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<p id="t1" class="pln"><span class="n"><a href="#t1">1</a></span><span class="t"><span class="str">"""</span> </span><span class="r"></span></p>
<p id="t2" class="pln"><span class="n"><a href="#t2">2</a></span><span class="t"><span class="str">The module contains frequently-used functions that do not neatly fit into other areas of the code base.</span> </span><span class="r"></span></p>
<p id="t3" class="pln"><span class="n"><a href="#t3">3</a></span><span class="t"><span class="str">"""</span> </span><span class="r"></span></p>
<p id="t4" class="pln"><span class="n"><a href="#t4">4</a></span><span class="t"> </span><span class="r"></span></p>
<p id="t5" class="pln"><span class="n"><a href="#t5">5</a></span><span class="t"><span class="com"># import sciris as sc</span> </span><span class="r"></span></p>
<p id="t6" class="run"><span class="n"><a href="#t6">6</a></span><span class="t"><span class="key">import</span> <span class="nam">numpy</span> <span class="key">as</span> <span class="nam">np</span> </span><span class="r"></span></p>
<p id="t7" class="run"><span class="n"><a href="#t7">7</a></span><span class="t"><span class="key">from</span> <span class="nam">copy</span> <span class="key">import</span> <span class="nam">deepcopy</span> </span><span class="r"></span></p>
<p id="t8" class="run"><span class="n"><a href="#t8">8</a></span><span class="t"><span class="key">from</span> <span class="op">.</span> <span class="key">import</span> <span class="nam">config</span> <span class="key">as</span> <span class="nam">cfg</span> </span><span class="r"></span></p>
<p id="t9" class="pln"><span class="n"><a href="#t9">9</a></span><span class="t"> </span><span class="r"></span></p>
<p id="t10" class="pln"><span class="n"><a href="#t10">10</a></span><span class="t"> </span><span class="r"></span></p>
<p id="t11" class="run"><span class="n"><a href="#t11">11</a></span><span class="t"><span class="key">def</span> <span class="nam">norm_dic</span><span class="op">(</span><span class="nam">dic</span><span class="op">)</span><span class="op">:</span> </span><span class="r"></span></p>
<p id="t12" class="pln"><span class="n"><a href="#t12">12</a></span><span class="t"> <span class="str">"""</span> </span><span class="r"></span></p>
<p id="t13" class="pln"><span class="n"><a href="#t13">13</a></span><span class="t"><span class="str"> Normalize the dictionary ``dic``.</span> </span><span class="r"></span></p>
<p id="t14" class="pln"><span class="n"><a href="#t14">14</a></span><span class="t"> </span><span class="r"></span></p>
<p id="t15" class="pln"><span class="n"><a href="#t15">15</a></span><span class="t"><span class="str"> Args:</span> </span><span class="r"></span></p>
<p id="t16" class="pln"><span class="n"><a href="#t16">16</a></span><span class="t"><span class="str"> dic (dict): A dictionary with numerical values.</span> </span><span class="r"></span></p>
<p id="t17" class="pln"><span class="n"><a href="#t17">17</a></span><span class="t"> </span><span class="r"></span></p>
<p id="t18" class="pln"><span class="n"><a href="#t18">18</a></span><span class="t"><span class="str"> Returns:</span> </span><span class="r"></span></p>
<p id="t19" class="pln"><span class="n"><a href="#t19">19</a></span><span class="t"><span class="str"> A normalized dictionary.</span> </span><span class="r"></span></p>
<p id="t20" class="pln"><span class="n"><a href="#t20">20</a></span><span class="t"><span class="str"> """</span> </span><span class="r"></span></p>
<p id="t21" class="run"><span class="n"><a href="#t21">21</a></span><span class="t"> <span class="nam">total</span> <span class="op">=</span> <span class="nam">np</span><span class="op">.</span><span class="nam">sum</span><span class="op">(</span><span class="op">[</span><span class="nam">dic</span><span class="op">[</span><span class="nam">i</span><span class="op">]</span> <span class="key">for</span> <span class="nam">i</span> <span class="key">in</span> <span class="nam">dic</span><span class="op">]</span><span class="op">,</span> <span class="nam">dtype</span><span class="op">=</span><span class="nam">float</span><span class="op">)</span> </span><span class="r"></span></p>
<p id="t22" class="run"><span class="n"><a href="#t22">22</a></span><span class="t"> <span class="key">if</span> <span class="nam">total</span> <span class="op">==</span> <span class="num">0.0</span><span class="op">:</span> </span><span class="r"></span></p>
<p id="t23" class="run"><span class="n"><a href="#t23">23</a></span><span class="t"> <span class="key">return</span> <span class="nam">dic</span> </span><span class="r"></span></p>
<p id="t24" class="run"><span class="n"><a href="#t24">24</a></span><span class="t"> <span class="nam">new_dic</span> <span class="op">=</span> <span class="op">{</span><span class="op">}</span> </span><span class="r"></span></p>
<p id="t25" class="run"><span class="n"><a href="#t25">25</a></span><span class="t"> <span class="key">for</span> <span class="nam">i</span> <span class="key">in</span> <span class="nam">dic</span><span class="op">:</span> </span><span class="r"></span></p>
<p id="t26" class="run"><span class="n"><a href="#t26">26</a></span><span class="t"> <span class="nam">new_dic</span><span class="op">[</span><span class="nam">i</span><span class="op">]</span> <span class="op">=</span> <span class="nam">float</span><span class="op">(</span><span class="nam">dic</span><span class="op">[</span><span class="nam">i</span><span class="op">]</span><span class="op">)</span> <span class="op">/</span> <span class="nam">total</span> </span><span class="r"></span></p>
<p id="t27" class="run"><span class="n"><a href="#t27">27</a></span><span class="t"> <span class="key">return</span> <span class="nam">new_dic</span> </span><span class="r"></span></p>
<p id="t28" class="pln"><span class="n"><a href="#t28">28</a></span><span class="t"> </span><span class="r"></span></p>
<p id="t29" class="pln"><span class="n"><a href="#t29">29</a></span><span class="t"> </span><span class="r"></span></p>
<p id="t30" class="run"><span class="n"><a href="#t30">30</a></span><span class="t"><span class="key">def</span> <span class="nam">norm_age_group</span><span class="op">(</span><span class="nam">age_dic</span><span class="op">,</span> <span class="nam">age_min</span><span class="op">,</span> <span class="nam">age_max</span><span class="op">)</span><span class="op">:</span> </span><span class="r"></span></p>
<p id="t31" class="pln"><span class="n"><a href="#t31">31</a></span><span class="t"> <span class="str">"""</span> </span><span class="r"></span></p>
<p id="t32" class="pln"><span class="n"><a href="#t32">32</a></span><span class="t"><span class="str"> Create a normalized dictionary for the range ``age_min`` to ``age_max``, inclusive.</span> </span><span class="r"></span></p>
<p id="t33" class="pln"><span class="n"><a href="#t33">33</a></span><span class="t"> </span><span class="r"></span></p>
<p id="t34" class="pln"><span class="n"><a href="#t34">34</a></span><span class="t"><span class="str"> Args:</span> </span><span class="r"></span></p>
<p id="t35" class="pln"><span class="n"><a href="#t35">35</a></span><span class="t"><span class="str"> age_dic (dict) : A dictionary with numerical values.</span> </span><span class="r"></span></p>
<p id="t36" class="pln"><span class="n"><a href="#t36">36</a></span><span class="t"><span class="str"> age_min (int) : The minimum value of the range for the dictionary.</span> </span><span class="r"></span></p>
<p id="t37" class="pln"><span class="n"><a href="#t37">37</a></span><span class="t"><span class="str"> age_max (int) : The maximum value of the range for the dictionary.</span> </span><span class="r"></span></p>
<p id="t38" class="pln"><span class="n"><a href="#t38">38</a></span><span class="t"> </span><span class="r"></span></p>
<p id="t39" class="pln"><span class="n"><a href="#t39">39</a></span><span class="t"><span class="str"> Returns:</span> </span><span class="r"></span></p>
<p id="t40" class="pln"><span class="n"><a href="#t40">40</a></span><span class="t"><span class="str"> A normalized dictionary for keys in the range ``age_min`` to ``age_max``, inclusive.</span> </span><span class="r"></span></p>
<p id="t41" class="pln"><span class="n"><a href="#t41">41</a></span><span class="t"><span class="str"> """</span> </span><span class="r"></span></p>
<p id="t42" class="run"><span class="n"><a href="#t42">42</a></span><span class="t"> <span class="nam">dic</span> <span class="op">=</span> <span class="op">{</span><span class="op">}</span> </span><span class="r"></span></p>
<p id="t43" class="run"><span class="n"><a href="#t43">43</a></span><span class="t"> <span class="key">for</span> <span class="nam">a</span> <span class="key">in</span> <span class="nam">range</span><span class="op">(</span><span class="nam">age_min</span><span class="op">,</span> <span class="nam">age_max</span> <span class="op">+</span> <span class="num">1</span><span class="op">)</span><span class="op">:</span> </span><span class="r"></span></p>
<p id="t44" class="run"><span class="n"><a href="#t44">44</a></span><span class="t"> <span class="nam">dic</span><span class="op">[</span><span class="nam">a</span><span class="op">]</span> <span class="op">=</span> <span class="nam">age_dic</span><span class="op">[</span><span class="nam">a</span><span class="op">]</span> </span><span class="r"></span></p>
<p id="t45" class="run"><span class="n"><a href="#t45">45</a></span><span class="t"> <span class="key">return</span> <span class="nam">norm_dic</span><span class="op">(</span><span class="nam">dic</span><span class="op">)</span> </span><span class="r"></span></p>
<p id="t46" class="pln"><span class="n"><a href="#t46">46</a></span><span class="t"> </span><span class="r"></span></p>
<p id="t47" class="pln"><span class="n"><a href="#t47">47</a></span><span class="t"> </span><span class="r"></span></p>
<p id="t48" class="pln"><span class="n"><a href="#t48">48</a></span><span class="t"><span class="com"># Functions related to age distributions</span> </span><span class="r"></span></p>
<p id="t49" class="pln"><span class="n"><a href="#t49">49</a></span><span class="t"> </span><span class="r"></span></p>
<p id="t50" class="run"><span class="n"><a href="#t50">50</a></span><span class="t"><span class="key">def</span> <span class="nam">get_age_by_brackets_dic</span><span class="op">(</span><span class="nam">age_brackets</span><span class="op">)</span><span class="op">:</span> </span><span class="r"></span></p>
<p id="t51" class="pln"><span class="n"><a href="#t51">51</a></span><span class="t"> <span class="str">"""</span> </span><span class="r"></span></p>
<p id="t52" class="pln"><span class="n"><a href="#t52">52</a></span><span class="t"><span class="str"> Create a dictionary mapping age to the age bracket it falls in.</span> </span><span class="r"></span></p>
<p id="t53" class="pln"><span class="n"><a href="#t53">53</a></span><span class="t"> </span><span class="r"></span></p>
<p id="t54" class="pln"><span class="n"><a href="#t54">54</a></span><span class="t"><span class="str"> Args:</span> </span><span class="r"></span></p>
<p id="t55" class="pln"><span class="n"><a href="#t55">55</a></span><span class="t"><span class="str"> age_brackets (dict): A dictionary mapping age bracket keys to age bracket range.</span> </span><span class="r"></span></p>
<p id="t56" class="pln"><span class="n"><a href="#t56">56</a></span><span class="t"> </span><span class="r"></span></p>
<p id="t57" class="pln"><span class="n"><a href="#t57">57</a></span><span class="t"><span class="str"> Returns:</span> </span><span class="r"></span></p>
<p id="t58" class="pln"><span class="n"><a href="#t58">58</a></span><span class="t"><span class="str"> A dictionary of age bracket by age.</span> </span><span class="r"></span></p>
<p id="t59" class="pln"><span class="n"><a href="#t59">59</a></span><span class="t"> </span><span class="r"></span></p>
<p id="t60" class="pln"><span class="n"><a href="#t60">60</a></span><span class="t"><span class="str"> Example</span> </span><span class="r"></span></p>
<p id="t61" class="pln"><span class="n"><a href="#t61">61</a></span><span class="t"><span class="str"> =======</span> </span><span class="r"></span></p>
<p id="t62" class="pln"><span class="n"><a href="#t62">62</a></span><span class="t"> </span><span class="r"></span></p>
<p id="t63" class="pln"><span class="n"><a href="#t63">63</a></span><span class="t"><span class="str"> ::</span> </span><span class="r"></span></p>
<p id="t64" class="pln"><span class="n"><a href="#t64">64</a></span><span class="t"> </span><span class="r"></span></p>
<p id="t65" class="pln"><span class="n"><a href="#t65">65</a></span><span class="t"><span class="str"> age_brackets = sp.get_census_age_brackets(sp.datadir,state_location='Washington',country_location='usa')</span> </span><span class="r"></span></p>
<p id="t66" class="pln"><span class="n"><a href="#t66">66</a></span><span class="t"><span class="str"> age_by_brackets_dic = sp.get_age_by_brackets_dic(age_brackets)</span> </span><span class="r"></span></p>
<p id="t67" class="pln"><span class="n"><a href="#t67">67</a></span><span class="t"><span class="str"> """</span> </span><span class="r"></span></p>
<p id="t68" class="run"><span class="n"><a href="#t68">68</a></span><span class="t"> <span class="nam">age_by_brackets_dic</span> <span class="op">=</span> <span class="op">{</span><span class="op">}</span> </span><span class="r"></span></p>
<p id="t69" class="run"><span class="n"><a href="#t69">69</a></span><span class="t"> <span class="key">for</span> <span class="nam">b</span> <span class="key">in</span> <span class="nam">age_brackets</span><span class="op">:</span> </span><span class="r"></span></p>
<p id="t70" class="run"><span class="n"><a href="#t70">70</a></span><span class="t"> <span class="key">for</span> <span class="nam">a</span> <span class="key">in</span> <span class="nam">age_brackets</span><span class="op">[</span><span class="nam">b</span><span class="op">]</span><span class="op">:</span> </span><span class="r"></span></p>
<p id="t71" class="run"><span class="n"><a href="#t71">71</a></span><span class="t"> <span class="nam">age_by_brackets_dic</span><span class="op">[</span><span class="nam">a</span><span class="op">]</span> <span class="op">=</span> <span class="nam">b</span> </span><span class="r"></span></p>
<p id="t72" class="run"><span class="n"><a href="#t72">72</a></span><span class="t"> <span class="key">return</span> <span class="nam">age_by_brackets_dic</span> </span><span class="r"></span></p>
<p id="t73" class="pln"><span class="n"><a href="#t73">73</a></span><span class="t"> </span><span class="r"></span></p>
<p id="t74" class="pln"><span class="n"><a href="#t74">74</a></span><span class="t"> </span><span class="r"></span></p>
<p id="t75" class="run"><span class="n"><a href="#t75">75</a></span><span class="t"><span class="key">def</span> <span class="nam">get_aggregate_ages</span><span class="op">(</span><span class="nam">ages</span><span class="op">,</span> <span class="nam">age_by_brackets_dic</span><span class="op">)</span><span class="op">:</span> </span><span class="r"></span></p>
<p id="t76" class="pln"><span class="n"><a href="#t76">76</a></span><span class="t"> <span class="str">"""</span> </span><span class="r"></span></p>
<p id="t77" class="pln"><span class="n"><a href="#t77">77</a></span><span class="t"><span class="str"> Create a dictionary of the count of ages by age brackets.</span> </span><span class="r"></span></p>
<p id="t78" class="pln"><span class="n"><a href="#t78">78</a></span><span class="t"> </span><span class="r"></span></p>
<p id="t79" class="pln"><span class="n"><a href="#t79">79</a></span><span class="t"><span class="str"> Args:</span> </span><span class="r"></span></p>
<p id="t80" class="pln"><span class="n"><a href="#t80">80</a></span><span class="t"><span class="str"> ages (dict) : A dictionary of age count by single year.</span> </span><span class="r"></span></p>
<p id="t81" class="pln"><span class="n"><a href="#t81">81</a></span><span class="t"><span class="str"> age_by_brackets_dic (dict) : A dictionary mapping age to the age bracket range it falls within.</span> </span><span class="r"></span></p>
<p id="t82" class="pln"><span class="n"><a href="#t82">82</a></span><span class="t"> </span><span class="r"></span></p>
<p id="t83" class="pln"><span class="n"><a href="#t83">83</a></span><span class="t"><span class="str"> Returns:</span> </span><span class="r"></span></p>
<p id="t84" class="pln"><span class="n"><a href="#t84">84</a></span><span class="t"><span class="str"> A dictionary of aggregated age count for specified age brackets.</span> </span><span class="r"></span></p>
<p id="t85" class="pln"><span class="n"><a href="#t85">85</a></span><span class="t"> </span><span class="r"></span></p>
<p id="t86" class="pln"><span class="n"><a href="#t86">86</a></span><span class="t"><span class="str"> Example</span> </span><span class="r"></span></p>
<p id="t87" class="pln"><span class="n"><a href="#t87">87</a></span><span class="t"><span class="str"> =======</span> </span><span class="r"></span></p>
<p id="t88" class="pln"><span class="n"><a href="#t88">88</a></span><span class="t"> </span><span class="r"></span></p>
<p id="t89" class="pln"><span class="n"><a href="#t89">89</a></span><span class="t"><span class="str"> ::</span> </span><span class="r"></span></p>
<p id="t90" class="pln"><span class="n"><a href="#t90">90</a></span><span class="t"> </span><span class="r"></span></p>
<p id="t91" class="pln"><span class="n"><a href="#t91">91</a></span><span class="t"><span class="str"> aggregate_age_count = sp.get_aggregate_ages(age_count, age_by_brackets_dic)</span> </span><span class="r"></span></p>
<p id="t92" class="pln"><span class="n"><a href="#t92">92</a></span><span class="t"><span class="str"> aggregate_matrix = symmetric_matrix.copy()</span> </span><span class="r"></span></p>
<p id="t93" class="pln"><span class="n"><a href="#t93">93</a></span><span class="t"><span class="str"> aggregate_matrix = sp.get_aggregate_matrix(aggregate_matrix, age_by_brackets_dic)</span> </span><span class="r"></span></p>
<p id="t94" class="pln"><span class="n"><a href="#t94">94</a></span><span class="t"><span class="str"> """</span> </span><span class="r"></span></p>
<p id="t95" class="run"><span class="n"><a href="#t95">95</a></span><span class="t"> <span class="nam">bracket_keys</span> <span class="op">=</span> <span class="nam">set</span><span class="op">(</span><span class="nam">age_by_brackets_dic</span><span class="op">.</span><span class="nam">values</span><span class="op">(</span><span class="op">)</span><span class="op">)</span> </span><span class="r"></span></p>
<p id="t96" class="run"><span class="n"><a href="#t96">96</a></span><span class="t"> <span class="nam">aggregate_ages</span> <span class="op">=</span> <span class="nam">dict</span><span class="op">.</span><span class="nam">fromkeys</span><span class="op">(</span><span class="nam">bracket_keys</span><span class="op">,</span> <span class="num">0</span><span class="op">)</span> </span><span class="r"></span></p>
<p id="t97" class="run"><span class="n"><a href="#t97">97</a></span><span class="t"> <span class="key">for</span> <span class="nam">a</span> <span class="key">in</span> <span class="nam">ages</span><span class="op">:</span> </span><span class="r"></span></p>
<p id="t98" class="run"><span class="n"><a href="#t98">98</a></span><span class="t"> <span class="nam">b</span> <span class="op">=</span> <span class="nam">age_by_brackets_dic</span><span class="op">[</span><span class="nam">a</span><span class="op">]</span> </span><span class="r"></span></p>
<p id="t99" class="run"><span class="n"><a href="#t99">99</a></span><span class="t"> <span class="nam">aggregate_ages</span><span class="op">[</span><span class="nam">b</span><span class="op">]</span> <span class="op">+=</span> <span class="nam">ages</span><span class="op">[</span><span class="nam">a</span><span class="op">]</span> </span><span class="r"></span></p>
<p id="t100" class="run"><span class="n"><a href="#t100">100</a></span><span class="t"> <span class="key">return</span> <span class="nam">aggregate_ages</span> </span><span class="r"></span></p>
<p id="t101" class="pln"><span class="n"><a href="#t101">101</a></span><span class="t"> </span><span class="r"></span></p>
<p id="t102" class="pln"><span class="n"><a href="#t102">102</a></span><span class="t"> </span><span class="r"></span></p>
<p id="t103" class="run"><span class="n"><a href="#t103">103</a></span><span class="t"><span class="key">def</span> <span class="nam">get_aggregate_age_dict_conversion</span><span class="op">(</span><span class="nam">larger_aggregate_ages</span><span class="op">,</span> <span class="nam">larger_age_brackets</span><span class="op">,</span> <span class="nam">smaller_age_brackets</span><span class="op">,</span> <span class="nam">age_by_brackets_dic_larger</span><span class="op">,</span> <span class="nam">age_by_brackets_dic_smaller</span><span class="op">)</span><span class="op">:</span> </span><span class="r"></span></p>
<p id="t104" class="pln"><span class="n"><a href="#t104">104</a></span><span class="t"> <span class="str">"""</span> </span><span class="r"></span></p>
<p id="t105" class="pln"><span class="n"><a href="#t105">105</a></span><span class="t"><span class="str"> Convert the aggregate age count in ``larger_aggregate_ages`` from a larger number of age brackets to a smaller number of age brackets.</span> </span><span class="r"></span></p>
<p id="t106" class="pln"><span class="n"><a href="#t106">106</a></span><span class="t"> </span><span class="r"></span></p>
<p id="t107" class="pln"><span class="n"><a href="#t107">107</a></span><span class="t"><span class="str"> Args:</span> </span><span class="r"></span></p>
<p id="t108" class="pln"><span class="n"><a href="#t108">108</a></span><span class="t"><span class="str"> larger_aggregate_ages (dict) : A dictionary of aggregated age count.</span> </span><span class="r"></span></p>
<p id="t109" class="pln"><span class="n"><a href="#t109">109</a></span><span class="t"><span class="str"> larger_age_brackets (dict) : A dictionary of age brackets.</span> </span><span class="r"></span></p>
<p id="t110" class="pln"><span class="n"><a href="#t110">110</a></span><span class="t"><span class="str"> smaller_age_brackets (dict) : A dictionary of fewer age brackets.</span> </span><span class="r"></span></p>
<p id="t111" class="pln"><span class="n"><a href="#t111">111</a></span><span class="t"><span class="str"> age_by_brackets_dic_larger (dict) : A dictionary mapping age to the larger number of age brackets.</span> </span><span class="r"></span></p>
<p id="t112" class="pln"><span class="n"><a href="#t112">112</a></span><span class="t"><span class="str"> age_by_brackets_dic_smaller (dict) : A dictionary mapping age to the smaller number of age brackets.</span> </span><span class="r"></span></p>
<p id="t113" class="pln"><span class="n"><a href="#t113">113</a></span><span class="t"> </span><span class="r"></span></p>
<p id="t114" class="pln"><span class="n"><a href="#t114">114</a></span><span class="t"><span class="str"> Returns:</span> </span><span class="r"></span></p>
<p id="t115" class="pln"><span class="n"><a href="#t115">115</a></span><span class="t"><span class="str"> A dictionary of the aggregated age count for the smaller number of age brackets.</span> </span><span class="r"></span></p>
<p id="t116" class="pln"><span class="n"><a href="#t116">116</a></span><span class="t"> </span><span class="r"></span></p>
<p id="t117" class="pln"><span class="n"><a href="#t117">117</a></span><span class="t"><span class="str"> """</span> </span><span class="r"></span></p>
<p id="t118" class="mis show_mis"><span class="n"><a href="#t118">118</a></span><span class="t"> <span class="key">if</span> <span class="nam">len</span><span class="op">(</span><span class="nam">larger_age_brackets</span><span class="op">)</span> <span class="op"><</span> <span class="nam">len</span><span class="op">(</span><span class="nam">smaller_age_brackets</span><span class="op">)</span><span class="op">:</span> </span><span class="r"></span></p>
<p id="t119" class="mis show_mis"><span class="n"><a href="#t119">119</a></span><span class="t"> <span class="key">raise</span> <span class="nam">NotImplementedError</span><span class="op">(</span><span class="str">'Cannot reduce aggregate ages any further.'</span><span class="op">)</span> </span><span class="r"></span></p>
<p id="t120" class="mis show_mis"><span class="n"><a href="#t120">120</a></span><span class="t"> <span class="nam">smaller_aggregate_ages</span> <span class="op">=</span> <span class="nam">dict</span><span class="op">.</span><span class="nam">fromkeys</span><span class="op">(</span><span class="nam">smaller_age_brackets</span><span class="op">.</span><span class="nam">keys</span><span class="op">(</span><span class="op">)</span><span class="op">,</span> <span class="num">0</span><span class="op">)</span> </span><span class="r"></span></p>
<p id="t121" class="mis show_mis"><span class="n"><a href="#t121">121</a></span><span class="t"> <span class="key">for</span> <span class="nam">lb</span> <span class="key">in</span> <span class="nam">larger_age_brackets</span><span class="op">:</span> </span><span class="r"></span></p>
<p id="t122" class="mis show_mis"><span class="n"><a href="#t122">122</a></span><span class="t"> <span class="nam">a</span> <span class="op">=</span> <span class="nam">larger_age_brackets</span><span class="op">[</span><span class="nam">lb</span><span class="op">]</span><span class="op">[</span><span class="num">0</span><span class="op">]</span> </span><span class="r"></span></p>
<p id="t123" class="mis show_mis"><span class="n"><a href="#t123">123</a></span><span class="t"> <span class="nam">sb</span> <span class="op">=</span> <span class="nam">age_by_brackets_dic_smaller</span><span class="op">[</span><span class="nam">a</span><span class="op">]</span> </span><span class="r"></span></p>
<p id="t124" class="mis show_mis"><span class="n"><a href="#t124">124</a></span><span class="t"> <span class="nam">smaller_aggregate_ages</span><span class="op">[</span><span class="nam">sb</span><span class="op">]</span> <span class="op">+=</span> <span class="nam">larger_aggregate_ages</span><span class="op">[</span><span class="nam">lb</span><span class="op">]</span> </span><span class="r"></span></p>
<p id="t125" class="mis show_mis"><span class="n"><a href="#t125">125</a></span><span class="t"> <span class="key">return</span> <span class="nam">smaller_aggregate_ages</span> </span><span class="r"></span></p>
<p id="t126" class="pln"><span class="n"><a href="#t126">126</a></span><span class="t"> </span><span class="r"></span></p>
<p id="t127" class="pln"><span class="n"><a href="#t127">127</a></span><span class="t"> </span><span class="r"></span></p>
<p id="t128" class="pln"><span class="n"><a href="#t128">128</a></span><span class="t"><span class="com"># Functions related to contact matrices</span> </span><span class="r"></span></p>
<p id="t129" class="pln"><span class="n"><a href="#t129">129</a></span><span class="t"> </span><span class="r"></span></p>
<p id="t130" class="run"><span class="n"><a href="#t130">130</a></span><span class="t"><span class="key">def</span> <span class="nam">get_aggregate_matrix</span><span class="op">(</span><span class="nam">M</span><span class="op">,</span> <span class="nam">age_by_brackets_dic</span><span class="op">)</span><span class="op">:</span> </span><span class="r"></span></p>
<p id="t131" class="pln"><span class="n"><a href="#t131">131</a></span><span class="t"> <span class="str">"""</span> </span><span class="r"></span></p>
<p id="t132" class="pln"><span class="n"><a href="#t132">132</a></span><span class="t"><span class="str"> Aggregate a symmetric matrix to fewer age brackets. Do not use for homogeneous mixing matrix.</span> </span><span class="r"></span></p>
<p id="t133" class="pln"><span class="n"><a href="#t133">133</a></span><span class="t"> </span><span class="r"></span></p>
<p id="t134" class="pln"><span class="n"><a href="#t134">134</a></span><span class="t"><span class="str"> Args:</span> </span><span class="r"></span></p>
<p id="t135" class="pln"><span class="n"><a href="#t135">135</a></span><span class="t"><span class="str"> M (np.ndarray) : A symmetric age contact matrix.</span> </span><span class="r"></span></p>
<p id="t136" class="pln"><span class="n"><a href="#t136">136</a></span><span class="t"><span class="str"> age_by_brackets_dic (dict) : A dictionary mapping age to the age bracket range it falls within.</span> </span><span class="r"></span></p>
<p id="t137" class="pln"><span class="n"><a href="#t137">137</a></span><span class="t"> </span><span class="r"></span></p>
<p id="t138" class="pln"><span class="n"><a href="#t138">138</a></span><span class="t"><span class="str"> Returns:</span> </span><span class="r"></span></p>
<p id="t139" class="pln"><span class="n"><a href="#t139">139</a></span><span class="t"><span class="str"> A symmetric contact matrix (``np.ndarray``) aggregated to age brackets.</span> </span><span class="r"></span></p>
<p id="t140" class="pln"><span class="n"><a href="#t140">140</a></span><span class="t"> </span><span class="r"></span></p>
<p id="t141" class="pln"><span class="n"><a href="#t141">141</a></span><span class="t"><span class="str"> Example</span> </span><span class="r"></span></p>
<p id="t142" class="pln"><span class="n"><a href="#t142">142</a></span><span class="t"><span class="str"> =======</span> </span><span class="r"></span></p>
<p id="t143" class="pln"><span class="n"><a href="#t143">143</a></span><span class="t"> </span><span class="r"></span></p>
<p id="t144" class="pln"><span class="n"><a href="#t144">144</a></span><span class="t"><span class="str"> ::</span> </span><span class="r"></span></p>
<p id="t145" class="pln"><span class="n"><a href="#t145">145</a></span><span class="t"> </span><span class="r"></span></p>
<p id="t146" class="pln"><span class="n"><a href="#t146">146</a></span><span class="t"><span class="str"> age_brackets = sp.get_census_age_brackets(sp.datadir,state_location='Washington',country_location='usa')</span> </span><span class="r"></span></p>
<p id="t147" class="pln"><span class="n"><a href="#t147">147</a></span><span class="t"><span class="str"> age_by_brackets_dic = sp.get_age_by_brackets_dic(age_brackets)</span> </span><span class="r"></span></p>
<p id="t148" class="pln"><span class="n"><a href="#t148">148</a></span><span class="t"> </span><span class="r"></span></p>
<p id="t149" class="pln"><span class="n"><a href="#t149">149</a></span><span class="t"><span class="str"> aggregate_age_count = sp.get_aggregate_ages(age_count, age_by_brackets_dic)</span> </span><span class="r"></span></p>
<p id="t150" class="pln"><span class="n"><a href="#t150">150</a></span><span class="t"><span class="str"> aggregate_matrix = symmetric_matrix.copy()</span> </span><span class="r"></span></p>
<p id="t151" class="pln"><span class="n"><a href="#t151">151</a></span><span class="t"><span class="str"> aggregate_matrix = sp.get_aggregate_matrix(aggregate_matrix, age_by_brackets_dic)</span> </span><span class="r"></span></p>
<p id="t152" class="pln"><span class="n"><a href="#t152">152</a></span><span class="t"> </span><span class="r"></span></p>
<p id="t153" class="pln"><span class="n"><a href="#t153">153</a></span><span class="t"><span class="str"> asymmetric_matrix = sp.get_asymmetric_matrix(aggregate_matrix, aggregate_age_count)</span> </span><span class="r"></span></p>
<p id="t154" class="pln"><span class="n"><a href="#t154">154</a></span><span class="t"> </span><span class="r"></span></p>
<p id="t155" class="pln"><span class="n"><a href="#t155">155</a></span><span class="t"><span class="str"> """</span> </span><span class="r"></span></p>
<p id="t156" class="run"><span class="n"><a href="#t156">156</a></span><span class="t"> <span class="nam">N</span> <span class="op">=</span> <span class="nam">len</span><span class="op">(</span><span class="nam">M</span><span class="op">)</span> </span><span class="r"></span></p>
<p id="t157" class="run"><span class="n"><a href="#t157">157</a></span><span class="t"> <span class="nam">num_agebrackets</span> <span class="op">=</span> <span class="nam">len</span><span class="op">(</span><span class="nam">set</span><span class="op">(</span><span class="nam">age_by_brackets_dic</span><span class="op">.</span><span class="nam">values</span><span class="op">(</span><span class="op">)</span><span class="op">)</span><span class="op">)</span> </span><span class="r"></span></p>
<p id="t158" class="run"><span class="n"><a href="#t158">158</a></span><span class="t"> <span class="nam">M_agg</span> <span class="op">=</span> <span class="nam">np</span><span class="op">.</span><span class="nam">zeros</span><span class="op">(</span><span class="op">(</span><span class="nam">num_agebrackets</span><span class="op">,</span> <span class="nam">num_agebrackets</span><span class="op">)</span><span class="op">)</span> </span><span class="r"></span></p>
<p id="t159" class="run"><span class="n"><a href="#t159">159</a></span><span class="t"> <span class="key">for</span> <span class="nam">i</span> <span class="key">in</span> <span class="nam">range</span><span class="op">(</span><span class="nam">N</span><span class="op">)</span><span class="op">:</span> </span><span class="r"></span></p>
<p id="t160" class="run"><span class="n"><a href="#t160">160</a></span><span class="t"> <span class="nam">bi</span> <span class="op">=</span> <span class="nam">age_by_brackets_dic</span><span class="op">[</span><span class="nam">i</span><span class="op">]</span> </span><span class="r"></span></p>
<p id="t161" class="run"><span class="n"><a href="#t161">161</a></span><span class="t"> <span class="key">for</span> <span class="nam">j</span> <span class="key">in</span> <span class="nam">range</span><span class="op">(</span><span class="nam">N</span><span class="op">)</span><span class="op">:</span> </span><span class="r"></span></p>
<p id="t162" class="run"><span class="n"><a href="#t162">162</a></span><span class="t"> <span class="nam">bj</span> <span class="op">=</span> <span class="nam">age_by_brackets_dic</span><span class="op">[</span><span class="nam">j</span><span class="op">]</span> </span><span class="r"></span></p>
<p id="t163" class="run"><span class="n"><a href="#t163">163</a></span><span class="t"> <span class="nam">M_agg</span><span class="op">[</span><span class="nam">bi</span><span class="op">]</span><span class="op">[</span><span class="nam">bj</span><span class="op">]</span> <span class="op">+=</span> <span class="nam">M</span><span class="op">[</span><span class="nam">i</span><span class="op">]</span><span class="op">[</span><span class="nam">j</span><span class="op">]</span> </span><span class="r"></span></p>
<p id="t164" class="run"><span class="n"><a href="#t164">164</a></span><span class="t"> <span class="key">return</span> <span class="nam">M_agg</span> </span><span class="r"></span></p>
<p id="t165" class="pln"><span class="n"><a href="#t165">165</a></span><span class="t"> </span><span class="r"></span></p>
<p id="t166" class="pln"><span class="n"><a href="#t166">166</a></span><span class="t"> </span><span class="r"></span></p>
<p id="t167" class="run"><span class="n"><a href="#t167">167</a></span><span class="t"><span class="key">def</span> <span class="nam">get_asymmetric_matrix</span><span class="op">(</span><span class="nam">symmetric_matrix</span><span class="op">,</span> <span class="nam">aggregate_ages</span><span class="op">)</span><span class="op">:</span> </span><span class="r"></span></p>
<p id="t168" class="pln"><span class="n"><a href="#t168">168</a></span><span class="t"> <span class="str">"""</span> </span><span class="r"></span></p>
<p id="t169" class="pln"><span class="n"><a href="#t169">169</a></span><span class="t"><span class="str"> Get the contact matrix for the average individual in each age bracket.</span> </span><span class="r"></span></p>
<p id="t170" class="pln"><span class="n"><a href="#t170">170</a></span><span class="t"> </span><span class="r"></span></p>
<p id="t171" class="pln"><span class="n"><a href="#t171">171</a></span><span class="t"><span class="str"> Args:</span> </span><span class="r"></span></p>
<p id="t172" class="pln"><span class="n"><a href="#t172">172</a></span><span class="t"><span class="str"> symmetric_matrix (np.ndarray) : A symmetric age contact matrix.</span> </span><span class="r"></span></p>
<p id="t173" class="pln"><span class="n"><a href="#t173">173</a></span><span class="t"><span class="str"> aggregate_ages (dict) : A dictionary mapping single year ages to age brackets.</span> </span><span class="r"></span></p>
<p id="t174" class="pln"><span class="n"><a href="#t174">174</a></span><span class="t"> </span><span class="r"></span></p>
<p id="t175" class="pln"><span class="n"><a href="#t175">175</a></span><span class="t"><span class="str"> Returns:</span> </span><span class="r"></span></p>
<p id="t176" class="pln"><span class="n"><a href="#t176">176</a></span><span class="t"><span class="str"> A contact matrix (``np.ndarray``) whose elements ``M_ij`` describe the contact frequency for the average individual in age bracket ``i`` with all possible contacts in age bracket ``j``.</span> </span><span class="r"></span></p>
<p id="t177" class="pln"><span class="n"><a href="#t177">177</a></span><span class="t"> </span><span class="r"></span></p>
<p id="t178" class="pln"><span class="n"><a href="#t178">178</a></span><span class="t"><span class="str"> Example</span> </span><span class="r"></span></p>
<p id="t179" class="pln"><span class="n"><a href="#t179">179</a></span><span class="t"><span class="str"> =======</span> </span><span class="r"></span></p>
<p id="t180" class="pln"><span class="n"><a href="#t180">180</a></span><span class="t"> </span><span class="r"></span></p>
<p id="t181" class="pln"><span class="n"><a href="#t181">181</a></span><span class="t"><span class="str"> ::</span> </span><span class="r"></span></p>
<p id="t182" class="pln"><span class="n"><a href="#t182">182</a></span><span class="t"> </span><span class="r"></span></p>
<p id="t183" class="pln"><span class="n"><a href="#t183">183</a></span><span class="t"><span class="str"> age_brackets = sp.get_census_age_brackets(sp.datadir,state_location='Washington',country_location='usa')</span> </span><span class="r"></span></p>
<p id="t184" class="pln"><span class="n"><a href="#t184">184</a></span><span class="t"><span class="str"> age_by_brackets_dic = sp.get_age_by_brackets_dic(age_brackets)</span> </span><span class="r"></span></p>
<p id="t185" class="pln"><span class="n"><a href="#t185">185</a></span><span class="t"> </span><span class="r"></span></p>
<p id="t186" class="pln"><span class="n"><a href="#t186">186</a></span><span class="t"><span class="str"> aggregate_age_count = sp.get_aggregate_ages(age_count, age_by_brackets_dic)</span> </span><span class="r"></span></p>
<p id="t187" class="pln"><span class="n"><a href="#t187">187</a></span><span class="t"><span class="str"> aggregate_matrix = symmetric_matrix.copy()</span> </span><span class="r"></span></p>
<p id="t188" class="pln"><span class="n"><a href="#t188">188</a></span><span class="t"><span class="str"> aggregate_matrix = sp.get_aggregate_matrix(aggregate_matrix, age_by_brackets_dic)</span> </span><span class="r"></span></p>
<p id="t189" class="pln"><span class="n"><a href="#t189">189</a></span><span class="t"> </span><span class="r"></span></p>
<p id="t190" class="pln"><span class="n"><a href="#t190">190</a></span><span class="t"><span class="str"> asymmetric_matrix = sp.get_asymmetric_matrix(aggregate_matrix, aggregate_age_count)</span> </span><span class="r"></span></p>
<p id="t191" class="pln"><span class="n"><a href="#t191">191</a></span><span class="t"><span class="str"> """</span> </span><span class="r"></span></p>
<p id="t192" class="run"><span class="n"><a href="#t192">192</a></span><span class="t"> <span class="nam">M</span> <span class="op">=</span> <span class="nam">deepcopy</span><span class="op">(</span><span class="nam">symmetric_matrix</span><span class="op">)</span> </span><span class="r"></span></p>
<p id="t193" class="run"><span class="n"><a href="#t193">193</a></span><span class="t"> <span class="key">for</span> <span class="nam">a</span> <span class="key">in</span> <span class="nam">aggregate_ages</span><span class="op">:</span> </span><span class="r"></span></p>
<p id="t194" class="run"><span class="n"><a href="#t194">194</a></span><span class="t"> <span class="nam">M</span><span class="op">[</span><span class="nam">a</span><span class="op">,</span> <span class="op">:</span><span class="op">]</span> <span class="op">=</span> <span class="nam">M</span><span class="op">[</span><span class="nam">a</span><span class="op">,</span> <span class="op">:</span><span class="op">]</span> <span class="op">/</span> <span class="nam">float</span><span class="op">(</span><span class="nam">aggregate_ages</span><span class="op">[</span><span class="nam">a</span><span class="op">]</span><span class="op">)</span> </span><span class="r"></span></p>
<p id="t195" class="pln"><span class="n"><a href="#t195">195</a></span><span class="t"> </span><span class="r"></span></p>
<p id="t196" class="run"><span class="n"><a href="#t196">196</a></span><span class="t"> <span class="key">return</span> <span class="nam">M</span> </span><span class="r"></span></p>
<p id="t197" class="pln"><span class="n"><a href="#t197">197</a></span><span class="t"> </span><span class="r"></span></p>
<p id="t198" class="pln"><span class="n"><a href="#t198">198</a></span><span class="t"> </span><span class="r"></span></p>
<p id="t199" class="run"><span class="n"><a href="#t199">199</a></span><span class="t"><span class="key">def</span> <span class="nam">get_symmetric_community_matrix</span><span class="op">(</span><span class="nam">ages</span><span class="op">)</span><span class="op">:</span> </span><span class="r"></span></p>
<p id="t200" class="pln"><span class="n"><a href="#t200">200</a></span><span class="t"> <span class="str">"""</span> </span><span class="r"></span></p>
<p id="t201" class="pln"><span class="n"><a href="#t201">201</a></span><span class="t"><span class="str"> Get a symmetric homogeneous matrix.</span> </span><span class="r"></span></p>
<p id="t202" class="pln"><span class="n"><a href="#t202">202</a></span><span class="t"> </span><span class="r"></span></p>
<p id="t203" class="pln"><span class="n"><a href="#t203">203</a></span><span class="t"><span class="str"> Args:</span> </span><span class="r"></span></p>
<p id="t204" class="pln"><span class="n"><a href="#t204">204</a></span><span class="t"><span class="str"> ages (dict): A dictionary with the count of each single year age.</span> </span><span class="r"></span></p>
<p id="t205" class="pln"><span class="n"><a href="#t205">205</a></span><span class="t"><span class="str"> Returns:</span> </span><span class="r"></span></p>
<p id="t206" class="pln"><span class="n"><a href="#t206">206</a></span><span class="t"><span class="str"> A symmetric homogeneous matrix for age count in ages.</span> </span><span class="r"></span></p>
<p id="t207" class="pln"><span class="n"><a href="#t207">207</a></span><span class="t"><span class="str"> """</span> </span><span class="r"></span></p>
<p id="t208" class="mis show_mis"><span class="n"><a href="#t208">208</a></span><span class="t"> <span class="nam">N</span> <span class="op">=</span> <span class="nam">len</span><span class="op">(</span><span class="nam">ages</span><span class="op">)</span> </span><span class="r"></span></p>
<p id="t209" class="mis show_mis"><span class="n"><a href="#t209">209</a></span><span class="t"> <span class="nam">M</span> <span class="op">=</span> <span class="nam">np</span><span class="op">.</span><span class="nam">ones</span><span class="op">(</span><span class="op">(</span><span class="nam">N</span><span class="op">,</span> <span class="nam">N</span><span class="op">)</span><span class="op">)</span> </span><span class="r"></span></p>
<p id="t210" class="mis show_mis"><span class="n"><a href="#t210">210</a></span><span class="t"> <span class="key">for</span> <span class="nam">a</span> <span class="key">in</span> <span class="nam">range</span><span class="op">(</span><span class="nam">N</span><span class="op">)</span><span class="op">:</span> </span><span class="r"></span></p>
<p id="t211" class="mis show_mis"><span class="n"><a href="#t211">211</a></span><span class="t"> <span class="nam">M</span><span class="op">[</span><span class="nam">a</span><span class="op">,</span> <span class="op">:</span><span class="op">]</span> <span class="op">=</span> <span class="nam">M</span><span class="op">[</span><span class="nam">a</span><span class="op">,</span> <span class="op">:</span><span class="op">]</span> <span class="op">*</span> <span class="nam">ages</span><span class="op">[</span><span class="nam">a</span><span class="op">]</span> </span><span class="r"></span></p>
<p id="t212" class="mis show_mis"><span class="n"><a href="#t212">212</a></span><span class="t"> <span class="nam">M</span><span class="op">[</span><span class="op">:</span><span class="op">,</span> <span class="nam">a</span><span class="op">]</span> <span class="op">=</span> <span class="nam">M</span><span class="op">[</span><span class="op">:</span><span class="op">,</span> <span class="nam">a</span><span class="op">]</span> <span class="op">*</span> <span class="nam">ages</span><span class="op">[</span><span class="nam">a</span><span class="op">]</span> </span><span class="r"></span></p>
<p id="t213" class="mis show_mis"><span class="n"><a href="#t213">213</a></span><span class="t"> <span class="key">for</span> <span class="nam">a</span> <span class="key">in</span> <span class="nam">range</span><span class="op">(</span><span class="nam">N</span><span class="op">)</span><span class="op">:</span> </span><span class="r"></span></p>
<p id="t214" class="mis show_mis"><span class="n"><a href="#t214">214</a></span><span class="t"> <span class="nam">M</span><span class="op">[</span><span class="nam">a</span><span class="op">,</span> <span class="nam">a</span><span class="op">]</span> <span class="op">-=</span> <span class="nam">ages</span><span class="op">[</span><span class="nam">a</span><span class="op">]</span> </span><span class="r"></span></p>
<p id="t215" class="mis show_mis"><span class="n"><a href="#t215">215</a></span><span class="t"> <span class="nam">M</span> <span class="op">=</span> <span class="nam">M</span> <span class="op">/</span> <span class="op">(</span><span class="nam">np</span><span class="op">.</span><span class="nam">sum</span><span class="op">(</span><span class="op">[</span><span class="nam">ages</span><span class="op">[</span><span class="nam">a</span><span class="op">]</span> <span class="key">for</span> <span class="nam">a</span> <span class="key">in</span> <span class="nam">ages</span><span class="op">]</span><span class="op">,</span> <span class="nam">dtype</span><span class="op">=</span><span class="nam">float</span><span class="op">)</span> <span class="op">-</span> <span class="num">1</span><span class="op">)</span> </span><span class="r"></span></p>
<p id="t216" class="mis show_mis"><span class="n"><a href="#t216">216</a></span><span class="t"> <span class="key">return</span> <span class="nam">M</span> </span><span class="r"></span></p>
<p id="t217" class="pln"><span class="n"><a href="#t217">217</a></span><span class="t"> </span><span class="r"></span></p>
<p id="t218" class="pln"><span class="n"><a href="#t218">218</a></span><span class="t"> </span><span class="r"></span></p>
<p id="t219" class="run"><span class="n"><a href="#t219">219</a></span><span class="t"><span class="key">def</span> <span class="nam">combine_matrices</span><span class="op">(</span><span class="nam">matrix_dic</span><span class="op">,</span> <span class="nam">weights_dic</span><span class="op">,</span> <span class="nam">num_agebrackets</span><span class="op">)</span><span class="op">:</span> </span><span class="r"></span></p>
<p id="t220" class="pln"><span class="n"><a href="#t220">220</a></span><span class="t"> <span class="str">"""</span> </span><span class="r"></span></p>
<p id="t221" class="pln"><span class="n"><a href="#t221">221</a></span><span class="t"><span class="str"> Combine different contact matrices into a single contact matrix.</span> </span><span class="r"></span></p>
<p id="t222" class="pln"><span class="n"><a href="#t222">222</a></span><span class="t"> </span><span class="r"></span></p>
<p id="t223" class="pln"><span class="n"><a href="#t223">223</a></span><span class="t"><span class="str"> Args:</span> </span><span class="r"></span></p>
<p id="t224" class="pln"><span class="n"><a href="#t224">224</a></span><span class="t"><span class="str"> matrix_dic (dict) : A dictionary of different contact matrices by setting.</span> </span><span class="r"></span></p>
<p id="t225" class="pln"><span class="n"><a href="#t225">225</a></span><span class="t"><span class="str"> weights_dic (dict) : A dictionary of weights for each setting.</span> </span><span class="r"></span></p>
<p id="t226" class="pln"><span class="n"><a href="#t226">226</a></span><span class="t"><span class="str"> num_agebrackets (int) : The number of age brackets for the different matrices.</span> </span><span class="r"></span></p>
<p id="t227" class="pln"><span class="n"><a href="#t227">227</a></span><span class="t"> </span><span class="r"></span></p>
<p id="t228" class="pln"><span class="n"><a href="#t228">228</a></span><span class="t"><span class="str"> Returns:</span> </span><span class="r"></span></p>
<p id="t229" class="pln"><span class="n"><a href="#t229">229</a></span><span class="t"><span class="str"> A contact matrix (``np.ndarray``) that is a linear combination of setting specific matrices given weights for each setting.</span> </span><span class="r"></span></p>
<p id="t230" class="pln"><span class="n"><a href="#t230">230</a></span><span class="t"><span class="str"> """</span> </span><span class="r"></span></p>
<p id="t231" class="run"><span class="n"><a href="#t231">231</a></span><span class="t"> <span class="nam">M</span> <span class="op">=</span> <span class="nam">np</span><span class="op">.</span><span class="nam">zeros</span><span class="op">(</span><span class="op">(</span><span class="nam">cfg</span><span class="op">.</span><span class="nam">matrix_size</span><span class="op">,</span> <span class="nam">cfg</span><span class="op">.</span><span class="nam">matrix_size</span><span class="op">)</span><span class="op">)</span> </span><span class="r"></span></p>
<p id="t232" class="run"><span class="n"><a href="#t232">232</a></span><span class="t"> <span class="key">for</span> <span class="nam">setting_code</span> <span class="key">in</span> <span class="nam">weights_dic</span><span class="op">:</span> </span><span class="r"></span></p>
<p id="t233" class="run"><span class="n"><a href="#t233">233</a></span><span class="t"> <span class="nam">M</span> <span class="op">+=</span> <span class="nam">matrix_dic</span><span class="op">[</span><span class="nam">setting_code</span><span class="op">]</span> <span class="op">*</span> <span class="nam">weights_dic</span><span class="op">[</span><span class="nam">setting_code</span><span class="op">]</span> </span><span class="r"></span></p>
<p id="t234" class="run"><span class="n"><a href="#t234">234</a></span><span class="t"> <span class="key">return</span> <span class="nam">M</span> </span><span class="r"></span></p>
<p id="t235" class="pln"><span class="n"><a href="#t235">235</a></span><span class="t"> </span><span class="r"></span></p>
<p id="t236" class="pln"><span class="n"><a href="#t236">236</a></span><span class="t"> </span><span class="r"></span></p>
<p id="t237" class="run"><span class="n"><a href="#t237">237</a></span><span class="t"><span class="key">def</span> <span class="nam">get_ids_by_age_dic</span><span class="op">(</span><span class="nam">age_by_id_dic</span><span class="op">)</span><span class="op">:</span> </span><span class="r"></span></p>
<p id="t238" class="pln"><span class="n"><a href="#t238">238</a></span><span class="t"> <span class="str">"""</span> </span><span class="r"></span></p>
<p id="t239" class="pln"><span class="n"><a href="#t239">239</a></span><span class="t"><span class="str"> Get lists of IDs that map to each age.</span> </span><span class="r"></span></p>
<p id="t240" class="pln"><span class="n"><a href="#t240">240</a></span><span class="t"> </span><span class="r"></span></p>
<p id="t241" class="pln"><span class="n"><a href="#t241">241</a></span><span class="t"><span class="str"> Args:</span> </span><span class="r"></span></p>
<p id="t242" class="pln"><span class="n"><a href="#t242">242</a></span><span class="t"><span class="str"> age_by_id_dic (dict): A dictionary with the age of each individual by their ID.</span> </span><span class="r"></span></p>
<p id="t243" class="pln"><span class="n"><a href="#t243">243</a></span><span class="t"> </span><span class="r"></span></p>
<p id="t244" class="pln"><span class="n"><a href="#t244">244</a></span><span class="t"><span class="str"> Returns:</span> </span><span class="r"></span></p>
<p id="t245" class="pln"><span class="n"><a href="#t245">245</a></span><span class="t"><span class="str"> A dictionary listing IDs for each age from a dictionary that maps ID to age.</span> </span><span class="r"></span></p>
<p id="t246" class="pln"><span class="n"><a href="#t246">246</a></span><span class="t"><span class="str"> """</span> </span><span class="r"></span></p>
<p id="t247" class="run"><span class="n"><a href="#t247">247</a></span><span class="t"> <span class="nam">max_val</span> <span class="op">=</span> <span class="nam">max</span><span class="op">(</span><span class="op">[</span><span class="nam">v</span> <span class="key">for</span> <span class="nam">v</span> <span class="key">in</span> <span class="nam">age_by_id_dic</span><span class="op">.</span><span class="nam">values</span><span class="op">(</span><span class="op">)</span><span class="op">]</span><span class="op">)</span> </span><span class="r"></span></p>
<p id="t248" class="run"><span class="n"><a href="#t248">248</a></span><span class="t"> <span class="nam">ids_by_age_dic</span> <span class="op">=</span> <span class="nam">dict</span><span class="op">.</span><span class="nam">fromkeys</span><span class="op">(</span><span class="nam">np</span><span class="op">.</span><span class="nam">arange</span><span class="op">(</span><span class="nam">max_val</span> <span class="op">+</span> <span class="num">1</span><span class="op">)</span><span class="op">)</span> </span><span class="r"></span></p>
<p id="t249" class="run"><span class="n"><a href="#t249">249</a></span><span class="t"> <span class="key">for</span> <span class="nam">i</span> <span class="key">in</span> <span class="nam">ids_by_age_dic</span><span class="op">:</span> </span><span class="r"></span></p>
<p id="t250" class="run"><span class="n"><a href="#t250">250</a></span><span class="t"> <span class="nam">ids_by_age_dic</span><span class="op">[</span><span class="nam">i</span><span class="op">]</span> <span class="op">=</span> <span class="op">[</span><span class="op">]</span> </span><span class="r"></span></p>
<p id="t251" class="run"><span class="n"><a href="#t251">251</a></span><span class="t"> <span class="key">for</span> <span class="nam">i</span> <span class="key">in</span> <span class="nam">age_by_id_dic</span><span class="op">:</span> </span><span class="r"></span></p>
<p id="t252" class="run"><span class="n"><a href="#t252">252</a></span><span class="t"> <span class="nam">ids_by_age_dic</span><span class="op">[</span><span class="nam">age_by_id_dic</span><span class="op">[</span><span class="nam">i</span><span class="op">]</span><span class="op">]</span><span class="op">.</span><span class="nam">append</span><span class="op">(</span><span class="nam">i</span><span class="op">)</span> </span><span class="r"></span></p>
<p id="t253" class="run"><span class="n"><a href="#t253">253</a></span><span class="t"> <span class="key">return</span> <span class="nam">ids_by_age_dic</span> </span><span class="r"></span></p>
<p id="t254" class="pln"><span class="n"><a href="#t254">254</a></span><span class="t"> </span><span class="r"></span></p>
<p id="t255" class="pln"><span class="n"><a href="#t255">255</a></span><span class="t"> </span><span class="r"></span></p>
<p id="t256" class="run"><span class="n"><a href="#t256">256</a></span><span class="t"><span class="key">def</span> <span class="nam">get_uids_by_age_dic</span><span class="op">(</span><span class="nam">popdict</span><span class="op">)</span><span class="op">:</span> </span><span class="r"></span></p>
<p id="t257" class="pln"><span class="n"><a href="#t257">257</a></span><span class="t"> <span class="str">"""</span> </span><span class="r"></span></p>
<p id="t258" class="pln"><span class="n"><a href="#t258">258</a></span><span class="t"><span class="str"> Get lists of UIDs that map to each age.</span> </span><span class="r"></span></p>
<p id="t259" class="pln"><span class="n"><a href="#t259">259</a></span><span class="t"> </span><span class="r"></span></p>
<p id="t260" class="pln"><span class="n"><a href="#t260">260</a></span><span class="t"><span class="str"> Args:</span> </span><span class="r"></span></p>
<p id="t261" class="pln"><span class="n"><a href="#t261">261</a></span><span class="t"><span class="str"> popdict (sc.dict): A dictionary mapping an individual's ID to a dictionary with their age and other attributes.</span> </span><span class="r"></span></p>
<p id="t262" class="pln"><span class="n"><a href="#t262">262</a></span><span class="t"><span class="str"> Returns:</span> </span><span class="r"></span></p>
<p id="t263" class="pln"><span class="n"><a href="#t263">263</a></span><span class="t"><span class="str"> A dictionary listing UIDs for each age.</span> </span><span class="r"></span></p>
<p id="t264" class="pln"><span class="n"><a href="#t264">264</a></span><span class="t"><span class="str"> """</span> </span><span class="r"></span></p>
<p id="t265" class="run"><span class="n"><a href="#t265">265</a></span><span class="t"> <span class="nam">uids_by_age_dic</span> <span class="op">=</span> <span class="op">{</span><span class="op">}</span> </span><span class="r"></span></p>
<p id="t266" class="run"><span class="n"><a href="#t266">266</a></span><span class="t"> <span class="key">for</span> <span class="nam">uid</span> <span class="key">in</span> <span class="nam">popdict</span><span class="op">:</span> </span><span class="r"></span></p>
<p id="t267" class="run"><span class="n"><a href="#t267">267</a></span><span class="t"> <span class="nam">uids_by_age_dic</span><span class="op">.</span><span class="nam">setdefault</span><span class="op">(</span><span class="nam">popdict</span><span class="op">[</span><span class="nam">uid</span><span class="op">]</span><span class="op">[</span><span class="str">'age'</span><span class="op">]</span><span class="op">,</span> <span class="op">[</span><span class="op">]</span><span class="op">)</span> </span><span class="r"></span></p>
<p id="t268" class="run"><span class="n"><a href="#t268">268</a></span><span class="t"> <span class="nam">uids_by_age_dic</span><span class="op">[</span><span class="nam">popdict</span><span class="op">[</span><span class="nam">uid</span><span class="op">]</span><span class="op">[</span><span class="str">'age'</span><span class="op">]</span><span class="op">]</span><span class="op">.</span><span class="nam">append</span><span class="op">(</span><span class="nam">uid</span><span class="op">)</span> </span><span class="r"></span></p>
<p id="t269" class="run"><span class="n"><a href="#t269">269</a></span><span class="t"> <span class="key">return</span> <span class="nam">uids_by_age_dic</span> </span><span class="r"></span></p>
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