[docs] Clarify coverage-dependent surface species docs

Co-authored-by: Ray Speth <speth@mit.edu>
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Ingmar Schoegl 2023-08-11 09:00:28 -05:00
parent 52309ee8b5
commit e00c23ffc3
2 changed files with 159 additions and 93 deletions

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@ -265,7 +265,7 @@ entropy, and heat capacity of each species may depend on its coverage and the
coverage of other species in the phase.
Full details are :ct:`described here <CoverageDependentSurfPhase>`.
The majority of coverage dependency parameters are provided in the species entry as
:ref:`described here <sec-yaml-coverage-dependent-surface-species>`.
:ref:`described here <sec-yaml-species-coverage>`.
Additional fields:

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@ -36,6 +36,12 @@ The fields of a ``species`` entry are:
Mapping containing the species transport model specification and
parameters. See :ref:`sec-yaml-species-transport`.
``coverage-dependencies``
Mapping where keys are the names of other species whose coverages affects
thermodynamic properties of this species. The map values are the dependency entries
including ``model`` and model-specific parameters as :ref:`described here
<sec-yaml-species-coverage>`.
``sites``
The number of sites occupied by a surface or edge species. Default is 1.
@ -135,6 +141,7 @@ Example::
2.486903333E-06, -9.705954110E-11, 1.437538881E-15, 4.938707040E+06,
-1.672099740E+03]
.. _sec-yaml-shomate:
Shomate polynomials
@ -205,6 +212,7 @@ Example::
s0: -3.02 cal/mol/K
cp0: 5.95 cal/mol/K
.. _sec-yaml-piecewise-gibbs:
Piecewise Gibbs
@ -423,6 +431,7 @@ Additional fields:
``data``
Vector of 4 coefficients for a cubic polynomial in temperature
.. _sec-yaml-eos-peng-robinson:
Peng-Robinson
@ -481,98 +490,6 @@ Additional fields:
coefficients for binary interactions between the two species.
.. _sec-yaml-coverage-dependent-surface-species:
Coverage-dependent Surface
--------------------------
A model where species thermodynamic properties are calculated as a function
coverage as :ct:`described here <CoverageDependentSurfPhase>`.
Additional fields:
``coverage-dependencies``
Mapping where keys are the name of species whose coverage affects
thermodynamic properties of the node-owner species. The map values are
the dependency entries including ``model``, model-specific parameters,
``heat-capacity-a``, and ``heat-capacity-b`` that correspond
to an individual dependency between the node-owner species and keyed species.
``model``
Dependency model for coverage-dependent enthalpy or entropy. It should be
one of the four: ``linear``, ``polynomial``, ``piecewise-linear``
or ``interpolative``. The ``model`` and model-specific parameters are grouped
as follow.
``linear``: ``enthalpy``, ``entropy``
``polynomial``: ``enthalpy-coefficients``, ``entropy-coefficients``
``piecewise-linear``: ``enthalpy-low``, ``enthalpy-high``, ``enthalpy-change``,
``entropy-low``, ``entropy-high``, ``entropy-change``
``interpolative``: ``enthalpy-coverages``, ``enthalpies``, ``entropy-coverages``,
``entropies``
``enthalpy`` or ``entropy``
Slope of the coverage-dependent enthalpy or entropy used in the ``linear``
model.
``enthalpy-coefficients`` or ``entropy-coefficients``
Array of polynomial coefficients in order of 1st, 2nd, 3rd, and 4th-order
used in coverage-dependent enthalpy or entropy calculation with the ``polynomial``
model.
``enthalpy-low`` or ``entropy-low``
Slope of the coverage-dependent enthalpy or entropy for the lower coverage
region used in the ``piecewise-linear`` model.
``enthalpy-high`` or ``entropy-high``
Slope of the coverage-dependent enthalpy or entropy for the higher coverage
region used in the ``piecewise-linear`` model.
``enthalpy-change`` or ``entropy-change``
Coverage that separates the lower and higher coverage regions of the
coverage-dependent enthalpy or entropy used in the ``piecewise-linear`` model.
``enthalpy-coverages`` or ``entropy-coverages``
Array of discrete coverage values used in coverage-dependent enthalpy
or entropy used in the ``interpolative`` model.
``enthalpies`` or ``entropies``
Array of discrete enthalpy or entropy values corresponding to the coverages
in ``enthalpy-coverages`` or ``entropy-coverages``, respectively, used in the
``interpolative`` model.
``heat-capacity-a`` or ``heat-capacity-b``
Coefficient :math:`c^{(a)}` or :math:`c^{(b)}` used in the coverage-dependent
``heat capacity`` model.
Example::
coverage-dependencies:
OC_Pt: {model: linear,
units: {energy: eV, quantity: molec},
enthalpy: 0.48, entropy: -0.031}
C_Pt: {model: polynomial,
units: {energy: J, quantity: mol},
enthalpy-coefficients: [0.0, -3.86e4, 0.0, 4.2e5],
entropy-coefficients: [0.8e3, 0.0, -1.26e4, 0.0]}
CO2_Pt: {model: piecewise-linear,
units: {energy: kJ, quantity: mol},
enthalpy-low: 0.5e2, enthalpy-high: 1.0e2,
enthalpy-change: 0.4,
entropy-low: 0.1e2, entropy-high: -0.2e2,
entropy-change: 0.4,
heat-capacity-a: 0.02e-1, heat-capacity-b: -0.156e-1}
O_Pt: {model: interpolative,
units: {energy: kcal, quantity: mol},
enthalpy-coverages: [0.0, 0.2, 0.4, 0.7, 0.9, 1.0],
enthalpies: [0.0, 0.5, 1.0, 2.7, 3.5, 4.0],
entropy-coverages: [0.0, 0.5, 1.0],
entropies: [0.0, -0.7, -2.0]}
.. _sec-yaml-species-transport:
Species transport models
@ -630,3 +547,152 @@ Example::
diameter: 3.458
polarizability: 1.6
rotational-relaxation: 3.8
.. _sec-yaml-species-coverage:
Species coverage dependencies
=============================
The coverage-dependent surface species formulation calculates coverage-dependent
correction factors to the ideal surface phase properties. Used in conjunction with the
:ref:`coverage-dependent-surface <sec-yaml-coverage-dependent-surface>` phase model.
Full details are :ct:`described here <CoverageDependentSurfPhase>`.
Fields of a species ``coverage-dependencies`` map entry used by all models are:
``model``
String specifying the model to be used. Required. Supported model strings are:
- ``linear`` (:ref:`details <sec-yaml-species-coverage-linear>`)
- ``polynomial`` (:ref:`details <sec-yaml-species-coverage-polynomial>`)
- ``piecewise-linear`` (:ref:`details <sec-yaml-species-coverage-piecewise-linear>`)
- ``interpolative`` (:ref:`details <sec-yaml-species-coverage-interpolative>`)
.. _sec-yaml-species-coverage-linear:
Linear dependency model
-----------------------
``enthalpy``
Slope of the coverage-dependent enthalpy.
``entropy``
Slope of the coverage-dependent entropy.
Example::
coverage-dependencies:
O_Pt:
model: linear
units: {energy: eV, quantity: molec}
enthalpy: 0.48
entropy: -0.031
# + other entries (optional)
.. _sec-yaml-species-coverage-polynomial:
Polynomial dependency model
---------------------------
``enthalpy-coefficients``
Array of polynomial coefficients in order of 1st, 2nd, 3rd, and
4th-order used in coverage-dependent enthalpy calculation.
``entropy-coefficients``
Array of polynomial coefficients in order of 1st, 2nd, 3rd, and
4th-order used in coverage-dependent entropy calculation.
Example::
coverage-dependencies:
OC_Pt:
model: polynomial
units: {energy: J, quantity: mol}
enthalpy-coefficients: [0.0, -3.86e4, 0.0, 4.2e5]
entropy-coefficients: [0.8e3, 0.0, -1.26e4, 0.0]
# + other entries (optional)
.. _sec-yaml-species-coverage-piecewise-linear:
Piecewise-linear dependency model
---------------------------------
``enthalpy-low``
Slope of the coverage-dependent enthalpy for the lower coverage region.
``entropy-low``
Slope of the coverage-dependent entropy for the lower coverage region.
``enthalpy-high``
Slope of the coverage-dependent enthalpy for the higher coverage region.
``entropy-high``
Slope of the coverage-dependent entropy for the higher coverage region.
``enthalpy-change``
Coverage that separates the lower and higher coverage regions of the
coverage-dependent enthalpy.
``entropy-change``
Coverage that separates the lower and higher coverage regions of the
coverage-dependent entropy.
``heat-capacity-a``
Coefficient :math:`c^{(a)}` used in the
:ct:`coverage-dependent heat capacity <HeatCapacityDependency>` model.
``heat-capacity-b``
Coefficient :math:`c^{(b)}` used in the
:ct:`coverage-dependent heat capacity <HeatCapacityDependency>` model.
Example::
coverage-dependencies:
CO2_Pt:
model: piecewise-linear
units: {energy: kJ, quantity: mol}
enthalpy-low: 0.5e2
enthalpy-high: 1.0e2
enthalpy-change: 0.4
entropy-low: 0.1e2
entropy-high: -0.2e2
entropy-change: 0.4
heat-capacity-a: 0.02e-1
heat-capacity-b: -0.156e-1
# + other entries (optional)
.. _sec-yaml-species-coverage-interpolative:
Interpolative dependency model
------------------------------
``enthalpy-coverages``
Array of discrete coverage values used in coverage-dependent enthalpy.
``entropy-coverages``
Array of discrete coverage values used in coverage-dependent entropy.
``enthalpies``
Array of discrete enthalpy values corresponding to the
coverages in ``enthalpy-coverages``.
``entropies``
Array of discrete entropy values corresponding to the
coverages in ``entropy-coverages``.
Example::
coverage-dependencies:
C_Pt:
model: interpolative
units: {energy: kcal, quantity: mol}
enthalpy-coverages: [0.0, 0.2, 0.4, 0.7, 0.9, 1.0]
entropy-coverages: [0.0, 0.5, 1.0]
enthalpies: [0.0, 0.5, 1.0, 2.7, 3.5, 4.0]
entropies: [0.0, -0.7, -2.0]
# + other entries (optional)