ruby-spark 1.0.0

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Files changed (176) hide show
  1. checksums.yaml +7 -0
  2. data/.gitignore +37 -0
  3. data/Gemfile +47 -0
  4. data/Guardfile +5 -0
  5. data/LICENSE.txt +22 -0
  6. data/README.md +185 -0
  7. data/Rakefile +35 -0
  8. data/TODO.md +7 -0
  9. data/benchmark/aggregate.rb +33 -0
  10. data/benchmark/bisect.rb +88 -0
  11. data/benchmark/custom_marshal.rb +94 -0
  12. data/benchmark/digest.rb +150 -0
  13. data/benchmark/enumerator.rb +88 -0
  14. data/benchmark/performance/prepare.sh +18 -0
  15. data/benchmark/performance/python.py +156 -0
  16. data/benchmark/performance/r.r +69 -0
  17. data/benchmark/performance/ruby.rb +167 -0
  18. data/benchmark/performance/run-all.sh +160 -0
  19. data/benchmark/performance/scala.scala +181 -0
  20. data/benchmark/serializer.rb +82 -0
  21. data/benchmark/sort.rb +43 -0
  22. data/benchmark/sort2.rb +164 -0
  23. data/benchmark/take.rb +28 -0
  24. data/bin/ruby-spark +8 -0
  25. data/example/pi.rb +28 -0
  26. data/ext/ruby_c/extconf.rb +3 -0
  27. data/ext/ruby_c/murmur.c +158 -0
  28. data/ext/ruby_c/murmur.h +9 -0
  29. data/ext/ruby_c/ruby-spark.c +18 -0
  30. data/ext/ruby_java/Digest.java +36 -0
  31. data/ext/ruby_java/Murmur2.java +98 -0
  32. data/ext/ruby_java/RubySparkExtService.java +28 -0
  33. data/ext/ruby_java/extconf.rb +3 -0
  34. data/ext/spark/build.sbt +73 -0
  35. data/ext/spark/project/plugins.sbt +9 -0
  36. data/ext/spark/sbt/sbt +34 -0
  37. data/ext/spark/src/main/scala/Exec.scala +91 -0
  38. data/ext/spark/src/main/scala/MLLibAPI.scala +4 -0
  39. data/ext/spark/src/main/scala/Marshal.scala +52 -0
  40. data/ext/spark/src/main/scala/MarshalDump.scala +113 -0
  41. data/ext/spark/src/main/scala/MarshalLoad.scala +220 -0
  42. data/ext/spark/src/main/scala/RubyAccumulatorParam.scala +69 -0
  43. data/ext/spark/src/main/scala/RubyBroadcast.scala +13 -0
  44. data/ext/spark/src/main/scala/RubyConstant.scala +13 -0
  45. data/ext/spark/src/main/scala/RubyMLLibAPI.scala +55 -0
  46. data/ext/spark/src/main/scala/RubyMLLibUtilAPI.scala +21 -0
  47. data/ext/spark/src/main/scala/RubyPage.scala +34 -0
  48. data/ext/spark/src/main/scala/RubyRDD.scala +364 -0
  49. data/ext/spark/src/main/scala/RubySerializer.scala +14 -0
  50. data/ext/spark/src/main/scala/RubyTab.scala +11 -0
  51. data/ext/spark/src/main/scala/RubyUtils.scala +15 -0
  52. data/ext/spark/src/main/scala/RubyWorker.scala +257 -0
  53. data/ext/spark/src/test/scala/MarshalSpec.scala +84 -0
  54. data/lib/ruby-spark.rb +1 -0
  55. data/lib/spark.rb +198 -0
  56. data/lib/spark/accumulator.rb +260 -0
  57. data/lib/spark/broadcast.rb +98 -0
  58. data/lib/spark/build.rb +43 -0
  59. data/lib/spark/cli.rb +169 -0
  60. data/lib/spark/command.rb +86 -0
  61. data/lib/spark/command/base.rb +154 -0
  62. data/lib/spark/command/basic.rb +345 -0
  63. data/lib/spark/command/pair.rb +124 -0
  64. data/lib/spark/command/sort.rb +51 -0
  65. data/lib/spark/command/statistic.rb +144 -0
  66. data/lib/spark/command_builder.rb +141 -0
  67. data/lib/spark/command_validator.rb +34 -0
  68. data/lib/spark/config.rb +244 -0
  69. data/lib/spark/constant.rb +14 -0
  70. data/lib/spark/context.rb +304 -0
  71. data/lib/spark/error.rb +50 -0
  72. data/lib/spark/ext/hash.rb +41 -0
  73. data/lib/spark/ext/integer.rb +25 -0
  74. data/lib/spark/ext/io.rb +57 -0
  75. data/lib/spark/ext/ip_socket.rb +29 -0
  76. data/lib/spark/ext/module.rb +58 -0
  77. data/lib/spark/ext/object.rb +24 -0
  78. data/lib/spark/ext/string.rb +24 -0
  79. data/lib/spark/helper.rb +10 -0
  80. data/lib/spark/helper/logger.rb +40 -0
  81. data/lib/spark/helper/parser.rb +85 -0
  82. data/lib/spark/helper/serialize.rb +71 -0
  83. data/lib/spark/helper/statistic.rb +93 -0
  84. data/lib/spark/helper/system.rb +42 -0
  85. data/lib/spark/java_bridge.rb +19 -0
  86. data/lib/spark/java_bridge/base.rb +203 -0
  87. data/lib/spark/java_bridge/jruby.rb +23 -0
  88. data/lib/spark/java_bridge/rjb.rb +41 -0
  89. data/lib/spark/logger.rb +76 -0
  90. data/lib/spark/mllib.rb +100 -0
  91. data/lib/spark/mllib/classification/common.rb +31 -0
  92. data/lib/spark/mllib/classification/logistic_regression.rb +223 -0
  93. data/lib/spark/mllib/classification/naive_bayes.rb +97 -0
  94. data/lib/spark/mllib/classification/svm.rb +135 -0
  95. data/lib/spark/mllib/clustering/gaussian_mixture.rb +82 -0
  96. data/lib/spark/mllib/clustering/kmeans.rb +118 -0
  97. data/lib/spark/mllib/matrix.rb +120 -0
  98. data/lib/spark/mllib/regression/common.rb +73 -0
  99. data/lib/spark/mllib/regression/labeled_point.rb +41 -0
  100. data/lib/spark/mllib/regression/lasso.rb +100 -0
  101. data/lib/spark/mllib/regression/linear.rb +124 -0
  102. data/lib/spark/mllib/regression/ridge.rb +97 -0
  103. data/lib/spark/mllib/ruby_matrix/matrix_adapter.rb +53 -0
  104. data/lib/spark/mllib/ruby_matrix/vector_adapter.rb +57 -0
  105. data/lib/spark/mllib/stat/distribution.rb +12 -0
  106. data/lib/spark/mllib/vector.rb +185 -0
  107. data/lib/spark/rdd.rb +1328 -0
  108. data/lib/spark/sampler.rb +92 -0
  109. data/lib/spark/serializer.rb +24 -0
  110. data/lib/spark/serializer/base.rb +170 -0
  111. data/lib/spark/serializer/cartesian.rb +37 -0
  112. data/lib/spark/serializer/marshal.rb +19 -0
  113. data/lib/spark/serializer/message_pack.rb +25 -0
  114. data/lib/spark/serializer/oj.rb +25 -0
  115. data/lib/spark/serializer/pair.rb +27 -0
  116. data/lib/spark/serializer/utf8.rb +25 -0
  117. data/lib/spark/sort.rb +189 -0
  118. data/lib/spark/stat_counter.rb +125 -0
  119. data/lib/spark/storage_level.rb +39 -0
  120. data/lib/spark/version.rb +3 -0
  121. data/lib/spark/worker/master.rb +144 -0
  122. data/lib/spark/worker/spark_files.rb +15 -0
  123. data/lib/spark/worker/worker.rb +197 -0
  124. data/ruby-spark.gemspec +36 -0
  125. data/spec/generator.rb +37 -0
  126. data/spec/inputs/lorem_300.txt +316 -0
  127. data/spec/inputs/numbers/1.txt +50 -0
  128. data/spec/inputs/numbers/10.txt +50 -0
  129. data/spec/inputs/numbers/11.txt +50 -0
  130. data/spec/inputs/numbers/12.txt +50 -0
  131. data/spec/inputs/numbers/13.txt +50 -0
  132. data/spec/inputs/numbers/14.txt +50 -0
  133. data/spec/inputs/numbers/15.txt +50 -0
  134. data/spec/inputs/numbers/16.txt +50 -0
  135. data/spec/inputs/numbers/17.txt +50 -0
  136. data/spec/inputs/numbers/18.txt +50 -0
  137. data/spec/inputs/numbers/19.txt +50 -0
  138. data/spec/inputs/numbers/2.txt +50 -0
  139. data/spec/inputs/numbers/20.txt +50 -0
  140. data/spec/inputs/numbers/3.txt +50 -0
  141. data/spec/inputs/numbers/4.txt +50 -0
  142. data/spec/inputs/numbers/5.txt +50 -0
  143. data/spec/inputs/numbers/6.txt +50 -0
  144. data/spec/inputs/numbers/7.txt +50 -0
  145. data/spec/inputs/numbers/8.txt +50 -0
  146. data/spec/inputs/numbers/9.txt +50 -0
  147. data/spec/inputs/numbers_0_100.txt +101 -0
  148. data/spec/inputs/numbers_1_100.txt +100 -0
  149. data/spec/lib/collect_spec.rb +42 -0
  150. data/spec/lib/command_spec.rb +68 -0
  151. data/spec/lib/config_spec.rb +64 -0
  152. data/spec/lib/context_spec.rb +163 -0
  153. data/spec/lib/ext_spec.rb +72 -0
  154. data/spec/lib/external_apps_spec.rb +45 -0
  155. data/spec/lib/filter_spec.rb +80 -0
  156. data/spec/lib/flat_map_spec.rb +100 -0
  157. data/spec/lib/group_spec.rb +109 -0
  158. data/spec/lib/helper_spec.rb +19 -0
  159. data/spec/lib/key_spec.rb +41 -0
  160. data/spec/lib/manipulation_spec.rb +114 -0
  161. data/spec/lib/map_partitions_spec.rb +87 -0
  162. data/spec/lib/map_spec.rb +91 -0
  163. data/spec/lib/mllib/classification_spec.rb +54 -0
  164. data/spec/lib/mllib/clustering_spec.rb +35 -0
  165. data/spec/lib/mllib/matrix_spec.rb +32 -0
  166. data/spec/lib/mllib/regression_spec.rb +116 -0
  167. data/spec/lib/mllib/vector_spec.rb +77 -0
  168. data/spec/lib/reduce_by_key_spec.rb +118 -0
  169. data/spec/lib/reduce_spec.rb +131 -0
  170. data/spec/lib/sample_spec.rb +46 -0
  171. data/spec/lib/serializer_spec.rb +13 -0
  172. data/spec/lib/sort_spec.rb +58 -0
  173. data/spec/lib/statistic_spec.rb +168 -0
  174. data/spec/lib/whole_text_files_spec.rb +33 -0
  175. data/spec/spec_helper.rb +39 -0
  176. metadata +301 -0
@@ -0,0 +1,94 @@
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+ require 'benchmark'
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+ require 'benchmark/ips'
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+
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+ def pack_int(data)
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+ [data].pack('l>')
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+ end
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+
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+ def pack_long(data)
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+ [data].pack('q>')
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+ end
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+
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+ def pack_doubles(data)
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+ data.pack('G*')
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+ end
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+
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+ module Standard
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+ class LabeledPoint
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+ def initialize(label, features)
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+ @label = label
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+ @features = Standard::Vector.new(features)
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+ end
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+
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+ def marshal_dump
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+ [@label, @features]
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+ end
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+
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+ def marshal_load(*)
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+ end
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+ end
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+
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+ class Vector
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+ def initialize(array)
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+ @values = array
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+ end
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+
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+ def marshal_dump
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+ [@values]
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+ end
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+
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+ def marshal_load(*)
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+ end
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+ end
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+ end
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+
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+ module Custom
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+ class LabeledPoint
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+ def initialize(label, features)
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+ @label = label
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+ @features = Custom::Vector.new(features)
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+ end
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+
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+ def _dump(*)
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+ pack_long(@label) + @features._dump
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+ end
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+
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+ def self._load(*)
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+ end
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+ end
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+
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+ class Vector
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+ def initialize(array)
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+ @values = array
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+ end
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+
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+ def _dump(*)
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+ result = 'v'
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+ result << pack_int(@values.size)
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+ result << pack_doubles(@values)
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+ result.encode(Encoding::ASCII_8BIT)
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+ end
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+
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+ def self._load(*)
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+ end
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+ end
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+ end
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+
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+ data_size = 10_000
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+ vector_size = 1_000
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+ values = Array.new(vector_size) { |x| rand(10_000..100_000) }
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+
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+ @data1 = Array.new(data_size) {|i| Standard::LabeledPoint.new(i, values)}
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+ @data2 = Array.new(data_size) {|i| Custom::LabeledPoint.new(i, values)}
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+
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+ Benchmark.ips do |r|
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+ r.report('standard') do
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+ Marshal.dump(@data1)
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+ end
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+
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+ r.report('custom') do
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+ Marshal.dump(@data2)
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+ end
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+
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+ r.compare!
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+ end
@@ -0,0 +1,150 @@
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+ lib = File.expand_path(File.dirname(__FILE__) + '/../lib')
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+ $LOAD_PATH.unshift(lib) if File.directory?(lib) && !$LOAD_PATH.include?(lib)
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+
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+ def java?
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+ RUBY_PLATFORM =~ /java/
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+ end
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+
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+ unless java?
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+ require 'murmurhash3'
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+ end
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+
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+ require 'digest'
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+ require 'benchmark'
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+ require 'ruby-spark'
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+
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+ TEST = 5_000_000
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+ WORDS = ["wefwefwef", "rgwefiwefwe", "a", "rujfwgrethrzjrhgawf", "irncrnuggo"]
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+
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+ puts "TEST COUNT = #{TEST*WORDS.size}"
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+
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+ # =================================================================================================
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+ # Pure ruby mumrumur
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+ # funny-falcon/murmurhash3-ruby
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+
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+ MASK32 = 0xffffffff
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+
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+ def murmur3_32_rotl(x, r)
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+ ((x << r) | (x >> (32 - r))) & MASK32
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+ end
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+
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+ def murmur3_32_fmix(h)
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+ h &= MASK32
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+ h ^= h >> 16
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+ h = (h * 0x85ebca6b) & MASK32
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+ h ^= h >> 13
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+ h = (h * 0xc2b2ae35) & MASK32
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+ h ^ (h >> 16)
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+ end
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+
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+ def murmur3_32__mmix(k1)
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+ k1 = (k1 * 0xcc9e2d51) & MASK32
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+ k1 = murmur3_32_rotl(k1, 15)
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+ (k1 * 0x1b873593) & MASK32
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+ end
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+
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+ def murmur3_32_str_hash(str, seed=0)
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+ h1 = seed
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+ numbers = str.unpack('V*C*')
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+ tailn = str.bytesize % 4
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+ tail = numbers.slice!(numbers.size - tailn, tailn)
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+ for k1 in numbers
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+ h1 ^= murmur3_32__mmix(k1)
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+ h1 = murmur3_32_rotl(h1, 13)
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+ h1 = (h1*5 + 0xe6546b64) & MASK32
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+ end
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+
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+ unless tail.empty?
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+ k1 = 0
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+ tail.reverse_each do |c1|
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+ k1 = (k1 << 8) | c1
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+ end
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+ h1 ^= murmur3_32__mmix(k1)
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+ end
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+
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+ h1 ^= str.bytesize
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+ murmur3_32_fmix(h1)
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+ end
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+
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+
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+ # =================================================================================================
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+ # Benchmark
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+
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+ Benchmark.bm(18) do |x|
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+
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+ x.report("ruby hash"){
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+ TEST.times{
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+ WORDS.each{ |word|
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+ word.hash
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+ }
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+ }
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+ }
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+
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+ x.report("ext portable"){
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+ TEST.times{
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+ WORDS.each{ |word|
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+ Spark::Digest.portable_hash(word)
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+ }
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+ }
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+ }
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+
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+ x.report("murmur3 32"){
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+ TEST.times{
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+ WORDS.each{ |word|
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+ # MurmurHash3::V128.str_hash(word)
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+ # [MurmurHash3::V128.str_hash(word).join.to_i].pack("q>")
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+ # MurmurHash3::V128.str_hash(word)
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+ # a = MurmurHash3::V32.str_hash(word).to_s
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+ # a.slice!(0,8)
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+
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+ MurmurHash3::V32.str_hash(word)
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+ }
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+ }
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+ } unless java?
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+
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+ # Too slow
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+ # x.report("murmur3 32 (ruby)"){
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+ # TEST.times{
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+ # WORDS.each{ |word|
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+ # # MurmurHash3::V128.str_hash(word)
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+ # # [MurmurHash3::V128.str_hash(word).join.to_i].pack("q>")
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+ # # MurmurHash3::V128.str_hash(word)
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+ # # a = murmur3_32_str_hash(word).to_s
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+ # # a.slice!(0,8)
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+
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+ # murmur3_32_str_hash(word)
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+ # }
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+ # }
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+ # }
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+
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+ x.report("murmur3 128"){
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+ TEST.times{
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+ WORDS.each{ |word|
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+ # MurmurHash3::V128.str_hash(word)
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+ # [MurmurHash3::V128.str_hash(word).join.to_i].pack("q>")
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+ # a = MurmurHash3::V128.str_hash(word).to_s
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+ # a.slice!(0,8)
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+
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+ MurmurHash3::V128.str_hash(word)
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+ }
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+ }
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+ } unless java?
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+
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+ # x.report("sha256"){
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+ # TEST.times{
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+ # WORDS.each{ |word|
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+ # a = Digest::SHA256.digest(word)
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+ # # a.slice!(0,8)
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+ # }
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+ # }
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+ # }
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+
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+ # x.report("md5"){
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+ # TEST.times{
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+ # WORDS.each{ |word|
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+ # a = Digest::MD5.digest(word)
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+ # # a.slice!(0,8)
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+ # }
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+ # }
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+ # }
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+ end
@@ -0,0 +1,88 @@
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+ require "benchmark"
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+
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+ class Enumerator
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+ def defer(&blk)
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+ self.class.new do |y|
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+ each do |*input|
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+ blk.call(y, *input)
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+ end
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+ end
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+ end
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+ end
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+
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+ ARRAY_SIZE = 50_000_000
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+
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+ def type_yield
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+ return to_enum(__callee__) unless block_given?
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+
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+ ARRAY_SIZE.times { |i|
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+ yield i
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+ }
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+ end
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+
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+ def yield_map_x2(enum)
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+ return to_enum(__callee__, enum) unless block_given?
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+
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+ enum.each do |item|
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+ yield item*2
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+ end
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+ end
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+
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+ def type_enumerator_new
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+ Enumerator.new do |e|
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+ ARRAY_SIZE.times { |i|
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+ e << i
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+ }
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+ end
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+ end
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+
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+ def enumerator_new_map_x2(enum)
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+ Enumerator.new do |e|
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+ enum.each do |item|
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+ e << item*2
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+ end
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+ end
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+ end
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+
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+ def enumerator_defer_x2(enum)
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+ enum.defer do |out, inp|
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+ out << inp*2
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+ end
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+ end
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+
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+ Benchmark.bm(26) do |x|
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+ x.report("yield max") do
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+ type_yield.max
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+ end
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+
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+ x.report("yield sum") do
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+ type_yield.reduce(:+)
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+ end
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+
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+ x.report("yield map x*2 sum") do
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+ yield_map_x2(type_yield).reduce(:+)
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+ end
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+
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+ x.report("yield defer map x*2 sum") do
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+ enumerator_defer_x2(type_yield).reduce(:+)
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+ end
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+
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+ x.report("-----"){}
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+
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+ x.report("Enum.new max") do
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+ type_enumerator_new.max
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+ end
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+
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+ x.report("Enum.new sum") do
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+ type_enumerator_new.reduce(:+)
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+ end
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+
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+ x.report("Enum.new map x*2 sum") do
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+ enumerator_new_map_x2(type_enumerator_new).reduce(:+)
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+ end
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+
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+ x.report("Enum.new defer map x*2 sum") do
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+ enumerator_defer_x2(type_enumerator_new).reduce(:+)
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+ end
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+
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+ end
@@ -0,0 +1,18 @@
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+ #!/usr/bin/env bash
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+
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+ # Current dir
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+ cd "$(dirname "$0")"
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+
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+ # Exit immediately if a pipeline returns a non-zero status.
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+ set -e
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+
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+ # Spark
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+ wget "http://d3kbcqa49mib13.cloudfront.net/spark-1.3.0-bin-hadoop2.4.tgz" -O spark.tgz
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+ tar xvzf spark.tgz
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+ mv spark-1.3.0-bin-hadoop2.4 spark
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+ rm spark.tgz
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+
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+ # RSpark (only for 1.3.0)
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+ git clone git@github.com:amplab-extras/SparkR-pkg.git rspark
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+ cd rspark
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+ SPARK_VERSION=1.3.0 ./install-dev.sh
@@ -0,0 +1,156 @@
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+ import os
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+ import math
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+ from time import time
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+ from random import random
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+ from operator import add
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+ from pyspark import SparkContext
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+
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+ sc = SparkContext(appName="Python", master="local[*]")
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+
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+ log_file = open(os.environ.get('PYTHON_LOG'), 'w')
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+
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+ def log(*values):
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+ values = map(lambda x: str(x), values)
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+ log_file.write(';'.join(values))
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+ log_file.write('\n')
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+
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+ workers = int(os.environ.get('WORKERS'))
18
+ numbers_count = int(os.environ.get('NUMBERS_COUNT'))
19
+ text_file = os.environ.get('TEXT_FILE')
20
+
21
+ numbers = range(numbers_count)
22
+ floats = [float(i) for i in numbers]
23
+ with open(text_file) as t:
24
+ strings = t.read().split("\n")
25
+
26
+
27
+ # =============================================================================
28
+ # Serialization
29
+ # =============================================================================
30
+
31
+ t = time()
32
+ rdd_numbers = sc.parallelize(numbers, workers)
33
+ t = time() - t
34
+ log('NumbersSerialization', t)
35
+
36
+
37
+ t = time()
38
+ rdd_floats = sc.parallelize(floats, workers)
39
+ t = time() - t
40
+ log('FloatsSerialization', t)
41
+
42
+
43
+ t = time()
44
+ rdd_strings = sc.parallelize(strings, workers)
45
+ t = time() - t
46
+ log('StringsSerialization', t)
47
+
48
+
49
+ # =============================================================================
50
+ # Computing
51
+ # =============================================================================
52
+
53
+
54
+ # --- Is prime? ---------------------------------------------------------------
55
+
56
+ def is_prime(x):
57
+ if x < 2:
58
+ return [x, False]
59
+ elif x == 2:
60
+ return [x, True]
61
+ elif x % 2 == 0:
62
+ return [x, False]
63
+ else:
64
+ upper = int(math.sqrt(float(x)))
65
+ result = True
66
+
67
+ i = 3
68
+ while i <= upper:
69
+ if x % i == 0:
70
+ result = False
71
+ break
72
+
73
+ i += 2
74
+
75
+ return [x, result]
76
+
77
+ t = time()
78
+ rdd_numbers.map(is_prime).collect()
79
+ t = time() - t
80
+
81
+ log('IsPrime', t)
82
+
83
+
84
+ # --- Matrix multiplication ---------------------------------------------------
85
+
86
+ matrix_size = int(os.environ.get('MATRIX_SIZE'))
87
+
88
+ matrix = []
89
+ for row in range(matrix_size):
90
+ matrix.append([])
91
+ for col in range(matrix_size):
92
+ matrix[row].append(row+col)
93
+
94
+ def multiplication_func(matrix):
95
+ matrix = list(matrix)
96
+ size = len(matrix)
97
+
98
+ new_matrix = []
99
+ for row in range(size):
100
+ new_matrix.append([])
101
+ for col in range(size):
102
+
103
+ result = 0
104
+ for i in range(size):
105
+ result += matrix[row][i] * matrix[col][i]
106
+ new_matrix[row].append(result)
107
+
108
+ return new_matrix
109
+
110
+ t = time()
111
+ rdd = sc.parallelize(matrix, 1)
112
+ rdd.mapPartitions(multiplication_func).collect()
113
+ t = time() - t
114
+
115
+ log('MatrixMultiplication', t)
116
+
117
+
118
+ # --- Pi digits ---------------------------------------------------------------
119
+ # http://rosettacode.org/wiki/Pi#Python
120
+
121
+ pi_digit = int(os.environ.get('PI_DIGIT'))
122
+
123
+ def pi_func(size):
124
+ size = size.next()
125
+ result = ''
126
+
127
+ q, r, t, k, n, l = 1, 0, 1, 1, 3, 3
128
+ while size > 0:
129
+ if 4*q+r-t < n*t:
130
+ result += str(n)
131
+ size -= 1
132
+ nr = 10*(r-n*t)
133
+ n = ((10*(3*q+r))//t)-10*n
134
+ q *= 10
135
+ r = nr
136
+ else:
137
+ nr = (2*q+r)*l
138
+ nn = (q*(7*k)+2+(r*l))//(t*l)
139
+ q *= k
140
+ t *= l
141
+ l += 2
142
+ k += 1
143
+ n = nn
144
+ r = nr
145
+
146
+ return [result]
147
+
148
+ t = time()
149
+ rdd = sc.parallelize([pi_digit], 1)
150
+ rdd.mapPartitions(pi_func).collect()
151
+ t = time() - t
152
+
153
+ log('PiDigit', t)
154
+
155
+
156
+ log_file.close()