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Size: 1.33 KB
Versions: 29
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Stored size: 1.33 KB
Contents
$: << File.expand_path(File.dirname(__FILE__) + '/../lib')
$: << File.expand_path('.')
path= File.expand_path(File.dirname(__FILE__) + '/../lib/bioruby-polyploid-tools.rb')
#puts path
require path
require "test/unit"
class TestBlast < Test::Unit::TestCase
Query = File.dirname(__FILE__) + '/data/' + "BS00068396_51.fa"
Target = File.dirname(__FILE__) + '/data/' + "BS00068396_51_contigs.fa"
Blast_file = File.dirname(__FILE__) + '/data/' + "BS00068396_51_blast.tab"
#Set up the paths
def setup
File.expand_path(File.dirname(__FILE__) + '/data/')
end
def test_blast_to_exo
lines = File.readlines(Blast_file)
expected = [
"BS00068396_51 0 101 + 2AS_5222932 3015 2914 - 99",
"BS00068396_51 0 101 + 2DS_5334799 6812 6913 + 99",
"BS00068396_51 0 101 + 2BS_5245544 4549 4651 + 87",
"BS00068396_51 101 0 - 2BS_5163353 7425 7323 - 87"]
expected_v = [
"M 101 101",
"M 101 101",
"M 69 69 G 0 1 M 32 32",
"M 69 69 G 1 0 M 32 32"]
lines.each_with_index do |line , i|
tmp = Bio::DB::Blast.to_sugar(line)
assert_equal(tmp, expected[i], "Error in line #{i} of the SUGAR")
tmp = Bio::DB::Blast.to_vulgar(line)
assert_equal(tmp, expected_v[i], "Error in line #{i} of the Vulgar")
tmp = Bio::DB::Blast.to_exo(line)
puts tmp
end
end
end
Version data entries
29 entries across 29 versions & 1 rubygems