# coding: utf8
# !/usr/env/python
"""terrainbento **BasicRtTh** model program.
Erosion model program using linear diffusion, stream power with a smoothed
threshold and spatially varying erodibility based on two bedrock units, and
discharge proportional to drainage area.
Landlab components used:
1. `FlowAccumulator <https://landlab.readthedocs.io/en/master/reference/components/flow_accum.html>`_
2. `DepressionFinderAndRouter <https://landlab.readthedocs.io/en/master/reference/components/flow_routing.html>`_ (optional)
3. `StreamPowerSmoothThresholdEroder <https://landlab.readthedocs.io/en/master/reference/components/stream_power.html>`_
4. `LinearDiffuser <https://landlab.readthedocs.io/en/master/reference/components/diffusion.html>`_
"""
from landlab.components import LinearDiffuser, StreamPowerSmoothThresholdEroder
from terrainbento.base_class import TwoLithologyErosionModel
[docs]class BasicRtTh(TwoLithologyErosionModel):
r"""**BasicRtTh** model program.
This model program combines the :py:class:`BasicRt` and :py:class:`BasicTh`
programs by allowing for two lithologies, an "upper" layer and a "lower"
layer, and permitting the use of an smooth erosion threshold for each
lithology. Given a spatially varying contact zone elevation,
:math:`\eta_C(x,y))`, model **BasicRtTh** evolves a topographic surface
described by :math:`\eta` with the following governing equations:
.. math::
\frac{\partial \eta}{\partial t} = -\left[\omega
- \omega_c (1 - e^{-\omega /\omega_c}) \right]
+ D\nabla^2 \eta
\omega = K(\eta, \eta_C) Q^{m} S^{n}
K(\eta, \eta_C ) = w K_1 + (1 - w) K_2,
\omega_c(\eta, \eta_C ) = w \omega_{c1} + (1 - w) \omega_{c2}
w = \frac{1}{1+\exp \left( -\frac{(\eta -\eta_C )}{W_c}\right)}
where :math:`Q` is the local stream discharge, :math:`S` is the local
slope, :math:`m` and :math:`n` are the discharge and slope exponent
parameters, :math:`W_c` is the contact-zone width, :math:`K_1` and
:math:`K_2` are the erodabilities of the upper and lower lithologies,
:math:`\omega_{c1}` and :math:`\omega_{c2}` are the erosion thresholds of
the upper and lower lithologies, and :math:`D` is the regolith transport
\parameter. :math:`w` is a weight used to calculate the effective
erodibility :math:`K(\eta, \eta_C)` based on the depth to the contact zone
and the width of the contact zone. :math:`\omega` is the erosion rate that
would be calculated without the use of a threshold and as the threshold
increases the erosion rate smoothly transitions between zero and
:math:`\omega`.
The weight :math:`w` promotes smoothness in the solution of erodibility at
a given point. When the surface elevation is at the contact elevation, the
erodibility is the average of :math:`K_1` and :math:`K_2`; above and below
the contact, the erodibility approaches the value of :math:`K_1` and
:math:`K_2` at a rate related to the contact zone width. Thus, to make a
very sharp transition, use a small value for the contact zone width.
Refer to
`Barnhart et al. (2019) <https://doi.org/10.5194/gmd-12-1267-2019>`_
Table 5 for full list of parameter symbols, names, and dimensions.
The following at-node fields must be specified in the grid:
- ``topographic__elevation``
- ``lithology_contact__elevation``
"""
_required_fields = [
"topographic__elevation",
"lithology_contact__elevation",
]
[docs] def __init__(
self,
clock,
grid,
water_erosion_rule_upper__threshold=1.0,
water_erosion_rule_lower__threshold=1.0,
**kwargs
):
"""
Parameters
----------
clock : terrainbento Clock instance
grid : landlab model grid instance
The grid must have all required fields.
m_sp : float, optional
Drainage area exponent (:math:`m`). Default is 0.5.
n_sp : float, optional
Slope exponent (:math:`n`). Default is 1.0.
water_erodibility_upper : float, optional
Water erodibility of the upper layer (:math:`K_{1}`). Default is
0.001.
water_erodibility_lower : float, optional
Water erodibility of the upper layer (:math:`K_{2}`). Default is
0.0001.
water_erosion_rule_upper__threshold : float, optional.
Erosion threshold of the upper layer (:math:`\omega_{c1}`). Default
is 1.
water_erosion_rule_lower__threshold: float, optional.
Erosion threshold of the upper layer (:math:`\omega_{c2}`). Default
is 1.
contact_zone__width : float, optional
Thickness of the contact zone (:math:`W_c`). Default is 1.
regolith_transport_parameter : float, optional
Regolith transport efficiency (:math:`D`). Default is 0.1.
**kwargs :
Keyword arguments to pass to :py:class:`TwoLithologyErosionModel`.
Importantly these arguments specify the precipitator and the runoff
generator that control the generation of surface water discharge
(:math:`Q`).
Returns
-------
BasicRtTh : model object
Examples
--------
This is a minimal example to demonstrate how to construct an instance
of model **BasicRtTh**. For more detailed examples, including
steady-state test examples, see the terrainbento tutorials.
To begin, import the model class.
>>> from landlab import RasterModelGrid
>>> from landlab.values import random, constant
>>> from terrainbento import Clock, BasicRtTh
>>> clock = Clock(start=0, stop=100, step=1)
>>> grid = RasterModelGrid((5,5))
>>> _ = random(grid, "topographic__elevation")
>>> _ = constant(grid, "lithology_contact__elevation", value=-10.)
Construct the model.
>>> model = BasicRtTh(clock, grid)
Running the model with ``model.run()`` would create output, so here we
will just run it one step.
>>> model.run_one_step(1.)
>>> model.model_time
1.0
"""
# Call ErosionModel"s init
super().__init__(clock, grid, **kwargs)
if float(self.n) != 1.0:
raise ValueError("Model only supports n equals 1.")
# verify correct fields are present.
self._verify_fields(self._required_fields)
# Save the threshold values for rock and till
self.rock_thresh = water_erosion_rule_lower__threshold
self.till_thresh = water_erosion_rule_upper__threshold
# Set up rock-till boundary and associated grid fields.
self._setup_rock_and_till_with_threshold()
# Instantiate a StreamPowerSmoothThresholdEroder component
self.eroder = StreamPowerSmoothThresholdEroder(
self.grid,
K_sp=self.erody,
threshold_sp=self.threshold,
m_sp=self.m,
n_sp=self.n,
discharge_field="surface_water__discharge",
erode_flooded_nodes=self._erode_flooded_nodes,
)
# Instantiate a LinearDiffuser component
self.diffuser = LinearDiffuser(
self.grid, linear_diffusivity=self.regolith_transport_parameter
)
[docs] def run_one_step(self, step):
"""Advance model **BasicRtTh** for one time-step of duration step.
The **run_one_step** method does the following:
1. Creates rain and runoff, then directs and accumulates flow.
2. Assesses the location, if any, of flooded nodes where erosion should
not occur.
3. Assesses if a :py:mod:`PrecipChanger` is an active boundary handler
and if so, uses it to modify the erodibility by water.
4. Updates the spatially variable erodibility and threshold values
based on the relative distance between the topographic surface and
the lithology contact.
5. Calculates detachment-limited erosion by water.
6. Calculates topographic change by linear diffusion.
7. Finalizes the step using the :py:mod:`ErosionModel` base class
function **finalize__run_one_step**. This function updates all
boundary handlers handlers by ``step`` and increments model time by
``step``.
Parameters
----------
step : float
Increment of time for which the model is run.
"""
# create and move water
self.create_and_move_water(step)
# Update the erodibility and threshold field
self._update_erodibility_and_threshold_fields()
# Do some erosion (but not on the flooded nodes)
self.eroder.run_one_step(step)
# Do some soil creep
self.diffuser.run_one_step(step)
# Finalize the run_one_step_method
self.finalize__run_one_step(step)
[docs]def main(): # pragma: no cover
"""Executes model."""
import sys
try:
infile = sys.argv[1]
except IndexError:
print("Must include input file name on command line")
sys.exit(1)
thrt = BasicRtTh.from_file(infile)
thrt.run()
if __name__ == "__main__":
main()
