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<div class="fragment"><div class="line"><a id="l00001" name="l00001"></a><span class="lineno"> 1</span><span class="preprocessor">#include &lt;system.hh&gt;</span></div>
<div class="line"><a id="l00002" name="l00002"></a><span class="lineno"> 2</span> </div>
<div class="line"><a id="l00003" name="l00003"></a><span class="lineno"> 3</span><span class="preprocessor">#ifndef DLMA_SYSTEM_H</span></div>
<div class="line"><a id="l00004" name="l00004"></a><span class="lineno"> 4</span><span class="preprocessor">#define DLMA_SYSTEM_H</span></div>
<div class="line"><a id="l00005" name="l00005"></a><span class="lineno"> 5</span> </div>
<div class="line"><a id="l00006" name="l00006"></a><span class="lineno"> 6</span><span class="keyword">namespace </span>simulation{</div>
<div class="line"><a id="l00007" name="l00007"></a><span class="lineno"> 7</span> </div>
<div class="line"><a id="l00008" name="l00008"></a><span class="lineno"> 8</span><span class="keyword">template</span> &lt;<span class="keyword">typename</span> type&gt;</div>
<div class="line"><a id="l00009" name="l00009"></a><span class="lineno"><a class="line" href="classsimulation_1_1dlma__system.html"> 9</a></span><span class="keyword">class </span><a class="code hl_class" href="classsimulation_1_1dlma__system.html">dlma_system</a>: <span class="keyword">public</span> <a class="code hl_class" href="classsimulation_1_1system.html">system</a>&lt;type&gt;{</div>
<div class="line"><a id="l00010" name="l00010"></a><span class="lineno"> 10</span> </div>
<div class="line"><a id="l00011" name="l00011"></a><span class="lineno"> 11</span> <span class="keyword">public</span>:</div>
<div class="line"><a id="l00012" name="l00012"></a><span class="lineno"> 12</span> </div>
<div class="line"><a id="l00013" name="l00013"></a><span class="lineno"> 13</span> <span class="comment">//virtual std::vector&lt;std::string&gt; split_string_by_delimiter(const std::string&amp; s, char delimiter);</span></div>
<div class="line"><a id="l00014" name="l00014"></a><span class="lineno"> 14</span> <span class="keyword">virtual</span> <span class="keywordtype">void</span> read_params_parser(<span class="keywordtype">char</span> *params_name);</div>
<div class="line"><a id="l00015" name="l00015"></a><span class="lineno"> 15</span> <span class="keyword">virtual</span> <span class="keywordtype">void</span> initialize_system() {};</div>
<div class="line"><a id="l00016" name="l00016"></a><span class="lineno"> 16</span> </div>
<div class="line"><a id="l00017" name="l00017"></a><span class="lineno"> 17</span> <span class="keyword">virtual</span> <span class="keywordtype">void</span> calculate_propensity();</div>
<div class="line"><a id="l00018" name="l00018"></a><span class="lineno"> 18</span> </div>
<div class="line"><a id="l00019" name="l00019"></a><span class="lineno"> 19</span> <span class="keyword">virtual</span> <span class="keywordtype">void</span> add_aggregate(<a class="code hl_class" href="classsimulation_1_1constituent.html">constituent&lt;type&gt;</a> *new_aggregate);</div>
<div class="line"><a id="l00020" name="l00020"></a><span class="lineno"> 20</span> <span class="keyword">virtual</span> <span class="keywordtype">void</span> remove_aggregate(<span class="keyword">const</span> <span class="keywordtype">int</span> <span class="keywordtype">id</span>);</div>
<div class="line"><a id="l00021" name="l00021"></a><span class="lineno"> 21</span> <span class="keyword">virtual</span> <a class="code hl_class" href="classsimulation_1_1constituent.html">constituent&lt;type&gt;</a>* get_aggregate(<span class="keyword">const</span> <span class="keywordtype">int</span> <span class="keywordtype">id</span>);</div>
<div class="line"><a id="l00022" name="l00022"></a><span class="lineno"> 22</span> </div>
<div class="line"><a id="l00023" name="l00023"></a><span class="lineno"> 23</span> <span class="keyword">virtual</span> <span class="keywordtype">void</span> build_id_map();</div>
<div class="line"><a id="l00024" name="l00024"></a><span class="lineno"> 24</span> </div>
<div class="line"><a id="l00025" name="l00025"></a><span class="lineno"> 25</span> <span class="keyword">virtual</span> <span class="keywordtype">int</span> get_latest_cluster_id();</div>
<div class="line"><a id="l00026" name="l00026"></a><span class="lineno"> 26</span> <span class="keyword">virtual</span> <span class="keywordtype">int</span> get_latest_cluster_id_without_increment();</div>
<div class="line"><a id="l00027" name="l00027"></a><span class="lineno"> 27</span> <span class="keyword">virtual</span> <span class="keywordtype">int</span> get_id_map(<span class="keywordtype">int</span> c_id);</div>
<div class="line"><a id="l00028" name="l00028"></a><span class="lineno"> 28</span> </div>
<div class="line"><a id="l00029" name="l00029"></a><span class="lineno"> 29</span> <span class="keyword">virtual</span> <span class="keywordtype">int</span> get_lattice();</div>
<div class="line"><a id="l00030" name="l00030"></a><span class="lineno"> 30</span> <span class="keyword">virtual</span> <span class="keywordtype">int</span> get_dim();</div>
<div class="line"><a id="l00031" name="l00031"></a><span class="lineno"> 31</span> <span class="keyword">virtual</span> <span class="keywordtype">int</span> get_max_attachments();</div>
<div class="line"><a id="l00032" name="l00032"></a><span class="lineno"> 32</span> <span class="keyword">virtual</span> <span class="keywordtype">int</span> get_N();</div>
<div class="line"><a id="l00033" name="l00033"></a><span class="lineno"> 33</span> <span class="keyword">virtual</span> <span class="keywordtype">double</span> get_phi();</div>
<div class="line"><a id="l00034" name="l00034"></a><span class="lineno"> 34</span> <span class="keyword">virtual</span> <span class="keywordtype">double</span> get_alpha();</div>
<div class="line"><a id="l00035" name="l00035"></a><span class="lineno"> 35</span> <span class="keyword">virtual</span> std::vector&lt;int&gt; get_attachment_vector(<span class="keyword">const</span> <span class="keywordtype">int</span> i);</div>
<div class="line"><a id="l00036" name="l00036"></a><span class="lineno"> 36</span> </div>
<div class="line"><a id="l00037" name="l00037"></a><span class="lineno"> 37</span> <span class="keyword">virtual</span> <a class="code hl_class" href="classsimulation_1_1simulation__box.html">simulation_box&lt;type&gt;</a>* get_box();</div>
<div class="line"><a id="l00038" name="l00038"></a><span class="lineno"> 38</span> </div>
<div class="line"><a id="l00039" name="l00039"></a><span class="lineno"> 39</span> <span class="keyword">virtual</span> <a class="code hl_class" href="classsimulation_1_1constituent.html">constituent&lt;type&gt;</a>* get_constituent(<span class="keyword">const</span> <span class="keywordtype">int</span> i);</div>
<div class="line"><a id="l00040" name="l00040"></a><span class="lineno"> 40</span> <span class="keyword">virtual</span> <span class="keywordtype">void</span> print_id_map();</div>
<div class="line"><a id="l00041" name="l00041"></a><span class="lineno"> 41</span> <span class="keyword">virtual</span> <span class="keywordtype">void</span> print_grid() {};</div>
<div class="line"><a id="l00042" name="l00042"></a><span class="lineno"> 42</span> <span class="keyword">virtual</span> <span class="keywordtype">bool</span> check_viability(<a class="code hl_class" href="classsimulation_1_1constituent.html">constituent&lt;type&gt;</a> *c_1, type *dr) {};</div>
<div class="line"><a id="l00043" name="l00043"></a><span class="lineno"> 43</span> <span class="keyword">virtual</span> <span class="keywordtype">void</span> move_aggregate(<span class="keyword">const</span> <span class="keywordtype">int</span> i, type *dr) {};</div>
<div class="line"><a id="l00044" name="l00044"></a><span class="lineno"> 44</span> <span class="keyword">virtual</span> <span class="keywordtype">void</span> add_attachment(<a class="code hl_class" href="classsimulation_1_1constituent.html">constituent&lt;type&gt;</a> *c_1);</div>
<div class="line"><a id="l00045" name="l00045"></a><span class="lineno"> 45</span> <span class="keyword">virtual</span> <span class="keywordtype">void</span> add_attachment(<span class="keyword">const</span> <span class="keywordtype">int</span> i, <span class="keyword">const</span> <span class="keywordtype">int</span> j) {};</div>
<div class="line"><a id="l00046" name="l00046"></a><span class="lineno"> 46</span> <span class="keyword">virtual</span> <span class="keywordtype">void</span> print_attachments();</div>
<div class="line"><a id="l00047" name="l00047"></a><span class="lineno"> 47</span> </div>
<div class="line"><a id="l00048" name="l00048"></a><span class="lineno"> 48</span> <span class="keyword">virtual</span> <span class="keywordtype">int</span> total_aggregates();</div>
<div class="line"><a id="l00049" name="l00049"></a><span class="lineno"> 49</span> <span class="keyword">virtual</span> <span class="keywordtype">double</span> get_seedmass();</div>
<div class="line"><a id="l00050" name="l00050"></a><span class="lineno"> 50</span> <span class="keyword">virtual</span> <a class="code hl_class" href="classsimulation_1_1constituent.html">constituent&lt;type&gt;</a>* get_particle_by_id(<span class="keyword">const</span> <span class="keywordtype">int</span> <span class="keywordtype">id</span>);</div>
<div class="line"><a id="l00051" name="l00051"></a><span class="lineno"> 51</span> <span class="keyword">virtual</span> type get_interparticle_distance(<a class="code hl_class" href="classsimulation_1_1constituent.html">constituent&lt;type&gt;</a> *p_1, <a class="code hl_class" href="classsimulation_1_1constituent.html">constituent&lt;type&gt;</a> *p_2);</div>
<div class="line"><a id="l00052" name="l00052"></a><span class="lineno"> 52</span> <span class="keyword">virtual</span> <span class="keywordtype">int</span> choose_aggregate();</div>
<div class="line"><a id="l00053" name="l00053"></a><span class="lineno"> 53</span> </div>
<div class="line"><a id="l00054" name="l00054"></a><span class="lineno"> 54</span> <span class="keyword">virtual</span> <span class="keywordtype">void</span> build_attachment_list() {};</div>
<div class="line"><a id="l00055" name="l00055"></a><span class="lineno"> 55</span> </div>
<div class="line"><a id="l00056" name="l00056"></a><span class="lineno"> 56</span> </div>
<div class="line"><a id="l00057" name="l00057"></a><span class="lineno"> 57</span> </div>
<div class="line"><a id="l00058" name="l00058"></a><span class="lineno"> 58</span> </div>
<div class="line"><a id="l00059" name="l00059"></a><span class="lineno"> 59</span> <span class="keyword">protected</span>:</div>
<div class="line"><a id="l00060" name="l00060"></a><span class="lineno"> 60</span> </div>
<div class="line"><a id="l00061" name="l00061"></a><span class="lineno"> 61</span> std::mt19937 generator;</div>
<div class="line"><a id="l00062" name="l00062"></a><span class="lineno"> 62</span> std::uniform_real_distribution&lt;double&gt; dis;</div>
<div class="line"><a id="l00063" name="l00063"></a><span class="lineno"> 63</span> </div>
<div class="line"><a id="l00064" name="l00064"></a><span class="lineno"> 64</span> <a class="code hl_class" href="classsimulation_1_1system__factory.html">system_factory&lt;type&gt;</a> factory;</div>
<div class="line"><a id="l00065" name="l00065"></a><span class="lineno"> 65</span> <a class="code hl_class" href="classsimulation_1_1simulation__box.html">simulation_box&lt;type&gt;</a> *box;</div>
<div class="line"><a id="l00066" name="l00066"></a><span class="lineno"> 66</span> </div>
<div class="line"><a id="l00067" name="l00067"></a><span class="lineno"> 67</span> std::vector&lt;constituent&lt;type&gt;*&gt; all_particles;</div>
<div class="line"><a id="l00068" name="l00068"></a><span class="lineno"> 68</span> std::vector&lt;constituent&lt;type&gt;*&gt; aggregates;</div>
<div class="line"><a id="l00069" name="l00069"></a><span class="lineno"> 69</span> </div>
<div class="line"><a id="l00070" name="l00070"></a><span class="lineno"> 70</span> std::map&lt;int, int&gt; id_map;</div>
<div class="line"><a id="l00071" name="l00071"></a><span class="lineno"> 71</span> std::vector&lt;std::vector&lt;int&gt;&gt; attachments;</div>
<div class="line"><a id="l00072" name="l00072"></a><span class="lineno"> 72</span> </div>
<div class="line"><a id="l00073" name="l00073"></a><span class="lineno"> 73</span> std::vector&lt;double&gt; propensity;</div>
<div class="line"><a id="l00074" name="l00074"></a><span class="lineno"> 74</span> <span class="keywordtype">double</span> total_propensity;</div>
<div class="line"><a id="l00075" name="l00075"></a><span class="lineno"> 75</span> </div>
<div class="line"><a id="l00076" name="l00076"></a><span class="lineno"> 76</span> <span class="keywordtype">int</span> N;</div>
<div class="line"><a id="l00077" name="l00077"></a><span class="lineno"> 77</span> <span class="keywordtype">bool</span> N_flag = <span class="keyword">false</span>;</div>
<div class="line"><a id="l00078" name="l00078"></a><span class="lineno"> 78</span> <span class="keywordtype">int</span> N_s;</div>
<div class="line"><a id="l00079" name="l00079"></a><span class="lineno"> 79</span> <span class="keywordtype">bool</span> N_s_flag = <span class="keyword">false</span>;</div>
<div class="line"><a id="l00080" name="l00080"></a><span class="lineno"> 80</span> <span class="keywordtype">double</span> seed_pct;</div>
<div class="line"><a id="l00081" name="l00081"></a><span class="lineno"> 81</span> <span class="keywordtype">bool</span> seed_pct_flag = <span class="keyword">false</span>;</div>
<div class="line"><a id="l00082" name="l00082"></a><span class="lineno"> 82</span> <span class="keywordtype">int</span> D;</div>
<div class="line"><a id="l00083" name="l00083"></a><span class="lineno"> 83</span> <span class="keywordtype">int</span> D_flag = <span class="keyword">false</span>;</div>
<div class="line"><a id="l00084" name="l00084"></a><span class="lineno"> 84</span> <span class="keywordtype">int</span> lattice;</div>
<div class="line"><a id="l00085" name="l00085"></a><span class="lineno"> 85</span> <span class="keywordtype">bool</span> lattice_flag = <span class="keyword">false</span>;</div>
<div class="line"><a id="l00086" name="l00086"></a><span class="lineno"> 86</span> <span class="keywordtype">double</span> phi;</div>
<div class="line"><a id="l00087" name="l00087"></a><span class="lineno"> 87</span> <span class="keywordtype">bool</span> phi_flag = <span class="keyword">false</span>;</div>
<div class="line"><a id="l00088" name="l00088"></a><span class="lineno"> 88</span> <span class="keywordtype">double</span> alpha;</div>
<div class="line"><a id="l00089" name="l00089"></a><span class="lineno"> 89</span> <span class="keywordtype">bool</span> alpha_flag = <span class="keyword">false</span>;</div>
<div class="line"><a id="l00090" name="l00090"></a><span class="lineno"> 90</span> <span class="keywordtype">double</span> seed_mass;</div>
<div class="line"><a id="l00091" name="l00091"></a><span class="lineno"> 91</span> <span class="keywordtype">bool</span> seed_mass_flag = <span class="keyword">false</span>;</div>
<div class="line"><a id="l00092" name="l00092"></a><span class="lineno"> 92</span> <span class="keywordtype">int</span> rng_seed = 0;</div>
<div class="line"><a id="l00093" name="l00093"></a><span class="lineno"> 93</span> <span class="keywordtype">bool</span> rng_seed_flag = <span class="keyword">false</span>;</div>
<div class="line"><a id="l00094" name="l00094"></a><span class="lineno"> 94</span> type *L;</div>
<div class="line"><a id="l00095" name="l00095"></a><span class="lineno"> 95</span> type *halfL;</div>
<div class="line"><a id="l00096" name="l00096"></a><span class="lineno"> 96</span> <span class="keywordtype">bool</span> *L_flag;</div>
<div class="line"><a id="l00097" name="l00097"></a><span class="lineno"> 97</span> <span class="keywordtype">bool</span> L_flag_and;</div>
<div class="line"><a id="l00098" name="l00098"></a><span class="lineno"> 98</span> <span class="keywordtype">bool</span> L_flag_or;</div>
<div class="line"><a id="l00099" name="l00099"></a><span class="lineno"> 99</span> <span class="keywordtype">int</span> *periodic;</div>
<div class="line"><a id="l00100" name="l00100"></a><span class="lineno"> 100</span> <span class="keywordtype">bool</span> *periodic_flag;</div>
<div class="line"><a id="l00101" name="l00101"></a><span class="lineno"> 101</span> <span class="keywordtype">bool</span> periodic_flag_and;</div>
<div class="line"><a id="l00102" name="l00102"></a><span class="lineno"> 102</span> <span class="keywordtype">int</span> latest_cluster_id=0;</div>
<div class="line"><a id="l00103" name="l00103"></a><span class="lineno"> 103</span> <span class="keywordtype">double</span> tolerance;</div>
<div class="line"><a id="l00104" name="l00104"></a><span class="lineno"> 104</span> <span class="keywordtype">bool</span> tolerance_flag=<span class="keyword">false</span>;</div>
<div class="line"><a id="l00105" name="l00105"></a><span class="lineno"> 105</span> </div>
<div class="line"><a id="l00106" name="l00106"></a><span class="lineno"> 106</span> <span class="keywordtype">bool</span> is_viable;</div>
<div class="line"><a id="l00107" name="l00107"></a><span class="lineno"> 107</span> type temp_r;</div>
<div class="line"><a id="l00108" name="l00108"></a><span class="lineno"> 108</span> type r2;</div>
<div class="line"><a id="l00109" name="l00109"></a><span class="lineno"> 109</span> </div>
<div class="line"><a id="l00110" name="l00110"></a><span class="lineno"> 110</span>};</div>
<div class="line"><a id="l00111" name="l00111"></a><span class="lineno"> 111</span> </div>
<div class="line"><a id="l00112" name="l00112"></a><span class="lineno"> 112</span> </div>
<div class="line"><a id="l00113" name="l00113"></a><span class="lineno"> 113</span> </div>
<div class="line"><a id="l00114" name="l00114"></a><span class="lineno"> 114</span>}</div>
<div class="line"><a id="l00115" name="l00115"></a><span class="lineno"> 115</span> </div>
<div class="line"><a id="l00116" name="l00116"></a><span class="lineno"> 116</span><span class="preprocessor">#endif</span></div>
<div class="ttc" id="aclasssimulation_1_1constituent_html"><div class="ttname"><a href="classsimulation_1_1constituent.html">simulation::constituent</a></div><div class="ttdef"><b>Definition:</b> constituent.hh:11</div></div>
<div class="ttc" id="aclasssimulation_1_1dlma__system_html"><div class="ttname"><a href="classsimulation_1_1dlma__system.html">simulation::dlma_system</a></div><div class="ttdef"><b>Definition:</b> dlma_system.hh:9</div></div>
<div class="ttc" id="aclasssimulation_1_1simulation__box_html"><div class="ttname"><a href="classsimulation_1_1simulation__box.html">simulation::simulation_box</a></div><div class="ttdef"><b>Definition:</b> simulation_box.hh:12</div></div>
<div class="ttc" id="aclasssimulation_1_1system__factory_html"><div class="ttname"><a href="classsimulation_1_1system__factory.html">simulation::system_factory</a></div><div class="ttdef"><b>Definition:</b> system_factory.hh:14</div></div>
<div class="ttc" id="aclasssimulation_1_1system_html"><div class="ttname"><a href="classsimulation_1_1system.html">simulation::system</a></div><div class="ttdef"><b>Definition:</b> system.hh:17</div></div>
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