rubyneat 0.3.5.alpha.5 → 0.3.5.alpha.6

checksums.yaml

@@ -1,7 +1,7 @@
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data/.semver

@@ -2,4 +2,4 @@
 :major: 0
 :minor: 3
 :patch: 5
-:special: ".alpha.5"
+:special: ".alpha.6"

data/Gemfile

@@ -4,8 +4,8 @@ source 'https://rubygems.org'
 
 ruby '2.1.1'
 
-gem 'mongo', '~> 1', require: false
-gem 'bson_ext', '~> 1', require: false
+#gem 'mongo', '~> 1', require: false
+#gem 'bson_ext', '~> 1', require: false
 gem 'distribution', '~> 0'
 
 #TODO: Check out this for a repacement of of statistics2
@@ -27,7 +27,7 @@ group :development do
   gem "jeweler", "~> 2"
   gem "simplecov", '~> 0'
   #gem 'debugger'
-  gem 'ruby-debug-ide', '~> 0'
+  #gem 'ruby-debug-ide', '~> 0'
 end
 
 #======================================================

data/Gemfile.lock

@@ -4,9 +4,6 @@ GEM
     addressable (2.3.6)
     aquarium (0.5.1)
     awesome_print (1.2.0)
-    bson (1.10.0)
-    bson_ext (1.10.0)
-      bson (~> 1.10.0)
     builder (3.2.2)
     celluloid (0.15.2)
       timers (~> 1.1.0)
@@ -69,8 +66,6 @@ GEM
     lumberjack (1.0.5)
     method_source (0.8.2)
     mini_portile (0.5.3)
-    mongo (1.10.0)
-      bson (~> 1.10.0)
     multi_json (1.9.2)
     multi_xml (0.5.5)
     multipart-post (2.0.0)
@@ -102,8 +97,6 @@ GEM
     rspec-expectations (2.14.5)
       diff-lcs (>= 1.1.3, < 2.0)
     rspec-mocks (2.14.6)
-    ruby-debug-ide (0.4.22)
-      rake (>= 0.8.1)
     rubyvis (0.6.0)
     semver (1.0.1)
     simplecov (0.8.2)
@@ -124,7 +117,6 @@ PLATFORMS
 DEPENDENCIES
   aquarium (~> 0)
   awesome_print (~> 1)
-  bson_ext (~> 1)
   debase (~> 0)
   deep_dive (~> 0)
   distribution (~> 0)
@@ -132,9 +124,7 @@ DEPENDENCIES
   guard (~> 2)
   guard-rspec (~> 4)
   jeweler (~> 2)
-  mongo (~> 1)
   rspec (~> 2)
-  ruby-debug-ide (~> 0)
   rubyvis (~> 0)
   semver (~> 1)
   simplecov (~> 0)

data/bin/neat

@@ -1,14 +1,17 @@
 #!/usr/bin/env ruby
 
-require 'thor'
-require 'semver'
-
 # Be sure rnlib is added to the library path
-neatpath = File.expand_path '..', File.dirname(__FILE__)
+NEAT_PATH = File.expand_path '..', File.dirname(__FILE__)
+NEAT_EXECUTABLE = File.expand_path 'bin/neat', Dir.pwd
+
 %w{ lib neater neater/rnlib }.each do |dir|
-  $:.unshift File.join([neatpath, dir])
+  $:.unshift File.join([NEAT_PATH, dir])
 end
 
 require 'rubyneat/cli'
 
-RubyNEAT::Cli::Main.start
+unless File.exists? NEAT_EXECUTABLE
+  RubyNEAT::Cli::NewMain.start
+else
+  exec NEAT_EXECUTABLE, *ARGV
+end

data/lib/rubyneat/cli/generate.rb

@@ -32,9 +32,26 @@ module RubyNEAT
           @ruby = OpenStruct.new version: RUBY_VERSION,
                                  engine: RUBY_ENGINE,
                                  platform: RUBY_PLATFORM
-          %w{Gemfile README.md}.
-            map{ |pfile| [pfile, "#{name.snake}/#{pfile}"] }.
-            each{ |source, destination| template source, destination }
+          tcopy %w{Gemfile README.md}.
+                  map{ |pfile| [pfile, "#{name.snake}/#{pfile}"] }
+        end
+
+        def create_project_bin_files
+          tcopy %w{ neat }.
+            map{ |pfile| ["bin/#{pfile}", "#{name.snake}/bin/#{pfile}"] }, exec: true
+        end
+
+        def create_project_config_files
+          tcopy %w{ boot.rb }.
+            map{|pfile| ["config/#{pfile}", "#{name.snake}/config/#{pfile}"]}
+        end
+
+        private
+        def tcopy(from_to_list, exec: false)
+          from_to_list.each{ |from, to|
+            template from, to
+            File.chmod(0755, to) if exec
+          }
         end
       end
 
@@ -105,7 +122,6 @@ module RubyNEAT
 
     class Generate < Thor
       register Generator::Neater, 'neater', 'neater', 'Generates a neater'
-      register Generator::NewProject, 'new', 'new', 'Generates a new NEAT project'
     end
   end
 end

data/lib/rubyneat/cli/main.rb

@@ -7,14 +7,25 @@ module RubyNEAT
       desc 'neaters', 'List all Neaters.'
       def neaters
         Dir.glob(NEATGLOB).sort.each do |ne|
-          puts 'neat runeater ' + File.basename(ne).gsub(%r{_neat\.rb}, '')
+          puts 'neat run ' + File.basename(ne).gsub(%r{_neat\.rb}, '')
         end
       end
 
-      desc 'neurons', 'List all Neurons.'
+      desc 'neurons', 'List all Neurons by their full class names.'
       def neurons
         puts NEAT::Neuron.neuron_types.map{|n| n.name }.sort.join "\n"
       end
+
+      desc 'types', 'List all Neurons by their type names.'
+      def types
+        puts NEAT::Neuron.neuron_types.map{|n| n.type_name }.sort.join "\n"
+        #puts NEAT::Neuron.neuron_type_names.sort.join "\n"
+      end
+
+    end
+
+    class NewMain < Thor
+      register Generator::NewProject, 'new', 'new', 'Generates a new NEAT Project'
     end
 
     class Main < Thor
@@ -37,9 +48,9 @@ module RubyNEAT
         puts "Not Implemented Yet."
       end
 
-      desc 'runeater <neater> [<neater> <neater> ...] [OPTS]', 'Run a Neater'
+      desc 'run <neater> [<neater> <neater> ...] [OPTS]', 'Run a Neater'
       option :log, type: :string, banner: 'info|warn|debug|error'
-      def runeater(*neaters)
+      def neater(*neaters)
         NEAT::controller.verbosity = options[:verbose].to_i if options[:verbose]
         eval %{$log.level = Logger::#{options[:log].upcase}} if options[:log]
 
@@ -49,6 +60,8 @@ module RubyNEAT
           load file
         end
       end
+      map run: :neater
+
     end
   end
 end

data/lib/rubyneat/cli/templates/generate/Gemfile.tt

@@ -2,6 +2,7 @@
 source 'https://rubygems.org'
 
 ruby '<%= ruby.version %>'
+gem 'rubyneat'
 
 # For demo purposes, we include the gosu library, but if you don't
 # need this, then comment it out  or remove it.

data/lib/rubyneat/cli/templates/generate/bin/neat.tt

@@ -1,14 +1,5 @@
 #!/usr/bin/env ruby
 
-require 'thor'
-require 'semver'
-
-# Be sure rnlib is added to the library path
-neatpath = File.expand_path '..', File.dirname(__FILE__)
-%w{ lib neater neater/rnlib }.each do |dir|
-  $:.unshift File.join([neatpath, dir])
-end
-
-require 'rubyneat/cli'
-
+NEAT_PATH = File.expand_path '..', File.dirname(__FILE__)
+require_relative '../config/boot'
 RubyNEAT::Cli::Main.start

data/lib/rubyneat/cli/templates/generate/config/boot.rb.tt

@@ -0,0 +1,13 @@
+# Set up gems listed in the Gemfile.
+
+require 'rubyneat/cli'
+
+ENV['RUBYNEAT_ENV'] ||= 'development'
+ENV['BUNDLE_GEMFILE'] ||= File.expand_path('../../Gemfile', __FILE__)
+require 'bundler/setup' if File.exists?(ENV['BUNDLE_GEMFILE'])
+
+%w{ lib neater }.each do |dir|
+  $:.unshift File.join([NEAT_PATH, dir])
+end
+
+Bundler.require(:default, ENV['RUBYNEAT_ENV'].to_sym)

data/lib/rubyneat/cli.rb

@@ -1,3 +1,6 @@
+require 'thor'
+require 'semver'
+
 NEATER = File.join [Dir.pwd, "neater"]
 NEATGLOB = NEATER + '/*_neat.rb'
 

data/lib/rubyneat/neuron.rb

@@ -30,6 +30,12 @@ module NEAT
     # List of neuron types defined.
     @@neuron_types = []
 
+    # Type names must always be unique for Neurons.
+    # TODO: Enforce uniqueness in neural type names
+    def self.type_name
+      @type_name ||= self.to_s.split('::').last.split('Neuron').first.downcase
+    end
+
     # Class is is of Input type?
     def self.input? ; false ; end
     def input? ; self.class.input? ; end
@@ -57,7 +63,6 @@ module NEAT
   end
 
 
-
 =begin rdoc
 = Basic Neuron Types
 
@@ -148,5 +153,33 @@ The basic types to RubyNEAT are represented here.
       end
     end
 
+    # Linear function (CPPN) -- simply add up all the inputs.
+    class LinearNeuron < Neuron
+      # create a function on the instance with our name
+      # that sums all inputs only.
+      def express(instance)
+        instance.define_singleton_method(@name) {|*inputs|
+          inputs.reduce {|p, q| p + q}
+        }
+      end
+    end
+
+    # Gaussian function (CPPN) -- SD 1 of inputs
+    class GaussianNeuron < Neuron
+      # create a function on the instance with our name
+      # that sums all inputs and produce a gaussian of
+      # standard deviation of 1.
+      def express(instance)
+        instance.define_singleton_method(@name) { |*inputs|
+          a = 1.0 #height
+          b = 0.0 #center
+          c = 1.0 #SD
+          d = 0.0 #lowest y point
+          x = inputs.reduce {|p, q| p + q}
+          a * exp(-(x - b)**2.0 / 2*c**2.0) + d
+        }
+      end
+    end
+
   end
 end

data/lib/rubyneat/rubyneat.rb

@@ -5,15 +5,14 @@ require 'awesome_print'
 require 'deep_dive'
 
 =begin rdoc
-= RubyNEAT -- a Ruby Implementation of the NeuroEvolution by Augmented Topologies.
+= RubyNEAT -- a Ruby Implementation of the Neural Evolution of Augmenting Topologies.
 
-The RubyNEAT system incorporates the basis of the NEAT alorithm. Flexibility
-is the key here, allowing RubyNEAT to be leverage in a varitety of applications.
+The RubyNEAT system incorporates the basis of the NEAT algorithm. Flexibility
+is the key here, allowing RubyNEAT to be leverage in a variety of applications.
 
 === Requirements
-We make no effort to support Ruby versions less than 1.9.2. I know this will
-be a problem to some, but you are strongly urgerd to upgrade.
-
+We make no effort to support Ruby versions less than 2.0.0. I know this will
+be a problem to some, but you are strongly urged to upgrade.
 =end
 
 $log = Logger.new(STDOUT)
@@ -28,35 +27,48 @@ We have a Population of Critters, and each Critter
 represents a network of Neurons and a connection list specifying
 how those Neurons are connected.
 
-Each Neuron has an inplicit genotype and phenotype component. Neurons,
-from the Ruby persoective, contain their own code to produce their own
+Each Neuron has an implicit genotype and phenotype component. Neurons,
+from the Ruby perspective, contain their own code to produce their own
 phenotypes. 
 
 There are input Neurons and output Neurons. The input Neurons are special, as
 they do not contain any input from other nodes, but serve as interfaces
-from the "real world". Thier range of inputs are open, and it shall be up to
+from the "real world". Their range of inputs are open, and it shall be up to
 the input Neuron's phenotype generators to condition those inputs, if need be,
-to someething more suiable for the neural network.
+to something more suitable for the neural network.
 
 == Issues
 === Multicore / Cloud Computing
-Some thought needs to be given to how to make this anenable to multiple
+Some thought needs to be given to how to make this amenable to multiple
 processes so that we can leverage the power of multicore systems as well
 as multiple computers in the Cloud, etc.
 
-Our initial inclination  is to put all of that functionality in the Conroller.
+Our initial inclination  is to put all of that functionality in the Controller.
+
+== Uniquely Generated Named Objects (UGNOs)
+Every RubyNEAT Object instance is assigned a unique name generated randomly.
+The name has no other significance other than to uniquely identify the object.
+
+We have chosen the names of the letters of various alphabets to be the core
+of those names. The list may be subject to change until we are out of alpha,
+then will be set in quick drying concrete.
 =end
 module NEAT
   @rng_count = 0
-  @rng_names = %w{aaa bee cex dee flo kis lee mor cie lou gir sex quo sam lac hin pee  
-                  cur set sew flat nac zac pae por lie lox pox nez fez wib poo sho
-                  nuz tux que bsh shi her him can muk fuk kit kat uno dos ant mic
-                  aa be nz oo py tt my of ze mu pi zz qu fl tr as sd fg gh hj bc
-                  lion tame monk busy honk tape slap zonk funk tear flip shop soap
-                  quay mony stir moot shoo slim fate trat beep kook love hate 
-                  mire hair lips funk open shut case lace joop lute doze fuzz
-                  mean nice soil vote kick apes snak huge sine pine gray nook fool
-                  woot hail smel tell jell suut gage phat pinoy spain rey bloke zit}
+  @rng_names = %w{alpha beta gamma delta epsilon zeta  eta theta kappa lambda
+                  mu nu xi omicron pi rho sigma tau upsilon phi chi psi omega
+
+                  alef bet gimel dalet he vav zayin het tet yod kaf lamed
+                  mem nun samekh ayin pe tsadi qof resh shin tav
+
+                  pop wo sip zotz sek xul yaxkin mol chen yax sak kej mak kankin
+                  muwan pax kayab kumku wayeb
+
+                  ki gi ngi ti di ni bi mi yi li wi si hi ku gu ngu tu du pu
+                  bu yu lu wu su hu
+
+                  ha jim theh teh beh alif sin zin ra dhal dal kha ain dha ta
+                  dad sad shin mim lam kaf qaf feh ghain yeh waw heh nun}
   def self.random_name_generator
     (1..3).map {
       @rng_names[rand @rng_names.size]

data/lib/rubyneat.rb

@@ -1,5 +1,5 @@
 =begin rdoc
-=RubyNEAT ()Neural Evolution via Augmented Topologies)
+=RubyNEAT -- Neural Evolution of Augmenting Topologies
 =end
 
 require 'rubyneat/rubyneat'

data/rubyneat.gemspec

@@ -2,16 +2,16 @@
 # DO NOT EDIT THIS FILE DIRECTLY
 # Instead, edit Jeweler::Tasks in Rakefile, and run 'rake gemspec'
 # -*- encoding: utf-8 -*-
-# stub: rubyneat 0.3.5.alpha.5 ruby lib
+# stub: rubyneat 0.3.5.alpha.6 ruby lib
 
 Gem::Specification.new do |s|
   s.name = "rubyneat"
-  s.version = "0.3.5.alpha.5"
+  s.version = "0.3.5.alpha.6"
 
   s.required_rubygems_version = Gem::Requirement.new("> 1.3.1") if s.respond_to? :required_rubygems_version=
   s.require_paths = ["lib"]
   s.authors = ["Fred Mitchell"]
-  s.date = "2014-04-19"
+  s.date = "2014-04-24"
   s.description = "\n  RubyNEAT -- Neural Evolution of Augmenting Topologies for Ruby.\n  By way of an enhanced form of Genetic Algorithms -- the NEAT algorithm,\n  populations of neural nets are evolved to handle pre-defined goals.\n\n  RubyNEAT is the first implementation of the NEAT algorithm for Ruby, and\n  it leverages Ruby's power to implement the NEAT algorithm in a way that would\n  be difficult to do in other languages. The 'activation function' is largely\n  standalone. Basically, activation is achieved by functional programming.\n\n  Meaning, once your network is evolved, you can extract it as source code you\n  can then utilize without the RubyNEAT engine.\n\n  RubyNEAT can be used for nearly any Machine Learning task you can dream of,\n  because it's also extensible and modular. See http://rubyneat.com for the\n  details.\n  "
   s.email = "fred@lrcsoft.com"
   s.executables = ["neat"]
@@ -34,6 +34,7 @@ Gem::Specification.new do |s|
     "lib/rubyneat/cli/templates/generate/Gemfile.tt",
     "lib/rubyneat/cli/templates/generate/README.md.tt",
     "lib/rubyneat/cli/templates/generate/bin/neat.tt",
+    "lib/rubyneat/cli/templates/generate/config/boot.rb.tt",
     "lib/rubyneat/cli/templates/generate/neater.tt",
     "lib/rubyneat/critter.rb",
     "lib/rubyneat/default_neat.rb",
@@ -46,7 +47,6 @@ Gem::Specification.new do |s|
     "lib/rubyneat/population.rb",
     "lib/rubyneat/rubyneat.rb",
     "rubyneat.gemspec",
-    "rubyneat.gemspec.orig",
     "spec/lib/rubyneat/rubyneat_spec.rb"
   ]
   s.homepage = "http://rubyneat.com"
@@ -58,8 +58,6 @@ Gem::Specification.new do |s|
     s.specification_version = 4
 
     if Gem::Version.new(Gem::VERSION) >= Gem::Version.new('1.2.0') then
-      s.add_runtime_dependency(%q<mongo>, ["~> 1"])
-      s.add_runtime_dependency(%q<bson_ext>, ["~> 1"])
       s.add_runtime_dependency(%q<distribution>, ["~> 0"])
       s.add_runtime_dependency(%q<statistics2>, ["~> 0"])
       s.add_runtime_dependency(%q<debase>, ["~> 0"])
@@ -76,10 +74,7 @@ Gem::Specification.new do |s|
       s.add_development_dependency(%q<semver>, ["~> 1"])
       s.add_development_dependency(%q<jeweler>, ["~> 2"])
       s.add_development_dependency(%q<simplecov>, ["~> 0"])
-      s.add_development_dependency(%q<ruby-debug-ide>, ["~> 0"])
     else
-      s.add_dependency(%q<mongo>, ["~> 1"])
-      s.add_dependency(%q<bson_ext>, ["~> 1"])
       s.add_dependency(%q<distribution>, ["~> 0"])
       s.add_dependency(%q<statistics2>, ["~> 0"])
       s.add_dependency(%q<debase>, ["~> 0"])
@@ -96,11 +91,8 @@ Gem::Specification.new do |s|
       s.add_dependency(%q<semver>, ["~> 1"])
       s.add_dependency(%q<jeweler>, ["~> 2"])
       s.add_dependency(%q<simplecov>, ["~> 0"])
-      s.add_dependency(%q<ruby-debug-ide>, ["~> 0"])
     end
   else
-    s.add_dependency(%q<mongo>, ["~> 1"])
-    s.add_dependency(%q<bson_ext>, ["~> 1"])
     s.add_dependency(%q<distribution>, ["~> 0"])
     s.add_dependency(%q<statistics2>, ["~> 0"])
     s.add_dependency(%q<debase>, ["~> 0"])
@@ -117,7 +109,6 @@ Gem::Specification.new do |s|
     s.add_dependency(%q<semver>, ["~> 1"])
     s.add_dependency(%q<jeweler>, ["~> 2"])
     s.add_dependency(%q<simplecov>, ["~> 0"])
-    s.add_dependency(%q<ruby-debug-ide>, ["~> 0"])
   end
 end
 

metadata

@@ -1,43 +1,15 @@
 --- !ruby/object:Gem::Specification
 name: rubyneat
 version: !ruby/object:Gem::Version
-  version: 0.3.5.alpha.5
+  version: 0.3.5.alpha.6
 platform: ruby
 authors:
 - Fred Mitchell
 autorequire: 
 bindir: bin
 cert_chain: []
-date: 2014-04-19 00:00:00.000000000 Z
+date: 2014-04-24 00:00:00.000000000 Z
 dependencies:
-- !ruby/object:Gem::Dependency
-  name: mongo
-  requirement: !ruby/object:Gem::Requirement
-    requirements:
-    - - "~>"
-      - !ruby/object:Gem::Version
-        version: '1'
-  type: :runtime
-  prerelease: false
-  version_requirements: !ruby/object:Gem::Requirement
-    requirements:
-    - - "~>"
-      - !ruby/object:Gem::Version
-        version: '1'
-- !ruby/object:Gem::Dependency
-  name: bson_ext
-  requirement: !ruby/object:Gem::Requirement
-    requirements:
-    - - "~>"
-      - !ruby/object:Gem::Version
-        version: '1'
-  type: :runtime
-  prerelease: false
-  version_requirements: !ruby/object:Gem::Requirement
-    requirements:
-    - - "~>"
-      - !ruby/object:Gem::Version
-        version: '1'
 - !ruby/object:Gem::Dependency
   name: distribution
   requirement: !ruby/object:Gem::Requirement
@@ -262,20 +234,6 @@ dependencies:
     - - "~>"
       - !ruby/object:Gem::Version
         version: '0'
-- !ruby/object:Gem::Dependency
-  name: ruby-debug-ide
-  requirement: !ruby/object:Gem::Requirement
-    requirements:
-    - - "~>"
-      - !ruby/object:Gem::Version
-        version: '0'
-  type: :development
-  prerelease: false
-  version_requirements: !ruby/object:Gem::Requirement
-    requirements:
-    - - "~>"
-      - !ruby/object:Gem::Version
-        version: '0'
 description: "\n  RubyNEAT -- Neural Evolution of Augmenting Topologies for Ruby.\n
   \ By way of an enhanced form of Genetic Algorithms -- the NEAT algorithm,\n  populations
   of neural nets are evolved to handle pre-defined goals.\n\n  RubyNEAT is the first
@@ -309,6 +267,7 @@ files:
 - lib/rubyneat/cli/templates/generate/Gemfile.tt
 - lib/rubyneat/cli/templates/generate/README.md.tt
 - lib/rubyneat/cli/templates/generate/bin/neat.tt
+- lib/rubyneat/cli/templates/generate/config/boot.rb.tt
 - lib/rubyneat/cli/templates/generate/neater.tt
 - lib/rubyneat/critter.rb
 - lib/rubyneat/default_neat.rb
@@ -321,7 +280,6 @@ files:
 - lib/rubyneat/population.rb
 - lib/rubyneat/rubyneat.rb
 - rubyneat.gemspec
-- rubyneat.gemspec.orig
 - spec/lib/rubyneat/rubyneat_spec.rb
 homepage: http://rubyneat.com
 licenses:

data/rubyneat.gemspec.orig

@@ -1,384 +0,0 @@
-# Generated by jeweler
-# DO NOT EDIT THIS FILE DIRECTLY
-# Instead, edit Jeweler::Tasks in Rakefile, and run 'rake gemspec'
-# -*- encoding: utf-8 -*-
-<<<<<<< HEAD
-# stub: rubyneat 0.3.5.alpha.3 ruby lib
-
-Gem::Specification.new do |s|
-  s.name = "rubyneat"
-  s.version = "0.3.5.alpha.3"
-=======
-# stub: rubyneat 0.3.5.alpha.5 ruby lib
-
-Gem::Specification.new do |s|
-  s.name = "rubyneat"
-  s.version = "0.3.5.alpha.5"
->>>>>>> utility
-
-  s.required_rubygems_version = Gem::Requirement.new("> 1.3.1") if s.respond_to? :required_rubygems_version=
-  s.require_paths = ["lib"]
-  s.authors = ["Fred Mitchell"]
-<<<<<<< HEAD
-  s.date = "2014-04-14"
-  s.description = "\n  NEAT Algorithm for Ruby.\n  "
-=======
-  s.date = "2014-04-18"
-  s.description = "\n  RubyNEAT -- Neural Evolution of Augmenting Topologies for Ruby.\n  By way of an enhanced form of Genetic Algorithms -- the NEAT algorithm,\n  populations of neural nets are evolved to handle pre-defined goals.\n\n  RubyNEAT is the first implementation of the NEAT algorithm for Ruby, and\n  it leverages Ruby's power to implement the NEAT algorithm in a way that would\n  be difficult to do in other languages. The 'activation function' is largely\n  standalone. Basically, activation is achieved by functional programming.\n\n  Meaning, once your network is evolved, you can extract it as source code you\n  can then utilize without the RubyNEAT engine.\n\n  RubyNEAT can be used for nearly any Machine Learning task you can dream of,\n  because it's also extensible and modular. See http://rubyneat.com for the\n  details.\n  "
->>>>>>> utility
-  s.email = "fred@lrcsoft.com"
-  s.executables = ["neat"]
-  s.extra_rdoc_files = [
-    "README.md"
-  ]
-  s.files = [
-    ".directory",
-<<<<<<< HEAD
-    ".idea/.name",
-    ".idea/.rakeTasks",
-    ".idea/dictionaries/trader.xml",
-    ".idea/encodings.xml",
-    ".idea/misc.xml",
-    ".idea/modules.xml",
-    ".idea/rubyneat.iml",
-    ".idea/runConfigurations/invpend_neat.xml",
-    ".idea/runConfigurations/sigdebug_neat.xml",
-    ".idea/runConfigurations/xor_neat.xml",
-    ".idea/runConfigurations/xordebug_neat.xml",
-    ".idea/runConfigurations/xorsin_neat.xml",
-    ".idea/scopes/scope_settings.xml",
-    ".idea/vcs.xml",
-    ".idea/workspace.xml",
-=======
->>>>>>> utility
-    ".semver",
-    "Gemfile",
-    "Gemfile.lock",
-    "README.md",
-    "Rakefile",
-    "bin/neat",
-    "config/application.rb",
-    "lib/rubyneat.rb",
-    "lib/rubyneat/cli.rb",
-    "lib/rubyneat/cli/generate.rb",
-    "lib/rubyneat/cli/main.rb",
-    "lib/rubyneat/cli/templates/generate/Gemfile.tt",
-    "lib/rubyneat/cli/templates/generate/README.md.tt",
-    "lib/rubyneat/cli/templates/generate/neater.tt",
-    "lib/rubyneat/critter.rb",
-    "lib/rubyneat/default_neat.rb",
-    "lib/rubyneat/dsl.rb",
-    "lib/rubyneat/evaluator.rb",
-    "lib/rubyneat/evolver.rb",
-    "lib/rubyneat/expressor.rb",
-    "lib/rubyneat/graph.rb",
-    "lib/rubyneat/neuron.rb",
-    "lib/rubyneat/population.rb",
-    "lib/rubyneat/rubyneat.rb",
-<<<<<<< HEAD
-    "neater/invpend_neat.rb",
-    "neater/rnlib/inverted_pendulum.rb",
-    "neater/rnlib/xor.rb",
-    "neater/sigdebug_neat.rb",
-    "neater/xor_neat.rb",
-    "neater/xoranalog_neat.rb",
-    "neater/xorsin_neat.rb",
-    "projectFilesBackup/.idea/rubyneat.iml",
-    "public/.directory",
-    "public/background.png",
-    "public/background.xcf",
-    "public/cart.png",
-    "public/cart.xcf",
-    "public/metalpoles_molton_ball_l.jpg",
-    "public/old_background.png",
-    "public/pointer.png",
-    "public/pointer.xcf",
-    "public/pole.kra",
-    "public/pole.png",
-    "public/pole.xcf",
-    "public/wheel-of-year-stone-DD-131-WOYS.jpg",
-    "public/wheel.png",
-    "public/wheel.xcf",
-    "public/wood-planks-texture.jpg",
-    "rdoc/ControllerPoint.html",
-    "rdoc/CuteA.html",
-    "rdoc/CuteB.html",
-    "rdoc/DSLSetup.html",
-    "rdoc/GameTestWindow.html",
-    "rdoc/GameWindow.html",
-    "rdoc/Gemfile.html",
-    "rdoc/Gemfile_lock.html",
-    "rdoc/GraphTest.html",
-    "rdoc/Guardfile.html",
-    "rdoc/InvertedPendulum.html",
-    "rdoc/InvertedPendulum/Cart.html",
-    "rdoc/InvertedPendulum/DSL.html",
-    "rdoc/InvertedPendulum/InvPendWindow.html",
-    "rdoc/Logger.html",
-    "rdoc/NEAT.html",
-    "rdoc/NEAT/BasicNeuronTypes.html",
-    "rdoc/NEAT/BasicNeuronTypes/BiasNeuron.html",
-    "rdoc/NEAT/BasicNeuronTypes/CosineNeuron.html",
-    "rdoc/NEAT/BasicNeuronTypes/InputNeuron.html",
-    "rdoc/NEAT/BasicNeuronTypes/SigmoidNeuron.html",
-    "rdoc/NEAT/BasicNeuronTypes/SineNeuron.html",
-    "rdoc/NEAT/BasicNeuronTypes/TanhNeuron.html",
-    "rdoc/NEAT/Controller.html",
-    "rdoc/NEAT/Controller/NeatSettings.html",
-    "rdoc/NEAT/Critter.html",
-    "rdoc/NEAT/Critter/Genotype.html",
-    "rdoc/NEAT/Critter/Genotype/Gene.html",
-    "rdoc/NEAT/Critter/Phenotype.html",
-    "rdoc/NEAT/DSL.html",
-    "rdoc/NEAT/Evaluator.html",
-    "rdoc/NEAT/Evolver.html",
-    "rdoc/NEAT/Evolver/CritterOp.html",
-    "rdoc/NEAT/Expressor.html",
-    "rdoc/NEAT/Graph.html",
-    "rdoc/NEAT/Graph/DependencyResolver.html",
-    "rdoc/NEAT/Graph/GraphException.html",
-    "rdoc/NEAT/NeatException.html",
-    "rdoc/NEAT/NeatOb.html",
-    "rdoc/NEAT/Neuron.html",
-    "rdoc/NEAT/Operator.html",
-    "rdoc/NEAT/Population.html",
-    "rdoc/NEAT/Trait.html",
-    "rdoc/Object.html",
-    "rdoc/Phi.html",
-    "rdoc/Player.html",
-    "rdoc/Rakefile.html",
-    "rdoc/RubyNEAT.html",
-    "rdoc/RubyNEAT/Application.html",
-    "rdoc/SDL.html",
-    "rdoc/SDL/Event2.html",
-    "rdoc/Vector.html",
-    "rdoc/created.rid",
-    "rdoc/doc/ControllerPoint_html.html",
-    "rdoc/doc/CuteA_html.html",
-    "rdoc/doc/CuteB_html.html",
-    "rdoc/doc/DSL_html.html",
-    "rdoc/doc/NEAT/BasicNeuronTypes/BiasNeuron_html.html",
-    "rdoc/doc/NEAT/BasicNeuronTypes/CosineNeuron_html.html",
-    "rdoc/doc/NEAT/BasicNeuronTypes/InputNeuron_html.html",
-    "rdoc/doc/NEAT/BasicNeuronTypes/SigmoidNeuron_html.html",
-    "rdoc/doc/NEAT/BasicNeuronTypes/SineNeuron_html.html",
-    "rdoc/doc/NEAT/BasicNeuronTypes/TanhNeuron_html.html",
-    "rdoc/doc/NEAT/BasicNeuronTypes_html.html",
-    "rdoc/doc/NEAT/Controller/NeatSettings_html.html",
-    "rdoc/doc/NEAT/Controller_html.html",
-    "rdoc/doc/NEAT/Critter/Genotype/Gene_html.html",
-    "rdoc/doc/NEAT/Critter/Genotype_html.html",
-    "rdoc/doc/NEAT/Critter/Phenotype_html.html",
-    "rdoc/doc/NEAT/Critter_html.html",
-    "rdoc/doc/NEAT/DSL_html.html",
-    "rdoc/doc/NEAT/Evaluator_html.html",
-    "rdoc/doc/NEAT/Evolver/CritterOp_html.html",
-    "rdoc/doc/NEAT/Evolver_html.html",
-    "rdoc/doc/NEAT/Expressor_html.html",
-    "rdoc/doc/NEAT/Graph/DependencyResolver_html.html",
-    "rdoc/doc/NEAT/Graph/GraphException_html.html",
-    "rdoc/doc/NEAT/Graph_html.html",
-    "rdoc/doc/NEAT/NeatException_html.html",
-    "rdoc/doc/NEAT/NeatOb_html.html",
-    "rdoc/doc/NEAT/Neuron_html.html",
-    "rdoc/doc/NEAT/Operator_html.html",
-    "rdoc/doc/NEAT/Population_html.html",
-    "rdoc/doc/NEAT/Trait_html.html",
-    "rdoc/doc/NEAT_html.html",
-    "rdoc/doc/_index_html.html",
-    "rdoc/doc/class_list_html.html",
-    "rdoc/doc/css/common_css.html",
-    "rdoc/doc/css/full_list_css.html",
-    "rdoc/doc/css/style_css.html",
-    "rdoc/doc/file_list_html.html",
-    "rdoc/doc/frames_html.html",
-    "rdoc/doc/index_html.html",
-    "rdoc/doc/js/app_js.html",
-    "rdoc/doc/js/full_list_js.html",
-    "rdoc/doc/js/jquery_js.html",
-    "rdoc/doc/method_list_html.html",
-    "rdoc/doc/top-level-namespace_html.html",
-    "rdoc/fonts.css",
-    "rdoc/fonts/Lato-Light.ttf",
-    "rdoc/fonts/Lato-LightItalic.ttf",
-    "rdoc/fonts/Lato-Regular.ttf",
-    "rdoc/fonts/Lato-RegularItalic.ttf",
-    "rdoc/fonts/SourceCodePro-Bold.ttf",
-    "rdoc/fonts/SourceCodePro-Regular.ttf",
-    "rdoc/images/add.png",
-    "rdoc/images/arrow_up.png",
-    "rdoc/images/brick.png",
-    "rdoc/images/brick_link.png",
-    "rdoc/images/bug.png",
-    "rdoc/images/bullet_black.png",
-    "rdoc/images/bullet_toggle_minus.png",
-    "rdoc/images/bullet_toggle_plus.png",
-    "rdoc/images/date.png",
-    "rdoc/images/delete.png",
-    "rdoc/images/find.png",
-    "rdoc/images/loadingAnimation.gif",
-    "rdoc/images/macFFBgHack.png",
-    "rdoc/images/package.png",
-    "rdoc/images/page_green.png",
-    "rdoc/images/page_white_text.png",
-    "rdoc/images/page_white_width.png",
-    "rdoc/images/plugin.png",
-    "rdoc/images/ruby.png",
-    "rdoc/images/tag_blue.png",
-    "rdoc/images/tag_green.png",
-    "rdoc/images/transparent.png",
-    "rdoc/images/wrench.png",
-    "rdoc/images/wrench_orange.png",
-    "rdoc/images/zoom.png",
-    "rdoc/index.html",
-    "rdoc/js/darkfish.js",
-    "rdoc/js/jquery.js",
-    "rdoc/js/navigation.js",
-    "rdoc/js/search.js",
-    "rdoc/js/search_index.js",
-    "rdoc/js/searcher.js",
-    "rdoc/rdoc.css",
-    "rdoc/rubyneat_gemspec.html",
-    "rdoc/table_of_contents.html",
-    "rdoc/xordebug_log.html",
-    "rdoc/xorsin_log.html",
-=======
->>>>>>> utility
-    "rubyneat.gemspec",
-    "spec/lib/rubyneat/rubyneat_spec.rb"
-  ]
-  s.homepage = "http://rubyneat.com"
-  s.licenses = ["MIT"]
-  s.rubygems_version = "2.2.2"
-  s.summary = "RubyNEAT NeuralEvolution of Augmenting Topologies"
-
-  if s.respond_to? :specification_version then
-    s.specification_version = 4
-
-    if Gem::Version.new(Gem::VERSION) >= Gem::Version.new('1.2.0') then
-<<<<<<< HEAD
-      s.add_runtime_dependency(%q<mongo>, [">= 0"])
-      s.add_runtime_dependency(%q<bson_ext>, [">= 0"])
-      s.add_runtime_dependency(%q<distribution>, [">= 0"])
-      s.add_runtime_dependency(%q<statistics2>, [">= 0"])
-      s.add_runtime_dependency(%q<debase>, [">= 0"])
-      s.add_runtime_dependency(%q<aquarium>, [">= 0"])
-      s.add_runtime_dependency(%q<thor>, [">= 0"])
-      s.add_runtime_dependency(%q<awesome_print>, [">= 0"])
-      s.add_runtime_dependency(%q<deep_dive>, [">= 0"])
-      s.add_runtime_dependency(%q<gosu>, [">= 0"])
-      s.add_runtime_dependency(%q<rubyvis>, [">= 0"])
-      s.add_development_dependency(%q<rspec>, [">= 0"])
-      s.add_development_dependency(%q<yard>, [">= 0"])
-      s.add_development_dependency(%q<guard>, [">= 0"])
-      s.add_development_dependency(%q<guard-rspec>, [">= 0"])
-      s.add_development_dependency(%q<semver>, [">= 0"])
-      s.add_development_dependency(%q<jeweler>, ["~> 1.8.7"])
-      s.add_development_dependency(%q<simplecov>, [">= 0"])
-      s.add_development_dependency(%q<ruby-debug-ide>, [">= 0"])
-    else
-      s.add_dependency(%q<mongo>, [">= 0"])
-      s.add_dependency(%q<bson_ext>, [">= 0"])
-      s.add_dependency(%q<distribution>, [">= 0"])
-      s.add_dependency(%q<statistics2>, [">= 0"])
-      s.add_dependency(%q<debase>, [">= 0"])
-      s.add_dependency(%q<aquarium>, [">= 0"])
-      s.add_dependency(%q<thor>, [">= 0"])
-      s.add_dependency(%q<awesome_print>, [">= 0"])
-      s.add_dependency(%q<deep_dive>, [">= 0"])
-      s.add_dependency(%q<gosu>, [">= 0"])
-      s.add_dependency(%q<rubyvis>, [">= 0"])
-      s.add_dependency(%q<rspec>, [">= 0"])
-      s.add_dependency(%q<yard>, [">= 0"])
-      s.add_dependency(%q<guard>, [">= 0"])
-      s.add_dependency(%q<guard-rspec>, [">= 0"])
-      s.add_dependency(%q<semver>, [">= 0"])
-      s.add_dependency(%q<jeweler>, ["~> 1.8.7"])
-      s.add_dependency(%q<simplecov>, [">= 0"])
-      s.add_dependency(%q<ruby-debug-ide>, [">= 0"])
-    end
-  else
-    s.add_dependency(%q<mongo>, [">= 0"])
-    s.add_dependency(%q<bson_ext>, [">= 0"])
-    s.add_dependency(%q<distribution>, [">= 0"])
-    s.add_dependency(%q<statistics2>, [">= 0"])
-    s.add_dependency(%q<debase>, [">= 0"])
-    s.add_dependency(%q<aquarium>, [">= 0"])
-    s.add_dependency(%q<thor>, [">= 0"])
-    s.add_dependency(%q<awesome_print>, [">= 0"])
-    s.add_dependency(%q<deep_dive>, [">= 0"])
-    s.add_dependency(%q<gosu>, [">= 0"])
-    s.add_dependency(%q<rubyvis>, [">= 0"])
-    s.add_dependency(%q<rspec>, [">= 0"])
-    s.add_dependency(%q<yard>, [">= 0"])
-    s.add_dependency(%q<guard>, [">= 0"])
-    s.add_dependency(%q<guard-rspec>, [">= 0"])
-    s.add_dependency(%q<semver>, [">= 0"])
-    s.add_dependency(%q<jeweler>, ["~> 1.8.7"])
-    s.add_dependency(%q<simplecov>, [">= 0"])
-    s.add_dependency(%q<ruby-debug-ide>, [">= 0"])
-=======
-      s.add_runtime_dependency(%q<mongo>, ["~> 1"])
-      s.add_runtime_dependency(%q<bson_ext>, ["~> 1"])
-      s.add_runtime_dependency(%q<distribution>, ["~> 0"])
-      s.add_runtime_dependency(%q<statistics2>, ["~> 0"])
-      s.add_runtime_dependency(%q<debase>, ["~> 0"])
-      s.add_runtime_dependency(%q<aquarium>, ["~> 0"])
-      s.add_runtime_dependency(%q<thor>, ["~> 0"])
-      s.add_runtime_dependency(%q<awesome_print>, ["~> 1"])
-      s.add_runtime_dependency(%q<deep_dive>, ["~> 0"])
-      s.add_runtime_dependency(%q<gosu>, ["~> 0"])
-      s.add_runtime_dependency(%q<rubyvis>, ["~> 0"])
-      s.add_development_dependency(%q<rspec>, ["~> 2"])
-      s.add_development_dependency(%q<yard>, ["~> 0"])
-      s.add_development_dependency(%q<guard>, ["~> 2"])
-      s.add_development_dependency(%q<guard-rspec>, ["~> 4"])
-      s.add_development_dependency(%q<semver>, ["~> 1"])
-      s.add_development_dependency(%q<jeweler>, ["~> 2"])
-      s.add_development_dependency(%q<simplecov>, ["~> 0"])
-      s.add_development_dependency(%q<ruby-debug-ide>, ["~> 0"])
-    else
-      s.add_dependency(%q<mongo>, ["~> 1"])
-      s.add_dependency(%q<bson_ext>, ["~> 1"])
-      s.add_dependency(%q<distribution>, ["~> 0"])
-      s.add_dependency(%q<statistics2>, ["~> 0"])
-      s.add_dependency(%q<debase>, ["~> 0"])
-      s.add_dependency(%q<aquarium>, ["~> 0"])
-      s.add_dependency(%q<thor>, ["~> 0"])
-      s.add_dependency(%q<awesome_print>, ["~> 1"])
-      s.add_dependency(%q<deep_dive>, ["~> 0"])
-      s.add_dependency(%q<gosu>, ["~> 0"])
-      s.add_dependency(%q<rubyvis>, ["~> 0"])
-      s.add_dependency(%q<rspec>, ["~> 2"])
-      s.add_dependency(%q<yard>, ["~> 0"])
-      s.add_dependency(%q<guard>, ["~> 2"])
-      s.add_dependency(%q<guard-rspec>, ["~> 4"])
-      s.add_dependency(%q<semver>, ["~> 1"])
-      s.add_dependency(%q<jeweler>, ["~> 2"])
-      s.add_dependency(%q<simplecov>, ["~> 0"])
-      s.add_dependency(%q<ruby-debug-ide>, ["~> 0"])
-    end
-  else
-    s.add_dependency(%q<mongo>, ["~> 1"])
-    s.add_dependency(%q<bson_ext>, ["~> 1"])
-    s.add_dependency(%q<distribution>, ["~> 0"])
-    s.add_dependency(%q<statistics2>, ["~> 0"])
-    s.add_dependency(%q<debase>, ["~> 0"])
-    s.add_dependency(%q<aquarium>, ["~> 0"])
-    s.add_dependency(%q<thor>, ["~> 0"])
-    s.add_dependency(%q<awesome_print>, ["~> 1"])
-    s.add_dependency(%q<deep_dive>, ["~> 0"])
-    s.add_dependency(%q<gosu>, ["~> 0"])
-    s.add_dependency(%q<rubyvis>, ["~> 0"])
-    s.add_dependency(%q<rspec>, ["~> 2"])
-    s.add_dependency(%q<yard>, ["~> 0"])
-    s.add_dependency(%q<guard>, ["~> 2"])
-    s.add_dependency(%q<guard-rspec>, ["~> 4"])
-    s.add_dependency(%q<semver>, ["~> 1"])
-    s.add_dependency(%q<jeweler>, ["~> 2"])
-    s.add_dependency(%q<simplecov>, ["~> 0"])
-    s.add_dependency(%q<ruby-debug-ide>, ["~> 0"])
->>>>>>> utility
-  end
-end
-