rubyneat 0.3.5.alpha.2
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<span class="ruby-identifier">critter</span>.<span class="ruby-identifier">fitness</span> = <span class="ruby-keyword">unless</span> <span class="ruby-ivar">@controller</span>.<span class="ruby-identifier">cost_func</span>.<span class="ruby-identifier">nil?</span>
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<span class="ruby-ivar">@controller</span>.<span class="ruby-identifier">cost_func</span>.(<span class="ruby-identifier">fitvec</span>, <span class="ruby-identifier">critter</span>.<span class="ruby-identifier">genotype</span>.<span class="ruby-identifier">fitness_cost</span>)
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<span class="ruby-identifier">fitvec</span>.<span class="ruby-identifier">reduce</span> {<span class="ruby-operator">|</span><span class="ruby-identifier">a</span>,<span class="ruby-identifier">r</span><span class="ruby-operator">|</span> <span class="ruby-identifier">a</span><span class="ruby-operator">+</span><span class="ruby-identifier">r</span>} <span class="ruby-operator">/</span> <span class="ruby-identifier">fitvec</span>.<span class="ruby-identifier">size</span>.<span class="ruby-identifier">to_f</span> <span class="ruby-operator">+</span> <span class="ruby-identifier">critter</span>.<span class="ruby-identifier">genotype</span>.<span class="ruby-identifier">fitness_cost</span>
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vector from the critter. FIXME: this should not really have to deal with an
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error. FIXME: the error should be handled upstream from here.</p>
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<span class="ruby-identifier">vin</span> = <span class="ruby-ivar">@controller</span>.<span class="ruby-identifier">query_func</span>.(<span class="ruby-ivar">@controller</span>.<span class="ruby-identifier">seq_num</span>)
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<span class="ruby-ivar">@crit_hist</span>[<span class="ruby-identifier">critter</span>] = {} <span class="ruby-keyword">unless</span> <span class="ruby-ivar">@crit_hist</span>.<span class="ruby-identifier">member?</span> <span class="ruby-identifier">critter</span>
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<span class="ruby-identifier">vout</span> = <span class="ruby-identifier">critter</span>.<span class="ruby-identifier">phenotype</span>.<span class="ruby-identifier">stimulate</span> <span class="ruby-operator">*</span><span class="ruby-identifier">vin</span>, <span class="ruby-operator">&</span><span class="ruby-ivar">@controller</span>.<span class="ruby-identifier">recurrence_func</span>
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<span class="ruby-identifier">log</span>.<span class="ruby-identifier">debug</span> <span class="ruby-node">"Critter #{critter.name}: vin=#{vin}. vout=#{vout}"</span>
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<span class="ruby-ivar">@crit_hist</span>[<span class="ruby-identifier">critter</span>][<span class="ruby-ivar">@controller</span>.<span class="ruby-identifier">seq_num</span>] = [<span class="ruby-identifier">vin</span>, <span class="ruby-identifier">vout</span>]
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<span class="ruby-ivar">@crit_hist</span>[<span class="ruby-identifier">critter</span>][<span class="ruby-ivar">@controller</span>.<span class="ruby-identifier">seq_num</span>] = [<span class="ruby-identifier">vin</span>, <span class="ruby-value">:error</span>]
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<span class="ruby-identifier">pop</span>.<span class="ruby-identifier">initialize_for_recurrence!</span>
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<pre><span class="ruby-comment"># File lib/rubyneat/evolver.rb, line 254</span>
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<span class="ruby-keyword">def</span> <span class="ruby-identifier">initialize</span>(<span class="ruby-identifier">evol</span>)
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<span class="method-name">add_gene!</span><span
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<h1 id="method-i-add_gene-21-label-Add+a+gene+to+the+genome">Add a gene to the genome<span><a href="#method-i-add_gene-21-label-Add+a+gene+to+the+genome">¶</a> <a href="#documentation">↑</a></span></h1>
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<pre>Unlike adding a new neuron, adding a new gene
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could result in a circular dependency. If so,
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and if recurrency is switched off, we must detect
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this condition and switch off the offending neurons.
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Obviously, this might result in a loss of functionality, but
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oh well.
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An easy and obvious check is to make sure we don't
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accept any inputs from output neurons, and we don't
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do any outputs to input neurons.
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Constructs for handling recurrency are present in Expressor.</pre>
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<pre><span class="ruby-comment"># File lib/rubyneat/evolver.rb, line 290</span>
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<span class="ruby-keyword">def</span> <span class="ruby-identifier">add_gene!</span>(<span class="ruby-identifier">crit</span>)
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<span class="ruby-identifier">n1</span> = <span class="ruby-identifier">crit</span>.<span class="ruby-identifier">genotype</span>.<span class="ruby-identifier">neurons</span>.<span class="ruby-identifier">values</span>.<span class="ruby-identifier">sample</span> <span class="ruby-comment"># input</span>
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<span class="ruby-identifier">n2</span> = <span class="ruby-identifier">crit</span>.<span class="ruby-identifier">genotype</span>.<span class="ruby-identifier">neurons</span>.<span class="ruby-identifier">values</span>.<span class="ruby-identifier">sample</span> <span class="ruby-comment"># output</span>
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<span class="ruby-comment"># Sanity checks!</span>
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<span class="ruby-keyword">unless</span> <span class="ruby-identifier">n1</span> <span class="ruby-operator">==</span> <span class="ruby-identifier">n2</span> <span class="ruby-keyword">or</span> <span class="ruby-identifier">n1</span>.<span class="ruby-identifier">output?</span> <span class="ruby-keyword">or</span> <span class="ruby-identifier">n2</span>.<span class="ruby-identifier">input?</span>
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<span class="ruby-identifier">gene</span> = <span class="ruby-constant">Critter</span><span class="ruby-operator">::</span><span class="ruby-constant">Genotype</span><span class="ruby-operator">::</span><span class="ruby-constant">Gene</span>[<span class="ruby-identifier">crit</span>.<span class="ruby-identifier">genotype</span>, <span class="ruby-identifier">n1</span>.<span class="ruby-identifier">name</span>, <span class="ruby-identifier">n2</span>.<span class="ruby-identifier">name</span>, <span class="ruby-constant">NEAT</span><span class="ruby-operator">::</span><span class="ruby-identifier">controller</span>.<span class="ruby-identifier">gaussian</span>]
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<span class="ruby-identifier">crit</span>.<span class="ruby-identifier">genotype</span>.<span class="ruby-identifier">add_genes</span> <span class="ruby-identifier">gene</span>
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<span class="ruby-identifier">log</span>.<span class="ruby-identifier">debug</span> <span class="ruby-node">"add_gene! Added gene #{gene}(#{n1.name} -> #{n2.name}) to #{crit}"</span>
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<span class="ruby-keyword">end</span>
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<span class="ruby-keyword">end</span></pre>
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<div id="method-i-add_neuron-21" class="method-detail ">
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<span class="method-name">add_neuron!</span><span
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<h1 id="method-i-add_neuron-21-label-Add+a+neuron+to+given+critter">Add a neuron to given critter<span><a href="#method-i-add_neuron-21-label-Add+a+neuron+to+given+critter">¶</a> <a href="#documentation">↑</a></span></h1>
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<pre>Here, we add a neuron by randomly picking a
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gene, and split it into two genes with an intervening
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neuron. The old gene is not replaced, but disabled. 2 new genes are
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created along with the new neuron.</pre>
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<pre><span class="ruby-comment"># File lib/rubyneat/evolver.rb, line 265</span>
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<span class="ruby-keyword">def</span> <span class="ruby-identifier">add_neuron!</span>(<span class="ruby-identifier">crit</span>)
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<span class="ruby-identifier">gene</span> = <span class="ruby-identifier">crit</span>.<span class="ruby-identifier">genotype</span>.<span class="ruby-identifier">genes</span>.<span class="ruby-identifier">values</span>.<span class="ruby-identifier">sample</span>
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<span class="ruby-identifier">neu</span> = <span class="ruby-identifier">controller</span>.<span class="ruby-identifier">neural_hidden</span>.<span class="ruby-identifier">values</span>.<span class="ruby-identifier">sample</span>.<span class="ruby-identifier">new</span>(<span class="ruby-identifier">controller</span>)
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<span class="ruby-identifier">g1</span> = <span class="ruby-constant">Critter</span><span class="ruby-operator">::</span><span class="ruby-constant">Genotype</span><span class="ruby-operator">::</span><span class="ruby-constant">Gene</span>[<span class="ruby-identifier">crit</span>.<span class="ruby-identifier">genotype</span>, <span class="ruby-identifier">gene</span>.<span class="ruby-identifier">in_neuron</span>, <span class="ruby-identifier">neu</span>.<span class="ruby-identifier">name</span>, <span class="ruby-identifier">gene</span>.<span class="ruby-identifier">weight</span>]
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<span class="ruby-identifier">g2</span> = <span class="ruby-constant">Critter</span><span class="ruby-operator">::</span><span class="ruby-constant">Genotype</span><span class="ruby-operator">::</span><span class="ruby-constant">Gene</span>[<span class="ruby-identifier">crit</span>.<span class="ruby-identifier">genotype</span>, <span class="ruby-identifier">neu</span>.<span class="ruby-identifier">name</span>, <span class="ruby-identifier">gene</span>.<span class="ruby-identifier">out_neuron</span>, <span class="ruby-identifier">gene</span>.<span class="ruby-identifier">weight</span>]
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<span class="ruby-identifier">gene</span>.<span class="ruby-identifier">enabled</span> = <span class="ruby-keyword">false</span>
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<span class="ruby-identifier">crit</span>.<span class="ruby-identifier">genotype</span>.<span class="ruby-identifier">add_neurons</span> <span class="ruby-identifier">neu</span>
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<span class="ruby-identifier">crit</span>.<span class="ruby-identifier">genotype</span>.<span class="ruby-identifier">add_genes</span> <span class="ruby-identifier">g1</span>, <span class="ruby-identifier">g2</span>
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<span class="ruby-identifier">log</span>.<span class="ruby-identifier">debug</span> <span class="ruby-node">"add_neuron!: neu #{neu}, g1 #{g1}, g2 #{g2}"</span>
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<span class="ruby-keyword">end</span></pre>
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<span class="method-name">disable_gene!</span><span
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<p>Pick an enabled gene at random and disable it.</p>
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<pre><span class="ruby-comment"># File lib/rubyneat/evolver.rb, line 303</span>
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<span class="ruby-keyword">def</span> <span class="ruby-identifier">disable_gene!</span>(<span class="ruby-identifier">crit</span>)
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<span class="ruby-identifier">gene</span> = <span class="ruby-identifier">crit</span>.<span class="ruby-identifier">genotype</span>.<span class="ruby-identifier">genes</span>.<span class="ruby-identifier">values</span>.<span class="ruby-identifier">reject</span>{<span class="ruby-operator">|</span><span class="ruby-identifier">gene</span><span class="ruby-operator">|</span> <span class="ruby-identifier">gene</span>.<span class="ruby-identifier">disabled?</span> }.<span class="ruby-identifier">sample</span>
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<span class="ruby-identifier">gene</span>.<span class="ruby-identifier">enabled</span> = <span class="ruby-keyword">false</span> <span class="ruby-keyword">unless</span> <span class="ruby-identifier">gene</span>.<span class="ruby-identifier">nil?</span>
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<span class="ruby-keyword">end</span></pre>
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<p>Pick a disabled gene at random and reenable it.</p>
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<pre><span class="ruby-comment"># File lib/rubyneat/evolver.rb, line 309</span>
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<span class="ruby-keyword">def</span> <span class="ruby-identifier">reenable_gene!</span>(<span class="ruby-identifier">crit</span>)
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<span class="ruby-identifier">gene</span> = <span class="ruby-identifier">crit</span>.<span class="ruby-identifier">genotype</span>.<span class="ruby-identifier">genes</span>.<span class="ruby-identifier">values</span>.<span class="ruby-identifier">reject</span>{<span class="ruby-operator">|</span><span class="ruby-identifier">gene</span><span class="ruby-operator">|</span> <span class="ruby-identifier">gene</span>.<span class="ruby-identifier">enabled?</span> }.<span class="ruby-identifier">sample</span>
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<span class="ruby-identifier">gene</span>.<span class="ruby-identifier">enabled</span> = <span class="ruby-keyword">true</span> <span class="ruby-keyword">unless</span> <span class="ruby-identifier">gene</span>.<span class="ruby-identifier">nil?</span>
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<span class="ruby-keyword">end</span></pre>
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<p><a href="http://validator.w3.org/check/referer">Validate</a>
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<p>Generated by <a href="http://rdoc.rubyforge.org">RDoc</a> 4.1.1.
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<p>Based on <a href="http://deveiate.org/projects/Darkfish-Rdoc/">Darkfish</a> by <a href="http://deveiate.org">Michael Granger</a>.
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