コード例 #1
0
ファイル: test_sequtils.py プロジェクト: crosenth/bioy
    def test02(self):
        """
        No output name, don't clean up
        """

        q, t = self.data('two.fasta'), self.data('ten.fasta')
        with sequtils.run_ssearch(q, t, cleanup=False) as aligns:
            parsed = sequtils.parse_ssearch36(aligns)
            self.assertEqual(set(['H59735', 'T70875']),
                             {d['q_name'] for d in parsed})

        # should still exist since we specified 'cleanup=False'
        self.assertTrue(path.exists(aligns.name))
コード例 #2
0
ファイル: test_sequtils.py プロジェクト: crosenth/bioy
    def test03(self):
        """
        No output name, clean up
        """

        q, t = self.data('two.fasta'), self.data('ten.fasta')
        with sequtils.run_ssearch(q, t) as aligns:
            parsed = sequtils.parse_ssearch36(aligns)
            self.assertEqual(set(['H59735', 'T70875']),
                             {d['q_name'] for d in parsed})

        # should not still exist
        self.assertFalse(path.exists(aligns.name))
コード例 #3
0
ファイル: test_sequtils.py プロジェクト: crosenth/bioy
    def test01(self):
        """
        Provide an output name
        """

        q, t = self.data('two.fasta'), self.data('ten.fasta')
        out = path.join(self.mkoutdir(), 'aligns.ssearch')
        with sequtils.run_ssearch(q, t, out) as aligns:
            self.assertEqual(out, aligns.name)
            parsed = sequtils.parse_ssearch36(aligns)
            self.assertEqual(set(['H59735', 'T70875']),
                             {d['q_name'] for d in parsed})

        # should still exist since we provided a name for the output
        self.assertTrue(path.exists(out))