def test_grainsize_active_layer(example_nmg, example_parcels,
example_flow_director):
time = [0.0] # probably not the sensible way to do this...
items = {"grid_element": "link", "element_id": np.array([[6], [6]])}
initial_volume = np.array([[1], [1]])
abrasion_rate = np.array([0, 0])
variables = {
"starting_link": (["item_id"], np.array([6, 6])),
"abrasion_rate": (["item_id"], abrasion_rate),
"density": (["item_id"], np.array([2650, 2650])),
"time_arrival_in_link": (["item_id", "time"], np.array([[0.5], [0]])),
"active_layer": (["item_id", "time"], np.array([[1], [1]])),
"location_in_link": (["item_id", "time"], np.array([[0], [0]])),
"D": (["item_id", "time"], np.array([[0.05], [0.05]])),
"volume": (["item_id", "time"], initial_volume),
}
two_parcels = DataRecord(
example_nmg,
items=items,
time=time,
data_vars=variables,
dummy_elements={"link": [NetworkSedimentTransporter.OUT_OF_NETWORK]},
)
timesteps = 8
example_nmg.at_link["flow_depth"] = (example_nmg.at_link["flow_depth"] * 5
) # high transport rate
nst = NetworkSedimentTransporter(
example_nmg,
two_parcels,
example_flow_director,
bed_porosity=0.03,
g=9.81,
fluid_density=1000,
transport_method="WilcockCrowe",
active_layer_method="GrainSizeDependent",
active_layer_d_multiplier=3,
)
dt = 60 * 60 * 24 # (seconds) daily timestep
for t in range(0, (timesteps * dt), dt):
nst.run_one_step(dt)
# Active layer thickness should be 3*d_mean
active_layer_thickness_should_be = 3 * 0.05
assert_array_almost_equal(active_layer_thickness_should_be,
nst._active_layer_thickness[0])
def test_abrasion(example_nmg, example_parcels, example_flow_director):
time = [0.0] # probably not the sensible way to do this...
items = {"grid_element": "link", "element_id": np.array([[6], [6]])}
initial_volume = np.array([[1], [1]])
abrasion_rate = np.array([0.0001, 0])
variables = {
"starting_link": (["item_id"], np.array([6, 6])),
"abrasion_rate": (["item_id"], abrasion_rate),
"density": (["item_id"], np.array([2650, 90000])),
"time_arrival_in_link": (["item_id", "time"], np.array([[0.5], [0]])),
"active_layer": (["item_id", "time"], np.array([[1], [1]])),
"location_in_link": (["item_id", "time"], np.array([[0], [0]])),
"D": (["item_id", "time"], np.array([[0.05], [0.05]])),
"volume": (["item_id", "time"], initial_volume),
}
two_parcels = DataRecord(
example_nmg,
items=items,
time=time,
data_vars=variables,
dummy_elements={"link": [NetworkSedimentTransporter.OUT_OF_NETWORK]},
)
timesteps = 8
example_nmg.at_link["flow_depth"] = (example_nmg.at_link["flow_depth"] * 5
) # high transport rate
nst = NetworkSedimentTransporter(
example_nmg,
two_parcels,
example_flow_director,
bed_porosity=0.03,
g=9.81,
fluid_density=1000,
transport_method="WilcockCrowe",
)
dt = 60 * 60 * 24 # (seconds) daily timestep
for t in range(0, (timesteps * dt), dt):
nst.run_one_step(dt)
# Parcel volume should decrease according to abrasion rate
volume_after_transport = np.squeeze(np.transpose(initial_volume)) * np.exp(
nst._distance_traveled_cumulative * -abrasion_rate)
assert_array_almost_equal(volume_after_transport,
two_parcels.dataset.volume[0:2, -1])
def test_parcel_leaves(example_nmg, example_flow_director):
example_nmg.at_link["reach_length"] = ([
10.0, 10.0, 10.0, 10.0, 10.0, 10.0, 10.0
], )
time = [0.0]
items = {"grid_element": "link", "element_id": np.array([[6]])}
initial_volume = np.array([[1]])
abrasion_rate = np.array([0.0001])
variables = {
"starting_link": (["item_id"], np.array([6])),
"abrasion_rate": (["item_id"], abrasion_rate),
"density": (["item_id"], np.array([2650])),
"time_arrival_in_link": (["item_id",
"time"], np.array([[0.71518937]])),
"active_layer": (["item_id", "time"], np.array([[1]])),
"location_in_link": (["item_id", "time"], np.array([[0]])),
"D": (["item_id", "time"], np.array([[0.05]])),
"volume": (["item_id", "time"], initial_volume),
}
one_parcel = DataRecord(
example_nmg,
items=items,
time=time,
data_vars=variables,
dummy_elements={"link": [NetworkSedimentTransporter.OUT_OF_NETWORK]},
)
timesteps = 10
example_nmg.at_link["flow_depth"] = example_nmg.at_link["flow_depth"] * 20
nst = NetworkSedimentTransporter(
example_nmg,
one_parcel,
example_flow_director,
bed_porosity=0.03,
g=9.81,
fluid_density=1000,
transport_method="WilcockCrowe",
)
dt = 60 * 60 * 24 # (seconds) daily timestep
# Parcel should exit, then runtime error is raised
with pytest.raises(RuntimeError):
for _ in range(timesteps):
nst.run_one_step(dt)
def test_basic_init(example_nmg, example_parcels, example_flow_director):
_ = NetworkSedimentTransporter(
example_nmg,
example_parcels,
example_flow_director,
bed_porosity=0.3,
g=9.81,
fluid_density=1000,
transport_method="WilcockCrowe",
)
def test_bad_porosity(example_nmg, example_parcels, example_flow_director):
with pytest.raises(ValueError):
NetworkSedimentTransporter(
example_nmg,
example_parcels,
example_flow_director,
bed_porosity=-0.03,
g=9.81,
fluid_density=1000,
transport_method="WilcockCrowe",
)
def test_no_flow_no_transport(example_nmg, example_parcels,
example_flow_director):
timesteps = 3
example_nmg.at_link["flow_depth"] = 0 * np.ones(example_nmg.size("link"))
nst = NetworkSedimentTransporter(
example_nmg,
example_parcels,
example_flow_director,
bed_porosity=0.03,
g=9.81,
fluid_density=1000,
)
dt = 60 * 60 * 24 # (seconds) daily timestep
for t in range(0, (timesteps * dt), dt):
nst.run_one_step(dt)
# Need to define original_node_elev after a timestep has passed.
if t / (60 * 60 * 24) == 1:
original_node_elev = example_nmg.at_node["topographic__elevation"]
# No flow? Parcels should stay in same locations in links
assert_array_almost_equal(
example_parcels.dataset.location_in_link[:, 0],
example_parcels.dataset.location_in_link[:, 1],
)
# No flow? Total parcel volume should stay the same
assert_array_equal(
np.sum(example_parcels.dataset["volume"].values, axis=0)[0],
np.sum(example_parcels.dataset["volume"].values, axis=0)[1],
)
# No flow? Elevations should stay the same
assert_array_equal(original_node_elev,
example_nmg.at_node["topographic__elevation"])
def test_add_pulse():
y_of_node = (0, 0, 0, 0)
x_of_node = (0, 100, 200, 300)
nodes_at_link = ((0, 1), (1, 2), (2, 3))
nmg_constant_slope = NetworkModelGrid((y_of_node, x_of_node), nodes_at_link)
# add variables to nmg
nmg_constant_slope.at_node["topographic__elevation"] = [3.0, 2.0, 1.0, 0.0]
nmg_constant_slope.at_node["bedrock__elevation"] = [3.0, 2.0, 1.0, 0.0]
nmg_constant_slope.at_link["channel_slope"] = [0.001, 0.001, 0.001]
nmg_constant_slope.at_link["reach_length"] = [100.0, 100.0, 100.0] # m
nmg_constant_slope.at_link["channel_width"] = 15 * np.ones(
nmg_constant_slope.size("link")
)
nmg_constant_slope.at_link["flow_depth"] = 2 * np.ones(
nmg_constant_slope.size("link")
)
flow_director = FlowDirectorSteepest(nmg_constant_slope)
flow_director.run_one_step()
time = [0.0]
items = {"grid_element": "link", "element_id": np.array([[0]])}
initial_volume = np.array([[1]])
abrasion_rate = np.array([0])
variables = {
"starting_link": (["item_id"], np.array([0])),
"abrasion_rate": (["item_id"], abrasion_rate),
"density": (["item_id"], np.array([2650])),
"time_arrival_in_link": (["item_id", "time"], np.array([[0.71518937]])),
"active_layer": (["item_id", "time"], np.array([[1]])),
"location_in_link": (["item_id", "time"], np.array([[0]])),
"D": (["item_id", "time"], np.array([[0.05]])),
"volume": (["item_id", "time"], initial_volume),
}
parcels = DataRecord(
nmg_constant_slope,
items=items,
time=time,
data_vars=variables,
dummy_elements={"link": [NetworkSedimentTransporter.OUT_OF_NETWORK]},
)
nst = NetworkSedimentTransporter(
nmg_constant_slope,
parcels,
flow_director,
bed_porosity=0.03,
g=9.81,
fluid_density=1000,
transport_method="WilcockCrowe",
)
dt = 60 # (seconds) 1 min timestep
nst.run_one_step(dt)
# ONE TIMESTEP BEFORE PULSE
# TIMESTEP 1 should have NANS.
num_pulse_parcels = 2
newpar_element_id = np.zeros(num_pulse_parcels, dtype=int)
newpar_element_id = np.expand_dims(newpar_element_id, axis=1)
new_starting_link = np.squeeze(newpar_element_id)
np.random.seed(0)
new_time_arrival_in_link = nst._time * np.ones(np.shape(newpar_element_id))
new_volume = 0.5 * np.ones(
np.shape(newpar_element_id)
) # (m3) the volume of each parcel
new_lithology = ["pulse_material"] * np.size(
newpar_element_id
) # a lithology descriptor for each parcel
new_active_layer = np.ones(
np.shape(newpar_element_id)
) # 1 = active/surface layer; 0 = subsurface layer
new_density = 2650 * np.ones(np.size(newpar_element_id)) # (kg/m3)
new_location_in_link = np.random.rand(np.size(newpar_element_id), 1)
new_abrasion_rate = 0 * np.ones(np.size(newpar_element_id))
new_D = 0.03 * np.ones(np.shape(newpar_element_id))
newpar_grid_elements = np.array(
np.empty((np.shape(newpar_element_id)), dtype=object)
) # BUG: should be able to pass ["link"], but datarecord fills it into an incorrect array shape-- the length of parcels (NOT new parcels)
newpar_grid_elements.fill("link")
new_parcels = {
"grid_element": newpar_grid_elements,
"element_id": newpar_element_id,
}
new_variables = {
"starting_link": (["item_id"], new_starting_link),
"abrasion_rate": (["item_id"], new_abrasion_rate),
"density": (["item_id"], new_density),
"lithology": (["item_id"], new_lithology),
"time_arrival_in_link": (["item_id", "time"], new_time_arrival_in_link),
"active_layer": (["item_id", "time"], new_active_layer),
"location_in_link": (["item_id", "time"], new_location_in_link),
"D": (["item_id", "time"], new_D),
"volume": (["item_id", "time"], new_volume),
}
parcels.add_item(
time=[nst._time], new_item=new_parcels, new_item_spec=new_variables
)
nst.run_one_step(dt)
print(parcels.dataset.element_id.values)
Parcel_element_id = parcels.dataset.element_id.values
Parcel_element_id_Should_Be = np.array(
[[0.0, 0.0, 0.0], [np.nan, 0.0, 0.0], [np.nan, 0.0, 0.0]]
)
assert_array_almost_equal(
Parcel_element_id_Should_Be, Parcel_element_id, decimal=-1
)
def test_defined_parcel_transport():
y_of_node = (0, 0, 0, 0)
x_of_node = (0, 100, 200, 300)
nodes_at_link = ((0, 1), (1, 2), (2, 3))
nmg_constant_slope = NetworkModelGrid((y_of_node, x_of_node),
nodes_at_link)
# add variables to nmg
nmg_constant_slope.at_node["topographic__elevation"] = [3.0, 2.0, 1.0, 0.0]
nmg_constant_slope.at_node["bedrock__elevation"] = [3.0, 2.0, 1.0, 0.0]
nmg_constant_slope.at_link["channel_slope"] = [0.001, 0.001, 0.001]
nmg_constant_slope.at_link["reach_length"] = [100.0, 100.0, 100.0] # m
nmg_constant_slope.at_link["channel_width"] = 15 * np.ones(
nmg_constant_slope.size("link"))
nmg_constant_slope.at_link["flow_depth"] = 2 * np.ones(
nmg_constant_slope.size("link"))
flow_director = FlowDirectorSteepest(nmg_constant_slope)
flow_director.run_one_step()
timesteps = 11
time = [0.0]
items = {"grid_element": "link", "element_id": np.array([[0]])}
initial_volume = np.array([[1]])
abrasion_rate = np.array([0])
variables = {
"starting_link": (["item_id"], np.array([0])),
"abrasion_rate": (["item_id"], abrasion_rate),
"density": (["item_id"], np.array([2650])),
"time_arrival_in_link": (["item_id",
"time"], np.array([[0.71518937]])),
"active_layer": (["item_id", "time"], np.array([[1]])),
"location_in_link": (["item_id", "time"], np.array([[0]])),
"D": (["item_id", "time"], np.array([[0.05]])),
"volume": (["item_id", "time"], initial_volume),
}
one_parcel = DataRecord(
nmg_constant_slope,
items=items,
time=time,
data_vars=variables,
dummy_elements={"link": [NetworkSedimentTransporter.OUT_OF_NETWORK]},
)
nst = NetworkSedimentTransporter(
nmg_constant_slope,
one_parcel,
flow_director,
bed_porosity=0.03,
g=9.81,
fluid_density=1000,
transport_method="WilcockCrowe",
)
dt = 60 # (seconds) 1 min timestep
distance_traveled = np.arange(0.0, timesteps)
# distance_traveled = np.arange(0.,timesteps)
for t in range(0, (timesteps * dt), dt):
nst.run_one_step(dt)
distance_traveled[np.int(t / dt)] = nst._distance_traveled_cumulative
# NEED TO CALCULATE THINGS HERE.
# Transport distance should match?
Distance_Traveled_Should_Be = [
21.61998527,
43.23997054,
64.85995581,
86.47994109,
108.09992636,
129.71991163,
151.3398969,
172.95988217,
194.57986744,
216.19985272,
237.81983799,
]
assert_array_almost_equal(Distance_Traveled_Should_Be,
distance_traveled,
decimal=-1)
def test_first_in_last_out():
y_of_node = (0, 0, 0, 0, 0, 0)
x_of_node = (0, 100, 200, 300, 400, 500)
nodes_at_link = ((0, 1), (1, 2), (2, 3), (3, 4), (4, 5))
nmg_constant_slope = NetworkModelGrid((y_of_node, x_of_node), nodes_at_link)
# add variables to nmg
nmg_constant_slope.at_node["topographic__elevation"] = [
5.0,
4.0,
3.0,
2.0,
1.0,
0.0,
]
nmg_constant_slope.at_node["bedrock__elevation"] = [5.0, 4.0, 3.0, 2.0, 1.0, 0.0]
nmg_constant_slope.at_link["channel_slope"] = [0.001, 0.001, 0.001, 0.001, 0.001]
nmg_constant_slope.at_link["flow_depth"] = [1.75, 1.75, 1.75, 1.75, 1.75]
nmg_constant_slope.at_link["reach_length"] = [
100.0,
100.0,
100.0,
100.0,
100.0,
] # m
nmg_constant_slope.at_link["channel_width"] = 15 * np.ones(
nmg_constant_slope.size("link")
)
flow_director = FlowDirectorSteepest(nmg_constant_slope)
flow_director.run_one_step()
timesteps = 20
time = [0.0]
element_id = np.zeros(100, dtype=int)
element_id = np.expand_dims(element_id, axis=1)
items = {"grid_element": "link", "element_id": element_id}
abrasion_rate = np.zeros(np.size(element_id))
initial_volume = np.ones(np.shape(element_id))
time_arrival_in_link = np.arange(0, 0.1, 0.001)
time_arrival_in_link = np.expand_dims(time_arrival_in_link, axis=1)
variables = {
"starting_link": (["item_id"], np.squeeze(element_id)),
"abrasion_rate": (["item_id"], abrasion_rate),
"density": (["item_id"], 2650 * np.ones(np.size(element_id))),
"time_arrival_in_link": (["item_id", "time"], time_arrival_in_link),
"active_layer": (["item_id", "time"], initial_volume),
"location_in_link": (["item_id", "time"], element_id),
"D": (["item_id", "time"], initial_volume * 0.05),
"volume": (["item_id", "time"], initial_volume),
}
hundred_boring_parcels = DataRecord(
nmg_constant_slope,
items=items,
time=time,
data_vars=variables,
dummy_elements={"link": [NetworkSedimentTransporter.OUT_OF_NETWORK]},
)
nst = NetworkSedimentTransporter(
nmg_constant_slope,
hundred_boring_parcels,
flow_director,
bed_porosity=0.03,
g=9.81,
fluid_density=1000,
transport_method="WilcockCrowe",
)
dt = 60 * 60 # (seconds) 1 hour timestep
for t in range(0, (timesteps * dt), dt):
nst.run_one_step(dt)
first_in_parcel = np.argmin(time_arrival_in_link)
last_in_parcel = np.argmax(time_arrival_in_link)
link_of_first_in_parcel = hundred_boring_parcels.dataset.element_id.values[
first_in_parcel, :
]
link_of_last_in_parcel = hundred_boring_parcels.dataset.element_id.values[
last_in_parcel, :
]
First_in_lags_behind = np.greater_equal(
link_of_last_in_parcel, link_of_first_in_parcel
)
SO_TRUE = np.ones(np.shape(First_in_lags_behind), dtype=bool)
assert_array_equal(SO_TRUE, First_in_lags_behind)
def test_recycling():
y_of_node = (0, 0, 0, 0)
x_of_node = (0, 100, 200, 300)
nodes_at_link = ((0, 1), (1, 2), (2, 3))
nmg_constant_slope = NetworkModelGrid((y_of_node, x_of_node), nodes_at_link)
# add variables to nmg
nmg_constant_slope.at_node["topographic__elevation"] = [3.0, 2.0, 1.0, 0.0]
nmg_constant_slope.at_node["bedrock__elevation"] = [3.0, 2.0, 1.0, 0.0]
nmg_constant_slope.at_link["channel_slope"] = [0.001, 0.001, 0.001]
nmg_constant_slope.at_link["reach_length"] = [100.0, 100.0, 100.0] # m
nmg_constant_slope.at_link["channel_width"] = 15 * np.ones(
nmg_constant_slope.size("link")
)
nmg_constant_slope.at_link["flow_depth"] = 3 * np.ones(
nmg_constant_slope.size("link")
)
flow_director = FlowDirectorSteepest(nmg_constant_slope)
flow_director.run_one_step()
time = [0.0]
items = {"grid_element": "link", "element_id": np.array([[0]])}
initial_volume = np.array([[1]])
abrasion_rate = np.array([0])
variables = {
"starting_link": (["item_id"], np.array([0])),
"abrasion_rate": (["item_id"], abrasion_rate),
"density": (["item_id"], np.array([2650])),
"time_arrival_in_link": (["item_id", "time"], np.array([[0.71518937]])),
"active_layer": (["item_id", "time"], np.array([[1]])),
"location_in_link": (["item_id", "time"], np.array([[0]])),
"D": (["item_id", "time"], np.array([[0.05]])),
"volume": (["item_id", "time"], initial_volume),
}
parcels = DataRecord(
nmg_constant_slope,
items=items,
time=time,
data_vars=variables,
dummy_elements={"link": [NetworkSedimentTransporter.OUT_OF_NETWORK]},
)
nst = NetworkSedimentTransporter(
nmg_constant_slope,
parcels,
flow_director,
bed_porosity=0.03,
g=9.81,
fluid_density=1000,
transport_method="WilcockCrowe",
)
dt = 60 # (seconds) 1 min timestep
timesteps = 8
for t in range(0, (timesteps * dt), dt):
# RECYCLE sediment: what left the network gets added back in at top.
parcels.dataset.location_in_link.values[
parcels.dataset.element_id.values
== NetworkSedimentTransporter.OUT_OF_NETWORK
] = 0
parcels.dataset.element_id.values[
parcels.dataset.element_id.values
== NetworkSedimentTransporter.OUT_OF_NETWORK
] = 0
nst.run_one_step(dt)
print("done with another timestep")
print(parcels.dataset.element_id.values)
Parcel_element_id = parcels.dataset.element_id.values
Parcel_element_id_Should_Be = np.array(
[[0.0, 0.0, 0.0, 1.0, 1.0, 2.0, 2.0, 0.0, 0.0]]
)
assert_array_almost_equal(
Parcel_element_id_Should_Be, Parcel_element_id, decimal=-1
)
def synthetic():
y_of_node = (0, 100, 200, 200, 300, 400, 400, 125)
x_of_node = (0, 0, 100, -50, -100, 50, -150, -100)
nodes_at_link = ((1, 0), (2, 1), (1, 7), (3, 1), (3, 4), (4, 5), (4, 6))
grid1 = NetworkModelGrid((y_of_node, x_of_node), nodes_at_link)
grid1.at_node["topographic__elevation"] = [
0.0,
0.08,
0.25,
0.15,
0.25,
0.4,
0.8,
0.8,
]
grid1.at_node["bedrock__elevation"] = [
0.0, 0.08, 0.25, 0.15, 0.25, 0.4, 0.8, 0.8
]
grid1.at_link["flow_depth"] = 2.5 * np.ones(grid1.number_of_links)
grid1.at_link["channel_slope"] = np.ones(
grid1.number_of_links) # AP ?? Does it get overwritten?? check
grid1.at_link["reach_length"] = 200 * np.ones(grid1.number_of_links) # m
grid1.at_link["channel_width"] = 1 * np.ones(grid1.number_of_links)
# element_id is the link on which the parcel begins.
element_id = np.repeat(np.arange(grid1.number_of_links), 30)
element_id = np.expand_dims(element_id, axis=1)
volume = 0.05 * np.ones(np.shape(element_id)) # (m3)
active_layer = np.ones(np.shape(element_id)) # 1= active, 0 = inactive
density = 2650 * np.ones(np.size(element_id)) # (kg/m3)
abrasion_rate = 0 * np.ones(np.size(element_id)) # (mass loss /m)
# Lognormal GSD
medianD = 0.085 # m
mu = np.log(medianD)
sigma = np.log(2) # assume that D84 = sigma*D50
np.random.seed(0)
D = np.random.lognormal(
mu, sigma,
np.shape(element_id)) # (m) the diameter of grains in each parcel
time_arrival_in_link = np.random.rand(np.size(element_id), 1)
location_in_link = np.random.rand(np.size(element_id), 1)
lithology = ["quartzite"] * np.size(element_id)
variables = {
"abrasion_rate": (["item_id"], abrasion_rate),
"density": (["item_id"], density),
"lithology": (["item_id"], lithology),
"time_arrival_in_link": (["item_id", "time"], time_arrival_in_link),
"active_layer": (["item_id", "time"], active_layer),
"location_in_link": (["item_id", "time"], location_in_link),
"D": (["item_id", "time"], D),
"volume": (["item_id", "time"], volume),
}
items = {"grid_element": "link", "element_id": element_id}
parcels1 = DataRecord(
grid1,
items=items,
time=[0.0],
data_vars=variables,
dummy_elements={"link": [NetworkSedimentTransporter.OUT_OF_NETWORK]},
)
fd1 = FlowDirectorSteepest(grid1, "topographic__elevation")
fd1.run_one_step()
nst1 = NetworkSedimentTransporter(
grid1,
parcels1,
fd1,
bed_porosity=0.3,
g=9.81,
fluid_density=1000,
transport_method="WilcockCrowe",
)
timesteps = 2 # total number of timesteps
dt = 60 * 60 * 24 * 1 # length of timestep (seconds)
for t in range(0, (timesteps * dt), dt):
nst1.run_one_step(dt)
return nst1
def methow():
example_data_dir = ExampleData("io/shapefile", case="methow").base
shp_file = example_data_dir / "MethowSubBasin.shp"
points_shapefile = example_data_dir / "MethowSubBasin_Nodes_4.shp"
grid2 = read_shapefile(
shp_file,
points_shapefile=points_shapefile,
node_fields=["usarea_km2", "Elev_m"],
link_fields=["usarea_km2", "Length_m"],
link_field_conversion={
"usarea_km2": "drainage_area",
"Slope": "channel_slope",
"Length_m": "reach_length",
},
node_field_conversion={
"usarea_km2": "drainage_area",
"Elev_m": "topographic__elevation",
},
threshold=0.01,
)
grid2.at_node["bedrock__elevation"] = grid2.at_node[
"topographic__elevation"].copy()
grid2.at_link["channel_width"] = 1 * np.ones(grid2.number_of_links)
grid2.at_link["flow_depth"] = 0.5 * np.ones(grid2.number_of_links)
# element_id is the link on which the parcel begins.
element_id = np.repeat(np.arange(grid2.number_of_links), 50)
element_id = np.expand_dims(element_id, axis=1)
volume = 1 * np.ones(np.shape(element_id)) # (m3)
active_layer = np.ones(np.shape(element_id)) # 1= active, 0 = inactive
density = 2650 * np.ones(np.size(element_id)) # (kg/m3)
abrasion_rate = 0 * np.ones(np.size(element_id)) # (mass loss /m)
# Lognormal GSD
medianD = 0.15 # m
mu = np.log(medianD)
sigma = np.log(2) # assume that D84 = sigma*D50
np.random.seed(0)
D = np.random.lognormal(
mu, sigma,
np.shape(element_id)) # (m) the diameter of grains in each parcel
time_arrival_in_link = np.random.rand(np.size(element_id), 1)
location_in_link = np.random.rand(np.size(element_id), 1)
lithology = ["quartzite"] * np.size(element_id)
variables = {
"abrasion_rate": (["item_id"], abrasion_rate),
"density": (["item_id"], density),
"lithology": (["item_id"], lithology),
"time_arrival_in_link": (["item_id", "time"], time_arrival_in_link),
"active_layer": (["item_id", "time"], active_layer),
"location_in_link": (["item_id", "time"], location_in_link),
"D": (["item_id", "time"], D),
"volume": (["item_id", "time"], volume),
}
items = {"grid_element": "link", "element_id": element_id}
parcels2 = DataRecord(
grid2,
items=items,
time=[0.0],
data_vars=variables,
dummy_elements={"link": [NetworkSedimentTransporter.OUT_OF_NETWORK]},
)
fd2 = FlowDirectorSteepest(grid2, "topographic__elevation")
fd2.run_one_step()
nst2 = NetworkSedimentTransporter(
grid2,
parcels2,
fd2,
bed_porosity=0.3,
g=9.81,
fluid_density=1000,
transport_method="WilcockCrowe",
)
timesteps = 2 # total number of timesteps
dt = 60 * 60 * 24 * 1 # length of timestep (seconds)
for t in range(0, (timesteps * dt), dt):
nst2.run_one_step(dt)
return nst2