class ProteinSetSelectorTests(ProteinSetSelectorBaseTests):
def setUp(self):
self.mols = Read('Data/stringSel.pdb')
self.mol = self.mols[0]
self.stringSel = ProteinSetSelector()
def tearDown(self):
"""
clean-up
"""
del(self.mol)
def test_select_with_empty_string(self):
"""
test result with empty string returns all mols
"""
result, msg = self.stringSel.select(self.mols, "")
self.assertEquals(result, self.mols)
def test_select_end(self):
"""
test select with '$' returns last item
"""
new_mols = Read("Data/1crn.pdb")
self.mols +=new_mols
result, msg = self.stringSel.select(self.mols, "$")
self.assertEquals(result[-1], self.mols[-1])
def test_select_with_valid_index(self):
"""
test string with valid_index returns set with 1 item
"""
selString = "0"
#selString = "1"
result, msg = self.stringSel.select(self.mols, 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 = "2"
result, msg = self.stringSel.select(self.mols, selString)
self.assertEqual(result.__class__, self.mols.__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
"""
new_mols = Read("Data/1crn.pdb")
self.mols +=new_mols
selString = "0-1"
#selString = "1-2"
result, msg = self.stringSel.select(self.mols, selString)
self.assertEquals(len(result), 2)
def test_select_with_invalid_range(self):
"""
test string with invalid_range returns set with 0 items
"""
new_mols = Read("Data/1crn.pdb")
self.mols +=new_mols
selString = "4-6"
result, msg = self.stringSel.select(self.mols, 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 1, 2,or 3 followed by anything>
"""
new_mols = Read("Data/1crn.pdb")
self.mols +=new_mols
selString = "[1-3]*"
result, msg = self.stringSel.select(self.mols, selString)
#print "result=", result
self.assertEquals(len(result), 1)
def test_select_with_valid_regex_2(self):
"""
test string with valid_regex returns set with 1 items
<this regex is intended to match anything in range s-z
followed by anything>
"""
new_mols = Read("Data/1crn.pdb")
self.mols +=new_mols
selString = "[s-z]*"
result, msg = self.stringSel.select(self.mols, selString)
#print "result=", result
self.assertEquals(len(result), 1)
def test_select_valid_set(self):
"""
test string with valid set name returns 1 set
"""
new_mols = Read("Data/1crn.pdb")
self.mols +=new_mols
these_sets = Sets()
key = 'first'
these_sets.add(key, self.mols[1:])
selString = key
result, msg = self.stringSel.select(self.mols, selString,
sets=these_sets)
#print "result=", result
self.assertEquals(len(result), 1)
self.assertEquals(result, self.mols[1:])
def setUp(self):
self.mols = Read('Data/stringSel.pdb')
self.mol = self.mols[0]
self.stringSel = ProteinSetSelector()
def test_constructor(self):
"""
instantiate an ProteinSetSelector
"""
stringSel = ProteinSetSelector()
self.assertEquals(stringSel.__class__, ProteinSetSelector)