sciruby 0.2.2 → 0.2.3

checksums.yaml

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data/CHANGES

@@ -1,3 +1,9 @@
+0.2.3 (2015-06-09)
+
+  * Simpler SciRuby.gems api
+  * Added gems.yml
+  * Updated list of sciruby gems
+
 0.2.2 (2015-06-09)
 
   * Add SciRuby::Gems and SciRuby.gems

data/Gemfile

@@ -1,8 +1,2 @@
-$: << File.join(File.dirname(__FILE__), 'lib')
-require 'sciruby'
-
 source 'https://rubygems.org'
-
-SciRuby.gems.all.each do |name, options|
-  gem name, *options[:version], require: options[:require].first
-end
+gemspec name: 'sciruby-full'

data/gems.slim

@@ -0,0 +1,24 @@
+ruby:
+  require 'sciruby'
+doctype html
+html
+  head
+    title SciRuby gems
+    link rel="stylesheet" href="https://maxcdn.bootstrapcdn.com/bootstrap/3.3.4/css/bootstrap.min.css"
+  body
+    h1 SciRuby gems
+    table.table.table-striped
+      thead
+        tr
+          th Name
+          th Category
+          th Description
+          th Autoloaded modules
+      tbody
+        - SciRuby.gems.each_value.sort_by {|gem| gem[:category] }.chunk {|gem| gem[:category] }.each do |cat, gems|
+          - gems.sort_by {|gem| gem [:name] }.each do |gem|
+            tr
+              td = gem[:name]
+              td = gem[:category]
+              td = gem[:description]
+              td = gem[:module].join(', ')

data/gems.yml

@@ -1,63 +1,157 @@
 # Specify all gems which are installed by the `sciruby-full` gem or recommended by the `sciruby` gem.
 
 nmatrix:
-  description: 'Numerical matrix library'
-  module: [NMatrix, NVector]
+  description: Numerics matrix library
+  module: [N, NMatrix, NVector]
+  category: numerics
+
 gsl-nmatrix:
-  description: 'Bindings for the GNU scientific library'
+  description: Bindings for the GNU scientific library
   require: gsl
   module: GSL
+  category: numerics
 
 rubyvis:
-  description: 'Plotting library'
+  description: Plotting library
+  category: plotting
+
 nyaplot:
-  description: 'Plotting library'
+  description: Plotting library
+  category: plotting
+
 plotrb:
-  description: 'Plotting library'
+  description: Plotting library
+  category: plotting
+
 gnuplot:
-  description: 'Plotting library'
+  description: Plotting library
+  category: plotting
 
 iruby:
   module: IRuby
-  description: 'Ruby kernel for Jupyter'
+  description: Ruby kernel for Jupyter
+  category: user interface
+
 pry:
   module: Pry
-  description: 'Ruby repl'
+  description: Ruby repl
+  category: user interface
+
 awesome_print:
   module: ~
-  description: 'Pretty object printing'
+  description: Pretty object printing
+  category: utilities
 
 daru:
-  description: 'Dataframe library'
+  description: Dataframe library
+  category: database
 
 integration:
-  description: 'Numerical integration'
+  description: Numerical integration
+  category: numerics
+
 minimization:
-  description: 'Numerical minimization'
+  description: Numerical minimization
+  category: numerics
+
 distribution:
-  description: 'Statistical distributions'
+  description: Statistical distributions
+  category: statistics
 
 statsample:
-  descriptions: 'Statistics'
+  description: Statistics
+  category: statistics
+
 statsample-glm:
-  descriptions: 'Statistics'
+  description: Statistics
   module: ~
+  category: statistics
+
 statsample-bivariate-extension:
-  descriptions: 'Statistics'
+  description: Statistics
   module: ~
-#statsample-timeseries: # currently not working because of activesupport dependency
-# descriptions: 'Statistics'
-# module: ~
+  category: statistics
+
+statsample-timeseries:
+  exclude: because of activesupport conflict
+  description: Statistics
+  module: ~
+  category: statistics
+
 extendmatrix:
-  description: 'Helper methods for Matrix'
+  description: Helper methods for Matrix
   module: ~
+  category: numerics
 
 publisci:
-  description: 'Publishing toolkit'
+  description: Publishing toolkit
   module: PubliSci
+  category: publishing
 
 ai4r:
-  description: 'Artificial intelligence'
+  description: Artificial intelligence
+  category: machine learning
 
 bio:
-  description: 'Bioinformatics suite'
+  description: Bioinformatics suite
+  category: biology
+
+ruby-fftw3:
+  module: FFTW3
+  exclude: because it works only with narray
+  description: Fast Fourier transformation
+  category: numerics
+
+ruby-band:
+  exclude: because of dependencies
+  description: Data mining
+  category: machine learning
+  module: ~
+
+classifier:
+  description: Machine learning
+  category: machine learning
+
+stuff-classifier:
+  description: Machine learning
+  category: machine learning
+  module: StuffClassifier
+
+decisiontree:
+  description: Machine learning
+  category: machine learning
+  module: DecisionTree
+
+irtruby:
+  exclude: because of dependencies
+  description: Machine learning
+  category: machine learning
+  module: IRT
+
+ruby-opencv:
+  description: Computer vision
+  exclude: because of dependencies
+  category: computer vision
+  module: OpenCV
+
+ruby-fann:
+  description: Neural networks
+  category: machine learning
+  module: RubyFann
+
+rb-libsvm:
+  description: Support vector machines (machine learning)
+  category: machine learning
+  module: Libsvm
+
+sciruby:
+  description: SciRuby meta gem
+  category: meta
+  exclude: to avoid circular dependencies
+  module: ~
+
+sciruby-full:
+  description: SciRuby meta gem (Full installation)
+  category: meta
+  exclude: to avoid circular dependencies
+  module: ~

data/lib/sciruby/autoload.rb

@@ -2,7 +2,7 @@ class Module
   alias :const_missing_without_sciruby :const_missing
 
   def const_missing(name)
-    paths = SciRuby.gems.autoload_modules.delete(name)
+    paths = SciRuby.autoload_modules.delete(name)
     if paths
       paths.each {|path| require path }
       const_get(name)

data/lib/sciruby/gems.rb

@@ -1,55 +1,54 @@
 module SciRuby
-  # @api public
-  class Gems
-    # Return map of all known SciRuby gems
-    attr_reader :all
-
-    # Modules which can be autoloaded
-    attr_reader :autoload_modules
-
-    # Return map of all installed SciRuby gems
-    def installed
-      @installed ||=
-        begin
-          require 'rubygems'
-          Hash[all.map {|name, options| installed_gem(name, options) }.compact]
-        end
-    end
+  extend self
 
-    # Return list of all known SciRuby modules
-    def all_modules
-      @all_modules ||= all.map { |name, options| options[:module] }.flatten
-    end
+  # Return map of all known SciRuby gems
+  def gems
+    @gems ||= {}
+  end
 
-    # Return list of all installed SciRuby modules
-    def installed_modules
-      @installed_modules ||= installed.map { |name, options| options[:module] }.flatten
-    end
+  # Modules which can be autoloaded
+  def autoload_modules
+    @autoload_modules ||= {}
+  end
 
-    # Initialize gem list
-    def initialize(file)
-      @all, @autoload_modules = {}, {}
-      YAML.load_file(file).each do |name, options|
-        options = Hash[options.map {|k,v| [k.to_sym, v] }]
-        options[:require] = [*(options[:require] || name)]
-        options[:module] = name.capitalize unless options.include?(:module)
-        options[:module] = [*options[:module]].map(&:to_sym)
-        options[:module].each {|mod| @autoload_modules[mod] = options[:require] }
-        @all[name] = options
+  # Return map of all installed SciRuby gems
+  def installed_gems
+    @installed_gems ||=
+      begin
+        require 'rubygems'
+        Hash[gems.each_value.map(&method(:installed_gem)).compact]
       end
-    end
+  end
 
-    private
+  # Return list of all known SciRuby modules
+  def modules
+    @modules ||= gems.each_value.map {|gem| gem[:module] }.flatten
+  end
 
-    def installed_gem(name, options)
-      [name, options.merge(gem_version: Gem::Specification.find_by_name(name).version.to_s)]
-    rescue Exception
-      nil
+  # Return list of all installed SciRuby modules
+  def installed_modules
+    @installed_modules ||= installed_gems.each_value.map {|gem| gem[:module] }.flatten
+  end
+
+  private
+
+  def load_gems(file)
+    YAML.load_file(file).each do |name, gem|
+      gem = Hash[gem.map {|k,v| [k.to_sym, v] }]
+      gem[:name] = name
+      gem[:require] = [*(gem[:require] || name)]
+      gem[:module] = name.capitalize unless gem.include?(:module)
+      gem[:module] = [*gem[:module]].map(&:to_sym)
+      gem[:module].each {|mod| autoload_modules[mod] = gem[:require] }
+      gems[name] = gem
     end
   end
 
-  @gems = Gems.new(File.expand_path(File.join(__FILE__, '..', '..', '..', 'gems.yml')))
-  class << self
-    attr_reader :gems
+  def installed_gem(gem)
+    [gem[:name], gem.merge(gem_version: Gem::Specification.find_by_name(gem[:name]).version.to_s)]
+  rescue Exception
+    nil
   end
+
+  load_gems File.expand_path(File.join(__FILE__, '..', '..', '..', 'gems.yml'))
 end

data/lib/sciruby/version.rb

@@ -2,5 +2,5 @@
 module SciRuby
   # SciRuby version string
   # @api public
-  VERSION = '0.2.2'
+  VERSION = '0.2.3'
 end

data/sciruby.gemspec

@@ -24,12 +24,12 @@ Gem::Specification.new do |s|
     s.files.reject! {|f| f =~ /\Alib/ }
 
     s.add_runtime_dependency 'sciruby', "= #{SciRuby::VERSION}"
-    SciRuby.gems.all.each {|name, options| s.add_runtime_dependency name, *options[:version] }
+    SciRuby.gems.each_value.reject {|gem| gem[:exclude] }.each {|gem| s.add_runtime_dependency gem[:name], *gem[:version] }
   else
     s.files.delete 'sciruby-full.gemspec'
 
     m = "Please consider installing 'sciruby-full' or the following gems:\n"
-    SciRuby.gems.all.each {|name, options| m << "  * #{name}\n" }
+    SciRuby.gems.each_value.sort_by {|gem| gem[:name] }.each {|gem| m << "  * #{gem[:name]} - #{gem[:description]}\n" }
     s.post_install_message = m << "\n"
   end
 end

metadata

@@ -1,7 +1,7 @@
 --- !ruby/object:Gem::Specification
 name: sciruby
 version: !ruby/object:Gem::Version
-  version: 0.2.2
+  version: 0.2.3
 platform: ruby
 authors:
 - SciRuby Development Team
@@ -23,6 +23,7 @@ files:
 - Gemfile
 - LICENSE.txt
 - README.rdoc
+- gems.slim
 - gems.yml
 - lib/sciruby.rb
 - lib/sciruby/autoload.rb
@@ -35,26 +36,38 @@ licenses:
 metadata: {}
 post_install_message: |+
   Please consider installing 'sciruby-full' or the following gems:
-    * nmatrix
-    * gsl-nmatrix
-    * rubyvis
-    * nyaplot
-    * plotrb
-    * gnuplot
-    * iruby
-    * pry
-    * awesome_print
-    * daru
-    * integration
-    * minimization
-    * distribution
-    * statsample
-    * statsample-glm
-    * statsample-bivariate-extension
-    * extendmatrix
-    * publisci
-    * ai4r
-    * bio
+    * ai4r - Artificial intelligence
+    * awesome_print - Pretty object printing
+    * bio - Bioinformatics suite
+    * classifier - Machine learning
+    * daru - Dataframe library
+    * decisiontree - Machine learning
+    * distribution - Statistical distributions
+    * extendmatrix - Helper methods for Matrix
+    * gnuplot - Plotting library
+    * gsl-nmatrix - Bindings for the GNU scientific library
+    * integration - Numerical integration
+    * irtruby - Machine learning
+    * iruby - Ruby kernel for Jupyter
+    * minimization - Numerical minimization
+    * nmatrix - Numerics matrix library
+    * nyaplot - Plotting library
+    * plotrb - Plotting library
+    * pry - Ruby repl
+    * publisci - Publishing toolkit
+    * rb-libsvm - Support vector machines (machine learning)
+    * ruby-band - Data mining
+    * ruby-fann - Neural networks
+    * ruby-fftw3 - Fast Fourier transformation
+    * ruby-opencv - Computer vision
+    * rubyvis - Plotting library
+    * sciruby - SciRuby meta gem
+    * sciruby-full - SciRuby meta gem (Full installation)
+    * statsample - Statistics
+    * statsample-bivariate-extension - Statistics
+    * statsample-glm - Statistics
+    * statsample-timeseries - Statistics
+    * stuff-classifier - Machine learning
 
 rdoc_options: []
 require_paths: