#!/usr/bin/env python

#  Copyright (c) 2005 Gavin E. Crooks <gec@threeplusone.com>
#
#  This software is distributed under the MIT Open Source License.
#  <http://www.opensource.org/licenses/mit-license.html>
#
#  Permission is hereby granted, free of charge, to any person obtaining a
#  copy of this software and associated documentation files (the "Software"),
#  to deal in the Software without restriction, including without limitation
#  the rights to use, copy, modify, merge, publish, distribute, sublicense,
#  and/or sell copies of the Software, and to permit persons to whom the
#  Software is furnished to do so, subject to the following conditions:
#
#  The above copyright notice and this permission notice shall be included
#  in all copies or substantial portions of the Software.
#
#  THE SOFTWARE IS PROVIDED "AS IS", WITHOUT WARRANTY OF ANY KIND, EXPRESS OR
#  IMPLIED, INCLUDING BUT NOT LIMITED TO THE WARRANTIES OF MERCHANTABILITY,
#  FITNESS FOR A PARTICULAR PURPOSE AND NONINFRINGEMENT. IN NO EVENT SHALL THE
#  AUTHORS OR COPYRIGHT HOLDERS BE LIABLE FOR ANY CLAIM, DAMAGES OR OTHER
#  LIABILITY, WHETHER IN AN ACTION OF CONTRACT, TORT OR OTHERWISE, ARISING FROM,
#  OUT OF OR IN CONNECTION WITH THE SOFTWARE OR THE USE OR OTHER DEALINGS IN
#  THE SOFTWARE.
#

import unittest
from io import StringIO

from weblogo.seq_io import array_io, fasta_io


class test_array_io(unittest.TestCase):
    def test_read_example(self) -> None:
        f = StringIO(array_io.example)
        seqs = array_io.read(f)
        # print(seqs)
        self.assertEqual(len(seqs), 8)
        self.assertEqual(seqs[0].name, "")
        self.assertEqual(len(seqs[1]), 60)

    def test_write_seq(self) -> None:
        f = StringIO(array_io.example)
        seqs = array_io.read(f)
        fout = StringIO()
        array_io.write(fout, seqs)
        fout.seek(0)
        seqs2 = array_io.read(fout)
        self.assertEqual(seqs, seqs2)

    def test_fail(self) -> None:
        # Lengths differ
        example = """
-SPC-MLETETLNKYVVIIAYALVFLLSLLGNSLVMLVILYSRVGRSVTDVYLLNLALAD
-EPC-RDEN
"""
        f = StringIO(example)
        self.assertRaises(ValueError, array_io.read, f)

    def test_read_fasta(self) -> None:
        f = StringIO(fasta_io.example)
        self.assertRaises(ValueError, array_io.read, f)


if __name__ == "__main__":
    unittest.main()