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<!doctype html>
<html lang="en">
<head>
<meta charset="utf-8">
<meta name="viewport" content="width=device-width, initial-scale=1">
<meta name="generator" content="pdoc 16.0.0"/>
<title>models.config API documentation</title>
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Module Index
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<h2>Contents</h2>
<ul>
<li><a href="#experiment-configuration">Experiment Configuration</a></li>
</ul>
<h2>API Documentation</h2>
<ul class="memberlist">
<li>
<a class="class" href="#Config">Config</a>
<ul class="memberlist">
<li>
<a class="function" href="#Config.get_prey_deaths">get_prey_deaths</a>
</li>
<li>
<a class="function" href="#Config.get_warmup_steps">get_warmup_steps</a>
</li>
<li>
<a class="function" href="#Config.get_measurement_steps">get_measurement_steps</a>
</li>
<li>
<a class="function" href="#Config.estimate_runtime">estimate_runtime</a>
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<a class="function" href="#get_phase_config">get_phase_config</a>
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models<wbr>.config </h1>
<div class="docstring"><h1 id="experiment-configuration">Experiment Configuration</h1>
<p>This module provides the configuration dataclass and pre-defined phase
configurations for Predator-Prey Hydra Effect experiments.</p>
<h6 id="classes">Classes</h6>
<p>Config
Central configuration dataclass with all experiment parameters.</p>
<h6 id="functions">Functions</h6>
<div class="pdoc-code codehilite">
<pre><span></span><code><span class="n">get_phase_config</span><span class="p">:</span> <span class="n">Retrieve</span> <span class="n">configuration</span> <span class="k">for</span> <span class="n">a</span> <span class="n">specific</span> <span class="n">experimental</span> <span class="n">phase</span><span class="o">.</span>
</code></pre>
</div>
<h6 id="phase-configurations">Phase Configurations</h6>
<ul>
<li><code>PHASE1_CONFIG</code>: Parameter sweep to find critical point</li>
<li><code>PHASE2_CONFIG</code>: Self-organization (evolution toward criticality)</li>
<li><code>PHASE3_CONFIG</code>: Finite-size scaling at critical point</li>
<li><code>PHASE4_CONFIG</code>: Sensitivity analysis (4D parameter sweep)</li>
<li><code>PHASE5_CONFIG</code>: Directed hunting comparison</li>
</ul>
<h6 id="example">Example</h6>
<div class="pdoc-code codehilite">
<pre><span></span><code><span class="kn">from</span><span class="w"> </span><span class="nn"><a href="">models.config</a></span><span class="w"> </span><span class="kn">import</span> <span class="n">Config</span><span class="p">,</span> <span class="n">get_phase_config</span>
<span class="c1"># Use predefined phase config</span>
<span class="n">cfg</span> <span class="o">=</span> <span class="n">get_phase_config</span><span class="p">(</span><span class="mi">1</span><span class="p">)</span>
<span class="c1"># Create custom config</span>
<span class="n">cfg</span> <span class="o">=</span> <span class="n">Config</span><span class="p">(</span><span class="n">grid_size</span><span class="o">=</span><span class="mi">200</span><span class="p">,</span> <span class="n">n_replicates</span><span class="o">=</span><span class="mi">10</span><span class="p">)</span>
<span class="c1"># Generate parameter sweep values</span>
<span class="n">prey_deaths</span> <span class="o">=</span> <span class="n">cfg</span><span class="o">.</span><span class="n">get_prey_deaths</span><span class="p">()</span>
</code></pre>
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<div class="pdoc-code codehilite"><pre><span></span><span id="L-1"><a href="#L-1"><span class="linenos"> 1</span></a><span class="ch">#!/usr/bin/env python3</span>
</span><span id="L-2"><a href="#L-2"><span class="linenos"> 2</span></a><span class="sd">"""</span>
</span><span id="L-3"><a href="#L-3"><span class="linenos"> 3</span></a><span class="sd">Experiment Configuration</span>
</span><span id="L-4"><a href="#L-4"><span class="linenos"> 4</span></a><span class="sd">========================</span>
</span><span id="L-5"><a href="#L-5"><span class="linenos"> 5</span></a>
</span><span id="L-6"><a href="#L-6"><span class="linenos"> 6</span></a><span class="sd">This module provides the configuration dataclass and pre-defined phase</span>
</span><span id="L-7"><a href="#L-7"><span class="linenos"> 7</span></a><span class="sd">configurations for Predator-Prey Hydra Effect experiments.</span>
</span><span id="L-8"><a href="#L-8"><span class="linenos"> 8</span></a>
</span><span id="L-9"><a href="#L-9"><span class="linenos"> 9</span></a><span class="sd">Classes</span>
</span><span id="L-10"><a href="#L-10"><span class="linenos"> 10</span></a><span class="sd">-------</span>
</span><span id="L-11"><a href="#L-11"><span class="linenos"> 11</span></a><span class="sd">Config</span>
</span><span id="L-12"><a href="#L-12"><span class="linenos"> 12</span></a><span class="sd"> Central configuration dataclass with all experiment parameters.</span>
</span><span id="L-13"><a href="#L-13"><span class="linenos"> 13</span></a>
</span><span id="L-14"><a href="#L-14"><span class="linenos"> 14</span></a><span class="sd">Functions</span>
</span><span id="L-15"><a href="#L-15"><span class="linenos"> 15</span></a><span class="sd">---------</span>
</span><span id="L-16"><a href="#L-16"><span class="linenos"> 16</span></a><span class="sd">```python</span>
</span><span id="L-17"><a href="#L-17"><span class="linenos"> 17</span></a><span class="sd">get_phase_config: Retrieve configuration for a specific experimental phase.</span>
</span><span id="L-18"><a href="#L-18"><span class="linenos"> 18</span></a><span class="sd">````</span>
</span><span id="L-19"><a href="#L-19"><span class="linenos"> 19</span></a>
</span><span id="L-20"><a href="#L-20"><span class="linenos"> 20</span></a><span class="sd">Phase Configurations</span>
</span><span id="L-21"><a href="#L-21"><span class="linenos"> 21</span></a><span class="sd">--------------------</span>
</span><span id="L-22"><a href="#L-22"><span class="linenos"> 22</span></a><span class="sd">- ``PHASE1_CONFIG``: Parameter sweep to find critical point</span>
</span><span id="L-23"><a href="#L-23"><span class="linenos"> 23</span></a><span class="sd">- ``PHASE2_CONFIG``: Self-organization (evolution toward criticality)</span>
</span><span id="L-24"><a href="#L-24"><span class="linenos"> 24</span></a><span class="sd">- ``PHASE3_CONFIG``: Finite-size scaling at critical point</span>
</span><span id="L-25"><a href="#L-25"><span class="linenos"> 25</span></a><span class="sd">- ``PHASE4_CONFIG``: Sensitivity analysis (4D parameter sweep)</span>
</span><span id="L-26"><a href="#L-26"><span class="linenos"> 26</span></a><span class="sd">- ``PHASE5_CONFIG``: Directed hunting comparison</span>
</span><span id="L-27"><a href="#L-27"><span class="linenos"> 27</span></a>
</span><span id="L-28"><a href="#L-28"><span class="linenos"> 28</span></a><span class="sd">Example</span>
</span><span id="L-29"><a href="#L-29"><span class="linenos"> 29</span></a><span class="sd">-------</span>
</span><span id="L-30"><a href="#L-30"><span class="linenos"> 30</span></a><span class="sd">```python</span>
</span><span id="L-31"><a href="#L-31"><span class="linenos"> 31</span></a><span class="sd">from models.config import Config, get_phase_config</span>
</span><span id="L-32"><a href="#L-32"><span class="linenos"> 32</span></a>
</span><span id="L-33"><a href="#L-33"><span class="linenos"> 33</span></a><span class="sd"># Use predefined phase config</span>
</span><span id="L-34"><a href="#L-34"><span class="linenos"> 34</span></a><span class="sd">cfg = get_phase_config(1)</span>
</span><span id="L-35"><a href="#L-35"><span class="linenos"> 35</span></a>
</span><span id="L-36"><a href="#L-36"><span class="linenos"> 36</span></a><span class="sd"># Create custom config</span>
</span><span id="L-37"><a href="#L-37"><span class="linenos"> 37</span></a><span class="sd">cfg = Config(grid_size=200, n_replicates=10)</span>
</span><span id="L-38"><a href="#L-38"><span class="linenos"> 38</span></a>
</span><span id="L-39"><a href="#L-39"><span class="linenos"> 39</span></a><span class="sd"># Generate parameter sweep values</span>
</span><span id="L-40"><a href="#L-40"><span class="linenos"> 40</span></a><span class="sd">prey_deaths = cfg.get_prey_deaths()</span>
</span><span id="L-41"><a href="#L-41"><span class="linenos"> 41</span></a><span class="sd">```</span>
</span><span id="L-42"><a href="#L-42"><span class="linenos"> 42</span></a><span class="sd">"""</span>
</span><span id="L-43"><a href="#L-43"><span class="linenos"> 43</span></a><span class="kn">from</span><span class="w"> </span><span class="nn">dataclasses</span><span class="w"> </span><span class="kn">import</span> <span class="n">dataclass</span>
</span><span id="L-44"><a href="#L-44"><span class="linenos"> 44</span></a><span class="kn">from</span><span class="w"> </span><span class="nn">typing</span><span class="w"> </span><span class="kn">import</span> <span class="n">Tuple</span>
</span><span id="L-45"><a href="#L-45"><span class="linenos"> 45</span></a><span class="kn">import</span><span class="w"> </span><span class="nn">numpy</span><span class="w"> </span><span class="k">as</span><span class="w"> </span><span class="nn">np</span>
</span><span id="L-46"><a href="#L-46"><span class="linenos"> 46</span></a>
</span><span id="L-47"><a href="#L-47"><span class="linenos"> 47</span></a>
</span><span id="L-48"><a href="#L-48"><span class="linenos"> 48</span></a><span class="nd">@dataclass</span>
</span><span id="L-49"><a href="#L-49"><span class="linenos"> 49</span></a><span class="k">class</span><span class="w"> </span><span class="nc">Config</span><span class="p">:</span>
</span><span id="L-50"><a href="#L-50"><span class="linenos"> 50</span></a><span class="w"> </span><span class="sd">"""</span>
</span><span id="L-51"><a href="#L-51"><span class="linenos"> 51</span></a><span class="sd"> Central configuration for Predator-Prey Hydra Effect experiments.</span>
</span><span id="L-52"><a href="#L-52"><span class="linenos"> 52</span></a>
</span><span id="L-53"><a href="#L-53"><span class="linenos"> 53</span></a><span class="sd"> Attributes</span>
</span><span id="L-54"><a href="#L-54"><span class="linenos"> 54</span></a><span class="sd"> ----------</span>
</span><span id="L-55"><a href="#L-55"><span class="linenos"> 55</span></a><span class="sd"> grid_size : int</span>
</span><span id="L-56"><a href="#L-56"><span class="linenos"> 56</span></a><span class="sd"> Side length of the square simulation grid.</span>
</span><span id="L-57"><a href="#L-57"><span class="linenos"> 57</span></a><span class="sd"> densities : Tuple[float, float]</span>
</span><span id="L-58"><a href="#L-58"><span class="linenos"> 58</span></a><span class="sd"> Initial population fractions for (prey, predator).</span>
</span><span id="L-59"><a href="#L-59"><span class="linenos"> 59</span></a><span class="sd"> grid_sizes : Tuple[int, ...]</span>
</span><span id="L-60"><a href="#L-60"><span class="linenos"> 60</span></a><span class="sd"> Grid dimensions for Finite-Size Scaling (FSS) analysis (Phase 3).</span>
</span><span id="L-61"><a href="#L-61"><span class="linenos"> 61</span></a><span class="sd"> prey_birth : float</span>
</span><span id="L-62"><a href="#L-62"><span class="linenos"> 62</span></a><span class="sd"> Global birth rate for prey species.</span>
</span><span id="L-63"><a href="#L-63"><span class="linenos"> 63</span></a><span class="sd"> prey_death : float</span>
</span><span id="L-64"><a href="#L-64"><span class="linenos"> 64</span></a><span class="sd"> Global death rate for prey species.</span>
</span><span id="L-65"><a href="#L-65"><span class="linenos"> 65</span></a><span class="sd"> predator_birth : float</span>
</span><span id="L-66"><a href="#L-66"><span class="linenos"> 66</span></a><span class="sd"> Global birth rate for predator species.</span>
</span><span id="L-67"><a href="#L-67"><span class="linenos"> 67</span></a><span class="sd"> predator_death : float</span>
</span><span id="L-68"><a href="#L-68"><span class="linenos"> 68</span></a><span class="sd"> Global death rate for predator species.</span>
</span><span id="L-69"><a href="#L-69"><span class="linenos"> 69</span></a><span class="sd"> critical_prey_birth : float</span>
</span><span id="L-70"><a href="#L-70"><span class="linenos"> 70</span></a><span class="sd"> Critical birth rate identified from Phase 1.</span>
</span><span id="L-71"><a href="#L-71"><span class="linenos"> 71</span></a><span class="sd"> critical_prey_death : float</span>
</span><span id="L-72"><a href="#L-72"><span class="linenos"> 72</span></a><span class="sd"> Critical death rate identified from Phase 1.</span>
</span><span id="L-73"><a href="#L-73"><span class="linenos"> 73</span></a><span class="sd"> prey_death_range : Tuple[float, float]</span>
</span><span id="L-74"><a href="#L-74"><span class="linenos"> 74</span></a><span class="sd"> Bounds for prey death rate sweep.</span>
</span><span id="L-75"><a href="#L-75"><span class="linenos"> 75</span></a><span class="sd"> n_prey_death : int</span>
</span><span id="L-76"><a href="#L-76"><span class="linenos"> 76</span></a><span class="sd"> Number of points in prey death rate sweep.</span>
</span><span id="L-77"><a href="#L-77"><span class="linenos"> 77</span></a><span class="sd"> n_replicates : int</span>
</span><span id="L-78"><a href="#L-78"><span class="linenos"> 78</span></a><span class="sd"> Independent stochastic runs per parameter set.</span>
</span><span id="L-79"><a href="#L-79"><span class="linenos"> 79</span></a><span class="sd"> warmup_steps : int</span>
</span><span id="L-80"><a href="#L-80"><span class="linenos"> 80</span></a><span class="sd"> Iterations before data collection begins.</span>
</span><span id="L-81"><a href="#L-81"><span class="linenos"> 81</span></a><span class="sd"> measurement_steps : int</span>
</span><span id="L-82"><a href="#L-82"><span class="linenos"> 82</span></a><span class="sd"> Iterations for collecting statistics.</span>
</span><span id="L-83"><a href="#L-83"><span class="linenos"> 83</span></a><span class="sd"> evolve_sd : float</span>
</span><span id="L-84"><a href="#L-84"><span class="linenos"> 84</span></a><span class="sd"> Standard deviation for parameter mutation.</span>
</span><span id="L-85"><a href="#L-85"><span class="linenos"> 85</span></a><span class="sd"> evolve_min : float</span>
</span><span id="L-86"><a href="#L-86"><span class="linenos"> 86</span></a><span class="sd"> Lower bound for evolving parameters.</span>
</span><span id="L-87"><a href="#L-87"><span class="linenos"> 87</span></a><span class="sd"> evolve_max : float</span>
</span><span id="L-88"><a href="#L-88"><span class="linenos"> 88</span></a><span class="sd"> Upper bound for evolving parameters.</span>
</span><span id="L-89"><a href="#L-89"><span class="linenos"> 89</span></a><span class="sd"> directed_hunting : bool</span>
</span><span id="L-90"><a href="#L-90"><span class="linenos"> 90</span></a><span class="sd"> Toggle for targeted predator movement.</span>
</span><span id="L-91"><a href="#L-91"><span class="linenos"> 91</span></a><span class="sd"> save_timeseries : bool</span>
</span><span id="L-92"><a href="#L-92"><span class="linenos"> 92</span></a><span class="sd"> Toggle for recording population time series.</span>
</span><span id="L-93"><a href="#L-93"><span class="linenos"> 93</span></a><span class="sd"> timeseries_subsample : int</span>
</span><span id="L-94"><a href="#L-94"><span class="linenos"> 94</span></a><span class="sd"> Subsample rate for time series data.</span>
</span><span id="L-95"><a href="#L-95"><span class="linenos"> 95</span></a><span class="sd"> collect_pcf : bool</span>
</span><span id="L-96"><a href="#L-96"><span class="linenos"> 96</span></a><span class="sd"> Toggle for Pair Correlation Function analysis.</span>
</span><span id="L-97"><a href="#L-97"><span class="linenos"> 97</span></a><span class="sd"> pcf_sample_rate : float</span>
</span><span id="L-98"><a href="#L-98"><span class="linenos"> 98</span></a><span class="sd"> Fraction of runs that compute PCFs.</span>
</span><span id="L-99"><a href="#L-99"><span class="linenos"> 99</span></a><span class="sd"> pcf_max_distance : float</span>
</span><span id="L-100"><a href="#L-100"><span class="linenos">100</span></a><span class="sd"> Maximum radial distance for PCF.</span>
</span><span id="L-101"><a href="#L-101"><span class="linenos">101</span></a><span class="sd"> pcf_n_bins : int</span>
</span><span id="L-102"><a href="#L-102"><span class="linenos">102</span></a><span class="sd"> Number of bins in PCF histogram.</span>
</span><span id="L-103"><a href="#L-103"><span class="linenos">103</span></a><span class="sd"> min_density_for_analysis : float</span>
</span><span id="L-104"><a href="#L-104"><span class="linenos">104</span></a><span class="sd"> Population threshold for spatial analysis.</span>
</span><span id="L-105"><a href="#L-105"><span class="linenos">105</span></a><span class="sd"> n_jobs : int</span>
</span><span id="L-106"><a href="#L-106"><span class="linenos">106</span></a><span class="sd"> CPU cores for parallelization (-1 = all).</span>
</span><span id="L-107"><a href="#L-107"><span class="linenos">107</span></a><span class="sd"> """</span>
</span><span id="L-108"><a href="#L-108"><span class="linenos">108</span></a>
</span><span id="L-109"><a href="#L-109"><span class="linenos">109</span></a> <span class="c1"># Grid settings</span>
</span><span id="L-110"><a href="#L-110"><span class="linenos">110</span></a> <span class="n">grid_size</span><span class="p">:</span> <span class="nb">int</span> <span class="o">=</span> <span class="mi">1000</span>
</span><span id="L-111"><a href="#L-111"><span class="linenos">111</span></a> <span class="n">densities</span><span class="p">:</span> <span class="n">Tuple</span><span class="p">[</span><span class="nb">float</span><span class="p">,</span> <span class="nb">float</span><span class="p">]</span> <span class="o">=</span> <span class="p">(</span><span class="mf">0.30</span><span class="p">,</span> <span class="mf">0.15</span><span class="p">)</span>
</span><span id="L-112"><a href="#L-112"><span class="linenos">112</span></a> <span class="n">grid_sizes</span><span class="p">:</span> <span class="n">Tuple</span><span class="p">[</span><span class="nb">int</span><span class="p">,</span> <span class="o">...</span><span class="p">]</span> <span class="o">=</span> <span class="p">(</span><span class="mi">50</span><span class="p">,</span> <span class="mi">100</span><span class="p">,</span> <span class="mi">250</span><span class="p">,</span> <span class="mi">500</span><span class="p">,</span> <span class="mi">1000</span><span class="p">,</span> <span class="mi">2500</span><span class="p">)</span>
</span><span id="L-113"><a href="#L-113"><span class="linenos">113</span></a>
</span><span id="L-114"><a href="#L-114"><span class="linenos">114</span></a> <span class="c1"># Species parameters</span>
</span><span id="L-115"><a href="#L-115"><span class="linenos">115</span></a> <span class="n">prey_birth</span><span class="p">:</span> <span class="nb">float</span> <span class="o">=</span> <span class="mf">0.2</span>
</span><span id="L-116"><a href="#L-116"><span class="linenos">116</span></a> <span class="n">prey_death</span><span class="p">:</span> <span class="nb">float</span> <span class="o">=</span> <span class="mf">0.05</span>
</span><span id="L-117"><a href="#L-117"><span class="linenos">117</span></a> <span class="n">predator_birth</span><span class="p">:</span> <span class="nb">float</span> <span class="o">=</span> <span class="mf">0.8</span>
</span><span id="L-118"><a href="#L-118"><span class="linenos">118</span></a> <span class="n">predator_death</span><span class="p">:</span> <span class="nb">float</span> <span class="o">=</span> <span class="mf">0.05</span>
</span><span id="L-119"><a href="#L-119"><span class="linenos">119</span></a>
</span><span id="L-120"><a href="#L-120"><span class="linenos">120</span></a> <span class="c1"># Critical point (from Phase 1)</span>
</span><span id="L-121"><a href="#L-121"><span class="linenos">121</span></a> <span class="n">critical_prey_birth</span><span class="p">:</span> <span class="nb">float</span> <span class="o">=</span> <span class="mf">0.20</span>
</span><span id="L-122"><a href="#L-122"><span class="linenos">122</span></a> <span class="n">critical_prey_death</span><span class="p">:</span> <span class="nb">float</span> <span class="o">=</span> <span class="mf">0.0968</span>
</span><span id="L-123"><a href="#L-123"><span class="linenos">123</span></a>
</span><span id="L-124"><a href="#L-124"><span class="linenos">124</span></a> <span class="c1"># Parameter sweep settings</span>
</span><span id="L-125"><a href="#L-125"><span class="linenos">125</span></a> <span class="n">prey_death_range</span><span class="p">:</span> <span class="n">Tuple</span><span class="p">[</span><span class="nb">float</span><span class="p">,</span> <span class="nb">float</span><span class="p">]</span> <span class="o">=</span> <span class="p">(</span><span class="mf">0.0</span><span class="p">,</span> <span class="mf">0.2</span><span class="p">)</span>
</span><span id="L-126"><a href="#L-126"><span class="linenos">126</span></a> <span class="n">n_prey_death</span><span class="p">:</span> <span class="nb">int</span> <span class="o">=</span> <span class="mi">20</span>
</span><span id="L-127"><a href="#L-127"><span class="linenos">127</span></a>
</span><span id="L-128"><a href="#L-128"><span class="linenos">128</span></a> <span class="c1"># Replication</span>
</span><span id="L-129"><a href="#L-129"><span class="linenos">129</span></a> <span class="n">n_replicates</span><span class="p">:</span> <span class="nb">int</span> <span class="o">=</span> <span class="mi">15</span>
</span><span id="L-130"><a href="#L-130"><span class="linenos">130</span></a>
</span><span id="L-131"><a href="#L-131"><span class="linenos">131</span></a> <span class="c1"># Simulation timing</span>
</span><span id="L-132"><a href="#L-132"><span class="linenos">132</span></a> <span class="n">warmup_steps</span><span class="p">:</span> <span class="nb">int</span> <span class="o">=</span> <span class="mi">300</span>
</span><span id="L-133"><a href="#L-133"><span class="linenos">133</span></a> <span class="n">measurement_steps</span><span class="p">:</span> <span class="nb">int</span> <span class="o">=</span> <span class="mi">500</span>
</span><span id="L-134"><a href="#L-134"><span class="linenos">134</span></a>
</span><span id="L-135"><a href="#L-135"><span class="linenos">135</span></a> <span class="c1"># Evolution settings</span>
</span><span id="L-136"><a href="#L-136"><span class="linenos">136</span></a> <span class="n">evolve_sd</span><span class="p">:</span> <span class="nb">float</span> <span class="o">=</span> <span class="mf">0.10</span>
</span><span id="L-137"><a href="#L-137"><span class="linenos">137</span></a> <span class="n">evolve_min</span><span class="p">:</span> <span class="nb">float</span> <span class="o">=</span> <span class="mf">0.0</span>
</span><span id="L-138"><a href="#L-138"><span class="linenos">138</span></a> <span class="n">evolve_max</span><span class="p">:</span> <span class="nb">float</span> <span class="o">=</span> <span class="mf">0.10</span>
</span><span id="L-139"><a href="#L-139"><span class="linenos">139</span></a>
</span><span id="L-140"><a href="#L-140"><span class="linenos">140</span></a> <span class="c1"># Model variant</span>
</span><span id="L-141"><a href="#L-141"><span class="linenos">141</span></a> <span class="n">directed_hunting</span><span class="p">:</span> <span class="nb">bool</span> <span class="o">=</span> <span class="kc">False</span>
</span><span id="L-142"><a href="#L-142"><span class="linenos">142</span></a>
</span><span id="L-143"><a href="#L-143"><span class="linenos">143</span></a> <span class="c1"># Time series collection</span>
</span><span id="L-144"><a href="#L-144"><span class="linenos">144</span></a> <span class="n">save_timeseries</span><span class="p">:</span> <span class="nb">bool</span> <span class="o">=</span> <span class="kc">False</span>
</span><span id="L-145"><a href="#L-145"><span class="linenos">145</span></a> <span class="n">timeseries_subsample</span><span class="p">:</span> <span class="nb">int</span> <span class="o">=</span> <span class="mi">10</span>
</span><span id="L-146"><a href="#L-146"><span class="linenos">146</span></a>
</span><span id="L-147"><a href="#L-147"><span class="linenos">147</span></a> <span class="c1"># PCF settings</span>
</span><span id="L-148"><a href="#L-148"><span class="linenos">148</span></a> <span class="n">collect_pcf</span><span class="p">:</span> <span class="nb">bool</span> <span class="o">=</span> <span class="kc">True</span>
</span><span id="L-149"><a href="#L-149"><span class="linenos">149</span></a> <span class="n">pcf_sample_rate</span><span class="p">:</span> <span class="nb">float</span> <span class="o">=</span> <span class="mf">0.2</span>
</span><span id="L-150"><a href="#L-150"><span class="linenos">150</span></a> <span class="n">pcf_max_distance</span><span class="p">:</span> <span class="nb">float</span> <span class="o">=</span> <span class="mf">20.0</span>
</span><span id="L-151"><a href="#L-151"><span class="linenos">151</span></a> <span class="n">pcf_n_bins</span><span class="p">:</span> <span class="nb">int</span> <span class="o">=</span> <span class="mi">20</span>
</span><span id="L-152"><a href="#L-152"><span class="linenos">152</span></a>
</span><span id="L-153"><a href="#L-153"><span class="linenos">153</span></a> <span class="c1"># Analysis thresholds</span>
</span><span id="L-154"><a href="#L-154"><span class="linenos">154</span></a> <span class="n">min_density_for_analysis</span><span class="p">:</span> <span class="nb">float</span> <span class="o">=</span> <span class="mf">0.002</span>
</span><span id="L-155"><a href="#L-155"><span class="linenos">155</span></a>
</span><span id="L-156"><a href="#L-156"><span class="linenos">156</span></a> <span class="c1"># Parallelization</span>
</span><span id="L-157"><a href="#L-157"><span class="linenos">157</span></a> <span class="n">n_jobs</span><span class="p">:</span> <span class="nb">int</span> <span class="o">=</span> <span class="o">-</span><span class="mi">1</span>
</span><span id="L-158"><a href="#L-158"><span class="linenos">158</span></a>
</span><span id="L-159"><a href="#L-159"><span class="linenos">159</span></a> <span class="k">def</span><span class="w"> </span><span class="nf">get_prey_deaths</span><span class="p">(</span><span class="bp">self</span><span class="p">)</span> <span class="o">-></span> <span class="n">np</span><span class="o">.</span><span class="n">ndarray</span><span class="p">:</span>
</span><span id="L-160"><a href="#L-160"><span class="linenos">160</span></a><span class="w"> </span><span class="sd">"""Generate array of prey death rates for parameter sweep."""</span>
</span><span id="L-161"><a href="#L-161"><span class="linenos">161</span></a> <span class="k">return</span> <span class="n">np</span><span class="o">.</span><span class="n">linspace</span><span class="p">(</span>
</span><span id="L-162"><a href="#L-162"><span class="linenos">162</span></a> <span class="bp">self</span><span class="o">.</span><span class="n">prey_death_range</span><span class="p">[</span><span class="mi">0</span><span class="p">],</span> <span class="bp">self</span><span class="o">.</span><span class="n">prey_death_range</span><span class="p">[</span><span class="mi">1</span><span class="p">],</span> <span class="bp">self</span><span class="o">.</span><span class="n">n_prey_death</span>
</span><span id="L-163"><a href="#L-163"><span class="linenos">163</span></a> <span class="p">)</span>
</span><span id="L-164"><a href="#L-164"><span class="linenos">164</span></a>
</span><span id="L-165"><a href="#L-165"><span class="linenos">165</span></a> <span class="k">def</span><span class="w"> </span><span class="nf">get_warmup_steps</span><span class="p">(</span><span class="bp">self</span><span class="p">,</span> <span class="n">L</span><span class="p">:</span> <span class="nb">int</span><span class="p">)</span> <span class="o">-></span> <span class="nb">int</span><span class="p">:</span>
</span><span id="L-166"><a href="#L-166"><span class="linenos">166</span></a><span class="w"> </span><span class="sd">"""Get warmup steps (can be extended for size-dependent scaling)."""</span>
</span><span id="L-167"><a href="#L-167"><span class="linenos">167</span></a> <span class="k">return</span> <span class="bp">self</span><span class="o">.</span><span class="n">warmup_steps</span>
</span><span id="L-168"><a href="#L-168"><span class="linenos">168</span></a>
</span><span id="L-169"><a href="#L-169"><span class="linenos">169</span></a> <span class="k">def</span><span class="w"> </span><span class="nf">get_measurement_steps</span><span class="p">(</span><span class="bp">self</span><span class="p">,</span> <span class="n">L</span><span class="p">:</span> <span class="nb">int</span><span class="p">)</span> <span class="o">-></span> <span class="nb">int</span><span class="p">:</span>
</span><span id="L-170"><a href="#L-170"><span class="linenos">170</span></a><span class="w"> </span><span class="sd">"""Get measurement steps (can be extended for size-dependent scaling)."""</span>
</span><span id="L-171"><a href="#L-171"><span class="linenos">171</span></a> <span class="k">return</span> <span class="bp">self</span><span class="o">.</span><span class="n">measurement_steps</span>
</span><span id="L-172"><a href="#L-172"><span class="linenos">172</span></a>
</span><span id="L-173"><a href="#L-173"><span class="linenos">173</span></a> <span class="k">def</span><span class="w"> </span><span class="nf">estimate_runtime</span><span class="p">(</span><span class="bp">self</span><span class="p">,</span> <span class="n">n_cores</span><span class="p">:</span> <span class="nb">int</span> <span class="o">=</span> <span class="mi">32</span><span class="p">)</span> <span class="o">-></span> <span class="nb">str</span><span class="p">:</span>
</span><span id="L-174"><a href="#L-174"><span class="linenos">174</span></a><span class="w"> </span><span class="sd">"""</span>
</span><span id="L-175"><a href="#L-175"><span class="linenos">175</span></a><span class="sd"> Estimate wall-clock time for the experiment.</span>
</span><span id="L-176"><a href="#L-176"><span class="linenos">176</span></a>
</span><span id="L-177"><a href="#L-177"><span class="linenos">177</span></a><span class="sd"> Parameters</span>
</span><span id="L-178"><a href="#L-178"><span class="linenos">178</span></a><span class="sd"> ----------</span>
</span><span id="L-179"><a href="#L-179"><span class="linenos">179</span></a><span class="sd"> n_cores : int</span>
</span><span id="L-180"><a href="#L-180"><span class="linenos">180</span></a><span class="sd"> Number of available CPU cores.</span>
</span><span id="L-181"><a href="#L-181"><span class="linenos">181</span></a>
</span><span id="L-182"><a href="#L-182"><span class="linenos">182</span></a><span class="sd"> Returns</span>
</span><span id="L-183"><a href="#L-183"><span class="linenos">183</span></a><span class="sd"> -------</span>
</span><span id="L-184"><a href="#L-184"><span class="linenos">184</span></a><span class="sd"> str</span>
</span><span id="L-185"><a href="#L-185"><span class="linenos">185</span></a><span class="sd"> Human-readable runtime estimate.</span>
</span><span id="L-186"><a href="#L-186"><span class="linenos">186</span></a><span class="sd"> """</span>
</span><span id="L-187"><a href="#L-187"><span class="linenos">187</span></a> <span class="n">ref_size</span> <span class="o">=</span> <span class="mi">100</span>
</span><span id="L-188"><a href="#L-188"><span class="linenos">188</span></a> <span class="n">ref_steps_per_sec</span> <span class="o">=</span> <span class="mi">1182</span>
</span><span id="L-189"><a href="#L-189"><span class="linenos">189</span></a>
</span><span id="L-190"><a href="#L-190"><span class="linenos">190</span></a> <span class="n">size_scaling</span> <span class="o">=</span> <span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">grid_size</span> <span class="o">/</span> <span class="n">ref_size</span><span class="p">)</span> <span class="o">**</span> <span class="mi">2</span>
</span><span id="L-191"><a href="#L-191"><span class="linenos">191</span></a> <span class="n">actual_steps_per_sec</span> <span class="o">=</span> <span class="n">ref_steps_per_sec</span> <span class="o">/</span> <span class="n">size_scaling</span>
</span><span id="L-192"><a href="#L-192"><span class="linenos">192</span></a>
</span><span id="L-193"><a href="#L-193"><span class="linenos">193</span></a> <span class="n">total_steps</span> <span class="o">=</span> <span class="bp">self</span><span class="o">.</span><span class="n">warmup_steps</span> <span class="o">+</span> <span class="bp">self</span><span class="o">.</span><span class="n">measurement_steps</span>
</span><span id="L-194"><a href="#L-194"><span class="linenos">194</span></a> <span class="n">base_time_s</span> <span class="o">=</span> <span class="n">total_steps</span> <span class="o">/</span> <span class="n">actual_steps_per_sec</span>
</span><span id="L-195"><a href="#L-195"><span class="linenos">195</span></a>
</span><span id="L-196"><a href="#L-196"><span class="linenos">196</span></a> <span class="n">pcf_time_s</span> <span class="o">=</span> <span class="p">(</span><span class="mf">0.008</span> <span class="o">*</span> <span class="n">size_scaling</span><span class="p">)</span> <span class="k">if</span> <span class="bp">self</span><span class="o">.</span><span class="n">collect_pcf</span> <span class="k">else</span> <span class="mi">0</span>
</span><span id="L-197"><a href="#L-197"><span class="linenos">197</span></a>
</span><span id="L-198"><a href="#L-198"><span class="linenos">198</span></a> <span class="n">n_sims</span> <span class="o">=</span> <span class="bp">self</span><span class="o">.</span><span class="n">n_prey_death</span> <span class="o">*</span> <span class="bp">self</span><span class="o">.</span><span class="n">n_replicates</span>
</span><span id="L-199"><a href="#L-199"><span class="linenos">199</span></a>
</span><span id="L-200"><a href="#L-200"><span class="linenos">200</span></a> <span class="n">total_seconds</span> <span class="o">=</span> <span class="n">n_sims</span> <span class="o">*</span> <span class="p">(</span><span class="n">base_time_s</span> <span class="o">+</span> <span class="n">pcf_time_s</span> <span class="o">*</span> <span class="bp">self</span><span class="o">.</span><span class="n">pcf_sample_rate</span><span class="p">)</span>
</span><span id="L-201"><a href="#L-201"><span class="linenos">201</span></a> <span class="n">total_seconds</span> <span class="o">/=</span> <span class="n">n_cores</span>
</span><span id="L-202"><a href="#L-202"><span class="linenos">202</span></a>
</span><span id="L-203"><a href="#L-203"><span class="linenos">203</span></a> <span class="n">hours</span> <span class="o">=</span> <span class="n">total_seconds</span> <span class="o">/</span> <span class="mi">3600</span>
</span><span id="L-204"><a href="#L-204"><span class="linenos">204</span></a> <span class="n">core_hours</span> <span class="o">=</span> <span class="n">n_sims</span> <span class="o">*</span> <span class="p">(</span><span class="n">base_time_s</span> <span class="o">+</span> <span class="n">pcf_time_s</span> <span class="o">*</span> <span class="bp">self</span><span class="o">.</span><span class="n">pcf_sample_rate</span><span class="p">)</span> <span class="o">/</span> <span class="mi">3600</span>
</span><span id="L-205"><a href="#L-205"><span class="linenos">205</span></a>
</span><span id="L-206"><a href="#L-206"><span class="linenos">206</span></a> <span class="k">return</span> <span class="sa">f</span><span class="s2">"</span><span class="si">{</span><span class="n">n_sims</span><span class="si">:</span><span class="s2">,</span><span class="si">}</span><span class="s2"> sims, ~</span><span class="si">{</span><span class="n">hours</span><span class="si">:</span><span class="s2">.1f</span><span class="si">}</span><span class="s2">h on </span><span class="si">{</span><span class="n">n_cores</span><span class="si">}</span><span class="s2"> cores (~</span><span class="si">{</span><span class="n">core_hours</span><span class="si">:</span><span class="s2">.0f</span><span class="si">}</span><span class="s2"> core-hours)"</span>
</span><span id="L-207"><a href="#L-207"><span class="linenos">207</span></a>
</span><span id="L-208"><a href="#L-208"><span class="linenos">208</span></a>
</span><span id="L-209"><a href="#L-209"><span class="linenos">209</span></a><span class="c1"># =============================================================================</span>
</span><span id="L-210"><a href="#L-210"><span class="linenos">210</span></a><span class="c1"># Phase Configurations</span>
</span><span id="L-211"><a href="#L-211"><span class="linenos">211</span></a><span class="c1"># =============================================================================</span>
</span><span id="L-212"><a href="#L-212"><span class="linenos">212</span></a>
</span><span id="L-213"><a href="#L-213"><span class="linenos">213</span></a><span class="n">PHASE1_CONFIG</span> <span class="o">=</span> <span class="n">Config</span><span class="p">(</span>
</span><span id="L-214"><a href="#L-214"><span class="linenos">214</span></a> <span class="n">grid_size</span><span class="o">=</span><span class="mi">1000</span><span class="p">,</span>
</span><span id="L-215"><a href="#L-215"><span class="linenos">215</span></a> <span class="n">n_prey_death</span><span class="o">=</span><span class="mi">20</span><span class="p">,</span>
</span><span id="L-216"><a href="#L-216"><span class="linenos">216</span></a> <span class="n">prey_birth</span><span class="o">=</span><span class="mf">0.2</span><span class="p">,</span>
</span><span id="L-217"><a href="#L-217"><span class="linenos">217</span></a> <span class="n">prey_death_range</span><span class="o">=</span><span class="p">(</span><span class="mf">0.0963</span><span class="p">,</span> <span class="mf">0.0973</span><span class="p">),</span>
</span><span id="L-218"><a href="#L-218"><span class="linenos">218</span></a> <span class="n">predator_birth</span><span class="o">=</span><span class="mf">0.8</span><span class="p">,</span>
</span><span id="L-219"><a href="#L-219"><span class="linenos">219</span></a> <span class="n">predator_death</span><span class="o">=</span><span class="mf">0.05</span><span class="p">,</span>
</span><span id="L-220"><a href="#L-220"><span class="linenos">220</span></a> <span class="n">n_replicates</span><span class="o">=</span><span class="mi">30</span><span class="p">,</span>
</span><span id="L-221"><a href="#L-221"><span class="linenos">221</span></a> <span class="n">warmup_steps</span><span class="o">=</span><span class="mi">1000</span><span class="p">,</span>
</span><span id="L-222"><a href="#L-222"><span class="linenos">222</span></a> <span class="n">measurement_steps</span><span class="o">=</span><span class="mi">1000</span><span class="p">,</span>
</span><span id="L-223"><a href="#L-223"><span class="linenos">223</span></a> <span class="n">collect_pcf</span><span class="o">=</span><span class="kc">False</span><span class="p">,</span>
</span><span id="L-224"><a href="#L-224"><span class="linenos">224</span></a> <span class="n">save_timeseries</span><span class="o">=</span><span class="kc">False</span><span class="p">,</span>
</span><span id="L-225"><a href="#L-225"><span class="linenos">225</span></a> <span class="n">directed_hunting</span><span class="o">=</span><span class="kc">False</span><span class="p">,</span>
</span><span id="L-226"><a href="#L-226"><span class="linenos">226</span></a><span class="p">)</span>
</span><span id="L-227"><a href="#L-227"><span class="linenos">227</span></a>
</span><span id="L-228"><a href="#L-228"><span class="linenos">228</span></a><span class="n">PHASE2_CONFIG</span> <span class="o">=</span> <span class="n">Config</span><span class="p">(</span>
</span><span id="L-229"><a href="#L-229"><span class="linenos">229</span></a> <span class="n">grid_size</span><span class="o">=</span><span class="mi">1000</span><span class="p">,</span>
</span><span id="L-230"><a href="#L-230"><span class="linenos">230</span></a> <span class="n">n_prey_death</span><span class="o">=</span><span class="mi">10</span><span class="p">,</span>
</span><span id="L-231"><a href="#L-231"><span class="linenos">231</span></a> <span class="n">n_replicates</span><span class="o">=</span><span class="mi">10</span><span class="p">,</span>
</span><span id="L-232"><a href="#L-232"><span class="linenos">232</span></a> <span class="n">warmup_steps</span><span class="o">=</span><span class="mi">1000</span><span class="p">,</span>
</span><span id="L-233"><a href="#L-233"><span class="linenos">233</span></a> <span class="n">measurement_steps</span><span class="o">=</span><span class="mi">10000</span><span class="p">,</span>
</span><span id="L-234"><a href="#L-234"><span class="linenos">234</span></a> <span class="n">evolve_sd</span><span class="o">=</span><span class="mf">0.01</span><span class="p">,</span>
</span><span id="L-235"><a href="#L-235"><span class="linenos">235</span></a> <span class="n">evolve_min</span><span class="o">=</span><span class="mf">0.0</span><span class="p">,</span>
</span><span id="L-236"><a href="#L-236"><span class="linenos">236</span></a> <span class="n">evolve_max</span><span class="o">=</span><span class="mf">0.20</span><span class="p">,</span>
</span><span id="L-237"><a href="#L-237"><span class="linenos">237</span></a> <span class="n">collect_pcf</span><span class="o">=</span><span class="kc">False</span><span class="p">,</span>
</span><span id="L-238"><a href="#L-238"><span class="linenos">238</span></a> <span class="n">save_timeseries</span><span class="o">=</span><span class="kc">False</span><span class="p">,</span>
</span><span id="L-239"><a href="#L-239"><span class="linenos">239</span></a><span class="p">)</span>
</span><span id="L-240"><a href="#L-240"><span class="linenos">240</span></a>
</span><span id="L-241"><a href="#L-241"><span class="linenos">241</span></a><span class="n">PHASE3_CONFIG</span> <span class="o">=</span> <span class="n">Config</span><span class="p">(</span>
</span><span id="L-242"><a href="#L-242"><span class="linenos">242</span></a> <span class="n">grid_sizes</span><span class="o">=</span><span class="p">(</span><span class="mi">50</span><span class="p">,</span> <span class="mi">100</span><span class="p">,</span> <span class="mi">250</span><span class="p">,</span> <span class="mi">500</span><span class="p">,</span> <span class="mi">1000</span><span class="p">,</span> <span class="mi">2500</span><span class="p">),</span>
</span><span id="L-243"><a href="#L-243"><span class="linenos">243</span></a> <span class="n">n_replicates</span><span class="o">=</span><span class="mi">20</span><span class="p">,</span>
</span><span id="L-244"><a href="#L-244"><span class="linenos">244</span></a> <span class="n">warmup_steps</span><span class="o">=</span><span class="mi">1000</span><span class="p">,</span>
</span><span id="L-245"><a href="#L-245"><span class="linenos">245</span></a> <span class="n">measurement_steps</span><span class="o">=</span><span class="mi">1000</span><span class="p">,</span>
</span><span id="L-246"><a href="#L-246"><span class="linenos">246</span></a> <span class="n">critical_prey_birth</span><span class="o">=</span><span class="mf">0.20</span><span class="p">,</span>
</span><span id="L-247"><a href="#L-247"><span class="linenos">247</span></a> <span class="n">critical_prey_death</span><span class="o">=</span><span class="mf">0.0968</span><span class="p">,</span>
</span><span id="L-248"><a href="#L-248"><span class="linenos">248</span></a> <span class="n">collect_pcf</span><span class="o">=</span><span class="kc">True</span><span class="p">,</span>
</span><span id="L-249"><a href="#L-249"><span class="linenos">249</span></a> <span class="n">pcf_sample_rate</span><span class="o">=</span><span class="mf">1.0</span><span class="p">,</span>
</span><span id="L-250"><a href="#L-250"><span class="linenos">250</span></a> <span class="n">save_timeseries</span><span class="o">=</span><span class="kc">False</span><span class="p">,</span>
</span><span id="L-251"><a href="#L-251"><span class="linenos">251</span></a> <span class="n">directed_hunting</span><span class="o">=</span><span class="kc">False</span><span class="p">,</span>
</span><span id="L-252"><a href="#L-252"><span class="linenos">252</span></a><span class="p">)</span>
</span><span id="L-253"><a href="#L-253"><span class="linenos">253</span></a>
</span><span id="L-254"><a href="#L-254"><span class="linenos">254</span></a><span class="n">PHASE4_CONFIG</span> <span class="o">=</span> <span class="n">Config</span><span class="p">(</span>
</span><span id="L-255"><a href="#L-255"><span class="linenos">255</span></a> <span class="n">grid_size</span><span class="o">=</span><span class="mi">250</span><span class="p">,</span>
</span><span id="L-256"><a href="#L-256"><span class="linenos">256</span></a> <span class="n">n_replicates</span><span class="o">=</span><span class="mi">10</span><span class="p">,</span>
</span><span id="L-257"><a href="#L-257"><span class="linenos">257</span></a> <span class="n">warmup_steps</span><span class="o">=</span><span class="mi">500</span><span class="p">,</span>
</span><span id="L-258"><a href="#L-258"><span class="linenos">258</span></a> <span class="n">measurement_steps</span><span class="o">=</span><span class="mi">500</span><span class="p">,</span>
</span><span id="L-259"><a href="#L-259"><span class="linenos">259</span></a> <span class="n">collect_pcf</span><span class="o">=</span><span class="kc">False</span><span class="p">,</span>
</span><span id="L-260"><a href="#L-260"><span class="linenos">260</span></a> <span class="n">save_timeseries</span><span class="o">=</span><span class="kc">False</span><span class="p">,</span>
</span><span id="L-261"><a href="#L-261"><span class="linenos">261</span></a> <span class="n">directed_hunting</span><span class="o">=</span><span class="kc">False</span><span class="p">,</span>
</span><span id="L-262"><a href="#L-262"><span class="linenos">262</span></a><span class="p">)</span>
</span><span id="L-263"><a href="#L-263"><span class="linenos">263</span></a>
</span><span id="L-264"><a href="#L-264"><span class="linenos">264</span></a><span class="n">PHASE5_CONFIG</span> <span class="o">=</span> <span class="n">Config</span><span class="p">(</span>
</span><span id="L-265"><a href="#L-265"><span class="linenos">265</span></a> <span class="n">grid_size</span><span class="o">=</span><span class="mi">250</span><span class="p">,</span>
</span><span id="L-266"><a href="#L-266"><span class="linenos">266</span></a> <span class="n">n_replicates</span><span class="o">=</span><span class="mi">10</span><span class="p">,</span>
</span><span id="L-267"><a href="#L-267"><span class="linenos">267</span></a> <span class="n">warmup_steps</span><span class="o">=</span><span class="mi">500</span><span class="p">,</span>
</span><span id="L-268"><a href="#L-268"><span class="linenos">268</span></a> <span class="n">measurement_steps</span><span class="o">=</span><span class="mi">500</span><span class="p">,</span>
</span><span id="L-269"><a href="#L-269"><span class="linenos">269</span></a> <span class="n">collect_pcf</span><span class="o">=</span><span class="kc">False</span><span class="p">,</span>
</span><span id="L-270"><a href="#L-270"><span class="linenos">270</span></a> <span class="n">save_timeseries</span><span class="o">=</span><span class="kc">False</span><span class="p">,</span>
</span><span id="L-271"><a href="#L-271"><span class="linenos">271</span></a> <span class="n">directed_hunting</span><span class="o">=</span><span class="kc">True</span><span class="p">,</span>
</span><span id="L-272"><a href="#L-272"><span class="linenos">272</span></a><span class="p">)</span>
</span><span id="L-273"><a href="#L-273"><span class="linenos">273</span></a>
</span><span id="L-274"><a href="#L-274"><span class="linenos">274</span></a><span class="n">PHASE_CONFIGS</span> <span class="o">=</span> <span class="p">{</span>
</span><span id="L-275"><a href="#L-275"><span class="linenos">275</span></a> <span class="mi">1</span><span class="p">:</span> <span class="n">PHASE1_CONFIG</span><span class="p">,</span>
</span><span id="L-276"><a href="#L-276"><span class="linenos">276</span></a> <span class="mi">2</span><span class="p">:</span> <span class="n">PHASE2_CONFIG</span><span class="p">,</span>
</span><span id="L-277"><a href="#L-277"><span class="linenos">277</span></a> <span class="mi">3</span><span class="p">:</span> <span class="n">PHASE3_CONFIG</span><span class="p">,</span>
</span><span id="L-278"><a href="#L-278"><span class="linenos">278</span></a> <span class="mi">4</span><span class="p">:</span> <span class="n">PHASE4_CONFIG</span><span class="p">,</span>
</span><span id="L-279"><a href="#L-279"><span class="linenos">279</span></a> <span class="mi">5</span><span class="p">:</span> <span class="n">PHASE5_CONFIG</span><span class="p">,</span>
</span><span id="L-280"><a href="#L-280"><span class="linenos">280</span></a><span class="p">}</span>
</span><span id="L-281"><a href="#L-281"><span class="linenos">281</span></a>
</span><span id="L-282"><a href="#L-282"><span class="linenos">282</span></a>
</span><span id="L-283"><a href="#L-283"><span class="linenos">283</span></a><span class="k">def</span><span class="w"> </span><span class="nf">get_phase_config</span><span class="p">(</span><span class="n">phase</span><span class="p">:</span> <span class="nb">int</span><span class="p">)</span> <span class="o">-></span> <span class="n">Config</span><span class="p">:</span>
</span><span id="L-284"><a href="#L-284"><span class="linenos">284</span></a><span class="w"> </span><span class="sd">"""</span>
</span><span id="L-285"><a href="#L-285"><span class="linenos">285</span></a><span class="sd"> Retrieve configuration for a specific experimental phase.</span>
</span><span id="L-286"><a href="#L-286"><span class="linenos">286</span></a>
</span><span id="L-287"><a href="#L-287"><span class="linenos">287</span></a><span class="sd"> Parameters</span>
</span><span id="L-288"><a href="#L-288"><span class="linenos">288</span></a><span class="sd"> ----------</span>
</span><span id="L-289"><a href="#L-289"><span class="linenos">289</span></a><span class="sd"> phase : int</span>
</span><span id="L-290"><a href="#L-290"><span class="linenos">290</span></a><span class="sd"> Phase number (1-5).</span>
</span><span id="L-291"><a href="#L-291"><span class="linenos">291</span></a>
</span><span id="L-292"><a href="#L-292"><span class="linenos">292</span></a><span class="sd"> Returns</span>
</span><span id="L-293"><a href="#L-293"><span class="linenos">293</span></a><span class="sd"> -------</span>
</span><span id="L-294"><a href="#L-294"><span class="linenos">294</span></a><span class="sd"> Config</span>
</span><span id="L-295"><a href="#L-295"><span class="linenos">295</span></a><span class="sd"> Configuration instance for the requested phase.</span>
</span><span id="L-296"><a href="#L-296"><span class="linenos">296</span></a>
</span><span id="L-297"><a href="#L-297"><span class="linenos">297</span></a><span class="sd"> Raises</span>
</span><span id="L-298"><a href="#L-298"><span class="linenos">298</span></a><span class="sd"> ------</span>
</span><span id="L-299"><a href="#L-299"><span class="linenos">299</span></a><span class="sd"> ValueError</span>
</span><span id="L-300"><a href="#L-300"><span class="linenos">300</span></a><span class="sd"> If phase number is invalid.</span>
</span><span id="L-301"><a href="#L-301"><span class="linenos">301</span></a><span class="sd"> """</span>
</span><span id="L-302"><a href="#L-302"><span class="linenos">302</span></a> <span class="k">if</span> <span class="n">phase</span> <span class="ow">not</span> <span class="ow">in</span> <span class="n">PHASE_CONFIGS</span><span class="p">:</span>
</span><span id="L-303"><a href="#L-303"><span class="linenos">303</span></a> <span class="k">raise</span> <span class="ne">ValueError</span><span class="p">(</span>
</span><span id="L-304"><a href="#L-304"><span class="linenos">304</span></a> <span class="sa">f</span><span class="s2">"Unknown phase </span><span class="si">{</span><span class="n">phase</span><span class="si">}</span><span class="s2">. Valid phases: </span><span class="si">{</span><span class="nb">list</span><span class="p">(</span><span class="n">PHASE_CONFIGS</span><span class="o">.</span><span class="n">keys</span><span class="p">())</span><span class="si">}</span><span class="s2">"</span>
</span><span id="L-305"><a href="#L-305"><span class="linenos">305</span></a> <span class="p">)</span>
</span><span id="L-306"><a href="#L-306"><span class="linenos">306</span></a> <span class="k">return</span> <span class="n">PHASE_CONFIGS</span><span class="p">[</span><span class="n">phase</span><span class="p">]</span>
</span></pre></div>
</section>
<section id="Config">
<input id="Config-view-source" class="view-source-toggle-state" type="checkbox" aria-hidden="true" tabindex="-1">
<div class="attr class">
<div class="decorator decorator-dataclass">@dataclass</div>
<span class="def">class</span>
<span class="name">Config</span>:
<label class="view-source-button" for="Config-view-source"><span>View Source</span></label>
</div>
<a class="headerlink" href="#Config"></a>
<div class="pdoc-code codehilite"><pre><span></span><span id="Config-49"><a href="#Config-49"><span class="linenos"> 49</span></a><span class="nd">@dataclass</span>
</span><span id="Config-50"><a href="#Config-50"><span class="linenos"> 50</span></a><span class="k">class</span><span class="w"> </span><span class="nc">Config</span><span class="p">:</span>
</span><span id="Config-51"><a href="#Config-51"><span class="linenos"> 51</span></a><span class="w"> </span><span class="sd">"""</span>
</span><span id="Config-52"><a href="#Config-52"><span class="linenos"> 52</span></a><span class="sd"> Central configuration for Predator-Prey Hydra Effect experiments.</span>
</span><span id="Config-53"><a href="#Config-53"><span class="linenos"> 53</span></a>
</span><span id="Config-54"><a href="#Config-54"><span class="linenos"> 54</span></a><span class="sd"> Attributes</span>
</span><span id="Config-55"><a href="#Config-55"><span class="linenos"> 55</span></a><span class="sd"> ----------</span>
</span><span id="Config-56"><a href="#Config-56"><span class="linenos"> 56</span></a><span class="sd"> grid_size : int</span>
</span><span id="Config-57"><a href="#Config-57"><span class="linenos"> 57</span></a><span class="sd"> Side length of the square simulation grid.</span>
</span><span id="Config-58"><a href="#Config-58"><span class="linenos"> 58</span></a><span class="sd"> densities : Tuple[float, float]</span>
</span><span id="Config-59"><a href="#Config-59"><span class="linenos"> 59</span></a><span class="sd"> Initial population fractions for (prey, predator).</span>
</span><span id="Config-60"><a href="#Config-60"><span class="linenos"> 60</span></a><span class="sd"> grid_sizes : Tuple[int, ...]</span>
</span><span id="Config-61"><a href="#Config-61"><span class="linenos"> 61</span></a><span class="sd"> Grid dimensions for Finite-Size Scaling (FSS) analysis (Phase 3).</span>
</span><span id="Config-62"><a href="#Config-62"><span class="linenos"> 62</span></a><span class="sd"> prey_birth : float</span>
</span><span id="Config-63"><a href="#Config-63"><span class="linenos"> 63</span></a><span class="sd"> Global birth rate for prey species.</span>
</span><span id="Config-64"><a href="#Config-64"><span class="linenos"> 64</span></a><span class="sd"> prey_death : float</span>
</span><span id="Config-65"><a href="#Config-65"><span class="linenos"> 65</span></a><span class="sd"> Global death rate for prey species.</span>
</span><span id="Config-66"><a href="#Config-66"><span class="linenos"> 66</span></a><span class="sd"> predator_birth : float</span>
</span><span id="Config-67"><a href="#Config-67"><span class="linenos"> 67</span></a><span class="sd"> Global birth rate for predator species.</span>
</span><span id="Config-68"><a href="#Config-68"><span class="linenos"> 68</span></a><span class="sd"> predator_death : float</span>
</span><span id="Config-69"><a href="#Config-69"><span class="linenos"> 69</span></a><span class="sd"> Global death rate for predator species.</span>
</span><span id="Config-70"><a href="#Config-70"><span class="linenos"> 70</span></a><span class="sd"> critical_prey_birth : float</span>
</span><span id="Config-71"><a href="#Config-71"><span class="linenos"> 71</span></a><span class="sd"> Critical birth rate identified from Phase 1.</span>
</span><span id="Config-72"><a href="#Config-72"><span class="linenos"> 72</span></a><span class="sd"> critical_prey_death : float</span>
</span><span id="Config-73"><a href="#Config-73"><span class="linenos"> 73</span></a><span class="sd"> Critical death rate identified from Phase 1.</span>
</span><span id="Config-74"><a href="#Config-74"><span class="linenos"> 74</span></a><span class="sd"> prey_death_range : Tuple[float, float]</span>
</span><span id="Config-75"><a href="#Config-75"><span class="linenos"> 75</span></a><span class="sd"> Bounds for prey death rate sweep.</span>
</span><span id="Config-76"><a href="#Config-76"><span class="linenos"> 76</span></a><span class="sd"> n_prey_death : int</span>
</span><span id="Config-77"><a href="#Config-77"><span class="linenos"> 77</span></a><span class="sd"> Number of points in prey death rate sweep.</span>
</span><span id="Config-78"><a href="#Config-78"><span class="linenos"> 78</span></a><span class="sd"> n_replicates : int</span>
</span><span id="Config-79"><a href="#Config-79"><span class="linenos"> 79</span></a><span class="sd"> Independent stochastic runs per parameter set.</span>
</span><span id="Config-80"><a href="#Config-80"><span class="linenos"> 80</span></a><span class="sd"> warmup_steps : int</span>
</span><span id="Config-81"><a href="#Config-81"><span class="linenos"> 81</span></a><span class="sd"> Iterations before data collection begins.</span>
</span><span id="Config-82"><a href="#Config-82"><span class="linenos"> 82</span></a><span class="sd"> measurement_steps : int</span>
</span><span id="Config-83"><a href="#Config-83"><span class="linenos"> 83</span></a><span class="sd"> Iterations for collecting statistics.</span>
</span><span id="Config-84"><a href="#Config-84"><span class="linenos"> 84</span></a><span class="sd"> evolve_sd : float</span>
</span><span id="Config-85"><a href="#Config-85"><span class="linenos"> 85</span></a><span class="sd"> Standard deviation for parameter mutation.</span>
</span><span id="Config-86"><a href="#Config-86"><span class="linenos"> 86</span></a><span class="sd"> evolve_min : float</span>
</span><span id="Config-87"><a href="#Config-87"><span class="linenos"> 87</span></a><span class="sd"> Lower bound for evolving parameters.</span>
</span><span id="Config-88"><a href="#Config-88"><span class="linenos"> 88</span></a><span class="sd"> evolve_max : float</span>
</span><span id="Config-89"><a href="#Config-89"><span class="linenos"> 89</span></a><span class="sd"> Upper bound for evolving parameters.</span>
</span><span id="Config-90"><a href="#Config-90"><span class="linenos"> 90</span></a><span class="sd"> directed_hunting : bool</span>
</span><span id="Config-91"><a href="#Config-91"><span class="linenos"> 91</span></a><span class="sd"> Toggle for targeted predator movement.</span>
</span><span id="Config-92"><a href="#Config-92"><span class="linenos"> 92</span></a><span class="sd"> save_timeseries : bool</span>
</span><span id="Config-93"><a href="#Config-93"><span class="linenos"> 93</span></a><span class="sd"> Toggle for recording population time series.</span>
</span><span id="Config-94"><a href="#Config-94"><span class="linenos"> 94</span></a><span class="sd"> timeseries_subsample : int</span>
</span><span id="Config-95"><a href="#Config-95"><span class="linenos"> 95</span></a><span class="sd"> Subsample rate for time series data.</span>
</span><span id="Config-96"><a href="#Config-96"><span class="linenos"> 96</span></a><span class="sd"> collect_pcf : bool</span>
</span><span id="Config-97"><a href="#Config-97"><span class="linenos"> 97</span></a><span class="sd"> Toggle for Pair Correlation Function analysis.</span>
</span><span id="Config-98"><a href="#Config-98"><span class="linenos"> 98</span></a><span class="sd"> pcf_sample_rate : float</span>
</span><span id="Config-99"><a href="#Config-99"><span class="linenos"> 99</span></a><span class="sd"> Fraction of runs that compute PCFs.</span>
</span><span id="Config-100"><a href="#Config-100"><span class="linenos">100</span></a><span class="sd"> pcf_max_distance : float</span>
</span><span id="Config-101"><a href="#Config-101"><span class="linenos">101</span></a><span class="sd"> Maximum radial distance for PCF.</span>
</span><span id="Config-102"><a href="#Config-102"><span class="linenos">102</span></a><span class="sd"> pcf_n_bins : int</span>
</span><span id="Config-103"><a href="#Config-103"><span class="linenos">103</span></a><span class="sd"> Number of bins in PCF histogram.</span>
</span><span id="Config-104"><a href="#Config-104"><span class="linenos">104</span></a><span class="sd"> min_density_for_analysis : float</span>
</span><span id="Config-105"><a href="#Config-105"><span class="linenos">105</span></a><span class="sd"> Population threshold for spatial analysis.</span>
</span><span id="Config-106"><a href="#Config-106"><span class="linenos">106</span></a><span class="sd"> n_jobs : int</span>
</span><span id="Config-107"><a href="#Config-107"><span class="linenos">107</span></a><span class="sd"> CPU cores for parallelization (-1 = all).</span>
</span><span id="Config-108"><a href="#Config-108"><span class="linenos">108</span></a><span class="sd"> """</span>
</span><span id="Config-109"><a href="#Config-109"><span class="linenos">109</span></a>
</span><span id="Config-110"><a href="#Config-110"><span class="linenos">110</span></a> <span class="c1"># Grid settings</span>
</span><span id="Config-111"><a href="#Config-111"><span class="linenos">111</span></a> <span class="n">grid_size</span><span class="p">:</span> <span class="nb">int</span> <span class="o">=</span> <span class="mi">1000</span>
</span><span id="Config-112"><a href="#Config-112"><span class="linenos">112</span></a> <span class="n">densities</span><span class="p">:</span> <span class="n">Tuple</span><span class="p">[</span><span class="nb">float</span><span class="p">,</span> <span class="nb">float</span><span class="p">]</span> <span class="o">=</span> <span class="p">(</span><span class="mf">0.30</span><span class="p">,</span> <span class="mf">0.15</span><span class="p">)</span>
</span><span id="Config-113"><a href="#Config-113"><span class="linenos">113</span></a> <span class="n">grid_sizes</span><span class="p">:</span> <span class="n">Tuple</span><span class="p">[</span><span class="nb">int</span><span class="p">,</span> <span class="o">...</span><span class="p">]</span> <span class="o">=</span> <span class="p">(</span><span class="mi">50</span><span class="p">,</span> <span class="mi">100</span><span class="p">,</span> <span class="mi">250</span><span class="p">,</span> <span class="mi">500</span><span class="p">,</span> <span class="mi">1000</span><span class="p">,</span> <span class="mi">2500</span><span class="p">)</span>
</span><span id="Config-114"><a href="#Config-114"><span class="linenos">114</span></a>
</span><span id="Config-115"><a href="#Config-115"><span class="linenos">115</span></a> <span class="c1"># Species parameters</span>
</span><span id="Config-116"><a href="#Config-116"><span class="linenos">116</span></a> <span class="n">prey_birth</span><span class="p">:</span> <span class="nb">float</span> <span class="o">=</span> <span class="mf">0.2</span>
</span><span id="Config-117"><a href="#Config-117"><span class="linenos">117</span></a> <span class="n">prey_death</span><span class="p">:</span> <span class="nb">float</span> <span class="o">=</span> <span class="mf">0.05</span>
</span><span id="Config-118"><a href="#Config-118"><span class="linenos">118</span></a> <span class="n">predator_birth</span><span class="p">:</span> <span class="nb">float</span> <span class="o">=</span> <span class="mf">0.8</span>
</span><span id="Config-119"><a href="#Config-119"><span class="linenos">119</span></a> <span class="n">predator_death</span><span class="p">:</span> <span class="nb">float</span> <span class="o">=</span> <span class="mf">0.05</span>
</span><span id="Config-120"><a href="#Config-120"><span class="linenos">120</span></a>
</span><span id="Config-121"><a href="#Config-121"><span class="linenos">121</span></a> <span class="c1"># Critical point (from Phase 1)</span>
</span><span id="Config-122"><a href="#Config-122"><span class="linenos">122</span></a> <span class="n">critical_prey_birth</span><span class="p">:</span> <span class="nb">float</span> <span class="o">=</span> <span class="mf">0.20</span>
</span><span id="Config-123"><a href="#Config-123"><span class="linenos">123</span></a> <span class="n">critical_prey_death</span><span class="p">:</span> <span class="nb">float</span> <span class="o">=</span> <span class="mf">0.0968</span>
</span><span id="Config-124"><a href="#Config-124"><span class="linenos">124</span></a>
</span><span id="Config-125"><a href="#Config-125"><span class="linenos">125</span></a> <span class="c1"># Parameter sweep settings</span>
</span><span id="Config-126"><a href="#Config-126"><span class="linenos">126</span></a> <span class="n">prey_death_range</span><span class="p">:</span> <span class="n">Tuple</span><span class="p">[</span><span class="nb">float</span><span class="p">,</span> <span class="nb">float</span><span class="p">]</span> <span class="o">=</span> <span class="p">(</span><span class="mf">0.0</span><span class="p">,</span> <span class="mf">0.2</span><span class="p">)</span>
</span><span id="Config-127"><a href="#Config-127"><span class="linenos">127</span></a> <span class="n">n_prey_death</span><span class="p">:</span> <span class="nb">int</span> <span class="o">=</span> <span class="mi">20</span>
</span><span id="Config-128"><a href="#Config-128"><span class="linenos">128</span></a>
</span><span id="Config-129"><a href="#Config-129"><span class="linenos">129</span></a> <span class="c1"># Replication</span>
</span><span id="Config-130"><a href="#Config-130"><span class="linenos">130</span></a> <span class="n">n_replicates</span><span class="p">:</span> <span class="nb">int</span> <span class="o">=</span> <span class="mi">15</span>
</span><span id="Config-131"><a href="#Config-131"><span class="linenos">131</span></a>
</span><span id="Config-132"><a href="#Config-132"><span class="linenos">132</span></a> <span class="c1"># Simulation timing</span>
</span><span id="Config-133"><a href="#Config-133"><span class="linenos">133</span></a> <span class="n">warmup_steps</span><span class="p">:</span> <span class="nb">int</span> <span class="o">=</span> <span class="mi">300</span>
</span><span id="Config-134"><a href="#Config-134"><span class="linenos">134</span></a> <span class="n">measurement_steps</span><span class="p">:</span> <span class="nb">int</span> <span class="o">=</span> <span class="mi">500</span>
</span><span id="Config-135"><a href="#Config-135"><span class="linenos">135</span></a>
</span><span id="Config-136"><a href="#Config-136"><span class="linenos">136</span></a> <span class="c1"># Evolution settings</span>
</span><span id="Config-137"><a href="#Config-137"><span class="linenos">137</span></a> <span class="n">evolve_sd</span><span class="p">:</span> <span class="nb">float</span> <span class="o">=</span> <span class="mf">0.10</span>
</span><span id="Config-138"><a href="#Config-138"><span class="linenos">138</span></a> <span class="n">evolve_min</span><span class="p">:</span> <span class="nb">float</span> <span class="o">=</span> <span class="mf">0.0</span>
</span><span id="Config-139"><a href="#Config-139"><span class="linenos">139</span></a> <span class="n">evolve_max</span><span class="p">:</span> <span class="nb">float</span> <span class="o">=</span> <span class="mf">0.10</span>
</span><span id="Config-140"><a href="#Config-140"><span class="linenos">140</span></a>
</span><span id="Config-141"><a href="#Config-141"><span class="linenos">141</span></a> <span class="c1"># Model variant</span>
</span><span id="Config-142"><a href="#Config-142"><span class="linenos">142</span></a> <span class="n">directed_hunting</span><span class="p">:</span> <span class="nb">bool</span> <span class="o">=</span> <span class="kc">False</span>
</span><span id="Config-143"><a href="#Config-143"><span class="linenos">143</span></a>
</span><span id="Config-144"><a href="#Config-144"><span class="linenos">144</span></a> <span class="c1"># Time series collection</span>
</span><span id="Config-145"><a href="#Config-145"><span class="linenos">145</span></a> <span class="n">save_timeseries</span><span class="p">:</span> <span class="nb">bool</span> <span class="o">=</span> <span class="kc">False</span>
</span><span id="Config-146"><a href="#Config-146"><span class="linenos">146</span></a> <span class="n">timeseries_subsample</span><span class="p">:</span> <span class="nb">int</span> <span class="o">=</span> <span class="mi">10</span>
</span><span id="Config-147"><a href="#Config-147"><span class="linenos">147</span></a>
</span><span id="Config-148"><a href="#Config-148"><span class="linenos">148</span></a> <span class="c1"># PCF settings</span>
</span><span id="Config-149"><a href="#Config-149"><span class="linenos">149</span></a> <span class="n">collect_pcf</span><span class="p">:</span> <span class="nb">bool</span> <span class="o">=</span> <span class="kc">True</span>
</span><span id="Config-150"><a href="#Config-150"><span class="linenos">150</span></a> <span class="n">pcf_sample_rate</span><span class="p">:</span> <span class="nb">float</span> <span class="o">=</span> <span class="mf">0.2</span>
</span><span id="Config-151"><a href="#Config-151"><span class="linenos">151</span></a> <span class="n">pcf_max_distance</span><span class="p">:</span> <span class="nb">float</span> <span class="o">=</span> <span class="mf">20.0</span>
</span><span id="Config-152"><a href="#Config-152"><span class="linenos">152</span></a> <span class="n">pcf_n_bins</span><span class="p">:</span> <span class="nb">int</span> <span class="o">=</span> <span class="mi">20</span>
</span><span id="Config-153"><a href="#Config-153"><span class="linenos">153</span></a>
</span><span id="Config-154"><a href="#Config-154"><span class="linenos">154</span></a> <span class="c1"># Analysis thresholds</span>
</span><span id="Config-155"><a href="#Config-155"><span class="linenos">155</span></a> <span class="n">min_density_for_analysis</span><span class="p">:</span> <span class="nb">float</span> <span class="o">=</span> <span class="mf">0.002</span>
</span><span id="Config-156"><a href="#Config-156"><span class="linenos">156</span></a>
</span><span id="Config-157"><a href="#Config-157"><span class="linenos">157</span></a> <span class="c1"># Parallelization</span>
</span><span id="Config-158"><a href="#Config-158"><span class="linenos">158</span></a> <span class="n">n_jobs</span><span class="p">:</span> <span class="nb">int</span> <span class="o">=</span> <span class="o">-</span><span class="mi">1</span>
</span><span id="Config-159"><a href="#Config-159"><span class="linenos">159</span></a>
</span><span id="Config-160"><a href="#Config-160"><span class="linenos">160</span></a> <span class="k">def</span><span class="w"> </span><span class="nf">get_prey_deaths</span><span class="p">(</span><span class="bp">self</span><span class="p">)</span> <span class="o">-></span> <span class="n">np</span><span class="o">.</span><span class="n">ndarray</span><span class="p">:</span>
</span><span id="Config-161"><a href="#Config-161"><span class="linenos">161</span></a><span class="w"> </span><span class="sd">"""Generate array of prey death rates for parameter sweep."""</span>
</span><span id="Config-162"><a href="#Config-162"><span class="linenos">162</span></a> <span class="k">return</span> <span class="n">np</span><span class="o">.</span><span class="n">linspace</span><span class="p">(</span>
</span><span id="Config-163"><a href="#Config-163"><span class="linenos">163</span></a> <span class="bp">self</span><span class="o">.</span><span class="n">prey_death_range</span><span class="p">[</span><span class="mi">0</span><span class="p">],</span> <span class="bp">self</span><span class="o">.</span><span class="n">prey_death_range</span><span class="p">[</span><span class="mi">1</span><span class="p">],</span> <span class="bp">self</span><span class="o">.</span><span class="n">n_prey_death</span>
</span><span id="Config-164"><a href="#Config-164"><span class="linenos">164</span></a> <span class="p">)</span>
</span><span id="Config-165"><a href="#Config-165"><span class="linenos">165</span></a>
</span><span id="Config-166"><a href="#Config-166"><span class="linenos">166</span></a> <span class="k">def</span><span class="w"> </span><span class="nf">get_warmup_steps</span><span class="p">(</span><span class="bp">self</span><span class="p">,</span> <span class="n">L</span><span class="p">:</span> <span class="nb">int</span><span class="p">)</span> <span class="o">-></span> <span class="nb">int</span><span class="p">:</span>
</span><span id="Config-167"><a href="#Config-167"><span class="linenos">167</span></a><span class="w"> </span><span class="sd">"""Get warmup steps (can be extended for size-dependent scaling)."""</span>
</span><span id="Config-168"><a href="#Config-168"><span class="linenos">168</span></a> <span class="k">return</span> <span class="bp">self</span><span class="o">.</span><span class="n">warmup_steps</span>
</span><span id="Config-169"><a href="#Config-169"><span class="linenos">169</span></a>
</span><span id="Config-170"><a href="#Config-170"><span class="linenos">170</span></a> <span class="k">def</span><span class="w"> </span><span class="nf">get_measurement_steps</span><span class="p">(</span><span class="bp">self</span><span class="p">,</span> <span class="n">L</span><span class="p">:</span> <span class="nb">int</span><span class="p">)</span> <span class="o">-></span> <span class="nb">int</span><span class="p">:</span>
</span><span id="Config-171"><a href="#Config-171"><span class="linenos">171</span></a><span class="w"> </span><span class="sd">"""Get measurement steps (can be extended for size-dependent scaling)."""</span>
</span><span id="Config-172"><a href="#Config-172"><span class="linenos">172</span></a> <span class="k">return</span> <span class="bp">self</span><span class="o">.</span><span class="n">measurement_steps</span>
</span><span id="Config-173"><a href="#Config-173"><span class="linenos">173</span></a>
</span><span id="Config-174"><a href="#Config-174"><span class="linenos">174</span></a> <span class="k">def</span><span class="w"> </span><span class="nf">estimate_runtime</span><span class="p">(</span><span class="bp">self</span><span class="p">,</span> <span class="n">n_cores</span><span class="p">:</span> <span class="nb">int</span> <span class="o">=</span> <span class="mi">32</span><span class="p">)</span> <span class="o">-></span> <span class="nb">str</span><span class="p">:</span>
</span><span id="Config-175"><a href="#Config-175"><span class="linenos">175</span></a><span class="w"> </span><span class="sd">"""</span>
</span><span id="Config-176"><a href="#Config-176"><span class="linenos">176</span></a><span class="sd"> Estimate wall-clock time for the experiment.</span>
</span><span id="Config-177"><a href="#Config-177"><span class="linenos">177</span></a>
</span><span id="Config-178"><a href="#Config-178"><span class="linenos">178</span></a><span class="sd"> Parameters</span>
</span><span id="Config-179"><a href="#Config-179"><span class="linenos">179</span></a><span class="sd"> ----------</span>
</span><span id="Config-180"><a href="#Config-180"><span class="linenos">180</span></a><span class="sd"> n_cores : int</span>
</span><span id="Config-181"><a href="#Config-181"><span class="linenos">181</span></a><span class="sd"> Number of available CPU cores.</span>
</span><span id="Config-182"><a href="#Config-182"><span class="linenos">182</span></a>
</span><span id="Config-183"><a href="#Config-183"><span class="linenos">183</span></a><span class="sd"> Returns</span>
</span><span id="Config-184"><a href="#Config-184"><span class="linenos">184</span></a><span class="sd"> -------</span>
</span><span id="Config-185"><a href="#Config-185"><span class="linenos">185</span></a><span class="sd"> str</span>
</span><span id="Config-186"><a href="#Config-186"><span class="linenos">186</span></a><span class="sd"> Human-readable runtime estimate.</span>
</span><span id="Config-187"><a href="#Config-187"><span class="linenos">187</span></a><span class="sd"> """</span>
</span><span id="Config-188"><a href="#Config-188"><span class="linenos">188</span></a> <span class="n">ref_size</span> <span class="o">=</span> <span class="mi">100</span>
</span><span id="Config-189"><a href="#Config-189"><span class="linenos">189</span></a> <span class="n">ref_steps_per_sec</span> <span class="o">=</span> <span class="mi">1182</span>
</span><span id="Config-190"><a href="#Config-190"><span class="linenos">190</span></a>
</span><span id="Config-191"><a href="#Config-191"><span class="linenos">191</span></a> <span class="n">size_scaling</span> <span class="o">=</span> <span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">grid_size</span> <span class="o">/</span> <span class="n">ref_size</span><span class="p">)</span> <span class="o">**</span> <span class="mi">2</span>
</span><span id="Config-192"><a href="#Config-192"><span class="linenos">192</span></a> <span class="n">actual_steps_per_sec</span> <span class="o">=</span> <span class="n">ref_steps_per_sec</span> <span class="o">/</span> <span class="n">size_scaling</span>
</span><span id="Config-193"><a href="#Config-193"><span class="linenos">193</span></a>
</span><span id="Config-194"><a href="#Config-194"><span class="linenos">194</span></a> <span class="n">total_steps</span> <span class="o">=</span> <span class="bp">self</span><span class="o">.</span><span class="n">warmup_steps</span> <span class="o">+</span> <span class="bp">self</span><span class="o">.</span><span class="n">measurement_steps</span>
</span><span id="Config-195"><a href="#Config-195"><span class="linenos">195</span></a> <span class="n">base_time_s</span> <span class="o">=</span> <span class="n">total_steps</span> <span class="o">/</span> <span class="n">actual_steps_per_sec</span>
</span><span id="Config-196"><a href="#Config-196"><span class="linenos">196</span></a>
</span><span id="Config-197"><a href="#Config-197"><span class="linenos">197</span></a> <span class="n">pcf_time_s</span> <span class="o">=</span> <span class="p">(</span><span class="mf">0.008</span> <span class="o">*</span> <span class="n">size_scaling</span><span class="p">)</span> <span class="k">if</span> <span class="bp">self</span><span class="o">.</span><span class="n">collect_pcf</span> <span class="k">else</span> <span class="mi">0</span>
</span><span id="Config-198"><a href="#Config-198"><span class="linenos">198</span></a>
</span><span id="Config-199"><a href="#Config-199"><span class="linenos">199</span></a> <span class="n">n_sims</span> <span class="o">=</span> <span class="bp">self</span><span class="o">.</span><span class="n">n_prey_death</span> <span class="o">*</span> <span class="bp">self</span><span class="o">.</span><span class="n">n_replicates</span>
</span><span id="Config-200"><a href="#Config-200"><span class="linenos">200</span></a>
</span><span id="Config-201"><a href="#Config-201"><span class="linenos">201</span></a> <span class="n">total_seconds</span> <span class="o">=</span> <span class="n">n_sims</span> <span class="o">*</span> <span class="p">(</span><span class="n">base_time_s</span> <span class="o">+</span> <span class="n">pcf_time_s</span> <span class="o">*</span> <span class="bp">self</span><span class="o">.</span><span class="n">pcf_sample_rate</span><span class="p">)</span>
</span><span id="Config-202"><a href="#Config-202"><span class="linenos">202</span></a> <span class="n">total_seconds</span> <span class="o">/=</span> <span class="n">n_cores</span>
</span><span id="Config-203"><a href="#Config-203"><span class="linenos">203</span></a>
</span><span id="Config-204"><a href="#Config-204"><span class="linenos">204</span></a> <span class="n">hours</span> <span class="o">=</span> <span class="n">total_seconds</span> <span class="o">/</span> <span class="mi">3600</span>
</span><span id="Config-205"><a href="#Config-205"><span class="linenos">205</span></a> <span class="n">core_hours</span> <span class="o">=</span> <span class="n">n_sims</span> <span class="o">*</span> <span class="p">(</span><span class="n">base_time_s</span> <span class="o">+</span> <span class="n">pcf_time_s</span> <span class="o">*</span> <span class="bp">self</span><span class="o">.</span><span class="n">pcf_sample_rate</span><span class="p">)</span> <span class="o">/</span> <span class="mi">3600</span>
</span><span id="Config-206"><a href="#Config-206"><span class="linenos">206</span></a>
</span><span id="Config-207"><a href="#Config-207"><span class="linenos">207</span></a> <span class="k">return</span> <span class="sa">f</span><span class="s2">"</span><span class="si">{</span><span class="n">n_sims</span><span class="si">:</span><span class="s2">,</span><span class="si">}</span><span class="s2"> sims, ~</span><span class="si">{</span><span class="n">hours</span><span class="si">:</span><span class="s2">.1f</span><span class="si">}</span><span class="s2">h on </span><span class="si">{</span><span class="n">n_cores</span><span class="si">}</span><span class="s2"> cores (~</span><span class="si">{</span><span class="n">core_hours</span><span class="si">:</span><span class="s2">.0f</span><span class="si">}</span><span class="s2"> core-hours)"</span>
</span></pre></div>
<div class="docstring"><p>Central configuration for Predator-Prey Hydra Effect experiments.</p>
<h6 id="attributes">Attributes</h6>
<ul>
<li><strong>grid_size</strong> (int):
Side length of the square simulation grid.</li>
<li><strong>densities</strong> (Tuple[float, float]):
Initial population fractions for (prey, predator).</li>
<li><strong>grid_sizes</strong> (Tuple[int, ...]):
Grid dimensions for Finite-Size Scaling (FSS) analysis (Phase 3).</li>
<li><strong>prey_birth</strong> (float):
Global birth rate for prey species.</li>
<li><strong>prey_death</strong> (float):
Global death rate for prey species.</li>
<li><strong>predator_birth</strong> (float):
Global birth rate for predator species.</li>
<li><strong>predator_death</strong> (float):
Global death rate for predator species.</li>
<li><strong>critical_prey_birth</strong> (float):
Critical birth rate identified from Phase 1.</li>
<li><strong>critical_prey_death</strong> (float):
Critical death rate identified from Phase 1.</li>
<li><strong>prey_death_range</strong> (Tuple[float, float]):
Bounds for prey death rate sweep.</li>
<li><strong>n_prey_death</strong> (int):
Number of points in prey death rate sweep.</li>
<li><strong>n_replicates</strong> (int):
Independent stochastic runs per parameter set.</li>
<li><strong>warmup_steps</strong> (int):
Iterations before data collection begins.</li>
<li><strong>measurement_steps</strong> (int):
Iterations for collecting statistics.</li>
<li><strong>evolve_sd</strong> (float):
Standard deviation for parameter mutation.</li>
<li><strong>evolve_min</strong> (float):
Lower bound for evolving parameters.</li>
<li><strong>evolve_max</strong> (float):
Upper bound for evolving parameters.</li>
<li><strong>directed_hunting</strong> (bool):
Toggle for targeted predator movement.</li>
<li><strong>save_timeseries</strong> (bool):
Toggle for recording population time series.</li>
<li><strong>timeseries_subsample</strong> (int):
Subsample rate for time series data.</li>
<li><strong>collect_pcf</strong> (bool):
Toggle for Pair Correlation Function analysis.</li>
<li><strong>pcf_sample_rate</strong> (float):
Fraction of runs that compute PCFs.</li>
<li><strong>pcf_max_distance</strong> (float):
Maximum radial distance for PCF.</li>
<li><strong>pcf_n_bins</strong> (int):
Number of bins in PCF histogram.</li>
<li><strong>min_density_for_analysis</strong> (float):
Population threshold for spatial analysis.</li>
<li><strong>n_jobs</strong> (int):
CPU cores for parallelization (-1 = all).</li>
</ul>
</div>
<div id="Config.get_prey_deaths" class="classattr">
<input id="Config.get_prey_deaths-view-source" class="view-source-toggle-state" type="checkbox" aria-hidden="true" tabindex="-1">
<div class="attr function">
<span class="def">def</span>
<span class="name">get_prey_deaths</span><span class="signature pdoc-code condensed">(<span class="param"><span class="bp">self</span></span><span class="return-annotation">) -> <span class="n">numpy</span><span class="o">.</span><span class="n">ndarray</span>:</span></span>
<label class="view-source-button" for="Config.get_prey_deaths-view-source"><span>View Source</span></label>
</div>
<a class="headerlink" href="#Config.get_prey_deaths"></a>
<div class="pdoc-code codehilite"><pre><span></span><span id="Config.get_prey_deaths-160"><a href="#Config.get_prey_deaths-160"><span class="linenos">160</span></a> <span class="k">def</span><span class="w"> </span><span class="nf">get_prey_deaths</span><span class="p">(</span><span class="bp">self</span><span class="p">)</span> <span class="o">-></span> <span class="n">np</span><span class="o">.</span><span class="n">ndarray</span><span class="p">:</span>
</span><span id="Config.get_prey_deaths-161"><a href="#Config.get_prey_deaths-161"><span class="linenos">161</span></a><span class="w"> </span><span class="sd">"""Generate array of prey death rates for parameter sweep."""</span>
</span><span id="Config.get_prey_deaths-162"><a href="#Config.get_prey_deaths-162"><span class="linenos">162</span></a> <span class="k">return</span> <span class="n">np</span><span class="o">.</span><span class="n">linspace</span><span class="p">(</span>
</span><span id="Config.get_prey_deaths-163"><a href="#Config.get_prey_deaths-163"><span class="linenos">163</span></a> <span class="bp">self</span><span class="o">.</span><span class="n">prey_death_range</span><span class="p">[</span><span class="mi">0</span><span class="p">],</span> <span class="bp">self</span><span class="o">.</span><span class="n">prey_death_range</span><span class="p">[</span><span class="mi">1</span><span class="p">],</span> <span class="bp">self</span><span class="o">.</span><span class="n">n_prey_death</span>
</span><span id="Config.get_prey_deaths-164"><a href="#Config.get_prey_deaths-164"><span class="linenos">164</span></a> <span class="p">)</span>
</span></pre></div>
<div class="docstring"><p>Generate array of prey death rates for parameter sweep.</p>
</div>
</div>
<div id="Config.get_warmup_steps" class="classattr">
<input id="Config.get_warmup_steps-view-source" class="view-source-toggle-state" type="checkbox" aria-hidden="true" tabindex="-1">
<div class="attr function">
<span class="def">def</span>
<span class="name">get_warmup_steps</span><span class="signature pdoc-code condensed">(<span class="param"><span class="bp">self</span>, </span><span class="param"><span class="n">L</span><span class="p">:</span> <span class="nb">int</span></span><span class="return-annotation">) -> <span class="nb">int</span>:</span></span>
<label class="view-source-button" for="Config.get_warmup_steps-view-source"><span>View Source</span></label>
</div>
<a class="headerlink" href="#Config.get_warmup_steps"></a>
<div class="pdoc-code codehilite"><pre><span></span><span id="Config.get_warmup_steps-166"><a href="#Config.get_warmup_steps-166"><span class="linenos">166</span></a> <span class="k">def</span><span class="w"> </span><span class="nf">get_warmup_steps</span><span class="p">(</span><span class="bp">self</span><span class="p">,</span> <span class="n">L</span><span class="p">:</span> <span class="nb">int</span><span class="p">)</span> <span class="o">-></span> <span class="nb">int</span><span class="p">:</span>
</span><span id="Config.get_warmup_steps-167"><a href="#Config.get_warmup_steps-167"><span class="linenos">167</span></a><span class="w"> </span><span class="sd">"""Get warmup steps (can be extended for size-dependent scaling)."""</span>
</span><span id="Config.get_warmup_steps-168"><a href="#Config.get_warmup_steps-168"><span class="linenos">168</span></a> <span class="k">return</span> <span class="bp">self</span><span class="o">.</span><span class="n">warmup_steps</span>
</span></pre></div>
<div class="docstring"><p>Get warmup steps (can be extended for size-dependent scaling).</p>
</div>
</div>
<div id="Config.get_measurement_steps" class="classattr">
<input id="Config.get_measurement_steps-view-source" class="view-source-toggle-state" type="checkbox" aria-hidden="true" tabindex="-1">
<div class="attr function">
<span class="def">def</span>
<span class="name">get_measurement_steps</span><span class="signature pdoc-code condensed">(<span class="param"><span class="bp">self</span>, </span><span class="param"><span class="n">L</span><span class="p">:</span> <span class="nb">int</span></span><span class="return-annotation">) -> <span class="nb">int</span>:</span></span>
<label class="view-source-button" for="Config.get_measurement_steps-view-source"><span>View Source</span></label>
</div>
<a class="headerlink" href="#Config.get_measurement_steps"></a>
<div class="pdoc-code codehilite"><pre><span></span><span id="Config.get_measurement_steps-170"><a href="#Config.get_measurement_steps-170"><span class="linenos">170</span></a> <span class="k">def</span><span class="w"> </span><span class="nf">get_measurement_steps</span><span class="p">(</span><span class="bp">self</span><span class="p">,</span> <span class="n">L</span><span class="p">:</span> <span class="nb">int</span><span class="p">)</span> <span class="o">-></span> <span class="nb">int</span><span class="p">:</span>
</span><span id="Config.get_measurement_steps-171"><a href="#Config.get_measurement_steps-171"><span class="linenos">171</span></a><span class="w"> </span><span class="sd">"""Get measurement steps (can be extended for size-dependent scaling)."""</span>
</span><span id="Config.get_measurement_steps-172"><a href="#Config.get_measurement_steps-172"><span class="linenos">172</span></a> <span class="k">return</span> <span class="bp">self</span><span class="o">.</span><span class="n">measurement_steps</span>
</span></pre></div>
<div class="docstring"><p>Get measurement steps (can be extended for size-dependent scaling).</p>
</div>
</div>
<div id="Config.estimate_runtime" class="classattr">
<input id="Config.estimate_runtime-view-source" class="view-source-toggle-state" type="checkbox" aria-hidden="true" tabindex="-1">
<div class="attr function">
<span class="def">def</span>
<span class="name">estimate_runtime</span><span class="signature pdoc-code condensed">(<span class="param"><span class="bp">self</span>, </span><span class="param"><span class="n">n_cores</span><span class="p">:</span> <span class="nb">int</span> <span class="o">=</span> <span class="mi">32</span></span><span class="return-annotation">) -> <span class="nb">str</span>:</span></span>
<label class="view-source-button" for="Config.estimate_runtime-view-source"><span>View Source</span></label>
</div>
<a class="headerlink" href="#Config.estimate_runtime"></a>
<div class="pdoc-code codehilite"><pre><span></span><span id="Config.estimate_runtime-174"><a href="#Config.estimate_runtime-174"><span class="linenos">174</span></a> <span class="k">def</span><span class="w"> </span><span class="nf">estimate_runtime</span><span class="p">(</span><span class="bp">self</span><span class="p">,</span> <span class="n">n_cores</span><span class="p">:</span> <span class="nb">int</span> <span class="o">=</span> <span class="mi">32</span><span class="p">)</span> <span class="o">-></span> <span class="nb">str</span><span class="p">:</span>
</span><span id="Config.estimate_runtime-175"><a href="#Config.estimate_runtime-175"><span class="linenos">175</span></a><span class="w"> </span><span class="sd">"""</span>
</span><span id="Config.estimate_runtime-176"><a href="#Config.estimate_runtime-176"><span class="linenos">176</span></a><span class="sd"> Estimate wall-clock time for the experiment.</span>
</span><span id="Config.estimate_runtime-177"><a href="#Config.estimate_runtime-177"><span class="linenos">177</span></a>
</span><span id="Config.estimate_runtime-178"><a href="#Config.estimate_runtime-178"><span class="linenos">178</span></a><span class="sd"> Parameters</span>
</span><span id="Config.estimate_runtime-179"><a href="#Config.estimate_runtime-179"><span class="linenos">179</span></a><span class="sd"> ----------</span>
</span><span id="Config.estimate_runtime-180"><a href="#Config.estimate_runtime-180"><span class="linenos">180</span></a><span class="sd"> n_cores : int</span>
</span><span id="Config.estimate_runtime-181"><a href="#Config.estimate_runtime-181"><span class="linenos">181</span></a><span class="sd"> Number of available CPU cores.</span>
</span><span id="Config.estimate_runtime-182"><a href="#Config.estimate_runtime-182"><span class="linenos">182</span></a>
</span><span id="Config.estimate_runtime-183"><a href="#Config.estimate_runtime-183"><span class="linenos">183</span></a><span class="sd"> Returns</span>
</span><span id="Config.estimate_runtime-184"><a href="#Config.estimate_runtime-184"><span class="linenos">184</span></a><span class="sd"> -------</span>
</span><span id="Config.estimate_runtime-185"><a href="#Config.estimate_runtime-185"><span class="linenos">185</span></a><span class="sd"> str</span>
</span><span id="Config.estimate_runtime-186"><a href="#Config.estimate_runtime-186"><span class="linenos">186</span></a><span class="sd"> Human-readable runtime estimate.</span>
</span><span id="Config.estimate_runtime-187"><a href="#Config.estimate_runtime-187"><span class="linenos">187</span></a><span class="sd"> """</span>
</span><span id="Config.estimate_runtime-188"><a href="#Config.estimate_runtime-188"><span class="linenos">188</span></a> <span class="n">ref_size</span> <span class="o">=</span> <span class="mi">100</span>
</span><span id="Config.estimate_runtime-189"><a href="#Config.estimate_runtime-189"><span class="linenos">189</span></a> <span class="n">ref_steps_per_sec</span> <span class="o">=</span> <span class="mi">1182</span>
</span><span id="Config.estimate_runtime-190"><a href="#Config.estimate_runtime-190"><span class="linenos">190</span></a>
</span><span id="Config.estimate_runtime-191"><a href="#Config.estimate_runtime-191"><span class="linenos">191</span></a> <span class="n">size_scaling</span> <span class="o">=</span> <span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">grid_size</span> <span class="o">/</span> <span class="n">ref_size</span><span class="p">)</span> <span class="o">**</span> <span class="mi">2</span>
</span><span id="Config.estimate_runtime-192"><a href="#Config.estimate_runtime-192"><span class="linenos">192</span></a> <span class="n">actual_steps_per_sec</span> <span class="o">=</span> <span class="n">ref_steps_per_sec</span> <span class="o">/</span> <span class="n">size_scaling</span>
</span><span id="Config.estimate_runtime-193"><a href="#Config.estimate_runtime-193"><span class="linenos">193</span></a>
</span><span id="Config.estimate_runtime-194"><a href="#Config.estimate_runtime-194"><span class="linenos">194</span></a> <span class="n">total_steps</span> <span class="o">=</span> <span class="bp">self</span><span class="o">.</span><span class="n">warmup_steps</span> <span class="o">+</span> <span class="bp">self</span><span class="o">.</span><span class="n">measurement_steps</span>
</span><span id="Config.estimate_runtime-195"><a href="#Config.estimate_runtime-195"><span class="linenos">195</span></a> <span class="n">base_time_s</span> <span class="o">=</span> <span class="n">total_steps</span> <span class="o">/</span> <span class="n">actual_steps_per_sec</span>
</span><span id="Config.estimate_runtime-196"><a href="#Config.estimate_runtime-196"><span class="linenos">196</span></a>
</span><span id="Config.estimate_runtime-197"><a href="#Config.estimate_runtime-197"><span class="linenos">197</span></a> <span class="n">pcf_time_s</span> <span class="o">=</span> <span class="p">(</span><span class="mf">0.008</span> <span class="o">*</span> <span class="n">size_scaling</span><span class="p">)</span> <span class="k">if</span> <span class="bp">self</span><span class="o">.</span><span class="n">collect_pcf</span> <span class="k">else</span> <span class="mi">0</span>
</span><span id="Config.estimate_runtime-198"><a href="#Config.estimate_runtime-198"><span class="linenos">198</span></a>
</span><span id="Config.estimate_runtime-199"><a href="#Config.estimate_runtime-199"><span class="linenos">199</span></a> <span class="n">n_sims</span> <span class="o">=</span> <span class="bp">self</span><span class="o">.</span><span class="n">n_prey_death</span> <span class="o">*</span> <span class="bp">self</span><span class="o">.</span><span class="n">n_replicates</span>
</span><span id="Config.estimate_runtime-200"><a href="#Config.estimate_runtime-200"><span class="linenos">200</span></a>
</span><span id="Config.estimate_runtime-201"><a href="#Config.estimate_runtime-201"><span class="linenos">201</span></a> <span class="n">total_seconds</span> <span class="o">=</span> <span class="n">n_sims</span> <span class="o">*</span> <span class="p">(</span><span class="n">base_time_s</span> <span class="o">+</span> <span class="n">pcf_time_s</span> <span class="o">*</span> <span class="bp">self</span><span class="o">.</span><span class="n">pcf_sample_rate</span><span class="p">)</span>
</span><span id="Config.estimate_runtime-202"><a href="#Config.estimate_runtime-202"><span class="linenos">202</span></a> <span class="n">total_seconds</span> <span class="o">/=</span> <span class="n">n_cores</span>
</span><span id="Config.estimate_runtime-203"><a href="#Config.estimate_runtime-203"><span class="linenos">203</span></a>
</span><span id="Config.estimate_runtime-204"><a href="#Config.estimate_runtime-204"><span class="linenos">204</span></a> <span class="n">hours</span> <span class="o">=</span> <span class="n">total_seconds</span> <span class="o">/</span> <span class="mi">3600</span>
</span><span id="Config.estimate_runtime-205"><a href="#Config.estimate_runtime-205"><span class="linenos">205</span></a> <span class="n">core_hours</span> <span class="o">=</span> <span class="n">n_sims</span> <span class="o">*</span> <span class="p">(</span><span class="n">base_time_s</span> <span class="o">+</span> <span class="n">pcf_time_s</span> <span class="o">*</span> <span class="bp">self</span><span class="o">.</span><span class="n">pcf_sample_rate</span><span class="p">)</span> <span class="o">/</span> <span class="mi">3600</span>
</span><span id="Config.estimate_runtime-206"><a href="#Config.estimate_runtime-206"><span class="linenos">206</span></a>
</span><span id="Config.estimate_runtime-207"><a href="#Config.estimate_runtime-207"><span class="linenos">207</span></a> <span class="k">return</span> <span class="sa">f</span><span class="s2">"</span><span class="si">{</span><span class="n">n_sims</span><span class="si">:</span><span class="s2">,</span><span class="si">}</span><span class="s2"> sims, ~</span><span class="si">{</span><span class="n">hours</span><span class="si">:</span><span class="s2">.1f</span><span class="si">}</span><span class="s2">h on </span><span class="si">{</span><span class="n">n_cores</span><span class="si">}</span><span class="s2"> cores (~</span><span class="si">{</span><span class="n">core_hours</span><span class="si">:</span><span class="s2">.0f</span><span class="si">}</span><span class="s2"> core-hours)"</span>
</span></pre></div>
<div class="docstring"><p>Estimate wall-clock time for the experiment.</p>
<h6 id="parameters">Parameters</h6>
<ul>
<li><strong>n_cores</strong> (int):
Number of available CPU cores.</li>
</ul>
<h6 id="returns">Returns</h6>
<ul>
<li><strong>str</strong>: Human-readable runtime estimate.</li>
</ul>
</div>
</div>
</section>
<section id="get_phase_config">
<input id="get_phase_config-view-source" class="view-source-toggle-state" type="checkbox" aria-hidden="true" tabindex="-1">
<div class="attr function">
<span class="def">def</span>
<span class="name">get_phase_config</span><span class="signature pdoc-code condensed">(<span class="param"><span class="n">phase</span><span class="p">:</span> <span class="nb">int</span></span><span class="return-annotation">) -> <span class="n"><a href="#Config">Config</a></span>:</span></span>
<label class="view-source-button" for="get_phase_config-view-source"><span>View Source</span></label>
</div>
<a class="headerlink" href="#get_phase_config"></a>
<div class="pdoc-code codehilite"><pre><span></span><span id="get_phase_config-284"><a href="#get_phase_config-284"><span class="linenos">284</span></a><span class="k">def</span><span class="w"> </span><span class="nf">get_phase_config</span><span class="p">(</span><span class="n">phase</span><span class="p">:</span> <span class="nb">int</span><span class="p">)</span> <span class="o">-></span> <span class="n">Config</span><span class="p">:</span>
</span><span id="get_phase_config-285"><a href="#get_phase_config-285"><span class="linenos">285</span></a><span class="w"> </span><span class="sd">"""</span>
</span><span id="get_phase_config-286"><a href="#get_phase_config-286"><span class="linenos">286</span></a><span class="sd"> Retrieve configuration for a specific experimental phase.</span>
</span><span id="get_phase_config-287"><a href="#get_phase_config-287"><span class="linenos">287</span></a>
</span><span id="get_phase_config-288"><a href="#get_phase_config-288"><span class="linenos">288</span></a><span class="sd"> Parameters</span>
</span><span id="get_phase_config-289"><a href="#get_phase_config-289"><span class="linenos">289</span></a><span class="sd"> ----------</span>
</span><span id="get_phase_config-290"><a href="#get_phase_config-290"><span class="linenos">290</span></a><span class="sd"> phase : int</span>
</span><span id="get_phase_config-291"><a href="#get_phase_config-291"><span class="linenos">291</span></a><span class="sd"> Phase number (1-5).</span>
</span><span id="get_phase_config-292"><a href="#get_phase_config-292"><span class="linenos">292</span></a>
</span><span id="get_phase_config-293"><a href="#get_phase_config-293"><span class="linenos">293</span></a><span class="sd"> Returns</span>
</span><span id="get_phase_config-294"><a href="#get_phase_config-294"><span class="linenos">294</span></a><span class="sd"> -------</span>
</span><span id="get_phase_config-295"><a href="#get_phase_config-295"><span class="linenos">295</span></a><span class="sd"> Config</span>
</span><span id="get_phase_config-296"><a href="#get_phase_config-296"><span class="linenos">296</span></a><span class="sd"> Configuration instance for the requested phase.</span>
</span><span id="get_phase_config-297"><a href="#get_phase_config-297"><span class="linenos">297</span></a>
</span><span id="get_phase_config-298"><a href="#get_phase_config-298"><span class="linenos">298</span></a><span class="sd"> Raises</span>
</span><span id="get_phase_config-299"><a href="#get_phase_config-299"><span class="linenos">299</span></a><span class="sd"> ------</span>
</span><span id="get_phase_config-300"><a href="#get_phase_config-300"><span class="linenos">300</span></a><span class="sd"> ValueError</span>
</span><span id="get_phase_config-301"><a href="#get_phase_config-301"><span class="linenos">301</span></a><span class="sd"> If phase number is invalid.</span>
</span><span id="get_phase_config-302"><a href="#get_phase_config-302"><span class="linenos">302</span></a><span class="sd"> """</span>
</span><span id="get_phase_config-303"><a href="#get_phase_config-303"><span class="linenos">303</span></a> <span class="k">if</span> <span class="n">phase</span> <span class="ow">not</span> <span class="ow">in</span> <span class="n">PHASE_CONFIGS</span><span class="p">:</span>
</span><span id="get_phase_config-304"><a href="#get_phase_config-304"><span class="linenos">304</span></a> <span class="k">raise</span> <span class="ne">ValueError</span><span class="p">(</span>
</span><span id="get_phase_config-305"><a href="#get_phase_config-305"><span class="linenos">305</span></a> <span class="sa">f</span><span class="s2">"Unknown phase </span><span class="si">{</span><span class="n">phase</span><span class="si">}</span><span class="s2">. Valid phases: </span><span class="si">{</span><span class="nb">list</span><span class="p">(</span><span class="n">PHASE_CONFIGS</span><span class="o">.</span><span class="n">keys</span><span class="p">())</span><span class="si">}</span><span class="s2">"</span>
</span><span id="get_phase_config-306"><a href="#get_phase_config-306"><span class="linenos">306</span></a> <span class="p">)</span>
</span><span id="get_phase_config-307"><a href="#get_phase_config-307"><span class="linenos">307</span></a> <span class="k">return</span> <span class="n">PHASE_CONFIGS</span><span class="p">[</span><span class="n">phase</span><span class="p">]</span>
</span></pre></div>
<div class="docstring"><p>Retrieve configuration for a specific experimental phase.</p>
<h6 id="parameters">Parameters</h6>
<ul>
<li><strong>phase</strong> (int):
Phase number (1-5).</li>
</ul>
<h6 id="returns">Returns</h6>
<ul>
<li><strong>Config</strong>: Configuration instance for the requested phase.</li>
</ul>
<h6 id="raises">Raises</h6>
<ul>
<li><strong>ValueError</strong>: If phase number is invalid.</li>
</ul>
</div>
</section>
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