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<a href="InspectInfile_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>
<div class="line"><a name="l00007"></a><span class="lineno">    7</span>&#160;<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>&#160;<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>&#160;<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>&#160;<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>&#160;<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>&#160;<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>&#160;<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>&#160;<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>&#160;<span class="comment">//    without specific prior written permission.</span></div>
<div class="line"><a name="l00016"></a><span class="lineno">   16</span>&#160;<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>&#160;<span class="comment">// --------------------------------------------------------------------------</span></div>
<div class="line"><a name="l00018"></a><span class="lineno">   18</span>&#160;<span class="comment">// THIS SOFTWARE IS PROVIDED BY THE COPYRIGHT HOLDERS AND CONTRIBUTORS &quot;AS IS&quot;</span></div>
<div class="line"><a name="l00019"></a><span class="lineno">   19</span>&#160;<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>&#160;<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>&#160;<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>&#160;<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>&#160;<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>&#160;<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>&#160;<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>&#160;<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>&#160;<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>&#160;<span class="comment">// ADVISED OF THE POSSIBILITY OF SUCH DAMAGE.</span></div>
<div class="line"><a name="l00029"></a><span class="lineno">   29</span>&#160;<span class="comment">//</span></div>
<div class="line"><a name="l00030"></a><span class="lineno">   30</span>&#160;<span class="comment">// --------------------------------------------------------------------------</span></div>
<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: $</span></div>
<div class="line"><a name="l00033"></a><span class="lineno">   33</span>&#160;<span class="comment">// --------------------------------------------------------------------------</span></div>
<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_INSPECTINFILE_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_INSPECTINFILE_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="String_8h.html">OpenMS/DATASTRUCTURES/String.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;</div>
<div class="line"><a name="l00041"></a><span class="lineno">   41</span>&#160;<span class="keyword">namespace </span>OpenMS</div>
<div class="line"><a name="l00042"></a><span class="lineno">   42</span>&#160;{</div>
<div class="line"><a name="l00050"></a><span class="lineno"><a class="line" href="classOpenMS_1_1InspectInfile.html">   50</a></span>&#160;  <span class="keyword">class </span>OPENMS_DLLAPI <a class="code" href="classOpenMS_1_1InspectInfile.html">InspectInfile</a></div>
<div class="line"><a name="l00051"></a><span class="lineno">   51</span>&#160;  {</div>
<div class="line"><a name="l00052"></a><span class="lineno">   52</span>&#160;<span class="keyword">public</span>:</div>
<div class="line"><a name="l00053"></a><span class="lineno">   53</span>&#160;</div>
<div class="line"><a name="l00055"></a><span class="lineno">   55</span>&#160;    <a class="code" href="classOpenMS_1_1InspectInfile.html">InspectInfile</a>();</div>
<div class="line"><a name="l00056"></a><span class="lineno">   56</span>&#160;</div>
<div class="line"><a name="l00058"></a><span class="lineno">   58</span>&#160;    <a class="code" href="classOpenMS_1_1InspectInfile.html">InspectInfile</a>(<span class="keyword">const</span> <a class="code" href="classOpenMS_1_1InspectInfile.html">InspectInfile</a> &amp; inspect_infile);</div>
<div class="line"><a name="l00059"></a><span class="lineno">   59</span>&#160;</div>
<div class="line"><a name="l00061"></a><span class="lineno">   61</span>&#160;    <span class="keyword">virtual</span> ~<a class="code" href="classOpenMS_1_1InspectInfile.html">InspectInfile</a>();</div>
<div class="line"><a name="l00062"></a><span class="lineno">   62</span>&#160;</div>
<div class="line"><a name="l00064"></a><span class="lineno">   64</span>&#160;    <a class="code" href="classOpenMS_1_1InspectInfile.html">InspectInfile</a> &amp; operator=(<span class="keyword">const</span> <a class="code" href="classOpenMS_1_1InspectInfile.html">InspectInfile</a> &amp; inspect_infile);</div>
<div class="line"><a name="l00065"></a><span class="lineno">   65</span>&#160;</div>
<div class="line"><a name="l00067"></a><span class="lineno">   67</span>&#160;    <span class="keywordtype">bool</span> operator==(<span class="keyword">const</span> <a class="code" href="classOpenMS_1_1InspectInfile.html">InspectInfile</a> &amp; inspect_infile) <span class="keyword">const</span>;</div>
<div class="line"><a name="l00068"></a><span class="lineno">   68</span>&#160;</div>
<div class="line"><a name="l00073"></a><span class="lineno">   73</span>&#160;    <span class="keywordtype">void</span> store(<span class="keyword">const</span> <a class="code" href="classOpenMS_1_1String.html">String</a> &amp; filename);</div>
<div class="line"><a name="l00074"></a><span class="lineno">   74</span>&#160;</div>
<div class="line"><a name="l00083"></a><span class="lineno">   83</span>&#160;    <span class="keywordtype">void</span> handlePTMs(<span class="keyword">const</span> <a class="code" href="classOpenMS_1_1String.html">String</a> &amp; modification_line, <span class="keyword">const</span> <a class="code" href="classOpenMS_1_1String.html">String</a> &amp; modifications_filename, <span class="keyword">const</span> <span class="keywordtype">bool</span> monoisotopic);</div>
<div class="line"><a name="l00084"></a><span class="lineno">   84</span>&#160;</div>
<div class="line"><a name="l00090"></a><span class="lineno">   90</span>&#160;    <span class="keyword">const</span> <a class="code" href="classOpenMS_1_1String.html">String</a> &amp; getSpectra() <span class="keyword">const</span>;</div>
<div class="line"><a name="l00091"></a><span class="lineno">   91</span>&#160;    <span class="keywordtype">void</span> setSpectra(<span class="keyword">const</span> <a class="code" href="classOpenMS_1_1String.html">String</a> &amp; spectra);</div>
<div class="line"><a name="l00092"></a><span class="lineno">   92</span>&#160;</div>
<div class="line"><a name="l00098"></a><span class="lineno">   98</span>&#160;    <span class="keyword">const</span> <a class="code" href="classOpenMS_1_1String.html">String</a> &amp; getDb() <span class="keyword">const</span>;</div>
<div class="line"><a name="l00099"></a><span class="lineno">   99</span>&#160;    <span class="keywordtype">void</span> setDb(<span class="keyword">const</span> <a class="code" href="classOpenMS_1_1String.html">String</a> &amp; db);</div>
<div class="line"><a name="l00100"></a><span class="lineno">  100</span>&#160;</div>
<div class="line"><a name="l00102"></a><span class="lineno">  102</span>&#160;    <span class="keyword">const</span> <a class="code" href="classOpenMS_1_1String.html">String</a> &amp; getEnzyme() <span class="keyword">const</span>;</div>
<div class="line"><a name="l00103"></a><span class="lineno">  103</span>&#160;    <span class="keywordtype">void</span> setEnzyme(<span class="keyword">const</span> <a class="code" href="classOpenMS_1_1String.html">String</a> &amp; enzyme);</div>
<div class="line"><a name="l00104"></a><span class="lineno">  104</span>&#160;</div>
<div class="line"><a name="l00106"></a><span class="lineno">  106</span>&#160;    <a class="code" href="group__Concept.html#ga7cc214a236ad3bb6ad435bdcf5262a3f">Int</a> getModificationsPerPeptide() <span class="keyword">const</span>;</div>
<div class="line"><a name="l00107"></a><span class="lineno">  107</span>&#160;    <span class="keywordtype">void</span> setModificationsPerPeptide(<a class="code" href="group__Concept.html#ga7cc214a236ad3bb6ad435bdcf5262a3f">Int</a> modifications_per_peptide);</div>
<div class="line"><a name="l00108"></a><span class="lineno">  108</span>&#160;</div>
<div class="line"><a name="l00114"></a><span class="lineno">  114</span>&#160;    <a class="code" href="classunsigned_01int.html">UInt</a> getBlind() <span class="keyword">const</span>;</div>
<div class="line"><a name="l00115"></a><span class="lineno">  115</span>&#160;    <span class="keywordtype">void</span> setBlind(<a class="code" href="classunsigned_01int.html">UInt</a> blind);</div>
<div class="line"><a name="l00116"></a><span class="lineno">  116</span>&#160;</div>
<div class="line"><a name="l00122"></a><span class="lineno">  122</span>&#160;    <a class="code" href="group__Concept.html#gab685845059e8a2c92743427d9a698c70">Real</a> getMaxPTMsize() <span class="keyword">const</span>;</div>
<div class="line"><a name="l00123"></a><span class="lineno">  123</span>&#160;    <span class="keywordtype">void</span> setMaxPTMsize(<a class="code" href="group__Concept.html#gab685845059e8a2c92743427d9a698c70">Real</a> maxptmsize);</div>
<div class="line"><a name="l00124"></a><span class="lineno">  124</span>&#160;</div>
<div class="line"><a name="l00130"></a><span class="lineno">  130</span>&#160;    <a class="code" href="group__Concept.html#gab685845059e8a2c92743427d9a698c70">Real</a> getPrecursorMassTolerance() <span class="keyword">const</span>;</div>
<div class="line"><a name="l00131"></a><span class="lineno">  131</span>&#160;    <span class="keywordtype">void</span> setPrecursorMassTolerance(<a class="code" href="group__Concept.html#gab685845059e8a2c92743427d9a698c70">Real</a> precursor_mass_tolerance);</div>
<div class="line"><a name="l00132"></a><span class="lineno">  132</span>&#160;</div>
<div class="line"><a name="l00138"></a><span class="lineno">  138</span>&#160;    <a class="code" href="group__Concept.html#gab685845059e8a2c92743427d9a698c70">Real</a> getPeakMassTolerance() <span class="keyword">const</span>;</div>
<div class="line"><a name="l00139"></a><span class="lineno">  139</span>&#160;    <span class="keywordtype">void</span> setPeakMassTolerance(<a class="code" href="group__Concept.html#gab685845059e8a2c92743427d9a698c70">Real</a> peak_mass_tolerance);</div>
<div class="line"><a name="l00140"></a><span class="lineno">  140</span>&#160;</div>
<div class="line"><a name="l00142"></a><span class="lineno">  142</span>&#160;    <a class="code" href="classunsigned_01int.html">UInt</a> getMulticharge() <span class="keyword">const</span>;</div>
<div class="line"><a name="l00143"></a><span class="lineno">  143</span>&#160;    <span class="keywordtype">void</span> setMulticharge(<a class="code" href="classunsigned_01int.html">UInt</a> multicharge);</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_1String.html">String</a> &amp; getInstrument() <span class="keyword">const</span>;</div>
<div class="line"><a name="l00147"></a><span class="lineno">  147</span>&#160;    <span class="keywordtype">void</span> setInstrument(<span class="keyword">const</span> <a class="code" href="classOpenMS_1_1String.html">String</a> &amp; instrument);</div>
<div class="line"><a name="l00148"></a><span class="lineno">  148</span>&#160;</div>
<div class="line"><a name="l00150"></a><span class="lineno">  150</span>&#160;    <a class="code" href="group__Concept.html#ga7cc214a236ad3bb6ad435bdcf5262a3f">Int</a> getTagCount() <span class="keyword">const</span>;</div>
<div class="line"><a name="l00151"></a><span class="lineno">  151</span>&#160;    <span class="keywordtype">void</span> setTagCount(<a class="code" href="group__Concept.html#ga7cc214a236ad3bb6ad435bdcf5262a3f">Int</a> TagCount);</div>
<div class="line"><a name="l00152"></a><span class="lineno">  152</span>&#160;</div>
<div class="line"><a name="l00154"></a><span class="lineno">  154</span>&#160;    <span class="keyword">const</span> <a class="code" href="classOpenMS_1_1Map.html">Map&lt;String, std::vector&lt;String&gt;</a> &gt; &amp; getModifications() <span class="keyword">const</span>;</div>
<div class="line"><a name="l00155"></a><span class="lineno">  155</span>&#160;</div>
<div class="line"><a name="l00156"></a><span class="lineno">  156</span>&#160;<span class="keyword">private</span>:</div>
<div class="line"><a name="l00157"></a><span class="lineno">  157</span>&#160;</div>
<div class="line"><a name="l00158"></a><span class="lineno"><a class="line" href="classOpenMS_1_1InspectInfile.html#af5ec3603e01f5b79524208b9444dec05">  158</a></span>&#160;    <a class="code" href="classOpenMS_1_1String.html">String</a> <a class="code" href="classOpenMS_1_1InspectInfile.html#af5ec3603e01f5b79524208b9444dec05">spectra_</a>;         </div>
<div class="line"><a name="l00159"></a><span class="lineno">  159</span>&#160;</div>
<div class="line"><a name="l00160"></a><span class="lineno"><a class="line" href="classOpenMS_1_1InspectInfile.html#a488bf544f6efc29a3265943c28aba0f2">  160</a></span>&#160;    <a class="code" href="classOpenMS_1_1String.html">String</a> <a class="code" href="classOpenMS_1_1InspectInfile.html#a488bf544f6efc29a3265943c28aba0f2">db_</a>;         </div>
<div class="line"><a name="l00161"></a><span class="lineno">  161</span>&#160;</div>
<div class="line"><a name="l00162"></a><span class="lineno"><a class="line" href="classOpenMS_1_1InspectInfile.html#a5d70f160e4e510deaf20cae966a1d6e5">  162</a></span>&#160;    <a class="code" href="classOpenMS_1_1String.html">String</a> <a class="code" href="classOpenMS_1_1InspectInfile.html#a5d70f160e4e510deaf20cae966a1d6e5">enzyme_</a>;         </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"><a class="line" href="classOpenMS_1_1InspectInfile.html#a1777c8b9ac3b9eea9a1850c51b674921">  164</a></span>&#160;    <a class="code" href="group__Concept.html#ga7cc214a236ad3bb6ad435bdcf5262a3f">Int</a> <a class="code" href="classOpenMS_1_1InspectInfile.html#a1777c8b9ac3b9eea9a1850c51b674921">modifications_per_peptide_</a>;         </div>
<div class="line"><a name="l00165"></a><span class="lineno">  165</span>&#160;</div>
<div class="line"><a name="l00166"></a><span class="lineno"><a class="line" href="classOpenMS_1_1InspectInfile.html#a27e834fe90904ad40038bd90a4eeb159">  166</a></span>&#160;    <a class="code" href="classunsigned_01int.html">UInt</a> <a class="code" href="classOpenMS_1_1InspectInfile.html#a27e834fe90904ad40038bd90a4eeb159">blind_</a>;         </div>
<div class="line"><a name="l00167"></a><span class="lineno">  167</span>&#160;</div>
<div class="line"><a name="l00169"></a><span class="lineno"><a class="line" href="classOpenMS_1_1InspectInfile.html#abcad00882aaa0175ef0feba486e3734b">  169</a></span>&#160;    <a class="code" href="group__Concept.html#gab685845059e8a2c92743427d9a698c70">Real</a> <a class="code" href="classOpenMS_1_1InspectInfile.html#abcad00882aaa0175ef0feba486e3734b">maxptmsize_</a>;         </div>
<div class="line"><a name="l00170"></a><span class="lineno">  170</span>&#160;</div>
<div class="line"><a name="l00171"></a><span class="lineno"><a class="line" href="classOpenMS_1_1InspectInfile.html#a17921ca118ae3d8d972b748147f5ef6b">  171</a></span>&#160;    <a class="code" href="group__Concept.html#gab685845059e8a2c92743427d9a698c70">Real</a> <a class="code" href="classOpenMS_1_1InspectInfile.html#a17921ca118ae3d8d972b748147f5ef6b">precursor_mass_tolerance_</a>;         </div>
<div class="line"><a name="l00172"></a><span class="lineno">  172</span>&#160;</div>
<div class="line"><a name="l00173"></a><span class="lineno"><a class="line" href="classOpenMS_1_1InspectInfile.html#a61cbefb333ea97a322a2d107bc0aa449">  173</a></span>&#160;    <a class="code" href="group__Concept.html#gab685845059e8a2c92743427d9a698c70">Real</a> <a class="code" href="classOpenMS_1_1InspectInfile.html#a61cbefb333ea97a322a2d107bc0aa449">peak_mass_tolerance_</a>;         </div>
<div class="line"><a name="l00174"></a><span class="lineno">  174</span>&#160;</div>
<div class="line"><a name="l00175"></a><span class="lineno"><a class="line" href="classOpenMS_1_1InspectInfile.html#abf2e5d844ee3255b4daa040d8b2d29fb">  175</a></span>&#160;    <a class="code" href="classunsigned_01int.html">UInt</a> <a class="code" href="classOpenMS_1_1InspectInfile.html#abf2e5d844ee3255b4daa040d8b2d29fb">multicharge_</a>;         </div>
<div class="line"><a name="l00176"></a><span class="lineno">  176</span>&#160;</div>
<div class="line"><a name="l00178"></a><span class="lineno"><a class="line" href="classOpenMS_1_1InspectInfile.html#a0a98f2bc76af916a1e5030127497808c">  178</a></span>&#160;    <a class="code" href="classOpenMS_1_1String.html">String</a> <a class="code" href="classOpenMS_1_1InspectInfile.html#a0a98f2bc76af916a1e5030127497808c">instrument_</a>;         </div>
<div class="line"><a name="l00179"></a><span class="lineno">  179</span>&#160;</div>
<div class="line"><a name="l00180"></a><span class="lineno"><a class="line" href="classOpenMS_1_1InspectInfile.html#a5206bb35ff069da4e5f31547c7d12105">  180</a></span>&#160;    <a class="code" href="group__Concept.html#ga7cc214a236ad3bb6ad435bdcf5262a3f">Int</a> <a class="code" href="classOpenMS_1_1InspectInfile.html#a5206bb35ff069da4e5f31547c7d12105">tag_count_</a>;         </div>
<div class="line"><a name="l00181"></a><span class="lineno">  181</span>&#160;</div>
<div class="line"><a name="l00182"></a><span class="lineno"><a class="line" href="classOpenMS_1_1InspectInfile.html#acef62b3efa1ca9e46c0869ffab3120dd">  182</a></span>&#160;    <a class="code" href="classOpenMS_1_1Map.html">Map&lt;String, std::vector&lt;String&gt;</a> &gt; <a class="code" href="classOpenMS_1_1InspectInfile.html#acef62b3efa1ca9e46c0869ffab3120dd">PTMname_residues_mass_type_</a>;        </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;  };</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="comment">// namespace OpenMS</span></div>
<div class="line"><a name="l00187"></a><span class="lineno">  187</span>&#160;</div>
<div class="line"><a name="l00188"></a><span class="lineno">  188</span>&#160;<span class="preprocessor">#endif // OPENMS_FORMAT_INSPECTINFILE_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="group__Concept_html_gab685845059e8a2c92743427d9a698c70"><div class="ttname"><a href="group__Concept.html#gab685845059e8a2c92743427d9a698c70">OpenMS::Real</a></div><div class="ttdeci">float Real</div><div class="ttdoc">Real type. </div><div class="ttdef"><b>Definition:</b> Types.h:109</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_1InspectInfile_html_a488bf544f6efc29a3265943c28aba0f2"><div class="ttname"><a href="classOpenMS_1_1InspectInfile.html#a488bf544f6efc29a3265943c28aba0f2">OpenMS::InspectInfile::db_</a></div><div class="ttdeci">String db_</div><div class="ttdoc">Specifies the name of a database (.trie file) to search. The .trie file contains one or more protein ...</div><div class="ttdef"><b>Definition:</b> InspectInfile.h:160</div></div>
<div class="ttc" id="classOpenMS_1_1InspectInfile_html_af5ec3603e01f5b79524208b9444dec05"><div class="ttname"><a href="classOpenMS_1_1InspectInfile.html#af5ec3603e01f5b79524208b9444dec05">OpenMS::InspectInfile::spectra_</a></div><div class="ttdeci">String spectra_</div><div class="ttdoc">Specifies a spectrum file to search. </div><div class="ttdef"><b>Definition:</b> InspectInfile.h:158</div></div>
<div class="ttc" id="classOpenMS_1_1InspectInfile_html_a27e834fe90904ad40038bd90a4eeb159"><div class="ttname"><a href="classOpenMS_1_1InspectInfile.html#a27e834fe90904ad40038bd90a4eeb159">OpenMS::InspectInfile::blind_</a></div><div class="ttdeci">UInt blind_</div><div class="ttdef"><b>Definition:</b> InspectInfile.h:166</div></div>
<div class="ttc" id="classOpenMS_1_1InspectInfile_html_a1777c8b9ac3b9eea9a1850c51b674921"><div class="ttname"><a href="classOpenMS_1_1InspectInfile.html#a1777c8b9ac3b9eea9a1850c51b674921">OpenMS::InspectInfile::modifications_per_peptide_</a></div><div class="ttdeci">Int modifications_per_peptide_</div><div class="ttdoc">allowed number of modifications per peptide </div><div class="ttdef"><b>Definition:</b> InspectInfile.h:164</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_1InspectInfile_html_acef62b3efa1ca9e46c0869ffab3120dd"><div class="ttname"><a href="classOpenMS_1_1InspectInfile.html#acef62b3efa1ca9e46c0869ffab3120dd">OpenMS::InspectInfile::PTMname_residues_mass_type_</a></div><div class="ttdeci">Map&lt; String, std::vector&lt; String &gt; &gt; PTMname_residues_mass_type_</div><div class="ttdoc">the modification names map to the affected residues, the mass change and the type ...</div><div class="ttdef"><b>Definition:</b> InspectInfile.h:182</div></div>
<div class="ttc" id="classOpenMS_1_1InspectInfile_html_a61cbefb333ea97a322a2d107bc0aa449"><div class="ttname"><a href="classOpenMS_1_1InspectInfile.html#a61cbefb333ea97a322a2d107bc0aa449">OpenMS::InspectInfile::peak_mass_tolerance_</a></div><div class="ttdeci">Real peak_mass_tolerance_</div><div class="ttdoc">How far b and y peaks can be shifted from their expected masses. Default is 0.5. Higher values produc...</div><div class="ttdef"><b>Definition:</b> InspectInfile.h:173</div></div>
<div class="ttc" id="classOpenMS_1_1InspectInfile_html_a5206bb35ff069da4e5f31547c7d12105"><div class="ttname"><a href="classOpenMS_1_1InspectInfile.html#a5206bb35ff069da4e5f31547c7d12105">OpenMS::InspectInfile::tag_count_</a></div><div class="ttdeci">Int tag_count_</div><div class="ttdoc">Number of tags to generate. &amp;lt;0 is not set. </div><div class="ttdef"><b>Definition:</b> InspectInfile.h:180</div></div>
<div class="ttc" id="classOpenMS_1_1InspectInfile_html"><div class="ttname"><a href="classOpenMS_1_1InspectInfile.html">OpenMS::InspectInfile</a></div><div class="ttdoc">Inspect input file adapter. </div><div class="ttdef"><b>Definition:</b> InspectInfile.h:50</div></div>
<div class="ttc" id="classOpenMS_1_1InspectInfile_html_a17921ca118ae3d8d972b748147f5ef6b"><div class="ttname"><a href="classOpenMS_1_1InspectInfile.html#a17921ca118ae3d8d972b748147f5ef6b">OpenMS::InspectInfile::precursor_mass_tolerance_</a></div><div class="ttdeci">Real precursor_mass_tolerance_</div><div class="ttdoc">Specifies the parent mass tolerance, in Daltons. A candidate&amp;#39;s flanking mass can differ from the tag&amp;#39;...</div><div class="ttdef"><b>Definition:</b> InspectInfile.h:171</div></div>
<div class="ttc" id="classOpenMS_1_1InspectInfile_html_a0a98f2bc76af916a1e5030127497808c"><div class="ttname"><a href="classOpenMS_1_1InspectInfile.html#a0a98f2bc76af916a1e5030127497808c">OpenMS::InspectInfile::instrument_</a></div><div class="ttdeci">String instrument_</div><div class="ttdoc">0 - false, 1 - true, 2 - not set </div><div class="ttdef"><b>Definition:</b> InspectInfile.h:178</div></div>
<div class="ttc" id="classOpenMS_1_1InspectInfile_html_a5d70f160e4e510deaf20cae966a1d6e5"><div class="ttname"><a href="classOpenMS_1_1InspectInfile.html#a5d70f160e4e510deaf20cae966a1d6e5">OpenMS::InspectInfile::enzyme_</a></div><div class="ttdeci">String enzyme_</div><div class="ttdoc">Specifies the name of a enzyme. &amp;quot;Trypsin&amp;quot;, &amp;quot;None&amp;quot;, and &amp;quot;Chymotrypsin&amp;quot; are the available values...</div><div class="ttdef"><b>Definition:</b> InspectInfile.h:162</div></div>
<div class="ttc" id="classOpenMS_1_1InspectInfile_html_abcad00882aaa0175ef0feba486e3734b"><div class="ttname"><a href="classOpenMS_1_1InspectInfile.html#abcad00882aaa0175ef0feba486e3734b">OpenMS::InspectInfile::maxptmsize_</a></div><div class="ttdeci">Real maxptmsize_</div><div class="ttdoc">0 - false, 1 - true, 2 - not set </div><div class="ttdef"><b>Definition:</b> InspectInfile.h:169</div></div>
<div class="ttc" id="classOpenMS_1_1InspectInfile_html_abf2e5d844ee3255b4daa040d8b2d29fb"><div class="ttname"><a href="classOpenMS_1_1InspectInfile.html#abf2e5d844ee3255b4daa040d8b2d29fb">OpenMS::InspectInfile::multicharge_</a></div><div class="ttdeci">UInt multicharge_</div><div class="ttdef"><b>Definition:</b> InspectInfile.h:175</div></div>
<div class="ttc" id="group__Concept_html_ga7cc214a236ad3bb6ad435bdcf5262a3f"><div class="ttname"><a href="group__Concept.html#ga7cc214a236ad3bb6ad435bdcf5262a3f">OpenMS::Int</a></div><div class="ttdeci">int Int</div><div class="ttdoc">Signed integer type. </div><div class="ttdef"><b>Definition:</b> Types.h:100</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="String_8h_html"><div class="ttname"><a href="String_8h.html">String.h</a></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 11:19:15 using doxygen 1.8.5</font></TD>
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