rbbt-util 5.44.1 → 6.0.3

data/lib/rbbt/tsv/index.rb

@@ -1,284 +1,2 @@
-require 'rbbt/fix_width_table'
-require 'rbbt/util/misc'
-
-require 'rbbt/persist'
-require 'rbbt/persist/tsv'
-
-require 'rbbt/tsv/manipulate'
-require 'rbbt/tsv/filter'
-
-module TSV
-
-  def index(options = {})
-    options = Misc.add_defaults options, 
-      :target => :key, :fields => nil, :type => :single, :order => false
-
-    persist_options = Misc.pull_keys options, :persist
-    persist_options[:prefix] ||= "Index[#{options[:target] || :key}]"
-
-    Log.debug "Index: #{ filename } - #{Misc.fingerprint options}"
-    Persist.persist_tsv self, filename, options, persist_options do |new|
-      with_unnamed do
-        target, fields, index_type, order = Misc.process_options options, :target, :fields, :type, :order
-
-        new.serializer = index_type if new.respond_to? :serializer and new.serializer == :type
-
-        if order
-
-          # Maybe best to do the stuff in memory first instead of the original
-          # object, which could be persisted
-          save = new
-          new = {} 
-
-          new_key_field, new_fields = through target, fields, true do |key, values|
-            next if key.empty? 
-            case type
-            when :single
-              values = [values]
-              values.unshift key
-            when :double
-              values = values.dup
-              values.unshift [key]
-            when :list, :flat
-              values = values.dup
-              values.unshift key
-            end
-
-            values.each_with_index do |list, i|
-              list = [list] unless type == :double
-
-              list.uniq.each do |value|
-                if new.include? value
-                  new_value = new[value]
-                else
-                  new_value = []
-                end
-
-                if new_value[i].nil?
-                  new_value[i] =  key
-                else
-                  new_value[i] += "|" <<  key 
-                end
-                new[value] = new_value
-              end
-            end
-          end
-
-          # Update original object
-          new.each do |key, values|
-            case
-            when index_type == :double
-              save[key] = [values.compact.collect{|v| v.split "|"}.flatten.uniq]
-            when index_type == :flat
-              save[key] = values.compact.collect{|v| v.split "|"}.flatten.uniq
-            when index_type == :single
-              save[key] = values.compact.collect{|v| v.split "|"}.flatten.first
-            end
-          end
-
-          new = save
-        else
-          new_key_field, new_fields = through target, fields, true do |key, values|
-            case
-            when type == :single
-              values = [values]
-            when type == :double
-              values = values.flatten
-            else
-              values = values.dup
-            end
-
-            values.unshift key
-
-            values.uniq.each do |value|
-              case index_type
-              when :double
-                if not new.include? value
-                  new[value] = [[key]]
-                else
-                  current = new[value]
-                  current[0] << key
-                  new[value] = current
-                end
-              when :flat
-                if not new.include? value
-                  new[value] = [key]
-                else
-                  current = new[value]
-                  current << key
-                  new[value] = current
-                end
-
-              else
-                new[value] = key unless new.include? value
-              end
-            end
-          end
-        end
-
-        new_fields = [] if new_fields.nil?
-        TSV.setup(new, :type => index_type, :filename => filename, :fields => [new_key_field], :key_field => new_fields * ", ", :namespace => namespace)
-      end
-    end
-  end
-
-  def self.index(file, options = {})
-    persist_options = Misc.pull_keys options, :persist
-    persist_options[:prefix] ||= "StaticIndex[#{options[:target] || :key}]"
-
-    Log.debug "Static Index: #{ file } - #{Misc.fingerprint options}"
-    Persist.persist_tsv nil, file, options, persist_options do |data|
-      data_options = Misc.pull_keys options, :data
-      data_options[:grep] ||= data_options[:tsv_grep] if data_options[:tsv_grep]
-      identifiers = TSV.open(file, data_options)
-      identifiers.with_monitor :desc => "Creating Index for #{ file }" do
-        identifiers.index(options.merge :persist_data => data, :persist => persist_options[:persist])
-      end
-    end
-  end
-
-  def pos_index(pos_field = nil, options = {})
-    pos_field ||= "Position"
-
-    options = Misc.add_defaults options,
-      :persist => false, :persist_file => nil, :persist_update => false 
-
-    persist_options = Misc.pull_keys options, :persist
-    persist_options[:prefix] ||= "PosIndex[#{pos_field}]"
-
-    Persist.persist(filename || self.object_id.to_s, :fwt, persist_options) do 
-      max_key_size = 0
-      index_data = []
-      with_unnamed do
-        with_monitor :desc => "Creating Index Data", :step => 10000 do
-          through :key, pos_field do |key, values|
-            key_size = key.length
-            max_key_size = key_size if key_size > max_key_size
-
-            pos = values.first
-            if Array === pos
-              pos.each do |p|
-                index_data << [key, p.to_i]
-              end
-            else
-              index_data << [key, pos.to_i]
-            end
-          end
-        end
-      end
-
-      index = FixWidthTable.get(:memory, max_key_size, false)
-      index.add_point index_data
-      index.read
-      index
-    end
-  end
-
-  def self.pos_index(file, pos_field = nil, options = {})
-    pos_field ||= "Position"
-
-    data_options = Misc.pull_keys options, :data
-    filename = case
-               when (String === file or Path === file)
-                 file
-               when file.respond_to?(:filename)
-                 file.filename
-               else
-                 file.object_id.to_s
-               end
-    persist_options = Misc.pull_keys options, :persist
-    persist_options[:prefix] ||= "StaticPosIndex[#{pos_field}]"
-
-    filters = Misc.process_options options, :filters
-
-    if filters
-      filename += ":Filtered[#{filters.collect{|f| f * "="} * ", "}]"
-    end
-
-    Persist.persist(filename, :fwt, persist_options) do
-      tsv = TSV.open(file, data_options)
-      if filters
-        tsv.filter
-        filters.each do |match, value|
-          tsv.add_filter match, value
-        end
-      end
-      tsv.pos_index(pos_field, options)
-    end
-  end
-
-  def range_index(start_field = nil, end_field = nil, options = {})
-    start_field ||= "Start"
-    end_field ||= "End"
-
-    options = Misc.add_defaults options,
-      :persist => false, :persist_file => nil, :persist_update => false 
-
-    persist_options = Misc.pull_keys options, :persist
-    persist_options[:prefix] ||= "RangeIndex[#{start_field}-#{end_field}]"
-
-    Persist.persist(filename || self.object_id.to_s, :fwt, persist_options) do 
-      max_key_size = 0
-      index_data = []
-      with_unnamed do
-        with_monitor :desc => "Creating Index Data", :step => 10000 do
-          through :key, [start_field, end_field] do |key, values|
-            key_size = key.length
-            max_key_size = key_size if key_size > max_key_size
-
-            start_pos, end_pos = values
-            if Array === start_pos
-              start_pos.zip(end_pos).each do |s,e|
-                index_data << [key, [s.to_i, e.to_i]]
-              end
-            else
-              index_data << [key, [start_pos.to_i, end_pos.to_i]]
-            end
-          end
-        end
-      end
-
-      index = FixWidthTable.get(:memory, max_key_size, true)
-      index.add_range index_data
-      index.read
-      index
-    end
-  end
-
-  def self.range_index(file, start_field = nil, end_field = nil, options = {})
-    start_field ||= "Start"
-    end_field ||= "End"
-
-    data_options = Misc.pull_keys options, :data
-    filename = case
-               when (String === file or Path === file)
-                 file
-               when file.respond_to?(:filename)
-                 file.filename
-               else
-                 file.object_id.to_s
-               end
-
-    persist_options = Misc.pull_keys options, :persist
-    persist_options[:prefix] ||= "StaticRangeIndex[#{start_field}-#{end_field}]"
-
-    filters = Misc.process_options options, :filters
-
-    if filters
-      filename += ":Filtered[#{filters.collect{|f| f * "="} * ", "}]"
-    end
-
-    Persist.persist(filename, :fwt, persist_options) do
-      tsv = TSV.open(file, data_options)
-      if filters
-        tsv.filter
-        filters.each do |match, value|
-          tsv.add_filter match, value
-        end
-      end
- 
-      tsv.range_index(start_field, end_field, options)
-    end
-  end
-end
-
+require_relative '../refactor'
+Rbbt.require_instead 'scout/tsv'