class Funnel(i3.PCell):
"""A generic Funnel to connect elements. It is defined by a boundary which are defined by points
"""
# 1. First we define our 2 Channel Templates with different Width's.
channel_1_template = microfluidics.ShortChannelTemplate()
channel_2_template = microfluidics.ShortChannelTemplate()
# 2. Then we use the LinearWindowChannelTransition class to create a transition between Channels.
#####################3
###################
channel_template = microfluidics.ChannelTemplateProperty(
default=microfluidics.ShortChannelTemplate(),
doc="Channel template of the tee")
_name_prefix = "Funnel" # a prefix added to the unique
funnel_length = i3.NumberProperty(default=100.0, doc="length of funnel")
initial_width = i3.NumberProperty(default=200.0,
doc="initial with of funnel")
final_width = i3.NumberProperty(default=100.0, doc="final width of funnel")
class Layout(i3.LayoutView):
def _generate_instances(self, insts):
channel_1_template = self.cell.channel_1_template.Layout(
channel_width=self.cell.initial_width)
channel_2_template = self.cell.channel_2_template.Layout(
channel_width=self.cell.final_width)
funnel = microfluidics.LinearWindowChannelTransition(
start_trace_template=self.cell.channel_1_template,
end_trace_template=self.cell.channel_2_template)
funnel_layout = funnel.Layout(
start_position=(0.0, 0.0),
end_position=(self.cell.funnel_length, 0.0))
insts += i3.SRef(reference=funnel_layout,
name='funnel',
position=(0, 0))
return insts
def _generate_ports(self, ports):
#port1
ports += microfluidics.FluidicPort(
name='in',
position=(0, 0),
direction=i3.PORT_DIRECTION.IN,
angle_deg=180,
trace_template=self.cell.channel_template)
#port2
ports += microfluidics.FluidicPort(
name='out',
position=(self.funnel_length, 0),
direction=i3.PORT_DIRECTION.OUT,
angle_deg=0,
trace_template=self.cell.channel_template)
return ports
class Layout(i3.LayoutView):
channel_template = microfluidics.ShortChannelTemplate()
#inlet_diameter = i3.NumberProperty(default =300.)
cInp = i3.Coord2Property(default=(0.0, 0.0))
def _generate_elements(self, elems):
#solid
#circle = i3.ShapeCircle(center=(0.0,0.0), radius=self.inlet_diameter*0.5)
#elems += i3.Boundary(layer=i3.TECH.PPLAYER.CH2.TRENCH, shape=circle)
#line (faster on MLA)
elems += i3.CirclePath(layer=i3.TECH.PPLAYER.CH2.TRENCH,
center=(0.0, 0.0),
radius=self.diameter * 0.5,
line_width=200)
return elems
def _generate_ports(self, ports):
ports += microfluidics.FluidicPort(
name='in',
position=(0.0, 0.0),
direction=i3.PORT_DIRECTION.IN,
trace_template=self.channel_template,
angle_deg=90)
ports += microfluidics.FluidicPort(
name='out',
position=(0.0, 0.0),
direction=i3.PORT_DIRECTION.OUT,
trace_template=self.channel_template,
angle_deg=90)
return ports
class Layout(i3.LayoutView):
channel_template = microfluidics.ShortChannelTemplate()
#inlet_diameter = i3.NumberProperty(default =300.)
cInp = i3.Coord2Property(default=(0.0, 0.0))
def _generate_elements(self, elems):
#solid
#circle = i3.ShapeCircle(center=(0.0,0.0), radius=self.inlet_diameter*0.5)
#elems += i3.Boundary(layer=i3.TECH.PPLAYER.CH2.TRENCH, shape=circle)
#line (faster on MLA)
elems += i3.CirclePath(layer=i3.TECH.PPLAYER.CH1.TRENCH,
center=(26e3, 9e3),
radius=self.diameter * 0.5,
line_width=200)
elems += i3.CirclePath(layer=i3.TECH.PPLAYER.CH1.TRENCH,
center=(-26e3, 9e3),
radius=self.diameter * 0.5,
line_width=200)
elems += i3.CirclePath(layer=i3.TECH.PPLAYER.CH1.TRENCH,
center=(-26e3, -9e3),
radius=self.diameter * 0.5,
line_width=200)
elems += i3.CirclePath(layer=i3.TECH.PPLAYER.CH1.TRENCH,
center=(26e3, -9e3),
radius=self.diameter * 0.5,
line_width=200)
return elems
class Layout(i3.LayoutView):
channel_template = microfluidics.ShortChannelTemplate()
cInp = i3.Coord2Property(default=(0.0, 0.0))
def _generate_elements(self, elems):
elems += i3.PolygonText(layer=i3.TECH.PPLAYER.CH2.TRENCH,
coordinate=(0., 0.),
text=self.text,
height=self.font_size)
return elems
class Layout(i3.LayoutView):
channel_template = microfluidics.ShortChannelTemplate()
size = i3.NumberProperty(default=10e4)
cInp = i3.Coord2Property(default=(0.0, 0.0))
def _generate_elements(self, elems):
elems += i3.CirclePath(layer=i3.TECH.PPLAYER.CH2.TRENCH,
center=(0.0, 0.0),
radius=self.size * 0.5,
line_width=200)
return elems
class TeeBoolean(i3.PCell):
"""A generic Tee to connect elements. It is defined by a boundary which are defined by points
"""
channel_template = microfluidics.ChannelTemplateProperty(
default=microfluidics.ShortChannelTemplate(),
doc="Channel template of the tee")
_name_prefix = "Tee" # a prefix added to the unique identifier
class Layout(i3.LayoutView):
tee_length = i3.NumberProperty(default=10.0,
doc="length of each tee branch")
def _generate_instances(self, elems): # insts):
rectangle = i3.RoundedRectangle(layer=i3.TECH.PPLAYER.CH2.TRENCH,
center=(0.0, 0.0),
box_size=(self.tee_length,
2 * self.tee_length),
radius=1.0)
rectangle2 = i3.RoundedRectangle(layer=i3.TECH.PPLAYER.CH2.TRENCH,
center=(0.5 * self.tee_length,
0.0),
box_size=(self.tee_length,
self.tee_length),
radius=1.0)
#boolean operation add main trap and 1st rectangle
b_add = rectangle | rectangle2
s = i3.Structure(elements=b_add)
elems += i3.SRef(s)
return elems #insts
def _generate_ports(self, ports):
#port1
ports += microfluidics.FluidicPort(
name='in1',
position=(0, -self.tee_length),
direction=i3.PORT_DIRECTION.IN,
angle_deg=270,
trace_template=self.cell.channel_template)
#port2
ports += microfluidics.FluidicPort(
name='in2',
position=(0, self.tee_length),
direction=i3.PORT_DIRECTION.IN,
angle_deg=90,
trace_template=self.cell.channel_template)
#port3
ports += microfluidics.FluidicPort(
name='out1',
position=(self.tee_length, 0.0),
direction=i3.PORT_DIRECTION.IN,
angle_deg=0,
trace_template=self.cell.channel_template)
return ports
class TeeSimple(i3.PCell):
"""
Provide a description of this PCell
"""
channel_template = microfluidics.ChannelTemplateProperty(
default=microfluidics.ShortChannelTemplate(),
doc="Channel template of the tee")
_name_prefix = "Tee" # a prefix added to the unique identifier
class Layout(i3.LayoutView):
tee_length = i3.NumberProperty(default=300.0,
doc="length of each tee branch")
def _generate_instances(self, insts):
channel1 = microfluidics.Channel(
trace_template=self.cell.channel_template)
channel1_lo = channel1.Layout(
shape=[(0, -self.tee_length), (0, self.tee_length)])
insts += i3.SRef(channel1_lo, position=(0, 0))
channel2 = microfluidics.Channel(
trace_template=self.cell.channel_template)
channel2_lo = channel2.Layout(shape=[(0, 0), (-self.tee_length,
0)])
insts += i3.SRef(channel2_lo, position=(self.tee_length, 0))
return insts
def _generate_ports(self, ports):
#port1
ports += microfluidics.FluidicPort(
name='in1',
position=(0, -self.tee_length),
direction=i3.PORT_DIRECTION.IN,
angle_deg=270,
trace_template=self.cell.channel_template)
#port2
ports += microfluidics.FluidicPort(
name='in2',
position=(0, self.tee_length),
direction=i3.PORT_DIRECTION.IN,
angle_deg=90,
trace_template=self.cell.channel_template)
#port3
ports += microfluidics.FluidicPort(
name='out1',
position=(self.tee_length, 0.0),
direction=i3.PORT_DIRECTION.OUT,
angle_deg=0,
trace_template=self.cell.channel_template)
return ports
class JoinedObstacles(i3.PCell): #(Structure):
channel_template = microfluidics.ChannelTemplateProperty(
default=microfluidics.ShortChannelTemplate(),
doc="Channel template for ports")
mysingleObstacle = i3.ChildCellProperty(
doc='the single Obstacle child cell, which will be clonned many times',
default=Obstacle_BooleanBoundary())
wholeTrapX = i3.PositiveNumberProperty(
default=500.0, doc="total X distance length of traps")
wholeTrapY = i3.PositiveNumberProperty(
default=500.0, doc="total Y distance length of traps")
cInp = i3.Coord2Property(default=0.0, doc="")
class Layout(i3.LayoutView):
def _generate_instances(self, insts):
x_inc = (self.mysingleObstacle.gap_btw_barriers +
self.mysingleObstacle.obstacle_trap_length) * 2
y_inc = self.mysingleObstacle.channel_trap_width * 1.5
cycles_x = int(self.wholeTrapX /
((self.mysingleObstacle.gap_btw_barriers +
self.mysingleObstacle.obstacle_trap_length) * 2))
cycles_y = int(self.wholeTrapY / (y_inc))
insts += i3.ARef(reference=self.mysingleObstacle,
origin=(0, 0.0 * self.cell.wholeTrapY),
period=(x_inc, y_inc),
n_o_periods=(cycles_x, cycles_y))
print 'insts', insts
return insts
def _generate_ports(self, ports):
#port1
ports += microfluidics.FluidicPort(
name='in',
position=(0, self.wholeTrapY * 0.5),
#position = (0, 'insts_0'.size_info().north*0.5),
direction=i3.PORT_DIRECTION.IN,
angle_deg=180,
trace_template=self.cell.channel_template)
#port2
ports += microfluidics.FluidicPort(
name='out',
position=(self.wholeTrapX, self.wholeTrapY * 0.5),
direction=i3.PORT_DIRECTION.OUT,
angle_deg=0,
trace_template=self.cell.channel_template)
return ports
class TeeSimple(i3.PCell):
"""A generic Tee to connect elements. It is defined by a boundary which are defined by points
"""
channel_template = microfluidics.ChannelTemplateProperty(
default=microfluidics.ShortChannelTemplate(),
doc="Channel template of the tee")
_name_prefix = "Tee" # a prefix added to the unique identifier
TECH = i3.get_technology()
class Layout(i3.LayoutView):
tee_length = i3.NumberProperty(default=10.0,
doc="length of each tee branch")
def _generate_instances(self, elems): # insts):
channel1 = microfluidics.Channel(
trace_template=self.cell.channel_template)
channel1_lo = channel1.Layout(
shape=i3.Shape([(0, -self.tee_length), (0, self.tee_length)]))
elems += i3.SRef(channel1, position=(0, 0))
channel2 = microfluidics.Channel(
trace_template=self.cell.channel_template)
channel2_lo = channel2.Layout(shape=[(0, 0), (-self.tee_length,
0)])
elems += i3.SRef(channel2, position=(self.tee_length, 0))
return elems #insts
def _generate_ports(self, ports):
#port1
ports += microfluidics.FluidicPort(
name='in1',
position=(0, -self.tee_length),
direction=i3.PORT_DIRECTION.IN,
angle_deg=270,
trace_template=self.cell.channel_template)
#port2
ports += microfluidics.FluidicPort(
name='in2',
position=(0, self.tee_length),
direction=i3.PORT_DIRECTION.IN,
angle_deg=90,
trace_template=self.cell.channel_template)
#port3
ports += microfluidics.FluidicPort(
name='out1',
position=(self.tee_length, 0.0),
direction=i3.PORT_DIRECTION.IN,
angle_deg=0,
trace_template=self.cell.channel_template)
return ports
class Layout(i3.LayoutView):
channel_template = microfluidics.ShortChannelTemplate()
length = i3.NumberProperty(default=60e3)
width = i3.NumberProperty(default=20e3)
cInp = i3.Coord2Property(default=(0.0, 0.0))
def _generate_elements(self, elems):
elems += i3.RoundedRectanglePath(layer=i3.TECH.PPLAYER.CH2.TRENCH,
center=(0.0, 0.0),
box_size=(self.length,
self.width),
radius=200.,
line_width=2.0)
return elems
class Block(i3.PCell):
"""A generic cell trap class. It is defined by a boundary which are defined by points
"""
_name_prefix = "BLOCK" # a prefix added to the unique identifier
channel_template = microfluidics.ChannelTemplateProperty(
default=microfluidics.ShortChannelTemplate(), doc="Channel template")
TECH = i3.get_technology()
class Layout(i3.LayoutView):
# definition of the default values of the block PCELL
block_length = i3.PositiveNumberProperty(default=300.0)
def _generate_elements(self, insts):
block_width = self.channel_template.channel_width
point_list = []
point_list.append((-self.block_length * 0.5, -block_width * 0.5))
point_list.insert(0, (-self.block_length * 0.5, block_width * 0.5))
point_list.append((self.block_length * 0.5, -block_width * 0.5))
point_list.insert(0, (self.block_length * 0.5, block_width * 0.5))
t = i3.Shape(point_list, closed=True)
bo = i3.Boundary(i3.TECH.PPLAYER.CH2.TRENCH, t)
insts += bo #comm/uncomm for debugging round stl
return insts
def _generate_ports(self, ports):
#port1
ports += microfluidics.FluidicPort(
name='in1',
position=(-self.block_length * 0.5, 0.0),
direction=i3.PORT_DIRECTION.IN,
angle_deg=180,
trace_template=self.channel_template)
ports += microfluidics.FluidicPort(
name='out1',
position=(self.block_length * 0.5, 0.0),
direction=i3.PORT_DIRECTION.IN,
angle_deg=0,
trace_template=self.channel_template)
return ports
class Layout(i3.LayoutView):
channel_template = microfluidics.ShortChannelTemplate()
cInp = i3.Coord2Property(default=(0.0, 0.0))
def _generate_elements(self, elems):
elems += i3.CirclePath(layer=i3.TECH.PPLAYER.CH2.TRENCH,
center=(0.0, 0.0),
radius=self.diameter * 0.5,
line_width=50)
point_list = []
point_list.append((0, -self.diameter * 0.5))
point_list.insert(0, (0, self.diameter * 0.5))
point_list.append(
(self.diameter * self.cell.reduction_ratio,
-self.diameter * 0.5 * self.cell.reduction_ratio))
point_list.insert(
0, (self.diameter * self.cell.reduction_ratio,
self.diameter * 0.5 * self.cell.reduction_ratio))
funnel = i3.Shape(point_list, closed=True)
bo = i3.Boundary(i3.TECH.PPLAYER.CH2.TRENCH, funnel)
elems += bo
return elems
def _generate_ports(self, ports):
'''ports += microfluidics.FluidicPort(name='in', position=(0.0, 0.0),
direction=i3.PORT_DIRECTION.IN,
trace_template=self.channel_template,
angle_deg=0
)'''
ports += microfluidics.FluidicPort(
name='out',
position=(self.diameter * self.cell.reduction_ratio, 0.0),
direction=i3.PORT_DIRECTION.OUT,
trace_template=self.channel_template,
angle_deg=180)
return ports
class CircuitOfBlocks(microfluidics.PlaceAndAutoRoute):
"""Parametric cell with several traps, which are stacked vertically (Parallel) or horizontally (Series)
"""
#_name_prefix = "circuitOfTraps"
type = i3.NumberProperty(default=0) # 0 Paralell 1 Series
block_distance = i3.NumberProperty(default=400.) #distance betwn traps
block_with_tee = i3.ChildCellListProperty(
) # Generating traps with Tee from Child Cell List Property
trace_template = microfluidics.ChannelTemplateProperty(
default=microfluidics.ShortChannelTemplate())
n_blocks_x = i3.PositiveIntProperty(default=30)
n_blocks_y = i3.PositiveIntProperty(default=30)
x_footprint = i3.PositiveIntProperty(default=1000)
y_footprint = i3.PositiveIntProperty(default=1000)
def _default_child_cells(self):
return {
"blk_w_tee{}".format(cnt): self.block_with_tee[cnt]
for cnt in range(self.n_blocks_x * self.n_blocks_y)
}
def _default_links(self):
links = []
bx = self.n_blocks_x
########################
############# PARALLEL
if self.type == 0:
for cntx in range(0, self.n_blocks_x):
# self connection at the top -bypass
top = self.n_blocks_y * self.n_blocks_x - self.n_blocks_x + cntx
links.append(("blk_w_tee{}:in2".format(top),
"blk_w_tee{}:out2".format(top)))
# connecting bottom to top
for cnty in range(0, self.n_blocks_y - 1):
links.append(
("blk_w_tee{}:in2".format(cnty * bx + cntx),
"blk_w_tee{}:in1".format((cnty + 1) * bx + cntx)))
links.append(
("blk_w_tee{}:out2".format(cnty * bx + cntx),
"blk_w_tee{}:out1".format((cnty + 1) * bx + cntx)))
#interconnecting horizontally
if self.n_blocks_x > 1:
for cntd in range(0, self.n_blocks_x - 1):
links.append(("blk_w_tee{}:out1".format(cntd),
"blk_w_tee{}:in1".format(cntd + 1)))
######## END PARALLEL #################
########################
############# SERIES
if self.type == 1: # series
#all by-pass, each object
for cnt in range(0,
self.n_blocks_y * self.n_blocks_x): #all bypass
links.append(("blk_w_tee{}:in2".format(cnt),
"blk_w_tee{}:out2".format(cnt)))
#all interconnecting horizontally
if self.n_blocks_x > 1:
for cnty in range(0, self.n_blocks_y):
for cntd in range(0, (self.n_blocks_x - 1)):
links.append(
("blk_w_tee{}:out1".format(cnty * bx + cntd),
"blk_w_tee{}:in1".format(cnty * bx + cntd + 1)))
#left connections
for cntd in range(1, (self.n_blocks_y - 1), 2):
#links.append(("blk_w_tee{}:in1".format(cntd * bx), "blk_w_tee{}:in1".format((cntd+1) * bx)))
links.append(("blk_w_tee{}:in1".format(
(cntd + 1) * bx), "blk_w_tee{}:in1".format(cntd * bx)))
#right connections
for cntd in range(1, (self.n_blocks_y), 2):
links.append(("blk_w_tee{}:out1".format(cntd * bx - 1),
"blk_w_tee{}:out1".format((cntd + 1) * bx - 1)))
######## END SERIES #################
return links
def _default_block_with_tee(
self): # Generating traps from Child Cell List Property
tee1 = TeeSimple()
tee1.Layout(tee_length=(200.0))
my_block = CellTrapSimple()
my_block.Layout(cell_trap_length=300.0)
return [
TrapWithTees(
name="blk_w_tee_{}".format(cnt),
trap=my_block,
tee=tee1,
) for cnt in range(self.n_blocks_x * self.n_blocks_y)
]
class Layout(microfluidics.PlaceAndAutoRoute.Layout):
def _default_child_transformations(self):
# generate grid
x = np.linspace(0, self.cell.x_footprint, self.cell.n_blocks_x)
y = np.linspace(0, self.cell.y_footprint, self.cell.n_blocks_y)
# generate positions
from functions.position_coordinates import generate_positions
coords = generate_positions(x, y, self.type)
return {
"blk_w_tee{}".format(cnt): i3.Translation(coords[cnt])
for cnt in range(self.n_blocks_x * self.n_blocks_y)
}
def _generate_ports(self, ports):
# Add ports
if self.type == 0:
ports += i3.expose_ports(
self.instances, {
'blk_w_tee0:in1': 'in1',
'blk_w_tee{}:out1'.format(self.n_blocks_x - 1): 'out1'
})
if self.type == 1:
if self.n_blocks_y % 2 == 0:
ports += i3.expose_ports(
self.instances,
{
'blk_w_tee0:in1':
'in1',
'blk_w_tee{}:in1'.format(self.n_blocks_x * self.n_blocks_y - self.n_blocks_x):
'out1' # last left
})
else:
ports += i3.expose_ports(
self.instances,
{
'blk_w_tee0:in1':
'in1',
'blk_w_tee{}:out1'.format(self.n_blocks_x * self.n_blocks_y - 1):
'out1' # last right
})
return ports
class CellTrapSimple(i3.PCell):
"""
Provide a description of this PCell
"""
_name_prefix = "CELLTRAP" # a prefix added to the unique identifier
channel_template = microfluidics.ChannelTemplateProperty(
default=microfluidics.ShortChannelTemplate(), doc="Channel template")
class Layout(i3.LayoutView):
cell_trap_length = i3.PositiveNumberProperty(default=300.0,
doc="total length")
cell_trap_gap = i3.NumberProperty(default=10.0, doc="trap gap")
cell_trap_gap_length = i3.NumberProperty(default=60.0,
doc="length of trap section")
in_angle = i3.NumberProperty(default=85,
doc="internal entry angle of the trap ")
out_angle = i3.NumberProperty(default=85,
doc="internal exit angle of the trap ")
radius_fillet = i3.NumberProperty(
default=3, doc="radius for rounding internal edges/corners")
'''
----------------------------\ /--------------
in angle \ / outangle
\ /
|_____|
_____
| |
/ \
in angle / \outangle
____________________________/ \------------------
'''
def _generate_elements(self, elems):
cell_trap_width = self.channel_template.channel_width
alpha = math.radians(self.in_angle)
beta = math.radians(self.out_angle)
point_list = []
point_list.append(
(-self.cell_trap_length * 0.25, -cell_trap_width * 0.5))
point_list.insert(
0, (-self.cell_trap_length * 0.25, cell_trap_width * 0.5))
point_list.append(
(-(cell_trap_width - self.cell_trap_gap) / math.tan(alpha) -
self.cell_trap_gap_length * 0.5, -(cell_trap_width * 0.5)))
point_list.insert(
0, (-(cell_trap_width - self.cell_trap_gap) / math.tan(alpha) -
self.cell_trap_gap_length * 0.5, (cell_trap_width * 0.5)))
point_list.append((-self.cell_trap_gap_length * 0.25,
-self.cell_trap_gap * 0.5)) # end of array
point_list.insert(
0, (-self.cell_trap_gap_length * 0.25,
self.cell_trap_gap * 0.5)) # begging of array, position 0
point_list.append(
(self.cell_trap_gap_length * 0.25, -self.cell_trap_gap * 0.5))
point_list.insert(
0,
(self.cell_trap_gap_length * 0.25, self.cell_trap_gap * 0.5))
point_list.append(
((cell_trap_width - self.cell_trap_gap) / math.tan(beta) +
self.cell_trap_gap_length * 0.25, -(cell_trap_width * 0.5)))
point_list.insert(
0, ((cell_trap_width - self.cell_trap_gap) / math.tan(beta) +
self.cell_trap_gap_length * 0.25, (cell_trap_width * 0.5)))
point_list.append(
(-self.cell_trap_length * 0.25 + self.cell_trap_length * 0.5,
-cell_trap_width * 0.5))
point_list.insert(
0,
(-self.cell_trap_length * 0.25 + self.cell_trap_length * 0.5,
cell_trap_width * 0.5))
t = i3.Shape(point_list, closed=True)
rectang = i3.ShapeRound(original_shape=t,
start_face_angle=0,
end_face_angle=0,
radius=self.radius_fillet)
bo = i3.Boundary(self.channel_template.layer, rectang)
#insts += bo #comm/uncomm for debugging round stl
#creating an inlet rectangle boundary to avoid round corners
point_list = []
#w = 3
point_list.append(
(-self.cell_trap_length * 0.5, -cell_trap_width * 0.5))
point_list.insert(
0, (-self.cell_trap_length * 0.5, cell_trap_width * 0.5))
point_list.append(
(-self.cell_trap_length * 0.25 + self.radius_fillet,
-cell_trap_width * 0.5))
point_list.insert(0, (-self.cell_trap_length * 0.25 +
self.radius_fillet, cell_trap_width * 0.5))
t = i3.Shape(point_list, closed=True)
bo1 = i3.Boundary(self.channel_template.layer, t)
#creating an outlet rectangle boundary to avoid round corners
point_list = []
point_list.append(
(self.cell_trap_length * 0.25 - self.radius_fillet,
-cell_trap_width * 0.5))
point_list.insert(0, (self.cell_trap_length * 0.25 -
self.radius_fillet, cell_trap_width * 0.5))
point_list.append(
(self.cell_trap_length * 0.5, -cell_trap_width * 0.5))
point_list.insert(0,
(-self.cell_trap_length * 0.5 +
self.cell_trap_length, cell_trap_width * 0.5))
t = i3.Shape(point_list, closed=True)
bo2 = i3.Boundary(self.channel_template.layer, t)
#boolean operation adding main geometry and inlet rectangle
b_add = bo1 | bo
#boolean operation adding main geometry and outlet rectangle
b_add2 = bo2 | b_add[0]
elems += b_add2
return elems
def _generate_ports(self, ports):
#port1
ports += microfluidics.FluidicPort(
name='in1',
position=(-self.cell_trap_length * 0.5, 0.0),
direction=i3.PORT_DIRECTION.IN,
angle_deg=180,
trace_template=self.channel_template)
ports += microfluidics.FluidicPort(
name='out1',
position=(self.cell_trap_length * 0.5, 0.0),
direction=i3.PORT_DIRECTION.IN,
angle_deg=0,
trace_template=self.channel_template)
return ports
class Obstacle_BooleanBoundary(i3.PCell):
# Properties of trap
channel_template = microfluidics.ChannelTemplateProperty(
default=microfluidics.ShortChannelTemplate(),
doc="Channel template of the tee")
_name_prefix = "VacTrapV" # a prefix added to the unique identifier
radius = i3.PositiveNumberProperty(
default=400.,
doc="radius of the circular vacuum section collecting air")
vacuum_channel_circular = i3.PositiveNumberProperty(
default=100., doc="width of circular channel collecting air")
inlet_channel_length = i3.PositiveNumberProperty(
default=300., doc="length of inlet channel vac")
layer = i3.LayerProperty(default=i3.TECH.PPLAYER.CH2.TRENCH,
doc='Layer to drawn on')
cInp = i3.Coord2Property(default=(0.0, 0.0), required=True)
class Layout(i3.LayoutView):
def _generate_instances(self, insts):
sr1 = i3.ShapeCircle(center=(0.0, 0.0),
radius=self.radius) #, line_width = 200)
sr2 = i3.ShapeCircle(
center=(0.0, 0.0),
radius=self.radius -
self.vacuum_channel_circular) #, line_width = 200)
#Rectangles
sc1 = i3.ShapeRectangle(
center=(self.cInp.x - self.radius, -self.radius),
box_size=(self.radius * 2, self.radius * 2 +
100)) #100 has to be linked to channel input width))
#Define the boundaries for shapes
br1 = i3.Boundary(layer=self.layer, shape=sr1)
br2 = i3.Boundary(layer=self.layer, shape=sr2)
bc1 = i3.Boundary(layer=self.layer, shape=sc1)
#Substruct boundaries and add to the element list
b_sub = br1 - br2
s = i3.Structure(elements=b_sub)
b_sub = b_sub[0] - bc1
s = i3.Structure(elements=b_sub)
insts += i3.SRef(s)
#Input channel - segment
channel1 = microfluidics.Channel(
trace_template=self.cell.channel_template)
channel1_lo = channel1.Layout(
shape=[(0, 0),
(0, self.inlet_channel_length +
self.vacuum_channel_circular * 0.5)])
insts += i3.SRef(channel1_lo,
position=(0, self.radius -
self.vacuum_channel_circular * 0.5),
transformation=i3.Rotation((0.0, 0.0), 0.0))
return insts
#Thach added to define one inlet and one outlet
def _generate_ports(
self, ports): # Use _generate_ports method to define ports
#ports += i3.InFluidicPort(name = "in", position = (0., 10.), angle = 180.0)
ports += i3.OpticalPort(name="in",
position=(0., self.radius +
self.inlet_channel_length),
angle=180.0)
#ports += i3.OutFluidicPort(name ="out", position = (30., 10.), angle = 0.0)
#ports += i3.OpticalPort(name ="out", position = ((self.obstacle_trap_length+self.gap_btw_barriers)*2, self.channel_trap_width*0.5), angle = 0.0)
return ports
class Obstacle_BooleanBoundary(i3.PCell):
# Properties of trap
width = 200 #i3.PositiveNumberProperty(default=200.,doc="width main channel")
channel_template = microfluidics.ChannelTemplateProperty(
default=microfluidics.ShortChannelTemplate().Layout(width=width),
doc="Channel template of the tee")
_name_prefix = "VacTrapV" # a prefix added to the unique identifier
radius = i3.PositiveNumberProperty(
default=400.,
doc="radius of the circular vacuum section collecting air")
vacuum_channel_circular = i3.PositiveNumberProperty(
default=100., doc="width of circular channel collecting air")
inlet_channel_length = i3.PositiveNumberProperty(
default=300., doc="length of inlet channel vac")
offset_matching = i3.PositiveNumberProperty(
default=50., doc="length of inlet channel vac")
obstacles = i3.ChildCellProperty(
doc='the single Obstacle child cell, which will be clonned many times',
default=JoinedObstacles(wholeTrapX=width))
layer = i3.LayerProperty(default=i3.TECH.PPLAYER.CH2.TRENCH,
doc='Layer to drawn on')
cInp = i3.Coord2Property(default=(0.0, 0.0), required=True)
class Layout(i3.LayoutView):
def _generate_instances(self, insts):
width = 200.0
p1 = (-self.radius, -self.radius) #near cylinders
p2 = (-self.radius, -2 * self.radius) #bottom
p3 = (2 * self.radius, -2 * self.radius) #right
p4 = (2 * self.radius, 0) #top
p5 = (2 * self.radius + 500, 0) #out
pax = (-width * 0.5 * math.cos(45), width * 0.5 * math.sin(45))
#generate a circle
sr1 = i3.ShapeCircle(center=(0.0, 0.0),
radius=self.radius) #, line_width = 200)
br1 = i3.Boundary(layer=self.layer, shape=sr1)
#s= i3.Structure(elements = br1)
#rectangle
sc1 = i3.ShapeRectangle(center=p1,
box_size=(self.radius * 4,
self.radius * 0.25))
bc1 = i3.Boundary(layer=self.layer,
shape=sc1,
transformation=i3.Rotation((0, 0),
-45.0)) # was -35
#Substruct boundaries and add to the element list
b_sub = br1 - bc1
s = i3.Structure(elements=b_sub)
insts += i3.SRef(s)
#Input channel - segment
channel1 = microfluidics.Channel(
trace_template=self.cell.channel_template)
#channel_template = microfluidics.ShortChannelTemplate().Layout(width=200.0)
channel1_lo = channel1.Layout(shape=[(self.inlet_channel_length +
self.offset_matching * 0.5,
0), (0, 0)])
insts += i3.SRef(
channel1_lo,
position=(-(self.inlet_channel_length + self.radius), 0),
transformation=i3.Rotation((0.0, 0.0), 0.0))
#############################routing
from ipkiss.plugins.photonics.routing.manhattan import RouteManhattan
channel_4 = microfluidics.RoundedChannel(
trace_template=self.cell.channel_template) # used for routing
channel_4_layout = channel_4.Layout()
import operator
p1Array = tuple(map(operator.add, p1, pax))
print 'p1: ', p1
print 'pax: ', pax
print 'p1Array: ', p1Array
#obstacles
insts += i3.SRef(reference=self.obstacles,
position=p1Array,
transformation=i3.Rotation((0, 0), -45.0))
in_port_1 = microfluidics.FluidicPort(
position=p1, trace_template=self.cell.channel_template)
out_port_1 = microfluidics.FluidicPort(
trace_template=self.cell.channel_template)
in_port_1.angle_deg = 225
out_port_1.angle_deg = 45
in_port_2 = microfluidics.FluidicPort(
position=p2, trace_template=self.cell.channel_template)
in_port_2.angle_deg = 225
channel_4_layout.set(bend_radius=150.0,
shape=RouteManhattan(input_port=in_port_2,
points=[p2, p3, p4, p5],
output_port=out_port_1,
bend_radius=300.0))
insts += i3.SRef(name="Route_1", reference=channel_4)
##############################routing
from ipkiss3.pcell.routing import RouteToAngle
# create the route object
channel_1 = microfluidics.RoundedChannel(
trace_template=self.cell.channel_template) # used for routing
channel_1_layout = channel_1.Layout()
channel_1_layout.set(bend_radius=50.0,
shape=RouteToAngle(input_port=in_port_1,
start_straight=300,
end_straight=300,
angle_out=45))
#insts += i3.SRef(name = "Route_2", reference = channel_1)
from ipkiss3.pcell.routing import RouteToEastAtMaxY, RouteToEastAtMinY, RouteToEastAtY
# create the route object
input_portx = i3.OpticalPort(name="in",
position=(-self.radius, -self.radius),
angle_deg=225.0)
channel_x = microfluidics.RoundedChannel(
trace_template=self.cell.channel_template) # used for routing
channel_x_layout = channel_x.Layout()
channel_x_layout.set(bend_radius=150.0,
shape=RouteToEastAtY(input_port=input_portx,
start_straight=200,
end_straight=200,
y_position=-2 *
self.radius))
insts += i3.SRef(name="Route_x", reference=channel_x)
return insts
#Thach added to define one inlet and one outlet
def _generate_ports(
self, ports): # Use _generate_ports method to define ports
#ports += i3.InFluidicPort(name = "in", position = (0., 10.), angle = 180.0)
ports += i3.OpticalPort(name="in",
position=(0., self.radius +
self.inlet_channel_length),
angle=180.0)
#ports += i3.OutFluidicPort(name ="out", position = (30., 10.), angle = 0.0)
#ports += i3.OpticalPort(name ="out", position = ((self.obstacle_trap_length+self.gap_btw_barriers)*2, self.channel_trap_width*0.5), angle = 0.0)
return ports
