rbbt-util 5.44.0 → 6.0.3

data/lib/rbbt/annotations/util.rb

@@ -1,282 +1,282 @@
-require 'json'
-
-module Annotated
-
-  def self.flatten(array)
-    return array unless Array === array and not array.empty?
-    array.extend AnnotatedArray if Annotated === array
-    return array.flatten if AnnotatedArray === array
-    begin
-      return array if array.compact.collect{|e| e.info }.uniq.length > 1
-    rescue
-      return array
-    end
-    array.compact.first.annotate(array.flatten).tap{|a| a.extend AnnotatedArray }
-  end
-
-  def self.load_entity(object, info)
-    annotation_types = info.delete(:annotation_types) || info.delete("annotation_types") || []
-    annotation_types = annotation_types.split("|") if String === annotation_types
-
-    return object if annotation_types.nil? or annotation_types.empty?
-
-    annotated_array = false
-    annotated_array = true if (info.delete(:annotated_array) || info.delete("annotated_array")).to_s == "true"
-    entity_id = info.delete(:entity_id) || info.delete("entity_id")
-
-    annotation_types.each do |mod|
-      begin
-        mod = Misc.string2const(mod) if String === mod
-        object.extend mod unless mod === object
-      rescue Exception
-        Log.warn "Exception loading annotation into object: #{$!.message}"
-      end
-    end
-
-    object.instance_variable_set(:@annotation_values, info) 
-
-    object.instance_variable_set(:@id, entity_id) if entity_id
-
-    object.extend AnnotatedArray if annotated_array and Array === object
-
-    object
-  end
-
-  def self.resolve_array(entry)
-    if String === entry && entry =~ /^Array:/
-      entry["Array:".length..-1].split("|")
-    else
-      entry
-    end
-  end
-
-  def self.load_info(fields, values)
-    info = {}
-    fields.each_with_index do |field,i|
-      next if field == "literal"
-      case field
-      when "JSON"
-        JSON.parse(values[i]).each do |key, value|
-          info[key.to_sym] = value
-        end
-      when nil
-        next
-      else
-        info[field.to_sym] = resolve_array(values[i])
-      end
-    end
-    info
-  end
-
-  def self.load_tsv_values(id, values, *fields)
-    fields = fields.flatten
-    literal_pos = fields.index "literal"
-
-    object = case
-             when literal_pos
-               values[literal_pos].tap{|o| o.force_encoding(Encoding.default_external)}
-             else
-               id.dup
-             end
-
-    object = resolve_array(object)
-
-    if Array === values.first
-      Misc.zip_fields(values).collect do |v|
-        info = load_info(fields, v)
-      end
-    else
-      info = load_info(fields, values)
-    end
-
-    self.load_entity(object, info)
-
-    object
-  end
-
-  def self.load_tsv(tsv)
-    tsv.with_unnamed do
-      annotated_entities = tsv.collect do |id, values|
-        Annotated.load_tsv_values(id, values, tsv.fields)
-      end
-
-      case tsv.key_field 
-      when "List"
-        annotated_entities.first
-      else
-        annotated_entities
-      end
-    end
-  end
-
-
-  def self.tsv(annotations, *fields)
-    return nil if annotations.nil?
-
-    fields = case
-
-             when ((fields.compact.empty?) && ! annotations.empty?)
-               fields = AnnotatedArray === annotations ? annotations.annotations : annotations.compact.first.annotations
-               fields << :annotation_types
-
-             when (fields == [:literal] and ! annotations.compact.empty?)
-               fields << :literal
-
-             when (fields == [:all] && Annotated === annotations)
-               annotation_names = annotations.annotations
-               annotation_names += annotations.first.annotations if Annotated === annotations.first
-               fields = [:annotation_types] + annotation_names.uniq
-               fields << :annotated_array if AnnotatedArray === annotations
-               fields << :literal
-
-             when (fields == [:all] && ! annotations.compact.empty?)
-               raise "Input array must be annotated or its elements must be" if not Annotated === annotations.compact.first and not Array === annotations.compact.first
-               raise "Input array must be annotated or its elements must be. No double arrays of singly annotated entities." if not Annotated === annotations.compact.first and Array === annotations.compact.first
-               fields = [:annotation_types] + (Annotated === annotations ? 
-                                               annotations.annotations: 
-                                               annotations.compact.first.annotations)
-               fields << :literal
-
-             when annotations.empty?
-               [:annotation_types, :literal]
-
-             else
-               fields.flatten
-
-             end
-
-    fields = fields.collect{|f| f.to_s}.uniq
-
-    case
-    when (Annotated === annotations and not (AnnotatedArray === annotations and annotations.double_array))
-      tsv = TSV.setup({}, :key_field => "List", :fields => fields, :type => :list, :unnamed => true)
-
-      annot_id = annotations.id
-      annot_id = annot_id * "," if Array === annot_id
-      tsv[annot_id] = annotations.tsv_values(*fields).dup
-
-    when Array === annotations 
-      tsv = TSV.setup({}, :key_field => "ID", :fields => fields, :type => :list, :unnamed => true)
-
-      annotations.compact.each_with_index do |annotation,i|
-        tsv[annotation.id + "#" << i.to_s] = annotation.tsv_values(*fields).dup
-      end
-
-    else
-      raise "Annotations need to be an Array to create TSV"
-    end
-
-    tsv
-  end
-
-  def tsv_values(*fields)
-    if Array === self and (not AnnotatedArray === self or self.double_array)
-      Misc.zip_fields(self.compact.collect{|e| e.tsv_values(fields)})
-    else
-      fields = fields.flatten
-
-      info = self.info
-
-      values = []
-
-      fields.each do |field|
-        values << case
-
-        when Proc === field
-          field.call(self)
-
-        when field == "JSON"
-          if AnnotatedArray === self
-            info.merge(:annotated_array => true).to_json
-          else
-            info.to_json
-          end
-
-        when field == "annotation_types"
-          annotation_types.collect{|t| t.to_s} * "|"
-
-        when field == "annotated_array"
-          AnnotatedArray === self
-
-        when field == "literal"
-          (Array === self ? "Array:" << self * "|" : self).gsub(/\n|\t/, ' ')
-
-        when info.include?(field.to_sym)
-          res = info[field.to_sym]
-          Array === res ? "Array:" << res * "|" : res
-
-        when self.respond_to?(field)
-          res = self.send(field)
-          Array === res ? "Array:"<< res * "|" : res
-
-        end
-      end
-
-
-      values
-    end
-  end
-
-  def self.to_hash(e)
-    hash = {}
-    if Array === e && AnnotatedArray === e
-      hash[:literal] = Annotated.purge(e)
-      hash[:info] = e.info
-    elsif Array === e
-      hash = e.collect do |_e|
-        _hash = {}
-        _hash[:literal] = _e.dup
-        _hash[:info] = _e.info if _e.respond_to?(:info)
-        _hash
-      end
-    else
-      hash[:literal] = e.dup
-      hash[:info] = e.info
-    end
-    hash
-  end
-
-  def self.load_hash(hash)
-    if Array === hash
-      hash.collect{|h| load_hash(h) }
-    else
-      literal = hash[:literal]
-      info = hash[:info]
-      info[:annotation_types].each do |type|
-        type = Kernel.const_get(type) if String === type
-        type.setup(literal, info) 
-      end
-      literal
-    end
-  end
-
-  def marshal_dump
-    Annotated.to_hash(self)
-  end
-end
-
-class String
-  def marshal_load(hash)
-    if Hash === hash
-      e = Annotated.load_hash(hash)
-      self.replace e
-      e.annotate(self)
-      self
-    else
-      self.replace hash
-    end
-  end
-end
-
-class Array
-  def marshal_load(hash)
-    if Hash === hash
-      e = Annotated.load_hash(hash)
-      self.replace e
-      e.annotate(self)
-      self
-    else
-      self.replace hash
-    end
-  end
-end
+#require 'json'
+#
+#module Annotated
+#
+#  def self.flatten(array)
+#    return array unless Array === array and not array.empty?
+#    array.extend AnnotatedArray if Annotated === array
+#    return array.flatten if AnnotatedArray === array
+#    begin
+#      return array if array.compact.collect{|e| e.info }.uniq.length > 1
+#    rescue
+#      return array
+#    end
+#    array.compact.first.annotate(array.flatten).tap{|a| a.extend AnnotatedArray }
+#  end
+#
+#  def self.load_entity(object, info)
+#    annotation_types = info.delete(:annotation_types) || info.delete("annotation_types") || []
+#    annotation_types = annotation_types.split("|") if String === annotation_types
+#
+#    return object if annotation_types.nil? or annotation_types.empty?
+#
+#    annotated_array = false
+#    annotated_array = true if (info.delete(:annotated_array) || info.delete("annotated_array")).to_s == "true"
+#    entity_id = info.delete(:entity_id) || info.delete("entity_id")
+#
+#    annotation_types.each do |mod|
+#      begin
+#        mod = Misc.string2const(mod) if String === mod
+#        object.extend mod unless mod === object
+#      rescue Exception
+#        Log.warn "Exception loading annotation into object: #{$!.message}"
+#      end
+#    end
+#
+#    object.instance_variable_set(:@annotation_values, info) 
+#
+#    object.instance_variable_set(:@id, entity_id) if entity_id
+#
+#    object.extend AnnotatedArray if annotated_array and Array === object
+#
+#    object
+#  end
+#
+#  def self.resolve_array(entry)
+#    if String === entry && entry =~ /^Array:/
+#      entry["Array:".length..-1].split("|")
+#    else
+#      entry
+#    end
+#  end
+#
+#  def self.load_info(fields, values)
+#    info = {}
+#    fields.each_with_index do |field,i|
+#      next if field == "literal"
+#      case field
+#      when "JSON"
+#        JSON.parse(values[i]).each do |key, value|
+#          info[key.to_sym] = value
+#        end
+#      when nil
+#        next
+#      else
+#        info[field.to_sym] = resolve_array(values[i])
+#      end
+#    end
+#    info
+#  end
+#
+#  def self.load_tsv_values(id, values, *fields)
+#    fields = fields.flatten
+#    literal_pos = fields.index "literal"
+#
+#    object = case
+#             when literal_pos
+#               values[literal_pos].tap{|o| o.force_encoding(Encoding.default_external)}
+#             else
+#               id.dup
+#             end
+#
+#    object = resolve_array(object)
+#
+#    if Array === values.first
+#      Misc.zip_fields(values).collect do |v|
+#        info = load_info(fields, v)
+#      end
+#    else
+#      info = load_info(fields, values)
+#    end
+#
+#    self.load_entity(object, info)
+#
+#    object
+#  end
+#
+#  def self.load_tsv(tsv)
+#    tsv.with_unnamed do
+#      annotated_entities = tsv.collect do |id, values|
+#        Annotated.load_tsv_values(id, values, tsv.fields)
+#      end
+#
+#      case tsv.key_field 
+#      when "List"
+#        annotated_entities.first
+#      else
+#        annotated_entities
+#      end
+#    end
+#  end
+#
+#
+#  def self.tsv(annotations, *fields)
+#    return nil if annotations.nil?
+#
+#    fields = case
+#
+#             when ((fields.compact.empty?) && ! annotations.empty?)
+#               fields = AnnotatedArray === annotations ? annotations.annotations : annotations.compact.first.annotations
+#               fields << :annotation_types
+#
+#             when (fields == [:literal] and ! annotations.compact.empty?)
+#               fields << :literal
+#
+#             when (fields == [:all] && Annotated === annotations)
+#               annotation_names = annotations.annotations
+#               annotation_names += annotations.first.annotations if Annotated === annotations.first
+#               fields = [:annotation_types] + annotation_names.uniq
+#               fields << :annotated_array if AnnotatedArray === annotations
+#               fields << :literal
+#
+#             when (fields == [:all] && ! annotations.compact.empty?)
+#               raise "Input array must be annotated or its elements must be" if not Annotated === annotations.compact.first and not Array === annotations.compact.first
+#               raise "Input array must be annotated or its elements must be. No double arrays of singly annotated entities." if not Annotated === annotations.compact.first and Array === annotations.compact.first
+#               fields = [:annotation_types] + (Annotated === annotations ? 
+#                                               annotations.annotations: 
+#                                               annotations.compact.first.annotations)
+#               fields << :literal
+#
+#             when annotations.empty?
+#               [:annotation_types, :literal]
+#
+#             else
+#               fields.flatten
+#
+#             end
+#
+#    fields = fields.collect{|f| f.to_s}.uniq
+#
+#    case
+#    when (Annotated === annotations and not (AnnotatedArray === annotations and annotations.double_array))
+#      tsv = TSV.setup({}, :key_field => "List", :fields => fields, :type => :list, :unnamed => true)
+#
+#      annot_id = annotations.id
+#      annot_id = annot_id * "," if Array === annot_id
+#      tsv[annot_id] = annotations.tsv_values(*fields).dup
+#
+#    when Array === annotations 
+#      tsv = TSV.setup({}, :key_field => "ID", :fields => fields, :type => :list, :unnamed => true)
+#
+#      annotations.compact.each_with_index do |annotation,i|
+#        tsv[annotation.id + "#" << i.to_s] = annotation.tsv_values(*fields).dup
+#      end
+#
+#    else
+#      raise "Annotations need to be an Array to create TSV"
+#    end
+#
+#    tsv
+#  end
+#
+#  def tsv_values(*fields)
+#    if Array === self and (not AnnotatedArray === self or self.double_array)
+#      Misc.zip_fields(self.compact.collect{|e| e.tsv_values(fields)})
+#    else
+#      fields = fields.flatten
+#
+#      info = self.info
+#
+#      values = []
+#
+#      fields.each do |field|
+#        values << case
+#
+#        when Proc === field
+#          field.call(self)
+#
+#        when field == "JSON"
+#          if AnnotatedArray === self
+#            info.merge(:annotated_array => true).to_json
+#          else
+#            info.to_json
+#          end
+#
+#        when field == "annotation_types"
+#          annotation_types.collect{|t| t.to_s} * "|"
+#
+#        when field == "annotated_array"
+#          AnnotatedArray === self
+#
+#        when field == "literal"
+#          (Array === self ? "Array:" << self * "|" : self).gsub(/\n|\t/, ' ')
+#
+#        when info.include?(field.to_sym)
+#          res = info[field.to_sym]
+#          Array === res ? "Array:" << res * "|" : res
+#
+#        when self.respond_to?(field)
+#          res = self.send(field)
+#          Array === res ? "Array:"<< res * "|" : res
+#
+#        end
+#      end
+#
+#
+#      values
+#    end
+#  end
+#
+#  def self.to_hash(e)
+#    hash = {}
+#    if Array === e && AnnotatedArray === e
+#      hash[:literal] = Annotated.purge(e)
+#      hash[:info] = e.info
+#    elsif Array === e
+#      hash = e.collect do |_e|
+#        _hash = {}
+#        _hash[:literal] = _e.dup
+#        _hash[:info] = _e.info if _e.respond_to?(:info)
+#        _hash
+#      end
+#    else
+#      hash[:literal] = e.dup
+#      hash[:info] = e.info
+#    end
+#    hash
+#  end
+#
+#  def self.load_hash(hash)
+#    if Array === hash
+#      hash.collect{|h| load_hash(h) }
+#    else
+#      literal = hash[:literal]
+#      info = hash[:info]
+#      info[:annotation_types].each do |type|
+#        type = Kernel.const_get(type) if String === type
+#        type.setup(literal, info) 
+#      end
+#      literal
+#    end
+#  end
+#
+#  def marshal_dump
+#    Annotated.to_hash(self)
+#  end
+#end
+#
+#class String
+#  def marshal_load(hash)
+#    if Hash === hash
+#      e = Annotated.load_hash(hash)
+#      self.replace e
+#      e.annotate(self)
+#      self
+#    else
+#      self.replace hash
+#    end
+#  end
+#end
+#
+#class Array
+#  def marshal_load(hash)
+#    if Hash === hash
+#      e = Annotated.load_hash(hash)
+#      self.replace e
+#      e.annotate(self)
+#      self
+#    else
+#      self.replace hash
+#    end
+#  end
+#end