def test_run(self):
gs = gelscore.Sequence('ACDEFGHIKLMNPQRSTVWY')
gs1 = gelscore.ContiguousRegion(gs, 0, 5)
gs2 = gelscore.ContiguousRegion(gs, 15, 20)
[left, right] = gs1.difference(gs2)
self.assertTrue(str(left) == str(gs1))
self.assertTrue(str(right) == str(gs2))
def test_run(self):
gs = gelscore.Sequence('ACDEFGHIKLMNPQRSTVWY')
gs1 = gelscore.ContiguousRegion(gs, 0, 10)
gs2 = gelscore.ContiguousRegion(gs, 5, 15)
#print gs1.composition
#print gs2.composition
gs3 = gs1.intersection(gs2)
#print gs3
self.assertTrue(str(gs3) == 'GHIKL')
def test_run(self):
gs = gelscore.Sequence('MSEAQETHVEQLPESVVDAPVEEQHQEPPQAPDAPQEPQVPQESAPQESAPQEPPAPQEQNDVPPPSNAPIYEGEESHSVQDYQEAHQHHQPPEPQPYYPPPPPGEHMHGRPPMHHRQEGELSNTRLFVRPFPLDVQESELNEIFGPFGPMKEVKILNGFAFVEFEEAESAAKAIEEVHGKSFANQPLEVVYSKLPAKRYRITMKNLPEGCSWQDLKDLARENSLETTFSSVNTRDFDGTGALEFPSEEILVEALERLNNIEFRGSVITVERDDNPPPIRRSNRGGFRGRGGFRGGFRGGFRGGFSRGGFGGPRGGFGGPRGGYGGYSRGGYGGYSRGGYGGSRGGYDSPRGGYDSPRGGYSRGGYGGPRNDYGPPRGSYGGSRGGYDGPRGDYGPPRDAYRTRDAPRERSPTR')
gs1 = gelscore.ContiguousRegion(gs, 74, 106)
gs2 = gelscore.ContiguousRegion(gs, 88, 111)
#print gs1.composition
#print gs2.composition
gs3 = gs1.intersection(gs2)
#print gs3.start
self.assertTrue(gs3.start==88)
self.assertTrue(gs3.end==106)
def test_run(self):
gs = gelscore.Sequence('ACDEFGHIKLMNPQRSTVWY')
gs1 = gelscore.ContiguousRegion(gs)
gs1.trimright(2)
self.assertTrue(gs1[-1] == 'V')
def test_run(self):
gs = gelscore.Sequence('ACDEFGHIKLMNPQRSTVWY')
gs1 = gelscore.ContiguousRegion(gs, 0, 5)
gs2 = gelscore.ContiguousRegion(gs, 5, 10)
gs3 = gs1.merge(gs2)
def test_run(self):
gs = gelscore.Sequence('ACDEFGHIKLMNPQRSTVWY')
gs1 = gelscore.ContiguousRegion(gs, 0, 5)
gs2 = gelscore.ContiguousRegion(gs, 15, 20)
inter = gs1.intersection(gs2)
self.assertTrue(inter is None)