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<a href="SimpleExtender_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: Clemens Groepl $</span></div>
<div class="line"><a name="l00032"></a><span class="lineno"> 32</span> <span class="comment">// $Authors: $</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_TRANSFORMATIONS_FEATUREFINDER_SIMPLEEXTENDER_H</span></div>
<div class="line"><a name="l00036"></a><span class="lineno"> 36</span> <span class="preprocessor"></span><span class="preprocessor">#define OPENMS_TRANSFORMATIONS_FEATUREFINDER_SIMPLEEXTENDER_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="FeaFiModule_8h.html">OpenMS/TRANSFORMATIONS/FEATUREFINDER/FeaFiModule.h</a>></span></div>
<div class="line"><a name="l00039"></a><span class="lineno"> 39</span> <span class="preprocessor">#include <<a class="code" href="AveragePosition_8h.html">OpenMS/MATH/STATISTICS/AveragePosition.h</a>></span></div>
<div class="line"><a name="l00040"></a><span class="lineno"> 40</span> </div>
<div class="line"><a name="l00041"></a><span class="lineno"> 41</span> <span class="preprocessor">#include <queue></span></div>
<div class="line"><a name="l00042"></a><span class="lineno"> 42</span> <span class="preprocessor">#include <iostream></span></div>
<div class="line"><a name="l00043"></a><span class="lineno"> 43</span> <span class="preprocessor">#include <fstream></span></div>
<div class="line"><a name="l00044"></a><span class="lineno"> 44</span> </div>
<div class="line"><a name="l00045"></a><span class="lineno"> 45</span> <span class="keyword">namespace </span>OpenMS</div>
<div class="line"><a name="l00046"></a><span class="lineno"> 46</span> {</div>
<div class="line"><a name="l00047"></a><span class="lineno"> 47</span> </div>
<div class="line"><a name="l00078"></a><span class="lineno"> 78</span>  <span class="keyword">template</span> <<span class="keyword">class</span> PeakType, <span class="keyword">class</span> FeatureType></div>
<div class="line"><a name="l00079"></a><span class="lineno"><a class="line" href="classOpenMS_1_1SimpleExtender.html"> 79</a></span>  <span class="keyword">class </span><a class="code" href="classOpenMS_1_1SimpleExtender.html">SimpleExtender</a> :</div>
<div class="line"><a name="l00080"></a><span class="lineno"> 80</span>  <span class="keyword">public</span> <a class="code" href="classOpenMS_1_1FeaFiModule.html">FeaFiModule</a><PeakType, FeatureType>,</div>
<div class="line"><a name="l00081"></a><span class="lineno"> 81</span>  <span class="keyword">public</span> <a class="code" href="structOpenMS_1_1FeatureFinderDefs.html">FeatureFinderDefs</a></div>
<div class="line"><a name="l00082"></a><span class="lineno"> 82</span>  {</div>
<div class="line"><a name="l00083"></a><span class="lineno"> 83</span> <span class="keyword">public</span>:</div>
<div class="line"><a name="l00084"></a><span class="lineno"><a class="line" href="classOpenMS_1_1SimpleExtender.html#a79ea228cdc8755284e64dd9f625170a3"> 84</a></span>  <span class="keyword">typedef</span> <a class="code" href="classOpenMS_1_1FeaFiModule.html">FeaFiModule<PeakType, FeatureType></a> <a class="code" href="classOpenMS_1_1SimpleExtender.html#a79ea228cdc8755284e64dd9f625170a3">Base</a>;</div>
<div class="line"><a name="l00085"></a><span class="lineno"> 85</span> </div>
<div class="line"><a name="l00087"></a><span class="lineno"><a class="line" href="classOpenMS_1_1SimpleExtender.html#a4e4e002f0161bec9b732b12e2d0775e5"> 87</a></span>  <span class="keyword">typedef</span> <span class="keyword">typename</span> <a class="code" href="classOpenMS_1_1FeaFiModule.html#a221361082f641c3fccc58e9bc66aeee1">Base::IntensityType</a> <a class="code" href="classOpenMS_1_1SimpleExtender.html#a4e4e002f0161bec9b732b12e2d0775e5">IntensityType</a>;</div>
<div class="line"><a name="l00089"></a><span class="lineno"><a class="line" href="classOpenMS_1_1SimpleExtender.html#a82f6a21fbf0dcd96bd770645a4c1f5dc"> 89</a></span>  <span class="keyword">typedef</span> <span class="keyword">typename</span> <a class="code" href="classdouble.html">Base::CoordinateType</a> <a class="code" href="classOpenMS_1_1SimpleExtender.html#a82f6a21fbf0dcd96bd770645a4c1f5dc">CoordinateType</a>;</div>
<div class="line"><a name="l00091"></a><span class="lineno"><a class="line" href="classOpenMS_1_1SimpleExtender.html#a148f3853784fb91146ee0a2c97fbe152"> 91</a></span>  <span class="keyword">typedef</span> <a class="code" href="classdouble.html">DoubleReal</a> <a class="code" href="classOpenMS_1_1SimpleExtender.html#a148f3853784fb91146ee0a2c97fbe152">ProbabilityType</a>;</div>
<div class="line"><a name="l00092"></a><span class="lineno"> 92</span> </div>
<div class="line"><a name="l00094"></a><span class="lineno"><a class="line" href="classOpenMS_1_1SimpleExtender.html#a5d4e59b887e694af404c49d0a684fd97"> 94</a></span>  <a class="code" href="classOpenMS_1_1SimpleExtender.html#a5d4e59b887e694af404c49d0a684fd97">SimpleExtender</a>(<span class="keyword">const</span> <a class="code" href="classOpenMS_1_1MSExperiment.html">MSExperiment<PeakType></a> * map, <a class="code" href="classOpenMS_1_1FeatureMap.html">FeatureMap<FeatureType></a> * features, <a class="code" href="classOpenMS_1_1FeatureFinder.html">FeatureFinder</a> * ff) :</div>
<div class="line"><a name="l00095"></a><span class="lineno"> 95</span>  <a class="code" href="classOpenMS_1_1FeaFiModule.html">Base</a>(map, features, ff),</div>
<div class="line"><a name="l00096"></a><span class="lineno"> 96</span>  <a class="code" href="classOpenMS_1_1SimpleExtender.html#a3ff45f6c20e60f681eb4a4057046365a">last_pos_extracted_</a>()</div>
<div class="line"><a name="l00097"></a><span class="lineno"> 97</span>  {</div>
<div class="line"><a name="l00098"></a><span class="lineno"> 98</span>  this-><a class="code" href="classOpenMS_1_1DefaultParamHandler.html#a77d37f2e1c12e8bd33ea0e660a89e927">setName</a>(<span class="stringliteral">"SimpleExtender"</span>);</div>
<div class="line"><a name="l00099"></a><span class="lineno"> 99</span> </div>
<div class="line"><a name="l00100"></a><span class="lineno"> 100</span>  this-><a class="code" href="classOpenMS_1_1DefaultParamHandler.html#a761b1937850c141d0c6fff0e4d633a04">defaults_</a>.<a class="code" href="classOpenMS_1_1Param.html#a432099944e11263aa20aaf8ea1389790">setValue</a>(<span class="stringliteral">"dist_mz_up"</span>, 6.0, <span class="stringliteral">"Maximum high m/z distance of peak in the region/boundary from the seed."</span>);</div>
<div class="line"><a name="l00101"></a><span class="lineno"> 101</span>  this-><a class="code" href="classOpenMS_1_1DefaultParamHandler.html#a761b1937850c141d0c6fff0e4d633a04">defaults_</a>.<a class="code" href="classOpenMS_1_1Param.html#aadc7a8536eb15f8c6fa05eefca0e25be">setMinFloat</a>(<span class="stringliteral">"dist_mz_up"</span>, 0.0);</div>
<div class="line"><a name="l00102"></a><span class="lineno"> 102</span>  this-><a class="code" href="classOpenMS_1_1DefaultParamHandler.html#a761b1937850c141d0c6fff0e4d633a04">defaults_</a>.<a class="code" href="classOpenMS_1_1Param.html#a432099944e11263aa20aaf8ea1389790">setValue</a>(<span class="stringliteral">"dist_mz_down"</span>, 2.0, <span class="stringliteral">"Maximum low m/z distance of peak in the region/boundary from the seed."</span>);</div>
<div class="line"><a name="l00103"></a><span class="lineno"> 103</span>  this-><a class="code" href="classOpenMS_1_1DefaultParamHandler.html#a761b1937850c141d0c6fff0e4d633a04">defaults_</a>.<a class="code" href="classOpenMS_1_1Param.html#aadc7a8536eb15f8c6fa05eefca0e25be">setMinFloat</a>(<span class="stringliteral">"dist_mz_down"</span>, 0.0);</div>
<div class="line"><a name="l00104"></a><span class="lineno"> 104</span>  this-><a class="code" href="classOpenMS_1_1DefaultParamHandler.html#a761b1937850c141d0c6fff0e4d633a04">defaults_</a>.<a class="code" href="classOpenMS_1_1Param.html#a432099944e11263aa20aaf8ea1389790">setValue</a>(<span class="stringliteral">"dist_rt_up"</span>, 5.0, <span class="stringliteral">"Maximum high RT distance of peak in the region/boundary from the seed."</span>);</div>
<div class="line"><a name="l00105"></a><span class="lineno"> 105</span>  this-><a class="code" href="classOpenMS_1_1DefaultParamHandler.html#a761b1937850c141d0c6fff0e4d633a04">defaults_</a>.<a class="code" href="classOpenMS_1_1Param.html#aadc7a8536eb15f8c6fa05eefca0e25be">setMinFloat</a>(<span class="stringliteral">"dist_rt_up"</span>, 0.0);</div>
<div class="line"><a name="l00106"></a><span class="lineno"> 106</span>  this-><a class="code" href="classOpenMS_1_1DefaultParamHandler.html#a761b1937850c141d0c6fff0e4d633a04">defaults_</a>.<a class="code" href="classOpenMS_1_1Param.html#a432099944e11263aa20aaf8ea1389790">setValue</a>(<span class="stringliteral">"dist_rt_down"</span>, 5.0, <span class="stringliteral">"Maximum low RT distance of peak in the region/boundary from the seed."</span>);</div>
<div class="line"><a name="l00107"></a><span class="lineno"> 107</span>  this-><a class="code" href="classOpenMS_1_1DefaultParamHandler.html#a761b1937850c141d0c6fff0e4d633a04">defaults_</a>.<a class="code" href="classOpenMS_1_1Param.html#aadc7a8536eb15f8c6fa05eefca0e25be">setMinFloat</a>(<span class="stringliteral">"dist_rt_down"</span>, 0.0);</div>
<div class="line"><a name="l00108"></a><span class="lineno"> 108</span> </div>
<div class="line"><a name="l00109"></a><span class="lineno"> 109</span>  <span class="comment">// priority check is per default switched off</span></div>
<div class="line"><a name="l00110"></a><span class="lineno"> 110</span>  <span class="comment">// these values were used for the Myoglobin quantification project</span></div>
<div class="line"><a name="l00111"></a><span class="lineno"> 111</span>  <span class="comment">// DON'T REMOVE THIS</span></div>
<div class="line"><a name="l00112"></a><span class="lineno"> 112</span>  this-><a class="code" href="classOpenMS_1_1DefaultParamHandler.html#a761b1937850c141d0c6fff0e4d633a04">defaults_</a>.<a class="code" href="classOpenMS_1_1Param.html#a432099944e11263aa20aaf8ea1389790">setValue</a>(<span class="stringliteral">"priority_thr"</span>, -0.1, <span class="stringliteral">"Minimum priority for data points to be included into the boundary of the feature (default 0.0). The priority of a data point is a function of its intensity and its distance to the last point included into the feature region. Setting this threshold to zero or a very small value is usually a good idea."</span>, <a class="code" href="classOpenMS_1_1StringList.html#a5f86b59b547048311dd50df5fb6d3bb5">StringList::create</a>(<span class="stringliteral">"advanced"</span>));</div>
<div class="line"><a name="l00113"></a><span class="lineno"> 113</span> </div>
<div class="line"><a name="l00114"></a><span class="lineno"> 114</span>  this-><a class="code" href="classOpenMS_1_1DefaultParamHandler.html#a761b1937850c141d0c6fff0e4d633a04">defaults_</a>.<a class="code" href="classOpenMS_1_1Param.html#a432099944e11263aa20aaf8ea1389790">setValue</a>(<span class="stringliteral">"intensity_factor"</span>, 0.03, <span class="stringliteral">"Influences for intensity (ion count) threshold in the feature extension. We include only raw data points into this region if their intensity is larger than [intensity_factor * (intensity of the seed)]."</span>);</div>
<div class="line"><a name="l00115"></a><span class="lineno"> 115</span>  this-><a class="code" href="classOpenMS_1_1DefaultParamHandler.html#a761b1937850c141d0c6fff0e4d633a04">defaults_</a>.<a class="code" href="classOpenMS_1_1Param.html#aadc7a8536eb15f8c6fa05eefca0e25be">setMinFloat</a>(<span class="stringliteral">"intensity_factor"</span>, 0.0);</div>
<div class="line"><a name="l00116"></a><span class="lineno"> 116</span>  this-><a class="code" href="classOpenMS_1_1DefaultParamHandler.html#a761b1937850c141d0c6fff0e4d633a04">defaults_</a>.<a class="code" href="classOpenMS_1_1Param.html#a6b40506fffbae670045d065c354bb9b8">setMaxFloat</a>(<span class="stringliteral">"intensity_factor"</span>, 1.0);</div>
<div class="line"><a name="l00117"></a><span class="lineno"> 117</span> </div>
<div class="line"><a name="l00118"></a><span class="lineno"> 118</span>  this-><a class="code" href="classOpenMS_1_1DefaultParamHandler.html#a2802c591e6d7fd3fd9cc35f5e875d0ba">defaultsToParam_</a>();</div>
<div class="line"><a name="l00119"></a><span class="lineno"> 119</span>  }</div>
<div class="line"><a name="l00120"></a><span class="lineno"> 120</span> </div>
<div class="line"><a name="l00122"></a><span class="lineno"><a class="line" href="classOpenMS_1_1SimpleExtender.html#a420c696605c1efb3452c768d665f6313"> 122</a></span>  <span class="keyword">virtual</span> <a class="code" href="classOpenMS_1_1SimpleExtender.html#a420c696605c1efb3452c768d665f6313">~SimpleExtender</a>()</div>
<div class="line"><a name="l00123"></a><span class="lineno"> 123</span>  {</div>
<div class="line"><a name="l00124"></a><span class="lineno"> 124</span>  }</div>
<div class="line"><a name="l00125"></a><span class="lineno"> 125</span> </div>
<div class="line"><a name="l00127"></a><span class="lineno"><a class="line" href="classOpenMS_1_1SimpleExtender.html#a1139a06b7cf1886d1977e5afcfddfea6"> 127</a></span>  <span class="keywordtype">void</span> <a class="code" href="classOpenMS_1_1SimpleExtender.html#a1139a06b7cf1886d1977e5afcfddfea6">extend</a>(<span class="keyword">const</span> <a class="code" href="structOpenMS_1_1IsotopeCluster_1_1ChargedIndexSet.html">ChargedIndexSet</a> & seed_region, <a class="code" href="structOpenMS_1_1IsotopeCluster_1_1ChargedIndexSet.html">ChargedIndexSet</a> & result_region)</div>
<div class="line"><a name="l00128"></a><span class="lineno"> 128</span>  {</div>
<div class="line"><a name="l00129"></a><span class="lineno"> 129</span>  <span class="comment">// empty region and boundary datastructures</span></div>
<div class="line"><a name="l00130"></a><span class="lineno"> 130</span>  result_region.clear();</div>
<div class="line"><a name="l00131"></a><span class="lineno"> 131</span>  <a class="code" href="classOpenMS_1_1SimpleExtender.html#a9d351425833907a2744bbfa08ef60c3e">priorities_</a>.clear();</div>
<div class="line"><a name="l00132"></a><span class="lineno"> 132</span>  <a class="code" href="classOpenMS_1_1SimpleExtender.html#a5e88ec4351e6e6835be11ef6fd88a800">running_avg_</a>.<a class="code" href="classOpenMS_1_1Math_1_1AveragePosition.html#ac8bb3912a3ce86b15842e79d0b421204">clear</a>();</div>
<div class="line"><a name="l00133"></a><span class="lineno"> 133</span>  <a class="code" href="classOpenMS_1_1SimpleExtender.html#ab858156ff4f42ae4048114b536c4d6ca">boundary_</a> = std::priority_queue<IndexWithPriority, std::vector<IndexWithPriority>, <span class="keyword">typename</span> <a class="code" href="structOpenMS_1_1SimpleExtender_1_1IndexWithPriority_1_1PriorityLess.html">IndexWithPriority::PriorityLess</a>>();</div>
<div class="line"><a name="l00134"></a><span class="lineno"> 134</span> </div>
<div class="line"><a name="l00135"></a><span class="lineno"> 135</span> <span class="preprocessor">#ifdef DEBUG_FEATUREFINDER</span></div>
<div class="line"><a name="l00136"></a><span class="lineno"> 136</span> <span class="preprocessor"></span> std::vector<IndexPair> debug_vector;</div>
<div class="line"><a name="l00137"></a><span class="lineno"> 137</span> <span class="preprocessor">#endif</span></div>
<div class="line"><a name="l00138"></a><span class="lineno"> 138</span> <span class="preprocessor"></span> <span class="comment">// find maximum of region (seed)</span></div>
<div class="line"><a name="l00139"></a><span class="lineno"> 139</span>  <a class="code" href="classdouble.html">CoordinateType</a> max_intensity = 0.0;</div>
<div class="line"><a name="l00140"></a><span class="lineno"> 140</span>  <a class="code" href="structOpenMS_1_1FeatureFinderDefs.html#aaee0bfd850887fdc58115cead9e9b8b9">IndexPair</a> seed;</div>
<div class="line"><a name="l00141"></a><span class="lineno"> 141</span> </div>
<div class="line"><a name="l00142"></a><span class="lineno"> 142</span>  <span class="keywordflow">for</span> (IndexSet::const_iterator citer = seed_region.begin(); citer != seed_region.end(); ++citer)</div>
<div class="line"><a name="l00143"></a><span class="lineno"> 143</span>  {</div>
<div class="line"><a name="l00144"></a><span class="lineno"> 144</span>  <span class="keywordflow">if</span> (this-><a class="code" href="classOpenMS_1_1FeaFiModule.html#a4698fa90bfbdd5729e0e25c62345ff0d">getPeakIntensity</a>(*citer) > max_intensity)</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>  seed = *citer;</div>
<div class="line"><a name="l00147"></a><span class="lineno"> 147</span>  max_intensity = this-><a class="code" href="classOpenMS_1_1FeaFiModule.html#a4698fa90bfbdd5729e0e25c62345ff0d">getPeakIntensity</a>(seed);</div>
<div class="line"><a name="l00148"></a><span class="lineno"> 148</span>  }</div>
<div class="line"><a name="l00149"></a><span class="lineno"> 149</span>  }</div>
<div class="line"><a name="l00150"></a><span class="lineno"> 150</span> </div>
<div class="line"><a name="l00151"></a><span class="lineno"> 151</span>  <span class="comment">// remember last extracted point (in this case the seed !)</span></div>
<div class="line"><a name="l00152"></a><span class="lineno"> 152</span>  <a class="code" href="classOpenMS_1_1SimpleExtender.html#a3ff45f6c20e60f681eb4a4057046365a">last_pos_extracted_</a>[<a class="code" href="classOpenMS_1_1Peak2D.html#ac2d92631c8f762c7e9afe43f11e1f018af388fcb6d444ef59841ef549ca6ee0da">Peak2D::RT</a>] = this-><a class="code" href="classOpenMS_1_1FeaFiModule.html#a8e5564d7b686645a7d7d6f5aed8cd494">getPeakRt</a>(seed);</div>
<div class="line"><a name="l00153"></a><span class="lineno"> 153</span>  <a class="code" href="classOpenMS_1_1SimpleExtender.html#a3ff45f6c20e60f681eb4a4057046365a">last_pos_extracted_</a>[<a class="code" href="classOpenMS_1_1Peak2D.html#ac2d92631c8f762c7e9afe43f11e1f018a35008b046ec2687e53152082281d0867">Peak2D::MZ</a>] = this-><a class="code" href="classOpenMS_1_1FeaFiModule.html#a606049d47faacd506705556d333849a2">getPeakMz</a>(seed);</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">// Add peaks received from seeder directly to boundary</span></div>
<div class="line"><a name="l00156"></a><span class="lineno"> 156</span>  <span class="keywordflow">for</span> (IndexSet::const_iterator citer = seed_region.begin(); citer != seed_region.end(); ++citer)</div>
<div class="line"><a name="l00157"></a><span class="lineno"> 157</span>  {</div>
<div class="line"><a name="l00158"></a><span class="lineno"> 158</span>  <a class="code" href="classdouble.html">ProbabilityType</a> priority = <a class="code" href="classOpenMS_1_1SimpleExtender.html#af7842efcd3ecab40cf021f5cae359dbe">computePeakPriority_</a>(*citer);</div>
<div class="line"><a name="l00159"></a><span class="lineno"> 159</span>  <a class="code" href="classOpenMS_1_1SimpleExtender.html#a9d351425833907a2744bbfa08ef60c3e">priorities_</a>[*citer] = priority;</div>
<div class="line"><a name="l00160"></a><span class="lineno"> 160</span>  <a class="code" href="classOpenMS_1_1SimpleExtender.html#ab858156ff4f42ae4048114b536c4d6ca">boundary_</a>.push(<a class="code" href="structOpenMS_1_1SimpleExtender_1_1IndexWithPriority.html">IndexWithPriority</a>(*citer, priority));</div>
<div class="line"><a name="l00161"></a><span class="lineno"> 161</span>  }</div>
<div class="line"><a name="l00162"></a><span class="lineno"> 162</span>  <span class="comment">// pass on charge information</span></div>
<div class="line"><a name="l00163"></a><span class="lineno"> 163</span>  result_region.<a class="code" href="structOpenMS_1_1IsotopeCluster_1_1ChargedIndexSet.html#a8253a7962ca1c79b71e6af96589b7720">charge</a> = seed_region.<a class="code" href="structOpenMS_1_1IsotopeCluster_1_1ChargedIndexSet.html#a8253a7962ca1c79b71e6af96589b7720">charge</a>;</div>
<div class="line"><a name="l00164"></a><span class="lineno"> 164</span> </div>
<div class="line"><a name="l00165"></a><span class="lineno"> 165</span>  <span class="comment">// re-compute intensity threshold</span></div>
<div class="line"><a name="l00166"></a><span class="lineno"> 166</span>  <a class="code" href="classOpenMS_1_1SimpleExtender.html#a889c3e7e8b35115eea733b1204872d86">intensity_threshold_</a> = (<a class="code" href="group__Concept.html#gace75bfb1aba684e874dffee13738bd15">DoubleReal</a>)(this-><a class="code" href="classOpenMS_1_1DefaultParamHandler.html#a28c73e623c63a4fe3bfceb1ae8274f39">param_</a>).getValue(<span class="stringliteral">"intensity_factor"</span>) * this-><a class="code" href="classOpenMS_1_1FeaFiModule.html#a4698fa90bfbdd5729e0e25c62345ff0d">getPeakIntensity</a>(seed);</div>
<div class="line"><a name="l00167"></a><span class="lineno"> 167</span> </div>
<div class="line"><a name="l00168"></a><span class="lineno"> 168</span> <span class="preprocessor">#ifdef DEBUG_FEATUREFINDER</span></div>
<div class="line"><a name="l00169"></a><span class="lineno"> 169</span> <span class="preprocessor"></span> std::cout << <span class="stringliteral">"\n"</span>;</div>
<div class="line"><a name="l00170"></a><span class="lineno"> 170</span>  std::cout << <span class="stringliteral">"Extending from "</span> << this-><a class="code" href="classOpenMS_1_1FeaFiModule.html#a8e5564d7b686645a7d7d6f5aed8cd494">getPeakRt</a>(seed) << <span class="stringliteral">"/"</span> << this-><a class="code" href="classOpenMS_1_1FeaFiModule.html#a606049d47faacd506705556d333849a2">getPeakMz</a>(seed) << std::endl;</div>
<div class="line"><a name="l00171"></a><span class="lineno"> 171</span>  std::cout << <span class="stringliteral">"Intensity of seed "</span> << this-><a class="code" href="classOpenMS_1_1FeaFiModule.html#a4698fa90bfbdd5729e0e25c62345ff0d">getPeakIntensity</a>(seed);</div>
<div class="line"><a name="l00172"></a><span class="lineno"> 172</span>  std::cout << <span class="stringliteral">" ("</span> << seed.first << <span class="stringliteral">"/"</span> << seed.second << <span class="stringliteral">")"</span> << std::endl;</div>
<div class="line"><a name="l00173"></a><span class="lineno"> 173</span>  std::cout << <span class="stringliteral">"Intensity_threshold: "</span> << <a class="code" href="classOpenMS_1_1SimpleExtender.html#a889c3e7e8b35115eea733b1204872d86">intensity_threshold_</a> << std::endl;</div>
<div class="line"><a name="l00174"></a><span class="lineno"> 174</span> <span class="preprocessor">#endif</span></div>
<div class="line"><a name="l00175"></a><span class="lineno"> 175</span> <span class="preprocessor"></span></div>
<div class="line"><a name="l00176"></a><span class="lineno"> 176</span>  <span class="keywordflow">while</span> (!<a class="code" href="classOpenMS_1_1SimpleExtender.html#ab858156ff4f42ae4048114b536c4d6ca">boundary_</a>.empty())</div>
<div class="line"><a name="l00177"></a><span class="lineno"> 177</span>  {</div>
<div class="line"><a name="l00178"></a><span class="lineno"> 178</span>  <span class="comment">// remove peak with highest priority</span></div>
<div class="line"><a name="l00179"></a><span class="lineno"> 179</span>  <span class="keyword">const</span> <a class="code" href="structOpenMS_1_1FeatureFinderDefs.html#aaee0bfd850887fdc58115cead9e9b8b9">IndexPair</a> current_index = <a class="code" href="classOpenMS_1_1SimpleExtender.html#ab858156ff4f42ae4048114b536c4d6ca">boundary_</a>.top().index;</div>
<div class="line"><a name="l00180"></a><span class="lineno"> 180</span>  <a class="code" href="classOpenMS_1_1SimpleExtender.html#ab858156ff4f42ae4048114b536c4d6ca">boundary_</a>.pop();</div>
<div class="line"><a name="l00181"></a><span class="lineno"> 181</span> </div>
<div class="line"><a name="l00182"></a><span class="lineno"> 182</span>  <span class="comment">// check for corrupt index</span></div>
<div class="line"><a name="l00183"></a><span class="lineno"> 183</span>  <a class="code" href="group__Conditions.html#ga45a74ea28109e7e1ed992fbd2ee97778">OPENMS_PRECONDITION</a>(current_index.first < (*this->map_).size(), <span class="stringliteral">"Scan index outside of map!"</span>);</div>
<div class="line"><a name="l00184"></a><span class="lineno"> 184</span>  <a class="code" href="group__Conditions.html#ga45a74ea28109e7e1ed992fbd2ee97778">OPENMS_PRECONDITION</a>(current_index.second < (*this->map_)[current_index.first].size(), <span class="stringliteral">"Peak index outside of scan!"</span>);</div>
<div class="line"><a name="l00185"></a><span class="lineno"> 185</span> </div>
<div class="line"><a name="l00186"></a><span class="lineno"> 186</span>  <span class="comment">// remember last extracted peak</span></div>
<div class="line"><a name="l00187"></a><span class="lineno"> 187</span>  <a class="code" href="classOpenMS_1_1SimpleExtender.html#a3ff45f6c20e60f681eb4a4057046365a">last_pos_extracted_</a>[<a class="code" href="classOpenMS_1_1Peak2D.html#ac2d92631c8f762c7e9afe43f11e1f018af388fcb6d444ef59841ef549ca6ee0da">Peak2D::RT</a>] = this-><a class="code" href="classOpenMS_1_1FeaFiModule.html#a8e5564d7b686645a7d7d6f5aed8cd494">getPeakRt</a>(current_index);</div>
<div class="line"><a name="l00188"></a><span class="lineno"> 188</span>  last_pos_extracted_[<a class="code" href="classOpenMS_1_1Peak2D.html#ac2d92631c8f762c7e9afe43f11e1f018a35008b046ec2687e53152082281d0867">Peak2D::MZ</a>] = this-><a class="code" href="classOpenMS_1_1FeaFiModule.html#a606049d47faacd506705556d333849a2">getPeakMz</a>(current_index);</div>
<div class="line"><a name="l00189"></a><span class="lineno"> 189</span> </div>
<div class="line"><a name="l00190"></a><span class="lineno"> 190</span>  <span class="comment">// Now we explore the neighbourhood of the current peak. Points in this area are included</span></div>
<div class="line"><a name="l00191"></a><span class="lineno"> 191</span>  <span class="comment">// into the boundary if their intensity is not too low and they are not too</span></div>
<div class="line"><a name="l00192"></a><span class="lineno"> 192</span>  <span class="comment">// far away from the seed.</span></div>
<div class="line"><a name="l00193"></a><span class="lineno"> 193</span>  <span class="comment">// Add position to the current average of positions weighted by intensity</span></div>
<div class="line"><a name="l00194"></a><span class="lineno"> 194</span>  <a class="code" href="classOpenMS_1_1SimpleExtender.html#a5e88ec4351e6e6835be11ef6fd88a800">running_avg_</a>.<a class="code" href="classOpenMS_1_1Math_1_1AveragePosition.html#aab83fef12a65ca4880219fc70de3aab5">add</a>(last_pos_extracted_, this-><a class="code" href="classOpenMS_1_1FeaFiModule.html#a4698fa90bfbdd5729e0e25c62345ff0d">getPeakIntensity</a>(current_index));</div>
<div class="line"><a name="l00195"></a><span class="lineno"> 195</span> </div>
<div class="line"><a name="l00196"></a><span class="lineno"> 196</span>  <span class="comment">// explore neighbourhood of current peak</span></div>
<div class="line"><a name="l00197"></a><span class="lineno"> 197</span>  <a class="code" href="classOpenMS_1_1SimpleExtender.html#a36b5d54b1a3a55b7cf46576fd849c299">moveMzUp_</a>(current_index);</div>
<div class="line"><a name="l00198"></a><span class="lineno"> 198</span>  <a class="code" href="classOpenMS_1_1SimpleExtender.html#a9c6a1a832b915ac89376cec9dbf009b7">moveMzDown_</a>(current_index);</div>
<div class="line"><a name="l00199"></a><span class="lineno"> 199</span>  <a class="code" href="classOpenMS_1_1SimpleExtender.html#af79f8c231da6a9d674c28941d313d315">moveRtUp_</a>(current_index);</div>
<div class="line"><a name="l00200"></a><span class="lineno"> 200</span>  <a class="code" href="classOpenMS_1_1SimpleExtender.html#a7f4bbff96a2ea0e3d46711022de26b29">moveRtDown_</a>(current_index);</div>
<div class="line"><a name="l00201"></a><span class="lineno"> 201</span> </div>
<div class="line"><a name="l00202"></a><span class="lineno"> 202</span>  <span class="comment">// set peak flags and add to boundary</span></div>
<div class="line"><a name="l00203"></a><span class="lineno"> 203</span>  this-><a class="code" href="classOpenMS_1_1FeaFiModule.html#adf68cb378c76b322b2cc4dbb2c145a3e">ff_</a>-><a class="code" href="classOpenMS_1_1FeatureFinder.html#a91adbb58dfeb79d2b5d78c1047f406c9">getPeakFlag</a>(current_index) = <a class="code" href="structOpenMS_1_1FeatureFinderDefs.html#a3f3de3e0d751949b8d0b60ffb302944aa1e780c62cb3fd2edcac39f739bbe6f6c">USED</a>;</div>
<div class="line"><a name="l00204"></a><span class="lineno"> 204</span> <span class="preprocessor">#ifdef DEBUG_FEATUREFINDER</span></div>
<div class="line"><a name="l00205"></a><span class="lineno"> 205</span> <span class="preprocessor"></span> debug_vector.push_back(current_index);</div>
<div class="line"><a name="l00206"></a><span class="lineno"> 206</span> <span class="preprocessor">#endif</span></div>
<div class="line"><a name="l00207"></a><span class="lineno"> 207</span> <span class="preprocessor"></span> result_region.insert(current_index);</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>  } <span class="comment">// end of while ( !boundary_.empty() )</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="preprocessor">#ifdef DEBUG_FEATUREFINDER</span></div>
<div class="line"><a name="l00212"></a><span class="lineno"> 212</span> <span class="preprocessor"></span> std::cout << <span class="stringliteral">"Feature region size: "</span> << result_region.size() << std::endl;</div>
<div class="line"><a name="l00213"></a><span class="lineno"> 213</span> <span class="preprocessor">#endif</span></div>
<div class="line"><a name="l00214"></a><span class="lineno"> 214</span> <span class="preprocessor"></span></div>
<div class="line"><a name="l00215"></a><span class="lineno"> 215</span> <span class="preprocessor">#ifdef DEBUG_FEATUREFINDER</span></div>
<div class="line"><a name="l00216"></a><span class="lineno"> 216</span> <span class="preprocessor"></span> <span class="keyword">static</span> <a class="code" href="classunsigned_01int.html">UInt</a> number = 1;</div>
<div class="line"><a name="l00217"></a><span class="lineno"> 217</span>  <a class="code" href="classOpenMS_1_1SimpleExtender.html#a0d642765897747c34debb18095cde304">writeDebugFile_</a>(debug_vector, number++);</div>
<div class="line"><a name="l00218"></a><span class="lineno"> 218</span>  debug_vector.clear();</div>
<div class="line"><a name="l00219"></a><span class="lineno"> 219</span> <span class="preprocessor">#endif</span></div>
<div class="line"><a name="l00220"></a><span class="lineno"> 220</span> <span class="preprocessor"></span></div>
<div class="line"><a name="l00221"></a><span class="lineno"> 221</span>  <span class="keywordflow">return</span>;</div>
<div class="line"><a name="l00222"></a><span class="lineno"> 222</span>  } <span class="comment">// end of extend</span></div>
<div class="line"><a name="l00223"></a><span class="lineno"> 223</span> </div>
<div class="line"><a name="l00236"></a><span class="lineno"><a class="line" href="structOpenMS_1_1SimpleExtender_1_1IndexWithPriority.html"> 236</a></span>  <span class="keyword">struct </span><a class="code" href="structOpenMS_1_1SimpleExtender_1_1IndexWithPriority.html">IndexWithPriority</a></div>
<div class="line"><a name="l00237"></a><span class="lineno"> 237</span>  {</div>
<div class="line"><a name="l00238"></a><span class="lineno"><a class="line" href="structOpenMS_1_1SimpleExtender_1_1IndexWithPriority.html#afd86213ee8bc3472479345914cffd9de"> 238</a></span>  <a class="code" href="structOpenMS_1_1SimpleExtender_1_1IndexWithPriority.html#afd86213ee8bc3472479345914cffd9de">IndexWithPriority</a>(<span class="keyword">const</span> <a class="code" href="structOpenMS_1_1FeatureFinderDefs.html#aaee0bfd850887fdc58115cead9e9b8b9">FeatureFinderDefs::IndexPair</a> & i, <a class="code" href="classdouble.html">DoubleReal</a> p) :</div>
<div class="line"><a name="l00239"></a><span class="lineno"> 239</span>  <a class="code" href="structOpenMS_1_1SimpleExtender_1_1IndexWithPriority.html#ab357bcae242be91471c4c45149871dc9">index</a>(i),</div>
<div class="line"><a name="l00240"></a><span class="lineno"> 240</span>  <a class="code" href="structOpenMS_1_1SimpleExtender_1_1IndexWithPriority.html#ae138c9d8b5236dce0ba0250360815ee4">priority</a>(p)</div>
<div class="line"><a name="l00241"></a><span class="lineno"> 241</span>  {</div>
<div class="line"><a name="l00242"></a><span class="lineno"> 242</span>  }</div>
<div class="line"><a name="l00243"></a><span class="lineno"> 243</span> </div>
<div class="line"><a name="l00244"></a><span class="lineno"><a class="line" href="structOpenMS_1_1SimpleExtender_1_1IndexWithPriority.html#ab357bcae242be91471c4c45149871dc9"> 244</a></span>  <a class="code" href="structOpenMS_1_1FeatureFinderDefs.html#aaee0bfd850887fdc58115cead9e9b8b9">IndexPair</a> <a class="code" href="structOpenMS_1_1SimpleExtender_1_1IndexWithPriority.html#ab357bcae242be91471c4c45149871dc9">index</a>;</div>
<div class="line"><a name="l00245"></a><span class="lineno"><a class="line" href="structOpenMS_1_1SimpleExtender_1_1IndexWithPriority.html#ae138c9d8b5236dce0ba0250360815ee4"> 245</a></span>  <a class="code" href="classdouble.html">ProbabilityType</a> <a class="code" href="structOpenMS_1_1SimpleExtender_1_1IndexWithPriority.html#ae138c9d8b5236dce0ba0250360815ee4">priority</a>;</div>
<div class="line"><a name="l00246"></a><span class="lineno"> 246</span> </div>
<div class="line"><a name="l00248"></a><span class="lineno"><a class="line" href="structOpenMS_1_1SimpleExtender_1_1IndexWithPriority_1_1PriorityLess.html"> 248</a></span>  <span class="keyword">struct </span><a class="code" href="structOpenMS_1_1SimpleExtender_1_1IndexWithPriority_1_1PriorityLess.html">PriorityLess</a></div>
<div class="line"><a name="l00249"></a><span class="lineno"> 249</span>  {</div>
<div class="line"><a name="l00250"></a><span class="lineno"><a class="line" href="structOpenMS_1_1SimpleExtender_1_1IndexWithPriority_1_1PriorityLess.html#a1a8a07ce1c989507ef080f86788434bb"> 250</a></span>  <span class="keyword">inline</span> <span class="keywordtype">bool</span> <a class="code" href="structOpenMS_1_1SimpleExtender_1_1IndexWithPriority_1_1PriorityLess.html#a1a8a07ce1c989507ef080f86788434bb">operator()</a>(<span class="keyword">const</span> <a class="code" href="structOpenMS_1_1SimpleExtender_1_1IndexWithPriority.html">IndexWithPriority</a> & x, <span class="keyword">const</span> <a class="code" href="structOpenMS_1_1SimpleExtender_1_1IndexWithPriority.html">IndexWithPriority</a> & y)<span class="keyword"> const</span></div>
<div class="line"><a name="l00251"></a><span class="lineno"> 251</span> <span class="keyword"> </span>{</div>
<div class="line"><a name="l00252"></a><span class="lineno"> 252</span>  <span class="keywordflow">return</span> x.<a class="code" href="structOpenMS_1_1SimpleExtender_1_1IndexWithPriority.html#ae138c9d8b5236dce0ba0250360815ee4">priority</a> < y.<a class="code" href="structOpenMS_1_1SimpleExtender_1_1IndexWithPriority.html#ae138c9d8b5236dce0ba0250360815ee4">priority</a>;</div>
<div class="line"><a name="l00253"></a><span class="lineno"> 253</span>  }</div>
<div class="line"><a name="l00254"></a><span class="lineno"> 254</span> </div>
<div class="line"><a name="l00255"></a><span class="lineno"> 255</span>  };</div>
<div class="line"><a name="l00256"></a><span class="lineno"> 256</span>  };</div>
<div class="line"><a name="l00257"></a><span class="lineno"> 257</span> </div>
<div class="line"><a name="l00258"></a><span class="lineno"> 258</span> <span class="keyword">protected</span>:</div>
<div class="line"><a name="l00259"></a><span class="lineno"> 259</span> </div>
<div class="line"><a name="l00260"></a><span class="lineno"><a class="line" href="classOpenMS_1_1SimpleExtender.html#a776f7572fc4f466e9527ca233471920d"> 260</a></span>  <span class="keyword">virtual</span> <span class="keywordtype">void</span> <a class="code" href="classOpenMS_1_1SimpleExtender.html#a776f7572fc4f466e9527ca233471920d">updateMembers_</a>()</div>
<div class="line"><a name="l00261"></a><span class="lineno"> 261</span>  {</div>
<div class="line"><a name="l00262"></a><span class="lineno"> 262</span>  <a class="code" href="classOpenMS_1_1SimpleExtender.html#a18a547e6c7ecaf916c40c86d2739d876">dist_mz_up_</a> = this-><a class="code" href="classOpenMS_1_1DefaultParamHandler.html#a28c73e623c63a4fe3bfceb1ae8274f39">param_</a>.<a class="code" href="classOpenMS_1_1Param.html#abd0f5571675ec99e1aa647b39e2a8711">getValue</a>(<span class="stringliteral">"dist_mz_up"</span>);</div>
<div class="line"><a name="l00263"></a><span class="lineno"> 263</span>  <a class="code" href="classOpenMS_1_1SimpleExtender.html#a57d39ae1e384f0f536b054e012d082d8">dist_mz_down_</a> = this-><a class="code" href="classOpenMS_1_1DefaultParamHandler.html#a28c73e623c63a4fe3bfceb1ae8274f39">param_</a>.<a class="code" href="classOpenMS_1_1Param.html#abd0f5571675ec99e1aa647b39e2a8711">getValue</a>(<span class="stringliteral">"dist_mz_down"</span>);</div>
<div class="line"><a name="l00264"></a><span class="lineno"> 264</span>  <a class="code" href="classOpenMS_1_1SimpleExtender.html#acd6346d244fe3056de90cd27ab700b79">dist_rt_up_</a> = this-><a class="code" href="classOpenMS_1_1DefaultParamHandler.html#a28c73e623c63a4fe3bfceb1ae8274f39">param_</a>.<a class="code" href="classOpenMS_1_1Param.html#abd0f5571675ec99e1aa647b39e2a8711">getValue</a>(<span class="stringliteral">"dist_rt_up"</span>);</div>
<div class="line"><a name="l00265"></a><span class="lineno"> 265</span>  <a class="code" href="classOpenMS_1_1SimpleExtender.html#a6a58dff295c66bfc5fc3ad241aef707b">dist_rt_down_</a> = this-><a class="code" href="classOpenMS_1_1DefaultParamHandler.html#a28c73e623c63a4fe3bfceb1ae8274f39">param_</a>.<a class="code" href="classOpenMS_1_1Param.html#abd0f5571675ec99e1aa647b39e2a8711">getValue</a>(<span class="stringliteral">"dist_rt_down"</span>);</div>
<div class="line"><a name="l00266"></a><span class="lineno"> 266</span>  <a class="code" href="classOpenMS_1_1SimpleExtender.html#a20f835e907d9386f5ba2a89f14c3734c">priority_threshold_</a> = this-><a class="code" href="classOpenMS_1_1DefaultParamHandler.html#a28c73e623c63a4fe3bfceb1ae8274f39">param_</a>.<a class="code" href="classOpenMS_1_1Param.html#abd0f5571675ec99e1aa647b39e2a8711">getValue</a>(<span class="stringliteral">"priority_thr"</span>);</div>
<div class="line"><a name="l00267"></a><span class="lineno"> 267</span>  }</div>
<div class="line"><a name="l00268"></a><span class="lineno"> 268</span> </div>
<div class="line"><a name="l00270"></a><span class="lineno"><a class="line" href="classOpenMS_1_1SimpleExtender.html#a0d642765897747c34debb18095cde304"> 270</a></span>  <span class="keywordtype">void</span> <a class="code" href="classOpenMS_1_1SimpleExtender.html#a0d642765897747c34debb18095cde304">writeDebugFile_</a>(<span class="keyword">const</span> std::vector<IndexPair> & peaks, <a class="code" href="classunsigned_01int.html">UInt</a> nr_feat)</div>
<div class="line"><a name="l00271"></a><span class="lineno"> 271</span>  {</div>
<div class="line"><a name="l00272"></a><span class="lineno"> 272</span>  <a class="code" href="classOpenMS_1_1String.html">String</a> filename = <a class="code" href="classOpenMS_1_1String.html">String</a>(nr_feat).<a class="code" href="classOpenMS_1_1String.html#a9d0fab14e2a7a5970214c943d54da700">fillLeft</a>(<span class="charliteral">'0'</span>, 4) + <span class="stringliteral">"_Extension.dta2d"</span>;</div>
<div class="line"><a name="l00273"></a><span class="lineno"> 273</span>  std::ofstream file(filename.c_str());</div>
<div class="line"><a name="l00274"></a><span class="lineno"> 274</span>  <span class="keywordflow">for</span> (<a class="code" href="group__Concept.html#gaf9ecec2d692138fab9167164a457cbd4">Size</a> i = 0; i < peaks.size(); ++i)</div>
<div class="line"><a name="l00275"></a><span class="lineno"> 275</span>  {</div>
<div class="line"><a name="l00276"></a><span class="lineno"> 276</span>  file << this-><a class="code" href="classOpenMS_1_1FeaFiModule.html#a8e5564d7b686645a7d7d6f5aed8cd494">getPeakRt</a>(peaks[i]) << <span class="stringliteral">" "</span> << this-><a class="code" href="classOpenMS_1_1FeaFiModule.html#a606049d47faacd506705556d333849a2">getPeakMz</a>(peaks[i]) << <span class="stringliteral">" "</span> << peaks.size() - i << std::endl;</div>
<div class="line"><a name="l00277"></a><span class="lineno"> 277</span>  }</div>
<div class="line"><a name="l00278"></a><span class="lineno"> 278</span>  file.close();</div>
<div class="line"><a name="l00279"></a><span class="lineno"> 279</span>  }</div>
<div class="line"><a name="l00280"></a><span class="lineno"> 280</span> </div>
<div class="line"><a name="l00282"></a><span class="lineno"><a class="line" href="classOpenMS_1_1SimpleExtender.html#af560e97f4f00d467116a5791bcdf7ca5"> 282</a></span>  <span class="keywordtype">bool</span> <a class="code" href="classOpenMS_1_1SimpleExtender.html#af560e97f4f00d467116a5791bcdf7ca5">isTooFarFromCentroid_</a>(<span class="keyword">const</span> <a class="code" href="structOpenMS_1_1FeatureFinderDefs.html#aaee0bfd850887fdc58115cead9e9b8b9">IndexPair</a> & index)</div>
<div class="line"><a name="l00283"></a><span class="lineno"> 283</span>  {</div>
<div class="line"><a name="l00284"></a><span class="lineno"> 284</span>  <span class="comment">//Corrupt index</span></div>
<div class="line"><a name="l00285"></a><span class="lineno"> 285</span>  <a class="code" href="group__Conditions.html#ga45a74ea28109e7e1ed992fbd2ee97778">OPENMS_PRECONDITION</a>(index.first < (*this->map_).size(), <span class="stringliteral">"Scan index outside of map!"</span>);</div>
<div class="line"><a name="l00286"></a><span class="lineno"> 286</span>  <a class="code" href="group__Conditions.html#ga45a74ea28109e7e1ed992fbd2ee97778">OPENMS_PRECONDITION</a>(index.second < (*this->map_)[index.first].size(), <span class="stringliteral">"Peak index outside of scan!"</span>);</div>
<div class="line"><a name="l00287"></a><span class="lineno"> 287</span> </div>
<div class="line"><a name="l00288"></a><span class="lineno"> 288</span>  <span class="keyword">const</span> <a class="code" href="classOpenMS_1_1DPosition.html">DPosition<2></a> & curr_mean = <a class="code" href="classOpenMS_1_1SimpleExtender.html#a5e88ec4351e6e6835be11ef6fd88a800">running_avg_</a>.<a class="code" href="classOpenMS_1_1Math_1_1AveragePosition.html#a7d8aef8a439ca984c2dfb1bc01ce0845">getPosition</a>();</div>
<div class="line"><a name="l00289"></a><span class="lineno"> 289</span> </div>
<div class="line"><a name="l00290"></a><span class="lineno"> 290</span>  <span class="keywordflow">if</span> (this-><a class="code" href="classOpenMS_1_1FeaFiModule.html#a606049d47faacd506705556d333849a2">getPeakMz</a>(index) > curr_mean[<a class="code" href="classOpenMS_1_1Peak2D.html#ac2d92631c8f762c7e9afe43f11e1f018a35008b046ec2687e53152082281d0867">Peak2D::MZ</a>] + <a class="code" href="classOpenMS_1_1SimpleExtender.html#a18a547e6c7ecaf916c40c86d2739d876">dist_mz_up_</a> ||</div>
<div class="line"><a name="l00291"></a><span class="lineno"> 291</span>  this-><a class="code" href="classOpenMS_1_1FeaFiModule.html#a606049d47faacd506705556d333849a2">getPeakMz</a>(index) < curr_mean[<a class="code" href="classOpenMS_1_1Peak2D.html#ac2d92631c8f762c7e9afe43f11e1f018a35008b046ec2687e53152082281d0867">Peak2D::MZ</a>] - <a class="code" href="classOpenMS_1_1SimpleExtender.html#a57d39ae1e384f0f536b054e012d082d8">dist_mz_down_</a> ||</div>
<div class="line"><a name="l00292"></a><span class="lineno"> 292</span>  this-><a class="code" href="classOpenMS_1_1FeaFiModule.html#a8e5564d7b686645a7d7d6f5aed8cd494">getPeakRt</a>(index) > curr_mean[<a class="code" href="classOpenMS_1_1Peak2D.html#ac2d92631c8f762c7e9afe43f11e1f018af388fcb6d444ef59841ef549ca6ee0da">Peak2D::RT</a>] + <a class="code" href="classOpenMS_1_1SimpleExtender.html#acd6346d244fe3056de90cd27ab700b79">dist_rt_up_</a> ||</div>
<div class="line"><a name="l00293"></a><span class="lineno"> 293</span>  this-><a class="code" href="classOpenMS_1_1FeaFiModule.html#a8e5564d7b686645a7d7d6f5aed8cd494">getPeakRt</a>(index) < curr_mean[<a class="code" href="classOpenMS_1_1Peak2D.html#ac2d92631c8f762c7e9afe43f11e1f018af388fcb6d444ef59841ef549ca6ee0da">Peak2D::RT</a>] - <a class="code" href="classOpenMS_1_1SimpleExtender.html#a6a58dff295c66bfc5fc3ad241aef707b">dist_rt_down_</a>)</div>
<div class="line"><a name="l00294"></a><span class="lineno"> 294</span>  {</div>
<div class="line"><a name="l00295"></a><span class="lineno"> 295</span>  <span class="comment">//too far</span></div>
<div class="line"><a name="l00296"></a><span class="lineno"> 296</span>  <span class="keywordflow">return</span> <span class="keyword">true</span>;</div>
<div class="line"><a name="l00297"></a><span class="lineno"> 297</span>  }</div>
<div class="line"><a name="l00298"></a><span class="lineno"> 298</span> </div>
<div class="line"><a name="l00299"></a><span class="lineno"> 299</span>  <span class="comment">//close enough</span></div>
<div class="line"><a name="l00300"></a><span class="lineno"> 300</span>  <span class="keywordflow">return</span> <span class="keyword">false</span>;</div>
<div class="line"><a name="l00301"></a><span class="lineno"> 301</span>  }</div>
<div class="line"><a name="l00302"></a><span class="lineno"> 302</span> </div>
<div class="line"><a name="l00304"></a><span class="lineno"><a class="line" href="classOpenMS_1_1SimpleExtender.html#a36b5d54b1a3a55b7cf46576fd849c299"> 304</a></span>  <span class="keywordtype">void</span> <a class="code" href="classOpenMS_1_1SimpleExtender.html#a36b5d54b1a3a55b7cf46576fd849c299">moveMzUp_</a>(<span class="keyword">const</span> <a class="code" href="structOpenMS_1_1FeatureFinderDefs.html#aaee0bfd850887fdc58115cead9e9b8b9">IndexPair</a> & index)</div>
<div class="line"><a name="l00305"></a><span class="lineno"> 305</span>  {</div>
<div class="line"><a name="l00306"></a><span class="lineno"> 306</span>  <span class="keywordflow">try</span></div>
<div class="line"><a name="l00307"></a><span class="lineno"> 307</span>  {</div>
<div class="line"><a name="l00308"></a><span class="lineno"> 308</span>  <a class="code" href="structOpenMS_1_1FeatureFinderDefs.html#aaee0bfd850887fdc58115cead9e9b8b9">IndexPair</a> tmp = index;</div>
<div class="line"><a name="l00309"></a><span class="lineno"> 309</span>  <span class="keywordflow">while</span> (<span class="keyword">true</span>)</div>
<div class="line"><a name="l00310"></a><span class="lineno"> 310</span>  {</div>
<div class="line"><a name="l00311"></a><span class="lineno"> 311</span>  this-><a class="code" href="classOpenMS_1_1FeaFiModule.html#a9f755c03fd9b7a485fec02224cc858d7">getNextMz</a>(tmp);</div>
<div class="line"><a name="l00312"></a><span class="lineno"> 312</span>  <span class="keywordflow">if</span> (<a class="code" href="classOpenMS_1_1SimpleExtender.html#af560e97f4f00d467116a5791bcdf7ca5">isTooFarFromCentroid_</a>(tmp)) <span class="keywordflow">break</span>;</div>
<div class="line"><a name="l00313"></a><span class="lineno"> 313</span>  <a class="code" href="classOpenMS_1_1SimpleExtender.html#a8597c0a5982f48f9a8387e286b0251b0">checkNeighbour_</a>(tmp);</div>
<div class="line"><a name="l00314"></a><span class="lineno"> 314</span>  }</div>
<div class="line"><a name="l00315"></a><span class="lineno"> 315</span>  }</div>
<div class="line"><a name="l00316"></a><span class="lineno"> 316</span>  <span class="keywordflow">catch</span> (<a class="code" href="classOpenMS_1_1FeatureFinderDefs_1_1NoSuccessor.html">NoSuccessor</a>)</div>
<div class="line"><a name="l00317"></a><span class="lineno"> 317</span>  {</div>
<div class="line"><a name="l00318"></a><span class="lineno"> 318</span>  }</div>
<div class="line"><a name="l00319"></a><span class="lineno"> 319</span>  }</div>
<div class="line"><a name="l00320"></a><span class="lineno"> 320</span> </div>
<div class="line"><a name="l00322"></a><span class="lineno"><a class="line" href="classOpenMS_1_1SimpleExtender.html#a9c6a1a832b915ac89376cec9dbf009b7"> 322</a></span>  <span class="keywordtype">void</span> <a class="code" href="classOpenMS_1_1SimpleExtender.html#a9c6a1a832b915ac89376cec9dbf009b7">moveMzDown_</a>(<span class="keyword">const</span> <a class="code" href="structOpenMS_1_1FeatureFinderDefs.html#aaee0bfd850887fdc58115cead9e9b8b9">IndexPair</a> & index)</div>
<div class="line"><a name="l00323"></a><span class="lineno"> 323</span>  {</div>
<div class="line"><a name="l00324"></a><span class="lineno"> 324</span>  <span class="keywordflow">try</span></div>
<div class="line"><a name="l00325"></a><span class="lineno"> 325</span>  {</div>
<div class="line"><a name="l00326"></a><span class="lineno"> 326</span>  <a class="code" href="structOpenMS_1_1FeatureFinderDefs.html#aaee0bfd850887fdc58115cead9e9b8b9">IndexPair</a> tmp = index;</div>
<div class="line"><a name="l00327"></a><span class="lineno"> 327</span>  <span class="keywordflow">while</span> (<span class="keyword">true</span>)</div>
<div class="line"><a name="l00328"></a><span class="lineno"> 328</span>  {</div>
<div class="line"><a name="l00329"></a><span class="lineno"> 329</span>  this-><a class="code" href="classOpenMS_1_1FeaFiModule.html#a62c6d0208b4fc2bc51e55eea8ea1ce9d">getPrevMz</a>(tmp);</div>
<div class="line"><a name="l00330"></a><span class="lineno"> 330</span>  <span class="keywordflow">if</span> (<a class="code" href="classOpenMS_1_1SimpleExtender.html#af560e97f4f00d467116a5791bcdf7ca5">isTooFarFromCentroid_</a>(tmp)) <span class="keywordflow">break</span>;</div>
<div class="line"><a name="l00331"></a><span class="lineno"> 331</span>  <a class="code" href="classOpenMS_1_1SimpleExtender.html#a8597c0a5982f48f9a8387e286b0251b0">checkNeighbour_</a>(tmp);</div>
<div class="line"><a name="l00332"></a><span class="lineno"> 332</span>  }</div>
<div class="line"><a name="l00333"></a><span class="lineno"> 333</span>  }</div>
<div class="line"><a name="l00334"></a><span class="lineno"> 334</span>  <span class="keywordflow">catch</span> (<a class="code" href="classOpenMS_1_1FeatureFinderDefs_1_1NoSuccessor.html">NoSuccessor</a>)</div>
<div class="line"><a name="l00335"></a><span class="lineno"> 335</span>  {</div>
<div class="line"><a name="l00336"></a><span class="lineno"> 336</span>  }</div>
<div class="line"><a name="l00337"></a><span class="lineno"> 337</span>  }</div>
<div class="line"><a name="l00338"></a><span class="lineno"> 338</span> </div>
<div class="line"><a name="l00340"></a><span class="lineno"><a class="line" href="classOpenMS_1_1SimpleExtender.html#af79f8c231da6a9d674c28941d313d315"> 340</a></span>  <span class="keywordtype">void</span> <a class="code" href="classOpenMS_1_1SimpleExtender.html#af79f8c231da6a9d674c28941d313d315">moveRtUp_</a>(<span class="keyword">const</span> <a class="code" href="structOpenMS_1_1FeatureFinderDefs.html#aaee0bfd850887fdc58115cead9e9b8b9">IndexPair</a> & index)</div>
<div class="line"><a name="l00341"></a><span class="lineno"> 341</span>  {</div>
<div class="line"><a name="l00342"></a><span class="lineno"> 342</span>  <span class="keywordflow">try</span></div>
<div class="line"><a name="l00343"></a><span class="lineno"> 343</span>  {</div>
<div class="line"><a name="l00344"></a><span class="lineno"> 344</span>  <a class="code" href="structOpenMS_1_1FeatureFinderDefs.html#aaee0bfd850887fdc58115cead9e9b8b9">IndexPair</a> tmp = index;</div>
<div class="line"><a name="l00345"></a><span class="lineno"> 345</span> </div>
<div class="line"><a name="l00346"></a><span class="lineno"> 346</span>  <span class="keywordflow">while</span> (<span class="keyword">true</span>)</div>
<div class="line"><a name="l00347"></a><span class="lineno"> 347</span>  {</div>
<div class="line"><a name="l00348"></a><span class="lineno"> 348</span>  this-><a class="code" href="classOpenMS_1_1FeaFiModule.html#adf52c00b457571ad74d59a5d6fd12d1a">getNextRt</a>(tmp);</div>
<div class="line"><a name="l00349"></a><span class="lineno"> 349</span>  <span class="keywordflow">if</span> (<a class="code" href="classOpenMS_1_1SimpleExtender.html#af560e97f4f00d467116a5791bcdf7ca5">isTooFarFromCentroid_</a>(tmp)) <span class="keywordflow">break</span>;</div>
<div class="line"><a name="l00350"></a><span class="lineno"> 350</span>  <a class="code" href="classOpenMS_1_1SimpleExtender.html#a8597c0a5982f48f9a8387e286b0251b0">checkNeighbour_</a>(tmp);</div>
<div class="line"><a name="l00351"></a><span class="lineno"> 351</span>  }</div>
<div class="line"><a name="l00352"></a><span class="lineno"> 352</span>  }</div>
<div class="line"><a name="l00353"></a><span class="lineno"> 353</span>  <span class="keywordflow">catch</span> (<a class="code" href="classOpenMS_1_1FeatureFinderDefs_1_1NoSuccessor.html">NoSuccessor</a>)</div>
<div class="line"><a name="l00354"></a><span class="lineno"> 354</span>  {</div>
<div class="line"><a name="l00355"></a><span class="lineno"> 355</span>  }</div>
<div class="line"><a name="l00356"></a><span class="lineno"> 356</span>  }</div>
<div class="line"><a name="l00357"></a><span class="lineno"> 357</span> </div>
<div class="line"><a name="l00359"></a><span class="lineno"><a class="line" href="classOpenMS_1_1SimpleExtender.html#a7f4bbff96a2ea0e3d46711022de26b29"> 359</a></span>  <span class="keywordtype">void</span> <a class="code" href="classOpenMS_1_1SimpleExtender.html#a7f4bbff96a2ea0e3d46711022de26b29">moveRtDown_</a>(<span class="keyword">const</span> <a class="code" href="structOpenMS_1_1FeatureFinderDefs.html#aaee0bfd850887fdc58115cead9e9b8b9">IndexPair</a> & index)</div>
<div class="line"><a name="l00360"></a><span class="lineno"> 360</span>  {</div>
<div class="line"><a name="l00361"></a><span class="lineno"> 361</span>  <span class="keywordflow">try</span></div>
<div class="line"><a name="l00362"></a><span class="lineno"> 362</span>  {</div>
<div class="line"><a name="l00363"></a><span class="lineno"> 363</span>  <a class="code" href="structOpenMS_1_1FeatureFinderDefs.html#aaee0bfd850887fdc58115cead9e9b8b9">IndexPair</a> tmp = index;</div>
<div class="line"><a name="l00364"></a><span class="lineno"> 364</span>  <span class="keywordflow">while</span> (<span class="keyword">true</span>)</div>
<div class="line"><a name="l00365"></a><span class="lineno"> 365</span>  {</div>
<div class="line"><a name="l00366"></a><span class="lineno"> 366</span>  this-><a class="code" href="classOpenMS_1_1FeaFiModule.html#ad4efb644d8a117edfaf7f0f5a9b34e0a">getPrevRt</a>(tmp);</div>
<div class="line"><a name="l00367"></a><span class="lineno"> 367</span>  <span class="keywordflow">if</span> (<a class="code" href="classOpenMS_1_1SimpleExtender.html#af560e97f4f00d467116a5791bcdf7ca5">isTooFarFromCentroid_</a>(tmp)) <span class="keywordflow">break</span>;</div>
<div class="line"><a name="l00368"></a><span class="lineno"> 368</span>  <a class="code" href="classOpenMS_1_1SimpleExtender.html#a8597c0a5982f48f9a8387e286b0251b0">checkNeighbour_</a>(tmp);</div>
<div class="line"><a name="l00369"></a><span class="lineno"> 369</span>  }</div>
<div class="line"><a name="l00370"></a><span class="lineno"> 370</span>  }</div>
<div class="line"><a name="l00371"></a><span class="lineno"> 371</span>  <span class="keywordflow">catch</span> (<a class="code" href="classOpenMS_1_1FeatureFinderDefs_1_1NoSuccessor.html">NoSuccessor</a>)</div>
<div class="line"><a name="l00372"></a><span class="lineno"> 372</span>  {</div>
<div class="line"><a name="l00373"></a><span class="lineno"> 373</span>  }</div>
<div class="line"><a name="l00374"></a><span class="lineno"> 374</span>  }</div>
<div class="line"><a name="l00375"></a><span class="lineno"> 375</span> </div>
<div class="line"><a name="l00377"></a><span class="lineno"><a class="line" href="classOpenMS_1_1SimpleExtender.html#af7842efcd3ecab40cf021f5cae359dbe"> 377</a></span>  <a class="code" href="classdouble.html">ProbabilityType</a> <a class="code" href="classOpenMS_1_1SimpleExtender.html#af7842efcd3ecab40cf021f5cae359dbe">computePeakPriority_</a>(<span class="keyword">const</span> <a class="code" href="structOpenMS_1_1FeatureFinderDefs.html#aaee0bfd850887fdc58115cead9e9b8b9">IndexPair</a> & index)</div>
<div class="line"><a name="l00378"></a><span class="lineno"> 378</span>  {</div>
<div class="line"><a name="l00379"></a><span class="lineno"> 379</span>  <span class="keywordflow">return</span> (*this-><a class="code" href="classOpenMS_1_1FeaFiModule.html#a365c5cf67d48519199fe00cb5688d628">map_</a>)[index.first][index.second].getIntensity();</div>
<div class="line"><a name="l00380"></a><span class="lineno"> 380</span>  }</div>
<div class="line"><a name="l00381"></a><span class="lineno"> 381</span> </div>
<div class="line"><a name="l00383"></a><span class="lineno"><a class="line" href="classOpenMS_1_1SimpleExtender.html#a8597c0a5982f48f9a8387e286b0251b0"> 383</a></span>  <span class="keywordtype">void</span> <a class="code" href="classOpenMS_1_1SimpleExtender.html#a8597c0a5982f48f9a8387e286b0251b0">checkNeighbour_</a>(<span class="keyword">const</span> <a class="code" href="structOpenMS_1_1FeatureFinderDefs.html#aaee0bfd850887fdc58115cead9e9b8b9">IndexPair</a> & index)</div>
<div class="line"><a name="l00384"></a><span class="lineno"> 384</span>  {</div>
<div class="line"><a name="l00385"></a><span class="lineno"> 385</span>  <span class="comment">//Corrupt index</span></div>
<div class="line"><a name="l00386"></a><span class="lineno"> 386</span>  <a class="code" href="group__Conditions.html#ga45a74ea28109e7e1ed992fbd2ee97778">OPENMS_PRECONDITION</a>(index.first < (*this->map_).size(), <span class="stringliteral">"Scan index outside of map!"</span>);</div>
<div class="line"><a name="l00387"></a><span class="lineno"> 387</span>  <a class="code" href="group__Conditions.html#ga45a74ea28109e7e1ed992fbd2ee97778">OPENMS_PRECONDITION</a>(index.second < (*this->map_)[index.first].size(), <span class="stringliteral">"Peak index outside of scan!"</span>);</div>
<div class="line"><a name="l00388"></a><span class="lineno"> 388</span> </div>
<div class="line"><a name="l00389"></a><span class="lineno"> 389</span>  <span class="comment">// skip this point if its intensity is too low</span></div>
<div class="line"><a name="l00390"></a><span class="lineno"> 390</span>  <span class="keywordflow">if</span> (this-><a class="code" href="classOpenMS_1_1FeaFiModule.html#a4698fa90bfbdd5729e0e25c62345ff0d">getPeakIntensity</a>(index) <= <a class="code" href="classOpenMS_1_1SimpleExtender.html#a889c3e7e8b35115eea733b1204872d86">intensity_threshold_</a>)</div>
<div class="line"><a name="l00391"></a><span class="lineno"> 391</span>  {</div>
<div class="line"><a name="l00392"></a><span class="lineno"> 392</span>  <span class="keywordflow">return</span>;</div>
<div class="line"><a name="l00393"></a><span class="lineno"> 393</span>  }</div>
<div class="line"><a name="l00394"></a><span class="lineno"> 394</span>  <span class="keywordflow">if</span> (this-><a class="code" href="classOpenMS_1_1FeaFiModule.html#adf68cb378c76b322b2cc4dbb2c145a3e">ff_</a>-><a class="code" href="classOpenMS_1_1FeatureFinder.html#a91adbb58dfeb79d2b5d78c1047f406c9">getPeakFlag</a>(index) == <a class="code" href="structOpenMS_1_1FeatureFinderDefs.html#a3f3de3e0d751949b8d0b60ffb302944aaa09b651ef326a9d8efcee5cc5b720ab4">UNUSED</a>)</div>
<div class="line"><a name="l00395"></a><span class="lineno"> 395</span>  {</div>
<div class="line"><a name="l00396"></a><span class="lineno"> 396</span>  <a class="code" href="classdouble.html">DoubleReal</a> pr_new = <a class="code" href="classOpenMS_1_1SimpleExtender.html#af7842efcd3ecab40cf021f5cae359dbe">computePeakPriority_</a>(index);</div>
<div class="line"><a name="l00397"></a><span class="lineno"> 397</span> </div>
<div class="line"><a name="l00398"></a><span class="lineno"> 398</span>  <span class="keywordflow">if</span> (pr_new > <a class="code" href="classOpenMS_1_1SimpleExtender.html#a20f835e907d9386f5ba2a89f14c3734c">priority_threshold_</a>)</div>
<div class="line"><a name="l00399"></a><span class="lineno"> 399</span>  {</div>
<div class="line"><a name="l00400"></a><span class="lineno"> 400</span>  <span class="comment">//std::map<IndexPair, DoubleReal>::iterator piter = priorities_.find(index);</span></div>
<div class="line"><a name="l00401"></a><span class="lineno"> 401</span>  this-><a class="code" href="classOpenMS_1_1FeaFiModule.html#adf68cb378c76b322b2cc4dbb2c145a3e">ff_</a>-><a class="code" href="classOpenMS_1_1FeatureFinder.html#a91adbb58dfeb79d2b5d78c1047f406c9">getPeakFlag</a>(index) = <a class="code" href="structOpenMS_1_1FeatureFinderDefs.html#a3f3de3e0d751949b8d0b60ffb302944aa1e780c62cb3fd2edcac39f739bbe6f6c">USED</a>;</div>
<div class="line"><a name="l00402"></a><span class="lineno"> 402</span>  <a class="code" href="classOpenMS_1_1SimpleExtender.html#a9d351425833907a2744bbfa08ef60c3e">priorities_</a>[index] = pr_new;</div>
<div class="line"><a name="l00403"></a><span class="lineno"> 403</span>  <a class="code" href="classOpenMS_1_1SimpleExtender.html#ab858156ff4f42ae4048114b536c4d6ca">boundary_</a>.push(<a class="code" href="structOpenMS_1_1SimpleExtender_1_1IndexWithPriority.html">IndexWithPriority</a>(index, pr_new));</div>
<div class="line"><a name="l00404"></a><span class="lineno"> 404</span>  }</div>
<div class="line"><a name="l00405"></a><span class="lineno"> 405</span>  }</div>
<div class="line"><a name="l00406"></a><span class="lineno"> 406</span>  }</div>
<div class="line"><a name="l00407"></a><span class="lineno"> 407</span> </div>
<div class="line"><a name="l00409"></a><span class="lineno"><a class="line" href="classOpenMS_1_1SimpleExtender.html#a5e88ec4351e6e6835be11ef6fd88a800"> 409</a></span>  <a class="code" href="classOpenMS_1_1Math_1_1AveragePosition.html">Math::AveragePosition<2></a> <a class="code" href="classOpenMS_1_1SimpleExtender.html#a5e88ec4351e6e6835be11ef6fd88a800">running_avg_</a>;</div>
<div class="line"><a name="l00410"></a><span class="lineno"> 410</span> </div>
<div class="line"><a name="l00412"></a><span class="lineno"><a class="line" href="classOpenMS_1_1SimpleExtender.html#a9d351425833907a2744bbfa08ef60c3e"> 412</a></span>  std::map<IndexPair, ProbabilityType> <a class="code" href="classOpenMS_1_1SimpleExtender.html#a9d351425833907a2744bbfa08ef60c3e">priorities_</a>;</div>
<div class="line"><a name="l00413"></a><span class="lineno"> 413</span> </div>
<div class="line"><a name="l00415"></a><span class="lineno"><a class="line" href="classOpenMS_1_1SimpleExtender.html#a3ff45f6c20e60f681eb4a4057046365a"> 415</a></span>  <a class="code" href="classOpenMS_1_1DPosition.html">DPosition<2></a> <a class="code" href="classOpenMS_1_1SimpleExtender.html#a3ff45f6c20e60f681eb4a4057046365a">last_pos_extracted_</a>;</div>
<div class="line"><a name="l00416"></a><span class="lineno"> 416</span> </div>
<div class="line"><a name="l00418"></a><span class="lineno"><a class="line" href="classOpenMS_1_1SimpleExtender.html#ab858156ff4f42ae4048114b536c4d6ca"> 418</a></span>  std::priority_queue<IndexWithPriority, std::vector<IndexWithPriority>, <span class="keyword">typename</span> <a class="code" href="structOpenMS_1_1SimpleExtender_1_1IndexWithPriority_1_1PriorityLess.html">IndexWithPriority::PriorityLess</a>> <a class="code" href="classOpenMS_1_1SimpleExtender.html#ab858156ff4f42ae4048114b536c4d6ca">boundary_</a>;</div>
<div class="line"><a name="l00419"></a><span class="lineno"> 419</span> </div>
<div class="line"><a name="l00421"></a><span class="lineno"><a class="line" href="classOpenMS_1_1SimpleExtender.html#a889c3e7e8b35115eea733b1204872d86"> 421</a></span>  <a class="code" href="classOpenMS_1_1FeaFiModule.html#a221361082f641c3fccc58e9bc66aeee1">IntensityType</a> <a class="code" href="classOpenMS_1_1SimpleExtender.html#a889c3e7e8b35115eea733b1204872d86">intensity_threshold_</a>;</div>
<div class="line"><a name="l00422"></a><span class="lineno"> 422</span> </div>
<div class="line"><a name="l00424"></a><span class="lineno"><a class="line" href="classOpenMS_1_1SimpleExtender.html#a18a547e6c7ecaf916c40c86d2739d876"> 424</a></span>  <a class="code" href="classdouble.html">CoordinateType</a> <a class="code" href="classOpenMS_1_1SimpleExtender.html#a18a547e6c7ecaf916c40c86d2739d876">dist_mz_up_</a>;</div>
<div class="line"><a name="l00426"></a><span class="lineno"><a class="line" href="classOpenMS_1_1SimpleExtender.html#a57d39ae1e384f0f536b054e012d082d8"> 426</a></span>  <a class="code" href="classdouble.html">CoordinateType</a> <a class="code" href="classOpenMS_1_1SimpleExtender.html#a57d39ae1e384f0f536b054e012d082d8">dist_mz_down_</a>;</div>
<div class="line"><a name="l00428"></a><span class="lineno"><a class="line" href="classOpenMS_1_1SimpleExtender.html#acd6346d244fe3056de90cd27ab700b79"> 428</a></span>  <a class="code" href="classdouble.html">CoordinateType</a> <a class="code" href="classOpenMS_1_1SimpleExtender.html#acd6346d244fe3056de90cd27ab700b79">dist_rt_up_</a>;</div>
<div class="line"><a name="l00430"></a><span class="lineno"><a class="line" href="classOpenMS_1_1SimpleExtender.html#a6a58dff295c66bfc5fc3ad241aef707b"> 430</a></span>  <a class="code" href="classdouble.html">CoordinateType</a> <a class="code" href="classOpenMS_1_1SimpleExtender.html#a6a58dff295c66bfc5fc3ad241aef707b">dist_rt_down_</a>;</div>
<div class="line"><a name="l00431"></a><span class="lineno"> 431</span> </div>
<div class="line"><a name="l00433"></a><span class="lineno"><a class="line" href="classOpenMS_1_1SimpleExtender.html#a20f835e907d9386f5ba2a89f14c3734c"> 433</a></span>  <a class="code" href="classdouble.html">ProbabilityType</a> <a class="code" href="classOpenMS_1_1SimpleExtender.html#a20f835e907d9386f5ba2a89f14c3734c">priority_threshold_</a>;</div>
<div class="line"><a name="l00434"></a><span class="lineno"> 434</span> </div>
<div class="line"><a name="l00436"></a><span class="lineno"><a class="line" href="classOpenMS_1_1SimpleExtender.html#a2a565aa56d3937ea9ceefca1780ace7d"> 436</a></span>  <a class="code" href="structOpenMS_1_1IsotopeCluster_1_1ChargedIndexSet.html">ChargedIndexSet</a> <a class="code" href="classOpenMS_1_1SimpleExtender.html#a2a565aa56d3937ea9ceefca1780ace7d">region_</a>;</div>
<div class="line"><a name="l00437"></a><span class="lineno"> 437</span> </div>
<div class="line"><a name="l00438"></a><span class="lineno"> 438</span> <span class="keyword">private</span>:</div>
<div class="line"><a name="l00440"></a><span class="lineno"> 440</span>  <a class="code" href="classOpenMS_1_1SimpleExtender.html#a4dd25252cea93b2f55d6e5867ce513bd">SimpleExtender</a>();</div>
<div class="line"><a name="l00442"></a><span class="lineno"> 442</span>  <a class="code" href="classOpenMS_1_1SimpleExtender.html">SimpleExtender</a> & <a class="code" href="classOpenMS_1_1SimpleExtender.html#abc23946becf3ace5a04ce8da5d03d41a">operator=</a>(<span class="keyword">const</span> <a class="code" href="classOpenMS_1_1SimpleExtender.html">SimpleExtender</a> &);</div>
<div class="line"><a name="l00444"></a><span class="lineno"> 444</span>  <a class="code" href="classOpenMS_1_1SimpleExtender.html#a4dd25252cea93b2f55d6e5867ce513bd">SimpleExtender</a>(<span class="keyword">const</span> <a class="code" href="classOpenMS_1_1SimpleExtender.html">SimpleExtender</a> &);</div>
<div class="line"><a name="l00445"></a><span class="lineno"> 445</span> </div>
<div class="line"><a name="l00446"></a><span class="lineno"> 446</span>  };</div>
<div class="line"><a name="l00447"></a><span class="lineno"> 447</span> }</div>
<div class="line"><a name="l00448"></a><span class="lineno"> 448</span> <span class="preprocessor">#endif // OPENMS_TRANSFORMATIONS_FEATUREFINDER_SIMPLEEXTENDER_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="classOpenMS_1_1SimpleExtender_html_a1139a06b7cf1886d1977e5afcfddfea6"><div class="ttname"><a href="classOpenMS_1_1SimpleExtender.html#a1139a06b7cf1886d1977e5afcfddfea6">OpenMS::SimpleExtender::extend</a></div><div class="ttdeci">void extend(const ChargedIndexSet &seed_region, ChargedIndexSet &result_region)</div><div class="ttdoc">return next seed </div><div class="ttdef"><b>Definition:</b> SimpleExtender.h:127</div></div>
<div class="ttc" id="classOpenMS_1_1FeaFiModule_html"><div class="ttname"><a href="classOpenMS_1_1FeaFiModule.html">OpenMS::FeaFiModule</a></div><div class="ttdoc">Implements a module of the FeatureFinder algorithm. </div><div class="ttdef"><b>Definition:</b> FeaFiModule.h:157</div></div>
<div class="ttc" id="structOpenMS_1_1FeatureFinderDefs_html_aaee0bfd850887fdc58115cead9e9b8b9"><div class="ttname"><a href="structOpenMS_1_1FeatureFinderDefs.html#aaee0bfd850887fdc58115cead9e9b8b9">OpenMS::FeatureFinderDefs::IndexPair</a></div><div class="ttdeci">IsotopeCluster::IndexPair IndexPair</div><div class="ttdoc">Index to peak consisting of two UInts (scan index / peak index) </div><div class="ttdef"><b>Definition:</b> FeatureFinderDefs.h:54</div></div>
<div class="ttc" id="structOpenMS_1_1FeatureFinderDefs_html_a3f3de3e0d751949b8d0b60ffb302944aa1e780c62cb3fd2edcac39f739bbe6f6c"><div class="ttname"><a href="structOpenMS_1_1FeatureFinderDefs.html#a3f3de3e0d751949b8d0b60ffb302944aa1e780c62cb3fd2edcac39f739bbe6f6c">OpenMS::FeatureFinderDefs::USED</a></div><div class="ttdef"><b>Definition:</b> FeatureFinderDefs.h:63</div></div>
<div class="ttc" id="classOpenMS_1_1DefaultParamHandler_html_a761b1937850c141d0c6fff0e4d633a04"><div class="ttname"><a href="classOpenMS_1_1DefaultParamHandler.html#a761b1937850c141d0c6fff0e4d633a04">OpenMS::DefaultParamHandler::defaults_</a></div><div class="ttdeci">Param defaults_</div><div class="ttdoc">Container for default parameters. This member should be filled in the constructor of derived classes!...</div><div class="ttdef"><b>Definition:</b> DefaultParamHandler.h:155</div></div>
<div class="ttc" id="classOpenMS_1_1Param_html_a432099944e11263aa20aaf8ea1389790"><div class="ttname"><a href="classOpenMS_1_1Param.html#a432099944e11263aa20aaf8ea1389790">OpenMS::Param::setValue</a></div><div class="ttdeci">void setValue(const String &key, const DataValue &value, const String &description="", const StringList &tags=StringList())</div><div class="ttdoc">Sets a value. </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_1SimpleExtender_html_a4e4e002f0161bec9b732b12e2d0775e5"><div class="ttname"><a href="classOpenMS_1_1SimpleExtender.html#a4e4e002f0161bec9b732b12e2d0775e5">OpenMS::SimpleExtender::IntensityType</a></div><div class="ttdeci">Base::IntensityType IntensityType</div><div class="ttdoc">Intensity of a data point. </div><div class="ttdef"><b>Definition:</b> SimpleExtender.h:87</div></div>
<div class="ttc" id="classOpenMS_1_1FeaFiModule_html_a9f755c03fd9b7a485fec02224cc858d7"><div class="ttname"><a href="classOpenMS_1_1FeaFiModule.html#a9f755c03fd9b7a485fec02224cc858d7">OpenMS::FeaFiModule::getNextMz</a></div><div class="ttdeci">void getNextMz(FeatureFinderDefs::IndexPair &index) const </div><div class="ttdoc">fills index with the index of next peak in m/z dimension </div><div class="ttdef"><b>Definition:</b> FeaFiModule.h:225</div></div>
<div class="ttc" id="classOpenMS_1_1FeaFiModule_html_a8e5564d7b686645a7d7d6f5aed8cd494"><div class="ttname"><a href="classOpenMS_1_1FeaFiModule.html#a8e5564d7b686645a7d7d6f5aed8cd494">OpenMS::FeaFiModule::getPeakRt</a></div><div class="ttdeci">CoordinateType getPeakRt(const FeatureFinderDefs::IndexPair &index) const </div><div class="ttdoc">Returns the retention time of a peak. </div><div class="ttdef"><b>Definition:</b> FeaFiModule.h:210</div></div>
<div class="ttc" id="classOpenMS_1_1Math_1_1AveragePosition_html_ac8bb3912a3ce86b15842e79d0b421204"><div class="ttname"><a href="classOpenMS_1_1Math_1_1AveragePosition.html#ac8bb3912a3ce86b15842e79d0b421204">OpenMS::Math::AveragePosition::clear</a></div><div class="ttdeci">void clear()</div><div class="ttdoc">Reset everything. (Note that update() will cause a division by zero after that.) </div><div class="ttdef"><b>Definition:</b> AveragePosition.h:104</div></div>
<div class="ttc" id="structOpenMS_1_1SimpleExtender_1_1IndexWithPriority_html"><div class="ttname"><a href="structOpenMS_1_1SimpleExtender_1_1IndexWithPriority.html">OpenMS::SimpleExtender::IndexWithPriority</a></div><div class="ttdoc">A helper structure to sort indizes by their priority. </div><div class="ttdef"><b>Definition:</b> SimpleExtender.h:236</div></div>
<div class="ttc" id="classOpenMS_1_1SimpleExtender_html_a82f6a21fbf0dcd96bd770645a4c1f5dc"><div class="ttname"><a href="classOpenMS_1_1SimpleExtender.html#a82f6a21fbf0dcd96bd770645a4c1f5dc">OpenMS::SimpleExtender::CoordinateType</a></div><div class="ttdeci">Base::CoordinateType CoordinateType</div><div class="ttdoc">Coordinates of a point (m/z and rt) </div><div class="ttdef"><b>Definition:</b> SimpleExtender.h:89</div></div>
<div class="ttc" id="classOpenMS_1_1FeaFiModule_html_a4698fa90bfbdd5729e0e25c62345ff0d"><div class="ttname"><a href="classOpenMS_1_1FeaFiModule.html#a4698fa90bfbdd5729e0e25c62345ff0d">OpenMS::FeaFiModule::getPeakIntensity</a></div><div class="ttdeci">IntensityType getPeakIntensity(const FeatureFinderDefs::IndexPair &index) const </div><div class="ttdoc">Returns the intensity of a peak. </div><div class="ttdef"><b>Definition:</b> FeaFiModule.h:190</div></div>
<div class="ttc" id="classOpenMS_1_1SimpleExtender_html_af79f8c231da6a9d674c28941d313d315"><div class="ttname"><a href="classOpenMS_1_1SimpleExtender.html#af79f8c231da6a9d674c28941d313d315">OpenMS::SimpleExtender::moveRtUp_</a></div><div class="ttdeci">void moveRtUp_(const IndexPair &index)</div><div class="ttdoc">Extension into positive rt dimension. </div><div class="ttdef"><b>Definition:</b> SimpleExtender.h:340</div></div>
<div class="ttc" id="classOpenMS_1_1SimpleExtender_html_a9d351425833907a2744bbfa08ef60c3e"><div class="ttname"><a href="classOpenMS_1_1SimpleExtender.html#a9d351425833907a2744bbfa08ef60c3e">OpenMS::SimpleExtender::priorities_</a></div><div class="ttdeci">std::map< IndexPair, ProbabilityType > priorities_</div><div class="ttdoc">Keeps track of peaks already included in the boundary (value is priority of peak) ...</div><div class="ttdef"><b>Definition:</b> SimpleExtender.h:412</div></div>
<div class="ttc" id="classOpenMS_1_1Math_1_1AveragePosition_html"><div class="ttname"><a href="classOpenMS_1_1Math_1_1AveragePosition.html">OpenMS::Math::AveragePosition< 2 ></a></div></div>
<div class="ttc" id="classOpenMS_1_1DefaultParamHandler_html_a28c73e623c63a4fe3bfceb1ae8274f39"><div class="ttname"><a href="classOpenMS_1_1DefaultParamHandler.html#a28c73e623c63a4fe3bfceb1ae8274f39">OpenMS::DefaultParamHandler::param_</a></div><div class="ttdeci">Param param_</div><div class="ttdoc">Container for current parameters. </div><div class="ttdef"><b>Definition:</b> DefaultParamHandler.h:148</div></div>
<div class="ttc" id="structOpenMS_1_1FeatureFinderDefs_html_a3f3de3e0d751949b8d0b60ffb302944aaa09b651ef326a9d8efcee5cc5b720ab4"><div class="ttname"><a href="structOpenMS_1_1FeatureFinderDefs.html#a3f3de3e0d751949b8d0b60ffb302944aaa09b651ef326a9d8efcee5cc5b720ab4">OpenMS::FeatureFinderDefs::UNUSED</a></div><div class="ttdef"><b>Definition:</b> FeatureFinderDefs.h:63</div></div>
<div class="ttc" id="FeaFiModule_8h_html"><div class="ttname"><a href="FeaFiModule_8h.html">FeaFiModule.h</a></div></div>
<div class="ttc" id="structOpenMS_1_1SimpleExtender_1_1IndexWithPriority_1_1PriorityLess_html"><div class="ttname"><a href="structOpenMS_1_1SimpleExtender_1_1IndexWithPriority_1_1PriorityLess.html">OpenMS::SimpleExtender::IndexWithPriority::PriorityLess</a></div><div class="ttdoc">Compares two indizes by priority. </div><div class="ttdef"><b>Definition:</b> SimpleExtender.h:248</div></div>
<div class="ttc" id="classOpenMS_1_1Peak2D_html_ac2d92631c8f762c7e9afe43f11e1f018af388fcb6d444ef59841ef549ca6ee0da"><div class="ttname"><a href="classOpenMS_1_1Peak2D.html#ac2d92631c8f762c7e9afe43f11e1f018af388fcb6d444ef59841ef549ca6ee0da">OpenMS::Peak2D::RT</a></div><div class="ttdoc">Retention time dimension id (0 if used as a const int) </div><div class="ttdef"><b>Definition:</b> Peak2D.h:76</div></div>
<div class="ttc" id="classOpenMS_1_1FeaFiModule_html_adf52c00b457571ad74d59a5d6fd12d1a"><div class="ttname"><a href="classOpenMS_1_1FeaFiModule.html#adf52c00b457571ad74d59a5d6fd12d1a">OpenMS::FeaFiModule::getNextRt</a></div><div class="ttdeci">void getNextRt(FeatureFinderDefs::IndexPair &index)</div><div class="ttdoc">fills index with the index of the nearest peak in the next scan </div><div class="ttdef"><b>Definition:</b> FeaFiModule.h:267</div></div>
<div class="ttc" id="classOpenMS_1_1FeaFiModule_html_a221361082f641c3fccc58e9bc66aeee1"><div class="ttname"><a href="classOpenMS_1_1FeaFiModule.html#a221361082f641c3fccc58e9bc66aeee1">OpenMS::FeaFiModule::IntensityType</a></div><div class="ttdeci">PeakType::IntensityType IntensityType</div><div class="ttdoc">Input intensity type. </div><div class="ttdef"><b>Definition:</b> FeaFiModule.h:168</div></div>
<div class="ttc" id="classOpenMS_1_1FeatureMap_html"><div class="ttname"><a href="classOpenMS_1_1FeatureMap.html">OpenMS::FeatureMap</a></div><div class="ttdoc">A container for features. </div><div class="ttdef"><b>Definition:</b> FeatureMap.h:111</div></div>
<div class="ttc" id="group__Conditions_html_ga45a74ea28109e7e1ed992fbd2ee97778"><div class="ttname"><a href="group__Conditions.html#ga45a74ea28109e7e1ed992fbd2ee97778">OPENMS_PRECONDITION</a></div><div class="ttdeci">#define OPENMS_PRECONDITION(condition, message)</div><div class="ttdoc">Precondition macro. </div><div class="ttdef"><b>Definition:</b> Macros.h:107</div></div>
<div class="ttc" id="classOpenMS_1_1SimpleExtender_html_a4dd25252cea93b2f55d6e5867ce513bd"><div class="ttname"><a href="classOpenMS_1_1SimpleExtender.html#a4dd25252cea93b2f55d6e5867ce513bd">OpenMS::SimpleExtender::SimpleExtender</a></div><div class="ttdeci">SimpleExtender()</div><div class="ttdoc">Not implemented. </div></div>
<div class="ttc" id="classdouble_html"><div class="ttname"><a href="classdouble.html">double</a></div></div>
<div class="ttc" id="classOpenMS_1_1Peak2D_html_ac2d92631c8f762c7e9afe43f11e1f018a35008b046ec2687e53152082281d0867"><div class="ttname"><a href="classOpenMS_1_1Peak2D.html#ac2d92631c8f762c7e9afe43f11e1f018a35008b046ec2687e53152082281d0867">OpenMS::Peak2D::MZ</a></div><div class="ttdoc">Mass-to-charge dimension id (1 if used as a const int) </div><div class="ttdef"><b>Definition:</b> Peak2D.h:77</div></div>
<div class="ttc" id="classOpenMS_1_1FeaFiModule_html_a62c6d0208b4fc2bc51e55eea8ea1ce9d"><div class="ttname"><a href="classOpenMS_1_1FeaFiModule.html#a62c6d0208b4fc2bc51e55eea8ea1ce9d">OpenMS::FeaFiModule::getPrevMz</a></div><div class="ttdeci">void getPrevMz(FeatureFinderDefs::IndexPair &index) const </div><div class="ttdoc">fills index with the index of previous peak in m/z dimension </div><div class="ttdef"><b>Definition:</b> FeaFiModule.h:246</div></div>
<div class="ttc" id="classOpenMS_1_1FeaFiModule_html_adf68cb378c76b322b2cc4dbb2c145a3e"><div class="ttname"><a href="classOpenMS_1_1FeaFiModule.html#adf68cb378c76b322b2cc4dbb2c145a3e">OpenMS::FeaFiModule::ff_</a></div><div class="ttdeci">FeatureFinder * ff_</div><div class="ttdoc">Pointer to the calling FeatureFinder that is used to access the feature flags and report progress...</div><div class="ttdef"><b>Definition:</b> FeaFiModule.h:415</div></div>
<div class="ttc" id="structOpenMS_1_1FeatureFinderDefs_html"><div class="ttname"><a href="structOpenMS_1_1FeatureFinderDefs.html">OpenMS::FeatureFinderDefs</a></div><div class="ttdoc">The purpose of this struct is to provide definitions of classes and typedefs which are used throughou...</div><div class="ttdef"><b>Definition:</b> FeatureFinderDefs.h:51</div></div>
<div class="ttc" id="classOpenMS_1_1FeaFiModule_html_a365c5cf67d48519199fe00cb5688d628"><div class="ttname"><a href="classOpenMS_1_1FeaFiModule.html#a365c5cf67d48519199fe00cb5688d628">OpenMS::FeaFiModule::map_</a></div><div class="ttdeci">const MapType * map_</div><div class="ttdoc">Input data pointer. </div><div class="ttdef"><b>Definition:</b> FeaFiModule.h:411</div></div>
<div class="ttc" id="classOpenMS_1_1SimpleExtender_html_a3ff45f6c20e60f681eb4a4057046365a"><div class="ttname"><a href="classOpenMS_1_1SimpleExtender.html#a3ff45f6c20e60f681eb4a4057046365a">OpenMS::SimpleExtender::last_pos_extracted_</a></div><div class="ttdeci">DPosition< 2 > last_pos_extracted_</div><div class="ttdoc">Position of last peak extracted from the boundary (used to compute the priority of neighbouring peaks...</div><div class="ttdef"><b>Definition:</b> SimpleExtender.h:415</div></div>
<div class="ttc" id="classOpenMS_1_1SimpleExtender_html_ab858156ff4f42ae4048114b536c4d6ca"><div class="ttname"><a href="classOpenMS_1_1SimpleExtender.html#ab858156ff4f42ae4048114b536c4d6ca">OpenMS::SimpleExtender::boundary_</a></div><div class="ttdeci">std::priority_queue< IndexWithPriority, std::vector< IndexWithPriority >, typename IndexWithPriority::PriorityLess > boundary_</div><div class="ttdoc">Represents the boundary of a feature. </div><div class="ttdef"><b>Definition:</b> SimpleExtender.h:418</div></div>
<div class="ttc" id="structOpenMS_1_1SimpleExtender_1_1IndexWithPriority_html_ae138c9d8b5236dce0ba0250360815ee4"><div class="ttname"><a href="structOpenMS_1_1SimpleExtender_1_1IndexWithPriority.html#ae138c9d8b5236dce0ba0250360815ee4">OpenMS::SimpleExtender::IndexWithPriority::priority</a></div><div class="ttdeci">ProbabilityType priority</div><div class="ttdef"><b>Definition:</b> SimpleExtender.h:245</div></div>
<div class="ttc" id="classOpenMS_1_1SimpleExtender_html_abc23946becf3ace5a04ce8da5d03d41a"><div class="ttname"><a href="classOpenMS_1_1SimpleExtender.html#abc23946becf3ace5a04ce8da5d03d41a">OpenMS::SimpleExtender::operator=</a></div><div class="ttdeci">SimpleExtender & operator=(const SimpleExtender &)</div><div class="ttdoc">Not implemented. </div></div>
<div class="ttc" id="classOpenMS_1_1FeaFiModule_html_a606049d47faacd506705556d333849a2"><div class="ttname"><a href="classOpenMS_1_1FeaFiModule.html#a606049d47faacd506705556d333849a2">OpenMS::FeaFiModule::getPeakMz</a></div><div class="ttdeci">CoordinateType getPeakMz(const FeatureFinderDefs::IndexPair &index) const </div><div class="ttdoc">Returns the m/z of a peak. </div><div class="ttdef"><b>Definition:</b> FeaFiModule.h:200</div></div>
<div class="ttc" id="classOpenMS_1_1Param_html_abd0f5571675ec99e1aa647b39e2a8711"><div class="ttname"><a href="classOpenMS_1_1Param.html#abd0f5571675ec99e1aa647b39e2a8711">OpenMS::Param::getValue</a></div><div class="ttdeci">const DataValue & getValue(const String &key) const </div><div class="ttdoc">Returns a value of a parameter. </div></div>
<div class="ttc" id="classOpenMS_1_1SimpleExtender_html_a2a565aa56d3937ea9ceefca1780ace7d"><div class="ttname"><a href="classOpenMS_1_1SimpleExtender.html#a2a565aa56d3937ea9ceefca1780ace7d">OpenMS::SimpleExtender::region_</a></div><div class="ttdeci">ChargedIndexSet region_</div><div class="ttdoc">charged index set </div><div class="ttdef"><b>Definition:</b> SimpleExtender.h:436</div></div>
<div class="ttc" id="classOpenMS_1_1FeaFiModule_html_ad4efb644d8a117edfaf7f0f5a9b34e0a"><div class="ttname"><a href="classOpenMS_1_1FeaFiModule.html#ad4efb644d8a117edfaf7f0f5a9b34e0a">OpenMS::FeaFiModule::getPrevRt</a></div><div class="ttdeci">void getPrevRt(FeatureFinderDefs::IndexPair &index)</div><div class="ttdoc">fills index with the index of the nearest peak in the previous scan </div><div class="ttdef"><b>Definition:</b> FeaFiModule.h:323</div></div>
<div class="ttc" id="classOpenMS_1_1DPosition_html"><div class="ttname"><a href="classOpenMS_1_1DPosition.html">OpenMS::DPosition< 2 ></a></div></div>
<div class="ttc" id="structOpenMS_1_1SimpleExtender_1_1IndexWithPriority_html_ab357bcae242be91471c4c45149871dc9"><div class="ttname"><a href="structOpenMS_1_1SimpleExtender_1_1IndexWithPriority.html#ab357bcae242be91471c4c45149871dc9">OpenMS::SimpleExtender::IndexWithPriority::index</a></div><div class="ttdeci">IndexPair index</div><div class="ttdef"><b>Definition:</b> SimpleExtender.h:244</div></div>
<div class="ttc" id="classOpenMS_1_1Math_1_1AveragePosition_html_a7d8aef8a439ca984c2dfb1bc01ce0845"><div class="ttname"><a href="classOpenMS_1_1Math_1_1AveragePosition.html#a7d8aef8a439ca984c2dfb1bc01ce0845">OpenMS::Math::AveragePosition::getPosition</a></div><div class="ttdeci">PositionType const & getPosition() const </div><div class="ttdoc">Returns the current average position. </div><div class="ttdef"><b>Definition:</b> AveragePosition.h:92</div></div>
<div class="ttc" id="classOpenMS_1_1SimpleExtender_html_a79ea228cdc8755284e64dd9f625170a3"><div class="ttname"><a href="classOpenMS_1_1SimpleExtender.html#a79ea228cdc8755284e64dd9f625170a3">OpenMS::SimpleExtender::Base</a></div><div class="ttdeci">FeaFiModule< PeakType, FeatureType > Base</div><div class="ttdef"><b>Definition:</b> SimpleExtender.h:84</div></div>
<div class="ttc" id="classOpenMS_1_1SimpleExtender_html_a0d642765897747c34debb18095cde304"><div class="ttname"><a href="classOpenMS_1_1SimpleExtender.html#a0d642765897747c34debb18095cde304">OpenMS::SimpleExtender::writeDebugFile_</a></div><div class="ttdeci">void writeDebugFile_(const std::vector< IndexPair > &peaks, UInt nr_feat)</div><div class="ttdoc">write DTA2D debug file for the feature with index nr_feat </div><div class="ttdef"><b>Definition:</b> SimpleExtender.h:270</div></div>
<div class="ttc" id="classOpenMS_1_1SimpleExtender_html_a6a58dff295c66bfc5fc3ad241aef707b"><div class="ttname"><a href="classOpenMS_1_1SimpleExtender.html#a6a58dff295c66bfc5fc3ad241aef707b">OpenMS::SimpleExtender::dist_rt_down_</a></div><div class="ttdeci">CoordinateType dist_rt_down_</div><div class="ttdoc">Maximum distance to seed in negative retention time. </div><div class="ttdef"><b>Definition:</b> SimpleExtender.h:430</div></div>
<div class="ttc" id="classOpenMS_1_1SimpleExtender_html_af7842efcd3ecab40cf021f5cae359dbe"><div class="ttname"><a href="classOpenMS_1_1SimpleExtender.html#af7842efcd3ecab40cf021f5cae359dbe">OpenMS::SimpleExtender::computePeakPriority_</a></div><div class="ttdeci">ProbabilityType computePeakPriority_(const IndexPair &index)</div><div class="ttdoc">Computes the priority of a peak as function of intensity and distance from seed. </div><div class="ttdef"><b>Definition:</b> SimpleExtender.h:377</div></div>
<div class="ttc" id="classOpenMS_1_1SimpleExtender_html"><div class="ttname"><a href="classOpenMS_1_1SimpleExtender.html">OpenMS::SimpleExtender</a></div><div class="ttdoc">Simple feature extension algorithm. </div><div class="ttdef"><b>Definition:</b> SimpleExtender.h:79</div></div>
<div class="ttc" id="classOpenMS_1_1StringList_html_a5f86b59b547048311dd50df5fb6d3bb5"><div class="ttname"><a href="classOpenMS_1_1StringList.html#a5f86b59b547048311dd50df5fb6d3bb5">OpenMS::StringList::create</a></div><div class="ttdeci">static StringList create(const String &list, const char splitter= ',')</div><div class="ttdoc">Returns a list that is created by splitting the given (comma-separated) string (String are not trimme...</div></div>
<div class="ttc" id="classOpenMS_1_1SimpleExtender_html_acd6346d244fe3056de90cd27ab700b79"><div class="ttname"><a href="classOpenMS_1_1SimpleExtender.html#acd6346d244fe3056de90cd27ab700b79">OpenMS::SimpleExtender::dist_rt_up_</a></div><div class="ttdeci">CoordinateType dist_rt_up_</div><div class="ttdoc">Maximum distance to seed in positive retention time. </div><div class="ttdef"><b>Definition:</b> SimpleExtender.h:428</div></div>
<div class="ttc" id="classOpenMS_1_1FeatureFinderDefs_1_1NoSuccessor_html"><div class="ttname"><a href="classOpenMS_1_1FeatureFinderDefs_1_1NoSuccessor.html">OpenMS::FeatureFinderDefs::NoSuccessor</a></div><div class="ttdoc">Exception that is thrown if a method an invalid IndexPair is given. </div><div class="ttdef"><b>Definition:</b> FeatureFinderDefs.h:66</div></div>
<div class="ttc" id="classOpenMS_1_1String_html_a9d0fab14e2a7a5970214c943d54da700"><div class="ttname"><a href="classOpenMS_1_1String.html#a9d0fab14e2a7a5970214c943d54da700">OpenMS::String::fillLeft</a></div><div class="ttdeci">String & fillLeft(char c, UInt size)</div><div class="ttdoc">Adds c on the left side until the size of the string is size. </div></div>
<div class="ttc" id="classOpenMS_1_1MSExperiment_html"><div class="ttname"><a href="classOpenMS_1_1MSExperiment.html">OpenMS::MSExperiment</a></div><div class="ttdoc">Representation of a mass spectrometry experiment. </div><div class="ttdef"><b>Definition:</b> MSExperiment.h:68</div></div>
<div class="ttc" id="classOpenMS_1_1SimpleExtender_html_a57d39ae1e384f0f536b054e012d082d8"><div class="ttname"><a href="classOpenMS_1_1SimpleExtender.html#a57d39ae1e384f0f536b054e012d082d8">OpenMS::SimpleExtender::dist_mz_down_</a></div><div class="ttdeci">CoordinateType dist_mz_down_</div><div class="ttdoc">Maximum distance to seed in negative m/z. </div><div class="ttdef"><b>Definition:</b> SimpleExtender.h:426</div></div>
<div class="ttc" id="classOpenMS_1_1Math_1_1AveragePosition_html_aab83fef12a65ca4880219fc70de3aab5"><div class="ttname"><a href="classOpenMS_1_1Math_1_1AveragePosition.html#aab83fef12a65ca4880219fc70de3aab5">OpenMS::Math::AveragePosition::add</a></div><div class="ttdeci">void add(PositionType position, CoordinateType const weight=1)</div><div class="ttdoc">Add a position. </div><div class="ttdef"><b>Definition:</b> AveragePosition.h:113</div></div>
<div class="ttc" id="structOpenMS_1_1SimpleExtender_1_1IndexWithPriority_html_afd86213ee8bc3472479345914cffd9de"><div class="ttname"><a href="structOpenMS_1_1SimpleExtender_1_1IndexWithPriority.html#afd86213ee8bc3472479345914cffd9de">OpenMS::SimpleExtender::IndexWithPriority::IndexWithPriority</a></div><div class="ttdeci">IndexWithPriority(const FeatureFinderDefs::IndexPair &i, DoubleReal p)</div><div class="ttdef"><b>Definition:</b> SimpleExtender.h:238</div></div>
<div class="ttc" id="classOpenMS_1_1SimpleExtender_html_a776f7572fc4f466e9527ca233471920d"><div class="ttname"><a href="classOpenMS_1_1SimpleExtender.html#a776f7572fc4f466e9527ca233471920d">OpenMS::SimpleExtender::updateMembers_</a></div><div class="ttdeci">virtual void updateMembers_()</div><div class="ttdoc">This method is used to update extra member variables at the end of the setParameters() method...</div><div class="ttdef"><b>Definition:</b> SimpleExtender.h:260</div></div>
<div class="ttc" id="classOpenMS_1_1SimpleExtender_html_a5d4e59b887e694af404c49d0a684fd97"><div class="ttname"><a href="classOpenMS_1_1SimpleExtender.html#a5d4e59b887e694af404c49d0a684fd97">OpenMS::SimpleExtender::SimpleExtender</a></div><div class="ttdeci">SimpleExtender(const MSExperiment< PeakType > *map, FeatureMap< FeatureType > *features, FeatureFinder *ff)</div><div class="ttdoc">Constructor. </div><div class="ttdef"><b>Definition:</b> SimpleExtender.h:94</div></div>
<div class="ttc" id="structOpenMS_1_1SimpleExtender_1_1IndexWithPriority_1_1PriorityLess_html_a1a8a07ce1c989507ef080f86788434bb"><div class="ttname"><a href="structOpenMS_1_1SimpleExtender_1_1IndexWithPriority_1_1PriorityLess.html#a1a8a07ce1c989507ef080f86788434bb">OpenMS::SimpleExtender::IndexWithPriority::PriorityLess::operator()</a></div><div class="ttdeci">bool operator()(const IndexWithPriority &x, const IndexWithPriority &y) const </div><div class="ttdef"><b>Definition:</b> SimpleExtender.h:250</div></div>
<div class="ttc" id="structOpenMS_1_1IsotopeCluster_1_1ChargedIndexSet_html"><div class="ttname"><a href="structOpenMS_1_1IsotopeCluster_1_1ChargedIndexSet.html">OpenMS::IsotopeCluster::ChargedIndexSet</a></div><div class="ttdoc">index set with associated charge estimate </div><div class="ttdef"><b>Definition:</b> IsotopeCluster.h:53</div></div>
<div class="ttc" id="group__Concept_html_gaf9ecec2d692138fab9167164a457cbd4"><div class="ttname"><a href="group__Concept.html#gaf9ecec2d692138fab9167164a457cbd4">OpenMS::Size</a></div><div class="ttdeci">size_t Size</div><div class="ttdoc">Size type e.g. used as variable which can hold result of size() </div><div class="ttdef"><b>Definition:</b> Types.h:144</div></div>
<div class="ttc" id="AveragePosition_8h_html"><div class="ttname"><a href="AveragePosition_8h.html">AveragePosition.h</a></div></div>
<div class="ttc" id="classOpenMS_1_1SimpleExtender_html_a36b5d54b1a3a55b7cf46576fd849c299"><div class="ttname"><a href="classOpenMS_1_1SimpleExtender.html#a36b5d54b1a3a55b7cf46576fd849c299">OpenMS::SimpleExtender::moveMzUp_</a></div><div class="ttdeci">void moveMzUp_(const IndexPair &index)</div><div class="ttdoc">Extends the seed into positive m/z direction. </div><div class="ttdef"><b>Definition:</b> SimpleExtender.h:304</div></div>
<div class="ttc" id="classOpenMS_1_1SimpleExtender_html_a9c6a1a832b915ac89376cec9dbf009b7"><div class="ttname"><a href="classOpenMS_1_1SimpleExtender.html#a9c6a1a832b915ac89376cec9dbf009b7">OpenMS::SimpleExtender::moveMzDown_</a></div><div class="ttdeci">void moveMzDown_(const IndexPair &index)</div><div class="ttdoc">Extends the seed into negative m/z direction. </div><div class="ttdef"><b>Definition:</b> SimpleExtender.h:322</div></div>
<div class="ttc" id="classOpenMS_1_1SimpleExtender_html_a8597c0a5982f48f9a8387e286b0251b0"><div class="ttname"><a href="classOpenMS_1_1SimpleExtender.html#a8597c0a5982f48f9a8387e286b0251b0">OpenMS::SimpleExtender::checkNeighbour_</a></div><div class="ttdeci">void checkNeighbour_(const IndexPair &index)</div><div class="ttdoc">Checks the neighbours of the current for insertion into the boundary. </div><div class="ttdef"><b>Definition:</b> SimpleExtender.h:383</div></div>
<div class="ttc" id="classOpenMS_1_1SimpleExtender_html_af560e97f4f00d467116a5791bcdf7ca5"><div class="ttname"><a href="classOpenMS_1_1SimpleExtender.html#af560e97f4f00d467116a5791bcdf7ca5">OpenMS::SimpleExtender::isTooFarFromCentroid_</a></div><div class="ttdeci">bool isTooFarFromCentroid_(const IndexPair &index)</div><div class="ttdoc">Checks if the current peak is too far from the centroid. </div><div class="ttdef"><b>Definition:</b> SimpleExtender.h:282</div></div>
<div class="ttc" id="structOpenMS_1_1IsotopeCluster_1_1ChargedIndexSet_html_a8253a7962ca1c79b71e6af96589b7720"><div class="ttname"><a href="structOpenMS_1_1IsotopeCluster_1_1ChargedIndexSet.html#a8253a7962ca1c79b71e6af96589b7720">OpenMS::IsotopeCluster::ChargedIndexSet::charge</a></div><div class="ttdeci">Int charge</div><div class="ttdoc">charge estimate (convention: zero means &quot;no charge estimate&quot;) </div><div class="ttdef"><b>Definition:</b> IsotopeCluster.h:62</div></div>
<div class="ttc" id="classOpenMS_1_1SimpleExtender_html_a18a547e6c7ecaf916c40c86d2739d876"><div class="ttname"><a href="classOpenMS_1_1SimpleExtender.html#a18a547e6c7ecaf916c40c86d2739d876">OpenMS::SimpleExtender::dist_mz_up_</a></div><div class="ttdeci">CoordinateType dist_mz_up_</div><div class="ttdoc">Maximum distance to seed in positive m/z. </div><div class="ttdef"><b>Definition:</b> SimpleExtender.h:424</div></div>
<div class="ttc" id="classOpenMS_1_1FeatureFinder_html"><div class="ttname"><a href="classOpenMS_1_1FeatureFinder.html">OpenMS::FeatureFinder</a></div><div class="ttdoc">The main feature finder class. </div><div class="ttdef"><b>Definition:</b> FeatureFinder.h:57</div></div>
<div class="ttc" id="classOpenMS_1_1SimpleExtender_html_a7f4bbff96a2ea0e3d46711022de26b29"><div class="ttname"><a href="classOpenMS_1_1SimpleExtender.html#a7f4bbff96a2ea0e3d46711022de26b29">OpenMS::SimpleExtender::moveRtDown_</a></div><div class="ttdeci">void moveRtDown_(const IndexPair &index)</div><div class="ttdoc">Extends the seed into negative retention time direction. </div><div class="ttdef"><b>Definition:</b> SimpleExtender.h:359</div></div>
<div class="ttc" id="classOpenMS_1_1DefaultParamHandler_html_a77d37f2e1c12e8bd33ea0e660a89e927"><div class="ttname"><a href="classOpenMS_1_1DefaultParamHandler.html#a77d37f2e1c12e8bd33ea0e660a89e927">OpenMS::DefaultParamHandler::setName</a></div><div class="ttdeci">void setName(const String &name)</div><div class="ttdoc">Mutable access to the name. </div></div>
<div class="ttc" id="classOpenMS_1_1SimpleExtender_html_a148f3853784fb91146ee0a2c97fbe152"><div class="ttname"><a href="classOpenMS_1_1SimpleExtender.html#a148f3853784fb91146ee0a2c97fbe152">OpenMS::SimpleExtender::ProbabilityType</a></div><div class="ttdeci">DoubleReal ProbabilityType</div><div class="ttdoc">Priority of a point (see below) </div><div class="ttdef"><b>Definition:</b> SimpleExtender.h:91</div></div>
<div class="ttc" id="classOpenMS_1_1FeatureFinder_html_a91adbb58dfeb79d2b5d78c1047f406c9"><div class="ttname"><a href="classOpenMS_1_1FeatureFinder.html#a91adbb58dfeb79d2b5d78c1047f406c9">OpenMS::FeatureFinder::getPeakFlag</a></div><div class="ttdeci">const Flag & getPeakFlag(const IndexPair &index) const </div><div class="ttdoc">Returns a non-mutable reference to a peak flag. </div><div class="ttdef"><b>Definition:</b> FeatureFinder.h:91</div></div>
<div class="ttc" id="classOpenMS_1_1SimpleExtender_html_a5e88ec4351e6e6835be11ef6fd88a800"><div class="ttname"><a href="classOpenMS_1_1SimpleExtender.html#a5e88ec4351e6e6835be11ef6fd88a800">OpenMS::SimpleExtender::running_avg_</a></div><div class="ttdeci">Math::AveragePosition< 2 > running_avg_</div><div class="ttdoc">keeps an running average of the peak coordinates weighted by the intensities </div><div class="ttdef"><b>Definition:</b> SimpleExtender.h:409</div></div>
<div class="ttc" id="classOpenMS_1_1Param_html_aadc7a8536eb15f8c6fa05eefca0e25be"><div class="ttname"><a href="classOpenMS_1_1Param.html#aadc7a8536eb15f8c6fa05eefca0e25be">OpenMS::Param::setMinFloat</a></div><div class="ttdeci">void setMinFloat(const String &key, DoubleReal min)</div><div class="ttdoc">Sets the minimum value for the floating point or floating point list parameter key. </div></div>
<div class="ttc" id="classOpenMS_1_1SimpleExtender_html_a20f835e907d9386f5ba2a89f14c3734c"><div class="ttname"><a href="classOpenMS_1_1SimpleExtender.html#a20f835e907d9386f5ba2a89f14c3734c">OpenMS::SimpleExtender::priority_threshold_</a></div><div class="ttdeci">ProbabilityType priority_threshold_</div><div class="ttdoc">Minium priority for points in the feature region (priority is function of intensity and distance to s...</div><div class="ttdef"><b>Definition:</b> SimpleExtender.h:433</div></div>
<div class="ttc" id="classOpenMS_1_1SimpleExtender_html_a420c696605c1efb3452c768d665f6313"><div class="ttname"><a href="classOpenMS_1_1SimpleExtender.html#a420c696605c1efb3452c768d665f6313">OpenMS::SimpleExtender::~SimpleExtender</a></div><div class="ttdeci">virtual ~SimpleExtender()</div><div class="ttdoc">destructor </div><div class="ttdef"><b>Definition:</b> SimpleExtender.h:122</div></div>
<div class="ttc" id="classOpenMS_1_1DefaultParamHandler_html_a2802c591e6d7fd3fd9cc35f5e875d0ba"><div class="ttname"><a href="classOpenMS_1_1DefaultParamHandler.html#a2802c591e6d7fd3fd9cc35f5e875d0ba">OpenMS::DefaultParamHandler::defaultsToParam_</a></div><div class="ttdeci">void defaultsToParam_()</div><div class="ttdoc">Updates the parameters after the defaults have been set in the constructor. </div></div>
<div class="ttc" id="classOpenMS_1_1Param_html_a6b40506fffbae670045d065c354bb9b8"><div class="ttname"><a href="classOpenMS_1_1Param.html#a6b40506fffbae670045d065c354bb9b8">OpenMS::Param::setMaxFloat</a></div><div class="ttdeci">void setMaxFloat(const String &key, DoubleReal max)</div><div class="ttdoc">Sets the maximum value for the floating point or floating point list parameter key. </div></div>
<div class="ttc" id="classOpenMS_1_1SimpleExtender_html_a889c3e7e8b35115eea733b1204872d86"><div class="ttname"><a href="classOpenMS_1_1SimpleExtender.html#a889c3e7e8b35115eea733b1204872d86">OpenMS::SimpleExtender::intensity_threshold_</a></div><div class="ttdeci">IntensityType intensity_threshold_</div><div class="ttdoc">Mininum intensity of a boundary point. Calculated from &#39;intensity_factor&#39; and the seed intensity...</div><div class="ttdef"><b>Definition:</b> SimpleExtender.h:421</div></div>
<div class="ttc" id="group__Concept_html_gace75bfb1aba684e874dffee13738bd15"><div class="ttname"><a href="group__Concept.html#gace75bfb1aba684e874dffee13738bd15">OpenMS::DoubleReal</a></div><div class="ttdeci">double DoubleReal</div><div class="ttdoc">Double-precision real type. </div><div class="ttdef"><b>Definition:</b> Types.h:118</div></div>
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<TD><font color="#c0c0c0">OpenMS / TOPP release 1.11.1</font></TD>
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