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<a href="SemanticValidator_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> <span class="comment">// --------------------------------------------------------------------------</span></div>
<div class="line"><a name="l00002"></a><span class="lineno"> 2</span> <span class="comment">// OpenMS -- Open-Source Mass Spectrometry</span></div>
<div class="line"><a name="l00003"></a><span class="lineno"> 3</span> <span class="comment">// --------------------------------------------------------------------------</span></div>
<div class="line"><a name="l00004"></a><span class="lineno"> 4</span> <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> <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> <span class="comment">//</span></div>
<div class="line"><a name="l00007"></a><span class="lineno"> 7</span> <span class="comment">// This software is released under a three-clause BSD license:</span></div>
<div class="line"><a name="l00008"></a><span class="lineno"> 8</span> <span class="comment">// * Redistributions of source code must retain the above copyright</span></div>
<div class="line"><a name="l00009"></a><span class="lineno"> 9</span> <span class="comment">// notice, this list of conditions and the following disclaimer.</span></div>
<div class="line"><a name="l00010"></a><span class="lineno"> 10</span> <span class="comment">// * Redistributions in binary form must reproduce the above copyright</span></div>
<div class="line"><a name="l00011"></a><span class="lineno"> 11</span> <span class="comment">// notice, this list of conditions and the following disclaimer in the</span></div>
<div class="line"><a name="l00012"></a><span class="lineno"> 12</span> <span class="comment">// documentation and/or other materials provided with the distribution.</span></div>
<div class="line"><a name="l00013"></a><span class="lineno"> 13</span> <span class="comment">// * Neither the name of any author or any participating institution</span></div>
<div class="line"><a name="l00014"></a><span class="lineno"> 14</span> <span class="comment">// may be used to endorse or promote products derived from this software</span></div>
<div class="line"><a name="l00015"></a><span class="lineno"> 15</span> <span class="comment">// without specific prior written permission.</span></div>
<div class="line"><a name="l00016"></a><span class="lineno"> 16</span> <span class="comment">// For a full list of authors, refer to the file AUTHORS.</span></div>
<div class="line"><a name="l00017"></a><span class="lineno"> 17</span> <span class="comment">// --------------------------------------------------------------------------</span></div>
<div class="line"><a name="l00018"></a><span class="lineno"> 18</span> <span class="comment">// THIS SOFTWARE IS PROVIDED BY THE COPYRIGHT HOLDERS AND CONTRIBUTORS "AS IS"</span></div>
<div class="line"><a name="l00019"></a><span class="lineno"> 19</span> <span class="comment">// AND ANY EXPRESS OR IMPLIED WARRANTIES, INCLUDING, BUT NOT LIMITED TO, THE</span></div>
<div class="line"><a name="l00020"></a><span class="lineno"> 20</span> <span class="comment">// IMPLIED WARRANTIES OF MERCHANTABILITY AND FITNESS FOR A PARTICULAR PURPOSE</span></div>
<div class="line"><a name="l00021"></a><span class="lineno"> 21</span> <span class="comment">// ARE DISCLAIMED. IN NO EVENT SHALL ANY OF THE AUTHORS OR THE CONTRIBUTING</span></div>
<div class="line"><a name="l00022"></a><span class="lineno"> 22</span> <span class="comment">// INSTITUTIONS BE LIABLE FOR ANY DIRECT, INDIRECT, INCIDENTAL, SPECIAL,</span></div>
<div class="line"><a name="l00023"></a><span class="lineno"> 23</span> <span class="comment">// EXEMPLARY, OR CONSEQUENTIAL DAMAGES (INCLUDING, BUT NOT LIMITED TO,</span></div>
<div class="line"><a name="l00024"></a><span class="lineno"> 24</span> <span class="comment">// PROCUREMENT OF SUBSTITUTE GOODS OR SERVICES; LOSS OF USE, DATA, OR PROFITS;</span></div>
<div class="line"><a name="l00025"></a><span class="lineno"> 25</span> <span class="comment">// OR BUSINESS INTERRUPTION) HOWEVER CAUSED AND ON ANY THEORY OF LIABILITY,</span></div>
<div class="line"><a name="l00026"></a><span class="lineno"> 26</span> <span class="comment">// WHETHER IN CONTRACT, STRICT LIABILITY, OR TORT (INCLUDING NEGLIGENCE OR</span></div>
<div class="line"><a name="l00027"></a><span class="lineno"> 27</span> <span class="comment">// OTHERWISE) ARISING IN ANY WAY OUT OF THE USE OF THIS SOFTWARE, EVEN IF</span></div>
<div class="line"><a name="l00028"></a><span class="lineno"> 28</span> <span class="comment">// ADVISED OF THE POSSIBILITY OF SUCH DAMAGE.</span></div>
<div class="line"><a name="l00029"></a><span class="lineno"> 29</span> <span class="comment">//</span></div>
<div class="line"><a name="l00030"></a><span class="lineno"> 30</span> <span class="comment">// --------------------------------------------------------------------------</span></div>
<div class="line"><a name="l00031"></a><span class="lineno"> 31</span> <span class="comment">// $Maintainer: Andreas Bertsch $</span></div>
<div class="line"><a name="l00032"></a><span class="lineno"> 32</span> <span class="comment">// $Authors: Marc Sturm, Andreas Bertsch $</span></div>
<div class="line"><a name="l00033"></a><span class="lineno"> 33</span> <span class="comment">// --------------------------------------------------------------------------</span></div>
<div class="line"><a name="l00034"></a><span class="lineno"> 34</span> </div>
<div class="line"><a name="l00035"></a><span class="lineno"> 35</span> <span class="preprocessor">#ifndef OPENMS_FORMAT_VALIDATORS_SEMANTICVALIDATOR_H</span></div>
<div class="line"><a name="l00036"></a><span class="lineno"> 36</span> <span class="preprocessor"></span><span class="preprocessor">#define OPENMS_FORMAT_VALIDATORS_SEMANTICVALIDATOR_H</span></div>
<div class="line"><a name="l00037"></a><span class="lineno"> 37</span> <span class="preprocessor"></span></div>
<div class="line"><a name="l00038"></a><span class="lineno"> 38</span> <span class="preprocessor">#include <<a class="code" href="XMLFile_8h.html">OpenMS/FORMAT/XMLFile.h</a>></span></div>
<div class="line"><a name="l00039"></a><span class="lineno"> 39</span> <span class="preprocessor">#include <<a class="code" href="XMLHandler_8h.html">OpenMS/FORMAT/HANDLERS/XMLHandler.h</a>></span></div>
<div class="line"><a name="l00040"></a><span class="lineno"> 40</span> <span class="preprocessor">#include <<a class="code" href="Map_8h.html">OpenMS/DATASTRUCTURES/Map.h</a>></span></div>
<div class="line"><a name="l00041"></a><span class="lineno"> 41</span> <span class="preprocessor">#include <<a class="code" href="CVMappings_8h.html">OpenMS/DATASTRUCTURES/CVMappings.h</a>></span></div>
<div class="line"><a name="l00042"></a><span class="lineno"> 42</span> </div>
<div class="line"><a name="l00043"></a><span class="lineno"> 43</span> </div>
<div class="line"><a name="l00044"></a><span class="lineno"> 44</span> <span class="keyword">namespace </span>OpenMS</div>
<div class="line"><a name="l00045"></a><span class="lineno"> 45</span> {</div>
<div class="line"><a name="l00046"></a><span class="lineno"> 46</span>  <span class="keyword">class </span>ControlledVocabulary;</div>
<div class="line"><a name="l00047"></a><span class="lineno"> 47</span>  <span class="keyword">namespace </span>Internal</div>
<div class="line"><a name="l00048"></a><span class="lineno"> 48</span>  {</div>
<div class="line"><a name="l00049"></a><span class="lineno"> 49</span> </div>
<div class="line"><a name="l00056"></a><span class="lineno"><a class="line" href="classOpenMS_1_1Internal_1_1SemanticValidator.html"> 56</a></span>  <span class="keyword">class </span>OPENMS_DLLAPI <a class="code" href="classOpenMS_1_1Internal_1_1SemanticValidator.html">SemanticValidator</a> :</div>
<div class="line"><a name="l00057"></a><span class="lineno"> 57</span>  <span class="keyword">protected</span> <a class="code" href="classOpenMS_1_1Internal_1_1XMLHandler.html">Internal::XMLHandler</a>,</div>
<div class="line"><a name="l00058"></a><span class="lineno"> 58</span>  <span class="keyword">public</span> <a class="code" href="classOpenMS_1_1Internal_1_1XMLFile.html">Internal::XMLFile</a></div>
<div class="line"><a name="l00059"></a><span class="lineno"> 59</span>  {</div>
<div class="line"><a name="l00060"></a><span class="lineno"> 60</span> <span class="keyword">public</span>:</div>
<div class="line"><a name="l00067"></a><span class="lineno"> 67</span>  <a class="code" href="classOpenMS_1_1Internal_1_1SemanticValidator.html">SemanticValidator</a>(<span class="keyword">const</span> <a class="code" href="classOpenMS_1_1CVMappings.html">CVMappings</a> & mapping, <span class="keyword">const</span> <a class="code" href="classOpenMS_1_1ControlledVocabulary.html">ControlledVocabulary</a> & cv);</div>
<div class="line"><a name="l00068"></a><span class="lineno"> 68</span> </div>
<div class="line"><a name="l00070"></a><span class="lineno"> 70</span>  <span class="keyword">virtual</span> ~<a class="code" href="classOpenMS_1_1Internal_1_1SemanticValidator.html">SemanticValidator</a>();</div>
<div class="line"><a name="l00071"></a><span class="lineno"> 71</span> </div>
<div class="line"><a name="l00073"></a><span class="lineno"><a class="line" href="structOpenMS_1_1Internal_1_1SemanticValidator_1_1CVTerm.html"> 73</a></span>  <span class="keyword">struct </span><a class="code" href="structOpenMS_1_1Internal_1_1SemanticValidator_1_1CVTerm.html">CVTerm</a></div>
<div class="line"><a name="l00074"></a><span class="lineno"> 74</span>  {</div>
<div class="line"><a name="l00075"></a><span class="lineno"><a class="line" href="structOpenMS_1_1Internal_1_1SemanticValidator_1_1CVTerm.html#aa4b705e9e4267f64630cacd7fc55fc5d"> 75</a></span>  <a class="code" href="classOpenMS_1_1String.html">String</a> <a class="code" href="structOpenMS_1_1Internal_1_1SemanticValidator_1_1CVTerm.html#aa4b705e9e4267f64630cacd7fc55fc5d">accession</a>;</div>
<div class="line"><a name="l00076"></a><span class="lineno"><a class="line" href="structOpenMS_1_1Internal_1_1SemanticValidator_1_1CVTerm.html#a9a2326f35466e54c36c070829245c557"> 76</a></span>  <a class="code" href="classOpenMS_1_1String.html">String</a> <a class="code" href="structOpenMS_1_1Internal_1_1SemanticValidator_1_1CVTerm.html#a9a2326f35466e54c36c070829245c557">name</a>;</div>
<div class="line"><a name="l00077"></a><span class="lineno"><a class="line" href="structOpenMS_1_1Internal_1_1SemanticValidator_1_1CVTerm.html#a32147dacf0dd0bda3c39144c67347bf3"> 77</a></span>  <a class="code" href="classOpenMS_1_1String.html">String</a> <a class="code" href="structOpenMS_1_1Internal_1_1SemanticValidator_1_1CVTerm.html#a32147dacf0dd0bda3c39144c67347bf3">value</a>;</div>
<div class="line"><a name="l00078"></a><span class="lineno"><a class="line" href="structOpenMS_1_1Internal_1_1SemanticValidator_1_1CVTerm.html#a9dfa744f0c79dc3f439d054cc3878eaa"> 78</a></span>  <span class="keywordtype">bool</span> <a class="code" href="structOpenMS_1_1Internal_1_1SemanticValidator_1_1CVTerm.html#a9dfa744f0c79dc3f439d054cc3878eaa">has_value</a>;</div>
<div class="line"><a name="l00079"></a><span class="lineno"><a class="line" href="structOpenMS_1_1Internal_1_1SemanticValidator_1_1CVTerm.html#a6d07a35e88f53d1b49ddc99f84163312"> 79</a></span>  <a class="code" href="classOpenMS_1_1String.html">String</a> <a class="code" href="structOpenMS_1_1Internal_1_1SemanticValidator_1_1CVTerm.html#a6d07a35e88f53d1b49ddc99f84163312">unit_accession</a>;</div>
<div class="line"><a name="l00080"></a><span class="lineno"><a class="line" href="structOpenMS_1_1Internal_1_1SemanticValidator_1_1CVTerm.html#ad25f6dba1bbd00a3122302d7bac4beb5"> 80</a></span>  <span class="keywordtype">bool</span> <a class="code" href="structOpenMS_1_1Internal_1_1SemanticValidator_1_1CVTerm.html#ad25f6dba1bbd00a3122302d7bac4beb5">has_unit_accession</a>;</div>
<div class="line"><a name="l00081"></a><span class="lineno"><a class="line" href="structOpenMS_1_1Internal_1_1SemanticValidator_1_1CVTerm.html#a0f177f0eb91770b655d448ed8b9f4442"> 81</a></span>  <a class="code" href="classOpenMS_1_1String.html">String</a> <a class="code" href="structOpenMS_1_1Internal_1_1SemanticValidator_1_1CVTerm.html#a0f177f0eb91770b655d448ed8b9f4442">unit_name</a>;</div>
<div class="line"><a name="l00082"></a><span class="lineno"><a class="line" href="structOpenMS_1_1Internal_1_1SemanticValidator_1_1CVTerm.html#a6f8965f74e78f28d247f2027d1089d13"> 82</a></span>  <span class="keywordtype">bool</span> <a class="code" href="structOpenMS_1_1Internal_1_1SemanticValidator_1_1CVTerm.html#a6f8965f74e78f28d247f2027d1089d13">has_unit_name</a>;</div>
<div class="line"><a name="l00083"></a><span class="lineno"> 83</span>  };</div>
<div class="line"><a name="l00084"></a><span class="lineno"> 84</span> </div>
<div class="line"><a name="l00096"></a><span class="lineno"> 96</span>  <span class="keywordtype">bool</span> <a class="code" href="namespaceOpenMS_1_1Internal_1_1ClassTest.html#a3c6b858e43d6f3f6dab174e1ae3a99bf">validate</a>(<span class="keyword">const</span> <a class="code" href="classOpenMS_1_1String.html">String</a> & filename, <a class="code" href="classOpenMS_1_1StringList.html">StringList</a> & errors, <a class="code" href="classOpenMS_1_1StringList.html">StringList</a> & warnings);</div>
<div class="line"><a name="l00097"></a><span class="lineno"> 97</span> </div>
<div class="line"><a name="l00099"></a><span class="lineno"> 99</span>  <span class="keywordtype">bool</span> locateTerm(<span class="keyword">const</span> <a class="code" href="classOpenMS_1_1String.html">String</a> & path, <span class="keyword">const</span> <a class="code" href="structOpenMS_1_1Internal_1_1SemanticValidator_1_1CVTerm.html">CVTerm</a> & parsed_term) <span class="keyword">const</span>;</div>
<div class="line"><a name="l00100"></a><span class="lineno"> 100</span> </div>
<div class="line"><a name="l00102"></a><span class="lineno"> 102</span>  <span class="keywordtype">void</span> setTag(<span class="keyword">const</span> <a class="code" href="classOpenMS_1_1String.html">String</a> & tag);</div>
<div class="line"><a name="l00103"></a><span class="lineno"> 103</span> </div>
<div class="line"><a name="l00105"></a><span class="lineno"> 105</span>  <span class="keywordtype">void</span> setAccessionAttribute(<span class="keyword">const</span> <a class="code" href="classOpenMS_1_1String.html">String</a> & accession);</div>
<div class="line"><a name="l00106"></a><span class="lineno"> 106</span> </div>
<div class="line"><a name="l00108"></a><span class="lineno"> 108</span>  <span class="keywordtype">void</span> setNameAttribute(<span class="keyword">const</span> <a class="code" href="classOpenMS_1_1String.html">String</a> & name);</div>
<div class="line"><a name="l00109"></a><span class="lineno"> 109</span> </div>
<div class="line"><a name="l00111"></a><span class="lineno"> 111</span>  <span class="keywordtype">void</span> setValueAttribute(<span class="keyword">const</span> <a class="code" href="classOpenMS_1_1String.html">String</a> & value);</div>
<div class="line"><a name="l00112"></a><span class="lineno"> 112</span> </div>
<div class="line"><a name="l00121"></a><span class="lineno"> 121</span>  <span class="keywordtype">void</span> setCheckTermValueTypes(<span class="keywordtype">bool</span> check);</div>
<div class="line"><a name="l00122"></a><span class="lineno"> 122</span> </div>
<div class="line"><a name="l00130"></a><span class="lineno"> 130</span>  <span class="keywordtype">void</span> setCheckUnits(<span class="keywordtype">bool</span> check);</div>
<div class="line"><a name="l00131"></a><span class="lineno"> 131</span> </div>
<div class="line"><a name="l00133"></a><span class="lineno"> 133</span>  <span class="keywordtype">void</span> setUnitAccessionAttribute(<span class="keyword">const</span> <a class="code" href="classOpenMS_1_1String.html">String</a> & accession);</div>
<div class="line"><a name="l00134"></a><span class="lineno"> 134</span> </div>
<div class="line"><a name="l00136"></a><span class="lineno"> 136</span>  <span class="keywordtype">void</span> setUnitNameAttribute(<span class="keyword">const</span> <a class="code" href="classOpenMS_1_1String.html">String</a> & name);</div>
<div class="line"><a name="l00137"></a><span class="lineno"> 137</span> </div>
<div class="line"><a name="l00138"></a><span class="lineno"> 138</span> <span class="keyword">protected</span>:</div>
<div class="line"><a name="l00139"></a><span class="lineno"> 139</span> </div>
<div class="line"><a name="l00140"></a><span class="lineno"> 140</span>  <span class="comment">// Docu in base class</span></div>
<div class="line"><a name="l00141"></a><span class="lineno"> 141</span>  <span class="keywordtype">void</span> startElement(<span class="keyword">const</span> XMLCh * <span class="keyword">const</span> <span class="comment">/*uri*/</span>, <span class="keyword">const</span> XMLCh * <span class="keyword">const</span> <span class="comment">/*local_name*/</span>, <span class="keyword">const</span> XMLCh * <span class="keyword">const</span> qname, <span class="keyword">const</span> xercesc::Attributes & attributes);</div>
<div class="line"><a name="l00142"></a><span class="lineno"> 142</span> </div>
<div class="line"><a name="l00143"></a><span class="lineno"> 143</span>  <span class="comment">// Docu in base class</span></div>
<div class="line"><a name="l00144"></a><span class="lineno"> 144</span>  <span class="keywordtype">void</span> endElement(<span class="keyword">const</span> XMLCh * <span class="keyword">const</span> <span class="comment">/*uri*/</span>, <span class="keyword">const</span> XMLCh * <span class="keyword">const</span> <span class="comment">/*local_name*/</span>, <span class="keyword">const</span> XMLCh * <span class="keyword">const</span> qname);</div>
<div class="line"><a name="l00145"></a><span class="lineno"> 145</span> </div>
<div class="line"><a name="l00146"></a><span class="lineno"> 146</span>  <span class="comment">// Docu in base class</span></div>
<div class="line"><a name="l00147"></a><span class="lineno"> 147</span>  <span class="keywordtype">void</span> characters(<span class="keyword">const</span> XMLCh * <span class="keyword">const</span> chars, <span class="keyword">const</span> XMLSize_t <span class="comment">/*length*/</span>);</div>
<div class="line"><a name="l00148"></a><span class="lineno"> 148</span> </div>
<div class="line"><a name="l00150"></a><span class="lineno"> 150</span>  <span class="keyword">virtual</span> <a class="code" href="classOpenMS_1_1String.html">String</a> getPath_(<a class="code" href="classunsigned_01int.html">UInt</a> remove_from_end = 0) <span class="keyword">const</span>;</div>
<div class="line"><a name="l00151"></a><span class="lineno"> 151</span> </div>
<div class="line"><a name="l00153"></a><span class="lineno"> 153</span>  <span class="keyword">virtual</span> <span class="keywordtype">void</span> getCVTerm_(<span class="keyword">const</span> xercesc::Attributes & attributes, <a class="code" href="structOpenMS_1_1Internal_1_1SemanticValidator_1_1CVTerm.html">CVTerm</a> & parsed_term);</div>
<div class="line"><a name="l00154"></a><span class="lineno"> 154</span> </div>
<div class="line"><a name="l00155"></a><span class="lineno"> 155</span>  <span class="comment">//~ forward dekl. of a inner struct/class not possible in C++ - or our Library is overtemplated</span></div>
<div class="line"><a name="l00156"></a><span class="lineno"> 156</span>  <span class="comment">//~ /// make a SemanticValidator::CVTerm from a ControlledVocabulary::CVTerm (without any value or unit), needed for writing only cvs at the right places in the xml (i.e. with cvmapping)</span></div>
<div class="line"><a name="l00157"></a><span class="lineno"> 157</span>  <span class="comment">//~ virtual void makeCVTerm_(const ControlledVocabulary::CVTerm & lc, CVTerm & parsed_term);</span></div>
<div class="line"><a name="l00158"></a><span class="lineno"> 158</span> </div>
<div class="line"><a name="l00160"></a><span class="lineno"> 160</span>  <span class="keyword">virtual</span> <span class="keywordtype">void</span> handleTerm_(<span class="keyword">const</span> <a class="code" href="classOpenMS_1_1String.html">String</a> & path, <span class="keyword">const</span> <a class="code" href="structOpenMS_1_1Internal_1_1SemanticValidator_1_1CVTerm.html">CVTerm</a> & parsed_term);</div>
<div class="line"><a name="l00161"></a><span class="lineno"> 161</span> </div>
<div class="line"><a name="l00163"></a><span class="lineno"><a class="line" href="classOpenMS_1_1Internal_1_1SemanticValidator.html#ae7279f2237069dd49c0df9b4bd2b25c9"> 163</a></span>  <span class="keyword">const</span> <a class="code" href="classOpenMS_1_1CVMappings.html">CVMappings</a> & <a class="code" href="classOpenMS_1_1Internal_1_1SemanticValidator.html#ae7279f2237069dd49c0df9b4bd2b25c9">mapping_</a>;</div>
<div class="line"><a name="l00164"></a><span class="lineno"> 164</span> </div>
<div class="line"><a name="l00166"></a><span class="lineno"><a class="line" href="classOpenMS_1_1Internal_1_1SemanticValidator.html#a30eef55688f377cb3c01495cde711c27"> 166</a></span>  <span class="keyword">const</span> <a class="code" href="classOpenMS_1_1ControlledVocabulary.html">ControlledVocabulary</a> & <a class="code" href="classOpenMS_1_1Internal_1_1SemanticValidator.html#a30eef55688f377cb3c01495cde711c27">cv_</a>;</div>
<div class="line"><a name="l00167"></a><span class="lineno"> 167</span> </div>
<div class="line"><a name="l00169"></a><span class="lineno"><a class="line" href="classOpenMS_1_1Internal_1_1SemanticValidator.html#a821f1ef452461104f7421c58e9791416"> 169</a></span>  <a class="code" href="classOpenMS_1_1StringList.html">StringList</a> <a class="code" href="classOpenMS_1_1Internal_1_1SemanticValidator.html#a821f1ef452461104f7421c58e9791416">errors_</a>;</div>
<div class="line"><a name="l00170"></a><span class="lineno"> 170</span> </div>
<div class="line"><a name="l00172"></a><span class="lineno"><a class="line" href="classOpenMS_1_1Internal_1_1SemanticValidator.html#a72b382d48e274e5f6b77b712abcd5c54"> 172</a></span>  <a class="code" href="classOpenMS_1_1StringList.html">StringList</a> <a class="code" href="classOpenMS_1_1Internal_1_1SemanticValidator.html#a72b382d48e274e5f6b77b712abcd5c54">warnings_</a>;</div>
<div class="line"><a name="l00173"></a><span class="lineno"> 173</span> </div>
<div class="line"><a name="l00175"></a><span class="lineno"><a class="line" href="classOpenMS_1_1Internal_1_1SemanticValidator.html#a944ed3ae884f2bbba2dabd0d7b0efc7e"> 175</a></span>  <a class="code" href="classOpenMS_1_1StringList.html">StringList</a> <a class="code" href="classOpenMS_1_1Internal_1_1SemanticValidator.html#a944ed3ae884f2bbba2dabd0d7b0efc7e">open_tags_</a>;</div>
<div class="line"><a name="l00176"></a><span class="lineno"> 176</span> </div>
<div class="line"><a name="l00178"></a><span class="lineno"><a class="line" href="classOpenMS_1_1Internal_1_1SemanticValidator.html#ad5846355df29e515d6215425a3ca81d1"> 178</a></span>  <a class="code" href="classOpenMS_1_1Map.html">Map<String, std::vector<CVMappingRule></a> > <a class="code" href="classOpenMS_1_1Internal_1_1SemanticValidator.html#ad5846355df29e515d6215425a3ca81d1">rules_</a>;</div>
<div class="line"><a name="l00179"></a><span class="lineno"> 179</span> </div>
<div class="line"><a name="l00183"></a><span class="lineno"><a class="line" href="classOpenMS_1_1Internal_1_1SemanticValidator.html#ac4b09bd73cae1e65445f35e8531f5166"> 183</a></span>  <a class="code" href="classOpenMS_1_1Map.html">Map<String, Map<String, Map<String, UInt></a> > > <a class="code" href="classOpenMS_1_1Internal_1_1SemanticValidator.html#ac4b09bd73cae1e65445f35e8531f5166">fulfilled_</a>;</div>
<div class="line"><a name="l00184"></a><span class="lineno"> 184</span> </div>
<div class="line"><a name="l00185"></a><span class="lineno"> 185</span> </div>
<div class="line"><a name="l00187"></a><span class="lineno"> 187</span> </div>
<div class="line"><a name="l00188"></a><span class="lineno"><a class="line" href="classOpenMS_1_1Internal_1_1SemanticValidator.html#a7fa0d42944828ddaa711823fb238bb8c"> 188</a></span>  <a class="code" href="classOpenMS_1_1String.html">String</a> <a class="code" href="classOpenMS_1_1Internal_1_1SemanticValidator.html#a7fa0d42944828ddaa711823fb238bb8c">cv_tag_</a>;</div>
<div class="line"><a name="l00189"></a><span class="lineno"><a class="line" href="classOpenMS_1_1Internal_1_1SemanticValidator.html#aff629f3fbb7f6af52d59caed68ae5450"> 189</a></span>  <a class="code" href="classOpenMS_1_1String.html">String</a> <a class="code" href="classOpenMS_1_1Internal_1_1SemanticValidator.html#aff629f3fbb7f6af52d59caed68ae5450">accession_att_</a>;</div>
<div class="line"><a name="l00190"></a><span class="lineno"><a class="line" href="classOpenMS_1_1Internal_1_1SemanticValidator.html#a3196893f4e7aa79fd0da0519ed977c50"> 190</a></span>  <a class="code" href="classOpenMS_1_1String.html">String</a> <a class="code" href="classOpenMS_1_1Internal_1_1SemanticValidator.html#a3196893f4e7aa79fd0da0519ed977c50">name_att_</a>;</div>
<div class="line"><a name="l00191"></a><span class="lineno"><a class="line" href="classOpenMS_1_1Internal_1_1SemanticValidator.html#ae1af016f18ef3cf6cccdc8f2d86a926d"> 191</a></span>  <a class="code" href="classOpenMS_1_1String.html">String</a> <a class="code" href="classOpenMS_1_1Internal_1_1SemanticValidator.html#ae1af016f18ef3cf6cccdc8f2d86a926d">value_att_</a>;</div>
<div class="line"><a name="l00192"></a><span class="lineno"><a class="line" href="classOpenMS_1_1Internal_1_1SemanticValidator.html#a5028692823cd0f018d69da369a1c02b7"> 192</a></span>  <a class="code" href="classOpenMS_1_1String.html">String</a> <a class="code" href="classOpenMS_1_1Internal_1_1SemanticValidator.html#a5028692823cd0f018d69da369a1c02b7">unit_accession_att_</a>;</div>
<div class="line"><a name="l00193"></a><span class="lineno"><a class="line" href="classOpenMS_1_1Internal_1_1SemanticValidator.html#a3668e535877d2730090663229249a512"> 193</a></span>  <a class="code" href="classOpenMS_1_1String.html">String</a> <a class="code" href="classOpenMS_1_1Internal_1_1SemanticValidator.html#a3668e535877d2730090663229249a512">unit_name_att_</a>;</div>
<div class="line"><a name="l00194"></a><span class="lineno"><a class="line" href="classOpenMS_1_1Internal_1_1SemanticValidator.html#a055389951b2cc6d8dab74efb19dc8557"> 194</a></span>  <span class="keywordtype">bool</span> <a class="code" href="classOpenMS_1_1Internal_1_1SemanticValidator.html#a055389951b2cc6d8dab74efb19dc8557">check_term_value_types_</a>;</div>
<div class="line"><a name="l00195"></a><span class="lineno"><a class="line" href="classOpenMS_1_1Internal_1_1SemanticValidator.html#ac07cbf73c1838c8e45bcce73ebb8876f"> 195</a></span>  <span class="keywordtype">bool</span> <a class="code" href="classOpenMS_1_1Internal_1_1SemanticValidator.html#ac07cbf73c1838c8e45bcce73ebb8876f">check_units_</a>;</div>
<div class="line"><a name="l00197"></a><span class="lineno"> 197</span> </div>
<div class="line"><a name="l00198"></a><span class="lineno"> 198</span> <span class="keyword">private</span>:</div>
<div class="line"><a name="l00199"></a><span class="lineno"> 199</span> </div>
<div class="line"><a name="l00201"></a><span class="lineno"> 201</span>  <a class="code" href="classOpenMS_1_1Internal_1_1SemanticValidator.html">SemanticValidator</a>();</div>
<div class="line"><a name="l00202"></a><span class="lineno"> 202</span> </div>
<div class="line"><a name="l00204"></a><span class="lineno"> 204</span>  <a class="code" href="classOpenMS_1_1Internal_1_1SemanticValidator.html">SemanticValidator</a>(<span class="keyword">const</span> <a class="code" href="classOpenMS_1_1Internal_1_1SemanticValidator.html">SemanticValidator</a> & rhs);</div>
<div class="line"><a name="l00205"></a><span class="lineno"> 205</span> </div>
<div class="line"><a name="l00207"></a><span class="lineno"> 207</span>  <a class="code" href="classOpenMS_1_1Internal_1_1SemanticValidator.html">SemanticValidator</a> & operator=(<span class="keyword">const</span> <a class="code" href="classOpenMS_1_1Internal_1_1SemanticValidator.html">SemanticValidator</a> & rhs);</div>
<div class="line"><a name="l00208"></a><span class="lineno"> 208</span> </div>
<div class="line"><a name="l00209"></a><span class="lineno"> 209</span>  };</div>
<div class="line"><a name="l00210"></a><span class="lineno"> 210</span> </div>
<div class="line"><a name="l00211"></a><span class="lineno"> 211</span>  } <span class="comment">// namespace Internal</span></div>
<div class="line"><a name="l00212"></a><span class="lineno"> 212</span> </div>
<div class="line"><a name="l00213"></a><span class="lineno"> 213</span> } <span class="comment">// namespace OpenMS</span></div>
<div class="line"><a name="l00214"></a><span class="lineno"> 214</span> </div>
<div class="line"><a name="l00215"></a><span class="lineno"> 215</span> <span class="preprocessor">#endif // OPENMS_FORMAT_VSLIDATORS_SEMANTICVALIDATOR_H</span></div>
<div class="ttc" id="classunsigned_01int_html"><div class="ttname"><a href="classunsigned_01int.html">unsigned int</a></div></div>
<div class="ttc" id="structOpenMS_1_1Internal_1_1SemanticValidator_1_1CVTerm_html_aa4b705e9e4267f64630cacd7fc55fc5d"><div class="ttname"><a href="structOpenMS_1_1Internal_1_1SemanticValidator_1_1CVTerm.html#aa4b705e9e4267f64630cacd7fc55fc5d">OpenMS::Internal::SemanticValidator::CVTerm::accession</a></div><div class="ttdeci">String accession</div><div class="ttdef"><b>Definition:</b> SemanticValidator.h:75</div></div>
<div class="ttc" id="structOpenMS_1_1Internal_1_1SemanticValidator_1_1CVTerm_html_a0f177f0eb91770b655d448ed8b9f4442"><div class="ttname"><a href="structOpenMS_1_1Internal_1_1SemanticValidator_1_1CVTerm.html#a0f177f0eb91770b655d448ed8b9f4442">OpenMS::Internal::SemanticValidator::CVTerm::unit_name</a></div><div class="ttdeci">String unit_name</div><div class="ttdef"><b>Definition:</b> SemanticValidator.h:81</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="classOpenMS_1_1Internal_1_1SemanticValidator_html_a30eef55688f377cb3c01495cde711c27"><div class="ttname"><a href="classOpenMS_1_1Internal_1_1SemanticValidator.html#a30eef55688f377cb3c01495cde711c27">OpenMS::Internal::SemanticValidator::cv_</a></div><div class="ttdeci">const ControlledVocabulary & cv_</div><div class="ttdoc">Reference to the CVs. </div><div class="ttdef"><b>Definition:</b> SemanticValidator.h:166</div></div>
<div class="ttc" id="structOpenMS_1_1Internal_1_1SemanticValidator_1_1CVTerm_html_a9dfa744f0c79dc3f439d054cc3878eaa"><div class="ttname"><a href="structOpenMS_1_1Internal_1_1SemanticValidator_1_1CVTerm.html#a9dfa744f0c79dc3f439d054cc3878eaa">OpenMS::Internal::SemanticValidator::CVTerm::has_value</a></div><div class="ttdeci">bool has_value</div><div class="ttdef"><b>Definition:</b> SemanticValidator.h:78</div></div>
<div class="ttc" id="classOpenMS_1_1Internal_1_1SemanticValidator_html_ae1af016f18ef3cf6cccdc8f2d86a926d"><div class="ttname"><a href="classOpenMS_1_1Internal_1_1SemanticValidator.html#ae1af016f18ef3cf6cccdc8f2d86a926d">OpenMS::Internal::SemanticValidator::value_att_</a></div><div class="ttdeci">String value_att_</div><div class="ttdef"><b>Definition:</b> SemanticValidator.h:191</div></div>
<div class="ttc" id="classOpenMS_1_1Internal_1_1SemanticValidator_html_a821f1ef452461104f7421c58e9791416"><div class="ttname"><a href="classOpenMS_1_1Internal_1_1SemanticValidator.html#a821f1ef452461104f7421c58e9791416">OpenMS::Internal::SemanticValidator::errors_</a></div><div class="ttdeci">StringList errors_</div><div class="ttdoc">Validation erros. </div><div class="ttdef"><b>Definition:</b> SemanticValidator.h:169</div></div>
<div class="ttc" id="classOpenMS_1_1Internal_1_1SemanticValidator_html_ac07cbf73c1838c8e45bcce73ebb8876f"><div class="ttname"><a href="classOpenMS_1_1Internal_1_1SemanticValidator.html#ac07cbf73c1838c8e45bcce73ebb8876f">OpenMS::Internal::SemanticValidator::check_units_</a></div><div class="ttdeci">bool check_units_</div><div class="ttdef"><b>Definition:</b> SemanticValidator.h:195</div></div>
<div class="ttc" id="classOpenMS_1_1Internal_1_1SemanticValidator_html_a055389951b2cc6d8dab74efb19dc8557"><div class="ttname"><a href="classOpenMS_1_1Internal_1_1SemanticValidator.html#a055389951b2cc6d8dab74efb19dc8557">OpenMS::Internal::SemanticValidator::check_term_value_types_</a></div><div class="ttdeci">bool check_term_value_types_</div><div class="ttdef"><b>Definition:</b> SemanticValidator.h:194</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="classOpenMS_1_1Internal_1_1XMLHandler_html"><div class="ttname"><a href="classOpenMS_1_1Internal_1_1XMLHandler.html">OpenMS::Internal::XMLHandler</a></div><div class="ttdoc">Base class for XML handlers. </div><div class="ttdef"><b>Definition:</b> XMLHandler.h:89</div></div>
<div class="ttc" id="structOpenMS_1_1Internal_1_1SemanticValidator_1_1CVTerm_html_a6d07a35e88f53d1b49ddc99f84163312"><div class="ttname"><a href="structOpenMS_1_1Internal_1_1SemanticValidator_1_1CVTerm.html#a6d07a35e88f53d1b49ddc99f84163312">OpenMS::Internal::SemanticValidator::CVTerm::unit_accession</a></div><div class="ttdeci">String unit_accession</div><div class="ttdef"><b>Definition:</b> SemanticValidator.h:79</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_1Internal_1_1SemanticValidator_1_1CVTerm_html_ad25f6dba1bbd00a3122302d7bac4beb5"><div class="ttname"><a href="structOpenMS_1_1Internal_1_1SemanticValidator_1_1CVTerm.html#ad25f6dba1bbd00a3122302d7bac4beb5">OpenMS::Internal::SemanticValidator::CVTerm::has_unit_accession</a></div><div class="ttdeci">bool has_unit_accession</div><div class="ttdef"><b>Definition:</b> SemanticValidator.h:80</div></div>
<div class="ttc" id="structOpenMS_1_1Internal_1_1SemanticValidator_1_1CVTerm_html"><div class="ttname"><a href="structOpenMS_1_1Internal_1_1SemanticValidator_1_1CVTerm.html">OpenMS::Internal::SemanticValidator::CVTerm</a></div><div class="ttdoc">Representation of a parsed CV term. </div><div class="ttdef"><b>Definition:</b> SemanticValidator.h:73</div></div>
<div class="ttc" id="classOpenMS_1_1Internal_1_1SemanticValidator_html_aff629f3fbb7f6af52d59caed68ae5450"><div class="ttname"><a href="classOpenMS_1_1Internal_1_1SemanticValidator.html#aff629f3fbb7f6af52d59caed68ae5450">OpenMS::Internal::SemanticValidator::accession_att_</a></div><div class="ttdeci">String accession_att_</div><div class="ttdef"><b>Definition:</b> SemanticValidator.h:189</div></div>
<div class="ttc" id="XMLFile_8h_html"><div class="ttname"><a href="XMLFile_8h.html">XMLFile.h</a></div></div>
<div class="ttc" id="classOpenMS_1_1Internal_1_1SemanticValidator_html_a3668e535877d2730090663229249a512"><div class="ttname"><a href="classOpenMS_1_1Internal_1_1SemanticValidator.html#a3668e535877d2730090663229249a512">OpenMS::Internal::SemanticValidator::unit_name_att_</a></div><div class="ttdeci">String unit_name_att_</div><div class="ttdef"><b>Definition:</b> SemanticValidator.h:193</div></div>
<div class="ttc" id="structOpenMS_1_1Internal_1_1SemanticValidator_1_1CVTerm_html_a9a2326f35466e54c36c070829245c557"><div class="ttname"><a href="structOpenMS_1_1Internal_1_1SemanticValidator_1_1CVTerm.html#a9a2326f35466e54c36c070829245c557">OpenMS::Internal::SemanticValidator::CVTerm::name</a></div><div class="ttdeci">String name</div><div class="ttdef"><b>Definition:</b> SemanticValidator.h:76</div></div>
<div class="ttc" id="classOpenMS_1_1Internal_1_1SemanticValidator_html_a3196893f4e7aa79fd0da0519ed977c50"><div class="ttname"><a href="classOpenMS_1_1Internal_1_1SemanticValidator.html#a3196893f4e7aa79fd0da0519ed977c50">OpenMS::Internal::SemanticValidator::name_att_</a></div><div class="ttdeci">String name_att_</div><div class="ttdef"><b>Definition:</b> SemanticValidator.h:190</div></div>
<div class="ttc" id="classOpenMS_1_1Internal_1_1SemanticValidator_html_ac4b09bd73cae1e65445f35e8531f5166"><div class="ttname"><a href="classOpenMS_1_1Internal_1_1SemanticValidator.html#ac4b09bd73cae1e65445f35e8531f5166">OpenMS::Internal::SemanticValidator::fulfilled_</a></div><div class="ttdeci">Map< String, Map< String, Map< String, UInt > > > fulfilled_</div><div class="ttdef"><b>Definition:</b> SemanticValidator.h:183</div></div>
<div class="ttc" id="classOpenMS_1_1Internal_1_1SemanticValidator_html_a7fa0d42944828ddaa711823fb238bb8c"><div class="ttname"><a href="classOpenMS_1_1Internal_1_1SemanticValidator.html#a7fa0d42944828ddaa711823fb238bb8c">OpenMS::Internal::SemanticValidator::cv_tag_</a></div><div class="ttdeci">String cv_tag_</div><div class="ttdef"><b>Definition:</b> SemanticValidator.h:188</div></div>
<div class="ttc" id="classOpenMS_1_1Internal_1_1SemanticValidator_html_ae7279f2237069dd49c0df9b4bd2b25c9"><div class="ttname"><a href="classOpenMS_1_1Internal_1_1SemanticValidator.html#ae7279f2237069dd49c0df9b4bd2b25c9">OpenMS::Internal::SemanticValidator::mapping_</a></div><div class="ttdeci">const CVMappings & mapping_</div><div class="ttdoc">Reference to the mappings. </div><div class="ttdef"><b>Definition:</b> SemanticValidator.h:163</div></div>
<div class="ttc" id="classOpenMS_1_1Internal_1_1SemanticValidator_html_a5028692823cd0f018d69da369a1c02b7"><div class="ttname"><a href="classOpenMS_1_1Internal_1_1SemanticValidator.html#a5028692823cd0f018d69da369a1c02b7">OpenMS::Internal::SemanticValidator::unit_accession_att_</a></div><div class="ttdeci">String unit_accession_att_</div><div class="ttdef"><b>Definition:</b> SemanticValidator.h:192</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_1Internal_1_1SemanticValidator_1_1CVTerm_html_a32147dacf0dd0bda3c39144c67347bf3"><div class="ttname"><a href="structOpenMS_1_1Internal_1_1SemanticValidator_1_1CVTerm.html#a32147dacf0dd0bda3c39144c67347bf3">OpenMS::Internal::SemanticValidator::CVTerm::value</a></div><div class="ttdeci">String value</div><div class="ttdef"><b>Definition:</b> SemanticValidator.h:77</div></div>
<div class="ttc" id="classOpenMS_1_1Internal_1_1SemanticValidator_html_ad5846355df29e515d6215425a3ca81d1"><div class="ttname"><a href="classOpenMS_1_1Internal_1_1SemanticValidator.html#ad5846355df29e515d6215425a3ca81d1">OpenMS::Internal::SemanticValidator::rules_</a></div><div class="ttdeci">Map< String, std::vector< CVMappingRule > > rules_</div><div class="ttdoc">Rules (location =&gt; rule) </div><div class="ttdef"><b>Definition:</b> SemanticValidator.h:178</div></div>
<div class="ttc" id="classOpenMS_1_1Internal_1_1XMLFile_html"><div class="ttname"><a href="classOpenMS_1_1Internal_1_1XMLFile.html">OpenMS::Internal::XMLFile</a></div><div class="ttdoc">Base class for loading/storing XML files that have a handler derived from XMLHandler. </div><div class="ttdef"><b>Definition:</b> XMLFile.h:51</div></div>
<div class="ttc" id="structOpenMS_1_1Internal_1_1SemanticValidator_1_1CVTerm_html_a6f8965f74e78f28d247f2027d1089d13"><div class="ttname"><a href="structOpenMS_1_1Internal_1_1SemanticValidator_1_1CVTerm.html#a6f8965f74e78f28d247f2027d1089d13">OpenMS::Internal::SemanticValidator::CVTerm::has_unit_name</a></div><div class="ttdeci">bool has_unit_name</div><div class="ttdef"><b>Definition:</b> SemanticValidator.h:82</div></div>
<div class="ttc" id="classOpenMS_1_1Internal_1_1SemanticValidator_html"><div class="ttname"><a href="classOpenMS_1_1Internal_1_1SemanticValidator.html">OpenMS::Internal::SemanticValidator</a></div><div class="ttdoc">Semantically validates XML files using CVMappings and a ControlledVocabulary. </div><div class="ttdef"><b>Definition:</b> SemanticValidator.h:56</div></div>
<div class="ttc" id="classOpenMS_1_1CVMappings_html"><div class="ttname"><a href="classOpenMS_1_1CVMappings.html">OpenMS::CVMappings</a></div><div class="ttdoc">Representation of controlled vocabulary mapping rules (for PSI formats) </div><div class="ttdef"><b>Definition:</b> CVMappings.h:56</div></div>
<div class="ttc" id="CVMappings_8h_html"><div class="ttname"><a href="CVMappings_8h.html">CVMappings.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="classOpenMS_1_1Internal_1_1SemanticValidator_html_a944ed3ae884f2bbba2dabd0d7b0efc7e"><div class="ttname"><a href="classOpenMS_1_1Internal_1_1SemanticValidator.html#a944ed3ae884f2bbba2dabd0d7b0efc7e">OpenMS::Internal::SemanticValidator::open_tags_</a></div><div class="ttdeci">StringList open_tags_</div><div class="ttdoc">List of open tags. </div><div class="ttdef"><b>Definition:</b> SemanticValidator.h:175</div></div>
<div class="ttc" id="namespaceOpenMS_1_1Internal_1_1ClassTest_html_a3c6b858e43d6f3f6dab174e1ae3a99bf"><div class="ttname"><a href="namespaceOpenMS_1_1Internal_1_1ClassTest.html#a3c6b858e43d6f3f6dab174e1ae3a99bf">OpenMS::Internal::ClassTest::validate</a></div><div class="ttdeci">bool validate(const std::vector< std::string > &file_names)</div><div class="ttdoc">Validates the given files against the XML schema (if available) </div></div>
<div class="ttc" id="XMLHandler_8h_html"><div class="ttname"><a href="XMLHandler_8h.html">XMLHandler.h</a></div></div>
<div class="ttc" id="classOpenMS_1_1Internal_1_1SemanticValidator_html_a72b382d48e274e5f6b77b712abcd5c54"><div class="ttname"><a href="classOpenMS_1_1Internal_1_1SemanticValidator.html#a72b382d48e274e5f6b77b712abcd5c54">OpenMS::Internal::SemanticValidator::warnings_</a></div><div class="ttdeci">StringList warnings_</div><div class="ttdoc">Validation warnings. </div><div class="ttdef"><b>Definition:</b> SemanticValidator.h:172</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 11:19:20 using doxygen 1.8.5</font></TD>
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