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# Copyright 2012 by Wibowo Arindrarto. All rights reserved.
# This code is part of the Biopython distribution and governed by its
# license. Please see the LICENSE file that should have been included
# as part of this package.
"""Tests for SearchIO blat-psl indexing."""
import os
import unittest
from search_tests_common import CheckIndex
class BlatPslIndexCases(CheckIndex):
fmt = 'blat-psl'
def test_psl_34_001(self):
"""Test blat-psl indexing, multiple queries"""
filename = os.path.join('Blat', 'psl_34_001.psl')
self.check_index(filename, self.fmt)
def test_psl_34_002(self):
"""Test blat-psl indexing, single query, no hits"""
filename = os.path.join('Blat', 'psl_34_002.psl')
self.check_index(filename, self.fmt)
def test_psl_34_003(self):
"""Test blat-psl indexing, single query, single hit"""
filename = os.path.join('Blat', 'psl_34_003.psl')
self.check_index(filename, self.fmt)
def test_psl_34_004(self):
"""Test blat-psl indexing, single query, multiple hits with multiple hsps"""
filename = os.path.join('Blat', 'psl_34_004.psl')
self.check_index(filename, self.fmt)
def test_psl_34_005(self):
"""Test blat-psl indexing, multiple queries, no header"""
filename = os.path.join('Blat', 'psl_34_005.psl')
self.check_index(filename, self.fmt)
def test_psl_34_006(self):
"""Test blat-pslx indexing, multiple queries"""
filename = os.path.join('Blat', 'pslx_34_001.pslx')
self.check_index(filename, self.fmt, pslx=True)
def test_psl_34_007(self):
"""Test blat-pslx indexing, single query, no hits"""
filename = os.path.join('Blat', 'pslx_34_002.pslx')
self.check_index(filename, self.fmt, pslx=True)
def test_psl_34_008(self):
"""Test blat-pslx indexing, single query, single hit"""
filename = os.path.join('Blat', 'pslx_34_003.pslx')
self.check_index(filename, self.fmt, pslx=True)
def test_psl_34_009(self):
"""Test blat-pslx indexing, single query, multiple hits with multiple hsps"""
filename = os.path.join('Blat', 'pslx_34_004.pslx')
self.check_index(filename, self.fmt, pslx=True)
def test_psl_34_010(self):
"""Test blat-pslx indexing, multiple queries, no header"""
filename = os.path.join('Blat', 'pslx_34_005.pslx')
self.check_index(filename, self.fmt, pslx=True)
if __name__ == "__main__":
runner = unittest.TextTestRunner(verbosity=2)
unittest.main(testRunner=runner)
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