tomoto 0.4.0-aarch64-linux

data/lib/tomoto/dt.rb

@@ -0,0 +1,15 @@
+module Tomoto
+  class DT
+    def self.new(tw: :one, min_cf: 0, min_df: 0, rm_top: 0, k: 1, t: 1, alpha_var: 0.1, eta_var: 0.1, phi_var: 0.1, lr_a: 0.01, lr_b: 0.1, lr_c: 0.55) #, seed: nil)
+      model = _new(to_tw(tw), k, t, alpha_var, eta_var, phi_var, lr_a, lr_b, lr_c)
+      model.instance_variable_set(:@min_cf, min_cf)
+      model.instance_variable_set(:@min_df, min_df)
+      model.instance_variable_set(:@rm_top, rm_top)
+      init_params(model, binding)
+    end
+
+    def add_doc(doc, timepoint: 0)
+      _add_doc(prepare_doc(doc), timepoint)
+    end
+  end
+end

data/lib/tomoto/gdmr.rb

@@ -0,0 +1,15 @@
+module Tomoto
+  class GDMR
+    def self.new(tw: :one, min_cf: 0, min_df: 0, rm_top: 0, k: 1, degrees: [], alpha: 0.1, eta: 0.01, sigma: 1.0, sigma0: 3.0, alpha_epsilon: 1e-10, seed: nil)
+      model = _new(to_tw(tw), k, degrees, alpha, sigma, sigma0, eta, alpha_epsilon, seed || -1)
+      model.instance_variable_set(:@min_cf, min_cf)
+      model.instance_variable_set(:@min_df, min_df)
+      model.instance_variable_set(:@rm_top, rm_top)
+      init_params(model, binding)
+    end
+
+    def add_doc(doc, numeric_metadata: [])
+      _add_doc(prepare_doc(doc), numeric_metadata)
+    end
+  end
+end

data/lib/tomoto/hdp.rb

@@ -0,0 +1,11 @@
+module Tomoto
+  class HDP
+    def self.new(tw: :one, min_cf: 0, min_df: 0, rm_top: 0, initial_k: 2, alpha: 0.1, eta: 0.01, gamma: 0.1, seed: nil)
+      model = _new(to_tw(tw), initial_k, alpha, eta, gamma, seed || -1)
+      model.instance_variable_set(:@min_cf, min_cf)
+      model.instance_variable_set(:@min_df, min_df)
+      model.instance_variable_set(:@rm_top, rm_top)
+      init_params(model, binding)
+    end
+  end
+end

data/lib/tomoto/hlda.rb

@@ -0,0 +1,56 @@
+module Tomoto
+  class HLDA
+    def self.new(tw: :one, min_cf: 0, min_df: 0, rm_top: 0, depth: 2, alpha: 0.1, eta: 0.01, gamma: 0.1, seed: nil)
+      model = _new(to_tw(tw), depth, alpha, eta, gamma, seed || -1)
+      model.instance_variable_set(:@min_cf, min_cf)
+      model.instance_variable_set(:@min_df, min_df)
+      model.instance_variable_set(:@rm_top, rm_top)
+      init_params(model, binding)
+    end
+
+    def children_topics(topic_id)
+      check_topic(topic_id)
+      _children_topics(topic_id)
+    end
+
+    def level(topic_id)
+      check_topic(topic_id)
+      _live_topic?(topic_id) ? _level(topic_id) : -1
+    end
+
+    def live_topic?(topic_id)
+      check_topic(topic_id)
+      _live_topic?(topic_id)
+    end
+
+    def num_docs_of_topic(topic_id)
+      check_topic(topic_id)
+      _num_docs_of_topic(topic_id)
+    end
+
+    def parent_topic(topic_id)
+      check_topic(topic_id)
+      _live_topic?(topic_id) ? _parent_topic(topic_id) : -1
+    end
+
+    private
+
+    def check_topic(topic_id)
+      raise "topic_id must be < K" if topic_id >= k
+      raise "train() should be called first" unless @prepared
+    end
+
+    def topics_info(summary, topic_word_top_n:)
+      counts = count_by_topics
+
+      nested_info = lambda do |k = 0, level = 0|
+        words = topic_words(k, top_n: topic_word_top_n).keys.join(" ")
+        summary << "| #{"  " * level}##{k} (#{counts[k]}) : #{words}"
+        children_topics(k).sort.each do |c|
+          nested_info.call(c, level + 1)
+        end
+      end
+      nested_info.call
+    end
+  end
+end

data/lib/tomoto/hpa.rb

@@ -0,0 +1,11 @@
+module Tomoto
+  class HPA
+    def self.new(tw: :one, min_cf: 0, min_df: 0, rm_top: 0, k1: 1, k2: 1, alpha: 0.1, eta: 0.01, seed: nil)
+      model = _new(to_tw(tw), k1, k2, alpha, eta, seed || -1)
+      model.instance_variable_set(:@min_cf, min_cf)
+      model.instance_variable_set(:@min_df, min_df)
+      model.instance_variable_set(:@rm_top, rm_top)
+      init_params(model, binding)
+    end
+  end
+end

data/lib/tomoto/lda.rb

@@ -0,0 +1,186 @@
+module Tomoto
+  class LDA
+    def self.new(tw: :one, min_cf: 0, min_df: 0, rm_top: 0, k: 1, alpha: 0.1, eta: 0.01, seed: nil)
+      model = _new(to_tw(tw), k, alpha, eta, seed || -1)
+      model.instance_variable_set(:@min_cf, min_cf)
+      model.instance_variable_set(:@min_df, min_df)
+      model.instance_variable_set(:@rm_top, rm_top)
+      init_params(model, binding)
+    end
+
+    def self.load(filename)
+      model = new
+      model._load(filename)
+      model
+    end
+
+    def add_doc(doc)
+      _add_doc(prepare_doc(doc))
+    end
+
+    def make_doc(doc)
+      _make_doc(tokenize_doc(doc))
+    end
+
+    # TODO support multiple docs
+    def infer(doc, iter: 100, tolerance: -1, workers: 0, parallel: :default, together: 0)
+      raise "cannot infer with untrained model" unless trained?
+      _infer(doc, iter, tolerance, workers, to_ps(parallel), together)
+    end
+
+    def count_by_topics
+      prepare
+      _count_by_topics
+    end
+
+    def removed_top_words
+      prepare
+      _removed_top_words(@rm_top)
+    end
+
+    def save(filename, full: true)
+      _save(filename, full)
+    end
+
+    # returns string instead of printing
+    def summary(initial_hp: true, params: true, topic_word_top_n: 5)
+      summary = []
+
+      summary << "<Basic Info>"
+      basic_info(summary)
+      summary << "|"
+
+      summary << "<Training Info>"
+      training_info(summary)
+      summary << "|"
+
+      if initial_hp
+        summary << "<Initial Parameters>"
+        initial_params_info(summary)
+        summary << "|"
+      end
+
+      if params
+        summary << "<Parameters>"
+        params_info(summary)
+        summary << "|"
+      end
+
+      if topic_word_top_n > 0
+        summary << "<Topics>"
+        topics_info(summary, topic_word_top_n: topic_word_top_n)
+        summary << "|"
+      end
+
+      # skip ending |
+      summary.pop
+
+      summary.join("\n")
+    end
+
+    def topic_words(topic_id = nil, top_n: 10)
+      if topic_id
+        _topic_words(topic_id, top_n)
+      else
+        k.times.map { |i| _topic_words(i, top_n) }
+      end
+    end
+
+    # TODO raise error if iterations < 1
+    def train(iterations = 10, workers: 0, parallel: :default)
+      prepare
+      _train(iterations, workers, to_ps(parallel))
+    end
+
+    def tw
+      TERM_WEIGHT[_tw]
+    end
+
+    private
+
+    def trained?
+      global_step.positive?
+    end
+
+    def prepare
+      unless defined?(@prepared)
+        _prepare(@min_cf, @min_df, @rm_top)
+        @prepared = true
+      end
+    end
+
+    def prepare_doc(doc)
+      raise "cannot add_doc() after train()" if defined?(@prepared)
+      tokenize_doc(doc)
+    end
+
+    def tokenize_doc(doc)
+      doc = doc.split(/[[:space:]]+/) unless doc.is_a?(Array)
+      doc
+    end
+
+    def basic_info(summary)
+      sum = used_vocab_freq.sum.to_f
+      mapped = used_vocab_freq.map { |v| v / sum }
+      entropy = mapped.map { |v| v * Math.log(v) }.sum
+
+      summary << "| #{self.class.name.sub("Tomoto::", "")} (current version: #{VERSION})"
+      summary << "| #{num_docs} docs, #{num_words} words"
+      summary << "| Total Vocabs: #{vocabs.size}, Used Vocabs: #{used_vocabs.size}"
+      summary << "| Entropy of words: %.5f" % entropy
+      summary << "| Removed Vocabs: #{removed_top_words.any? ? removed_top_words.join(" ") : "<NA>"}"
+    end
+
+    def training_info(summary)
+      summary << "| Iterations: #{global_step}, Burn-in steps: #{burn_in}"
+      summary << "| Optimization Interval: #{optim_interval}"
+      summary << "| Log-likelihood per word: %.5f" % ll_per_word
+    end
+
+    def initial_params_info(summary)
+      if defined?(@init_params)
+        @init_params.each do |k, v|
+          summary << "| #{k}: #{v}"
+        end
+      else
+        summary << "| Not Available"
+      end
+    end
+
+    def params_info(summary)
+      summary << "| alpha (Dirichlet prior on the per-document topic distributions)"
+      summary << "|  #{alpha}"
+      summary << "| eta (Dirichlet prior on the per-topic word distribution)"
+      summary << "|  %.5f" % eta
+    end
+
+    def topics_info(summary, topic_word_top_n:)
+      counts = count_by_topics
+      topic_words(top_n: topic_word_top_n).each_with_index do |words, i|
+        summary << "| ##{i} (#{counts[i]}) : #{words.keys.join(" ")}"
+      end
+    end
+
+    def to_ps(ps)
+      PARALLEL_SCHEME.index(ps) || (raise ArgumentError, "Invalid parallel scheme: #{ps}")
+    end
+
+    class << self
+      private
+
+      def to_tw(tw)
+        TERM_WEIGHT.index(tw) || (raise ArgumentError, "Invalid tw: #{tw}")
+      end
+
+      def init_params(model, binding)
+        init_params = {}
+        method(:new).parameters.each do |v|
+          next if v[0] != :key
+          init_params[v[1]] = binding.local_variable_get(v[1]).inspect
+        end
+        model.instance_variable_set(:@init_params, init_params)
+        model
+      end
+    end
+  end
+end

data/lib/tomoto/llda.rb

@@ -0,0 +1,15 @@
+module Tomoto
+  class LLDA
+    def self.new(tw: :one, min_cf: 0, min_df: 0, rm_top: 0, k: 1, alpha: 0.1, eta: 0.01, seed: nil)
+      model = _new(to_tw(tw), k, alpha, eta, seed || -1)
+      model.instance_variable_set(:@min_cf, min_cf)
+      model.instance_variable_set(:@min_df, min_df)
+      model.instance_variable_set(:@rm_top, rm_top)
+      init_params(model, binding)
+    end
+
+    def add_doc(doc, labels: [])
+      _add_doc(prepare_doc(doc), labels)
+    end
+  end
+end

data/lib/tomoto/mglda.rb

@@ -0,0 +1,15 @@
+module Tomoto
+  class MGLDA
+    def self.new(tw: :one, min_cf: 0, min_df: 0, rm_top: 0, k_g: 1, k_l: 1, t: 3, alpha_g: 0.1, alpha_l: 0.1, alpha_mg: 0.1, alpha_ml: 0.1, eta_g: 0.01) #, eta_l: 0.01, gamma: 0.1, seed: nil)
+      model = _new(to_tw(tw), k_g, k_l, t, alpha_g, alpha_l, alpha_mg, alpha_ml, eta_g)
+      model.instance_variable_set(:@min_cf, min_cf)
+      model.instance_variable_set(:@min_df, min_df)
+      model.instance_variable_set(:@rm_top, rm_top)
+      init_params(model, binding)
+    end
+
+    def add_doc(doc, delimiter: ".")
+      _add_doc(prepare_doc(doc), delimiter)
+    end
+  end
+end

data/lib/tomoto/pa.rb

@@ -0,0 +1,11 @@
+module Tomoto
+  class PA
+    def self.new(tw: :one, min_cf: 0, min_df: 0, rm_top: 0, k1: 1, k2: 1, alpha: 0.1, eta: 0.01, seed: nil)
+      model = _new(to_tw(tw), k1, k2, alpha, eta, seed || -1)
+      model.instance_variable_set(:@min_cf, min_cf)
+      model.instance_variable_set(:@min_df, min_df)
+      model.instance_variable_set(:@rm_top, rm_top)
+      init_params(model, binding)
+    end
+  end
+end

data/lib/tomoto/plda.rb

@@ -0,0 +1,15 @@
+module Tomoto
+  class PLDA
+    def self.new(tw: :one, min_cf: 0, min_df: 0, rm_top: 0, latent_topics: 1, alpha: 0.1, eta: 0.01, seed: nil)
+      model = _new(to_tw(tw), latent_topics, alpha, eta, seed || -1)
+      model.instance_variable_set(:@min_cf, min_cf)
+      model.instance_variable_set(:@min_df, min_df)
+      model.instance_variable_set(:@rm_top, rm_top)
+      init_params(model, binding)
+    end
+
+    def add_doc(doc, labels: [])
+      _add_doc(prepare_doc(doc), labels)
+    end
+  end
+end

data/lib/tomoto/slda.rb

@@ -0,0 +1,37 @@
+module Tomoto
+  class SLDA
+    def self.new(tw: :one, min_cf: 0, min_df: 0, rm_top: 0, k: 1, vars: "", alpha: 0.1, eta: 0.01, mu: [], nu_sq: [], glm_param: [], seed: nil)
+      model = _new(to_tw(tw), k, vars.split("").map { |v| to_glm(v) }, alpha, eta, mu, nu_sq, glm_param, seed || -1)
+      model.instance_variable_set(:@min_cf, min_cf)
+      model.instance_variable_set(:@min_df, min_df)
+      model.instance_variable_set(:@rm_top, rm_top)
+      init_params(model, binding)
+    end
+
+    def add_doc(doc, y: [])
+      _add_doc(prepare_doc(doc), y)
+    end
+
+    def var_type(var_id)
+      raise "train() should be called first" unless @prepared
+      _var_type(var_id)
+    end
+
+    private
+
+    class << self
+      private
+
+      def to_glm(v)
+        case v
+        when "l"
+          0
+        when "b"
+          1
+        else
+          raise "Invalid var: #{v}"
+        end
+      end
+    end
+  end
+end

data/lib/tomoto/version.rb

@@ -0,0 +1,3 @@
+module Tomoto
+  VERSION = "0.4.0"
+end

data/lib/tomoto.rb

@@ -0,0 +1,27 @@
+# ext
+begin
+  require "tomoto/#{RUBY_VERSION.to_f}/tomoto"
+rescue LoadError
+  require "tomoto/tomoto"
+end
+
+# modules
+require_relative "tomoto/ct"
+require_relative "tomoto/dmr"
+require_relative "tomoto/dt"
+require_relative "tomoto/gdmr"
+require_relative "tomoto/hdp"
+require_relative "tomoto/hlda"
+require_relative "tomoto/hpa"
+require_relative "tomoto/lda"
+require_relative "tomoto/llda"
+require_relative "tomoto/mglda"
+require_relative "tomoto/pa"
+require_relative "tomoto/plda"
+require_relative "tomoto/slda"
+require_relative "tomoto/version"
+
+module Tomoto
+  PARALLEL_SCHEME = [:default, :none, :copy_merge, :partition]
+  TERM_WEIGHT = [:one, :idf, :pmi]
+end

data/vendor/EigenRand/EigenRand/EigenRand

@@ -0,0 +1,24 @@
+/**
+ * @file EigenRand
+ * @author bab2min (bab2min@gmail.com)
+ * @brief 
+ * @version 0.4.1
+ * @date 2022-08-13
+ * 
+ * @copyright Copyright (c) 2020-2021
+ * 
+ */
+
+#ifndef EIGENRAND_EIGENRAND_H
+#define EIGENRAND_EIGENRAND_H
+
+#include <Eigen/Dense>
+
+#include <Eigen/src/Core/util/DisableStupidWarnings.h>
+
+#include "Macro.h"
+#include "Core.h"
+
+#include <Eigen/src/Core/util/ReenableStupidWarnings.h>
+
+#endif

data/vendor/EigenRand/LICENSE

@@ -0,0 +1,21 @@
+MIT License
+
+Copyright (c) 2020, bab2min
+
+Permission is hereby granted, free of charge, to any person obtaining a copy
+of this software and associated documentation files (the "Software"), to deal
+in the Software without restriction, including without limitation the rights
+to use, copy, modify, merge, publish, distribute, sublicense, and/or sell
+copies of the Software, and to permit persons to whom the Software is
+furnished to do so, subject to the following conditions:
+
+The above copyright notice and this permission notice shall be included in all
+copies or substantial portions of the Software.
+
+THE SOFTWARE IS PROVIDED "AS IS", WITHOUT WARRANTY OF ANY KIND, EXPRESS OR
+IMPLIED, INCLUDING BUT NOT LIMITED TO THE WARRANTIES OF MERCHANTABILITY,
+FITNESS FOR A PARTICULAR PURPOSE AND NONINFRINGEMENT. IN NO EVENT SHALL THE
+AUTHORS OR COPYRIGHT HOLDERS BE LIABLE FOR ANY CLAIM, DAMAGES OR OTHER
+LIABILITY, WHETHER IN AN ACTION OF CONTRACT, TORT OR OTHERWISE, ARISING FROM,
+OUT OF OR IN CONNECTION WITH THE SOFTWARE OR THE USE OR OTHER DEALINGS IN THE
+SOFTWARE.