00173"></a><span class="lineno"><a class="line" href="classOpenMS_1_1ControlledVocabulary.html#a7969e2be0e6e17d8e97a0ae1b50acda5">  173</a></span>&#160;    <a class="code" href="classOpenMS_1_1Map.html">Map&lt;String, CVTerm&gt;</a> <a class="code" href="classOpenMS_1_1ControlledVocabulary.html#a7969e2be0e6e17d8e97a0ae1b50acda5">terms_</a>;</div>
<div class="line"><a name="l00175"></a><span class="lineno"><a class="line" href="classOpenMS_1_1ControlledVocabulary.html#ac898dfba435913bb5f7e21625b67fc83">  175</a></span>&#160;    <a class="code" href="classOpenMS_1_1Map.html">Map&lt;String, String&gt;</a> <a class="code" href="classOpenMS_1_1ControlledVocabulary.html#ac898dfba435913bb5f7e21625b67fc83">namesToIds_</a>;</div>
<div class="line"><a name="l00177"></a><span class="lineno"><a class="line" href="classOpenMS_1_1ControlledVocabulary.html#a46d25a1d56b8ab56e84b8bd0c7581e8f">  177</a></span>&#160;    <a class="code" href="classOpenMS_1_1String.html">String</a> <a class="code" href="classOpenMS_1_1ControlledVocabulary.html#a46d25a1d56b8ab56e84b8bd0c7581e8f">name_</a>;</div>
<div class="line"><a name="l00178"></a><span class="lineno">  178</span>&#160;  };</div>
<div class="line"><a name="l00179"></a><span class="lineno">  179</span>&#160;</div>
<div class="line"><a name="l00181"></a><span class="lineno">  181</span>&#160;  OPENMS_DLLAPI std::ostream&amp; <a class="code" href="namespaceOpenMS.html#a74df8b74439d1f76961c8d987fb074fd">operator&lt;&lt;</a>(std::ostream&amp; os, <span class="keyword">const</span> <a class="code" href="classOpenMS_1_1ControlledVocabulary.html">ControlledVocabulary</a>&amp; cv);</div>
<div class="line"><a name="l00182"></a><span class="lineno">  182</span>&#160;</div>
<div class="line"><a name="l00183"></a><span class="lineno">  183</span>&#160;</div>
<div class="line"><a name="l00184"></a><span class="lineno">  184</span>&#160;} <span class="comment">// namespace OpenMS</span></div>
<div class="line"><a name="l00185"></a><span class="lineno">  185</span>&#160;</div>
<div class="line"><a name="l00186"></a><span class="lineno">  186</span>&#160;<span class="preprocessor">#endif // OPENMS_FORMAT_CONTROLLEDVOCABULARY_H</span></div>
<div class="ttc" id="structOpenMS_1_1ControlledVocabulary_1_1CVTerm_html_ad05efb0dd6b623db53560c4f8f129a09a9936481d5130ac6611cf2eff629207f3"><div class="ttname"><a href="structOpenMS_1_1ControlledVocabulary_1_1CVTerm.html#ad05efb0dd6b623db53560c4f8f129a09a9936481d5130ac6611cf2eff629207f3">OpenMS::ControlledVocabulary::CVTerm::XSD_DECIMAL</a></div><div class="ttdef"><b>Definition:</b> ControlledVocabulary.h:67</div></div>
<div class="ttc" id="structOpenMS_1_1ControlledVocabulary_1_1CVTerm_html"><div class="ttname"><a href="structOpenMS_1_1ControlledVocabulary_1_1CVTerm.html">OpenMS::ControlledVocabulary::CVTerm</a></div><div class="ttdoc">Representation of a CV term. </div><div class="ttdef"><b>Definition:</b> ControlledVocabulary.h:60</div></div>
<div class="ttc" id="classOpenMS_1_1String_html"><div class="ttname"><a href="classOpenMS_1_1String.html">OpenMS::String</a></div><div class="ttdoc">A more convenient string class. </div><div class="ttdef"><b>Definition:</b> String.h:56</div></div>
<div class="ttc" id="StringList_8h_html"><div class="ttname"><a href="StringList_8h.html">StringList.h</a></div></div>
<div class="ttc" id="classOpenMS_1_1ControlledVocabulary_html_a7969e2be0e6e17d8e97a0ae1b50acda5"><div class="ttname"><a href="classOpenMS_1_1ControlledVocabulary.html#a7969e2be0e6e17d8e97a0ae1b50acda5">OpenMS::ControlledVocabulary::terms_</a></div><div class="ttdeci">Map&lt; String, CVTerm &gt; terms_</div><div class="ttdoc">Map from ID to CVTerm. </div><div class="ttdef"><b>Definition:</b> ControlledVocabulary.h:173</div></div>
<div class="ttc" id="structOpenMS_1_1ControlledVocabulary_1_1CVTerm_html_a76010eef1edc0406cc2375c25d2a433d"><div class="ttname"><a href="structOpenMS_1_1ControlledVocabulary_1_1CVTerm.html#a76010eef1edc0406cc2375c25d2a433d">OpenMS::ControlledVocabulary::CVTerm::id</a></div><div class="ttdeci">String id</div><div class="ttdoc">Identifier. </div><div class="ttdef"><b>Definition:</b> ControlledVocabulary.h:81</div></div>
<div class="ttc" id="structOpenMS_1_1ControlledVocabulary_1_1CVTerm_html_ad05efb0dd6b623db53560c4f8f129a09ad199dd8f138e52d87fe22809df3a9a99"><div class="ttname"><a href="structOpenMS_1_1ControlledVocabulary_1_1CVTerm.html#ad05efb0dd6b623db53560c4f8f129a09ad199dd8f138e52d87fe22809df3a9a99">OpenMS::ControlledVocabulary::CVTerm::XSD_ANYURI</a></div><div class="ttdef"><b>Definition:</b> ControlledVocabulary.h:74</div></div>
<div class="ttc" id="structOpenMS_1_1ControlledVocabulary_1_1CVTerm_html_a736d8e7af644f3e78fb03ba6449f8c62"><div class="ttname"><a href="structOpenMS_1_1ControlledVocabulary_1_1CVTerm.html#a736d8e7af644f3e78fb03ba6449f8c62">OpenMS::ControlledVocabulary::CVTerm::xref_binary</a></div><div class="ttdeci">StringList xref_binary</div><div class="ttdoc">xref binary-data-type for the CV-term (list of all allowed data value types for the current binary da...</div><div class="ttdef"><b>Definition:</b> ControlledVocabulary.h:89</div></div>
<div class="ttc" id="Map_8h_html"><div class="ttname"><a href="Map_8h.html">Map.h</a></div></div>
<div class="ttc" id="namespaceOpenMS_html_a74df8b74439d1f76961c8d987fb074fd"><div class="ttname"><a href="namespaceOpenMS.html#a74df8b74439d1f76961c8d987fb074fd">OpenMS::operator&lt;&lt;</a></div><div class="ttdeci">std::ostream &amp; operator&lt;&lt;(std::ostream &amp;os, const ItraqQuantifier::ItraqQuantifierStats &amp;stats)</div></div>
<div class="ttc" id="structOpenMS_1_1ControlledVocabulary_1_1CVTerm_html_ad05efb0dd6b623db53560c4f8f129a09a38016896f280e9e0f3481f8c96bbf3ff"><div class="ttname"><a href="structOpenMS_1_1ControlledVocabulary_1_1CVTerm.html#ad05efb0dd6b623db53560c4f8f129a09a38016896f280e9e0f3481f8c96bbf3ff">OpenMS::ControlledVocabulary::CVTerm::XSD_DATE</a></div><div class="ttdef"><b>Definition:</b> ControlledVocabulary.h:73</div></div>
<div class="ttc" id="structOpenMS_1_1ControlledVocabulary_1_1CVTerm_html_a54b61ef827d2397055a3256a52945c16"><div class="ttname"><a href="structOpenMS_1_1ControlledVocabulary_1_1CVTerm.html#a54b61ef827d2397055a3256a52945c16">OpenMS::ControlledVocabulary::CVTerm::unparsed</a></div><div class="ttdeci">StringList unparsed</div><div class="ttdoc">Unparsed lines from the definition file. </div><div class="ttdef"><b>Definition:</b> ControlledVocabulary.h:87</div></div>
<div class="ttc" id="structOpenMS_1_1ControlledVocabulary_1_1CVTerm_html_a89015d9d8ecc70d84c1eeb2d6c983c03"><div class="ttname"><a href="structOpenMS_1_1ControlledVocabulary_1_1CVTerm.html#a89015d9d8ecc70d84c1eeb2d6c983c03">OpenMS::ControlledVocabulary::CVTerm::obsolete</a></div><div class="ttdeci">bool obsolete</div><div class="ttdoc">Flag that indicates of the term is obsolete. </div><div class="ttdef"><b>Definition:</b> ControlledVocabulary.h:84</div></div>
<div class="ttc" id="classOpenMS_1_1DataValue_html"><div class="ttname"><a href="classOpenMS_1_1DataValue.html">OpenMS::DataValue</a></div><div class="ttdoc">Class to hold strings, numeric values, lists of strings and lists of numeric values. </div><div class="ttdef"><b>Definition:</b> DataValue.h:57</div></div>
<div class="ttc" id="structOpenMS_1_1ControlledVocabulary_1_1CVTerm_html_ad05efb0dd6b623db53560c4f8f129a09aab6ed9fc0d339bd90c445e066f13fd67"><div class="ttname"><a href="structOpenMS_1_1ControlledVocabulary_1_1CVTerm.html#ad05efb0dd6b623db53560c4f8f129a09aab6ed9fc0d339bd90c445e066f13fd67">OpenMS::ControlledVocabulary::CVTerm::XSD_NON_NEGATIVE_INTEGER</a></div><div class="ttdef"><b>Definition:</b> ControlledVocabulary.h:70</div></div>
<div class="ttc" id="classOpenMS_1_1ControlledVocabulary_html"><div class="ttname"><a href="classOpenMS_1_1ControlledVocabulary.html">OpenMS::ControlledVocabulary</a></div><div class="ttdoc">Representation of a controlled vocabulary. </div><div class="ttdef"><b>Definition:</b> ControlledVocabulary.h:54</div></div>
<div class="ttc" id="structOpenMS_1_1ControlledVocabulary_1_1CVTerm_html_ad05efb0dd6b623db53560c4f8f129a09a6606dea51053a6eb746ba4ccaa37a1f3"><div class="ttname"><a href="structOpenMS_1_1ControlledVocabulary_1_1CVTerm.html#ad05efb0dd6b623db53560c4f8f129a09a6606dea51053a6eb746ba4ccaa37a1f3">OpenMS::ControlledVocabulary::CVTerm::XSD_NON_POSITIVE_INTEGER</a></div><div class="ttdef"><b>Definition:</b> ControlledVocabulary.h:71</div></div>
<div class="ttc" id="structOpenMS_1_1ControlledVocabulary_1_1CVTerm_html_ad05efb0dd6b623db53560c4f8f129a09"><div class="ttname"><a href="structOpenMS_1_1ControlledVocabulary_1_1CVTerm.html#ad05efb0dd6b623db53560c4f8f129a09">OpenMS::ControlledVocabulary::CVTerm::XRefType</a></div><div class="ttdeci">XRefType</div><div class="ttdoc">define xsd types allowed in cv term to specify their value-type </div><div class="ttdef"><b>Definition:</b> ControlledVocabulary.h:63</div></div>
<div class="ttc" id="classOpenMS_1_1ControlledVocabulary_html_ac898dfba435913bb5f7e21625b67fc83"><div class="ttname"><a href="classOpenMS_1_1ControlledVocabulary.html#ac898dfba435913bb5f7e21625b67fc83">OpenMS::ControlledVocabulary::namesToIds_</a></div><div class="ttdeci">Map&lt; String, String &gt; namesToIds_</div><div class="ttdoc">Map from name to id. </div><div class="ttdef"><b>Definition:</b> ControlledVocabulary.h:175</div></div>
<div class="ttc" id="structOpenMS_1_1ControlledVocabulary_1_1CVTerm_html_ad05efb0dd6b623db53560c4f8f129a09a38d413e2b31af5d67c4c71f17f5f63d0"><div class="ttname"><a href="structOpenMS_1_1ControlledVocabulary_1_1CVTerm.html#ad05efb0dd6b623db53560c4f8f129a09a38d413e2b31af5d67c4c71f17f5f63d0">OpenMS::ControlledVocabulary::CVTerm::XSD_NEGATIVE_INTEGER</a></div><div class="ttdef"><b>Definition:</b> ControlledVocabulary.h:68</div></div>
<div class="ttc" id="structOpenMS_1_1ControlledVocabulary_1_1CVTerm_html_ac4f913df36bce8c0f4beb4a8cae5a774"><div class="ttname"><a href="structOpenMS_1_1ControlledVocabulary_1_1CVTerm.html#ac4f913df36bce8c0f4beb4a8cae5a774">OpenMS::ControlledVocabulary::CVTerm::units</a></div><div class="ttdeci">std::set&lt; String &gt; units</div><div class="ttdoc">unit accession ids, defined by relationship has units </div><div class="ttdef"><b>Definition:</b> ControlledVocabulary.h:90</div></div>
<div class="ttc" id="structOpenMS_1_1ControlledVocabulary_1_1CVTerm_html_aa730524a83fc19c0ba3a466fb9c62f95"><div class="ttname"><a href="structOpenMS_1_1ControlledVocabulary_1_1CVTerm.html#aa730524a83fc19c0ba3a466fb9c62f95">OpenMS::ControlledVocabulary::CVTerm::xref_type</a></div><div class="ttdeci">XRefType xref_type</div><div class="ttdoc">xref value-type for the CV-term </div><div class="ttdef"><b>Definition:</b> ControlledVocabulary.h:88</div></div>
<div class="ttc" id="structOpenMS_1_1ControlledVocabulary_1_1CVTerm_html_a9a2326f35466e54c36c070829245c557"><div class="ttname"><a href="structOpenMS_1_1ControlledVocabulary_1_1CVTerm.html#a9a2326f35466e54c36c070829245c557">OpenMS::ControlledVocabulary::CVTerm::name</a></div><div class="ttdeci">String name</div><div class="ttdoc">Text name. </div><div class="ttdef"><b>Definition:</b> ControlledVocabulary.h:80</div></div>
<div class="ttc" id="structOpenMS_1_1ControlledVocabulary_1_1CVTerm_html_a9e13456e444ef3c4f8cce5ee88106383"><div class="ttname"><a href="structOpenMS_1_1ControlledVocabulary_1_1CVTerm.html#a9e13456e444ef3c4f8cce5ee88106383">OpenMS::ControlledVocabulary::CVTerm::synonyms</a></div><div class="ttdeci">StringList synonyms</div><div class="ttdoc">List of synonyms. </div><div class="ttdef"><b>Definition:</b> ControlledVocabulary.h:86</div></div>
<div class="ttc" id="structOpenMS_1_1ControlledVocabulary_1_1CVTerm_html_a27a6b607046872caa389a85926ab1f8f"><div class="ttname"><a href="structOpenMS_1_1ControlledVocabulary_1_1CVTerm.html#a27a6b607046872caa389a85926ab1f8f">OpenMS::ControlledVocabulary::CVTerm::parents</a></div><div class="ttdeci">std::set&lt; String &gt; parents</div><div class="ttdoc">The parent IDs. </div><div class="ttdef"><b>Definition:</b> ControlledVocabulary.h:82</div></div>
<div class="ttc" id="classOpenMS_1_1StringList_html"><div class="ttname"><a href="classOpenMS_1_1StringList.html">OpenMS::StringList</a></div><div class="ttdoc">String list. </div><div class="ttdef"><b>Definition:</b> StringList.h:56</div></div>
<div class="ttc" id="structOpenMS_1_1ControlledVocabulary_1_1CVTerm_html_a570068a666b39c83101f0eb98258efde"><div class="ttname"><a href="structOpenMS_1_1ControlledVocabulary_1_1CVTerm.html#a570068a666b39c83101f0eb98258efde">OpenMS::ControlledVocabulary::CVTerm::children</a></div><div class="ttdeci">std::set&lt; String &gt; children</div><div class="ttdoc">The child IDs. </div><div class="ttdef"><b>Definition:</b> ControlledVocabulary.h:83</div></div>
<div class="ttc" id="structOpenMS_1_1ControlledVocabulary_1_1CVTerm_html_ad05efb0dd6b623db53560c4f8f129a09a37c55046249cf29275817e59967bb6ed"><div class="ttname"><a href="structOpenMS_1_1ControlledVocabulary_1_1CVTerm.html#ad05efb0dd6b623db53560c4f8f129a09a37c55046249cf29275817e59967bb6ed">OpenMS::ControlledVocabulary::CVTerm::XSD_BOOLEAN</a></div><div class="ttdef"><b>Definition:</b> ControlledVocabulary.h:72</div></div>
<div class="ttc" id="structOpenMS_1_1ControlledVocabulary_1_1CVTerm_html_ad05efb0dd6b623db53560c4f8f129a09ae39436e89ac71af5243d896a4acd6496"><div class="ttname"><a href="structOpenMS_1_1ControlledVocabulary_1_1CVTerm.html#ad05efb0dd6b623db53560c4f8f129a09ae39436e89ac71af5243d896a4acd6496">OpenMS::ControlledVocabulary::CVTerm::XSD_INTEGER</a></div><div class="ttdef"><b>Definition:</b> ControlledVocabulary.h:66</div></div>
<div class="ttc" id="classOpenMS_1_1ControlledVocabulary_html_a46d25a1d56b8ab56e84b8bd0c7581e8f"><div class="ttname"><a href="classOpenMS_1_1ControlledVocabulary.html#a46d25a1d56b8ab56e84b8bd0c7581e8f">OpenMS::ControlledVocabulary::name_</a></div><div class="ttdeci">String name_</div><div class="ttdoc">Name set in the load method. </div><div class="ttdef"><b>Definition:</b> ControlledVocabulary.h:177</div></div>
<div class="ttc" id="Exception_8h_html"><div class="ttname"><a href="Exception_8h.html">Exception.h</a></div></div>
<div class="ttc" id="classOpenMS_1_1Map_html"><div class="ttname"><a href="classOpenMS_1_1Map.html">OpenMS::Map</a></div><div class="ttdoc">Map class based on the STL map (containing serveral convenience functions) </div><div class="ttdef"><b>Definition:</b> Map.h:50</div></div>
<div class="ttc" id="structOpenMS_1_1ControlledVocabulary_1_1CVTerm_html_ad05efb0dd6b623db53560c4f8f129a09a4452061824c767b63771c808ac8db712"><div class="ttname"><a href="structOpenMS_1_1ControlledVocabulary_1_1CVTerm.html#ad05efb0dd6b623db53560c4f8f129a09a4452061824c767b63771c808ac8db712">OpenMS::ControlledVocabulary::CVTerm::XSD_POSITIVE_INTEGER</a></div><div class="ttdef"><b>Definition:</b> ControlledVocabulary.h:69</div></div>
<div class="ttc" id="structOpenMS_1_1ControlledVocabulary_1_1CVTerm_html_a76d2b0133d83c43dfd8a19286ac55325"><div class="ttname"><a href="structOpenMS_1_1ControlledVocabulary_1_1CVTerm.html#a76d2b0133d83c43dfd8a19286ac55325">OpenMS::ControlledVocabulary::CVTerm::description</a></div><div class="ttdeci">String description</div><div class="ttdoc">Term description. </div><div class="ttdef"><b>Definition:</b> ControlledVocabulary.h:85</div></div>
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<TD><font color="#c0c0c0">OpenMS / TOPP release 1.11.1</font></TD>
<TD align="right"><font color="#c0c0c0">Documentation generated on Thu Nov 14 2013 11:19:12 using doxygen 1.8.5</font></TD>
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