class ContainerTestCase(unittest.TestCase):
def setUp(self):
self.robot = Robot()
def tearDown(self):
del self.robot
def test_load_same_slot_force(self):
container_name = '96-flat'
slot = '1'
containers_load(self.robot, container_name, slot)
# 2018-1-30 Incremented number of containers based on fixed trash
self.assertEquals(len(self.robot.get_containers()), 2)
self.assertRaises(RuntimeWarning, containers_load, self.robot,
container_name, slot)
self.assertRaises(RuntimeWarning,
containers_load,
self.robot,
container_name,
slot,
share=True)
self.assertRaises(RuntimeWarning, containers_load, self.robot,
container_name, slot, 'custom-name')
self.assertRaises(RuntimeWarning, containers_load, self.robot,
'trough-12row', slot)
self.assertRaises(RuntimeWarning, containers_load, self.robot,
'trough-12row', slot, 'custom-name')
containers_load(self.robot,
container_name,
slot,
'custom-name',
share=True)
self.assertEquals(len(self.robot.get_containers()), 3)
containers_load(self.robot, 'trough-12row', slot, share=True)
self.assertEquals(len(self.robot.get_containers()), 4)
def test_load_legacy_slot_names(self):
slots_old = [
'A1', 'B1', 'C1', 'A2', 'B2', 'C2', 'A3', 'B3', 'C3', 'A4', 'B4',
'C4'
]
slots_new = [
'1', '2', '3', '4', '5', '6', '7', '8', '9', '10', '11', '12'
]
import warnings
warnings.filterwarnings('ignore')
# Only check up to the non fixed-trash slots
def test_slot_name(slot_name, expected_name):
self.robot.reset()
p = containers_load(self.robot, '96-flat', slot_name)
slot_name = p.get_parent().get_name()
assert slot_name == expected_name
for i in range(len(slots_old) - 1):
test_slot_name(slots_new[i], slots_new[i])
test_slot_name(int(slots_new[i]), slots_new[i])
test_slot_name(slots_old[i], slots_new[i])
warnings.filterwarnings('default')
def test_containers_list(self):
res = containers_list()
self.assertTrue(len(res))
def test_bad_unpack_containers(self):
self.assertRaises(ValueError, placeable.unpack_location, 1)
def test_iterate_without_parent(self):
c = generate_plate(4, 2, (5, 5), (0, 0), 5)
self.assertRaises(Exception, next, c)
def test_back_container_getitem(self):
c = generate_plate(4, 2, (5, 5), (0, 0), 5)
self.assertRaises(TypeError, c.__getitem__, (1, 1))
def test_iterator(self):
c = generate_plate(4, 2, (5, 5), (0, 0), 5)
res = [well.coordinates() for well in c]
expected = [(0, 0, 0), (5, 0, 0), (0, 5, 0), (5, 5, 0)]
self.assertListEqual(res, expected)
def test_next(self):
c = generate_plate(4, 2, (5, 5), (0, 0), 5)
well = c['A1']
expected = c.get_child_by_name('B1')
self.assertEqual(next(well), expected)
def test_int_index(self):
c = generate_plate(4, 2, (5, 5), (0, 0), 5)
self.assertEqual(c[3], c.get_child_by_name('B2'))
self.assertEqual(c[1], c.get_child_by_name('B1'))
def test_named_well(self):
deck = Deck()
slot = Slot()
c = Container()
deck.add(slot, 'A1', (0, 0, 0))
red = Well(properties={'radius': 5})
blue = Well(properties={'radius': 5})
c.add(red, "Red", (0, 0, 0))
c.add(blue, "Blue", (10, 0, 0))
slot.add(c)
self.assertEqual(deck['A1'][0]['Red'], red)
def test_generate_plate(self):
c = generate_plate(wells=96,
cols=8,
spacing=(10, 15),
offset=(5, 15),
radius=5)
self.assertEqual(c['A1'].coordinates(), (5, 15, 0))
self.assertEqual(c['B2'].coordinates(), (15, 30, 0))
def test_coordinates(self):
deck = Deck()
slot = Slot()
plate = generate_plate(wells=96,
cols=8,
spacing=(10, 15),
offset=(5, 15),
radius=5)
deck.add(slot, 'B2', (100, 200, 0))
slot.add(plate)
self.assertEqual(plate['A1'].coordinates(deck), (105, 215, 0))
def test_get_name(self):
deck = Deck()
slot = Slot()
c = Container()
deck.add(slot, 'A1', (0, 0, 0))
red = Well(properties={'radius': 5})
blue = Well(properties={'radius': 5})
c.add(red, "Red", (0, 0, 0))
c.add(blue, "Blue", (10, 0, 0))
slot.add(c)
self.assertEqual(red.get_name(), 'Red')
def test_well_from_center(self):
deck = Deck()
slot = Slot()
plate = generate_plate(wells=4,
cols=2,
spacing=(10, 10),
offset=(0, 0),
radius=5)
deck.add(slot, 'A1', (0, 0, 0))
slot.add(plate)
self.assertEqual(plate['B2'].center(), (5, 5, 0))
self.assertEqual(plate['B2'].from_center(x=0.0, y=0.0, z=0.0),
(5, 5, 0))
self.assertEqual(
plate['B2'].from_center(r=1.0, theta=math.pi / 2, h=0.0),
(5.0, 10.0, 0.0))
1, 1, 1, 1, 1, 1, 1, 1, 1, 1, 1, 1,
1, 1, 1, 1, 1, 1, 1, 1, 1, 1, 1, 1,
1, 1, 1, 1, 1, 1, 1, 1, 1, 1, 1, 1,
1, 1, 1, 1, 1, 1, 1, 1, 1, 1, 1, 1}
def set_dilution_factor(self, x):
self.dilution_factor = x
def set_well_list(self, mylist):
self.well_list = mylist
def modify_dilution_matrix(self,well_index, d_factor):
self.dilution_matrix[well_index] = d_factor
robot = Robot()
robot.reset()
User = UserInfo()
User.set_dilution_factor(5)
trash = containers.load('point', 'E2')
tiprack = containers.load('tiprack-200ul', 'E1')
big_tubes = containers.load('tube-rack-15_50ml', 'A2')
#this 96-well plate has the samples
samples = containers.load('96-PCR-flat', 'B1')
#this is the plate that we are aiming samples to
dilutions = containers.load('96-PCR-flat', 'C1')
