def testStr(self):
"""Test if we can convert each record to a string correctly"""
f = open(self.filename)
try:
for line in f:
record = Cla.Record(line)
# The SCOP Classification file format which can be found at
# http://scop.mrc-lmb.cam.ac.uk/scop/release-notes.html states
# that the list of classification hierarchy key-value pairs is
# unordered, therefore we need only check that they are all
# there, NOT that they are in the same order.
#End of line is platform dependent. Strip it off
expected_hierarchy = line.rstrip().split('\t')[5].split(',')
expected_hierarchy = dict(
pair.split('=') for pair in expected_hierarchy)
actual_hierarchy = str(record).rstrip().split('\t')[5].split(
',')
actual_hierarchy = dict(
pair.split('=') for pair in actual_hierarchy)
self.assertEqual(len(actual_hierarchy),
len(expected_hierarchy))
for key, actual_value in actual_hierarchy.iteritems():
self.assertEqual(actual_value, expected_hierarchy[key])
finally:
f.close()
def testError(self) :
corruptRec = "49268\tsp\tb.1.2.1\t-\n"
try:
record = Cla.Record(corruptRec)
assert False, "Should never get here"
except ValueError, e :
pass
def testStr(self):
f = open(self.filename)
try:
for line in f:
record = Cla.Record(line)
#End of line is platform dependent. Strip it off
assert str(record).rstrip() == line.rstrip()
finally:
f.close()
def testRecord(self) :
recLine = 'd1dan.1\t1dan\tT:,U:91-106\tb.1.2.1\t21953\tcl=48724,cf=48725,sf=49265,fa=49266,dm=49267,sp=49268,px=21953'
record = Cla.Record(recLine)
assert record.sid =='d1dan.1'
assert record.residues.pdbid =='1dan'
assert record.residues.fragments ==(('T','',''),('U','91','106'))
assert record.sccs == 'b.1.2.1'
assert record.sunid == 21953
assert record.hierarchy == [['cl',48724],['cf',48725],['sf',49265],
['fa',49266],['dm',49267],['sp',49268],
['px',21953]], record.hierarchy
def testRecord(self):
"""Test one record in detail"""
recLine = 'd1dan.1\t1dan\tT:,U:91-106\tb.1.2.1\t21953\tcl=48724,cf=48725,sf=49265,fa=49266,dm=49267,sp=49268,px=21953'
record = Cla.Record(recLine)
self.assertEqual(record.sid, 'd1dan.1')
self.assertEqual(record.residues.pdbid, '1dan')
self.assertEqual(record.residues.fragments, (('T','',''),('U','91','106')))
self.assertEqual(record.sccs, 'b.1.2.1')
self.assertEqual(record.sunid, 21953)
self.assertEqual(record.hierarchy, {'cl' : 48724,
'cf' : 48725,
'sf' : 49265,
'fa' : 49266,
'dm' : 49267,
'sp' : 49268,
'px' : 21953})
def testRecord(self):
"""Test one record in detail."""
recLine = "d1dan.1\t1dan\tT:,U:91-106\tb.1.2.1\t21953\tcl=48724,cf=48725,sf=49265,fa=49266,dm=49267,sp=49268,px=21953"
record = Cla.Record(recLine)
self.assertEqual(record.sid, "d1dan.1")
self.assertEqual(record.residues.pdbid, "1dan")
self.assertEqual(record.residues.fragments,
(("T", "", ""), ("U", "91", "106")))
self.assertEqual(record.sccs, "b.1.2.1")
self.assertEqual(record.sunid, 21953)
self.assertEqual(
record.hierarchy, {
"cl": 48724,
"cf": 48725,
"sf": 49265,
"fa": 49266,
"dm": 49267,
"sp": 49268,
"px": 21953
})