Class: BELParser::Expression::Model::Namespace

Inherits:
Object
  • Object
show all
Defined in:
lib/bel_parser/expression/model/namespace.rb

Overview

Namespace represents a catalog of biological identifiers that are to identify parameter values like genes (e.g. AKT1), diseases (e.g. hypertropia), and processes (e.g. anaphase).

Instance Attribute Summary collapse

Instance Method Summary collapse

Constructor Details

#initialize(keyword, uri = nil, url = nil, options = {}) ⇒ Namespace

Returns a new instance of Namespace.

Raises:

  • (ArgumentError) 


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# File 'lib/bel_parser/expression/model/namespace.rb', line 17

def initialize(keyword, uri = nil, url = nil, options = {})
  raise(ArgumentError, 'keyword is nil') unless keyword
  @keyword = keyword
  @uri     = uri
  @url     = url

  # configure reader for URIs (RDF).
  @uri_reader = options.fetch(:uri_reader, BELParser::Resource.default_uri_reader)
  BELParser::Resource::Reader.assert_reader(@uri_reader, 'uri_reader')

  # configure reader for URLs (Resource files).
  @url_reader = options.fetch(:url_reader, BELParser::Resource.default_url_reader)
  BELParser::Resource::Reader.assert_reader(@url_reader, 'url_reader')
end

Instance Attribute Details

#keyword ⇒ Object

Returns the value of attribute keyword.



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# File 'lib/bel_parser/expression/model/namespace.rb', line 11

def keyword
  @keyword
end

#uri ⇒ Object

Returns the value of attribute uri.



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# File 'lib/bel_parser/expression/model/namespace.rb', line 12

def uri
  @uri
end

#uri_reader ⇒ Object (readonly)

Returns the value of attribute uri_reader.



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# File 'lib/bel_parser/expression/model/namespace.rb', line 14

def uri_reader
  @uri_reader
end

#url ⇒ Object

Returns the value of attribute url.



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# File 'lib/bel_parser/expression/model/namespace.rb', line 13

def url
  @url
end

#url_reader ⇒ Object (readonly)

Returns the value of attribute url_reader.



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# File 'lib/bel_parser/expression/model/namespace.rb', line 15

def url_reader
  @url_reader
end

Instance Method Details

#==(other) ⇒ Object Also known as: eql? 



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# File 'lib/bel_parser/expression/model/namespace.rb', line 122

def ==(other)
  return false if other.nil?
  @keyword == other.keyword && @uri == other.uri && @url == other.url
end

#[](value) ⇒ Object 



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# File 'lib/bel_parser/expression/model/namespace.rb', line 82

def [](value)
  resolved_value =
    if uri? && @uri_reader
      @uri_reader.retrieve_value_from_resource(@uri, value)
    elsif url? && @url_reader
      @url_reader.retrieve_value_from_resource(@url, value)
    else
      nil
    end

  if resolved_value
    value = resolved_value.first
    Parameter.new(self, value.name, value.encodings)
  else
    Parameter.new(self, value, nil)
  end
end

#domain ⇒ Object 



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# File 'lib/bel_parser/expression/model/namespace.rb', line 59

def domain
  case
  when uri?
    @uri
  when url?
    @url
  else
    nil
  end
end

#domain_equal?(other) ⇒ Boolean

Returns:

  • (Boolean) 


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# File 'lib/bel_parser/expression/model/namespace.rb', line 128

def domain_equal?(other)
  return false if other.nil?
  @uri == other.uri && @url == other.url
end

#each ⇒ Object 



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# File 'lib/bel_parser/expression/model/namespace.rb', line 100

def each
  if block_given?
    values =
      if uri?
        @uri_reader.retrieve_values_from_resource(@uri)
      elsif url?
        @url_reader.retrieve_values_from_resource(@url)
      else
        []
      end
    values.each do |value|
      yield Parameter.new(self, value.name, value.encodings)
    end
  else
    to_enum(:each)
  end
end

#hash ⇒ Object 



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# File 'lib/bel_parser/expression/model/namespace.rb', line 118

def hash
  [@keyword, @uri, @url].hash
end

#include?(value) ⇒ Boolean

Returns:

  • (Boolean) 


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# File 'lib/bel_parser/expression/model/namespace.rb', line 70

def include?(value)
  resolved_value =
    if uri? && @uri_reader
      @uri_reader.retrieve_value_from_resource(@uri, value)
    elsif url? && @url_reader
      @url_reader.retrieve_value_from_resource(@url, value)
    else
      nil
    end
  !resolved_value.nil?
end

#initialize_copy(original) ⇒ Object 



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# File 'lib/bel_parser/expression/model/namespace.rb', line 32

def initialize_copy(original)
  @keyword    = original.keyword
  @uri        = original.uri
  @uri_reader = original.uri_reader
  @url        = original.url
  @url_reader = original.url_reader
end

#to_s ⇒ Object 



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# File 'lib/bel_parser/expression/model/namespace.rb', line 133

def to_s
  @keyword.to_s
end

#type ⇒ Object 



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# File 'lib/bel_parser/expression/model/namespace.rb', line 48

def type
  case
  when uri?
    :uri
  when url?
    :url
  else
    nil
  end
end

#uri? ⇒ Boolean

Returns:

  • (Boolean) 


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# File 'lib/bel_parser/expression/model/namespace.rb', line 40

def uri?
  !@uri.nil?
end

#url? ⇒ Boolean

Returns:

  • (Boolean) 


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# File 'lib/bel_parser/expression/model/namespace.rb', line 44

def url?
  !@url.nil?
end