Python _sequence_to_genbank Examples

Example #1

File: test_genbank.py Project: ElDeveloper/biolopy

    def test_roundtrip_sequence(self):
        with io.StringIO() as fh:
            _sequence_to_genbank(_genbank_to_sequence(self.single_rna_fp), fh)
            obs = fh.getvalue()

        with open(self.single_rna_fp) as fh:
            exp = fh.read()

        self.assertEqual(obs, exp)

Example #2

    def test_roundtrip_sequence(self):
        with io.StringIO() as fh:
            _sequence_to_genbank(_genbank_to_sequence(self.single_rna_fp), fh)
            obs = fh.getvalue()

        with open(self.single_rna_fp) as fh:
            exp = fh.read()

        self.assertEqual(obs, exp)

Example #3

File: test_genbank.py Project: ElDeveloper/biolopy

    def test_sequence_to_genbank(self):
        with io.StringIO() as fh:
            for i, (seq, md, imd, constructor) in enumerate(self.multi):
                obj = Sequence(seq, md, interval_metadata=imd, lowercase=True)
                _sequence_to_genbank(obj, fh)
            obs = fh.getvalue()

        with open(self.multi_fp) as fh:
            exp = fh.read()

        self.assertEqual(obs, exp)

Example #4

File: test_genbank.py Project: liupfskygre/scikit-bio

    def test_sequence_to_genbank(self):
        fh = io.StringIO()
        for i, (seq, md, pmd, constructor) in enumerate(self.multi):
            obj = Sequence(seq, md, pmd, lowercase=True)
            _sequence_to_genbank(obj, fh)
        obs = fh.getvalue()
        fh.close()

        with io.open(self.multi_fp) as fh:
            exp = fh.read()
        self.assertEqual(obs, exp)

Example #5

    def test_sequence_to_genbank(self):
        with io.StringIO() as fh:
            for i, (seq, md, imd, constructor) in enumerate(self.multi):
                obj = Sequence(seq, md, interval_metadata=imd, lowercase=True)
                _sequence_to_genbank(obj, fh)
            obs = fh.getvalue()

        with open(self.multi_fp) as fh:
            exp = fh.read()

        self.assertEqual(obs, exp)

Example #6

File: test_genbank.py Project: mortonjt/scikit-bio

    def test_sequence_to_genbank(self):
        fh = io.StringIO()
        for i, (seq, md, pmd, constructor) in enumerate(self.multi):
            obj = Sequence(seq, md, pmd, lowercase=True)
            _sequence_to_genbank(obj, fh)
        obs = fh.getvalue()
        fh.close()

        with io.open(self.multi_fp) as fh:
            exp = fh.read()
        self.assertEqual(obs, exp)