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