2 $:.unshift File.join(File.dirname(__FILE__),'..','lib')
4 # Copyright (C) 2007-2011 Martin A. Hansen.
6 # This program is free software; you can redistribute it and/or
7 # modify it under the terms of the GNU General Public License
8 # as published by the Free Software Foundation; either version 2
9 # of the License, or (at your option) any later version.
11 # This program is distributed in the hope that it will be useful,
12 # but WITHOUT ANY WARRANTY; without even the implied warranty of
13 # MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the
14 # GNU General Public License for more details.
16 # You should have received a copy of the GNU General Public License
17 # along with this program; if not, write to the Free Software
18 # Foundation, Inc., 51 Franklin Street, Fifth Floor, Boston, MA 02110-1301, USA.
20 # http://www.gnu.org/copyleft/gpl.html
22 # >>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>><<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<
24 # This software is part of the Biopieces framework (www.biopieces.org).
26 # >>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>><<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<
32 class TestDigest < Test::Unit::TestCase
33 def test_Digest_each_digest_raises_on_bad_pattern_residue
35 assert_raise(DigestError) { entry.each_digest("X", 4) }
38 def test_Digest_each_digest_dont_raise_on_ok_pattern_residue
39 entry = Seq.new("test", "atcg")
40 assert_nothing_raised { entry.each_digest("AGCUTRYWSMKHDVBNagcutrywsmkhdvbn", 4) }
43 def test_Digest_each_digest_with_no_match_returns_correctly
44 entry = Seq.new("test", "aaaaaaaaaaa")
45 assert_equal(entry.seq, entry.each_digest("CGCG", 1).first.seq)
48 def test_Digest_each_digest_with_matches_returns_correctly
49 entry = Seq.new("test", "TTTTaaaaTTTTbbbbTTTT")
50 seqs = entry.each_digest("TTNT", 1)
51 assert_equal("T", seqs[0].seq)
52 assert_equal("TTTaaaaT", seqs[1].seq)
53 assert_equal("TTTbbbbT", seqs[2].seq)
54 assert_equal("TTT", seqs[3].seq)