Sha256: 00446c4b8d15058e01743ba2d7d105b210c8d7ad41d70c814ca954101156fe69
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Versions: 33
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Contents
require 'obo' # the gem obo
module Obo
class Stanza
def cast_method
xref = @tagvalues['xref'].first
@cast_method =
if xref.nil? || (@cast_method == false)
false
else
if @cast_method
@cast_method
else
case xref[/value-type:xsd\\:([^\s]+) /, 1]
when 'float' ; :to_f
when 'int' ; :to_i
when 'string' ; :to_s
else ; false
end
end
end
end
# returns the value cast based on rules in first xref
# no casting performed if there is no xref
def cast(val)
@cast_method ? val.send(@cast_method) : val
end
end
end
module Obo
class Ontology
DIR = File.expand_path(File.dirname(__FILE__) + '/../../obo')
attr_accessor :header
attr_accessor :elements
def initialize(file_or_io)
obo = Obo::Parser.new(file_or_io)
@elements = obo.elements.to_a
@header = elements.shift
end
# returns an id to name Hash
def id_to_name
@id_to_name ||= build_hash('id', 'name')
end
def id_to_cast
@id_to_cast ||= Hash[ id_to_element.map {|id,el| [id, el.cast_method] } ]
end
# returns a name to id Hash
def name_to_id
@name_to_id ||= build_hash('name', 'id')
end
def id_to_element
@id_to_element ||= build_hash('id', nil)
end
protected
def build_hash(key,val)
hash = {}
@elements.each do |el|
tv = el.tagvalues
if val.nil?
hash[tv[key].first] = el
else
hash[tv[key].first] = tv[val].first
end
end
hash
end
end
end
Version data entries
33 entries across 33 versions & 1 rubygems