+ # qual score detection
+
+ def test_Seq_qual_base33_returns_correctly
+ # self.qual.match(/[!-:]/)
+ @entry.qual = '!"#$%&\'()*+,-./0123456789:'
+ assert_equal(true, @entry.qual_base33? )
+ @entry.qual = 32.chr
+ assert_equal(false, @entry.qual_base33? )
+ @entry.qual = 59.chr
+ assert_equal(false, @entry.qual_base33? )
+ end
+
+ def test_Seq_qual_base64_returns_correctly
+ # self.qual.match(/[K-h]/)
+ @entry.qual = 'KLMNOPQRSTUVWXYZ[\]^_`abcdefgh'
+ assert_equal(true, @entry.qual_base64? )
+ @entry.qual = 74.chr
+ assert_equal(false, @entry.qual_base64? )
+ @entry.qual = 105.chr
+ assert_equal(false, @entry.qual_base64? )
+ end
+
+ def test_Seq_qual_valid_with_nil_qual_raises
+ assert_raise(SeqError) { @entry.qual_valid?("illumina1.8") }
+ end
+
+ def test_Seq_qual_valid_with_bad_encoding_raises
+ @entry.qual = "abc"
+ assert_raise(SeqError) { @entry.qual_valid?("foobar") }
+ end
+
+ def test_Seq_qual_valid_returns_correctly
+ tests = [["sanger", 0, 93, 33],
+ ["454", 0, 62, 64],
+ ["solexa", -5, 62, 64],
+ ["illumina13", 0, 62, 64],
+ ["illumina15", 0, 62, 64],
+ ["illumina18", 0, 93, 33]]
+
+ tests.each do |test|
+ @entry.qual = (test[1] + test[-1]).chr + (test[2] + test[-1]).chr
+ assert_equal(true, @entry.qual_valid?(test[0]))
+ @entry.qual = (test[1] + test[-1] - 1).chr
+ assert_equal(false, @entry.qual_valid?(test[0]))
+ @entry.qual = (test[2] + test[-1] + 1).chr
+ assert_equal(false, @entry.qual_valid?(test[0]))
+ end
+ end
+