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# Copyright 2001 by Gavin E. Crooks. 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.
"""Unit test for Residues"""
import unittest
from Bio.SCOP.Residues import *
class ResiduesTests(unittest.TestCase):
res = (
( "-", () ),
( "A:", (("A", "", ""),) ),
( "1:", (("1", "", ""),) ),
( "1-100", (("", "1", "100"),) ),
( "B:1-101", (("B", "1" ,"101"),) ),
( "1:1a-100a", (("1", "1a", "100a"),) ),
( "a:-100a--1a", (("a", "-100a", "-1a"),) ),
( "-1-100", (("", "-1", "100"),) ),
( "-1-100", (("", "-1", "100"),) ),
( "A:12-19,A:23-25", (("A","12","19"),("A","23","25")) ),
( "12-19,1:23-25", (("","12","19"),("1","23","25")) ),
( "0-1,1:-1a-25a,T:", (("","0","1"),("1","-1a","25a"),("T","","")) ),
)
def testParse(self):
for loc in self.res:
r = Residues(loc[0])
self.assertEqual(r.fragments, loc[1])
def testStr(self):
for loc in self.res:
r = Residues(loc[0])
self.assertEqual(str(r), loc[0])
def testAstralParse(self):
"""Test if we can parse residue subsets enclosed in brackets"""
for loc in self.res:
r = Residues("("+loc[0]+")")
self.assertEqual(r.fragments, loc[1])
def testPdbId(self):
pdbid ="1ddf"
for loc in self.res:
r = Residues("\t 1ddf \t"+loc[0]+"\t\n\n\n")
self.assertEqual(r.pdbid, pdbid)
self.assertEqual(str(r), pdbid+" "+loc[0])
r = Residues(pdbid+" "+loc[0])
self.assertEqual(r.pdbid, pdbid)
self.assertEqual(str(r), pdbid+" "+loc[0])
r = Residues("104l A:112-113")
self.assertEqual(r.pdbid, "104l")
self.assertEqual(r.fragments, (('A', '112', '113'),))
def testJustPdbId(self):
r = Residues("1sds")
self.assertEqual(r.pdbid, "1sds")
self.assertFalse(r.fragments)
def testParseError(self):
self.assertRaises(ValueError, Residues, "09324923423hh./;,.389")
if __name__=='__main__':
runner = unittest.TextTestRunner(verbosity = 2)
unittest.main(testRunner=runner)
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