class EmptyTreeTestCase(unittest.TestCase):
""" test search on an empty tree."""
def setUp(self):
self.tree = IntervalTree()
def test_search(self):
self.tree.search(46, 47)
def test_find(self):
self.tree.find(Interval(46, 47))
def test_left(self):
self.tree.left(Interval(46, 47))
def test_right(self):
self.tree.right(Interval(46, 47))
class EmptyTreeTestCase(unittest.TestCase):
""" test search on an empty tree."""
def setUp(self):
self.tree = IntervalTree()
def test_search(self):
self.tree.search(46, 47)
def test_find(self):
self.tree.find(Interval(46, 47))
def test_left(self):
self.tree.left(Interval(46, 47))
def test_right(self):
self.tree.right(Interval(46, 47))
background = pd.read_table(b,
sep="\t",
usecols=[1, 2],
header=None,
names="Start End".split(),
engine="c",
dtype={
"Start": np.int32,
"End": np.int32
})
tree = IntervalTree()
for start_, end_ in zip(background.Start, background.End):
tree.add(start_, end_)
start = time()
results = []
for start_, end_ in zip(chip.Start, chip.End):
results.append(tree.search(start_, end_))
end = time()
# print(result)
total = end - start
total_dt = datetime.datetime.fromtimestamp(total)
minutes_seconds = total_dt.strftime('%-M.%-S.%f')
open(snakemake.output[0], "w+").write(minutes_seconds)
