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http://git-wip-us.apache.org/repos/asf/mahout/blob/ec5eb314/website-old/docs/404.html ---------------------------------------------------------------------- diff --git a/website-old/docs/404.html b/website-old/docs/404.html new file mode 100755 index 0000000..6904bcd --- /dev/null +++ b/website-old/docs/404.html @@ -0,0 +1 @@ +Sorry this page does not exist =( http://git-wip-us.apache.org/repos/asf/mahout/blob/ec5eb314/website-old/docs/Gemfile ---------------------------------------------------------------------- diff --git a/website-old/docs/Gemfile b/website-old/docs/Gemfile new file mode 100755 index 0000000..301d29c --- /dev/null +++ b/website-old/docs/Gemfile @@ -0,0 +1,5 @@ +source "https://rubygems.org"; + +gem "jekyll", "~> 3.1" +gem "jekyll-sitemap" +gem "pygments.rb" http://git-wip-us.apache.org/repos/asf/mahout/blob/ec5eb314/website-old/docs/README.md ---------------------------------------------------------------------- diff --git a/website-old/docs/README.md b/website-old/docs/README.md new file mode 100755 index 0000000..68646fd --- /dev/null +++ b/website-old/docs/README.md @@ -0,0 +1,16 @@ + +### Landing Page + + + +### Tutorials + +Tutorials, Algorithms, MR-Tutorials, and MR-Algorithsm each have an accordion side bar for navigation +(this is the part we need help building) + + +### Old MR Algos + + + + http://git-wip-us.apache.org/repos/asf/mahout/blob/ec5eb314/website-old/docs/Rakefile ---------------------------------------------------------------------- diff --git a/website-old/docs/Rakefile b/website-old/docs/Rakefile new file mode 100755 index 0000000..183ca1e --- /dev/null +++ b/website-old/docs/Rakefile @@ -0,0 +1,306 @@ +require "rubygems" +require 'rake' +require 'yaml' +require 'time' + +SOURCE = "." +CONFIG = { + 'version' => "0.3.0", + 'themes' => File.join(SOURCE, "_includes", "themes"), + 'layouts' => File.join(SOURCE, "_layouts"), + 'posts' => File.join(SOURCE, "_posts"), + 'post_ext' => "md", + 'theme_package_version' => "0.1.0" +} + +# Path configuration helper +module JB + class Path + SOURCE = "." + Paths = { + :layouts => "_layouts", + :themes => "_includes/themes", + :theme_assets => "assets/themes", + :theme_packages => "_theme_packages", + :posts => "_posts" + } + + def self.base + SOURCE + end + + # build a path relative to configured path settings. + def self.build(path, opts = {}) + opts[:root] ||= SOURCE + path = "#{opts[:root]}/#{Paths[path.to_sym]}/#{opts[:node]}".split("/") + path.compact! + File.__send__ :join, path + end + + end #Path +end #JB + +# Usage: rake post title="A Title" [date="2012-02-09"] [tags=[tag1,tag2]] [category="category"] +desc "Begin a new post in #{CONFIG['posts']}" +task :post do + abort("rake aborted: '#{CONFIG['posts']}' directory not found.") unless FileTest.directory?(CONFIG['posts']) + title = ENV["title"] || "new-post" + tags = ENV["tags"] || "[]" + category = ENV["category"] || "" + category = "\"#{category.gsub(/-/,' ')}\"" if !category.empty? + slug = title.downcase.strip.gsub(' ', '-').gsub(/[^\w-]/, '') + begin + date = (ENV['date'] ? Time.parse(ENV['date']) : Time.now).strftime('%Y-%m-%d') + rescue => e + puts "Error - date format must be YYYY-MM-DD, please check you typed it correctly!" + exit -1 + end + filename = File.join(CONFIG['posts'], "#{date}-#{slug}.#{CONFIG['post_ext']}") + if File.exist?(filename) + abort("rake aborted!") if ask("#{filename} already exists. Do you want to overwrite?", ['y', 'n']) == 'n' + end + + puts "Creating new post: #{filename}" + open(filename, 'w') do |post| + post.puts "---" + post.puts "layout: post" + post.puts "title: \"#{title.gsub(/-/,' ')}\"" + post.puts 'description: ""' + post.puts "category: #{category}" + post.puts "tags: #{tags}" + post.puts "---" + post.puts "{% include JB/setup %}" + end +end # task :post + +# Usage: rake page name="about.html" +# You can also specify a sub-directory path. +# If you don't specify a file extention we create an index.html at the path specified +desc "Create a new page." +task :page do + name = ENV["name"] || "new-page.md" + filename = File.join(SOURCE, "#{name}") + filename = File.join(filename, "index.html") if File.extname(filename) == "" + title = File.basename(filename, File.extname(filename)).gsub(/[\W\_]/, " ").gsub(/\b\w/){$&.upcase} + if File.exist?(filename) + abort("rake aborted!") if ask("#{filename} already exists. Do you want to overwrite?", ['y', 'n']) == 'n' + end + + mkdir_p File.dirname(filename) + puts "Creating new page: #{filename}" + open(filename, 'w') do |post| + post.puts "---" + post.puts "layout: page" + post.puts "title: \"#{title}\"" + post.puts 'description: ""' + post.puts "---" + post.puts "{% include JB/setup %}" + end +end # task :page + +desc "Launch preview environment" +task :preview do + system "jekyll serve -w" +end # task :preview + +# Public: Alias - Maintains backwards compatability for theme switching. +task :switch_theme => "theme:switch" + +namespace :theme do + + # Public: Switch from one theme to another for your blog. + # + # name - String, Required. name of the theme you want to switch to. + # The theme must be installed into your JB framework. + # + # Examples + # + # rake theme:switch name="the-program" + # + # Returns Success/failure messages. + desc "Switch between Jekyll-bootstrap themes." + task :switch do + theme_name = ENV["name"].to_s + theme_path = File.join(CONFIG['themes'], theme_name) + settings_file = File.join(theme_path, "settings.yml") + non_layout_files = ["settings.yml"] + + abort("rake aborted: name cannot be blank") if theme_name.empty? + abort("rake aborted: '#{theme_path}' directory not found.") unless FileTest.directory?(theme_path) + abort("rake aborted: '#{CONFIG['layouts']}' directory not found.") unless FileTest.directory?(CONFIG['layouts']) + + Dir.glob("#{theme_path}/*") do |filename| + next if non_layout_files.include?(File.basename(filename).downcase) + puts "Generating '#{theme_name}' layout: #{File.basename(filename)}" + + open(File.join(CONFIG['layouts'], File.basename(filename)), 'w') do |page| + page.puts "---" + page.puts File.read(settings_file) if File.exist?(settings_file) + page.puts "layout: default" unless File.basename(filename, ".html").downcase == "default" + page.puts "---" + page.puts "{% include JB/setup %}" + page.puts "{% include themes/#{theme_name}/#{File.basename(filename)} %}" + end + end + + puts "=> Theme successfully switched!" + puts "=> Reload your web-page to check it out =)" + end # task :switch + + # Public: Install a theme using the theme packager. + # Version 0.1.0 simple 1:1 file matching. + # + # git - String, Optional path to the git repository of the theme to be installed. + # name - String, Optional name of the theme you want to install. + # Passing name requires that the theme package already exist. + # + # Examples + # + # rake theme:install git="https://github.com/jekyllbootstrap/theme-twitter.git"; + # rake theme:install name="cool-theme" + # + # Returns Success/failure messages. + desc "Install theme" + task :install do + if ENV["git"] + manifest = theme_from_git_url(ENV["git"]) + name = manifest["name"] + else + name = ENV["name"].to_s.downcase + end + + packaged_theme_path = JB::Path.build(:theme_packages, :node => name) + + abort("rake aborted! + => ERROR: 'name' cannot be blank") if name.empty? + abort("rake aborted! + => ERROR: '#{packaged_theme_path}' directory not found. + => Installable themes can be added via git. You can find some here: http://github.com/jekyllbootstrap + => To download+install run: `rake theme:install git='[PUBLIC-CLONE-URL]'` + => example : rake theme:install git='[email protected]:jekyllbootstrap/theme-the-program.git' + ") unless FileTest.directory?(packaged_theme_path) + + manifest = verify_manifest(packaged_theme_path) + + # Get relative paths to packaged theme files + # Exclude directories as they'll be recursively created. Exclude meta-data files. + packaged_theme_files = [] + FileUtils.cd(packaged_theme_path) { + Dir.glob("**/*.*") { |f| + next if ( FileTest.directory?(f) || f =~ /^(manifest|readme|packager)/i ) + packaged_theme_files << f + } + } + + # Mirror each file into the framework making sure to prompt if already exists. + packaged_theme_files.each do |filename| + file_install_path = File.join(JB::Path.base, filename) + if File.exist? file_install_path and ask("#{file_install_path} already exists. Do you want to overwrite?", ['y', 'n']) == 'n' + next + else + mkdir_p File.dirname(file_install_path) + cp_r File.join(packaged_theme_path, filename), file_install_path + end + end + + puts "=> #{name} theme has been installed!" + puts "=> ---" + if ask("=> Want to switch themes now?", ['y', 'n']) == 'y' + system("rake switch_theme name='#{name}'") + end + end + + # Public: Package a theme using the theme packager. + # The theme must be structured using valid JB API. + # In other words packaging is essentially the reverse of installing. + # + # name - String, Required name of the theme you want to package. + # + # Examples + # + # rake theme:package name="twitter" + # + # Returns Success/failure messages. + desc "Package theme" + task :package do + name = ENV["name"].to_s.downcase + theme_path = JB::Path.build(:themes, :node => name) + asset_path = JB::Path.build(:theme_assets, :node => name) + + abort("rake aborted: name cannot be blank") if name.empty? + abort("rake aborted: '#{theme_path}' directory not found.") unless FileTest.directory?(theme_path) + abort("rake aborted: '#{asset_path}' directory not found.") unless FileTest.directory?(asset_path) + + ## Mirror theme's template directory (_includes) + packaged_theme_path = JB::Path.build(:themes, :root => JB::Path.build(:theme_packages, :node => name)) + mkdir_p packaged_theme_path + cp_r theme_path, packaged_theme_path + + ## Mirror theme's asset directory + packaged_theme_assets_path = JB::Path.build(:theme_assets, :root => JB::Path.build(:theme_packages, :node => name)) + mkdir_p packaged_theme_assets_path + cp_r asset_path, packaged_theme_assets_path + + ## Log packager version + packager = {"packager" => {"version" => CONFIG["theme_package_version"].to_s } } + open(JB::Path.build(:theme_packages, :node => "#{name}/packager.yml"), "w") do |page| + page.puts packager.to_yaml + end + + puts "=> '#{name}' theme is packaged and available at: #{JB::Path.build(:theme_packages, :node => name)}" + end + +end # end namespace :theme + +# Internal: Download and process a theme from a git url. +# Notice we don't know the name of the theme until we look it up in the manifest. +# So we'll have to change the folder name once we get the name. +# +# url - String, Required url to git repository. +# +# Returns theme manifest hash +def theme_from_git_url(url) + tmp_path = JB::Path.build(:theme_packages, :node => "_tmp") + abort("rake aborted: system call to git clone failed") if !system("git clone #{url} #{tmp_path}") + manifest = verify_manifest(tmp_path) + new_path = JB::Path.build(:theme_packages, :node => manifest["name"]) + if File.exist?(new_path) && ask("=> #{new_path} theme package already exists. Override?", ['y', 'n']) == 'n' + remove_dir(tmp_path) + abort("rake aborted: '#{manifest["name"]}' already exists as theme package.") + end + + remove_dir(new_path) if File.exist?(new_path) + mv(tmp_path, new_path) + manifest +end + +# Internal: Process theme package manifest file. +# +# theme_path - String, Required. File path to theme package. +# +# Returns theme manifest hash +def verify_manifest(theme_path) + manifest_path = File.join(theme_path, "manifest.yml") + manifest_file = File.open( manifest_path ) + abort("rake aborted: repo must contain valid manifest.yml") unless File.exist? manifest_file + manifest = YAML.load( manifest_file ) + manifest_file.close + manifest +end + +def ask(message, valid_options) + if valid_options + answer = get_stdin("#{message} #{valid_options.to_s.gsub(/"/, '').gsub(/, /,'/')} ") while !valid_options.include?(answer) + else + answer = get_stdin(message) + end + answer +end + +def get_stdin(message) + print message + STDIN.gets.chomp +end + +#Load custom rake scripts +Dir['_rake/*.rake'].each { |r| load r } http://git-wip-us.apache.org/repos/asf/mahout/blob/ec5eb314/website-old/docs/_config.yml ---------------------------------------------------------------------- diff --git a/website-old/docs/_config.yml b/website-old/docs/_config.yml new file mode 100755 index 0000000..33da780 --- /dev/null +++ b/website-old/docs/_config.yml @@ -0,0 +1,140 @@ +# This is the default format. +# For more see: http://jekyllrb.com/docs/permalinks/ +permalink: /:categories/:year/:month/:day/:title + +exclude: [".rvmrc", ".rbenv-version", "README.md", "Rakefile", "changelog.md", "screenshots"] +highlighter: pygments + +# Themes are encouraged to use these universal variables +# so be sure to set them if your theme uses them. +# +title : Apache Mahout Project +tagline: Distributed Linear Algebra +author : + name : Apache Mahout + email : [email protected] + github : apache + twitter : ApacheMahout + + +# The production_url is only used when full-domain names are needed +# such as sitemap.txt +# Most places will/should use BASE_PATH to make the urls +# +# If you have set a CNAME (pages.github.com) set your custom domain here. +# Else if you are pushing to username.github.io, replace with your username. +# Finally if you are pushing to a GitHub project page, include the project name at the end. +# +production_url : http://mahout.apache.org + +gems: ["jekyll-sitemap"] + +# All Jekyll-Bootstrap specific configurations are namespaced into this hash +# +JB : + version : 0.3.0 + + # All links will be namespaced by BASE_PATH if defined. + # Links in your website should always be prefixed with {{BASE_PATH}} + # however this value will be dynamically changed depending on your deployment situation. + # + # CNAME (http://yourcustomdomain.com) + # DO NOT SET BASE_PATH + # (urls will be prefixed with "/" and work relatively) + # + # GitHub Pages (http://username.github.io) + # DO NOT SET BASE_PATH + # (urls will be prefixed with "/" and work relatively) + # + # GitHub Project Pages (http://username.github.io/project-name) + # + # A GitHub Project site exists in the `gh-pages` branch of one of your repositories. + # REQUIRED! Set BASE_PATH to: http://username.github.io/project-name + # + # CAUTION: + # - When in Localhost, your site will run from root "/" regardless of BASE_PATH + # - Only the following values are falsy: ["", null, false] + # - When setting BASE_PATH it must be a valid url. + # This means always setting the protocol (http|https) or prefixing with "/" + BASE_PATH : /docs/0.13.1-SNAPSHOT + + # By default, the asset_path is automatically defined relative to BASE_PATH plus the enabled theme. + # ex: [BASE_PATH]/assets/themes/[THEME-NAME] + # + # Override this by defining an absolute path to assets here. + # ex: + # http://s3.amazonaws.com/yoursite/themes/watermelon + # /assets + # + ASSET_PATH : false + + # These paths are to the main pages Jekyll-Bootstrap ships with. + # Some JB helpers refer to these paths; change them here if needed. + # + archive_path: /archive.html + categories_path : /categories.html + tags_path : /tags.html + atom_path : /atom.xml + rss_path : /rss.xml + + # Settings for comments helper + # Set 'provider' to the comment provider you want to use. + # Set 'provider' to false to turn commenting off globally. + # +# comments : +# provider : disqus +# disqus : +# short_name : jekyllbootstrap +# livefyre : +# site_id : 123 +# intensedebate : +# account : 123abc +# facebook : +# appid : 123 +# num_posts: 5 +# width: 580 +# colorscheme: light +# duoshuo : +# short_name : jekyllbootstrap + + # Settings for analytics helper + # Set 'provider' to the analytics provider you want to use. + # Set 'provider' to false to turn analytics off globally. + # +# analytics : +# provider : google +# gauges : +# site_id : 'SITE ID' +# google : +# tracking_id : 'UA-123-12' +# getclicky : +# site_id : +# mixpanel : +# token : '_MIXPANEL_TOKEN_' +# piwik : +# baseURL : 'myserver.tld/piwik' # Piwik installation address (without protocol) +# idsite : '1' # the id of the site on Piwik + + # Settings for sharing helper. + # Sharing is for things like tweet, plusone, like, reddit buttons etc. + # Set 'provider' to the sharing provider you want to use. + # Set 'provider' to false to turn sharing off globally. + # + sharing : + provider : false + + # Settings for all other include helpers can be defined by creating + # a hash with key named for the given helper. ex: + # + # pages_list : + # provider : "custom" + # + # Setting any helper's provider to 'custom' will bypass the helper code + # and include your custom code. Your custom file must be defined at: + # ./_includes/custom/[HELPER] + # where [HELPER] is the name of the helper you are overriding. + + analytics : + provider : google + google : + tracking_id : 'UA-98314020-1' \ No newline at end of file http://git-wip-us.apache.org/repos/asf/mahout/blob/ec5eb314/website-old/docs/_includes/JB ---------------------------------------------------------------------- diff --git a/website-old/docs/_includes/JB b/website-old/docs/_includes/JB new file mode 120000 index 0000000..78a010c --- /dev/null +++ b/website-old/docs/_includes/JB @@ -0,0 +1 @@ +../../_includes/JB \ No newline at end of file http://git-wip-us.apache.org/repos/asf/mahout/blob/ec5eb314/website-old/docs/_includes/algo_navbar.html ---------------------------------------------------------------------- diff --git a/website-old/docs/_includes/algo_navbar.html b/website-old/docs/_includes/algo_navbar.html new file mode 100644 index 0000000..38f833a --- /dev/null +++ b/website-old/docs/_includes/algo_navbar.html @@ -0,0 +1,91 @@ +<div id="AlgoMenu"> + <span><b>Mahout-Samsara Algorithms</b></span> + <div class="list-group panel"> + <a href="#linalg" class="list-group-item list-group-item-success" data-toggle="collapse" data-parent="#AlgoMenu"><b>Linear Algebra</b><i class="fa fa-caret-down"></i></a> + <div class="collapse" id="linalg"> + <ul class="nav sidebar-nav"> + <li> <a href="{{ BASE_PATH }}/algorithms/linear-algebra/d-qr.html">Distributed QR Decomposition</a></li> + <li> <a href="{{ BASE_PATH }}/algorithms/linear-algebra/d-spca.html">Distributed Stochastic Principal Component Analysis</a></li> + <li> <a href="{{ BASE_PATH }}/algorithms/linear-algebra/d-ssvd.html">Distributed Stochastic Singular Value Decomposition</a></li> + </ul> + </div> + <a href="#clustering" class="list-group-item list-group-item-success" data-toggle="collapse" data-parent="#AlgoMenu"><b>Clustering</b><i class="fa fa-caret-down"></i></a> + <div class="collapse" id="clustering"> + <ul class="nav sidebar-nav"> + <li> <a href="{{ BASE_PATH }}/algorithms/clustering">Clustering Algorithms</a></li> + <li> <a href="{{ BASE_PATH }}/algorithms/clustering/distance-metrics.html">Distance Metrics</a></li> + <li> <a href="{{ BASE_PATH }}/algorithms/clustering/canopy">Canopy Clustering</a></li> + </ul> + </div> + <a href="#preprocessors" class="list-group-item list-group-item-success" data-toggle="collapse" data-parent="#AlgoMenu"><b>Preprocessors</b><i class="fa fa-caret-down"></i></a> + <div class="collapse" id="preprocessors"> + <ul class="nav sidebar-nav"> + <li> <a href="{{ BASE_PATH }}/algorithms/preprocessors/AsFactor.html">AsFactor (a.k.a. One-Hot-Encoding)</a></li> + <li> <a href="{{ BASE_PATH }}/algorithms/preprocessors/StandardScaler.html">StandardScaler</a></li> + <li> <a href="{{ BASE_PATH }}/algorithms/preprocessors/MeanCenter.html">MeanCenter</a></li> + </ul> + </div> + <a href="#regression" class="list-group-item list-group-item-success" data-toggle="collapse" data-parent="#AlgoMenu"><b>Regression</b><i class="fa fa-caret-down"></i></a> + <div class="collapse" id="regression"> + <ul class="nav sidebar-nav"> + <a href="#serial-correlation" class="list-group-item list-group-item-success" data-toggle="collapse" data-parent="#regression"><b>• Serial Correlation</b><i class="fa fa-caret-down"></i></a> + <div class="collapse" id="serial-correlation"> + <ul class="nav sidebar-nav"> + <li> <a href="{{ BASE_PATH }}/algorithms/regression/serial-correlation/cochrane-orcutt.html">Cochrane-Orcutt Procedure</a></li> + <li> <a href="{{ BASE_PATH }}/algorithms/regression/serial-correlation/dw-test.html">Durbin Watson Test</a></li> + </ul> + </div> + <li> <a href="{{ BASE_PATH }}/algorithms/regression/ols.html">Ordinary Least Squares (Closed Form)</a></li> + <li> <a href="{{ BASE_PATH }}/algorithms/regression/fittness-tests.html">Fitness Tests</a></li> + </ul> + </div> + <a href="#reccomenders" class="list-group-item list-group-item-success" data-toggle="collapse" data-parent="#AlgoMenu"><b>Reccomenders</b><i class="fa fa-caret-down"></i></a> + <div class="collapse" id="reccomenders"> + <ul class="nav sidebar-nav"> + <li> <a href="{{ BASE_PATH }}/algorithms/reccomenders">Reccomender Overview</a></li> + <li> <a href="{{ BASE_PATH }}/algorithms/reccomenders/cco.html">CCO</a></li> + <li> <a href="{{ BASE_PATH }}/algorithms/reccomenders/d-als.html">Distributed Alternating Least Squares</a></li> + </ul> + </div> + </div> + <span><b>Map Reduce Algorithms</b> (deprecated)</span> + <div class="list-group panel"> + <a href="#classification" class="list-group-item list-group-item-success" data-toggle="collapse" data-parent="#AlgoMenu"><b>Classification</b><i class="fa fa-caret-down"></i></a> + <div class="collapse" id="classification"> + <ul class="nav sidebar-nav"> + <li> <a href="{{ BASE_PATH }}/algorithms/map-reduce/classification/bayesian.html">Bayesian</a></li> + <li> <a href="{{ BASE_PATH }}/algorithms/map-reduce/classification/class-discovery.html">Class Discovery</a></li> + <li> <a href="{{ BASE_PATH }}/algorithms/map-reduce/classification/classifyingyourdata.html">Classifying Your Data</a></li> + <li> <a href="{{ BASE_PATH }}/algorithms/map-reduce/classification/collocations.html">Collocation</a></li> + <li> <a href="{{ BASE_PATH }}/algorithms/map-reduce/classification/gaussian-discriminative-analysis.html">Gaussian Discriminative Analysis</a></li> + <li> <a href="{{ BASE_PATH }}/algorithms/map-reduce/classification/hidden-markov-models.html">Hidden Markov Models</a></li> + <li> <a href="{{ BASE_PATH }}/algorithms/map-reduce/classification/independent-component-analysis.html">Independent Component Analysis</a></li> + <li> <a href="{{ BASE_PATH }}/algorithms/map-reduce/classification/locally-weighted-linear-regression.html">Locally Weighted Linear Regression</a></li> + <li> <a href="{{ BASE_PATH }}/algorithms/map-reduce/classification/logistic-regression.html">Logistic Regression</a></li> + <li> <a href="{{ BASE_PATH }}/algorithms/map-reduce/classification/mahout-collections.html">Mahout Collections</a></li> + <li> <a href="{{ BASE_PATH }}/algorithms/map-reduce/classification/mlp.html">Multilayer Perceptron</a></li> + <li> <a href="{{ BASE_PATH }}/algorithms/map-reduce/classification/naivebayes.html">Naive Bayes</a></li> + <li> <a href="{{ BASE_PATH }}/algorithms/map-reduce/classification/neural-network.html">Neural Networks</a></li> + <li> <a href="{{ BASE_PATH }}/algorithms/map-reduce/classification/partial-implementation.html">Partial Implementation</a></li> + <li> <a href="{{ BASE_PATH }}/algorithms/map-reduce/classification/random-forrests.html">Random Forrests</a></li> + <li> <a href="{{ BASE_PATH }}/algorithms/map-reduce/classification/restricted-boltzman-machines.html">Restricted Boltzman Machines</a></li> + <li> <a href="{{ BASE_PATH }}/algorithms/map-reduce/classification/support-vector-machines.html">Support Vector Machines</a></li> + </ul> + </div> + <a href="#mr-clustering" class="list-group-item list-group-item-success" data-toggle="collapse" data-parent="#AlgoMenu"><b>Clustering</b><i class="fa fa-caret-down"></i></a> + <div class="collapse" id="mr-clustering"> + <ul class="nav sidebar-nav"> + <li> <a href="{{ BASE_PATH }}/algorithms/map-reduce/clustering/canopy-clustering.html">Canopy Clustering</a></li> + <li> <a href="{{ BASE_PATH }}/algorithms/map-reduce/clustering/cluster-dumper.html">Cluster Dumper</a></li> + <li> <a href="{{ BASE_PATH }}/algorithms/map-reduce/clustering/expectation-maximization.html">Expectation Maximization</a></li> + <li> <a href="{{ BASE_PATH }}/algorithms/map-reduce/clustering/fuzzy-k-means.html">Fuzzy K-Means</a></li> + <li> <a href="{{ BASE_PATH }}/algorithms/map-reduce/clustering/hierarchical-clustering.html">Hierarchical Clustering</a></li> + <li> <a href="{{ BASE_PATH }}/algorithms/map-reduce/clustering/k-means-clustering.html">K-Means Clustering</a></li> + <li> <a href="{{ BASE_PATH }}/algorithms/map-reduce/clustering/latent-dirichlet-allocation.html">Latent Dirichlet Allocation</a></li> + <li> <a href="{{ BASE_PATH }}/algorithms/map-reduce/clustering/llr---log-likelihood-ratio.html">Log Likelihood Ratio</a></li> + <li> <a href="{{ BASE_PATH }}/algorithms/map-reduce/clustering/spectral-clustering.html">Spectral Clustering</a></li> + <li> <a href="{{ BASE_PATH }}/algorithms/map-reduce/clustering/streaming-k-means.html">Streaming K-Means</a></li> + </ul> + </div> + </div> +</div> http://git-wip-us.apache.org/repos/asf/mahout/blob/ec5eb314/website-old/docs/_includes/navbar.html ---------------------------------------------------------------------- diff --git a/website-old/docs/_includes/navbar.html b/website-old/docs/_includes/navbar.html new file mode 100644 index 0000000..0d155b6 --- /dev/null +++ b/website-old/docs/_includes/navbar.html @@ -0,0 +1,109 @@ +{% include JB/setup %} + +<!-- Collect the nav links, forms, and other content for toggling --> +<div class="collapse navbar-collapse" id="main-navbar"> + <ul class="nav navbar-nav"> + + <!-- Quick Start --> + <li id="quickstart"> + <a href="{{ BASE_PATH}}/index.html" >Mahout Overview</a> + </li> + + <li id="dropdown"> + <a href="#" class="dropdown-toggle" data-toggle="dropdown" role="button" aria-haspopup="true" aria-expanded="false">Key Concepts<span class="caret"></span></a> + <ul class="dropdown-menu"> + <li><a href="{{ BASE_PATH }}/index.html">Mahout Overview</a></li> + <li><span><b> Scala DSL</b><span></li> + <li><a href="{{ BASE_PATH }}/mahout-samsara/in-core-reference.html">In-core Reference</a></li> + <li><a href="{{ BASE_PATH }}/mahout-samsara/out-of-core-reference.html">Out-of-core Reference</a></li> + <li><a href="{{ BASE_PATH }}/mahout-samsara/faq.html">Samsara FAQ</a></li> + <li role="separator" class="divider"></li> + <li><span> <b>Bindings</b><span></li> + <li><a href="{{ BASE_PATH }}/distributed/spark-bindings/">Spark Bindings</a></li> + <li><a href="{{ BASE_PATH }}/distributed/flink-bindings.html">Flink Bindings</a></li> + <li><a href="{{ BASE_PATH }}/distributed/flink-bindings.html">H20 Bindings</a></li> + <!--<li role="separator" class="divider"></li> + <li><span> <b>Native Solvers</b><span></li> + <li><a href="{{ BASE_PATH }}/native-solvers/viennacl.html">ViennaCL</a></li> + <li><a href="{{ BASE_PATH }}/native-solvers/viennacl-omp.html">ViennaCL-OMP</a></li> + <li><a href="{{ BASE_PATH }}/native-solvers/cuda.html">CUDA</a></li>--> + </ul> + </li> + + <li id="dropdown"> + <a href="#" class="dropdown-toggle" data-toggle="dropdown" role="button" aria-haspopup="true" aria-expanded="false">Tutorials<span class="caret"></span></a> + <ul class="dropdown-menu"> + <li><span> <b>Reccomenders</b><span></li> + <li><a href="{{ BASE_PATH }}/tutorials/cco-lastfm">CCO Example with Last.FM Data</a></li> + <li><a href="{{ BASE_PATH }}/tutorials/intro-cooccurrence-spark">Introduction to Cooccurrence in Spark</a></li> + <li role="separator" class="divider"></li> + <li><span> <b>Mahout Samsara</b><span></li> + <li><a href="{{ BASE_PATH}}/tutorials/samsara/play-with-shell.html">Playing with Samsara in Spark Shell</a></li> + <li><a href="{{ BASE_PATH}}/tutorials/samsara/playing-with-samsara-flink-batch.html">Playing with Samsara in Flink Batch</a></li> + <li><a href="{{ BASE_PATH}}/tutorials/samsara/classify-a-doc-from-the-shell.html">Text Classification (Shell)</a></li> + <li><a href="{{ BASE_PATH}}/tutorials/samsara/spark-naive-bayes.html">Spark Naive Bayes</a></li> + <li role="separator" class="divider"></li> + <li><span> <b>Misc</b><span></li> + <li><a href="{{ BASE_PATH }}/tutorials/misc/mahout-in-zeppelin">Mahout in Apache Zeppelin</a></li> + <li><a href="{{ BASE_PATH }}/tutorials/misc/contributing-algos">How To Contribute a New Algorithm</a></li> + <li><a href="{{ BASE_PATH }}/tutorials/misc/how-to-build-an-app.html">How To Build An App</a></li> + <li role="separator" class="divider"></li> + <li><span> <b>Deprecated</b><span></li> + <li><a href="{{ BASE_PATH}}/tutorials/map-reduce">MapReduce</a></li> + </ul> + </li> + + + <!-- Algorithms (Samsara / MR) --> + <li id="dropdown"> + <a href="#" class="dropdown-toggle" data-toggle="dropdown" role="button" aria-haspopup="true" aria-expanded="false">Algorithms<span class="caret"></span></a> + <ul class="dropdown-menu"> + <li><a href="{{ BASE_PATH}}/algorithms/linear-algebra">Distributed Linear Algebra</a></li> + <li><a href="{{ BASE_PATH}}/algorithms/preprocessors">Preprocessors</a></li> + <li><a href="{{ BASE_PATH}}/algorithms/regression">Regression</a></li> + <li><a href="{{ BASE_PATH}}/algorithms/reccomenders">Reccomenders</a></li> + <li role="separator" class="divider"></li> + <li><a href="{{ BASE_PATH }}/algorithms/map-reduce">MapReduce <i>(deprecated)</i></a></li> + </ul> + <!--<li><a href="{{ BASE_PATH}}/algorithms/reccomenders/recommender-overview.html">Reccomender Overview</a></li> Do we still need? seems like short version of next post--> + <!-- + <li><a href="{{ BASE_PATH}}/algorithms/reccomenders/intro-cooccurrence-spark.html">Intro to Coocurrence With Spark</a></li> + <li role="separator" class="divider"></li> + <li><span> <a href="{{ BASE_PATH }}/algorithms/map-reduce"><b>MapReduce</b> (deprecated)</a><span></li> + + + --> + </li> + + <!-- Scala Docs --> + <li id="dropdown"> + <a href="#" class="dropdown-toggle" data-toggle="dropdown" role="button" aria-haspopup="true" aria-expanded="false">API Docs<span class="caret"></span></a> + <ul class="dropdown-menu"> + <li><a href="{{ BASE_PATH }}/0.13.0/api/index.html">0.13.0</a></li> + </ul> + </li> + + + </ul> + <form class="navbar-form navbar-left"> + <div class="form-group"> + <input type="text" class="form-control" placeholder="Search"> + </div> + <button type="submit" class="btn btn-default">Submit</button> + </form> + <ul class="nav navbar-nav navbar-right"> + <li><a href="http://github.com/apache/mahout";>Github</a></li> + + <!-- Apache --> + <li class="dropdown"> + <a href="#" class="dropdown-toggle" data-toggle="dropdown" role="button" aria-haspopup="true" aria-expanded="false">Apache <span class="caret"></span></a> + <ul class="dropdown-menu"> + <li><a href="http://www.apache.org/foundation/how-it-works.html";>Apache Software Foundation</a></li> + <li><a href="http://www.apache.org/licenses/";>Apache License</a></li> + <li><a href="http://www.apache.org/foundation/sponsorship.html";>Sponsorship</a></li> + <li><a href="http://www.apache.org/foundation/thanks.html";>Thanks</a></li> + </ul> + </li> + + </ul> +</div><!-- /.navbar-collapse --> http://git-wip-us.apache.org/repos/asf/mahout/blob/ec5eb314/website-old/docs/_includes/themes ---------------------------------------------------------------------- diff --git a/website-old/docs/_includes/themes b/website-old/docs/_includes/themes new file mode 120000 index 0000000..b1d44e6 --- /dev/null +++ b/website-old/docs/_includes/themes @@ -0,0 +1 @@ +../../_includes/themes \ No newline at end of file http://git-wip-us.apache.org/repos/asf/mahout/blob/ec5eb314/website-old/docs/_includes/tutorial_navbar.html ---------------------------------------------------------------------- diff --git a/website-old/docs/_includes/tutorial_navbar.html b/website-old/docs/_includes/tutorial_navbar.html new file mode 100644 index 0000000..0b72a00 --- /dev/null +++ b/website-old/docs/_includes/tutorial_navbar.html @@ -0,0 +1,62 @@ +<div id="TutorialMenu"> + <span><b>Tutorials</b></span> + <div class="list-group panel"> + <a href="#linalg" class="list-group-item list-group-item-success" data-toggle="collapse" data-parent="#TutorialMenu"><b>Linear Algebra</b><i class="fa fa-caret-down"></i></a> + <div class="collapse" id="linalg"> + <ul class="nav sidebar-nav"> + <li><a href="{{ BASE_PATH }}/tutorials/eigenfaces">Eigenfaces Demo (Shell or Zeppelin)</a></li> + </ul> + </div> + <a href="#reccomenders" class="list-group-item list-group-item-success" data-toggle="collapse" data-parent="#TutorialMenu"><b>Reccomenders</b><i class="fa fa-caret-down"></i></a> + <div class="collapse" id="reccomenders"> + <ul class="nav sidebar-nav"> + <li><a href="{{ BASE_PATH }}/tutorials/cco-lastfm">CCO Example with Last.FM Data</a></li> + <li><a href="{{ BASE_PATH }}/tutorials/intro-cooccurrence-spark">Introduction to Cooccurrence in Spark</a></li> + </ul> + </div> + <a href="#other" class="list-group-item list-group-item-success" data-toggle="collapse" data-parent="#TutorialMenu"><b>Other</b><i class="fa fa-caret-down"></i></a> + <div class="collapse" id="other"> + <ul class="nav sidebar-nav"> + <li><a href="{{ BASE_PATH }}/tutorials/misc/mahout-in-zeppelin">Mahout in Apache Zeppelin</a></li> + <li><a href="{{ BASE_PATH }}/tutorials/misc/contributing-algos">How To Contribute a New Algorithm</a></li> + <li><a href="{{ BASE_PATH }}/tutorials/misc/how-to-build-an-app.html">How To Build An App</a></li> + </ul> + </div> + </div> + <span><b>Map Reduce Tutorials</b> (deprecated)</span> + <div class="list-group panel"> + <a href="#classification" class="list-group-item list-group-item-success" data-toggle="collapse" data-parent="#MrTutorialMenu"><b>Classification</b><i class="fa fa-caret-down"></i></a> + <div class="collapse" id="classification"> + <ul class="nav sidebar-nav"> + <li> <a href="{{ BASE_PATH }}/tutorials/map-reduce/classification/bankmarketing-example.html">Bank Marketing Example</a></li> + <li> <a href="{{ BASE_PATH }}/tutorials/map-reduce/classification/breiman-example.html">Breiman Example</a></li> + <li> <a href="{{ BASE_PATH }}/tutorials/map-reduce/classification/twenty-newsgroups.html">Twenty Newsgroups Example</a></li> + <li> <a href="{{ BASE_PATH }}/tutorials/map-reduce/classification/wikipedia-classifier-example.html">Wikipedia Classifier Example</a></li> + <li> <a href="{{ BASE_PATH }}/tutorials/map-reduce/classification/parallel-frequent-pattern-mining.html">Parallel Frequent Pattern Mining</a></li> + </ul> + </div> + <a href="#clustering" class="list-group-item list-group-item-success" data-toggle="collapse" data-parent="#MrTutorialMenu"><b>Clustering</b><i class="fa fa-caret-down"></i></a> + <div class="collapse" id="clustering"> + <ul class="nav sidebar-nav"> + <li> <a href="{{ BASE_PATH }}/tutorials/map-reduce/clustering/20newsgroups.html">Twenty Newsgroups Example</a></li> + <li> <a href="{{ BASE_PATH }}/tutorials/map-reduce/clustering/canopy-commandline.html">Canopy Clustering from the Commandline</a></li> + <li> <a href="{{ BASE_PATH }}/tutorials/map-reduce/clustering/clustering-of-synthetic-control-data.html">Clustering of Synthetic Control Data</a></li> + <li> <a href="{{ BASE_PATH }}/tutorials/map-reduce/clustering/clustering-seinfeld-episodes.html">Clustering of Seinfeld Episodes</a></li> + <li> <a href="{{ BASE_PATH }}/tutorials/map-reduce/clustering/clusteringyourdata.html">Clustering Your Data</a></li> + <li> <a href="{{ BASE_PATH }}/tutorials/map-reduce/clustering/fuzzy-k-means-commandline.html">Fuzzy K-Means from the Commandline</a></li> + <li> <a href="{{ BASE_PATH }}/tutorials/map-reduce/clustering/k-means-commandline.html">K-Means from the Commandline</a></li> + <li> <a href="{{ BASE_PATH }}/tutorials/map-reduce/clustering/lda-commandline.html">LDA from the Commandline</a></li> + <li> <a href="{{ BASE_PATH }}/tutorials/map-reduce/clustering/viewing-results.html">Viewing Results</a></li> + <li> <a href="{{ BASE_PATH }}/tutorials/map-reduce/clustering/visualizing-sample-clusters.html">Visualizing Sample Clusters</a></li> + </ul> + </div> + <a href="#misc" class="list-group-item list-group-item-success" data-toggle="collapse" data-parent="#MrTutorialMenu"><b>Miscelaneous</b><i class="fa fa-caret-down"></i></a> + <div class="collapse" id="misc"> + <ul class="nav sidebar-nav"> + <li> <a href="{{ BASE_PATH }}/tutorials/map-reduce/misc/mr---map-reduce.html">MR Map-Reduce</a></li> + <li> <a href="{{ BASE_PATH }}/tutorials/map-reduce/misc/parallel-frequent-pattern-mining.html">Parallel Frequent Pattern Mining</a></li> + <li> <a href="{{ BASE_PATH }}/tutorials/map-reduce/misc/using-mahout-with-python-via-jpype.html">Using Mahout (Map Reduce) with Python via Jpype</a></li> + </ul> + </div> + </div> +</div> http://git-wip-us.apache.org/repos/asf/mahout/blob/ec5eb314/website-old/docs/_layouts/algorithm.html ---------------------------------------------------------------------- diff --git a/website-old/docs/_layouts/algorithm.html b/website-old/docs/_layouts/algorithm.html new file mode 100644 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mode 100755 index 0000000..0e123f9 --- /dev/null +++ b/website-old/docs/_layouts/page.html @@ -0,0 +1,7 @@ +--- +theme : + name : mahout3 +layout: default +--- +{% include JB/setup %} +{% include themes/mahout3/page.html %} http://git-wip-us.apache.org/repos/asf/mahout/blob/ec5eb314/website-old/docs/_layouts/post.html ---------------------------------------------------------------------- diff --git a/website-old/docs/_layouts/post.html b/website-old/docs/_layouts/post.html new file mode 100755 index 0000000..9b8f584 --- /dev/null +++ b/website-old/docs/_layouts/post.html @@ -0,0 +1,7 @@ +--- +theme : + name : mahout3 +layout: default +--- +{% include JB/setup %} +{% include themes/mahout3/post.html %} http://git-wip-us.apache.org/repos/asf/mahout/blob/ec5eb314/website-old/docs/_layouts/tutorial.html ---------------------------------------------------------------------- diff --git a/website-old/docs/_layouts/tutorial.html b/website-old/docs/_layouts/tutorial.html new file mode 100644 index 0000000..8ee9223 --- /dev/null +++ b/website-old/docs/_layouts/tutorial.html @@ -0,0 +1,7 @@ +--- +theme : +name : mahout3 +layout: default +--- +{% include JB/setup %} +{% include themes/mahout3/tutorial.html %} \ No newline at end of file http://git-wip-us.apache.org/repos/asf/mahout/blob/ec5eb314/website-old/docs/_plugins/debug.rb ---------------------------------------------------------------------- diff --git a/website-old/docs/_plugins/debug.rb b/website-old/docs/_plugins/debug.rb new file mode 100755 index 0000000..e1dde39 --- /dev/null +++ b/website-old/docs/_plugins/debug.rb @@ -0,0 +1,38 @@ +# A simple way to inspect liquid template variables. +# Usage: +# Can be used anywhere liquid syntax is parsed (templates, includes, posts/pages) +# {{ site | debug }} +# {{ site.posts | debug }} +# +require 'pp' +module Jekyll + # Need to overwrite the inspect method here because the original + # uses < > to encapsulate the psuedo post/page objects in which case + # the output is taken for HTML tags and hidden from view. + # + class Post + def inspect + "#Jekyll:Post @id=#{self.id.inspect}" + end + end + + class Page + def inspect + "#Jekyll:Page @name=#{self.name.inspect}" + end + end + +end # Jekyll + +module Jekyll + module DebugFilter + + def debug(obj, stdout=false) + puts obj.pretty_inspect if stdout + "<pre>#{obj.class}\n#{obj.pretty_inspect}</pre>" + end + + end # DebugFilter +end # Jekyll + +Liquid::Template.register_filter(Jekyll::DebugFilter) \ No newline at end of file http://git-wip-us.apache.org/repos/asf/mahout/blob/ec5eb314/website-old/docs/algorithms/clustering/canopy/Canopy.png ---------------------------------------------------------------------- diff --git a/website-old/docs/algorithms/clustering/canopy/Canopy.png b/website-old/docs/algorithms/clustering/canopy/Canopy.png new file mode 100644 index 0000000..934efd7 Binary files /dev/null and b/website-old/docs/algorithms/clustering/canopy/Canopy.png differ 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http://git-wip-us.apache.org/repos/asf/mahout/blob/ec5eb314/website-old/docs/algorithms/clustering/canopy/index.md ---------------------------------------------------------------------- diff --git a/website-old/docs/algorithms/clustering/canopy/index.md b/website-old/docs/algorithms/clustering/canopy/index.md new file mode 100644 index 0000000..923c63a --- /dev/null +++ b/website-old/docs/algorithms/clustering/canopy/index.md @@ -0,0 +1,128 @@ +--- +layout: algorithm +title: Canopy Clustering +theme: + name: retro-mahout +--- + +### About + +[Canopy Clustering](http://www.kamalnigam.com/papers/canopy-kdd00.pdf) + is a very simple, fast and surprisingly accurate method for grouping +objects into clusters. All objects are represented as a point in a +multidimensional feature space. The algorithm uses a fast approximate +distance metric and two distance thresholds T1 > T2 for processing. The +basic algorithm is to begin with a set of points and remove one at random. +Create a Canopy containing this point and iterate through the remainder of +the point set. At each point, if its distance from the first point is < T1, +then add the point to the cluster. If, in addition, the distance is < T2, +then remove the point from the set. This way points that are very close to +the original will avoid all further processing. The algorithm loops until +the initial set is empty, accumulating a set of Canopies, each containing +one or more points. A given point may occur in more than one Canopy. + +Canopy Clustering is often used as an initial step in more rigorous +clustering techniques, such as [K-Means Clustering](k-means-clustering.html) +. By starting with an initial clustering the number of more expensive +distance measurements can be significantly reduced by ignoring points +outside of the initial canopies. + +#### Strategy for parallelization + +Looking at the sample Hadoop implementation in [http://code.google.com/p/canopy-clustering/](http://code.google.com/p/canopy-clustering/) + the processing is done in 3 steps: +1. The data is massaged into suitable input format +1. Each mapper performs canopy clustering on the points in its input set and +outputs its canopies' centers +1. The reducer clusters the canopy centers to produce the final canopy +centers + +The points are then clustered into these final canopies when the `model.cluster(inputDRM)` is called. + +Some ideas can be found in [Cluster computing and MapReduce](https://www.youtube.com/watch?v=yjPBkvYh-ss&list=PLEFAB97242917704A) + lecture video series \[by Google(r)\]; Canopy Clustering is discussed in [lecture #4](https://www.youtube.com/watch?v=1ZDybXl212Q) +. Finally here is the [Wikipedia page](http://en.wikipedia.org/wiki/Canopy_clustering_algorithm) +. + +#### Illustrations + +The following images illustrate Canopy clustering applied to a set of +randomly-generated 2-d data points. The points are generated using a normal +distribution centered at a mean location and with a constant standard +deviation. See the README file in the [/examples/src/main/java/org/apache/mahout/clustering/display/README.txt](https://github.com/apache/mahout/blob/master/examples/src/main/java/org/apache/mahout/clustering/display/README.txt) + for details on running similar examples. + +The points are generated as follows: + +* 500 samples m=\[1.0, 1.0\](1.0,-1.0\.html) + sd=3.0 +* 300 samples m=\[1.0, 0.0\](1.0,-0.0\.html) + sd=0.5 +* 300 samples m=\[0.0, 2.0\](0.0,-2.0\.html) + sd=0.1 + +In the first image, the points are plotted and the 3-sigma boundaries of +their generator are superimposed. + + + +In the second image, the resulting canopies are shown superimposed upon the +sample data. Each canopy is represented by two circles, with radius T1 and +radius T2. + + + +The third image uses the same values of T1 and T2 but only superimposes +canopies covering more than 10% of the population. This is a bit better +representation of the data but it still has lots of room for improvement. +The advantage of Canopy clustering is that it is single-pass and fast +enough to iterate runs using different T1, T2 parameters and display +thresholds. + + + +### Parameters + +<div class="table-striped"> + <table class="table"> + <tr> + <th>Parameter</th> + <th>Description</th> + <th>Default Value</th> + </tr> + <tr> + <td><code>'distanceMeasure</code></td> + <td>The metric used for calculating distance, see <a href="../distance-metrics.html">Distance Metrics</a></td> + <td><code>'Cosine</code></td> + </tr> + <tr> + <td><code>'t1</code></td> + <td>The "loose" distance in the mapping phase</code></td> + <td>0.5</td> + </tr> + <tr> + <td><code>'t2</code></td> + <td>The "tight" distance in the mapping phase</code></td> + <td>0.1</td> + </tr> + <tr> + <td><code>'t3</code></td> + <td>The "loose" distance in the reducing phase</code></td> + <td><code>'t1</code></td> + </tr> + <tr> + <td><code>'t4</code></td> + <td>The "tight" distance in the reducing phase</code></td> + <td><code>'t2</code></td> + </tr> + </table> +</div> + +### Example + + val drmA = drmParallelize(dense((1.0, 1.2, 1.3, 1.4), (1.1, 1.5, 2.5, 1.0), (6.0, 5.2, -5.2, 5.3), (7.0,6.0, 5.0, 5.0), (10.0, 1.0, 20.0, -10.0))) + + import org.apache.mahout.math.algorithms.clustering.CanopyClustering + + val model = new CanopyClustering().fit(drmA, 't1 -> 6.5, 't2 -> 5.5, 'distanceMeasure -> 'Chebyshev) + model.cluster(drmA).collect http://git-wip-us.apache.org/repos/asf/mahout/blob/ec5eb314/website-old/docs/algorithms/clustering/distance-metrics.md ---------------------------------------------------------------------- diff --git a/website-old/docs/algorithms/clustering/distance-metrics.md b/website-old/docs/algorithms/clustering/distance-metrics.md new file mode 100644 index 0000000..5b25a93 --- /dev/null +++ b/website-old/docs/algorithms/clustering/distance-metrics.md @@ -0,0 +1,82 @@ +--- +layout: algorithm +title: Distance Metrics +theme: + name: retro-mahout +--- + +### Distance Metrics Supported By Mahout + +<div class="table-striped"> + <table class="table"> + <tr> + <th>Name</th> + <th>Object</th> + <th>Symbol</th> + </tr> + <tr> + <td><a href="https://en.wikipedia.org/wiki/Chebyshev_distance";>Chebyshev Distance</a></td> + <td><code>org.apache.mahout.math.algorithms.common.distance.Chebyshev</code></td> + <td><code>'Chebyshev</code></td> + </tr> + <tr> + <td><a href="https://en.wikipedia.org/wiki/Cosine_similarity";>Cosine Similarity</a></td> + <td><code>org.apache.mahout.math.algorithms.common.distance.Cosine</code></td> + <td><code>'Cosine</code></td> + </tr> + </table> +</div> + + +<!-- +A beginner JIRA to port the rest of these +[Euclidean](https://en.wikipedia.org/wiki/Euclidean_distance) + +[Mahalanobis](https://en.wikipedia.org/wiki/Mahalanobis_distance) + +[Manhattan](https://en.wiktionary.org/wiki/Manhattan_distance) + +[Minkowski](https://en.wikipedia.org/wiki/Minkowski_distance) + +[Squared Euclidian](https://en.wikipedia.org/wiki/Euclidean_distance#Squared_Euclidean_distance) + +[Tanimoto](https://en.wikipedia.org/wiki/Jaccard_index#Tanimoto_similarity_and_distance) + +Weighted Euclidean + +Weighted Manhattan--> + +### Using Distance Metrics + +In Mahout one can access the distant metrics directly to measure the distance between two arbitrary vectors, or +can specify which distance metric to use as part of an algorithm. In the latter case the distance metric is called +by `Symbol`, we never pass Distance metrics directly to an algorithm. This design choice, in part has to do with +serialization of object and keeping the engine bindings as simple as possible. Behind the scenes, the only thing +that is serialized and sent to the workers is a number which specifies what distant metric to use- this is much more +abstract and easier to maintain on the back end than making sure each function can be serialized by any arbitrary engine. +We feel from the user perspective, it may seem quirky but causes no decrease in usability. If a user wishes to use a +custom distance metric- simply add it to [math-scala/src/main/org/apache/mahout/math/common/DistanceMetrics.scala](https://github.com/apache/mahout/blob/master/math-scala/src/main/scala/org/apache/mahout/math/algorithms/common/DistanceMetrics.scala) +and recompile. + +### Examples + +**Meausring the distance between two vectors** + + import org.apache.mahout.math.algorithms.common.distance._ + + val v1 = dvec(1.0, 1.5, -1.2, 3.5) + val v2 = dvec(0.1, -1.4, 10.5, 3.2) + + Cosine.distance(v1, v2) + +**Using distance in clustering** + + import org.apache.mahout.math.algorithms.clustering.CanopyClustering + + val drmA = drmParallelize(dense((1.0, 1.2, 1.3, 1.4), + (1.1, 1.5, 2.5, 1.0), + (6.0, 5.2, -5.2, 5.3), + (7.0,6.0, 5.0, 5.0), + (10.0, 1.0, 20.0, -10.0))) + + val model = new CanopyClustering().fit(drmA, 'distanceMeasure -> 'Cosine) \ No newline at end of file http://git-wip-us.apache.org/repos/asf/mahout/blob/ec5eb314/website-old/docs/algorithms/clustering/index.md ---------------------------------------------------------------------- diff --git a/website-old/docs/algorithms/clustering/index.md b/website-old/docs/algorithms/clustering/index.md new file mode 100644 index 0000000..50030c2 --- /dev/null +++ b/website-old/docs/algorithms/clustering/index.md @@ -0,0 +1,6 @@ +--- +layout: algorithm +title: Clustering Algorithms +theme: + name: retro-mahout +--- http://git-wip-us.apache.org/repos/asf/mahout/blob/ec5eb314/website-old/docs/algorithms/linear-algebra/d-qr.md ---------------------------------------------------------------------- diff --git a/website-old/docs/algorithms/linear-algebra/d-qr.md b/website-old/docs/algorithms/linear-algebra/d-qr.md new file mode 100644 index 0000000..8e9cecc --- /dev/null +++ b/website-old/docs/algorithms/linear-algebra/d-qr.md @@ -0,0 +1,56 @@ +--- +layout: algorithm +title: Distributed Cholesky QR +theme: + name: retro-mahout +--- + +## Intro + +Mahout has a distributed implementation of QR decomposition for tall thin matrices[1]. + +## Algorithm + +For the classic QR decomposition of the form `\(\mathbf{A}=\mathbf{QR},\mathbf{A}\in\mathbb{R}^{m\times n}\)` a distributed version is fairly easily achieved if `\(\mathbf{A}\)` is tall and thin such that `\(\mathbf{A}^{\top}\mathbf{A}\)` fits in memory, i.e. *m* is large but *n* < ~5000 Under such circumstances, only `\(\mathbf{A}\)` and `\(\mathbf{Q}\)` are distributed matrices and `\(\mathbf{A^{\top}A}\)` and `\(\mathbf{R}\)` are in-core products. We just compute the in-core version of the Cholesky decomposition in the form of `\(\mathbf{LL}^{\top}= \mathbf{A}^{\top}\mathbf{A}\)`. After that we take `\(\mathbf{R}= \mathbf{L}^{\top}\)` and `\(\mathbf{Q}=\mathbf{A}\left(\mathbf{L}^{\top}\right)^{-1}\)`. The latter is easily achieved by multiplying each vertical block of `\(\mathbf{A}\)` by `\(\left(\mathbf{L}^{\top}\right)^{-1}\)`. (There is no actual matrix inversion happening). + + + +## Implementation + +Mahout `dqrThin(...)` is implemented in the mahout `math-scala` algebraic optimizer which translates Mahout's R-like linear algebra operators into a physical plan for both Spark and H2O distributed engines. + + def dqrThin[K: ClassTag](A: DrmLike[K], checkRankDeficiency: Boolean = true): (DrmLike[K], Matrix) = { + if (drmA.ncol > 5000) + log.warn("A is too fat. A'A must fit in memory and easily broadcasted.") + implicit val ctx = drmA.context + val AtA = (drmA.t %*% drmA).checkpoint() + val inCoreAtA = AtA.collect + val ch = chol(inCoreAtA) + val inCoreR = (ch.getL cloned) t + if (checkRankDeficiency && !ch.isPositiveDefinite) + throw new IllegalArgumentException("R is rank-deficient.") + val bcastAtA = sc.broadcast(inCoreAtA) + val Q = A.mapBlock() { + case (keys, block) => keys -> chol(bcastAtA).solveRight(block) + } + Q -> inCoreR + } + + +## Usage + +The scala `dqrThin(...)` method can easily be called in any Spark or H2O application built with the `math-scala` library and the corresponding `Spark` or `H2O` engine module as follows: + + import org.apache.mahout.math._ + import decompositions._ + import drm._ + + val(drmQ, inCoreR) = dqrThin(drma) + + +## References + +[1]: [Mahout Scala and Mahout Spark Bindings for Linear Algebra Subroutines](http://mahout.apache.org/users/sparkbindings/ScalaSparkBindings.pdf) + +[2]: [Mahout Spark and Scala Bindings](http://mahout.apache.org/users/sparkbindings/home.html) +
