def testTwoPathsTwoRoots(self):
db = {}
clusters = []
exons1 = [self.a1, self.c1, self.d1, self.f1]
exons2 = [self.b2, self.c2, self.e2, self.g2]
comp.addExon(db, clusters, exons1)
comp.addExon(db, clusters, exons2)
allPath = comp.getPath(self.a1.cluster)
self.assertEqual(len(allPath), 4)
self.assertEqual(len(allPath[0]), 4)
self.assertEqual(len(allPath[1]), 4)
allPath = comp.getPath(self.b2.cluster)
self.assertEqual(len(allPath), 4)
self.assertEqual(len(allPath[0]), 4)
self.assertEqual(len(allPath[1]), 4)
allPath = comp.getPath(self.c1.cluster)
self.assertEqual(len(allPath), 4)
self.assertEqual(len(allPath[0]), 4)
self.assertEqual(len(allPath[1]), 4)
allPath = comp.getPath(self.d1.cluster)
self.assertEqual(len(allPath), 4)
self.assertEqual(len(allPath[0]), 4)
self.assertEqual(len(allPath[1]), 4)
def testTwoPathsTwoRoots(self):
db = {}
clusters = []
exons1 = [self.a1, self.c1, self.d1, self.f1]
exons2 = [self.b2, self.c2, self.e2, self.g2]
comp.addExon(db, clusters, exons1)
comp.addExon(db, clusters, exons2)
allPath = comp.getPath(self.a1.cluster)
self.assertEqual(len(allPath), 4)
self.assertEqual(len(allPath[0]), 4)
self.assertEqual(len(allPath[1]), 4)
allPath = comp.getPath(self.b2.cluster)
self.assertEqual(len(allPath), 4)
self.assertEqual(len(allPath[0]), 4)
self.assertEqual(len(allPath[1]), 4)
allPath = comp.getPath(self.c1.cluster)
self.assertEqual(len(allPath), 4)
self.assertEqual(len(allPath[0]), 4)
self.assertEqual(len(allPath[1]), 4)
allPath = comp.getPath(self.d1.cluster)
self.assertEqual(len(allPath), 4)
self.assertEqual(len(allPath[0]), 4)
self.assertEqual(len(allPath[1]), 4)
def testSinglePath(self):
db = {}
clusters = []
exons1 = [self.a1, self.b1, self.c1, self.d1, self.e1, self.f1, self.g1]
comp.addExon(db, clusters, exons1)
allPath = comp.getPath(self.e1.cluster)
self.assertEqual(len(allPath), 1)
self.assertEqual(len(allPath[0]), 7)
def testTwoPathsTwoBubbles(self):
db = {}
clusters = []
exons1 = [self.a1, self.b1, self.d1, self.f1, self.g1]
exons2 = [self.a2, self.c2, self.d2, self.e2, self.g2]
comp.addExon(db, clusters, exons1)
comp.addExon(db, clusters, exons2)
allPath = comp.getPath(self.d1.cluster)
self.assertEqual(len(allPath), 4)
def testTwoPathsTwoBubbles(self):
db = {}
clusters = []
exons1 = [self.a1, self.b1, self.d1, self.f1, self.g1]
exons2 = [self.a2, self.c2, self.d2, self.e2, self.g2]
comp.addExon(db, clusters, exons1)
comp.addExon(db, clusters, exons2)
allPath = comp.getPath(self.d1.cluster)
self.assertEqual(len(allPath), 4)
def testSinglePath(self):
db = {}
clusters = []
exons1 = [
self.a1, self.b1, self.c1, self.d1, self.e1, self.f1, self.g1
]
comp.addExon(db, clusters, exons1)
allPath = comp.getPath(self.e1.cluster)
self.assertEqual(len(allPath), 1)
self.assertEqual(len(allPath[0]), 7)
def testSingleNodePath(self):
db = {}
clusters = []
exons1 = [self.a1]
comp.addExon(db, clusters, exons1)
self.assertEqual(len(self.a1.cluster.nodes()), 1)
allPath = comp.getPath(self.a1.cluster)
self.assertEqual(len(allPath), 1)
self.assertEqual(len(allPath[0]), 1)
self.assertEqual(allPath[0][0], self.a1.coord)
def testSingleNodePath(self):
db = {}
clusters = []
exons1 = [self.a1]
comp.addExon(db, clusters, exons1)
self.assertEqual(len(self.a1.cluster.nodes()), 1)
allPath = comp.getPath(self.a1.cluster)
self.assertEqual(len(allPath), 1)
self.assertEqual(len(allPath[0]), 1)
self.assertEqual(allPath[0][0], self.a1.coord)