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<a href="DistanceMatrix_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: Mathias Walzer $</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_DATASTRUCTURES_DISTANCEMATRIX_H</span></div>
<div class="line"><a name="l00036"></a><span class="lineno"> 36</span> <span class="preprocessor"></span><span class="preprocessor">#define OPENMS_DATASTRUCTURES_DISTANCEMATRIX_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="Macros_8h.html">OpenMS/CONCEPT/Macros.h</a>></span></div>
<div class="line"><a name="l00039"></a><span class="lineno"> 39</span> <span class="preprocessor">#include <<a class="code" href="Types_8h.html">OpenMS/CONCEPT/Types.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 <cmath></span></div>
<div class="line"><a name="l00042"></a><span class="lineno"> 42</span> <span class="preprocessor">#include <algorithm></span></div>
<div class="line"><a name="l00043"></a><span class="lineno"> 43</span> <span class="preprocessor">#include <iomanip></span></div>
<div class="line"><a name="l00044"></a><span class="lineno"> 44</span> <span class="preprocessor">#include <iostream></span></div>
<div class="line"><a name="l00045"></a><span class="lineno"> 45</span> </div>
<div class="line"><a name="l00046"></a><span class="lineno"> 46</span> <span class="keyword">namespace </span>OpenMS</div>
<div class="line"><a name="l00047"></a><span class="lineno"> 47</span> {</div>
<div class="line"><a name="l00048"></a><span class="lineno"> 48</span> </div>
<div class="line"><a name="l00056"></a><span class="lineno"> 56</span>  <span class="keyword">template</span> <<span class="keyword">typename</span> Value></div>
<div class="line"><a name="l00057"></a><span class="lineno"><a class="line" href="classOpenMS_1_1DistanceMatrix.html"> 57</a></span>  <span class="keyword">class </span><a class="code" href="classOpenMS_1_1DistanceMatrix.html">DistanceMatrix</a></div>
<div class="line"><a name="l00058"></a><span class="lineno"> 58</span>  {</div>
<div class="line"><a name="l00059"></a><span class="lineno"> 59</span> <span class="keyword">public</span>:</div>
<div class="line"><a name="l00060"></a><span class="lineno"> 60</span> </div>
<div class="line"><a name="l00062"></a><span class="lineno"> 62</span> </div>
<div class="line"><a name="l00063"></a><span class="lineno"><a class="line" href="classOpenMS_1_1DistanceMatrix.html#a04f69f8f2936ff309627511179c1709b"> 63</a></span>  <span class="keyword">typedef</span> Value <a class="code" href="classOpenMS_1_1DistanceMatrix.html#a04f69f8f2936ff309627511179c1709b">value_type</a>;</div>
<div class="line"><a name="l00065"></a><span class="lineno"> 65</span> </div>
<div class="line"><a name="l00067"></a><span class="lineno"> 67</span> </div>
<div class="line"><a name="l00068"></a><span class="lineno"><a class="line" href="classOpenMS_1_1DistanceMatrix.html#a542a35bfe376b8808bcc706c4c0f97c9"> 68</a></span>  <span class="keyword">typedef</span> <a class="code" href="group__Concept.html#gaf9ecec2d692138fab9167164a457cbd4">Size</a> <a class="code" href="classOpenMS_1_1DistanceMatrix.html#a542a35bfe376b8808bcc706c4c0f97c9">SizeType</a>;</div>
<div class="line"><a name="l00069"></a><span class="lineno"><a class="line" href="classOpenMS_1_1DistanceMatrix.html#a7a91b2f634e68c0554b1ff887bb27f8b"> 69</a></span>  <span class="keyword">typedef</span> <a class="code" href="classOpenMS_1_1DistanceMatrix.html#a04f69f8f2936ff309627511179c1709b">value_type</a> <a class="code" href="classOpenMS_1_1DistanceMatrix.html#a7a91b2f634e68c0554b1ff887bb27f8b">ValueType</a>;</div>
<div class="line"><a name="l00071"></a><span class="lineno"> 71</span> </div>
<div class="line"><a name="l00075"></a><span class="lineno"><a class="line" href="classOpenMS_1_1DistanceMatrix.html#a170c264d284311b0ee14d661cae811eb"> 75</a></span>  <a class="code" href="classOpenMS_1_1DistanceMatrix.html#a170c264d284311b0ee14d661cae811eb">DistanceMatrix</a>() :</div>
<div class="line"><a name="l00076"></a><span class="lineno"> 76</span>  <a class="code" href="classOpenMS_1_1DistanceMatrix.html#a7024aa9cf569836f06db38a1ac717f24">matrix_</a>(0), <a class="code" href="classOpenMS_1_1DistanceMatrix.html#a8203038f59733ed435f17e4ecb188cda">init_size_</a>(0), <a class="code" href="classOpenMS_1_1DistanceMatrix.html#acf53d5613fa58f163a0c81308a71a4e3">dimensionsize_</a>(0), <a class="code" href="classOpenMS_1_1DistanceMatrix.html#a5c474c264633a2febf0bffe7a29a55f8">min_element_</a>(0, 0)</div>
<div class="line"><a name="l00077"></a><span class="lineno"> 77</span>  {</div>
<div class="line"><a name="l00078"></a><span class="lineno"> 78</span>  }</div>
<div class="line"><a name="l00079"></a><span class="lineno"> 79</span> </div>
<div class="line"><a name="l00086"></a><span class="lineno"><a class="line" href="classOpenMS_1_1DistanceMatrix.html#a86a62b81ec1f4963eafa2e4553a7c407"> 86</a></span>  <a class="code" href="classOpenMS_1_1DistanceMatrix.html#a86a62b81ec1f4963eafa2e4553a7c407">DistanceMatrix</a>(<a class="code" href="classOpenMS_1_1DistanceMatrix.html#a542a35bfe376b8808bcc706c4c0f97c9">SizeType</a> <a class="code" href="classOpenMS_1_1DistanceMatrix.html#af7ead7da765bc700381795644e5336d9">dimensionsize</a>, Value value = Value()) :</div>
<div class="line"><a name="l00087"></a><span class="lineno"> 87</span>  <a class="code" href="classOpenMS_1_1DistanceMatrix.html#a7024aa9cf569836f06db38a1ac717f24">matrix_</a>(new <a class="code" href="classOpenMS_1_1DistanceMatrix.html#a7a91b2f634e68c0554b1ff887bb27f8b">ValueType</a> *[dimensionsize]), <a class="code" href="classOpenMS_1_1DistanceMatrix.html#a8203038f59733ed435f17e4ecb188cda">init_size_</a>(dimensionsize), <a class="code" href="classOpenMS_1_1DistanceMatrix.html#acf53d5613fa58f163a0c81308a71a4e3">dimensionsize_</a>(dimensionsize), <a class="code" href="classOpenMS_1_1DistanceMatrix.html#a5c474c264633a2febf0bffe7a29a55f8">min_element_</a>(0, 0)</div>
<div class="line"><a name="l00088"></a><span class="lineno"> 88</span>  {</div>
<div class="line"><a name="l00089"></a><span class="lineno"> 89</span>  <a class="code" href="classOpenMS_1_1DistanceMatrix.html#a7024aa9cf569836f06db38a1ac717f24">matrix_</a>[0] = <a class="code" href="IsotopeWaveletParallelFor_8h.html#a070d2ce7b6bb7e5c05602aa8c308d0c4">NULL</a>;</div>
<div class="line"><a name="l00090"></a><span class="lineno"> 90</span>  <a class="code" href="classOpenMS_1_1DistanceMatrix.html#a542a35bfe376b8808bcc706c4c0f97c9">SizeType</a> i = 1;</div>
<div class="line"><a name="l00091"></a><span class="lineno"> 91</span>  <span class="keywordflow">for</span> (i = 1; i < <a class="code" href="classOpenMS_1_1DistanceMatrix.html#af7ead7da765bc700381795644e5336d9">dimensionsize</a>; ++i)</div>
<div class="line"><a name="l00092"></a><span class="lineno"> 92</span>  {</div>
<div class="line"><a name="l00093"></a><span class="lineno"> 93</span>  <a class="code" href="classOpenMS_1_1DistanceMatrix.html#a7024aa9cf569836f06db38a1ac717f24">matrix_</a>[i] = <span class="keyword">new</span> <a class="code" href="classOpenMS_1_1DistanceMatrix.html#a7a91b2f634e68c0554b1ff887bb27f8b">ValueType</a>[i];</div>
<div class="line"><a name="l00094"></a><span class="lineno"> 94</span>  <span class="keywordflow">if</span> (<a class="code" href="classOpenMS_1_1DistanceMatrix.html#a7024aa9cf569836f06db38a1ac717f24">matrix_</a>[i] == <a class="code" href="IsotopeWaveletParallelFor_8h.html#a070d2ce7b6bb7e5c05602aa8c308d0c4">NULL</a>)</div>
<div class="line"><a name="l00095"></a><span class="lineno"> 95</span>  {</div>
<div class="line"><a name="l00096"></a><span class="lineno"> 96</span>  <a class="code" href="classOpenMS_1_1DistanceMatrix.html#a542a35bfe376b8808bcc706c4c0f97c9">SizeType</a> j = i;</div>
<div class="line"><a name="l00097"></a><span class="lineno"> 97</span>  <span class="keywordflow">for</span> (i = 1; i < j; i++)</div>
<div class="line"><a name="l00098"></a><span class="lineno"> 98</span>  {</div>
<div class="line"><a name="l00099"></a><span class="lineno"> 99</span>  <span class="keyword">delete</span>[] <a class="code" href="classOpenMS_1_1DistanceMatrix.html#a7024aa9cf569836f06db38a1ac717f24">matrix_</a>[i];</div>
<div class="line"><a name="l00100"></a><span class="lineno"> 100</span>  }</div>
<div class="line"><a name="l00101"></a><span class="lineno"> 101</span>  <span class="keyword">delete</span>[] <a class="code" href="classOpenMS_1_1DistanceMatrix.html#a7024aa9cf569836f06db38a1ac717f24">matrix_</a>;</div>
<div class="line"><a name="l00102"></a><span class="lineno"> 102</span>  <a class="code" href="classOpenMS_1_1DistanceMatrix.html#a7024aa9cf569836f06db38a1ac717f24">matrix_</a> = <a class="code" href="IsotopeWaveletParallelFor_8h.html#a070d2ce7b6bb7e5c05602aa8c308d0c4">NULL</a>;</div>
<div class="line"><a name="l00103"></a><span class="lineno"> 103</span>  <a class="code" href="classOpenMS_1_1DistanceMatrix.html#acf53d5613fa58f163a0c81308a71a4e3">dimensionsize_</a> = 0;</div>
<div class="line"><a name="l00104"></a><span class="lineno"> 104</span>  <a class="code" href="classOpenMS_1_1DistanceMatrix.html#a8203038f59733ed435f17e4ecb188cda">init_size_</a> = 0;</div>
<div class="line"><a name="l00105"></a><span class="lineno"> 105</span>  <span class="keywordflow">throw</span> <a class="code" href="classOpenMS_1_1Exception_1_1OutOfMemory.html">Exception::OutOfMemory</a>(__FILE__, __LINE__, __PRETTY_FUNCTION__, (<a class="code" href="classunsigned_01int.html">UInt</a>)((((dimensionsize - 2) * (dimensionsize - 1)) / 2) * <span class="keyword">sizeof</span>(<a class="code" href="classOpenMS_1_1DistanceMatrix.html#a7a91b2f634e68c0554b1ff887bb27f8b">ValueType</a>)));</div>
<div class="line"><a name="l00106"></a><span class="lineno"> 106</span>  }</div>
<div class="line"><a name="l00107"></a><span class="lineno"> 107</span>  }</div>
<div class="line"><a name="l00108"></a><span class="lineno"> 108</span>  <span class="keywordflow">if</span> (<a class="code" href="classOpenMS_1_1DistanceMatrix.html#a7024aa9cf569836f06db38a1ac717f24">matrix_</a> != <a class="code" href="IsotopeWaveletParallelFor_8h.html#a070d2ce7b6bb7e5c05602aa8c308d0c4">NULL</a>)</div>
<div class="line"><a name="l00109"></a><span class="lineno"> 109</span>  {</div>
<div class="line"><a name="l00110"></a><span class="lineno"> 110</span>  <span class="keywordflow">for</span> (i = 1; i < <a class="code" href="classOpenMS_1_1DistanceMatrix.html#af7ead7da765bc700381795644e5336d9">dimensionsize</a>; ++i)</div>
<div class="line"><a name="l00111"></a><span class="lineno"> 111</span>  {</div>
<div class="line"><a name="l00112"></a><span class="lineno"> 112</span>  <span class="keywordflow">for</span> (<a class="code" href="classOpenMS_1_1DistanceMatrix.html#a542a35bfe376b8808bcc706c4c0f97c9">SizeType</a> j = 0; j < i; ++j)</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>  <a class="code" href="classOpenMS_1_1DistanceMatrix.html#a7024aa9cf569836f06db38a1ac717f24">matrix_</a>[i][j] = value;</div>
<div class="line"><a name="l00115"></a><span class="lineno"> 115</span>  }</div>
<div class="line"><a name="l00116"></a><span class="lineno"> 116</span>  }</div>
<div class="line"><a name="l00117"></a><span class="lineno"> 117</span>  <a class="code" href="classOpenMS_1_1DistanceMatrix.html#a5c474c264633a2febf0bffe7a29a55f8">min_element_</a> = std::make_pair(1, 0);</div>
<div class="line"><a name="l00118"></a><span class="lineno"> 118</span>  }</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="l00126"></a><span class="lineno"><a class="line" href="classOpenMS_1_1DistanceMatrix.html#a4cc8125eb40e5297620ac0cf3468948e"> 126</a></span>  <a class="code" href="classOpenMS_1_1DistanceMatrix.html#a4cc8125eb40e5297620ac0cf3468948e">DistanceMatrix</a>(<span class="keyword">const</span> <a class="code" href="classOpenMS_1_1DistanceMatrix.html">DistanceMatrix</a> & source) :</div>
<div class="line"><a name="l00127"></a><span class="lineno"> 127</span>  <a class="code" href="classOpenMS_1_1DistanceMatrix.html#a7024aa9cf569836f06db38a1ac717f24">matrix_</a>(new <a class="code" href="classOpenMS_1_1DistanceMatrix.html#a7a91b2f634e68c0554b1ff887bb27f8b">ValueType</a> *[source.<a class="code" href="classOpenMS_1_1DistanceMatrix.html#acf53d5613fa58f163a0c81308a71a4e3">dimensionsize_</a>]),</div>
<div class="line"><a name="l00128"></a><span class="lineno"> 128</span>  <a class="code" href="classOpenMS_1_1DistanceMatrix.html#a8203038f59733ed435f17e4ecb188cda">init_size_</a>(source.<a class="code" href="classOpenMS_1_1DistanceMatrix.html#acf53d5613fa58f163a0c81308a71a4e3">dimensionsize_</a>),</div>
<div class="line"><a name="l00129"></a><span class="lineno"> 129</span>  <a class="code" href="classOpenMS_1_1DistanceMatrix.html#acf53d5613fa58f163a0c81308a71a4e3">dimensionsize_</a>(source.<a class="code" href="classOpenMS_1_1DistanceMatrix.html#acf53d5613fa58f163a0c81308a71a4e3">dimensionsize_</a>),</div>
<div class="line"><a name="l00130"></a><span class="lineno"> 130</span>  <a class="code" href="classOpenMS_1_1DistanceMatrix.html#a5c474c264633a2febf0bffe7a29a55f8">min_element_</a>(source.<a class="code" href="classOpenMS_1_1DistanceMatrix.html#a5c474c264633a2febf0bffe7a29a55f8">min_element_</a>)</div>
<div class="line"><a name="l00131"></a><span class="lineno"> 131</span>  {</div>
<div class="line"><a name="l00132"></a><span class="lineno"> 132</span>  <a class="code" href="classOpenMS_1_1DistanceMatrix.html#a7024aa9cf569836f06db38a1ac717f24">matrix_</a>[0] = <a class="code" href="IsotopeWaveletParallelFor_8h.html#a070d2ce7b6bb7e5c05602aa8c308d0c4">NULL</a>;</div>
<div class="line"><a name="l00133"></a><span class="lineno"> 133</span>  <a class="code" href="classOpenMS_1_1DistanceMatrix.html#a542a35bfe376b8808bcc706c4c0f97c9">SizeType</a> i = 1;</div>
<div class="line"><a name="l00134"></a><span class="lineno"> 134</span>  <span class="keywordflow">for</span> (i = 1; i < <a class="code" href="classOpenMS_1_1DistanceMatrix.html#acf53d5613fa58f163a0c81308a71a4e3">dimensionsize_</a>; ++i)</div>
<div class="line"><a name="l00135"></a><span class="lineno"> 135</span>  {</div>
<div class="line"><a name="l00136"></a><span class="lineno"> 136</span>  <a class="code" href="classOpenMS_1_1DistanceMatrix.html#a7024aa9cf569836f06db38a1ac717f24">matrix_</a>[i] = <span class="keyword">new</span> <a class="code" href="classOpenMS_1_1DistanceMatrix.html#a7a91b2f634e68c0554b1ff887bb27f8b">ValueType</a>[i];</div>
<div class="line"><a name="l00137"></a><span class="lineno"> 137</span>  <span class="keywordflow">if</span> (<a class="code" href="classOpenMS_1_1DistanceMatrix.html#a7024aa9cf569836f06db38a1ac717f24">matrix_</a>[i] == <a class="code" href="IsotopeWaveletParallelFor_8h.html#a070d2ce7b6bb7e5c05602aa8c308d0c4">NULL</a>)</div>
<div class="line"><a name="l00138"></a><span class="lineno"> 138</span>  {</div>
<div class="line"><a name="l00139"></a><span class="lineno"> 139</span>  <a class="code" href="classOpenMS_1_1DistanceMatrix.html#a542a35bfe376b8808bcc706c4c0f97c9">SizeType</a> j = i;</div>
<div class="line"><a name="l00140"></a><span class="lineno"> 140</span>  <span class="keywordflow">for</span> (i = 1; i < j; i++)</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="keyword">delete</span>[] <a class="code" href="classOpenMS_1_1DistanceMatrix.html#a7024aa9cf569836f06db38a1ac717f24">matrix_</a>[i];</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="keyword">delete</span>[] <a class="code" href="classOpenMS_1_1DistanceMatrix.html#a7024aa9cf569836f06db38a1ac717f24">matrix_</a>;</div>
<div class="line"><a name="l00145"></a><span class="lineno"> 145</span>  <a class="code" href="classOpenMS_1_1DistanceMatrix.html#a7024aa9cf569836f06db38a1ac717f24">matrix_</a> = <a class="code" href="IsotopeWaveletParallelFor_8h.html#a070d2ce7b6bb7e5c05602aa8c308d0c4">NULL</a>;</div>
<div class="line"><a name="l00146"></a><span class="lineno"> 146</span>  dimensionsize_ = 0;</div>
<div class="line"><a name="l00147"></a><span class="lineno"> 147</span>  <a class="code" href="classOpenMS_1_1DistanceMatrix.html#a8203038f59733ed435f17e4ecb188cda">init_size_</a> = 0;</div>
<div class="line"><a name="l00148"></a><span class="lineno"> 148</span>  <a class="code" href="classOpenMS_1_1DistanceMatrix.html#a5c474c264633a2febf0bffe7a29a55f8">min_element_</a> = std::make_pair(0, 0);</div>
<div class="line"><a name="l00149"></a><span class="lineno"> 149</span>  <span class="keywordflow">throw</span> <a class="code" href="classOpenMS_1_1Exception_1_1OutOfMemory.html">Exception::OutOfMemory</a>(__FILE__, __LINE__, __PRETTY_FUNCTION__, (<a class="code" href="classunsigned_01int.html">UInt</a>)((((dimensionsize_ - 2) * (dimensionsize_ - 1)) / 2) * <span class="keyword">sizeof</span>(<a class="code" href="classOpenMS_1_1DistanceMatrix.html#a7a91b2f634e68c0554b1ff887bb27f8b">ValueType</a>)));</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>  }</div>
<div class="line"><a name="l00152"></a><span class="lineno"> 152</span>  <span class="keywordflow">if</span> (<a class="code" href="classOpenMS_1_1DistanceMatrix.html#a7024aa9cf569836f06db38a1ac717f24">matrix_</a> != <a class="code" href="IsotopeWaveletParallelFor_8h.html#a070d2ce7b6bb7e5c05602aa8c308d0c4">NULL</a>)</div>
<div class="line"><a name="l00153"></a><span class="lineno"> 153</span>  {</div>
<div class="line"><a name="l00154"></a><span class="lineno"> 154</span>  <span class="keywordflow">for</span> (i = 1; i < <a class="code" href="classOpenMS_1_1DistanceMatrix.html#acf53d5613fa58f163a0c81308a71a4e3">dimensionsize_</a>; ++i)</div>
<div class="line"><a name="l00155"></a><span class="lineno"> 155</span>  {</div>
<div class="line"><a name="l00156"></a><span class="lineno"> 156</span>  std::copy(source.<a class="code" href="classOpenMS_1_1DistanceMatrix.html#a7024aa9cf569836f06db38a1ac717f24">matrix_</a>[i], source.<a class="code" href="classOpenMS_1_1DistanceMatrix.html#a7024aa9cf569836f06db38a1ac717f24">matrix_</a>[i] + i, <a class="code" href="classOpenMS_1_1DistanceMatrix.html#a7024aa9cf569836f06db38a1ac717f24">matrix_</a>[i]);</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>  }</div>
<div class="line"><a name="l00159"></a><span class="lineno"> 159</span>  }</div>
<div class="line"><a name="l00160"></a><span class="lineno"> 160</span> </div>
<div class="line"><a name="l00162"></a><span class="lineno"><a class="line" href="classOpenMS_1_1DistanceMatrix.html#a7ec2a2e1420dd94f5b6ff30c96ddc968"> 162</a></span>  <a class="code" href="classOpenMS_1_1DistanceMatrix.html#a7ec2a2e1420dd94f5b6ff30c96ddc968">~DistanceMatrix</a>()</div>
<div class="line"><a name="l00163"></a><span class="lineno"> 163</span>  {</div>
<div class="line"><a name="l00164"></a><span class="lineno"> 164</span>  <span class="keywordflow">for</span> (<a class="code" href="classOpenMS_1_1DistanceMatrix.html#a542a35bfe376b8808bcc706c4c0f97c9">SizeType</a> i = 1; i < <a class="code" href="classOpenMS_1_1DistanceMatrix.html#a8203038f59733ed435f17e4ecb188cda">init_size_</a>; i++)</div>
<div class="line"><a name="l00165"></a><span class="lineno"> 165</span>  {</div>
<div class="line"><a name="l00166"></a><span class="lineno"> 166</span>  <span class="keyword">delete</span>[] <a class="code" href="classOpenMS_1_1DistanceMatrix.html#a7024aa9cf569836f06db38a1ac717f24">matrix_</a>[i];</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="keyword">delete</span>[] <a class="code" href="classOpenMS_1_1DistanceMatrix.html#a7024aa9cf569836f06db38a1ac717f24">matrix_</a>;</div>
<div class="line"><a name="l00169"></a><span class="lineno"> 169</span>  }</div>
<div class="line"><a name="l00170"></a><span class="lineno"> 170</span> </div>
<div class="line"><a name="l00176"></a><span class="lineno"><a class="line" href="classOpenMS_1_1DistanceMatrix.html#a07846e085ca98062a2daf7c9625ab5da"> 176</a></span>  <span class="keyword">const</span> <a class="code" href="classOpenMS_1_1DistanceMatrix.html#a7a91b2f634e68c0554b1ff887bb27f8b">ValueType</a> <a class="code" href="classOpenMS_1_1DistanceMatrix.html#a07846e085ca98062a2daf7c9625ab5da">operator()</a>(<a class="code" href="classOpenMS_1_1DistanceMatrix.html#a542a35bfe376b8808bcc706c4c0f97c9">SizeType</a> i, <a class="code" href="classOpenMS_1_1DistanceMatrix.html#a542a35bfe376b8808bcc706c4c0f97c9">SizeType</a> j)<span class="keyword"> const</span></div>
<div class="line"><a name="l00177"></a><span class="lineno"> 177</span> <span class="keyword"> </span>{</div>
<div class="line"><a name="l00178"></a><span class="lineno"> 178</span>  <span class="keywordflow">return</span> <a class="code" href="classOpenMS_1_1DistanceMatrix.html#a03cd4a0d50ba76c5f974a3c7c2fa3397">getValue</a>(i, j);</div>
<div class="line"><a name="l00179"></a><span class="lineno"> 179</span>  }</div>
<div class="line"><a name="l00180"></a><span class="lineno"> 180</span> </div>
<div class="line"><a name="l00186"></a><span class="lineno"><a class="line" href="classOpenMS_1_1DistanceMatrix.html#a60267b7ebba4a41a65e18a08919308e3"> 186</a></span>  <a class="code" href="classOpenMS_1_1DistanceMatrix.html#a7a91b2f634e68c0554b1ff887bb27f8b">ValueType</a> <a class="code" href="classOpenMS_1_1DistanceMatrix.html#a60267b7ebba4a41a65e18a08919308e3">operator()</a>(<a class="code" href="classOpenMS_1_1DistanceMatrix.html#a542a35bfe376b8808bcc706c4c0f97c9">SizeType</a> i, <a class="code" href="classOpenMS_1_1DistanceMatrix.html#a542a35bfe376b8808bcc706c4c0f97c9">SizeType</a> j)</div>
<div class="line"><a name="l00187"></a><span class="lineno"> 187</span>  {</div>
<div class="line"><a name="l00188"></a><span class="lineno"> 188</span>  <span class="keywordflow">return</span> <a class="code" href="classOpenMS_1_1DistanceMatrix.html#a03cd4a0d50ba76c5f974a3c7c2fa3397">getValue</a>(i, j);</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> </div>
<div class="line"><a name="l00197"></a><span class="lineno"><a class="line" href="classOpenMS_1_1DistanceMatrix.html#a03cd4a0d50ba76c5f974a3c7c2fa3397"> 197</a></span>  <span class="keyword">const</span> <a class="code" href="classOpenMS_1_1DistanceMatrix.html#a7a91b2f634e68c0554b1ff887bb27f8b">ValueType</a> <a class="code" href="classOpenMS_1_1DistanceMatrix.html#a03cd4a0d50ba76c5f974a3c7c2fa3397">getValue</a>(<a class="code" href="classOpenMS_1_1DistanceMatrix.html#a542a35bfe376b8808bcc706c4c0f97c9">SizeType</a> i, <a class="code" href="classOpenMS_1_1DistanceMatrix.html#a542a35bfe376b8808bcc706c4c0f97c9">SizeType</a> j)<span class="keyword"> const</span></div>
<div class="line"><a name="l00198"></a><span class="lineno"> 198</span> <span class="keyword"> </span>{</div>
<div class="line"><a name="l00199"></a><span class="lineno"> 199</span>  <span class="keywordflow">if</span> (i >= <a class="code" href="classOpenMS_1_1DistanceMatrix.html#acf53d5613fa58f163a0c81308a71a4e3">dimensionsize_</a> || j >= <a class="code" href="classOpenMS_1_1DistanceMatrix.html#acf53d5613fa58f163a0c81308a71a4e3">dimensionsize_</a>)</div>
<div class="line"><a name="l00200"></a><span class="lineno"> 200</span>  {</div>
<div class="line"><a name="l00201"></a><span class="lineno"> 201</span>  <span class="keywordflow">throw</span> <a class="code" href="classOpenMS_1_1Exception_1_1OutOfRange.html">Exception::OutOfRange</a>(__FILE__, __LINE__, __PRETTY_FUNCTION__);</div>
<div class="line"><a name="l00202"></a><span class="lineno"> 202</span>  }</div>
<div class="line"><a name="l00203"></a><span class="lineno"> 203</span>  <span class="comment">// elements on main diagonal are not stored and assumed to be 0</span></div>
<div class="line"><a name="l00204"></a><span class="lineno"> 204</span>  <span class="keywordflow">if</span> (i == j)</div>
<div class="line"><a name="l00205"></a><span class="lineno"> 205</span>  {</div>
<div class="line"><a name="l00206"></a><span class="lineno"> 206</span>  <span class="keywordflow">return</span> 0;</div>
<div class="line"><a name="l00207"></a><span class="lineno"> 207</span>  }</div>
<div class="line"><a name="l00208"></a><span class="lineno"> 208</span>  <span class="keywordflow">if</span> (i < j)</div>
<div class="line"><a name="l00209"></a><span class="lineno"> 209</span>  {</div>
<div class="line"><a name="l00210"></a><span class="lineno"> 210</span>  std::swap(i, j);</div>
<div class="line"><a name="l00211"></a><span class="lineno"> 211</span>  }</div>
<div class="line"><a name="l00212"></a><span class="lineno"> 212</span>  <span class="keywordflow">return</span> (<span class="keyword">const</span> <a class="code" href="classOpenMS_1_1DistanceMatrix.html#a7a91b2f634e68c0554b1ff887bb27f8b">ValueType</a>)(<a class="code" href="classOpenMS_1_1DistanceMatrix.html#a7024aa9cf569836f06db38a1ac717f24">matrix_</a>[i][j]);</div>
<div class="line"><a name="l00213"></a><span class="lineno"> 213</span>  }</div>
<div class="line"><a name="l00214"></a><span class="lineno"> 214</span> </div>
<div class="line"><a name="l00221"></a><span class="lineno"><a class="line" href="classOpenMS_1_1DistanceMatrix.html#a39049b482ba3c83419f019efb29e956a"> 221</a></span>  <a class="code" href="classOpenMS_1_1DistanceMatrix.html#a7a91b2f634e68c0554b1ff887bb27f8b">ValueType</a> <a class="code" href="classOpenMS_1_1DistanceMatrix.html#a39049b482ba3c83419f019efb29e956a">getValue</a>(<a class="code" href="classOpenMS_1_1DistanceMatrix.html#a542a35bfe376b8808bcc706c4c0f97c9">SizeType</a> i, <a class="code" href="classOpenMS_1_1DistanceMatrix.html#a542a35bfe376b8808bcc706c4c0f97c9">SizeType</a> j)</div>
<div class="line"><a name="l00222"></a><span class="lineno"> 222</span>  {</div>
<div class="line"><a name="l00223"></a><span class="lineno"> 223</span>  <span class="keywordflow">if</span> (i >= <a class="code" href="classOpenMS_1_1DistanceMatrix.html#acf53d5613fa58f163a0c81308a71a4e3">dimensionsize_</a> || j >= <a class="code" href="classOpenMS_1_1DistanceMatrix.html#acf53d5613fa58f163a0c81308a71a4e3">dimensionsize_</a>)</div>
<div class="line"><a name="l00224"></a><span class="lineno"> 224</span>  {</div>
<div class="line"><a name="l00225"></a><span class="lineno"> 225</span>  <span class="keywordflow">throw</span> <a class="code" href="classOpenMS_1_1Exception_1_1OutOfRange.html">Exception::OutOfRange</a>(__FILE__, __LINE__, __PRETTY_FUNCTION__);</div>
<div class="line"><a name="l00226"></a><span class="lineno"> 226</span>  }</div>
<div class="line"><a name="l00227"></a><span class="lineno"> 227</span>  <span class="comment">// elements on main diagonal are not stored and assumed to be 0</span></div>
<div class="line"><a name="l00228"></a><span class="lineno"> 228</span>  <span class="keywordflow">if</span> (i == j)</div>
<div class="line"><a name="l00229"></a><span class="lineno"> 229</span>  {</div>
<div class="line"><a name="l00230"></a><span class="lineno"> 230</span>  <span class="keywordflow">return</span> 0;</div>
<div class="line"><a name="l00231"></a><span class="lineno"> 231</span>  }</div>
<div class="line"><a name="l00232"></a><span class="lineno"> 232</span>  <span class="keywordflow">if</span> (i < j)</div>
<div class="line"><a name="l00233"></a><span class="lineno"> 233</span>  {</div>
<div class="line"><a name="l00234"></a><span class="lineno"> 234</span>  std::swap(i, j);</div>
<div class="line"><a name="l00235"></a><span class="lineno"> 235</span>  }</div>
<div class="line"><a name="l00236"></a><span class="lineno"> 236</span>  <span class="keywordflow">return</span> <a class="code" href="classOpenMS_1_1DistanceMatrix.html#a7024aa9cf569836f06db38a1ac717f24">matrix_</a>[i][j];</div>
<div class="line"><a name="l00237"></a><span class="lineno"> 237</span>  }</div>
<div class="line"><a name="l00238"></a><span class="lineno"> 238</span> </div>
<div class="line"><a name="l00246"></a><span class="lineno"><a class="line" href="classOpenMS_1_1DistanceMatrix.html#a2e841e704b21daa5788812746ee1cf7e"> 246</a></span>  <span class="keywordtype">void</span> <a class="code" href="classOpenMS_1_1DistanceMatrix.html#a2e841e704b21daa5788812746ee1cf7e">setValue</a>(<a class="code" href="classOpenMS_1_1DistanceMatrix.html#a542a35bfe376b8808bcc706c4c0f97c9">SizeType</a> i, <a class="code" href="classOpenMS_1_1DistanceMatrix.html#a542a35bfe376b8808bcc706c4c0f97c9">SizeType</a> j, <a class="code" href="classOpenMS_1_1DistanceMatrix.html#a7a91b2f634e68c0554b1ff887bb27f8b">ValueType</a> value)</div>
<div class="line"><a name="l00247"></a><span class="lineno"> 247</span>  {</div>
<div class="line"><a name="l00248"></a><span class="lineno"> 248</span>  <span class="keywordflow">if</span> (i >= <a class="code" href="classOpenMS_1_1DistanceMatrix.html#acf53d5613fa58f163a0c81308a71a4e3">dimensionsize_</a> || j >= <a class="code" href="classOpenMS_1_1DistanceMatrix.html#acf53d5613fa58f163a0c81308a71a4e3">dimensionsize_</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"> 250</span>  <span class="keywordflow">throw</span> <a class="code" href="classOpenMS_1_1Exception_1_1OutOfRange.html">Exception::OutOfRange</a>(__FILE__, __LINE__, __PRETTY_FUNCTION__);</div>
<div class="line"><a name="l00251"></a><span class="lineno"> 251</span>  }</div>
<div class="line"><a name="l00252"></a><span class="lineno"> 252</span>  <span class="comment">// elements on main diagonal are not stored and assumed to be 0</span></div>
<div class="line"><a name="l00253"></a><span class="lineno"> 253</span>  <span class="keywordflow">if</span> (i != j)</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>  <span class="keywordflow">if</span> (i < j)</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>  std::swap(i, j);</div>
<div class="line"><a name="l00258"></a><span class="lineno"> 258</span>  }</div>
<div class="line"><a name="l00259"></a><span class="lineno"> 259</span>  <span class="keywordflow">if</span> (i != <a class="code" href="classOpenMS_1_1DistanceMatrix.html#a5c474c264633a2febf0bffe7a29a55f8">min_element_</a>.first && j != <a class="code" href="classOpenMS_1_1DistanceMatrix.html#a5c474c264633a2febf0bffe7a29a55f8">min_element_</a>.second)</div>
<div class="line"><a name="l00260"></a><span class="lineno"> 260</span>  {</div>
<div class="line"><a name="l00261"></a><span class="lineno"> 261</span>  <a class="code" href="classOpenMS_1_1DistanceMatrix.html#a7024aa9cf569836f06db38a1ac717f24">matrix_</a>[i][j] = value;</div>
<div class="line"><a name="l00262"></a><span class="lineno"> 262</span>  <span class="keywordflow">if</span> (value < <a class="code" href="classOpenMS_1_1DistanceMatrix.html#a7024aa9cf569836f06db38a1ac717f24">matrix_</a>[<a class="code" href="classOpenMS_1_1DistanceMatrix.html#a5c474c264633a2febf0bffe7a29a55f8">min_element_</a>.first][<a class="code" href="classOpenMS_1_1DistanceMatrix.html#a5c474c264633a2febf0bffe7a29a55f8">min_element_</a>.second]) <span class="comment">// keep min_element_ up-to-date</span></div>
<div class="line"><a name="l00263"></a><span class="lineno"> 263</span>  {</div>
<div class="line"><a name="l00264"></a><span class="lineno"> 264</span>  <a class="code" href="classOpenMS_1_1DistanceMatrix.html#a5c474c264633a2febf0bffe7a29a55f8">min_element_</a> = std::make_pair(i, j);</div>
<div class="line"><a name="l00265"></a><span class="lineno"> 265</span>  }</div>
<div class="line"><a name="l00266"></a><span class="lineno"> 266</span>  }</div>
<div class="line"><a name="l00267"></a><span class="lineno"> 267</span>  <span class="keywordflow">else</span></div>
<div class="line"><a name="l00268"></a><span class="lineno"> 268</span>  {</div>
<div class="line"><a name="l00269"></a><span class="lineno"> 269</span>  <span class="keywordflow">if</span> (value <= <a class="code" href="classOpenMS_1_1DistanceMatrix.html#a7024aa9cf569836f06db38a1ac717f24">matrix_</a>[<a class="code" href="classOpenMS_1_1DistanceMatrix.html#a5c474c264633a2febf0bffe7a29a55f8">min_element_</a>.first][<a class="code" href="classOpenMS_1_1DistanceMatrix.html#a5c474c264633a2febf0bffe7a29a55f8">min_element_</a>.second])</div>
<div class="line"><a name="l00270"></a><span class="lineno"> 270</span>  {</div>
<div class="line"><a name="l00271"></a><span class="lineno"> 271</span>  <a class="code" href="classOpenMS_1_1DistanceMatrix.html#a7024aa9cf569836f06db38a1ac717f24">matrix_</a>[i][j] = value;</div>
<div class="line"><a name="l00272"></a><span class="lineno"> 272</span>  }</div>
<div class="line"><a name="l00273"></a><span class="lineno"> 273</span>  <span class="keywordflow">else</span></div>
<div class="line"><a name="l00274"></a><span class="lineno"> 274</span>  {</div>
<div class="line"><a name="l00275"></a><span class="lineno"> 275</span>  <a class="code" href="classOpenMS_1_1DistanceMatrix.html#a7024aa9cf569836f06db38a1ac717f24">matrix_</a>[i][j] = value;</div>
<div class="line"><a name="l00276"></a><span class="lineno"> 276</span>  <a class="code" href="classOpenMS_1_1DistanceMatrix.html#a2ec57b046f1f63a36a5a0d908fc85bfc">updateMinElement</a>();</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>  }</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="l00281"></a><span class="lineno"> 281</span> </div>
<div class="line"><a name="l00291"></a><span class="lineno"><a class="line" href="classOpenMS_1_1DistanceMatrix.html#a742fc7b1066ade8d0ba632ceec223c59"> 291</a></span>  <span class="keywordtype">void</span> <a class="code" href="classOpenMS_1_1DistanceMatrix.html#a742fc7b1066ade8d0ba632ceec223c59">setValueQuick</a>(<a class="code" href="classOpenMS_1_1DistanceMatrix.html#a542a35bfe376b8808bcc706c4c0f97c9">SizeType</a> i, <a class="code" href="classOpenMS_1_1DistanceMatrix.html#a542a35bfe376b8808bcc706c4c0f97c9">SizeType</a> j, <a class="code" href="classOpenMS_1_1DistanceMatrix.html#a7a91b2f634e68c0554b1ff887bb27f8b">ValueType</a> value)</div>
<div class="line"><a name="l00292"></a><span class="lineno"> 292</span>  {</div>
<div class="line"><a name="l00293"></a><span class="lineno"> 293</span>  <span class="keywordflow">if</span> (i >= <a class="code" href="classOpenMS_1_1DistanceMatrix.html#acf53d5613fa58f163a0c81308a71a4e3">dimensionsize_</a> || j >= <a class="code" href="classOpenMS_1_1DistanceMatrix.html#acf53d5613fa58f163a0c81308a71a4e3">dimensionsize_</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="keywordflow">throw</span> <a class="code" href="classOpenMS_1_1Exception_1_1OutOfRange.html">Exception::OutOfRange</a>(__FILE__, __LINE__, __PRETTY_FUNCTION__);</div>
<div class="line"><a name="l00296"></a><span class="lineno"> 296</span>  }</div>
<div class="line"><a name="l00297"></a><span class="lineno"> 297</span>  <span class="comment">// elements on main diagonal are not stored and assumed to be 0</span></div>
<div class="line"><a name="l00298"></a><span class="lineno"> 298</span>  <span class="keywordflow">if</span> (i != j)</div>
<div class="line"><a name="l00299"></a><span class="lineno"> 299</span>  {</div>
<div class="line"><a name="l00300"></a><span class="lineno"> 300</span>  <span class="keywordflow">if</span> (i < j)</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>  std::swap(i, j);</div>
<div class="line"><a name="l00303"></a><span class="lineno"> 303</span>  }</div>
<div class="line"><a name="l00304"></a><span class="lineno"> 304</span>  <a class="code" href="classOpenMS_1_1DistanceMatrix.html#a7024aa9cf569836f06db38a1ac717f24">matrix_</a>[i][j] = value;</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>  }</div>
<div class="line"><a name="l00307"></a><span class="lineno"> 307</span> </div>
<div class="line"><a name="l00309"></a><span class="lineno"><a class="line" href="classOpenMS_1_1DistanceMatrix.html#ac8bb3912a3ce86b15842e79d0b421204"> 309</a></span>  <span class="keywordtype">void</span> <a class="code" href="classOpenMS_1_1DistanceMatrix.html#ac8bb3912a3ce86b15842e79d0b421204">clear</a>()</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>  <span class="keywordflow">for</span> (<a class="code" href="classOpenMS_1_1DistanceMatrix.html#a542a35bfe376b8808bcc706c4c0f97c9">SizeType</a> i = 1; i < <a class="code" href="classOpenMS_1_1DistanceMatrix.html#a8203038f59733ed435f17e4ecb188cda">init_size_</a>; i++)</div>
<div class="line"><a name="l00312"></a><span class="lineno"> 312</span>  {</div>
<div class="line"><a name="l00313"></a><span class="lineno"> 313</span>  <span class="keyword">delete</span>[] <a class="code" href="classOpenMS_1_1DistanceMatrix.html#a7024aa9cf569836f06db38a1ac717f24">matrix_</a>[i];</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>  <span class="keyword">delete</span>[] <a class="code" href="classOpenMS_1_1DistanceMatrix.html#a7024aa9cf569836f06db38a1ac717f24">matrix_</a>;</div>
<div class="line"><a name="l00316"></a><span class="lineno"> 316</span>  <a class="code" href="classOpenMS_1_1DistanceMatrix.html#a7024aa9cf569836f06db38a1ac717f24">matrix_</a> = <a class="code" href="IsotopeWaveletParallelFor_8h.html#a070d2ce7b6bb7e5c05602aa8c308d0c4">NULL</a>;</div>
<div class="line"><a name="l00317"></a><span class="lineno"> 317</span>  <a class="code" href="classOpenMS_1_1DistanceMatrix.html#a5c474c264633a2febf0bffe7a29a55f8">min_element_</a> = std::make_pair(0, 0);</div>
<div class="line"><a name="l00318"></a><span class="lineno"> 318</span>  <a class="code" href="classOpenMS_1_1DistanceMatrix.html#acf53d5613fa58f163a0c81308a71a4e3">dimensionsize_</a> = 0;</div>
<div class="line"><a name="l00319"></a><span class="lineno"> 319</span>  init_size_ = 0;</div>
<div class="line"><a name="l00320"></a><span class="lineno"> 320</span>  }</div>
<div class="line"><a name="l00321"></a><span class="lineno"> 321</span> </div>
<div class="line"><a name="l00330"></a><span class="lineno"><a class="line" href="classOpenMS_1_1DistanceMatrix.html#ae89192ad76ef6362bda69ab08117c3f2"> 330</a></span>  <span class="keywordtype">void</span> <a class="code" href="classOpenMS_1_1DistanceMatrix.html#ae89192ad76ef6362bda69ab08117c3f2">resize</a>(<a class="code" href="classOpenMS_1_1DistanceMatrix.html#a542a35bfe376b8808bcc706c4c0f97c9">SizeType</a> dimensionsize, Value value = Value())</div>
<div class="line"><a name="l00331"></a><span class="lineno"> 331</span>  {</div>
<div class="line"><a name="l00332"></a><span class="lineno"> 332</span>  <span class="keywordflow">for</span> (<a class="code" href="classOpenMS_1_1DistanceMatrix.html#a542a35bfe376b8808bcc706c4c0f97c9">SizeType</a> j = 1; j < <a class="code" href="classOpenMS_1_1DistanceMatrix.html#a8203038f59733ed435f17e4ecb188cda">init_size_</a>; j++)</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="keyword">delete</span> <a class="code" href="classOpenMS_1_1DistanceMatrix.html#a7024aa9cf569836f06db38a1ac717f24">matrix_</a>[j];</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>  <span class="keyword">delete</span>[] <a class="code" href="classOpenMS_1_1DistanceMatrix.html#a7024aa9cf569836f06db38a1ac717f24">matrix_</a>;</div>
<div class="line"><a name="l00337"></a><span class="lineno"> 337</span>  <a class="code" href="classOpenMS_1_1DistanceMatrix.html#acf53d5613fa58f163a0c81308a71a4e3">dimensionsize_</a> = <a class="code" href="classOpenMS_1_1DistanceMatrix.html#af7ead7da765bc700381795644e5336d9">dimensionsize</a>;</div>
<div class="line"><a name="l00338"></a><span class="lineno"> 338</span>  init_size_ = <a class="code" href="classOpenMS_1_1DistanceMatrix.html#af7ead7da765bc700381795644e5336d9">dimensionsize</a>;</div>
<div class="line"><a name="l00339"></a><span class="lineno"> 339</span>  <a class="code" href="classOpenMS_1_1DistanceMatrix.html#a5c474c264633a2febf0bffe7a29a55f8">min_element_</a> = std::make_pair(0, 0);</div>
<div class="line"><a name="l00340"></a><span class="lineno"> 340</span>  <a class="code" href="classOpenMS_1_1DistanceMatrix.html#a7024aa9cf569836f06db38a1ac717f24">matrix_</a> = <span class="keyword">new</span> <a class="code" href="classOpenMS_1_1DistanceMatrix.html#a7a91b2f634e68c0554b1ff887bb27f8b">ValueType</a> *[<a class="code" href="classOpenMS_1_1DistanceMatrix.html#acf53d5613fa58f163a0c81308a71a4e3">dimensionsize_</a>];</div>
<div class="line"><a name="l00341"></a><span class="lineno"> 341</span>  <span class="keywordflow">for</span> (<a class="code" href="classOpenMS_1_1DistanceMatrix.html#a542a35bfe376b8808bcc706c4c0f97c9">SizeType</a> j = 1; j < <a class="code" href="classOpenMS_1_1DistanceMatrix.html#acf53d5613fa58f163a0c81308a71a4e3">dimensionsize_</a>; ++j)</div>
<div class="line"><a name="l00342"></a><span class="lineno"> 342</span>  {</div>
<div class="line"><a name="l00343"></a><span class="lineno"> 343</span>  <a class="code" href="classOpenMS_1_1DistanceMatrix.html#a7024aa9cf569836f06db38a1ac717f24">matrix_</a>[j] = <span class="keyword">new</span> <a class="code" href="classOpenMS_1_1DistanceMatrix.html#a7a91b2f634e68c0554b1ff887bb27f8b">ValueType</a>[j];</div>
<div class="line"><a name="l00344"></a><span class="lineno"> 344</span>  <span class="keywordflow">if</span> (<a class="code" href="classOpenMS_1_1DistanceMatrix.html#a7024aa9cf569836f06db38a1ac717f24">matrix_</a>[j] == <a class="code" href="IsotopeWaveletParallelFor_8h.html#a070d2ce7b6bb7e5c05602aa8c308d0c4">NULL</a>)</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">for</span> (<a class="code" href="classOpenMS_1_1DistanceMatrix.html#a542a35bfe376b8808bcc706c4c0f97c9">SizeType</a> <a class="code" href="namespaceOpenMS_1_1Constants.html#a93a8dc068053ec44ee7e45864ef969f7">k</a> = 1; <a class="code" href="namespaceOpenMS_1_1Constants.html#a93a8dc068053ec44ee7e45864ef969f7">k</a> < j; ++<a class="code" href="namespaceOpenMS_1_1Constants.html#a93a8dc068053ec44ee7e45864ef969f7">k</a>)</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>  <span class="keyword">delete</span>[] <a class="code" href="classOpenMS_1_1DistanceMatrix.html#a7024aa9cf569836f06db38a1ac717f24">matrix_</a>[<a class="code" href="namespaceOpenMS_1_1Constants.html#a93a8dc068053ec44ee7e45864ef969f7">k</a>];</div>
<div class="line"><a name="l00349"></a><span class="lineno"> 349</span>  }</div>
<div class="line"><a name="l00350"></a><span class="lineno"> 350</span>  <span class="keyword">delete</span>[] <a class="code" href="classOpenMS_1_1DistanceMatrix.html#a7024aa9cf569836f06db38a1ac717f24">matrix_</a>;</div>
<div class="line"><a name="l00351"></a><span class="lineno"> 351</span>  <a class="code" href="classOpenMS_1_1DistanceMatrix.html#a7024aa9cf569836f06db38a1ac717f24">matrix_</a> = <a class="code" href="IsotopeWaveletParallelFor_8h.html#a070d2ce7b6bb7e5c05602aa8c308d0c4">NULL</a>;</div>
<div class="line"><a name="l00352"></a><span class="lineno"> 352</span>  dimensionsize_ = 0;</div>
<div class="line"><a name="l00353"></a><span class="lineno"> 353</span>  init_size_ = 0;</div>
<div class="line"><a name="l00354"></a><span class="lineno"> 354</span>  <span class="keywordflow">throw</span> <a class="code" href="classOpenMS_1_1Exception_1_1OutOfMemory.html">Exception::OutOfMemory</a>(__FILE__, __LINE__, __PRETTY_FUNCTION__, (<a class="code" href="classunsigned_01int.html">UInt</a>)((((dimensionsize_ - 2) * (dimensionsize_ - 1)) / 2) * <span class="keyword">sizeof</span>(Value)));</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>  <span class="keywordflow">if</span> (<a class="code" href="classOpenMS_1_1DistanceMatrix.html#a7024aa9cf569836f06db38a1ac717f24">matrix_</a> != <a class="code" href="IsotopeWaveletParallelFor_8h.html#a070d2ce7b6bb7e5c05602aa8c308d0c4">NULL</a>)</div>
<div class="line"><a name="l00358"></a><span class="lineno"> 358</span>  {</div>
<div class="line"><a name="l00359"></a><span class="lineno"> 359</span>  <span class="keywordflow">for</span> (<a class="code" href="classOpenMS_1_1DistanceMatrix.html#a542a35bfe376b8808bcc706c4c0f97c9">SizeType</a> j = 0; j < <a class="code" href="classOpenMS_1_1DistanceMatrix.html#af7ead7da765bc700381795644e5336d9">dimensionsize</a>; ++j)</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">for</span> (<a class="code" href="classOpenMS_1_1DistanceMatrix.html#a542a35bfe376b8808bcc706c4c0f97c9">SizeType</a> <a class="code" href="namespaceOpenMS_1_1Constants.html#a93a8dc068053ec44ee7e45864ef969f7">k</a> = 0; <a class="code" href="namespaceOpenMS_1_1Constants.html#a93a8dc068053ec44ee7e45864ef969f7">k</a> < j; ++<a class="code" href="namespaceOpenMS_1_1Constants.html#a93a8dc068053ec44ee7e45864ef969f7">k</a>)</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="classOpenMS_1_1DistanceMatrix.html#a7024aa9cf569836f06db38a1ac717f24">matrix_</a>[j][<a class="code" href="namespaceOpenMS_1_1Constants.html#a93a8dc068053ec44ee7e45864ef969f7">k</a>] = value;</div>
<div class="line"><a name="l00364"></a><span class="lineno"> 364</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>  <a class="code" href="classOpenMS_1_1DistanceMatrix.html#a5c474c264633a2febf0bffe7a29a55f8">min_element_</a> = std::make_pair(1, 0);</div>
<div class="line"><a name="l00367"></a><span class="lineno"> 367</span>  }</div>
<div class="line"><a name="l00368"></a><span class="lineno"> 368</span>  }</div>
<div class="line"><a name="l00369"></a><span class="lineno"> 369</span> </div>
<div class="line"><a name="l00377"></a><span class="lineno"><a class="line" href="classOpenMS_1_1DistanceMatrix.html#af6fedd1ccc4ae7f2cfe568990afbf526"> 377</a></span>  <span class="keywordtype">void</span> <a class="code" href="classOpenMS_1_1DistanceMatrix.html#af6fedd1ccc4ae7f2cfe568990afbf526">reduce</a>(<a class="code" href="classOpenMS_1_1DistanceMatrix.html#a542a35bfe376b8808bcc706c4c0f97c9">SizeType</a> j)</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">if</span> (j >= <a class="code" href="classOpenMS_1_1DistanceMatrix.html#acf53d5613fa58f163a0c81308a71a4e3">dimensionsize_</a>)</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>  <span class="keywordflow">throw</span> <a class="code" href="classOpenMS_1_1Exception_1_1OutOfRange.html">Exception::OutOfRange</a>(__FILE__, __LINE__, __PRETTY_FUNCTION__);</div>
<div class="line"><a name="l00382"></a><span class="lineno"> 382</span>  }</div>
<div class="line"><a name="l00383"></a><span class="lineno"> 383</span>  <span class="comment">//delete row j and therefor overwrite with row j+1 and iterate like this to last row</span></div>
<div class="line"><a name="l00384"></a><span class="lineno"> 384</span>  <a class="code" href="classOpenMS_1_1DistanceMatrix.html#a542a35bfe376b8808bcc706c4c0f97c9">SizeType</a> i = j + 1;</div>
<div class="line"><a name="l00385"></a><span class="lineno"> 385</span>  <span class="keywordflow">while</span> (i < <a class="code" href="classOpenMS_1_1DistanceMatrix.html#acf53d5613fa58f163a0c81308a71a4e3">dimensionsize_</a> && <a class="code" href="classOpenMS_1_1DistanceMatrix.html#a7024aa9cf569836f06db38a1ac717f24">matrix_</a>[i] != <a class="code" href="IsotopeWaveletParallelFor_8h.html#a070d2ce7b6bb7e5c05602aa8c308d0c4">NULL</a>)</div>
<div class="line"><a name="l00386"></a><span class="lineno"> 386</span>  {</div>
<div class="line"><a name="l00387"></a><span class="lineno"> 387</span>  <span class="comment">//left out in the copy is each rows jth element, pointer working here as iterators just fine</span></div>
<div class="line"><a name="l00388"></a><span class="lineno"> 388</span>  std::copy(<a class="code" href="classOpenMS_1_1DistanceMatrix.html#a7024aa9cf569836f06db38a1ac717f24">matrix_</a>[i] + j + 1, <a class="code" href="classOpenMS_1_1DistanceMatrix.html#a7024aa9cf569836f06db38a1ac717f24">matrix_</a>[i] + i, std::copy(<a class="code" href="classOpenMS_1_1DistanceMatrix.html#a7024aa9cf569836f06db38a1ac717f24">matrix_</a>[i], <a class="code" href="classOpenMS_1_1DistanceMatrix.html#a7024aa9cf569836f06db38a1ac717f24">matrix_</a>[i] + j, <a class="code" href="classOpenMS_1_1DistanceMatrix.html#a7024aa9cf569836f06db38a1ac717f24">matrix_</a>[i - 1]));</div>
<div class="line"><a name="l00389"></a><span class="lineno"> 389</span>  ++i;</div>
<div class="line"><a name="l00390"></a><span class="lineno"> 390</span>  }</div>
<div class="line"><a name="l00391"></a><span class="lineno"> 391</span>  <span class="comment">//last row is freed and the pointer set to NULL (outer array's size is not changed)</span></div>
<div class="line"><a name="l00392"></a><span class="lineno"> 392</span>  <span class="keyword">delete</span>[] <a class="code" href="classOpenMS_1_1DistanceMatrix.html#a7024aa9cf569836f06db38a1ac717f24">matrix_</a>[i - 1];</div>
<div class="line"><a name="l00393"></a><span class="lineno"> 393</span>  <a class="code" href="classOpenMS_1_1DistanceMatrix.html#a7024aa9cf569836f06db38a1ac717f24">matrix_</a>[i - 1] = <a class="code" href="IsotopeWaveletParallelFor_8h.html#a070d2ce7b6bb7e5c05602aa8c308d0c4">NULL</a>;</div>
<div class="line"><a name="l00394"></a><span class="lineno"> 394</span>  --<a class="code" href="classOpenMS_1_1DistanceMatrix.html#acf53d5613fa58f163a0c81308a71a4e3">dimensionsize_</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> </div>
<div class="line"><a name="l00398"></a><span class="lineno"><a class="line" href="classOpenMS_1_1DistanceMatrix.html#af7ead7da765bc700381795644e5336d9"> 398</a></span>  <a class="code" href="classOpenMS_1_1DistanceMatrix.html#a542a35bfe376b8808bcc706c4c0f97c9">SizeType</a> <a class="code" href="classOpenMS_1_1DistanceMatrix.html#af7ead7da765bc700381795644e5336d9">dimensionsize</a>()<span class="keyword"> const</span></div>
<div class="line"><a name="l00399"></a><span class="lineno"> 399</span> <span class="keyword"> </span>{</div>
<div class="line"><a name="l00400"></a><span class="lineno"> 400</span>  <span class="keywordflow">return</span> <a class="code" href="classOpenMS_1_1DistanceMatrix.html#acf53d5613fa58f163a0c81308a71a4e3">dimensionsize_</a>;</div>
<div class="line"><a name="l00401"></a><span class="lineno"> 401</span>  }</div>
<div class="line"><a name="l00402"></a><span class="lineno"> 402</span> </div>
<div class="line"><a name="l00407"></a><span class="lineno"><a class="line" href="classOpenMS_1_1DistanceMatrix.html#a2ec57b046f1f63a36a5a0d908fc85bfc"> 407</a></span>  <span class="keywordtype">void</span> <a class="code" href="classOpenMS_1_1DistanceMatrix.html#a2ec57b046f1f63a36a5a0d908fc85bfc">updateMinElement</a>()</div>
<div class="line"><a name="l00408"></a><span class="lineno"> 408</span>  {</div>
<div class="line"><a name="l00409"></a><span class="lineno"> 409</span>  <a class="code" href="classOpenMS_1_1DistanceMatrix.html#a5c474c264633a2febf0bffe7a29a55f8">min_element_</a> = std::make_pair(1, 0);</div>
<div class="line"><a name="l00410"></a><span class="lineno"> 410</span>  <span class="comment">//error if dimensionsize_<1, return if dimensionsize_ == 1, else</span></div>
<div class="line"><a name="l00411"></a><span class="lineno"> 411</span>  <span class="keywordflow">if</span> (<a class="code" href="classOpenMS_1_1DistanceMatrix.html#acf53d5613fa58f163a0c81308a71a4e3">dimensionsize_</a> < 1)</div>
<div class="line"><a name="l00412"></a><span class="lineno"> 412</span>  {</div>
<div class="line"><a name="l00413"></a><span class="lineno"> 413</span>  <span class="keywordflow">throw</span> <a class="code" href="classOpenMS_1_1Exception_1_1OutOfRange.html">Exception::OutOfRange</a>(__FILE__, __LINE__, __PRETTY_FUNCTION__);</div>
<div class="line"><a name="l00414"></a><span class="lineno"> 414</span>  }</div>
<div class="line"><a name="l00415"></a><span class="lineno"> 415</span>  <span class="keywordflow">if</span> (<a class="code" href="classOpenMS_1_1DistanceMatrix.html#acf53d5613fa58f163a0c81308a71a4e3">dimensionsize_</a> != 1) <span class="comment">//else matrix has one element: (1,0)</span></div>
<div class="line"><a name="l00416"></a><span class="lineno"> 416</span>  {</div>
<div class="line"><a name="l00417"></a><span class="lineno"> 417</span>  <a class="code" href="classOpenMS_1_1DistanceMatrix.html#a7a91b2f634e68c0554b1ff887bb27f8b">ValueType</a> * row_min_;</div>
<div class="line"><a name="l00418"></a><span class="lineno"> 418</span>  <span class="keywordflow">for</span> (<a class="code" href="classOpenMS_1_1DistanceMatrix.html#a542a35bfe376b8808bcc706c4c0f97c9">SizeType</a> r = 2; r < <a class="code" href="classOpenMS_1_1DistanceMatrix.html#acf53d5613fa58f163a0c81308a71a4e3">dimensionsize_</a> && <a class="code" href="classOpenMS_1_1DistanceMatrix.html#a7024aa9cf569836f06db38a1ac717f24">matrix_</a>[r] != <a class="code" href="IsotopeWaveletParallelFor_8h.html#a070d2ce7b6bb7e5c05602aa8c308d0c4">NULL</a>; ++r)</div>
<div class="line"><a name="l00419"></a><span class="lineno"> 419</span>  {</div>
<div class="line"><a name="l00420"></a><span class="lineno"> 420</span>  row_min_ = std::min_element(<a class="code" href="classOpenMS_1_1DistanceMatrix.html#a7024aa9cf569836f06db38a1ac717f24">matrix_</a>[r], <a class="code" href="classOpenMS_1_1DistanceMatrix.html#a7024aa9cf569836f06db38a1ac717f24">matrix_</a>[r] + r);</div>
<div class="line"><a name="l00421"></a><span class="lineno"> 421</span>  <span class="keywordflow">if</span> (*row_min_ < <a class="code" href="classOpenMS_1_1DistanceMatrix.html#a7024aa9cf569836f06db38a1ac717f24">matrix_</a>[<a class="code" href="classOpenMS_1_1DistanceMatrix.html#a5c474c264633a2febf0bffe7a29a55f8">min_element_</a>.first][<a class="code" href="classOpenMS_1_1DistanceMatrix.html#a5c474c264633a2febf0bffe7a29a55f8">min_element_</a>.second])</div>
<div class="line"><a name="l00422"></a><span class="lineno"> 422</span>  {</div>
<div class="line"><a name="l00423"></a><span class="lineno"> 423</span>  <a class="code" href="classOpenMS_1_1DistanceMatrix.html#a5c474c264633a2febf0bffe7a29a55f8">min_element_</a> = std::make_pair(r, row_min_ - <a class="code" href="classOpenMS_1_1DistanceMatrix.html#a7024aa9cf569836f06db38a1ac717f24">matrix_</a>[r]);</div>
<div class="line"><a name="l00424"></a><span class="lineno"> 424</span>  }</div>
<div class="line"><a name="l00425"></a><span class="lineno"> 425</span>  }</div>
<div class="line"><a name="l00426"></a><span class="lineno"> 426</span>  }</div>
<div class="line"><a name="l00427"></a><span class="lineno"> 427</span>  }</div>
<div class="line"><a name="l00428"></a><span class="lineno"> 428</span> </div>
<div class="line"><a name="l00433"></a><span class="lineno"><a class="line" href="classOpenMS_1_1DistanceMatrix.html#a1d0873881e7b88b2775fdf10cabf868c"> 433</a></span>  <span class="keywordtype">bool</span> <a class="code" href="classOpenMS_1_1DistanceMatrix.html#a1d0873881e7b88b2775fdf10cabf868c">operator==</a>(<a class="code" href="classOpenMS_1_1DistanceMatrix.html">DistanceMatrix<ValueType></a> <span class="keyword">const</span> & rhs)<span class="keyword"> const</span></div>
<div class="line"><a name="l00434"></a><span class="lineno"> 434</span> <span class="keyword"> </span>{</div>
<div class="line"><a name="l00435"></a><span class="lineno"> 435</span>  <a class="code" href="group__Conditions.html#ga45a74ea28109e7e1ed992fbd2ee97778">OPENMS_PRECONDITION</a>(<a class="code" href="classOpenMS_1_1DistanceMatrix.html#acf53d5613fa58f163a0c81308a71a4e3">dimensionsize_</a> == rhs.<a class="code" href="classOpenMS_1_1DistanceMatrix.html#acf53d5613fa58f163a0c81308a71a4e3">dimensionsize_</a>, <span class="stringliteral">"DistanceMatrices have different sizes."</span>);</div>
<div class="line"><a name="l00436"></a><span class="lineno"> 436</span>  <span class="keywordflow">for</span> (<a class="code" href="group__Concept.html#gaf9ecec2d692138fab9167164a457cbd4">Size</a> i = 1; i < rhs.<a class="code" href="classOpenMS_1_1DistanceMatrix.html#af7ead7da765bc700381795644e5336d9">dimensionsize</a>(); ++i)</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="keywordflow">for</span> (<a class="code" href="group__Concept.html#gaf9ecec2d692138fab9167164a457cbd4">Size</a> j = 0; j < i; ++j)</div>
<div class="line"><a name="l00439"></a><span class="lineno"> 439</span>  {</div>
<div class="line"><a name="l00440"></a><span class="lineno"> 440</span>  <span class="keywordflow">if</span> (<a class="code" href="classOpenMS_1_1DistanceMatrix.html#a7024aa9cf569836f06db38a1ac717f24">matrix_</a>[i][j] != rhs.<a class="code" href="classOpenMS_1_1DistanceMatrix.html#a7024aa9cf569836f06db38a1ac717f24">matrix_</a>[i][j])</div>
<div class="line"><a name="l00441"></a><span class="lineno"> 441</span>  {</div>
<div class="line"><a name="l00442"></a><span class="lineno"> 442</span>  <span class="keywordflow">return</span> <span class="keyword">false</span>;</div>
<div class="line"><a name="l00443"></a><span class="lineno"> 443</span>  }</div>
<div class="line"><a name="l00444"></a><span class="lineno"> 444</span>  }</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>  <span class="keywordflow">return</span> <span class="keyword">true</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> </div>
<div class="line"><a name="l00453"></a><span class="lineno"><a class="line" href="classOpenMS_1_1DistanceMatrix.html#a12970d46754e7c8e0c288e319e3b7305"> 453</a></span>  std::pair<SizeType, SizeType> <a class="code" href="classOpenMS_1_1DistanceMatrix.html#a12970d46754e7c8e0c288e319e3b7305">getMinElementCoordinates</a>()<span class="keyword"> const</span></div>
<div class="line"><a name="l00454"></a><span class="lineno"> 454</span> <span class="keyword"> </span>{</div>
<div class="line"><a name="l00455"></a><span class="lineno"> 455</span>  <span class="keywordflow">if</span> (<a class="code" href="classOpenMS_1_1DistanceMatrix.html#acf53d5613fa58f163a0c81308a71a4e3">dimensionsize_</a> == 0)</div>
<div class="line"><a name="l00456"></a><span class="lineno"> 456</span>  {</div>
<div class="line"><a name="l00457"></a><span class="lineno"> 457</span>  <span class="keywordflow">throw</span> <a class="code" href="classOpenMS_1_1Exception_1_1OutOfRange.html">Exception::OutOfRange</a>(__FILE__, __LINE__, __PRETTY_FUNCTION__);</div>
<div class="line"><a name="l00458"></a><span class="lineno"> 458</span>  }</div>
<div class="line"><a name="l00459"></a><span class="lineno"> 459</span>  <span class="keywordflow">return</span> <a class="code" href="classOpenMS_1_1DistanceMatrix.html#a5c474c264633a2febf0bffe7a29a55f8">min_element_</a>;</div>
<div class="line"><a name="l00460"></a><span class="lineno"> 460</span>  }</div>
<div class="line"><a name="l00461"></a><span class="lineno"> 461</span> </div>
<div class="line"><a name="l00462"></a><span class="lineno"> 462</span> <span class="keyword">protected</span>:</div>
<div class="line"><a name="l00464"></a><span class="lineno"><a class="line" href="classOpenMS_1_1DistanceMatrix.html#a7024aa9cf569836f06db38a1ac717f24"> 464</a></span>  <a class="code" href="classOpenMS_1_1DistanceMatrix.html#a7a91b2f634e68c0554b1ff887bb27f8b">ValueType</a> ** <a class="code" href="classOpenMS_1_1DistanceMatrix.html#a7024aa9cf569836f06db38a1ac717f24">matrix_</a>;</div>
<div class="line"><a name="l00466"></a><span class="lineno"><a class="line" href="classOpenMS_1_1DistanceMatrix.html#a8203038f59733ed435f17e4ecb188cda"> 466</a></span>  <a class="code" href="classOpenMS_1_1DistanceMatrix.html#a542a35bfe376b8808bcc706c4c0f97c9">SizeType</a> <a class="code" href="classOpenMS_1_1DistanceMatrix.html#a8203038f59733ed435f17e4ecb188cda">init_size_</a>; <span class="comment">// actual size of outer array</span></div>
<div class="line"><a name="l00468"></a><span class="lineno"><a class="line" href="classOpenMS_1_1DistanceMatrix.html#acf53d5613fa58f163a0c81308a71a4e3"> 468</a></span> <span class="comment"></span> <a class="code" href="classOpenMS_1_1DistanceMatrix.html#a542a35bfe376b8808bcc706c4c0f97c9">SizeType</a> <a class="code" href="classOpenMS_1_1DistanceMatrix.html#acf53d5613fa58f163a0c81308a71a4e3">dimensionsize_</a>; <span class="comment">//number of virtual elements: ((dimensionsize-1)*(dimensionsize))/2</span></div>
<div class="line"><a name="l00470"></a><span class="lineno"><a class="line" href="classOpenMS_1_1DistanceMatrix.html#a5c474c264633a2febf0bffe7a29a55f8"> 470</a></span> <span class="comment"></span> std::pair<SizeType, SizeType> <a class="code" href="classOpenMS_1_1DistanceMatrix.html#a5c474c264633a2febf0bffe7a29a55f8">min_element_</a>;</div>
<div class="line"><a name="l00471"></a><span class="lineno"> 471</span> </div>
<div class="line"><a name="l00472"></a><span class="lineno"> 472</span> <span class="keyword">private</span>:</div>
<div class="line"><a name="l00474"></a><span class="lineno"><a class="line" href="classOpenMS_1_1DistanceMatrix.html#ab5a0b082e00fac679a81d5e8c8b416a8"> 474</a></span>  <a class="code" href="classOpenMS_1_1DistanceMatrix.html">DistanceMatrix</a> & <a class="code" href="classOpenMS_1_1DistanceMatrix.html#ab5a0b082e00fac679a81d5e8c8b416a8">operator=</a>(<span class="keyword">const</span> <a class="code" href="classOpenMS_1_1DistanceMatrix.html">DistanceMatrix</a> & rhs)</div>
<div class="line"><a name="l00475"></a><span class="lineno"> 475</span>  {</div>
<div class="line"><a name="l00476"></a><span class="lineno"> 476</span>  <a class="code" href="classOpenMS_1_1DistanceMatrix.html#a7024aa9cf569836f06db38a1ac717f24">matrix_</a> = rhs.<a class="code" href="classOpenMS_1_1DistanceMatrix.html#a7024aa9cf569836f06db38a1ac717f24">matrix_</a>;</div>
<div class="line"><a name="l00477"></a><span class="lineno"> 477</span>  <a class="code" href="classOpenMS_1_1DistanceMatrix.html#a8203038f59733ed435f17e4ecb188cda">init_size_</a> = rhs.<a class="code" href="classOpenMS_1_1DistanceMatrix.html#a8203038f59733ed435f17e4ecb188cda">init_size_</a>;</div>
<div class="line"><a name="l00478"></a><span class="lineno"> 478</span>  <a class="code" href="classOpenMS_1_1DistanceMatrix.html#acf53d5613fa58f163a0c81308a71a4e3">dimensionsize_</a> = rhs.<a class="code" href="classOpenMS_1_1DistanceMatrix.html#acf53d5613fa58f163a0c81308a71a4e3">dimensionsize_</a>;</div>
<div class="line"><a name="l00479"></a><span class="lineno"> 479</span>  <a class="code" href="classOpenMS_1_1DistanceMatrix.html#a5c474c264633a2febf0bffe7a29a55f8">min_element_</a> = rhs.<a class="code" href="classOpenMS_1_1DistanceMatrix.html#a5c474c264633a2febf0bffe7a29a55f8">min_element_</a>;</div>
<div class="line"><a name="l00480"></a><span class="lineno"> 480</span> </div>
<div class="line"><a name="l00481"></a><span class="lineno"> 481</span>  <span class="keywordflow">return</span> *<span class="keyword">this</span>;</div>
<div class="line"><a name="l00482"></a><span class="lineno"> 482</span>  }</div>
<div class="line"><a name="l00483"></a><span class="lineno"> 483</span> </div>
<div class="line"><a name="l00484"></a><span class="lineno"> 484</span>  }; <span class="comment">// class DistanceMatrix</span></div>
<div class="line"><a name="l00485"></a><span class="lineno"> 485</span> </div>
<div class="line"><a name="l00490"></a><span class="lineno"> 490</span>  <span class="keyword">template</span> <<span class="keyword">typename</span> Value></div>
<div class="line"><a name="l00491"></a><span class="lineno"><a class="line" href="namespaceOpenMS.html#a0e63996aaaad98ee18ebc764903ca437"> 491</a></span>  std::ostream & operator<<(std::ostream & os, const DistanceMatrix<Value> & matrix)</div>
<div class="line"><a name="l00492"></a><span class="lineno"> 492</span>  {</div>
<div class="line"><a name="l00493"></a><span class="lineno"> 493</span>  <span class="keyword">typedef</span> <span class="keyword">typename</span> <a class="code" href="classOpenMS_1_1DistanceMatrix.html#a542a35bfe376b8808bcc706c4c0f97c9">DistanceMatrix<Value>::SizeType</a> SizeType;</div>
<div class="line"><a name="l00494"></a><span class="lineno"> 494</span> </div>
<div class="line"><a name="l00495"></a><span class="lineno"> 495</span>  std::ios_base::fmtflags flag_backup = os.setf(std::ios::scientific);</div>
<div class="line"><a name="l00496"></a><span class="lineno"> 496</span>  std::streamsize precision_backup = os.precision();</div>
<div class="line"><a name="l00497"></a><span class="lineno"> 497</span>  <span class="comment">//~ os.precision(15);</span></div>
<div class="line"><a name="l00498"></a><span class="lineno"> 498</span>  os.precision(writtenDigits<DoubleReal>()); <span class="comment">// #include <OpenMS/CONCEPT/Types.h></span></div>
<div class="line"><a name="l00499"></a><span class="lineno"> 499</span> </div>
<div class="line"><a name="l00500"></a><span class="lineno"> 500</span>  <span class="comment">//evtl. color lower triangular matrix o.s.l.t.</span></div>
<div class="line"><a name="l00501"></a><span class="lineno"> 501</span>  <span class="keywordflow">for</span> (SizeType i = 0; i < matrix.dimensionsize(); ++i)</div>
<div class="line"><a name="l00502"></a><span class="lineno"> 502</span>  {</div>
<div class="line"><a name="l00503"></a><span class="lineno"> 503</span>  <span class="keywordflow">for</span> (SizeType j = 0; j < matrix.dimensionsize(); ++j)</div>
<div class="line"><a name="l00504"></a><span class="lineno"> 504</span>  {</div>
<div class="line"><a name="l00505"></a><span class="lineno"> 505</span>  os << matrix(i, j) << <span class="charliteral">'\t'</span>;</div>
<div class="line"><a name="l00506"></a><span class="lineno"> 506</span>  }</div>
<div class="line"><a name="l00507"></a><span class="lineno"> 507</span>  os << std::endl;</div>
<div class="line"><a name="l00508"></a><span class="lineno"> 508</span>  }</div>
<div class="line"><a name="l00509"></a><span class="lineno"> 509</span>  os.flags(flag_backup);</div>
<div class="line"><a name="l00510"></a><span class="lineno"> 510</span>  os.precision(precision_backup);</div>
<div class="line"><a name="l00511"></a><span class="lineno"> 511</span>  <span class="keywordflow">return</span> os;</div>
<div class="line"><a name="l00512"></a><span class="lineno"> 512</span>  }</div>
<div class="line"><a name="l00513"></a><span class="lineno"> 513</span> </div>
<div class="line"><a name="l00514"></a><span class="lineno"> 514</span> } <span class="comment">// namespace OpenMS</span></div>
<div class="line"><a name="l00515"></a><span class="lineno"> 515</span> </div>
<div class="line"><a name="l00516"></a><span class="lineno"> 516</span> <span class="preprocessor">#endif // OPENMS_DATASTRUCTURES_DISTANCEMATRIX_H</span></div>
<div class="ttc" id="namespaceOpenMS_1_1Constants_html_a93a8dc068053ec44ee7e45864ef969f7"><div class="ttname"><a href="namespaceOpenMS_1_1Constants.html#a93a8dc068053ec44ee7e45864ef969f7">OpenMS::Constants::k</a></div><div class="ttdeci">const double k</div></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_1DistanceMatrix_html_a8203038f59733ed435f17e4ecb188cda"><div class="ttname"><a href="classOpenMS_1_1DistanceMatrix.html#a8203038f59733ed435f17e4ecb188cda">OpenMS::DistanceMatrix::init_size_</a></div><div class="ttdeci">SizeType init_size_</div><div class="ttdoc">number of actually stored rows </div><div class="ttdef"><b>Definition:</b> DistanceMatrix.h:466</div></div>
<div class="ttc" id="Types_8h_html"><div class="ttname"><a href="Types_8h.html">Types.h</a></div></div>
<div class="ttc" id="classOpenMS_1_1DistanceMatrix_html_a04f69f8f2936ff309627511179c1709b"><div class="ttname"><a href="classOpenMS_1_1DistanceMatrix.html#a04f69f8f2936ff309627511179c1709b">OpenMS::DistanceMatrix::value_type</a></div><div class="ttdeci">Value value_type</div><div class="ttdef"><b>Definition:</b> DistanceMatrix.h:63</div></div>
<div class="ttc" id="classOpenMS_1_1DistanceMatrix_html_ae89192ad76ef6362bda69ab08117c3f2"><div class="ttname"><a href="classOpenMS_1_1DistanceMatrix.html#ae89192ad76ef6362bda69ab08117c3f2">OpenMS::DistanceMatrix::resize</a></div><div class="ttdeci">void resize(SizeType dimensionsize, Value value=Value())</div><div class="ttdoc">resizing the container </div><div class="ttdef"><b>Definition:</b> DistanceMatrix.h:330</div></div>
<div class="ttc" id="classOpenMS_1_1DistanceMatrix_html_a7024aa9cf569836f06db38a1ac717f24"><div class="ttname"><a href="classOpenMS_1_1DistanceMatrix.html#a7024aa9cf569836f06db38a1ac717f24">OpenMS::DistanceMatrix::matrix_</a></div><div class="ttdeci">ValueType ** matrix_</div><div class="ttdoc">sparse element not to be included in base container </div><div class="ttdef"><b>Definition:</b> DistanceMatrix.h:464</div></div>
<div class="ttc" id="classOpenMS_1_1DistanceMatrix_html_a07846e085ca98062a2daf7c9625ab5da"><div class="ttname"><a href="classOpenMS_1_1DistanceMatrix.html#a07846e085ca98062a2daf7c9625ab5da">OpenMS::DistanceMatrix::operator()</a></div><div class="ttdeci">const ValueType operator()(SizeType i, SizeType j) const </div><div class="ttdoc">gets a value at a given position (read only): </div><div class="ttdef"><b>Definition:</b> DistanceMatrix.h:176</div></div>
<div class="ttc" id="classOpenMS_1_1Exception_1_1OutOfRange_html"><div class="ttname"><a href="classOpenMS_1_1Exception_1_1OutOfRange.html">OpenMS::Exception::OutOfRange</a></div><div class="ttdoc">Out of range exception. </div><div class="ttdef"><b>Definition:</b> Exception.h:320</div></div>
<div class="ttc" id="classOpenMS_1_1DistanceMatrix_html_a39049b482ba3c83419f019efb29e956a"><div class="ttname"><a href="classOpenMS_1_1DistanceMatrix.html#a39049b482ba3c83419f019efb29e956a">OpenMS::DistanceMatrix::getValue</a></div><div class="ttdeci">ValueType getValue(SizeType i, SizeType j)</div><div class="ttdoc">gets a value at a given position: </div><div class="ttdef"><b>Definition:</b> DistanceMatrix.h:221</div></div>
<div class="ttc" id="classOpenMS_1_1DistanceMatrix_html_a7a91b2f634e68c0554b1ff887bb27f8b"><div class="ttname"><a href="classOpenMS_1_1DistanceMatrix.html#a7a91b2f634e68c0554b1ff887bb27f8b">OpenMS::DistanceMatrix::ValueType</a></div><div class="ttdeci">value_type ValueType</div><div class="ttdef"><b>Definition:</b> DistanceMatrix.h:69</div></div>
<div class="ttc" id="classOpenMS_1_1DistanceMatrix_html_acf53d5613fa58f163a0c81308a71a4e3"><div class="ttname"><a href="classOpenMS_1_1DistanceMatrix.html#acf53d5613fa58f163a0c81308a71a4e3">OpenMS::DistanceMatrix::dimensionsize_</a></div><div class="ttdeci">SizeType dimensionsize_</div><div class="ttdoc">number of accessably stored rows (i.e. number of columns) </div><div class="ttdef"><b>Definition:</b> DistanceMatrix.h:468</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_1DistanceMatrix_html"><div class="ttname"><a href="classOpenMS_1_1DistanceMatrix.html">OpenMS::DistanceMatrix</a></div><div class="ttdoc">A two-dimensional distance matrix, similar to OpenMS::Matrix. </div><div class="ttdef"><b>Definition:</b> DistanceMatrix.h:57</div></div>
<div class="ttc" id="IsotopeWaveletParallelFor_8h_html_a070d2ce7b6bb7e5c05602aa8c308d0c4"><div class="ttname"><a href="IsotopeWaveletParallelFor_8h.html#a070d2ce7b6bb7e5c05602aa8c308d0c4">NULL</a></div><div class="ttdeci">#define NULL</div><div class="ttdef"><b>Definition:</b> IsotopeWaveletParallelFor.h:41</div></div>
<div class="ttc" id="classOpenMS_1_1DistanceMatrix_html_a1d0873881e7b88b2775fdf10cabf868c"><div class="ttname"><a href="classOpenMS_1_1DistanceMatrix.html#a1d0873881e7b88b2775fdf10cabf868c">OpenMS::DistanceMatrix::operator==</a></div><div class="ttdeci">bool operator==(DistanceMatrix< ValueType > const &rhs) const </div><div class="ttdoc">Equality comparator. </div><div class="ttdef"><b>Definition:</b> DistanceMatrix.h:433</div></div>
<div class="ttc" id="classOpenMS_1_1DistanceMatrix_html_ac8bb3912a3ce86b15842e79d0b421204"><div class="ttname"><a href="classOpenMS_1_1DistanceMatrix.html#ac8bb3912a3ce86b15842e79d0b421204">OpenMS::DistanceMatrix::clear</a></div><div class="ttdeci">void clear()</div><div class="ttdoc">reset all </div><div class="ttdef"><b>Definition:</b> DistanceMatrix.h:309</div></div>
<div class="ttc" id="classOpenMS_1_1DistanceMatrix_html_a4cc8125eb40e5297620ac0cf3468948e"><div class="ttname"><a href="classOpenMS_1_1DistanceMatrix.html#a4cc8125eb40e5297620ac0cf3468948e">OpenMS::DistanceMatrix::DistanceMatrix</a></div><div class="ttdeci">DistanceMatrix(const DistanceMatrix &source)</div><div class="ttdoc">copy constructor </div><div class="ttdef"><b>Definition:</b> DistanceMatrix.h:126</div></div>
<div class="ttc" id="classOpenMS_1_1DistanceMatrix_html_af6fedd1ccc4ae7f2cfe568990afbf526"><div class="ttname"><a href="classOpenMS_1_1DistanceMatrix.html#af6fedd1ccc4ae7f2cfe568990afbf526">OpenMS::DistanceMatrix::reduce</a></div><div class="ttdeci">void reduce(SizeType j)</div><div class="ttdoc">reduces DistanceMatrix by one dimension. first the jth row, then jth column </div><div class="ttdef"><b>Definition:</b> DistanceMatrix.h:377</div></div>
<div class="ttc" id="classOpenMS_1_1DistanceMatrix_html_a742fc7b1066ade8d0ba632ceec223c59"><div class="ttname"><a href="classOpenMS_1_1DistanceMatrix.html#a742fc7b1066ade8d0ba632ceec223c59">OpenMS::DistanceMatrix::setValueQuick</a></div><div class="ttdeci">void setValueQuick(SizeType i, SizeType j, ValueType value)</div><div class="ttdoc">sets a value at a given position: </div><div class="ttdef"><b>Definition:</b> DistanceMatrix.h:291</div></div>
<div class="ttc" id="classOpenMS_1_1DistanceMatrix_html_a2ec57b046f1f63a36a5a0d908fc85bfc"><div class="ttname"><a href="classOpenMS_1_1DistanceMatrix.html#a2ec57b046f1f63a36a5a0d908fc85bfc">OpenMS::DistanceMatrix::updateMinElement</a></div><div class="ttdeci">void updateMinElement()</div><div class="ttdoc">keep track of the actual minimum element after altering the matrix </div><div class="ttdef"><b>Definition:</b> DistanceMatrix.h:407</div></div>
<div class="ttc" id="classOpenMS_1_1DistanceMatrix_html_a60267b7ebba4a41a65e18a08919308e3"><div class="ttname"><a href="classOpenMS_1_1DistanceMatrix.html#a60267b7ebba4a41a65e18a08919308e3">OpenMS::DistanceMatrix::operator()</a></div><div class="ttdeci">ValueType operator()(SizeType i, SizeType j)</div><div class="ttdoc">gets a value at a given position (read only): </div><div class="ttdef"><b>Definition:</b> DistanceMatrix.h:186</div></div>
<div class="ttc" id="classOpenMS_1_1DistanceMatrix_html_a12970d46754e7c8e0c288e319e3b7305"><div class="ttname"><a href="classOpenMS_1_1DistanceMatrix.html#a12970d46754e7c8e0c288e319e3b7305">OpenMS::DistanceMatrix::getMinElementCoordinates</a></div><div class="ttdeci">std::pair< SizeType, SizeType > getMinElementCoordinates() const </div><div class="ttdoc">Indexpair of minimal element. </div><div class="ttdef"><b>Definition:</b> DistanceMatrix.h:453</div></div>
<div class="ttc" id="Macros_8h_html"><div class="ttname"><a href="Macros_8h.html">Macros.h</a></div></div>
<div class="ttc" id="classOpenMS_1_1DistanceMatrix_html_ab5a0b082e00fac679a81d5e8c8b416a8"><div class="ttname"><a href="classOpenMS_1_1DistanceMatrix.html#ab5a0b082e00fac679a81d5e8c8b416a8">OpenMS::DistanceMatrix::operator=</a></div><div class="ttdeci">DistanceMatrix & operator=(const DistanceMatrix &rhs)</div><div class="ttdoc">assignment operator (unsafe) </div><div class="ttdef"><b>Definition:</b> DistanceMatrix.h:474</div></div>
<div class="ttc" id="classOpenMS_1_1DistanceMatrix_html_a2e841e704b21daa5788812746ee1cf7e"><div class="ttname"><a href="classOpenMS_1_1DistanceMatrix.html#a2e841e704b21daa5788812746ee1cf7e">OpenMS::DistanceMatrix::setValue</a></div><div class="ttdeci">void setValue(SizeType i, SizeType j, ValueType value)</div><div class="ttdoc">sets a value at a given position: </div><div class="ttdef"><b>Definition:</b> DistanceMatrix.h:246</div></div>
<div class="ttc" id="classOpenMS_1_1DistanceMatrix_html_a86a62b81ec1f4963eafa2e4553a7c407"><div class="ttname"><a href="classOpenMS_1_1DistanceMatrix.html#a86a62b81ec1f4963eafa2e4553a7c407">OpenMS::DistanceMatrix::DistanceMatrix</a></div><div class="ttdeci">DistanceMatrix(SizeType dimensionsize, Value value=Value())</div><div class="ttdoc">detailed constructor </div><div class="ttdef"><b>Definition:</b> DistanceMatrix.h:86</div></div>
<div class="ttc" id="classOpenMS_1_1Exception_1_1OutOfMemory_html"><div class="ttname"><a href="classOpenMS_1_1Exception_1_1OutOfMemory.html">OpenMS::Exception::OutOfMemory</a></div><div class="ttdoc">Out of memory exception. </div><div class="ttdef"><b>Definition:</b> Exception.h:472</div></div>
<div class="ttc" id="classOpenMS_1_1DistanceMatrix_html_a7ec2a2e1420dd94f5b6ff30c96ddc968"><div class="ttname"><a href="classOpenMS_1_1DistanceMatrix.html#a7ec2a2e1420dd94f5b6ff30c96ddc968">OpenMS::DistanceMatrix::~DistanceMatrix</a></div><div class="ttdeci">~DistanceMatrix()</div><div class="ttdoc">destructor </div><div class="ttdef"><b>Definition:</b> DistanceMatrix.h:162</div></div>
<div class="ttc" id="classOpenMS_1_1DistanceMatrix_html_af7ead7da765bc700381795644e5336d9"><div class="ttname"><a href="classOpenMS_1_1DistanceMatrix.html#af7ead7da765bc700381795644e5336d9">OpenMS::DistanceMatrix::dimensionsize</a></div><div class="ttdeci">SizeType dimensionsize() const </div><div class="ttdoc">gives the number of rows (i.e. number of columns) </div><div class="ttdef"><b>Definition:</b> DistanceMatrix.h:398</div></div>
<div class="ttc" id="classOpenMS_1_1DistanceMatrix_html_a170c264d284311b0ee14d661cae811eb"><div class="ttname"><a href="classOpenMS_1_1DistanceMatrix.html#a170c264d284311b0ee14d661cae811eb">OpenMS::DistanceMatrix::DistanceMatrix</a></div><div class="ttdeci">DistanceMatrix()</div><div class="ttdoc">default constructor </div><div class="ttdef"><b>Definition:</b> DistanceMatrix.h:75</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="classOpenMS_1_1DistanceMatrix_html_a542a35bfe376b8808bcc706c4c0f97c9"><div class="ttname"><a href="classOpenMS_1_1DistanceMatrix.html#a542a35bfe376b8808bcc706c4c0f97c9">OpenMS::DistanceMatrix::SizeType</a></div><div class="ttdeci">Size SizeType</div><div class="ttdef"><b>Definition:</b> DistanceMatrix.h:68</div></div>
<div class="ttc" id="classOpenMS_1_1DistanceMatrix_html_a5c474c264633a2febf0bffe7a29a55f8"><div class="ttname"><a href="classOpenMS_1_1DistanceMatrix.html#a5c474c264633a2febf0bffe7a29a55f8">OpenMS::DistanceMatrix::min_element_</a></div><div class="ttdeci">std::pair< SizeType, SizeType > min_element_</div><div class="ttdoc">index of minimal element(i.e. number in underlying SparseVector) </div><div class="ttdef"><b>Definition:</b> DistanceMatrix.h:470</div></div>
<div class="ttc" id="classOpenMS_1_1DistanceMatrix_html_a03cd4a0d50ba76c5f974a3c7c2fa3397"><div class="ttname"><a href="classOpenMS_1_1DistanceMatrix.html#a03cd4a0d50ba76c5f974a3c7c2fa3397">OpenMS::DistanceMatrix::getValue</a></div><div class="ttdeci">const ValueType getValue(SizeType i, SizeType j) const </div><div class="ttdoc">gets a value at a given position: </div><div class="ttdef"><b>Definition:</b> DistanceMatrix.h:197</div></div>
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