class ChainSetSelectorTests(ChainSetSelectorBaseTests):
def setUp(self):
self.mols = Read('Data/stringSel.pdb')
new_mols = Read("Data/1crn.pdb")
self.mols +=new_mols
self.chains = self.mols.chains
self.stringSel = ChainSetSelector()
def tearDown(self):
"""
clean-up
"""
del(self.chains)
del(self.mols)
def test_select_with_empty_string(self):
"""
test result with empty string returns all chains
"""
result, msg = self.stringSel.select(self.chains, "")
self.assertEquals(result, self.chains)
def test_select_end(self):
"""
test select with '$' returns last item
"""
result, msg = self.stringSel.select(self.chains, "$")
self.assertEquals(result, self.chains[-1:])
def test_select_with_valid_index(self):
"""
test string with valid_index returns set with 1 item
"""
selString = "1"
result, msg = self.stringSel.select(self.chains, selString)
self.assertEquals(len(result), 1)
def test_select_with_invalid_index_returns_empty_set(self):
"""
test string with invalid_index returns empty set
"""
selString = "7"
result, msg = self.stringSel.select(self.chains, selString)
self.assertEqual(result.__class__, self.chains.__class__)
self.assertEqual(len(result), 0)
self.assertEqual(msg[0], selString)
def test_select_with_valid_range(self):
"""
test string with valid_range returns set with 2 items
"""
selString = "1-2"
result, msg = self.stringSel.select(self.chains, selString)
self.assertEquals(len(result), 2)
def test_select_with_invalid_range(self):
"""
test string with invalid_range returns set with 0 items
"""
selString = "4-6"
result, msg = self.stringSel.select(self.chains, selString)
self.assertEquals(len(result), 0)
def test_select_with_valid_regex(self):
"""
test string with valid_regex returns set with 1 items
<this regex is intended to match anything in range A-Z
followed by anything>
"""
selString = "A"
result, msg = self.stringSel.select(self.chains, selString)
#print "result=", result
self.assertEquals(len(result), 1)
def test_select_valid_set(self):
"""
test string with valid set name returns 1 set
"""
these_sets = Sets()
key = 'first'
these_sets.add(key, self.mols.chains[1:])
selString = key
result, msg = self.stringSel.select(self.chains, selString,
sets=these_sets)
#print "result=", result
self.assertEquals(len(result), 2)
self.assertEquals(result, self.chains[1:])
def setUp(self):
self.mols = Read('Data/stringSel.pdb')
new_mols = Read("Data/1crn.pdb")
self.mols +=new_mols
self.chains = self.mols.chains
self.stringSel = ChainSetSelector()
def test_constructor(self):
"""
instantiate an ChainSetSelector
"""
stringSel = ChainSetSelector()
self.assertEquals(stringSel.__class__, ChainSetSelector)
