rmds 0.2

data/test/benchmark/benchmark_metric.rb

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+#
+# RMDS - Ruby Multidimensional Scaling Library
+# Copyright (c) Christoph Heindl, 2010
+# http://github.com/cheind/rmds
+#
+
+require 'benchmark'
+
+$:.unshift(File.join(File.dirname(__FILE__), '..', '..', 'lib'))
+require 'mds'
+require 'mds/interfaces/gsl_interface'
+require 'mds/interfaces/stdlib_interface'
+require 'mds/interfaces/linalg_interface'
+
+def run_benchmark(b, obs, dims)
+  x = nil; d = nil; proj = nil
+  puts
+  b.report("  create") {x = MDS::Matrix.create_random(obs, dims)}
+  b.report("  sq-dist") {d = MDS::Metric.squared_distances(x)}
+  b.report("  mds") {proj = MDS::Metric.projectd(d, dims)}
+  printf " >total   "
+end
+
+
+n = 10
+d = 2
+puts "-----------------"
+puts "Benchmarking RMDS for #{n} observations in #{d}-dimensional space"
+Benchmark.bm(10) do |x|
+  x.report("stdlib:") {MDS::Backend.active = MDS::StdlibInterface; run_benchmark(x,n,d)}
+  x.report("gsl:")    {MDS::Backend.active = MDS::GSLInterface; run_benchmark(x,n,d)}
+  x.report("linalg:") {MDS::Backend.active = MDS::LinalgInterface; run_benchmark(x,n,d)}
+end
+
+n = 100
+d = 5
+puts "-----------------"
+puts "Benchmarking RMDS for #{n} observations in #{d}-dimensional space"
+Benchmark.bm(10) do |x|
+  #x.report("stdlib:") {MDS::Backend.active = MDS::StdlibInterface; run_benchmark(x,n,d)}
+  x.report("gsl:")    {MDS::Backend.active = MDS::GSLInterface; run_benchmark(x,n,d)}
+  x.report("linalg:") {MDS::Backend.active = MDS::LinalgInterface; run_benchmark(x,n,d)}
+end
+
+n = 1000
+d = 10
+puts "-----------------"
+puts "Benchmarking RMDS for #{n} observations in #{d}-dimensional space"
+Benchmark.bm(10) do |x|
+  #x.report("stdlib:") {MDS::Backend.active = MDS::StdlibInterface; run_benchmark(x,n,d)}
+  x.report("gsl:")    {MDS::Backend.active = MDS::GSLInterface; run_benchmark(x,n,d)}
+  x.report("linalg:") {MDS::Backend.active = MDS::LinalgInterface; run_benchmark(x,n,d)}
+end

data/test/test_helper.rb

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+#
+# RMDS - Ruby Multidimensional Scaling Library
+# Copyright (c) Christoph Heindl, 2010
+# http://github.com/cheind/rmds
+#
+
+$:.unshift(File.join(File.dirname(__FILE__), '..', 'lib'))
+
+require 'test/unit'
+require 'mds'
+

data/test/unit/dummy_interfaces.rb

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+#
+# RMDS - Ruby Multidimensional Scaling Library
+# Copyright (c) Christoph Heindl, 2010
+# http://github.com/cheind/rmds
+#
+
+require 'mds/matrix_interface'
+
+module X
+  class DummyInterface0 < MDS::MatrixInterface
+  end
+  
+  module Y
+    class DummyInterface1 < MDS::MatrixInterface
+    end
+  end
+  
+  class DummyInterface2 < Y::DummyInterface1
+  end
+end

data/test/unit/test_backend.rb

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+#
+# RMDS - Ruby Multidimensional Scaling Library
+# Copyright (c) Christoph Heindl, 2010
+# http://github.com/cheind/rmds
+#
+
+require './test/test_helper.rb'
+
+class TestBackend < Test::Unit::TestCase
+
+  class << self
+    def startup
+      @before = MDS::Backend.available.clone
+      MDS::Backend.available.clear
+      MDS::Backend.try_require('./test/unit/dummy_interfaces.*')
+    end
+    
+    def shutdown
+      MDS::Backend.available.clear
+      MDS::Backend.available.concat(@before)
+    end
+    
+    def suite
+      mysuite = super
+      def mysuite.run(*args)
+        TestBackend.startup()
+        super
+        TestBackend.shutdown()
+      end
+      mysuite
+    end
+  end
+
+  def test_available_interfaces
+    assert_equal([X::DummyInterface0, X::Y::DummyInterface1, X::DummyInterface2], MDS::Backend.available)
+  end  
+  
+  def test_first
+    assert_equal(X::Y::DummyInterface1, MDS::Backend.first(['X::NotHere', 'X::Y::DummyInterface1', 'X::DummyInterface2']))
+    assert_equal(X::DummyInterface0, MDS::Backend.first(['X::NotHere']))
+    assert_equal(X::DummyInterface0, MDS::Backend.first )
+  end
+
+end

data/test/unit/test_gsl_interface.rb

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+#
+# RMDS - Ruby Multidimensional Scaling Library
+# Copyright (c) Christoph Heindl, 2010
+# http://github.com/cheind/rmds
+#
+
+require './test/test_helper.rb'
+require 'mds/interfaces/gsl_interface'
+require 'mds/test/bundles/bundle_matrix_interface.rb'
+
+class TestGSLInterface < Test::Unit::TestCase
+  include MDS::Test::BundleMatrixInterface
+  
+  def setup
+    MDS::Backend.push_active(MDS::GSLInterface)
+  end
+  
+  def teardown
+    MDS::Backend.pop_active
+  end
+  
+end

data/test/unit/test_gsl_metric.rb

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+#
+# RMDS - Ruby Multidimensional Scaling Library
+# Copyright (c) Christoph Heindl, 2010
+# http://github.com/cheind/rmds
+#
+
+require './test/test_helper.rb'
+require 'mds/test/bundles/bundle_metric.rb'
+require 'mds/interfaces/gsl_interface'
+
+class TestGSLMetric < Test::Unit::TestCase
+  include MDS::Test::BundleMetric
+  
+  def setup
+    MDS::Backend.push_active(MDS::GSLInterface)
+  end
+  
+  def teardown
+    MDS::Backend.pop_active
+  end
+
+end

data/test/unit/test_linalg_interface.rb

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+#
+# RMDS - Ruby Multidimensional Scaling Library
+# Copyright (c) Christoph Heindl, 2010
+# http://github.com/cheind/rmds
+#
+
+require './test/test_helper.rb'
+require 'mds/test/bundles/bundle_matrix_interface.rb'
+require 'mds/interfaces/linalg_interface'
+
+class TestLinalgInteface < Test::Unit::TestCase
+  include MDS::Test::BundleMatrixInterface
+  
+  def setup
+    MDS::Backend.push_active(MDS::LinalgInterface)
+  end
+  
+  def teardown
+    MDS::Backend.pop_active
+  end
+  
+end

data/test/unit/test_linalg_metric.rb

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+#
+# RMDS - Ruby Multidimensional Scaling Library
+# Copyright (c) Christoph Heindl, 2010
+# http://github.com/cheind/rmds
+#
+
+require './test/test_helper.rb'
+require 'mds/test/bundles/bundle_metric.rb'
+require 'mds/interfaces/linalg_interface'
+
+class TestLinalgMetric < Test::Unit::TestCase
+  include MDS::Test::BundleMetric
+  
+  def setup
+    MDS::Backend.push_active(MDS::LinalgInterface)
+  end
+  
+  def teardown
+    MDS::Backend.pop_active
+  end
+end

data/test/unit/test_stdlib_interface.rb

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+#
+# RMDS - Ruby Multidimensional Scaling Library
+# Copyright (c) Christoph Heindl, 2010
+# http://github.com/cheind/rmds
+#
+
+require './test/test_helper.rb'
+require 'mds/test/bundles/bundle_matrix_interface.rb'
+require 'mds/interfaces/stdlib_interface'
+
+class TestStdlibInterface < Test::Unit::TestCase
+  include MDS::Test::BundleMatrixInterface
+  
+  def setup
+    MDS::Backend.push_active(MDS::StdlibInterface)
+  end
+  
+  def teardown
+    MDS::Backend.pop_active
+  end
+  
+end

data/test/unit/test_stdlib_metric.rb

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+#
+# RMDS - Ruby Multidimensional Scaling Library
+# Copyright (c) Christoph Heindl, 2010
+# http://github.com/cheind/rmds
+#
+
+require './test/test_helper.rb'
+require 'mds/test/bundles/bundle_metric.rb'
+require 'mds/interfaces/stdlib_interface'
+
+class TestStdlibMetric < Test::Unit::TestCase
+  include MDS::Test::BundleMetric
+  
+  def setup
+    MDS::Backend.push_active(MDS::StdlibInterface)
+  end
+  
+  def teardown
+    MDS::Backend.pop_active
+  end
+end

metadata

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+--- !ruby/object:Gem::Specification 
+name: rmds
+version: !ruby/object:Gem::Version 
+  version: "0.2"
+platform: ruby
+authors: 
+- Christoph Heindl
+autorequire: 
+bindir: bin
+cert_chain: []
+
+date: 2010-09-22 00:00:00 -07:00
+default_executable: 
+dependencies: []
+
+description: Multidimensional scaling (MDS) is a set of related statistical techniques often used in information visualization for exploring similarities or dissimilarities in data.
+email: christoph.heindl@gmail.com
+executables: []
+
+extensions: []
+
+extra_rdoc_files: 
+- README.md
+- LICENSE.md
+files: 
+- LICENSE.md
+- README.md
+- Rakefile
+- lib/mds/backend.rb
+- lib/mds/interfaces/gsl_interface.rb
+- lib/mds/interfaces/stdlib_interface.rb
+- lib/mds/interfaces/linalg_interface.rb
+- lib/mds/metric.rb
+- lib/mds/io.rb
+- lib/mds/matrix.rb
+- lib/mds/matrix_interface.rb
+- lib/mds/test/matrix_assertions.rb
+- lib/mds/test/bundles/bundle_metric.rb
+- lib/mds/test/bundles/bundle_matrix_interface.rb
+- lib/mds.rb
+- test/unit/test_gsl_interface.rb
+- test/unit/dummy_interfaces.rb
+- test/unit/test_gsl_metric.rb
+- test/unit/test_linalg_interface.rb
+- test/unit/test_backend.rb
+- test/unit/test_stdlib_metric.rb
+- test/unit/test_stdlib_interface.rb
+- test/unit/test_linalg_metric.rb
+- test/benchmark/benchmark_metric.rb
+- test/test_helper.rb
+- examples/adaptive_backend.rb
+- examples/visualization.rb
+- examples/extended_metric.rb
+- examples/visualization_cities.rb
+- examples/minimal_metric.rb
+has_rdoc: true
+homepage: http://github.com/cheind/rmds
+licenses: []
+
+post_install_message: 
+rdoc_options: 
+- --title
+- RMDS v0.2 -- Ruby Multidimensional Scaling Library
+- --main
+- README.md
+- -x
+- test/*
+- -x
+- examples/*
+require_paths: 
+- ./lib
+required_ruby_version: !ruby/object:Gem::Requirement 
+  requirements: 
+  - - ">="
+    - !ruby/object:Gem::Version 
+      version: "0"
+  version: 
+required_rubygems_version: !ruby/object:Gem::Requirement 
+  requirements: 
+  - - ">="
+    - !ruby/object:Gem::Version 
+      version: "0"
+  version: 
+requirements: []
+
+rubyforge_project: 
+rubygems_version: 1.3.5
+signing_key: 
+specification_version: 3
+summary: Ruby Multidimensional Scaling Library
+test_files: 
+- test/unit/test_gsl_interface.rb
+- test/unit/dummy_interfaces.rb
+- test/unit/test_gsl_metric.rb
+- test/unit/test_linalg_interface.rb
+- test/unit/test_backend.rb
+- test/unit/test_stdlib_metric.rb
+- test/unit/test_stdlib_interface.rb
+- test/unit/test_linalg_metric.rb
+- test/benchmark/benchmark_metric.rb
+- test/test_helper.rb