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#
# test/unit/bio/data/test_codontable.rb - Unit test for Bio::CodonTable
#
# Copyright:: Copyright (C) 2005 Mitsuteru Nakao <n@bioruby.org>
# License:: The Ruby License
#
# $Id:$
#
# loading helper routine for testing bioruby
require 'pathname'
load Pathname.new(File.join(File.dirname(__FILE__), ['..'] * 3,
'bioruby_test_helper.rb')).cleanpath.to_s
# libraries needed for the tests
require 'test/unit'
require 'bio/data/codontable'
module Bio
class TestCodonTableConstants < Test::Unit::TestCase
def test_Definitions
assert(Bio::CodonTable::DEFINITIONS)
assert(Bio::CodonTable::DEFINITIONS[1], "Standard (Eukaryote)")
end
def test_Starts
assert(Bio::CodonTable::STARTS)
assert_equal(['ttg', 'ctg', 'atg', 'gtg'], Bio::CodonTable::STARTS[1])
end
def test_stops
assert(Bio::CodonTable::STOPS)
assert_equal(['taa', 'tag', 'tga'], Bio::CodonTable::STOPS[1])
end
def test_Tables
assert(Bio::CodonTable::TABLES)
end
end
class TestCodonTable < Test::Unit::TestCase
def setup
@ct = Bio::CodonTable[1]
end
def test_self_accessor
assert(Bio::CodonTable[1])
end
def test_self_copy
assert(Bio::CodonTable.copy(1))
end
def test_table
assert(@ct.table)
end
def test_definition
assert_equal("Standard (Eukaryote)", @ct.definition)
end
def test_start
assert_equal(['ttg', 'ctg', 'atg', 'gtg'], @ct.start)
end
def test_stop
assert_equal(['taa', 'tag', 'tga'], @ct.stop)
end
def test_accessor #[]
assert_equal('M', @ct['atg'])
assert_equal('*', @ct['tag'])
assert_equal('*', @ct['tra'])
assert_equal('*', @ct['tar'])
end
def test_set_accessor #[]=
alternative = 'Y'
@ct['atg'] = alternative
assert_equal(alternative, @ct['atg'])
@ct['atg'] = 'M'
assert_equal('M', @ct['atg'])
end
def test_each
assert(@ct.each {|x| })
end
def test_revtrans
assert_equal(['atg'], @ct.revtrans('M'))
end
def test_start_codon?
assert_equal(true, @ct.start_codon?('atg'))
assert_equal(false, @ct.start_codon?('taa'))
end
def test_stop_codon?
assert_equal(false, @ct.stop_codon?('atg'))
assert_equal(true, @ct.stop_codon?('taa'))
end
def test_Tables
assert_equal(@ct.table, Bio::CodonTable::TABLES[1])
end
end
end # module Bio
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