def generate_plate(self, wells, cols, spacing, offset, radius):
c = Container()
for i in range(0, wells):
well = Well(properties={'radius': radius})
row, col = divmod(i, cols)
name = chr(row + ord('A')) + str(1 + col)
coordinates = (col * spacing[0] + offset[0],
row * spacing[1] + offset[1], 0)
c.add(well, name, coordinates)
return c
def generate_deck(self):
deck = Deck()
slot = Slot()
deck.add(slot, 'A1', (5, 10, 0))
c = Container()
red = Well(properties={'radius': 5})
blue = Well(properties={'radius': 5})
c.add(red, "Red", (5, 5, 0))
c.add(blue, "Blue", (15, 5, 0))
slot.add(c, 'tube_rack')
return deck
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 create_container_obj_from_dict(container_data: dict) -> Container:
"""
Example input:
container data for a "24-plate":
{
"origin-offset":{
"x":13.3,
"y":17.5
},
"locations":{
"A1":{
"x":0.0,
"total-liquid-volume":3400,
"y":0.0,
"depth":16.2,
"z":0,
"diameter":15.62
},
"A2":{
"x":0.0,
"total-liquid-volume":3400,
"y":19.3,
"depth":16.2,
"z":0,
"diameter":15.62
}
Exampl input #2:
"trough-12row":
{
"locations":{
"A1":{
"x":0,
"y":0,
"z":0,
"depth":40,
"length":8,
"width":70,
"total-liquid-volume":22000
},
"A2":{
"x":0,
"y":9,
"z":0,
"depth":40,
"length":8,
"width":70,
"total-liquid-volume":22000
},
"A3":{
"x":0,
"y":18,
"z":0,
"depth":40,
"length":8,
"width":70,
"total-liquid-volume":22000
}
"""
container_data = copy.deepcopy(container_data)
origin_offset_x = container_data.get('origin-offset', {}).get('x') or 0
origin_offset_y = container_data.get('origin-offset', {}).get('y') or 0
container = Container()
locations = container_data.get('locations')
for well_name, well_properties in locations.items():
x = well_properties.pop('x')
y = well_properties.pop('y')
z = well_properties.pop('z')
# assert 'depth' in well_properties
# assert 'diameter' in well_properties
# assert 'length' in well_properties
# assert 'width' in well_properties
# assert 'total-liquid-volume' in well_properties
assert isinstance(x, numbers.Number)
assert isinstance(y, numbers.Number)
assert isinstance(z, numbers.Number)
well = Well(properties=well_properties)
well_coordinates = (x + origin_offset_x, y + origin_offset_y, z)
container.add(well, well_name, well_coordinates)
return container