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$ ruff check --fix --select=I \ --config=lint.isort.force-single-line=true \ --config=lint.isort.order-by-type=false \ BioSQL/ Bio/ Tests/ Scripts/ Doc/ setup.py Using ruff version 0.4.10
72 lines
2.3 KiB
Python
72 lines
2.3 KiB
Python
# Copyright 2001 by Gavin E. Crooks. 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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"""Unit test for Residues."""
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import unittest
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from Bio.SCOP.Residues import Residues
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class ResiduesTests(unittest.TestCase):
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res = (
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("-", ()),
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("A:", (("A", "", ""),)),
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("1:", (("1", "", ""),)),
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("1-100", (("", "1", "100"),)),
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("B:1-101", (("B", "1", "101"),)),
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("1:1a-100a", (("1", "1a", "100a"),)),
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("a:-100a--1a", (("a", "-100a", "-1a"),)),
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("-1-100", (("", "-1", "100"),)),
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("-1-100", (("", "-1", "100"),)),
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("A:12-19,A:23-25", (("A", "12", "19"), ("A", "23", "25"))),
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("12-19,1:23-25", (("", "12", "19"), ("1", "23", "25"))),
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("0-1,1:-1a-25a,T:", (("", "0", "1"), ("1", "-1a", "25a"), ("T", "", ""))),
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)
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def testParse(self):
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for loc in self.res:
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r = Residues(loc[0])
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self.assertEqual(r.fragments, loc[1])
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def testStr(self):
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for loc in self.res:
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r = Residues(loc[0])
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self.assertEqual(str(r), loc[0])
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def testAstralParse(self):
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"""Test if we can parse residue subsets enclosed in brackets."""
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for loc in self.res:
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r = Residues("(" + loc[0] + ")")
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self.assertEqual(r.fragments, loc[1])
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def testPdbId(self):
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pdbid = "1ddf"
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for loc in self.res:
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r = Residues("\t 1ddf \t" + loc[0] + "\t\n\n\n")
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self.assertEqual(r.pdbid, pdbid)
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self.assertEqual(str(r), pdbid + " " + loc[0])
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r = Residues(pdbid + " " + loc[0])
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self.assertEqual(r.pdbid, pdbid)
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self.assertEqual(str(r), pdbid + " " + loc[0])
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r = Residues("104l A:112-113")
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self.assertEqual(r.pdbid, "104l")
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self.assertEqual(r.fragments, (("A", "112", "113"),))
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def testJustPdbId(self):
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r = Residues("1sds")
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self.assertEqual(r.pdbid, "1sds")
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self.assertFalse(r.fragments)
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def testParseError(self):
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self.assertRaises(ValueError, Residues, "09324923423hh./;,.389")
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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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