statsample 2.0.0 → 2.0.1

checksums.yaml

@@ -1,7 +1,7 @@
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data/History.txt

@@ -1,3 +1,6 @@
+=== 2.0.1 / 2015-08-19
+  * Cleaned legacy containers in favor of `Daru::DataFrame` and `Daru::Vector`.
+
 === 2.0.0 / 2015-06-20
   * Added dependency on daru and replaced Statsample::Vector and Dataset with
     Daru::Vector and Daru::DataFrame.

data/lib/statsample/daru.rb

@@ -59,8 +59,8 @@ module Daru
         to_multiset_by_split_multiple_fields(*vecs)
       end
     end
+    
     # Creates a Statsample::Multiset, using one field
-
     def to_multiset_by_split_one_field(field)
       raise ArgumentError,"Should use a correct field name" if 
         !@vectors.include? field

data/lib/statsample/dataset.rb

@@ -3,132 +3,8 @@ require 'statsample/vector'
 class Hash
   # Creates a Statsample::Dataset based on a Hash
   def to_dataframe(*args)
-    Statsample::Dataset.new(self, *args)
+    Daru::DataFrame.new(self, *args)
   end
 
   alias :to_dataset :to_dataframe
 end
-
-class Array
-  def prefix(s) # :nodoc:
-    self.collect{|c| s+c.to_s }
-  end
-  def suffix(s) # :nodoc:
-    self.collect{|c| c.to_s+s }
-  end
-end
-
-module Statsample
-  # == Deprecation Warning
-  # 
-  # This class will soon be replaced by Daru::DataFrame in the 
-  # next release. Please see the daru docs at https://github.com/v0dro/daru 
-  # for more details
-  class Dataset < Daru::DataFrame
-    # Ordered ids of vectors
-    def fields
-      $stderr.puts "WARNING: Statsample::Dataset and Statsample::Vector have been deprecated in favor of Daru::DataFrame and Daru::Vector. Please switch to using Daru::DataFrame#vectors.\n"
-      @vectors.to_a
-    end
-
-    def name= new_name
-      $stderr.puts "WARNING: Statsample::Dataset and Statsample::Vector have been deprecated in favor of Daru::DataFrame and Daru::Vector. Please switch to using Daru::DataFrame#rename.\n"
-
-      rename new_name
-    end
-    # Number of cases
-    def cases
-      $stderr.puts "WARNING: Statsample::Dataset and Statsample::Vector have been deprecated in favor of Daru::DataFrame and Daru::Vector. Please switch to using Daru::DataFrame#nrows.\n"
-
-      nrows
-    end
-
-    # == Deprecation Warning
-    # 
-    # This class will soon be replaced by Daru::DataFrame in the 
-    # next release. Use Daru::DataFrame.crosstab_by_assignation 
-    # for the same effect. Please see the daru docs at 
-    # https://github.com/v0dro/daru for more details.
-    def self.crosstab_by_assignation(rows,columns,values)
-      ds = super(rows, columns, values)
-      Dataset.new ds.to_hash
-    end
-
-    # == Deprecation Warning
-    # 
-    # This class will soon be replaced by Daru::DataFrame in the 
-    # next release. Use Daru::DataFrame.new for the same effect. 
-    # Please see the daru docs at https://github.com/v0dro/daru for more details.
-    def initialize(vectors={}, fields=[])
-      $stderr.puts "WARNING: Statsample::Dataset and Statsample::Vector have been deprecated in favor of Daru::DataFrame and Daru::Vector. Please switch to using that.\n"
-
-      if vectors.instance_of? Array
-        @fields=vectors.dup
-        super({}, order: @fields.map { |e| e.respond_to?(:to_sym) ? e.to_sym : e })
-      else
-        # Check vectors
-        @vectors = {}
-        vectors.each do |k,v|
-          @vectors[k.respond_to?(:to_sym) ? k.to_sym : k] = v
-        end
-        @fields  = fields
-        super @vectors, order: @fields.map { |e| e.respond_to?(:to_sym) ? e.to_sym : e }
-      end
-    end
-
-    def from_to(from,to)
-      raise NoMethodError, "This method is no longer supported. To see the vector index use Daru::DataFrame#vectors"
-    end
-
-    def add_vector(name, vector)
-      raise NoMethodError, "Deprecated. Use Daru::DataFrame#[]= directly."
-    end
-
-    def add_case_array(v)
-      raise NoMethodError, "Deprecated. Use Daru::DataFrame#add_row instead."
-    end
-
-    def add_case(v,uvd=true)
-      raise NoMethodError, "Deprecated. Use Daru::DataFrame#add_row instead."
-    end
-
-    def update_valid_data
-      raise NoMethodError, "Deprecated. Use Daru::DataFrame#update instead. Also see Daru.lazy_update in the daru docs."
-    end
-
-    def each_array
-      raise NoMethodError, "Deprecated. Use Daru::DataFrame#each_row instead."
-    end
-
-    def fields=(f)
-      $stderr.puts "WARNING: Deprecated. Use Daru::DataFrame#reindex_vectors! instead.\n"
-
-      reindex_vectors! f
-    end
-
-    # Returns the vector named i
-    def [](i)
-      $stderr.puts "WARNING: Daru uses symbols instead of strings for naming vectors. Please switch to symbols.\n"
-
-      if i.is_a? Range
-        beg = i.begin.respond_to?(:to_sym) ? i.to_sym : i
-        en = i.end.respond_to?(:to_sym) ? i.to_sym : i
-        super(beg..en)
-      else
-        super i.to_sym
-      end
-    end
-
-    def []=(i,v)
-      $stderr.puts "WARNING: Daru uses symbols instead of strings for naming vectors. Please switch to symbols.\n"
-
-      super i, v
-    end
-
-    if Statsample.has_gsl?
-      def clear_gsl
-        raise NoMethodError, "This method is no longer needed/supported."
-      end
-    end   
-  end
-end

data/lib/statsample/multiset.rb

@@ -43,8 +43,7 @@ module Statsample
       end
       
       @fields.each do |f|
-        union_field[f] = Daru::Vector.new(union_field[f])
-        union_field[f].rename names[f]
+        union_field[f] = Daru::Vector.new(union_field[f], name: names[f])
       end
 
       ds_union = Daru::DataFrame.new(union_field, order: @fields)

data/lib/statsample/vector.rb

@@ -2,17 +2,7 @@ module Statsample::VectorShorthands
   # Creates a new Statsample::Vector object
   # Argument should be equal to Vector.new
   def to_vector(*args)
-    Statsample::Vector.new(self)
-  end
-
-  # Creates a new Daru::Vector object of type :scale.
-  # Deprecated. Use to_numeric instead.
-  def to_scale(*args)
-    Statsample::Vector.new(self, *args)
-  end
-
-  def to_numeric(*args)
-    Statsample::Vector.new(self)
+    Daru::Vector.new(self)
   end
 end
 
@@ -27,126 +17,3 @@ if Statsample.has_gsl?
     end
   end
 end
-module Statsample
-
-
-  # Collection of values on one dimension. Works as a column on a Spreadsheet.
-  #
-  # == Usage
-  # The fast way to create a vector uses Array.to_vector or Array.to_numeric.
-  #
-  # == Deprecation Warning
-  # 
-  # Statsample::Vector has been deprecated in favour of Daru::Vector. Daru is
-  # a dedicated data analysis and manipulation library that brings awesome
-  # data analysis functionality to ruby. Check out the daru docs at
-  # https://github.com/v0dro/daru#notebooks
-  class Vector < Daru::Vector
-    include Statsample::VectorShorthands
-
-    # Valid data. Equal to data, minus values assigned as missing values.
-    # 
-    # == Deprecation Warning
-    # 
-    # Use Daru::Vector#only_valid instead of this method.
-    def valid_data
-      $stderr.puts "WARNING: valid_data in Statsample::Vector has been deprecated in favor of only_valid in Daru::Vector. Please use that.\n"
-      only_valid.to_a
-    end
-    # Missing values array
-    # 
-    # == Deprecation Warning
-    # 
-    # Use Daru::Vector#only_valid instead of this method.
-    def missing_data
-      only_missing.to_a
-    end
-    # Original data.
-    # 
-    # == Deprecation Warning
-    # 
-    # Use Daru::Vector#to_a instead of this method.
-    def data_with_nils
-      to_a
-    end
-
-    def type= val
-      raise NoMethodError, "Daru::Vector automatically figures the type of data. There is no need to assign it anymore."
-    end
-
-    def initialize(data=[], type=:object, opts=Hash.new)  
-      $stderr.puts "WARNING: Statsample::Dataset and Statsample::Vector have been deprecated in favor of Daru::DataFrame and Daru::Vector. Please switch to using that."      
-
-      if type == :ordinal or type == :scale
-        $stderr.puts "WARNING: #{type} has been deprecated."
-      end
-
-      if type == :nominal
-        $stderr.puts "WARNING: nominal has been deprecated."
-      end
-
-      if opts[:today_values]
-        raise ArgumentError, "This option is no longer supported in Vector. Watch out for the next version of Daru::Vector that will have full time series support"
-      end
-
-      if  opts[:name].nil?
-        @@n_table||=0
-        @@n_table+=1
-        opts[:name] = "Vector #{@@n_table}"
-      end
-
-      super(data, opts)
-    end
-
-    # Create a vector using (almost) any object
-    # * Array: flattened
-    # * Range: transformed using to_a
-    # * Statsample::Vector
-    # * Numeric and string values
-    # 
-    # == Deprecation Warning
-    # 
-    # Statsample::Vector is to be replaced by Daru::Vector soon. Use the 
-    # equivalent method Daru::Vector.[] for this purpose.
-    def self.[](*args)
-      $stderr.puts "WARNING: Statsample::Dataset and Statsample::Vector have been deprecated in favor of Daru::DataFrame and Daru::Vector. Please switch to using that."
-      super *args
-    end
-
-    # Create a new numeric type vector
-    # Parameters
-    # [n]      Size
-    # [val]    Value of each value
-    # [&block] If block provided, is used to set the values of vector
-    # 
-    # == Deprecation Warning
-    # 
-    # Statsample::Vector is to be replaced by Daru::Vector soon. Use the 
-    # equivalent method Daru::Vector.[] for this purpose.
-    def self.new_numeric(n,val=nil, &block)
-      if block
-        Statsample::Vector.new(n.times.map {|i| block.call(i)})
-      else
-        Statsample::Vector.new(n.times.map { val })
-      end
-    end
-
-    # Deprecated. Use new_numeric instead.
-    def self.new_scale(n, val=nil,&block)
-      new_numeric n, val, &block
-    end
-
-    # Return true if all data is Date, "today" values or nil
-    def can_be_date?
-      raise NoMethodError, "This method is no longer supported."
-    end
-    # Return true if all data is Numeric or nil
-    def can_be_numeric?
-      type == :numeric
-    end
-
-    def to_s
-      sprintf("Vector(type:%s, n:%d)[%s]",@type.to_s,@data.size, @data.collect{|d| d.nil? ? "nil":d}.join(","))
-    end
-  end
-end

data/lib/statsample/version.rb

@@ -1,3 +1,3 @@
 module Statsample
-  VERSION = '2.0.0'
+  VERSION = '2.0.1'
 end

data/statsample.gemspec

@@ -80,5 +80,5 @@ Gem::Specification.new do |s|
   s.add_development_dependency 'gettext', '~> 3.1'
   s.add_development_dependency 'mocha', '~> 1.1'
   s.add_development_dependency 'nmatrix', '~> 0.1.0'
-  s.add_development_dependency 'gsl-nmatrix', '~> 1.17.0'
+  s.add_development_dependency 'rb-gsl', '~> 1.16'
 end

data/test/test_vector.rb

@@ -1,144 +1,6 @@
 require(File.expand_path(File.dirname(__FILE__) + '/helpers_tests.rb'))
 
 class StatsampleTestVector < Minitest::Test
-  include Statsample::Shorthand
-
-  context Statsample do
-    setup do
-      @sample = 100
-      @a = Daru::Vector.new(@sample.times.map { |i| (i + rand(10)) % 10 == 0 ? nil : rand(100) })
-      @b = Daru::Vector.new(@sample.times.map { |i| (i + rand(10)) % 10 == 0 ? nil : rand(100) })
-      @correct_a = []
-      @correct_b = []
-      @a.each_with_index do |_v, i|
-        if !@a[i].nil? and !@b[i].nil?
-          @correct_a.push(@a[i])
-          @correct_b.push(@b[i])
-        end
-      end
-      @correct_a = Daru::Vector.new(@correct_a)
-      @correct_b = Daru::Vector.new(@correct_b)
-
-      @common = lambda  do |av, bv|
-        assert_equal(@correct_a, av, 'A no es esperado')
-        assert_equal(@correct_b, bv, 'B no es esperado')
-        assert(!av.has_missing_data?, 'A tiene datos faltantes')
-        assert(!bv.has_missing_data?, 'b tiene datos faltantes')
-      end
-    end
-
-    should 'return correct only_valid' do
-      av, bv = Statsample.only_valid @a, @b
-      av.reset_index!
-      bv.reset_index!
-      av2, bv2 = Statsample.only_valid av, bv
-      @common.call(av, bv)
-      assert_equal(av, av2)
-      assert_not_same(av, av2)
-      assert_not_same(bv, bv2)
-    end
-
-    should 'return correct only_valid_clone' do
-      av, bv = Statsample.only_valid_clone @a, @b
-      av.reset_index!
-      bv.reset_index!
-      @common.call(av, bv)
-      av2, bv2 = Statsample.only_valid_clone av, bv
-      assert_equal(av, av2)
-      assert_same(av, av2)
-      assert_same(bv, bv2)
-    end
-
-    should 'returns correct vector_cols_matrix' do
-      v1 = Daru::Vector.new(%w(a a a b b b c c))
-      v2 = Daru::Vector.new(%w(1 3 4 5 6 4 3 2))
-      v3 = Daru::Vector.new(%w(1 0 0 0 1 1 1 0))
-      ex = Matrix.rows([%w(a 1 1), %w(a 3 0), %w(a 4 0), %w(b 5 0), %w(b 6 1), %w(b 4 1), %w(c 3 1), %w(c 2 0)])
-      assert_equal(ex, Statsample.vector_cols_matrix(v1, v2, v3))
-    end
-  end
-
-  context Statsample::Vector do
-    context 'when initializing' do
-      should '.new creates a Daru::Vector internally and shows a warning' do
-        assert_output(nil, "WARNING: Statsample::Dataset and Statsample::Vector have been deprecated in favor of Daru::DataFrame and Daru::Vector. Please switch to using that.\n") do
-          data = (10.times.map { rand(100) }) + [nil]
-          original = Statsample::Vector.new(@data, :numeric)
-          assert_equal(true, original.kind_of?(Daru::Vector))
-        end
-      end
-
-      should '[] returns same results as R-c()' do
-        assert_output(nil, "WARNING: Statsample::Dataset and Statsample::Vector have been deprecated in favor of Daru::DataFrame and Daru::Vector. Please switch to using that.\n") do
-          assert_equal(true, Statsample::Vector[1,2,3,4,5].kind_of?(Daru::Vector))
-        end
-      end
-
-      should "new_numeric/new_scale creates a Daru::Vector internally and shows a warning" do
-        assert_output(nil, "WARNING: Statsample::Dataset and Statsample::Vector have been deprecated in favor of Daru::DataFrame and Daru::Vector. Please switch to using that.\n") do
-          Statsample::Vector.new_scale(4)
-        end
-
-        assert_output(nil, "WARNING: Statsample::Dataset and Statsample::Vector have been deprecated in favor of Daru::DataFrame and Daru::Vector. Please switch to using that.\n") do
-          Statsample::Vector.new_numeric(4)
-        end
-      end
-    end
-  end
-
-  context "new types :numeric and :object" do
-    should "numerical data is automatically detected to be of type :numeric" do
-      v = Statsample::Vector.new [1,2,3,4,5,nil]
-      assert_equal(:numeric, v.type)
-    end
-
-    should "object data automatically detected as :object" do
-      v = Statsample::Vector.new [1,2,3,4,'hello','world']
-      assert_equal(:object, v.type)
-    end
-
-    should "initialize Vector with :numeric type" do
-      v = Statsample::Vector.new [1,2,3,4,5,nil], :numeric
-      assert_equal(:numeric, v.type)
-      assert_output(nil, "WARNING: valid_data in Statsample::Vector has been deprecated in favor of only_valid in Daru::Vector. Please use that.\n") do
-        assert_equal([1,2,3,4,5], v.valid_data)
-      end
-    end
-
-    should "show a warning when initializing with :nominal, :numeric or :ordinal" do
-      assert_output(nil,"WARNING: Statsample::Dataset and Statsample::Vector have been deprecated in favor of Daru::DataFrame and Daru::Vector. Please switch to using that.\nWARNING: nominal has been deprecated.\n") do
-        Statsample::Vector.new [1,2,3,4,5,nil,'hello'], :nominal
-      end
-
-      assert_output(nil,"WARNING: Statsample::Dataset and Statsample::Vector have been deprecated in favor of Daru::DataFrame and Daru::Vector. Please switch to using that.\nWARNING: scale has been deprecated.\n") do
-        Statsample::Vector.new [1,2,3,4,nil,5], :scale
-      end
-
-      assert_output(nil,"WARNING: Statsample::Dataset and Statsample::Vector have been deprecated in favor of Daru::DataFrame and Daru::Vector. Please switch to using that.\nWARNING: ordinal has been deprecated.\n") do
-        Statsample::Vector.new [1,2,3,4,5], :ordinal
-      end
-
-      assert_output(nil,"WARNING: Statsample::Dataset and Statsample::Vector have been deprecated in favor of Daru::DataFrame and Daru::Vector. Please switch to using that.\n") do
-        Statsample::Vector.new_scale 10, 1
-      end
-    end
-
-    should "show a warning when Statsample::Vector shorthands are used" do
-      numeric = Statsample::Vector.new([1,2,3,4,nil,5], :numeric)
-      assert_equal(numeric, [1,2,3,4,nil,5].to_numeric)
-      assert_equal(numeric, [1,2,3,4,nil,5].to_vector(:numeric))
-
-      obj = Statsample::Vector.new([1,2,3,4,'one','two'], :object)
-      assert_equal(obj, [1,2,3,4,'one','two'].to_vector(:object))
-    end
-
-    should "test that old shorthands show deprecation warnings" do
-      assert_output(nil,"WARNING: Statsample::Dataset and Statsample::Vector have been deprecated in favor of Daru::DataFrame and Daru::Vector. Please switch to using that.\n") do
-        [1,2,3,4,nil,5].to_scale
-      end
-    end
-  end
-
   should 'return correct histogram' do
     a = Daru::Vector.new(10.times.map { |v| v })
     hist = a.histogram(2)

metadata

@@ -1,7 +1,7 @@
 --- !ruby/object:Gem::Specification
 name: statsample
 version: !ruby/object:Gem::Version
-  version: 2.0.0
+  version: 2.0.1
 platform: ruby
 authors:
 - Claudio Bustos
@@ -9,7 +9,7 @@ authors:
 autorequire: 
 bindir: bin
 cert_chain: []
-date: 2015-06-22 00:00:00.000000000 Z
+date: 2015-08-19 00:00:00.000000000 Z
 dependencies:
 - !ruby/object:Gem::Dependency
   name: daru
@@ -278,19 +278,19 @@ dependencies:
       - !ruby/object:Gem::Version
         version: 0.1.0
 - !ruby/object:Gem::Dependency
-  name: gsl-nmatrix
+  name: rb-gsl
   requirement: !ruby/object:Gem::Requirement
     requirements:
     - - "~>"
       - !ruby/object:Gem::Version
-        version: 1.17.0
+        version: '1.16'
   type: :development
   prerelease: false
   version_requirements: !ruby/object:Gem::Requirement
     requirements:
     - - "~>"
       - !ruby/object:Gem::Version
-        version: 1.17.0
+        version: '1.16'
 description: |
   A suite for basic and advanced statistics on Ruby. Tested on CRuby 1.9.3, 2.0.0
   and 2.1.1. See `.travis.yml` for more information.
@@ -454,7 +454,6 @@ files:
 - test/test_bivariate.rb
 - test/test_codification.rb
 - test/test_crosstab.rb
-- test/test_dataset.rb
 - test/test_dominance_analysis.rb
 - test/test_factor.rb
 - test/test_factor_map.rb

data/test/test_dataset.rb

@@ -1,49 +0,0 @@
-require(File.expand_path(File.dirname(__FILE__) + '/helpers_tests.rb'))
-class StatsampleDatasetTestCase < Minitest::Test
-  def setup
-    assert_output(nil, "WARNING: Statsample::Dataset and Statsample::Vector have been deprecated in favor of Daru::DataFrame and Daru::Vector. Please switch to using that.\nWARNING: Statsample::Dataset and Statsample::Vector have been deprecated in favor of Daru::DataFrame and Daru::Vector. Please switch to using that.\nWARNING: Statsample::Dataset and Statsample::Vector have been deprecated in favor of Daru::DataFrame and Daru::Vector. Please switch to using that.\nWARNING: Statsample::Dataset and Statsample::Vector have been deprecated in favor of Daru::DataFrame and Daru::Vector. Please switch to using that.\nWARNING: Statsample::Dataset and Statsample::Vector have been deprecated in favor of Daru::DataFrame and Daru::Vector. Please switch to using that.\nWARNING: Statsample::Dataset and Statsample::Vector have been deprecated in favor of Daru::DataFrame and Daru::Vector. Please switch to using that.\n") do
-      @ds = Statsample::Dataset.new({ 
-        'id' => Statsample::Vector.new([1, 2, 3, 4, 5]), 
-        'name' => Statsample::Vector.new(%w(Alex Claude Peter Franz George)), 
-        'age' => Statsample::Vector.new([20, 23, 25, 27, 5]),
-        'city' => Statsample::Vector.new(['New York', 'London', 'London', 'Paris', 'Tome']),
-        'a1' => Statsample::Vector.new(['a,b', 'b,c', 'a', nil, 'a,b,c']) }, 
-        %w(id name age city a1))
-    end
-  end
-
-  def test_basic
-    assert_output(nil, "WARNING: Statsample::Dataset and Statsample::Vector have been deprecated in favor of Daru::DataFrame and Daru::Vector. Please switch to using Daru::DataFrame#nrows.\n") do
-      assert_equal(5, @ds.cases)
-    end
-
-    assert_output(nil, "WARNING: Statsample::Dataset and Statsample::Vector have been deprecated in favor of Daru::DataFrame and Daru::Vector. Please switch to using Daru::DataFrame#vectors.\n") do
-      assert_equal([:id, :name, :age, :city, :a1], @ds.fields)
-    end
-  end
-
-  def test_fields
-    assert_output(nil, "WARNING: Deprecated. Use Daru::DataFrame#reindex_vectors! instead.\nWARNING: Statsample::Dataset and Statsample::Vector have been deprecated in favor of Daru::DataFrame and Daru::Vector. Please switch to using Daru::DataFrame#vectors.\n") do
-      @ds.fields = %w(name a1 id age city)
-      assert_equal([:name, :a1, :id, :age, :city], @ds.fields)
-    end
-
-    assert_raise ArgumentError, "Assigning less fields than vectors is no longer supported" do
-      @ds.fields = %w(id name age)
-    end
-  end
-
-  def test_crosstab_with_asignation
-    v1 = Daru::Vector.new(%w(a a a b b b c c c))
-    v2 = Daru::Vector.new(%w(a b c a b c a b c))
-    v3 = Daru::Vector.new(%w(0 1 0 0 1 1 0 0 1))
-
-    assert_output(nil, "WARNING: Statsample::Dataset and Statsample::Vector have been deprecated in favor of Daru::DataFrame and Daru::Vector. Please switch to using that.\n") do
-      @ds = Statsample::Dataset.crosstab_by_assignation(v1, v2, v3)
-    end
-
-    assert_output(nil, "WARNING: Daru uses symbols instead of strings for naming vectors. Please switch to symbols.\n") do
-      assert_equal(:object, @ds['_id'].type)
-    end
-  end
-end