From 33e0ff9c014ad0889cf75832e2a9d2f2d78d3cd7 Mon Sep 17 00:00:00 2001 From: bbxriboe Date: Tue, 19 Sep 2023 17:04:24 +0200 Subject: [PATCH 01/44] Hydrothermal Conductivity Adapted Header File visco_plastic --- include/aspect/material_model/visco_plastic.h | 20 +++++++++++++++++++ 1 file changed, 20 insertions(+) diff --git a/include/aspect/material_model/visco_plastic.h b/include/aspect/material_model/visco_plastic.h index 9ba9bf9fa67..f2f37ca6f80 100644 --- a/include/aspect/material_model/visco_plastic.h +++ b/include/aspect/material_model/visco_plastic.h @@ -255,6 +255,26 @@ namespace aspect std::vector thermal_conductivities; + /** + * Whether to use the concept of hydrothermal conductivity or not. + * If this is the case, then the folowing 4 parameters need to be defined too. + */ + bool use_hydrothermal_conductiviy; + + /** + * temperature and depth up to which hydrothermal conductivity takes place. + */ + double cutoff_maximum_temperature_hydrothermal_conductivity; + + double cutoff_maximum_depth_hydrothermal_conductivity; + + /** + * Nusselt number and a smoothing factor used for the computation of thermal conductivity + */ + double nusselt_number_hydrothermal_conductivity; + + double smoothing_factor_hydrothermal_conductivity; + /** * Number of phase transitions for each chemical composition (including the background field). */ From 9103e2d70e207993094bde005585014aa4ff063b Mon Sep 17 00:00:00 2001 From: bbxriboe Date: Wed, 20 Sep 2023 10:45:25 +0200 Subject: [PATCH 02/44] visco_plastic.cc inserted prm.declalre_entry for all 5 needed parameters, adjusted visco_plastic.h --- include/aspect/material_model/visco_plastic.h | 5 ++- source/material_model/visco_plastic.cc | 34 +++++++++++++++++-- 2 files changed, 34 insertions(+), 5 deletions(-) diff --git a/include/aspect/material_model/visco_plastic.h b/include/aspect/material_model/visco_plastic.h index f2f37ca6f80..d9a2d8eebb1 100644 --- a/include/aspect/material_model/visco_plastic.h +++ b/include/aspect/material_model/visco_plastic.h @@ -256,13 +256,12 @@ namespace aspect std::vector thermal_conductivities; /** - * Whether to use the concept of hydrothermal conductivity or not. - * If this is the case, then the folowing 4 parameters need to be defined too. + * Whether conductivity should be adjusted taking into account hydrothermal circulation or not. */ bool use_hydrothermal_conductiviy; /** - * temperature and depth up to which hydrothermal conductivity takes place. + * temperature and depth up to which hydrothermal circulation is considered to take place. */ double cutoff_maximum_temperature_hydrothermal_conductivity; diff --git a/source/material_model/visco_plastic.cc b/source/material_model/visco_plastic.cc index 1a172176b5c..ba38fbb4485 100644 --- a/source/material_model/visco_plastic.cc +++ b/source/material_model/visco_plastic.cc @@ -32,7 +32,7 @@ namespace aspect { template - bool + bool ViscoPlastic:: is_yielding (const double pressure, const double temperature, @@ -42,7 +42,7 @@ namespace aspect /* The following returns whether or not the material is plastically yielding * as documented in evaluate. */ - bool plastic_yielding = false; + bool plastic_yielding = false; MaterialModel::MaterialModelInputs in (/*n_evaluation_points=*/1, this->n_compositional_fields()); @@ -367,6 +367,36 @@ namespace aspect "for a total of N+1 values, where N is the number of compositional fields. " "If only one value is given, then all use the same value. " "Units: \\si{\\watt\\per\\meter\\per\\kelvin}."); + prm.declare_entry ("Use hydrothermal conductivity", "false", + Patterns::Bool (), + "Whether hydrothermal circulation is included in the calculation of the " + "conductivity or not."); + prm.declare_entry ("Cutoff maximum temperature", "873,15", + Patterns::Double(0), + "Single value, declares up to which temperature hydrothermal conductivity is relevant. " + "Units: \\si{\\kelvin}."); + //Is this correct, if I want the input in km? + prm.declare_entry ("Cutoff maximum depth", "6.0", + Patterns::Double(0), + "Single value, declares up to which depth hydrothermal conductivity is relevant. " + "Units: 1000\\si{\\m}."); + //Think about that, Nusselt number should be >1 (so that consuctivity is increased, + //is this correctly implemented?), but what default value does make sense? In paper is written "1-8" + prm.declare_entry ("Nusselt number", "2.0", + Pattern::Double(1), + "Single value, describes the Nusselt number, that is the ratio of convective " + "to conductive heat transfer across the boundary of the crust. " + "The factor by which the conductivity at the surface is increased due to " + "hydrothermal circulation is given by Nu*exp(A), where Nu is the Nusselt number " + "and A is the smoothing factor. " + //Is this how to say that the number should lie between 0 and 1? Seems to be good a good range. + prm.declare_entry ("Smoothing factor", "0.75", + Pattern::Double(0.), + "Single value, this is a smoothing factor that controls the influence of hydrothermal " + "circulation on the conductivity. " + "The factor by which the conductivity at the surface is increased due to " + "hydrothermal circulation is given by Nu*exp(A), where Nu is the Nusselt number " + "and A is the smoothing factor. " } prm.leave_subsection(); } From 307d4bcc3282194da3a0b01b9de399a04b13189d Mon Sep 17 00:00:00 2001 From: bbxriboe Date: Wed, 20 Sep 2023 10:53:13 +0200 Subject: [PATCH 03/44] visco_plastic.cc inserted prm.declalre_entry for all 5 needed parameters, adjusted visco_plastic.h --- source/material_model/visco_plastic.cc | 4 ++-- 1 file changed, 2 insertions(+), 2 deletions(-) diff --git a/source/material_model/visco_plastic.cc b/source/material_model/visco_plastic.cc index ba38fbb4485..6c9e21b9446 100644 --- a/source/material_model/visco_plastic.cc +++ b/source/material_model/visco_plastic.cc @@ -383,7 +383,7 @@ namespace aspect //Think about that, Nusselt number should be >1 (so that consuctivity is increased, //is this correctly implemented?), but what default value does make sense? In paper is written "1-8" prm.declare_entry ("Nusselt number", "2.0", - Pattern::Double(1), + Patterns::Double(1), "Single value, describes the Nusselt number, that is the ratio of convective " "to conductive heat transfer across the boundary of the crust. " "The factor by which the conductivity at the surface is increased due to " @@ -391,7 +391,7 @@ namespace aspect "and A is the smoothing factor. " //Is this how to say that the number should lie between 0 and 1? Seems to be good a good range. prm.declare_entry ("Smoothing factor", "0.75", - Pattern::Double(0.), + Patterns::Double(0.), "Single value, this is a smoothing factor that controls the influence of hydrothermal " "circulation on the conductivity. " "The factor by which the conductivity at the surface is increased due to " From df577ef061bc55b556e9df74883fb9147d97a50b Mon Sep 17 00:00:00 2001 From: bbxriboe Date: Wed, 20 Sep 2023 10:54:51 +0200 Subject: [PATCH 04/44] visco_plastic.cc inserted prm.declalre_entry for all 5 needed parameters, adjusted visco_plastic.h --- source/material_model/visco_plastic.cc | 2 +- 1 file changed, 1 insertion(+), 1 deletion(-) diff --git a/source/material_model/visco_plastic.cc b/source/material_model/visco_plastic.cc index 6c9e21b9446..55738fd6990 100644 --- a/source/material_model/visco_plastic.cc +++ b/source/material_model/visco_plastic.cc @@ -388,7 +388,7 @@ namespace aspect "to conductive heat transfer across the boundary of the crust. " "The factor by which the conductivity at the surface is increased due to " "hydrothermal circulation is given by Nu*exp(A), where Nu is the Nusselt number " - "and A is the smoothing factor. " + "and A is the smoothing factor. "); //Is this how to say that the number should lie between 0 and 1? Seems to be good a good range. prm.declare_entry ("Smoothing factor", "0.75", Patterns::Double(0.), From d432f1d424e56624f3f978b8522529c0234297e5 Mon Sep 17 00:00:00 2001 From: bbxriboe Date: Wed, 20 Sep 2023 10:56:23 +0200 Subject: [PATCH 05/44] visco_plastic.cc inserted prm.declalre_entry for all 5 needed parameters, adjusted visco_plastic.h --- source/material_model/visco_plastic.cc | 2 +- 1 file changed, 1 insertion(+), 1 deletion(-) diff --git a/source/material_model/visco_plastic.cc b/source/material_model/visco_plastic.cc index 55738fd6990..ebc6f3a3862 100644 --- a/source/material_model/visco_plastic.cc +++ b/source/material_model/visco_plastic.cc @@ -396,7 +396,7 @@ namespace aspect "circulation on the conductivity. " "The factor by which the conductivity at the surface is increased due to " "hydrothermal circulation is given by Nu*exp(A), where Nu is the Nusselt number " - "and A is the smoothing factor. " + "and A is the smoothing factor. "); } prm.leave_subsection(); } From 3e26fd413165f06edb72b9f9f7143407d9eadfc9 Mon Sep 17 00:00:00 2001 From: bbxriboe Date: Wed, 20 Sep 2023 11:38:50 +0200 Subject: [PATCH 06/44] Added computation of hydrothermal conductivity to visco_plastic.cc, adjusted visco_plastic.h --- include/aspect/material_model/visco_plastic.h | 8 ++++---- source/material_model/visco_plastic.cc | 11 +++++++++++ 2 files changed, 15 insertions(+), 4 deletions(-) diff --git a/include/aspect/material_model/visco_plastic.h b/include/aspect/material_model/visco_plastic.h index d9a2d8eebb1..66f2edf630e 100644 --- a/include/aspect/material_model/visco_plastic.h +++ b/include/aspect/material_model/visco_plastic.h @@ -263,16 +263,16 @@ namespace aspect /** * temperature and depth up to which hydrothermal circulation is considered to take place. */ - double cutoff_maximum_temperature_hydrothermal_conductivity; + double cutoff_maximum_temperature; - double cutoff_maximum_depth_hydrothermal_conductivity; + double cutoff_maximum_depth; /** * Nusselt number and a smoothing factor used for the computation of thermal conductivity */ - double nusselt_number_hydrothermal_conductivity; + double nusselt_number; - double smoothing_factor_hydrothermal_conductivity; + double smoothing_factor; /** * Number of phase transitions for each chemical composition (including the background field). diff --git a/source/material_model/visco_plastic.cc b/source/material_model/visco_plastic.cc index ebc6f3a3862..92450743e7c 100644 --- a/source/material_model/visco_plastic.cc +++ b/source/material_model/visco_plastic.cc @@ -215,6 +215,17 @@ namespace aspect // option was selected. out.thermal_conductivities[i] = MaterialUtilities::average_value (volume_fractions, thermal_conductivities, MaterialUtilities::arithmetic); } + + /* In the following, the thermal conductivity is computed, if this option was selected. + */ + if (use_hydrothermal_conductivity == true) + { + out.thermal_conductivities[i] = out.thermal_conductivities[i] + out.thermal_conductivities[i] * + (nusselt_number -1) * std::exp(smoothing_factor * + (1 - in.temperature [i] / cutoff_maximum_temperature) * + std::exp(smoothing_factor * (1 - in.depth[i] / cutoff_maximum_depth); + } + out.compressibilities[i] = MaterialUtilities::average_value (volume_fractions, eos_outputs.compressibilities, MaterialUtilities::arithmetic); out.entropy_derivative_pressure[i] = MaterialUtilities::average_value (volume_fractions, eos_outputs.entropy_derivative_pressure, MaterialUtilities::arithmetic); From 98d4c91d03393492bd52b6634aa2d3fc158b1811 Mon Sep 17 00:00:00 2001 From: bbxriboe Date: Wed, 20 Sep 2023 11:45:56 +0200 Subject: [PATCH 07/44] Added computation of hydrothermal conductivity to visco_plastic.cc, adjusted visco_plastic.h --- include/aspect/material_model/visco_plastic.h | 2 +- source/material_model/visco_plastic.cc | 4 ++-- 2 files changed, 3 insertions(+), 3 deletions(-) diff --git a/include/aspect/material_model/visco_plastic.h b/include/aspect/material_model/visco_plastic.h index 66f2edf630e..3a0b8253608 100644 --- a/include/aspect/material_model/visco_plastic.h +++ b/include/aspect/material_model/visco_plastic.h @@ -258,7 +258,7 @@ namespace aspect /** * Whether conductivity should be adjusted taking into account hydrothermal circulation or not. */ - bool use_hydrothermal_conductiviy; + bool use_hydrothermal_conductivity; /** * temperature and depth up to which hydrothermal circulation is considered to take place. diff --git a/source/material_model/visco_plastic.cc b/source/material_model/visco_plastic.cc index 92450743e7c..6414fca6e1d 100644 --- a/source/material_model/visco_plastic.cc +++ b/source/material_model/visco_plastic.cc @@ -222,8 +222,8 @@ namespace aspect { out.thermal_conductivities[i] = out.thermal_conductivities[i] + out.thermal_conductivities[i] * (nusselt_number -1) * std::exp(smoothing_factor * - (1 - in.temperature [i] / cutoff_maximum_temperature) * - std::exp(smoothing_factor * (1 - in.depth[i] / cutoff_maximum_depth); + (1 - in.temperature [i] / cutoff_maximum_temperature)) * + std::exp(smoothing_factor * (1 - in.depth[i] / cutoff_maximum_depth)); } From 9945348f5e52c86e84b263be4de987fe2ba379c8 Mon Sep 17 00:00:00 2001 From: bbxriboe Date: Wed, 20 Sep 2023 12:06:15 +0200 Subject: [PATCH 08/44] Added computation of hydrothermal conductivity to visco_plastic.cc, adjusted visco_plastic.h --- source/material_model/visco_plastic.cc | 2 +- 1 file changed, 1 insertion(+), 1 deletion(-) diff --git a/source/material_model/visco_plastic.cc b/source/material_model/visco_plastic.cc index 6414fca6e1d..d03677f4c93 100644 --- a/source/material_model/visco_plastic.cc +++ b/source/material_model/visco_plastic.cc @@ -223,7 +223,7 @@ namespace aspect out.thermal_conductivities[i] = out.thermal_conductivities[i] + out.thermal_conductivities[i] * (nusselt_number -1) * std::exp(smoothing_factor * (1 - in.temperature [i] / cutoff_maximum_temperature)) * - std::exp(smoothing_factor * (1 - in.depth[i] / cutoff_maximum_depth)); + std::exp(smoothing_factor * (1 - in.depth[i]() / cutoff_maximum_depth)); } From aab294fa92e5d778a8baddead78a925ec79fb889 Mon Sep 17 00:00:00 2001 From: bbxriboe Date: Wed, 20 Sep 2023 12:09:48 +0200 Subject: [PATCH 09/44] Added computation of hydrothermal conductivity to visco_plastic.cc, adjusted visco_plastic.h --- source/material_model/visco_plastic.cc | 2 +- 1 file changed, 1 insertion(+), 1 deletion(-) diff --git a/source/material_model/visco_plastic.cc b/source/material_model/visco_plastic.cc index d03677f4c93..554e2b1c392 100644 --- a/source/material_model/visco_plastic.cc +++ b/source/material_model/visco_plastic.cc @@ -223,7 +223,7 @@ namespace aspect out.thermal_conductivities[i] = out.thermal_conductivities[i] + out.thermal_conductivities[i] * (nusselt_number -1) * std::exp(smoothing_factor * (1 - in.temperature [i] / cutoff_maximum_temperature)) * - std::exp(smoothing_factor * (1 - in.depth[i]() / cutoff_maximum_depth)); + std::exp(smoothing_factor * (1 - in.position[i](1) / cutoff_maximum_depth)); } From c081d70e5443fd6491e71a1d43bd023a2ba2b22f Mon Sep 17 00:00:00 2001 From: bbxriboe Date: Wed, 20 Sep 2023 14:02:24 +0200 Subject: [PATCH 10/44] Added computation of hydrothermal conductivity to visco_plastic.cc, adjusted visco_plastic.h --- source/material_model/visco_plastic.cc | 4 ++-- 1 file changed, 2 insertions(+), 2 deletions(-) diff --git a/source/material_model/visco_plastic.cc b/source/material_model/visco_plastic.cc index 554e2b1c392..c4d14a0fa05 100644 --- a/source/material_model/visco_plastic.cc +++ b/source/material_model/visco_plastic.cc @@ -394,7 +394,7 @@ namespace aspect //Think about that, Nusselt number should be >1 (so that consuctivity is increased, //is this correctly implemented?), but what default value does make sense? In paper is written "1-8" prm.declare_entry ("Nusselt number", "2.0", - Patterns::Double(1), + Patterns::Double(0), "Single value, describes the Nusselt number, that is the ratio of convective " "to conductive heat transfer across the boundary of the crust. " "The factor by which the conductivity at the surface is increased due to " @@ -402,7 +402,7 @@ namespace aspect "and A is the smoothing factor. "); //Is this how to say that the number should lie between 0 and 1? Seems to be good a good range. prm.declare_entry ("Smoothing factor", "0.75", - Patterns::Double(0.), + Patterns::Double(0), "Single value, this is a smoothing factor that controls the influence of hydrothermal " "circulation on the conductivity. " "The factor by which the conductivity at the surface is increased due to " From eb3e2887de9431ff0061513199fce611628de3e4 Mon Sep 17 00:00:00 2001 From: bbxriboe Date: Wed, 20 Sep 2023 14:10:14 +0200 Subject: [PATCH 11/44] Added computation of hydrothermal conductivity to visco_plastic.cc, adjusted visco_plastic.h --- source/material_model/visco_plastic.cc | 11 +++++------ 1 file changed, 5 insertions(+), 6 deletions(-) diff --git a/source/material_model/visco_plastic.cc b/source/material_model/visco_plastic.cc index c4d14a0fa05..1ae459daf02 100644 --- a/source/material_model/visco_plastic.cc +++ b/source/material_model/visco_plastic.cc @@ -373,7 +373,7 @@ namespace aspect "instead of calculating the values through the specified thermal diffusivities, " "densities, and heat capacities. "); prm.declare_entry ("Thermal conductivities", "3.0", - Patterns::List(Patterns::Double(0)), + Patterns::List(Patterns::Double(0.)), "List of thermal conductivities, for background material and compositional fields, " "for a total of N+1 values, where N is the number of compositional fields. " "If only one value is given, then all use the same value. " @@ -383,26 +383,25 @@ namespace aspect "Whether hydrothermal circulation is included in the calculation of the " "conductivity or not."); prm.declare_entry ("Cutoff maximum temperature", "873,15", - Patterns::Double(0), + Patterns::Double(0.), "Single value, declares up to which temperature hydrothermal conductivity is relevant. " "Units: \\si{\\kelvin}."); //Is this correct, if I want the input in km? prm.declare_entry ("Cutoff maximum depth", "6.0", - Patterns::Double(0), + Patterns::Double(0.), "Single value, declares up to which depth hydrothermal conductivity is relevant. " "Units: 1000\\si{\\m}."); //Think about that, Nusselt number should be >1 (so that consuctivity is increased, //is this correctly implemented?), but what default value does make sense? In paper is written "1-8" prm.declare_entry ("Nusselt number", "2.0", - Patterns::Double(0), + Patterns::Double(1.), "Single value, describes the Nusselt number, that is the ratio of convective " "to conductive heat transfer across the boundary of the crust. " "The factor by which the conductivity at the surface is increased due to " "hydrothermal circulation is given by Nu*exp(A), where Nu is the Nusselt number " "and A is the smoothing factor. "); - //Is this how to say that the number should lie between 0 and 1? Seems to be good a good range. prm.declare_entry ("Smoothing factor", "0.75", - Patterns::Double(0), + Patterns::Double(0.), "Single value, this is a smoothing factor that controls the influence of hydrothermal " "circulation on the conductivity. " "The factor by which the conductivity at the surface is increased due to " From 7f6df765540bfc8e4a90bf7b4c79ab2ccf16ec1d Mon Sep 17 00:00:00 2001 From: bbxriboe Date: Wed, 20 Sep 2023 14:15:44 +0200 Subject: [PATCH 12/44] Added computation of hydrothermal conductivity to visco_plastic.cc, adjusted visco_plastic.h --- source/material_model/visco_plastic.cc | 12 ++++++------ 1 file changed, 6 insertions(+), 6 deletions(-) diff --git a/source/material_model/visco_plastic.cc b/source/material_model/visco_plastic.cc index 1ae459daf02..6b1df3df1e5 100644 --- a/source/material_model/visco_plastic.cc +++ b/source/material_model/visco_plastic.cc @@ -373,7 +373,7 @@ namespace aspect "instead of calculating the values through the specified thermal diffusivities, " "densities, and heat capacities. "); prm.declare_entry ("Thermal conductivities", "3.0", - Patterns::List(Patterns::Double(0.)), + Patterns::List(Patterns::Double (0.)), "List of thermal conductivities, for background material and compositional fields, " "for a total of N+1 values, where N is the number of compositional fields. " "If only one value is given, then all use the same value. " @@ -382,26 +382,26 @@ namespace aspect Patterns::Bool (), "Whether hydrothermal circulation is included in the calculation of the " "conductivity or not."); - prm.declare_entry ("Cutoff maximum temperature", "873,15", - Patterns::Double(0.), + prm.declare_entry ("Cutoff maximum temperature", "873.15", + Patterns::Double (0.), "Single value, declares up to which temperature hydrothermal conductivity is relevant. " "Units: \\si{\\kelvin}."); //Is this correct, if I want the input in km? prm.declare_entry ("Cutoff maximum depth", "6.0", - Patterns::Double(0.), + Patterns::Double (0.), "Single value, declares up to which depth hydrothermal conductivity is relevant. " "Units: 1000\\si{\\m}."); //Think about that, Nusselt number should be >1 (so that consuctivity is increased, //is this correctly implemented?), but what default value does make sense? In paper is written "1-8" prm.declare_entry ("Nusselt number", "2.0", - Patterns::Double(1.), + Patterns::Double (1.), "Single value, describes the Nusselt number, that is the ratio of convective " "to conductive heat transfer across the boundary of the crust. " "The factor by which the conductivity at the surface is increased due to " "hydrothermal circulation is given by Nu*exp(A), where Nu is the Nusselt number " "and A is the smoothing factor. "); prm.declare_entry ("Smoothing factor", "0.75", - Patterns::Double(0.), + Patterns::Double (0.), "Single value, this is a smoothing factor that controls the influence of hydrothermal " "circulation on the conductivity. " "The factor by which the conductivity at the surface is increased due to " From e02d17d91e9eea69c693c6d93f2246a171f7368a Mon Sep 17 00:00:00 2001 From: bbxriboe Date: Thu, 21 Sep 2023 09:39:08 +0200 Subject: [PATCH 13/44] Indent --- include/aspect/material_model/visco_plastic.h | 26 +++---- source/material_model/visco_plastic.cc | 78 +++++++++---------- 2 files changed, 52 insertions(+), 52 deletions(-) diff --git a/include/aspect/material_model/visco_plastic.h b/include/aspect/material_model/visco_plastic.h index 3a0b8253608..714a7607a06 100644 --- a/include/aspect/material_model/visco_plastic.h +++ b/include/aspect/material_model/visco_plastic.h @@ -255,24 +255,24 @@ namespace aspect std::vector thermal_conductivities; - /** - * Whether conductivity should be adjusted taking into account hydrothermal circulation or not. - */ - bool use_hydrothermal_conductivity; + /** + * Whether conductivity should be adjusted taking into account hydrothermal circulation or not. + */ + bool use_hydrothermal_conductivity; - /** - * temperature and depth up to which hydrothermal circulation is considered to take place. - */ - double cutoff_maximum_temperature; + /** + * temperature and depth up to which hydrothermal circulation is considered to take place. + */ + double cutoff_maximum_temperature; double cutoff_maximum_depth; - /** - * Nusselt number and a smoothing factor used for the computation of thermal conductivity - */ - double nusselt_number; + /** + * Nusselt number and a smoothing factor used for the computation of thermal conductivity + */ + double nusselt_number; - double smoothing_factor; + double smoothing_factor; /** * Number of phase transitions for each chemical composition (including the background field). diff --git a/source/material_model/visco_plastic.cc b/source/material_model/visco_plastic.cc index 6b1df3df1e5..5feccd961ce 100644 --- a/source/material_model/visco_plastic.cc +++ b/source/material_model/visco_plastic.cc @@ -32,7 +32,7 @@ namespace aspect { template - bool + bool ViscoPlastic:: is_yielding (const double pressure, const double temperature, @@ -42,7 +42,7 @@ namespace aspect /* The following returns whether or not the material is plastically yielding * as documented in evaluate. */ - bool plastic_yielding = false; + bool plastic_yielding = false; MaterialModel::MaterialModelInputs in (/*n_evaluation_points=*/1, this->n_compositional_fields()); @@ -215,17 +215,17 @@ namespace aspect // option was selected. out.thermal_conductivities[i] = MaterialUtilities::average_value (volume_fractions, thermal_conductivities, MaterialUtilities::arithmetic); } - - /* In the following, the thermal conductivity is computed, if this option was selected. - */ - if (use_hydrothermal_conductivity == true) - { - out.thermal_conductivities[i] = out.thermal_conductivities[i] + out.thermal_conductivities[i] * - (nusselt_number -1) * std::exp(smoothing_factor * - (1 - in.temperature [i] / cutoff_maximum_temperature)) * - std::exp(smoothing_factor * (1 - in.position[i](1) / cutoff_maximum_depth)); - } - + + /* In the following, the thermal conductivity is computed, if this option was selected. + */ + if (use_hydrothermal_conductivity == true) + { + out.thermal_conductivities[i] = out.thermal_conductivities[i] + out.thermal_conductivities[i] * + (nusselt_number -1) * std::exp(smoothing_factor * + (1 - in.temperature [i] / cutoff_maximum_temperature)) * + std::exp(smoothing_factor * (1 - in.position[i](1) / cutoff_maximum_depth)); + } + out.compressibilities[i] = MaterialUtilities::average_value (volume_fractions, eos_outputs.compressibilities, MaterialUtilities::arithmetic); out.entropy_derivative_pressure[i] = MaterialUtilities::average_value (volume_fractions, eos_outputs.entropy_derivative_pressure, MaterialUtilities::arithmetic); @@ -378,32 +378,32 @@ namespace aspect "for a total of N+1 values, where N is the number of compositional fields. " "If only one value is given, then all use the same value. " "Units: \\si{\\watt\\per\\meter\\per\\kelvin}."); - prm.declare_entry ("Use hydrothermal conductivity", "false", - Patterns::Bool (), - "Whether hydrothermal circulation is included in the calculation of the " - "conductivity or not."); - prm.declare_entry ("Cutoff maximum temperature", "873.15", - Patterns::Double (0.), - "Single value, declares up to which temperature hydrothermal conductivity is relevant. " - "Units: \\si{\\kelvin}."); - //Is this correct, if I want the input in km? - prm.declare_entry ("Cutoff maximum depth", "6.0", - Patterns::Double (0.), - "Single value, declares up to which depth hydrothermal conductivity is relevant. " - "Units: 1000\\si{\\m}."); - //Think about that, Nusselt number should be >1 (so that consuctivity is increased, - //is this correctly implemented?), but what default value does make sense? In paper is written "1-8" - prm.declare_entry ("Nusselt number", "2.0", - Patterns::Double (1.), - "Single value, describes the Nusselt number, that is the ratio of convective " - "to conductive heat transfer across the boundary of the crust. " - "The factor by which the conductivity at the surface is increased due to " - "hydrothermal circulation is given by Nu*exp(A), where Nu is the Nusselt number " - "and A is the smoothing factor. "); - prm.declare_entry ("Smoothing factor", "0.75", - Patterns::Double (0.), - "Single value, this is a smoothing factor that controls the influence of hydrothermal " - "circulation on the conductivity. " + prm.declare_entry ("Use hydrothermal conductivity", "false", + Patterns::Bool (), + "Whether hydrothermal circulation is included in the calculation of the " + "conductivity or not."); + prm.declare_entry ("Cutoff maximum temperature", "873.15", + Patterns::Double (0.), + "Single value, declares up to which temperature hydrothermal conductivity is relevant. " + "Units: \\si{\\kelvin}."); + //Is this correct, if I want the input in km? + prm.declare_entry ("Cutoff maximum depth", "6.0", + Patterns::Double (0.), + "Single value, declares up to which depth hydrothermal conductivity is relevant. " + "Units: 1000\\si{\\m}."); + //Think about that, Nusselt number should be >1 (so that conductivity is increased, + //is this correctly implemented?), but what default value does make sense? In paper is written "1-8" + prm.declare_entry ("Nusselt number", "2.0", + Patterns::Double (1.), + "Single value, describes the Nusselt number, that is the ratio of convective " + "to conductive heat transfer across the boundary of the crust. " + "The factor by which the conductivity at the surface is increased due to " + "hydrothermal circulation is given by Nu*exp(A), where Nu is the Nusselt number " + "and A is the smoothing factor. "); + prm.declare_entry ("Smoothing factor", "0.75", + Patterns::Double (0.), + "Single value, this is a smoothing factor that controls the influence of hydrothermal " + "circulation on the conductivity. " "The factor by which the conductivity at the surface is increased due to " "hydrothermal circulation is given by Nu*exp(A), where Nu is the Nusselt number " "and A is the smoothing factor. "); From 0d6de6e4f82c25ce333786531884bfcad3554284 Mon Sep 17 00:00:00 2001 From: bbxriboe Date: Thu, 21 Sep 2023 09:53:26 +0200 Subject: [PATCH 14/44] Added prm.get at visco_plastic.cc --- source/material_model/visco_plastic.cc | 6 ++++++ 1 file changed, 6 insertions(+) diff --git a/source/material_model/visco_plastic.cc b/source/material_model/visco_plastic.cc index 5feccd961ce..02419df7cdb 100644 --- a/source/material_model/visco_plastic.cc +++ b/source/material_model/visco_plastic.cc @@ -475,6 +475,12 @@ namespace aspect options.property_name = "Thermal conductivities"; thermal_conductivities = Utilities::MapParsing::parse_map_to_double_array (prm.get("Thermal conductivities"), options); + + use_hydrothermal_cconductivity = prm.get_bool ("Use thermal conductivity"); + cutoff_maximum_temperature = prm.get ("Cutoff maximum temperature"); + cutoff_maximum_depth = prm.get ("Cutoff maximum depth"); + nusselt_number = prm.get ("Nusselt number"); + smoothing_factor = prm.get ("Smoothing_factor"); rheology = std::make_unique>(); rheology->initialize_simulator (this->get_simulator()); From fde583e3ec37a94d763dee35336d4f462d0cfacc Mon Sep 17 00:00:00 2001 From: bbxriboe Date: Thu, 21 Sep 2023 10:03:58 +0200 Subject: [PATCH 15/44] Added prm.get at visco_plastic.cc --- source/material_model/visco_plastic.cc | 10 +++++----- 1 file changed, 5 insertions(+), 5 deletions(-) diff --git a/source/material_model/visco_plastic.cc b/source/material_model/visco_plastic.cc index 02419df7cdb..25a8eb5a3c1 100644 --- a/source/material_model/visco_plastic.cc +++ b/source/material_model/visco_plastic.cc @@ -476,11 +476,11 @@ namespace aspect options.property_name = "Thermal conductivities"; thermal_conductivities = Utilities::MapParsing::parse_map_to_double_array (prm.get("Thermal conductivities"), options); - use_hydrothermal_cconductivity = prm.get_bool ("Use thermal conductivity"); - cutoff_maximum_temperature = prm.get ("Cutoff maximum temperature"); - cutoff_maximum_depth = prm.get ("Cutoff maximum depth"); - nusselt_number = prm.get ("Nusselt number"); - smoothing_factor = prm.get ("Smoothing_factor"); + use_hydrothermal_conductivity = prm.get_bool ("Use thermal conductivity"); + cutoff_maximum_temperature = Utilities::MapParsing::parse_map_to_double_array (prm.get ("Cutoff maximum temperature"), options); + cutoff_maximum_depth = Utilities::MapParsing::parse_map_to_double_array (prm.get ("Cutoff maximum depth"), options); + nusselt_number = Utilities::MapParsing::parse_map_to_double_array (prm.get ("Nusselt number"), options); + smoothing_factor = Utilities::MapParsing::parse_map_to_double_array (prm.get ("Smoothing_factor"), options); rheology = std::make_unique>(); rheology->initialize_simulator (this->get_simulator()); From c7e1f1b6614f3119999e3350b729651cfecaeb39 Mon Sep 17 00:00:00 2001 From: bbxriboe Date: Thu, 21 Sep 2023 10:16:30 +0200 Subject: [PATCH 16/44] Added prm.get at visco_plastic.cc --- source/material_model/visco_plastic.cc | 8 ++++---- 1 file changed, 4 insertions(+), 4 deletions(-) diff --git a/source/material_model/visco_plastic.cc b/source/material_model/visco_plastic.cc index 25a8eb5a3c1..684e6cb07be 100644 --- a/source/material_model/visco_plastic.cc +++ b/source/material_model/visco_plastic.cc @@ -477,10 +477,10 @@ namespace aspect thermal_conductivities = Utilities::MapParsing::parse_map_to_double_array (prm.get("Thermal conductivities"), options); use_hydrothermal_conductivity = prm.get_bool ("Use thermal conductivity"); - cutoff_maximum_temperature = Utilities::MapParsing::parse_map_to_double_array (prm.get ("Cutoff maximum temperature"), options); - cutoff_maximum_depth = Utilities::MapParsing::parse_map_to_double_array (prm.get ("Cutoff maximum depth"), options); - nusselt_number = Utilities::MapParsing::parse_map_to_double_array (prm.get ("Nusselt number"), options); - smoothing_factor = Utilities::MapParsing::parse_map_to_double_array (prm.get ("Smoothing_factor"), options); + cutoff_maximum_temperature = prm.get_double ("Cutoff maximum temperature"); + cutoff_maximum_depth = prm.get_double ("Cutoff maximum depth"); + nusselt_number = prm.get_double ("Nusselt number"); + smoothing_factor = prm.get_double ("Smoothing_factor"); rheology = std::make_unique>(); rheology->initialize_simulator (this->get_simulator()); From 3861d351670dc6c3f23ed33e6777986a33b236db Mon Sep 17 00:00:00 2001 From: bbxriboe Date: Thu, 21 Sep 2023 10:53:52 +0200 Subject: [PATCH 17/44] Added prm.get at visco_plastic.cc --- source/material_model/visco_plastic.cc | 2 +- 1 file changed, 1 insertion(+), 1 deletion(-) diff --git a/source/material_model/visco_plastic.cc b/source/material_model/visco_plastic.cc index 684e6cb07be..373b58a245e 100644 --- a/source/material_model/visco_plastic.cc +++ b/source/material_model/visco_plastic.cc @@ -476,7 +476,7 @@ namespace aspect options.property_name = "Thermal conductivities"; thermal_conductivities = Utilities::MapParsing::parse_map_to_double_array (prm.get("Thermal conductivities"), options); - use_hydrothermal_conductivity = prm.get_bool ("Use thermal conductivity"); + use_hydrothermal_conductivity = prm.get_bool ("Use hydrothermal conductivity"); cutoff_maximum_temperature = prm.get_double ("Cutoff maximum temperature"); cutoff_maximum_depth = prm.get_double ("Cutoff maximum depth"); nusselt_number = prm.get_double ("Nusselt number"); From c2bc6bdcffa6511962a12748a1154745d8906aa7 Mon Sep 17 00:00:00 2001 From: bbxriboe Date: Thu, 21 Sep 2023 10:57:03 +0200 Subject: [PATCH 18/44] Added prm.get at visco_plastic.cc --- source/material_model/visco_plastic.cc | 2 +- 1 file changed, 1 insertion(+), 1 deletion(-) diff --git a/source/material_model/visco_plastic.cc b/source/material_model/visco_plastic.cc index 373b58a245e..a6e4a36a9da 100644 --- a/source/material_model/visco_plastic.cc +++ b/source/material_model/visco_plastic.cc @@ -480,7 +480,7 @@ namespace aspect cutoff_maximum_temperature = prm.get_double ("Cutoff maximum temperature"); cutoff_maximum_depth = prm.get_double ("Cutoff maximum depth"); nusselt_number = prm.get_double ("Nusselt number"); - smoothing_factor = prm.get_double ("Smoothing_factor"); + smoothing_factor = prm.get_double ("Smoothing factor"); rheology = std::make_unique>(); rheology->initialize_simulator (this->get_simulator()); From 59b76802631c878efe69983aaabcf7e433c6ed75 Mon Sep 17 00:00:00 2001 From: bbxriboe Date: Fri, 22 Sep 2023 10:13:05 +0200 Subject: [PATCH 19/44] Edited comptation of hydrothermal conductivity (depth) --- source/material_model/visco_plastic.cc | 23 +++++++++++------------ 1 file changed, 11 insertions(+), 12 deletions(-) diff --git a/source/material_model/visco_plastic.cc b/source/material_model/visco_plastic.cc index a6e4a36a9da..9ce3332009f 100644 --- a/source/material_model/visco_plastic.cc +++ b/source/material_model/visco_plastic.cc @@ -222,8 +222,8 @@ namespace aspect { out.thermal_conductivities[i] = out.thermal_conductivities[i] + out.thermal_conductivities[i] * (nusselt_number -1) * std::exp(smoothing_factor * - (1 - in.temperature [i] / cutoff_maximum_temperature)) * - std::exp(smoothing_factor * (1 - in.position[i](1) / cutoff_maximum_depth)); + (1 - in.temperature[i] / cutoff_maximum_temperature)) * + std::exp(smoothing_factor * (1 - ((this->get_geometry_model().maximal_depth - this->get_geometry_model().depth(in.position[i])) / cutoff_maximum_depth))); } @@ -382,25 +382,24 @@ namespace aspect Patterns::Bool (), "Whether hydrothermal circulation is included in the calculation of the " "conductivity or not."); - prm.declare_entry ("Cutoff maximum temperature", "873.15", + prm.declare_entry ("Cutoff maximum temperature for hydrothermal conductivity", "873.15", Patterns::Double (0.), "Single value, declares up to which temperature hydrothermal conductivity is relevant. " "Units: \\si{\\kelvin}."); - //Is this correct, if I want the input in km? - prm.declare_entry ("Cutoff maximum depth", "6.0", + prm.declare_entry ("Cutoff maximum depth for hydrothermal conductivities", "6.0", Patterns::Double (0.), "Single value, declares up to which depth hydrothermal conductivity is relevant. " - "Units: 1000\\si{\\m}."); + "Units: \\si{\\m}."); //Think about that, Nusselt number should be >1 (so that conductivity is increased, //is this correctly implemented?), but what default value does make sense? In paper is written "1-8" - prm.declare_entry ("Nusselt number", "2.0", + prm.declare_entry ("Nusselt number for hydrothermal conductivity", "2.0", Patterns::Double (1.), "Single value, describes the Nusselt number, that is the ratio of convective " "to conductive heat transfer across the boundary of the crust. " "The factor by which the conductivity at the surface is increased due to " "hydrothermal circulation is given by Nu*exp(A), where Nu is the Nusselt number " "and A is the smoothing factor. "); - prm.declare_entry ("Smoothing factor", "0.75", + prm.declare_entry ("Smoothing factor for hydrothermal conductivity", "0.75", Patterns::Double (0.), "Single value, this is a smoothing factor that controls the influence of hydrothermal " "circulation on the conductivity. " @@ -477,10 +476,10 @@ namespace aspect thermal_conductivities = Utilities::MapParsing::parse_map_to_double_array (prm.get("Thermal conductivities"), options); use_hydrothermal_conductivity = prm.get_bool ("Use hydrothermal conductivity"); - cutoff_maximum_temperature = prm.get_double ("Cutoff maximum temperature"); - cutoff_maximum_depth = prm.get_double ("Cutoff maximum depth"); - nusselt_number = prm.get_double ("Nusselt number"); - smoothing_factor = prm.get_double ("Smoothing factor"); + cutoff_maximum_temperature = prm.get_double ("Cutoff maximum temperature for hydrothermal conductivity"); + cutoff_maximum_depth = prm.get_double ("Cutoff maximum depth for hydrothermal conductivity"); + nusselt_number = prm.get_double ("Nusselt number for hydrothermal conductivity"); + smoothing_factor = prm.get_double ("Smoothing factor for hydrothermal conductivity"); rheology = std::make_unique>(); rheology->initialize_simulator (this->get_simulator()); From 11066413e1e772805788ca45d88a504ea39d7915 Mon Sep 17 00:00:00 2001 From: bbxriboe Date: Fri, 22 Sep 2023 10:14:33 +0200 Subject: [PATCH 20/44] Edited comptation of hydrothermal conductivity (depth) --- source/material_model/visco_plastic.cc | 2 +- 1 file changed, 1 insertion(+), 1 deletion(-) diff --git a/source/material_model/visco_plastic.cc b/source/material_model/visco_plastic.cc index 9ce3332009f..d43657bc403 100644 --- a/source/material_model/visco_plastic.cc +++ b/source/material_model/visco_plastic.cc @@ -223,7 +223,7 @@ namespace aspect out.thermal_conductivities[i] = out.thermal_conductivities[i] + out.thermal_conductivities[i] * (nusselt_number -1) * std::exp(smoothing_factor * (1 - in.temperature[i] / cutoff_maximum_temperature)) * - std::exp(smoothing_factor * (1 - ((this->get_geometry_model().maximal_depth - this->get_geometry_model().depth(in.position[i])) / cutoff_maximum_depth))); + std::exp(smoothing_factor * (1 - ((this->get_geometry_model().maximal_depth() - this->get_geometry_model().depth(in.position[i])) / cutoff_maximum_depth))); } From a4576330e9f1621dd5ec2a19cd7e2b611a90ed0c Mon Sep 17 00:00:00 2001 From: bbxriboe Date: Fri, 22 Sep 2023 10:23:45 +0200 Subject: [PATCH 21/44] Typo --- source/material_model/visco_plastic.cc | 2 +- 1 file changed, 1 insertion(+), 1 deletion(-) diff --git a/source/material_model/visco_plastic.cc b/source/material_model/visco_plastic.cc index d43657bc403..669e500d8f4 100644 --- a/source/material_model/visco_plastic.cc +++ b/source/material_model/visco_plastic.cc @@ -386,7 +386,7 @@ namespace aspect Patterns::Double (0.), "Single value, declares up to which temperature hydrothermal conductivity is relevant. " "Units: \\si{\\kelvin}."); - prm.declare_entry ("Cutoff maximum depth for hydrothermal conductivities", "6.0", + prm.declare_entry ("Cutoff maximum depth for hydrothermal conductivity", "6.0", Patterns::Double (0.), "Single value, declares up to which depth hydrothermal conductivity is relevant. " "Units: \\si{\\m}."); From b3eb9515b32cb404d0a4859b1fb1a61b4b4ab373 Mon Sep 17 00:00:00 2001 From: bbxriboe Date: Fri, 22 Sep 2023 12:19:28 +0200 Subject: [PATCH 22/44] changed Default value of Cutoff maximum depth in visco_plastic.cc (converted from km to m) --- source/material_model/visco_plastic.cc | 2 +- 1 file changed, 1 insertion(+), 1 deletion(-) diff --git a/source/material_model/visco_plastic.cc b/source/material_model/visco_plastic.cc index 669e500d8f4..f8f025684f9 100644 --- a/source/material_model/visco_plastic.cc +++ b/source/material_model/visco_plastic.cc @@ -386,7 +386,7 @@ namespace aspect Patterns::Double (0.), "Single value, declares up to which temperature hydrothermal conductivity is relevant. " "Units: \\si{\\kelvin}."); - prm.declare_entry ("Cutoff maximum depth for hydrothermal conductivity", "6.0", + prm.declare_entry ("Cutoff maximum depth for hydrothermal conductivity", "6000.0", Patterns::Double (0.), "Single value, declares up to which depth hydrothermal conductivity is relevant. " "Units: \\si{\\m}."); From a7e86c0ca81881d26e8195231e3ddb6244e4150d Mon Sep 17 00:00:00 2001 From: bbxriboe Date: Fri, 22 Sep 2023 14:26:59 +0200 Subject: [PATCH 23/44] Fixed(?) computation of depth in visco_plastic.cc function evaluate --- source/material_model/visco_plastic.cc | 2 +- 1 file changed, 1 insertion(+), 1 deletion(-) diff --git a/source/material_model/visco_plastic.cc b/source/material_model/visco_plastic.cc index f8f025684f9..7fdae1a0184 100644 --- a/source/material_model/visco_plastic.cc +++ b/source/material_model/visco_plastic.cc @@ -223,7 +223,7 @@ namespace aspect out.thermal_conductivities[i] = out.thermal_conductivities[i] + out.thermal_conductivities[i] * (nusselt_number -1) * std::exp(smoothing_factor * (1 - in.temperature[i] / cutoff_maximum_temperature)) * - std::exp(smoothing_factor * (1 - ((this->get_geometry_model().maximal_depth() - this->get_geometry_model().depth(in.position[i])) / cutoff_maximum_depth))); + std::exp(smoothing_factor * (1 - this->get_geometry_model().depth(in.position[i]) / cutoff_maximum_depth)); } From 9fb2ccd271d059173ef3597c1c3081590412629b Mon Sep 17 00:00:00 2001 From: bbxriboe Date: Mon, 25 Sep 2023 13:48:17 +0200 Subject: [PATCH 24/44] Added test hydrothermal cooling to tests directory --- tests/hydrothermal_cooling.prm | 251 +++++++++++++++++++++++ tests/hydrothermal_cooling/screen-output | 78 +++++++ tests/hydrothermal_cooling/statistics | 24 +++ 3 files changed, 353 insertions(+) create mode 100644 tests/hydrothermal_cooling.prm create mode 100644 tests/hydrothermal_cooling/screen-output create mode 100644 tests/hydrothermal_cooling/statistics diff --git a/tests/hydrothermal_cooling.prm b/tests/hydrothermal_cooling.prm new file mode 100644 index 00000000000..92c79ebe995 --- /dev/null +++ b/tests/hydrothermal_cooling.prm @@ -0,0 +1,251 @@ +#### Continental Extension Cookbook +# This cookbook is based off numerous published studies, three of which are listed below. +# For additional information, see these publications and references therein. +# 1. Brune, S., Heine, C., Perez-Gussinye, M., and Sobolev, S.V. (2014), Nat. Comm., v.5, n.4014, +# Rift migration explains continental margin asymmetry and crustal hyperextension +# 2. Huismans, R., and Beaumont, C. (2011), Nature, v.473, p.71-75. +# Depth-dependent extension, two-stage breakup and cratonic underplating at rifted margins +# 3. Naliboff, J., and Buiter, S.H. (2015), Earth Planet. Sci. Lett., v.421, p.58-67, +# "Rift Reactivation and migration during multiphase extension" + +#### Global parameters +set Dimension = 2 +set Start time = 0 +set End time = 0 #instead of 20e6, 1 timestep +set Maximum time step = 150000 +set Use years in output instead of seconds = true +set Nonlinear solver scheme = iterated Stokes +set Nonlinear solver tolerance = 1e-4 +set Max nonlinear iterations = 20 +set CFL number = 0.5 #Courant-Friedrichs-Lewy +set Output directory = output_lithosphere_test +set Pressure normalization = no + + +#### Solver settings +subsection Solver parameters + subsection Stokes solver parameters + set Number of cheap Stokes solver steps = 0 + set Linear solver tolerance = 1e-5 + end +end + +#### Parameters describing the model + +# Model geometry (400x100 km, 4 km spacing) +subsection Geometry model + set Model name = box + subsection Box + set X repetitions = 4 + set Y repetitions = 1 + set X extent = 80e3 + set Y extent = 20e3 + end +end + +# Mesh refinement specifications (no mesh refinement, +# but the coarse mesh is already 100x25, see above) +subsection Mesh refinement + set Initial global refinement = 3 +end + +# Advecting the free surface vertically rather than +# in the surface normal direction can result in a +# more stable mesh when the deformation is large +subsection Mesh deformation + set Mesh deformation boundary indicators = top: free surface + subsection Free surface + set Surface velocity projection = vertical + end +end + +# Velocity on boundaries characterized by functions: +# outflow on sides, compensating inflow at base. +# The outward velocity (x-direction) on the left and right walls is 0.25 cm/year +# The vertical velocity at the base is 0.125 cm/year (balances outflow on sides) +# Velocity components parallel to the base (x-velocity) and side walls (y-velocity) +# are unconstrained (i.e. 'free'). +subsection Boundary velocity model + set Tangential velocity boundary indicators = left, right, bottom +end + + +# Number and names of compositional fields +# The four compositional fields represent the upper crust, lower crust +# and a 'seed' placed in the mantle to help localize deformation. +subsection Compositional fields + set Number of fields = 2 + set Names of fields = upper, weak_seed +end + + +# Spatial domain of different compositional fields +# The upper crust, lower crust and mantle are continuous horizontal layers +# of varying thickness. The top of the seed (4x8 km) is placed 2 km beneath +# the base of the crust and straddles the horizontal midpoint. +subsection Initial composition model + set Model name = function + subsection Function + set Variable names = x,y + set Function expression = if(y>=14.e3, 1, 0); \ + if(y<13.75e3 && y>11.25e3 && x>=38.75e3 && x<=41.25e3 , 1, 0); + end +end + +# Composition boundary conditions +# Composition: fixed on bottom, free on sides and top +subsection Boundary composition model + set Fixed composition boundary indicators = bottom + set Model name = initial composition +end + +# Temperature boundary conditions +# Top and bottom (fixed) temperatures are consistent with the initial temperature field +# Note that while temperatures are specified for the model sides, these values are +# not used as the sides are not specified "Fixed temperature boundaries". Rather, +# these boundaries are insulating (zero net heat flux). +subsection Boundary temperature model + set Fixed temperature boundary indicators = bottom, top + set List of model names = box + subsection Box + set Bottom temperature = 1200 #needs to be changed later + set Top temperature = 273 + end +end + +# Initial temperature field +# Typical continental geotherm based on equations 4-6 from: +# D.S. Chapman (1986), "Thermal gradients in the continental crust", +# Geological Society of London Special Publications, v.24, p.63-70. +# The initial constraints are: +# Layer Surface Temperature - upper crust (ts1) = 273 K; +# mantle (ts3) = 823 K; +# Model Base Temperature - (tb) = 1573 K; +# Heat Production - upper crust (A) = 1.5e-6 W/m^3; +# Thermal Conductivity - upper crust (k1) = 2.5 (W/(m K)); +# lower crust (k2) = 2.5 (W/(m K)); +# mantle (k3) = 3.3 (W/(m K)); +# To satisfy these constraints, the following values are required: +# Layer Surface Heat Flow - upper crust (qs1) = 0.065357 W/m^2; +# lower crust (qs2) = 0.035357 W/m^2; +# mantle (qs3) = 0.035357 W/m^2; +# Temperature - base of upper crust (ts2) = 681.5714 +subsection Initial temperature model + set Model name = function + subsection Function + set Variable names = x,y + set Function constants = h=20.e3,ts1=273,ts2=681.5714,ts3=823., tbot=1200, \ + k1=2.5,k2=2.5,k3=3.3,A=1.5e-6, \ + qs1=0.0653571,qs2=0.035357,qs3=0.035357,qb3=0.035357 + set Function expression = if( (h-y)<=6.e3, ts1, tbot) + end +end + +# Constant internal heat production values (W/m^3) for background material +# and compositional fields. +subsection Heating model + set List of model names = compositional heating + subsection Compositional heating + # set Compositional heating values = 0., 1.5e-6 + end +end + +# Material model +# Rheology: Non-linear viscous flow and Drucker Prager Plasticity +# Values for most rheological parameters are specified for a background material and +# each compositional field. Values for viscous deformation are based on dislocation +# creep flow-laws, with distinct values for the upper crust (wet quartzite), lower +# crust (wet anorthite) and mantle (dry olivine). Table 1 of Naliboff and Buiter (2015), +# Earth Planet. Sci. Lett., v.421, p. 58-67 contains values for each of these flow laws. +subsection Material model + set Model name = visco plastic + + subsection Visco Plastic + + # Reference temperature and viscosity + set Reference temperature = 293 + + #Hydrothermal conductivity + set Use hydrothermal conductivity = true + set Nusselt number for hydrothermal conductivity = 2 #has to be >=1 + set Smoothing factor for hydrothermal conductivity = .8 + set Cutoff maximum temperature for hydrothermal conductivity = 873.15 + set Cutoff maximum depth for hydrothermal conductivity = 3.e3 + + # The minimum strain-rate helps limit large viscosities values that arise + # as the strain-rate approaches zero. + # The reference strain-rate is used on the first non-linear iteration + # of the first time step when the velocity has not been determined yet. + set Minimum strain rate = 1.e-20 + set Reference strain rate = 1.e-16 + + # Limit the viscosity with minimum and maximum values + set Minimum viscosity = 1e19 + set Maximum viscosity = 1e25 + + # Thermal diffusivity is adjusted to match thermal conductivities + # assumed in assigning the initial geotherm + set Define thermal conductivities = true + set Thermal conductivities = 3.0, 1.5, 3.0 + #set Thermal diffusivities = 1.333333e-6, 1.190476e-6, 1.333333e-6 + set Heat capacities = 750., 750., 750. + set Densities = 3300, 2800, 3300 + set Thermal expansivities = 2e-5, 2e-5, 2e-5 + + # Harmonic viscosity averaging + set Viscosity averaging scheme = harmonic + + # Choose to have the viscosity (pre-yield) follow a dislocation + # diffusion or composite flow law. Here, dislocation is selected + # so no need to specify diffusion creep parameters below, which are + # only used if "diffusion" or "composite" option is selected. + set Viscous flow law = dislocation + + # Dislocation creep parameters for + # 1. Background material/mantle (dry olivine) + # Hirth & Kohlstedt (2004), Geophys. Monogr. Am. Geophys. Soc., v.138, p.83-105. + # "Rheology of the upper mantle and the mantle wedge:a view from the experimentalists" + # 2. Upper crust (wet quartzite) + # Rutter & Brodie (2004), J. Struct. Geol., v.26, p.2011-2023. + # "Experimental grain size-sensitive flow of hot-pressed Brazilian quartz aggregates" + # 3. Lower crust and weak seed (wet anorthite) + # Rybacki et al. (2006), J. Geophys. Res., v.111(B3). + # "Influence of water fugacity and activation volume on the flow properties of fine-grained + # anorthite aggregates" + # Note that the viscous pre-factors below are scaled to plane strain from unixial strain experiments. + set Prefactors for dislocation creep = 6.52e-16, 8.57e-28, 6.52e-16 +# 7.13e-18 + set Stress exponents for dislocation creep = 3.5, 4.0, 3.5 +#, 3.0 + set Activation energies for dislocation creep = 530.e3, 223.e3, 530.e3 +#, 345.e3 + set Activation volumes for dislocation creep = 18.e-6, 0., 18.e-6 + + # Plasticity parameters + set Angles of internal friction = 20., 20., 20. + set Cohesions = 20.e6, 20.e6, 5.e6 + + end +end + +# Gravity model +subsection Gravity model + set Model name = vertical + + subsection Vertical + set Magnitude = 9.81 + end +end + + +# Post processing +subsection Postprocess + set List of postprocessors = velocity statistics, temperature statistics, heating statistics, visualization + subsection Visualization + set List of output variables = density, viscosity, strain rate, thermal conductivity + set Output format = vtu + set Time between graphical output = 0 + set Interpolate output = true + end +end + diff --git a/tests/hydrothermal_cooling/screen-output b/tests/hydrothermal_cooling/screen-output new file mode 100644 index 00000000000..4d7c225468d --- /dev/null +++ b/tests/hydrothermal_cooling/screen-output @@ -0,0 +1,78 @@ +-------------------------------------------------------------------------- +WARNING: No preset parameters were found for the device that Open MPI +detected: + + Local host: blogin2 + Device name: i40iw0 + Device vendor ID: 0x8086 + Device vendor part ID: 14290 + +Default device parameters will be used, which may result in lower +performance. You can edit any of the files specified by the +btl_openib_device_param_files MCA parameter to set values for your +device. + +NOTE: You can turn off this warning by setting the MCA parameter + btl_openib_warn_no_device_params_found to 0. +-------------------------------------------------------------------------- +----------------------------------------------------------------------------- +----------------------------------------------------------------------------- + +----------------------------------------------------------------------------- +----------------------------------------------------------------------------- +Number of active cells: 256 (on 4 levels) +Number of degrees of freedom: 5,822 (2,210+297+1,105+1,105+1,105) + +Number of mesh deformation degrees of freedom: 594 + Solving mesh displacement system... 0 iterations. +*** Timestep 0: t=0 years, dt=0 years + Solving mesh displacement system... 0 iterations. + Solving temperature system... 0 iterations. + Solving upper system ... 0 iterations. + Solving weak_seed system ... 0 iterations. + Rebuilding Stokes preconditioner... + Solving Stokes system... 0+9 iterations. + Relative nonlinear residual (Stokes system) after nonlinear iteration 1: 1 + + Rebuilding Stokes preconditioner... + Solving Stokes system... 0+13 iterations. + Relative nonlinear residual (Stokes system) after nonlinear iteration 2: 15.086 + +[blogin2:142522] 1 more process has sent help message help-mpi-btl-openib.txt / no device params found +[blogin2:142522] Set MCA parameter "orte_base_help_aggregate" to 0 to see all help / error messages + Rebuilding Stokes preconditioner... + Solving Stokes system... 0+9 iterations. + Relative nonlinear residual (Stokes system) after nonlinear iteration 3: 0.475126 + + Rebuilding Stokes preconditioner... + Solving Stokes system... 0+7 iterations. + Relative nonlinear residual (Stokes system) after nonlinear iteration 4: 0.19581 + + Rebuilding Stokes preconditioner... + Solving Stokes system... 0+5 iterations. + Relative nonlinear residual (Stokes system) after nonlinear iteration 5: 0.082379 + + Rebuilding Stokes preconditioner... + Solving Stokes system... 0+5 iterations. + Relative nonlinear residual (Stokes system) after nonlinear iteration 6: 0.0288624 + + Rebuilding Stokes preconditioner... + Solving Stokes system... 0+0 iterations. + Relative nonlinear residual (Stokes system) after nonlinear iteration 7: 2.76725e-06 + + + Postprocessing: + RMS, max velocity: 1.76e-10 m/year, 5.18e-10 m/year + Temperature min/avg/max: 273 K, 948.9 K, 1200 K + Heating rate (average/total): 0 W/kg, 0 W + Writing graphical output: output-hydrothermal_cooling/solution/solution-00000 + +Termination requested by criterion: end time + + ++----------------------------------------------+------------+------------+ ++----------------------------------+-----------+------------+------------+ ++----------------------------------+-----------+------------+------------+ + +----------------------------------------------------------------------------- +----------------------------------------------------------------------------- diff --git a/tests/hydrothermal_cooling/statistics b/tests/hydrothermal_cooling/statistics new file mode 100644 index 00000000000..d316005ba34 --- /dev/null +++ b/tests/hydrothermal_cooling/statistics @@ -0,0 +1,24 @@ +# 1: Time step number +# 2: Time (years) +# 3: Time step size (years) +# 4: Number of mesh cells +# 5: Number of Stokes degrees of freedom +# 6: Number of temperature degrees of freedom +# 7: Number of degrees of freedom for all compositions +# 8: Number of nonlinear iterations +# 9: Iterations for temperature solver +# 10: Iterations for composition solver 1 +# 11: Iterations for composition solver 2 +# 12: Iterations for Stokes solver +# 13: Velocity iterations in Stokes preconditioner +# 14: Schur complement iterations in Stokes preconditioner +# 15: RMS velocity (m/year) +# 16: Max. velocity (m/year) +# 17: Minimal temperature (K) +# 18: Average temperature (K) +# 19: Maximal temperature (K) +# 20: Average nondimensional temperature (K) +# 21: Average compositional heating rate (W/kg) +# 22: Total compositional heating rate (W) +# 23: Visualization file name +0 0.000000000000e+00 0.000000000000e+00 256 2507 1105 2210 7 0 0 0 41 410 54 1.76264541e-10 5.18485947e-10 2.73000000e+02 9.48937500e+02 1.20000000e+03 7.29166667e-01 0.00000000e+00 0.00000000e+00 output-hydrothermal_cooling/solution/solution-00000 From b577189c44a7f527e58e5b08fe33238710d49878 Mon Sep 17 00:00:00 2001 From: bbxriboe Date: Thu, 28 Sep 2023 12:35:37 +0200 Subject: [PATCH 25/44] Implemented proposed changes to the pull request --- include/aspect/material_model/visco_plastic.h | 19 ++++-- source/material_model/visco_plastic.cc | 58 +++++++++--------- tests/hydrothermal_cooling.prm | 59 +++++-------------- 3 files changed, 56 insertions(+), 80 deletions(-) diff --git a/include/aspect/material_model/visco_plastic.h b/include/aspect/material_model/visco_plastic.h index 714a7607a06..4a7208f31ff 100644 --- a/include/aspect/material_model/visco_plastic.h +++ b/include/aspect/material_model/visco_plastic.h @@ -256,22 +256,31 @@ namespace aspect std::vector thermal_conductivities; /** - * Whether conductivity should be adjusted taking into account hydrothermal circulation or not. + * Whether thermal conductivity should be increased as an approximation + * of cooling through hydrothermal fluid circulation (if true) or not (default). + * The approximation of cooling follows Eq. 8 of Gregg et al. + * (Melt generation, crystallization, and extraction beneath segmented oceanic transform faults). */ - bool use_hydrothermal_conductivity; + bool use_hydrothermal_cooling_approximation; /** - * temperature and depth up to which hydrothermal circulation is considered to take place. + * Temperature up to which hydrothermal fluid circulation is considered to take place. */ double cutoff_maximum_temperature; + /** + * Depth up to which hydrothermal fluid circulation is considered to take place. + */ double cutoff_maximum_depth; /** - * Nusselt number and a smoothing factor used for the computation of thermal conductivity + * Nusselt number used for the computation of the approximation of cooling. */ - double nusselt_number; + double Nusselt_number; + /** + * Smoothing factor used for the computation of the approximation of cooling. + */ double smoothing_factor; /** diff --git a/source/material_model/visco_plastic.cc b/source/material_model/visco_plastic.cc index 7fdae1a0184..e1a786726d8 100644 --- a/source/material_model/visco_plastic.cc +++ b/source/material_model/visco_plastic.cc @@ -216,14 +216,16 @@ namespace aspect out.thermal_conductivities[i] = MaterialUtilities::average_value (volume_fractions, thermal_conductivities, MaterialUtilities::arithmetic); } - /* In the following, the thermal conductivity is computed, if this option was selected. - */ - if (use_hydrothermal_conductivity == true) + // Adapt the thermal conductivity to approximate hydrothermal cooling, if this option was selected. + // The depth that the geometry model returns is not the actual depth below the subsurface, + // but the depth below the initial surface of the model domain. + // Therefore, it will not be correct if mesh defomation is used (e.g. free surface). + if (use_hydrothermal_cooling_approximation == true) { out.thermal_conductivities[i] = out.thermal_conductivities[i] + out.thermal_conductivities[i] * - (nusselt_number -1) * std::exp(smoothing_factor * - (1 - in.temperature[i] / cutoff_maximum_temperature)) * - std::exp(smoothing_factor * (1 - this->get_geometry_model().depth(in.position[i]) / cutoff_maximum_depth)); + (Nusselt_number - 1.) * std::exp(smoothing_factor * + (1. - in.temperature[i] / cutoff_maximum_temperature)) * + std::exp(smoothing_factor * (1. - this->get_geometry_model().depth(in.position[i]) / cutoff_maximum_depth)); } @@ -378,34 +380,28 @@ namespace aspect "for a total of N+1 values, where N is the number of compositional fields. " "If only one value is given, then all use the same value. " "Units: \\si{\\watt\\per\\meter\\per\\kelvin}."); - prm.declare_entry ("Use hydrothermal conductivity", "false", + prm.declare_entry ("Approximate hydrothermal cooling through thermal conductivity", "false", Patterns::Bool (), - "Whether hydrothermal circulation is included in the calculation of the " + "Whether hydrothermal fluid circulation is considered in the calculation of the " "conductivity or not."); - prm.declare_entry ("Cutoff maximum temperature for hydrothermal conductivity", "873.15", + prm.declare_entry ("Cutoff maximum temperature for hydrothermal cooling approximation", "873.15", Patterns::Double (0.), - "Single value, declares up to which temperature hydrothermal conductivity is relevant. " + "Temperature up to which the hydrothermal cooling approximation is applied. " "Units: \\si{\\kelvin}."); - prm.declare_entry ("Cutoff maximum depth for hydrothermal conductivity", "6000.0", + prm.declare_entry ("Cutoff maximum depth for hydrothermal cooling approximation", "6000.0", Patterns::Double (0.), - "Single value, declares up to which depth hydrothermal conductivity is relevant. " + "Depth up to which the hydrothermal cooling approximation is applied. " "Units: \\si{\\m}."); - //Think about that, Nusselt number should be >1 (so that conductivity is increased, - //is this correctly implemented?), but what default value does make sense? In paper is written "1-8" - prm.declare_entry ("Nusselt number for hydrothermal conductivity", "2.0", + prm.declare_entry ("Nusselt number for hydrothermal cooling approximation", "2.0", Patterns::Double (1.), - "Single value, describes the Nusselt number, that is the ratio of convective " - "to conductive heat transfer across the boundary of the crust. " - "The factor by which the conductivity at the surface is increased due to " - "hydrothermal circulation is given by Nu*exp(A), where Nu is the Nusselt number " - "and A is the smoothing factor. "); - prm.declare_entry ("Smoothing factor for hydrothermal conductivity", "0.75", + "Nusselt number, that is the ratio of convective to conductive heat transfer " + "across the boundary of the crust. " + "Increasing the Nusselt number will mimic the effect of faster circulating fluids and " + "thus increase the thermal conductivity"); + prm.declare_entry ("Smoothing factor for hydrothermal cooling approximation", "0.75", Patterns::Double (0.), - "Single value, this is a smoothing factor that controls the influence of hydrothermal " - "circulation on the conductivity. " - "The factor by which the conductivity at the surface is increased due to " - "hydrothermal circulation is given by Nu*exp(A), where Nu is the Nusselt number " - "and A is the smoothing factor. "); + "Smoothing factor that controls the influence of hydrothermal fluid circulation " + "on the hydrothermal cooling. "); } prm.leave_subsection(); } @@ -475,11 +471,11 @@ namespace aspect options.property_name = "Thermal conductivities"; thermal_conductivities = Utilities::MapParsing::parse_map_to_double_array (prm.get("Thermal conductivities"), options); - use_hydrothermal_conductivity = prm.get_bool ("Use hydrothermal conductivity"); - cutoff_maximum_temperature = prm.get_double ("Cutoff maximum temperature for hydrothermal conductivity"); - cutoff_maximum_depth = prm.get_double ("Cutoff maximum depth for hydrothermal conductivity"); - nusselt_number = prm.get_double ("Nusselt number for hydrothermal conductivity"); - smoothing_factor = prm.get_double ("Smoothing factor for hydrothermal conductivity"); + use_hydrothermal_cooling_approximation = prm.get_bool ("Approximate hydrothermal cooling through thermal conductivity"); + cutoff_maximum_temperature = prm.get_double ("Cutoff maximum temperature for hydrothermal cooling approximation"); + cutoff_maximum_depth = prm.get_double ("Cutoff maximum depth for hydrothermal cooling approximation"); + Nusselt_number = prm.get_double ("Nusselt number for hydrothermal cooling approximation"); + smoothing_factor = prm.get_double ("Smoothing factor for hydrothermal cooling approximation"); rheology = std::make_unique>(); rheology->initialize_simulator (this->get_simulator()); diff --git a/tests/hydrothermal_cooling.prm b/tests/hydrothermal_cooling.prm index 92c79ebe995..fccdbc0effa 100644 --- a/tests/hydrothermal_cooling.prm +++ b/tests/hydrothermal_cooling.prm @@ -1,24 +1,18 @@ -#### Continental Extension Cookbook -# This cookbook is based off numerous published studies, three of which are listed below. -# For additional information, see these publications and references therein. -# 1. Brune, S., Heine, C., Perez-Gussinye, M., and Sobolev, S.V. (2014), Nat. Comm., v.5, n.4014, -# Rift migration explains continental margin asymmetry and crustal hyperextension -# 2. Huismans, R., and Beaumont, C. (2011), Nature, v.473, p.71-75. -# Depth-dependent extension, two-stage breakup and cratonic underplating at rifted margins -# 3. Naliboff, J., and Buiter, S.H. (2015), Earth Planet. Sci. Lett., v.421, p.58-67, -# "Rift Reactivation and migration during multiphase extension" +## This is a test for models that use the viscoplastic material model +## and which use the approximation of hydrothermal cooling + #### Global parameters set Dimension = 2 set Start time = 0 -set End time = 0 #instead of 20e6, 1 timestep +set End time = 0 # 1 timestep set Maximum time step = 150000 set Use years in output instead of seconds = true set Nonlinear solver scheme = iterated Stokes set Nonlinear solver tolerance = 1e-4 set Max nonlinear iterations = 20 set CFL number = 0.5 #Courant-Friedrichs-Lewy -set Output directory = output_lithosphere_test +set Output directory = hydrothermal_cooling set Pressure normalization = no @@ -32,7 +26,7 @@ end #### Parameters describing the model -# Model geometry (400x100 km, 4 km spacing) +# Model geometry (80x20 km) subsection Geometry model set Model name = box subsection Box @@ -43,8 +37,7 @@ subsection Geometry model end end -# Mesh refinement specifications (no mesh refinement, -# but the coarse mesh is already 100x25, see above) +# Mesh refinement specifications (no mesh refinement) subsection Mesh refinement set Initial global refinement = 3 end @@ -59,19 +52,15 @@ subsection Mesh deformation end end -# Velocity on boundaries characterized by functions: -# outflow on sides, compensating inflow at base. -# The outward velocity (x-direction) on the left and right walls is 0.25 cm/year -# The vertical velocity at the base is 0.125 cm/year (balances outflow on sides) -# Velocity components parallel to the base (x-velocity) and side walls (y-velocity) -# are unconstrained (i.e. 'free'). +# Velocity on boundaries: +# Free slip on the left, right and the bottom boundary subsection Boundary velocity model set Tangential velocity boundary indicators = left, right, bottom end # Number and names of compositional fields -# The four compositional fields represent the upper crust, lower crust +# The two compositional fields represent the crust # and a 'seed' placed in the mantle to help localize deformation. subsection Compositional fields set Number of fields = 2 @@ -80,8 +69,8 @@ end # Spatial domain of different compositional fields -# The upper crust, lower crust and mantle are continuous horizontal layers -# of varying thickness. The top of the seed (4x8 km) is placed 2 km beneath +# The crust is a continuous horizontal layer that is 6 km thick. +# The top of the seed (2.5x2.5 km) is placed 0.25 km beneath # the base of the crust and straddles the horizontal midpoint. subsection Initial composition model set Model name = function @@ -114,30 +103,12 @@ subsection Boundary temperature model end # Initial temperature field -# Typical continental geotherm based on equations 4-6 from: -# D.S. Chapman (1986), "Thermal gradients in the continental crust", -# Geological Society of London Special Publications, v.24, p.63-70. -# The initial constraints are: -# Layer Surface Temperature - upper crust (ts1) = 273 K; -# mantle (ts3) = 823 K; -# Model Base Temperature - (tb) = 1573 K; -# Heat Production - upper crust (A) = 1.5e-6 W/m^3; -# Thermal Conductivity - upper crust (k1) = 2.5 (W/(m K)); -# lower crust (k2) = 2.5 (W/(m K)); -# mantle (k3) = 3.3 (W/(m K)); -# To satisfy these constraints, the following values are required: -# Layer Surface Heat Flow - upper crust (qs1) = 0.065357 W/m^2; -# lower crust (qs2) = 0.035357 W/m^2; -# mantle (qs3) = 0.035357 W/m^2; -# Temperature - base of upper crust (ts2) = 681.5714 subsection Initial temperature model set Model name = function subsection Function set Variable names = x,y - set Function constants = h=20.e3,ts1=273,ts2=681.5714,ts3=823., tbot=1200, \ - k1=2.5,k2=2.5,k3=3.3,A=1.5e-6, \ - qs1=0.0653571,qs2=0.035357,qs3=0.035357,qb3=0.035357 - set Function expression = if( (h-y)<=6.e3, ts1, tbot) + set Function constants = h=20.e3,ts=273, tbot=1200 + set Function expression = if((h-y)<=6.e3, ts, tbot) end end @@ -243,7 +214,7 @@ subsection Postprocess set List of postprocessors = velocity statistics, temperature statistics, heating statistics, visualization subsection Visualization set List of output variables = density, viscosity, strain rate, thermal conductivity - set Output format = vtu + set Output format = gnuplot set Time between graphical output = 0 set Interpolate output = true end From 73c9187eddb586ab47d81ca713ea40166b341508 Mon Sep 17 00:00:00 2001 From: bbxriboe Date: Thu, 28 Sep 2023 12:44:38 +0200 Subject: [PATCH 26/44] Edited new names of parameters in subsection ViscoPlastic --- tests/hydrothermal_cooling.prm | 10 +++++----- 1 file changed, 5 insertions(+), 5 deletions(-) diff --git a/tests/hydrothermal_cooling.prm b/tests/hydrothermal_cooling.prm index fccdbc0effa..9ba2b804392 100644 --- a/tests/hydrothermal_cooling.prm +++ b/tests/hydrothermal_cooling.prm @@ -137,11 +137,11 @@ subsection Material model set Reference temperature = 293 #Hydrothermal conductivity - set Use hydrothermal conductivity = true - set Nusselt number for hydrothermal conductivity = 2 #has to be >=1 - set Smoothing factor for hydrothermal conductivity = .8 - set Cutoff maximum temperature for hydrothermal conductivity = 873.15 - set Cutoff maximum depth for hydrothermal conductivity = 3.e3 + set Approximate hydrothermal cooling through thermal conductivity = true + set Nusselt number for hydrothermal cooling approximation = 2 #has to be >=1 + set Smoothing factor for hydrothermal cooling approximation = .8 + set Cutoff maximum temperature for hydrothermal cooling approximation = 873.15 + set Cutoff maximum depth for hydrothermal cooling approximation = 3.e3 # The minimum strain-rate helps limit large viscosities values that arise # as the strain-rate approaches zero. From 53342ce85a12cc8879a4d871fdc9466e94174d2b Mon Sep 17 00:00:00 2001 From: bbxriboe Date: Thu, 28 Sep 2023 13:54:18 +0200 Subject: [PATCH 27/44] New output files --- tests/hydrothermal_cooling/log.txt | 91 +++ tests/hydrothermal_cooling/screen-output | 53 +- .../solution/solution-00000.0000.gnuplot | 683 ++++++++++++++++++ .../solution/solution-00000.0001.gnuplot | 683 ++++++++++++++++++ .../solution/solution-00000.0002.gnuplot | 631 ++++++++++++++++ .../solution/solution-00000.0003.gnuplot | 683 ++++++++++++++++++ .../solution/solution-00000.0004.gnuplot | 683 ++++++++++++++++++ 7 files changed, 3487 insertions(+), 20 deletions(-) create mode 100644 tests/hydrothermal_cooling/log.txt create mode 100644 tests/hydrothermal_cooling/solution/solution-00000.0000.gnuplot create mode 100644 tests/hydrothermal_cooling/solution/solution-00000.0001.gnuplot create mode 100644 tests/hydrothermal_cooling/solution/solution-00000.0002.gnuplot create mode 100644 tests/hydrothermal_cooling/solution/solution-00000.0003.gnuplot create mode 100644 tests/hydrothermal_cooling/solution/solution-00000.0004.gnuplot diff --git a/tests/hydrothermal_cooling/log.txt b/tests/hydrothermal_cooling/log.txt new file mode 100644 index 00000000000..ee2f388f561 --- /dev/null +++ b/tests/hydrothermal_cooling/log.txt @@ -0,0 +1,91 @@ +----------------------------------------------------------------------------- +-- This is ASPECT, the Advanced Solver for Problems in Earth's ConvecTion. +-- . version 2.6.0-pre (Hydrothermal_Conductivity, 73c9187) +-- . using deal.II 9.4.0 +-- . with 32 bit indices and vectorization level 1 (128 bits) +-- . using Trilinos 13.2.0 +-- . using p4est 2.3.2 +-- . running in DEBUG mode +-- . running with 1 MPI process +----------------------------------------------------------------------------- + +----------------------------------------------------------------------------- +-- For information on how to cite ASPECT, see: +-- https://aspect.geodynamics.org/citing.html?ver=2.6.0-pre&sha=73c9187&src=code +----------------------------------------------------------------------------- +Number of active cells: 256 (on 4 levels) +Number of degrees of freedom: 5,822 (2,210+297+1,105+1,105+1,105) + +Number of mesh deformation degrees of freedom: 594 + Solving mesh displacement system... 0 iterations. +*** Timestep 0: t=0 years, dt=0 years + Solving mesh displacement system... 0 iterations. + Solving temperature system... 0 iterations. + Solving upper system ... 0 iterations. + Solving weak_seed system ... 0 iterations. + Rebuilding Stokes preconditioner... + Solving Stokes system... 0+9 iterations. + Relative nonlinear residual (Stokes system) after nonlinear iteration 1: 1 + + Rebuilding Stokes preconditioner... + Solving Stokes system... 0+13 iterations. + Relative nonlinear residual (Stokes system) after nonlinear iteration 2: 15.086 + + Rebuilding Stokes preconditioner... + Solving Stokes system... 0+9 iterations. + Relative nonlinear residual (Stokes system) after nonlinear iteration 3: 0.475126 + + Rebuilding Stokes preconditioner... + Solving Stokes system... 0+7 iterations. + Relative nonlinear residual (Stokes system) after nonlinear iteration 4: 0.19581 + + Rebuilding Stokes preconditioner... + Solving Stokes system... 0+5 iterations. + Relative nonlinear residual (Stokes system) after nonlinear iteration 5: 0.082379 + + Rebuilding Stokes preconditioner... + Solving Stokes system... 0+5 iterations. + Relative nonlinear residual (Stokes system) after nonlinear iteration 6: 0.0288624 + + Rebuilding Stokes preconditioner... + Solving Stokes system... 0+0 iterations. + Relative nonlinear residual (Stokes system) after nonlinear iteration 7: 2.76725e-06 + + + Postprocessing: + RMS, max velocity: 1.76e-10 m/year, 5.18e-10 m/year + Temperature min/avg/max: 273 K, 948.9 K, 1200 K + Heating rate (average/total): 0 W/kg, 0 W + Writing graphical output: output-hydrothermal_cooling/solution/solution-00000 + +Termination requested by criterion: end time + + ++----------------------------------------------+------------+------------+ +| Total wallclock time elapsed since start | 7.5s | | +| | | | +| Section | no. calls | wall time | % of total | ++----------------------------------+-----------+------------+------------+ +| Assemble Stokes system | 7 | 2.64s | 35% | +| Assemble composition system | 2 | 0.838s | 11% | +| Assemble temperature system | 1 | 0.466s | 6.2% | +| Build Stokes preconditioner | 7 | 1.11s | 15% | +| Build composition preconditioner | 2 | 0.00381s | 0% | +| Build temperature preconditioner | 1 | 0.00278s | 0% | +| Initialization | 1 | 0.646s | 8.6% | +| Mesh deformation | 1 | 0.121s | 1.6% | +| Mesh deformation initialize | 1 | 0.0855s | 1.1% | +| Postprocessing | 1 | 0.356s | 4.7% | +| Setup dof systems | 1 | 0.149s | 2% | +| Setup initial conditions | 1 | 0.429s | 5.7% | +| Setup matrices | 1 | 0.225s | 3% | +| Solve Stokes system | 7 | 0.233s | 3.1% | +| Solve composition system | 2 | 0.00221s | 0% | +| Solve temperature system | 1 | 0.00203s | 0% | ++----------------------------------+-----------+------------+------------+ + +-- Total wallclock time elapsed including restarts: 7s +----------------------------------------------------------------------------- +-- For information on how to cite ASPECT, see: +-- https://aspect.geodynamics.org/citing.html?ver=2.6.0-pre&sha=73c9187&src=code +---------------------------------------------------------------------------- diff --git a/tests/hydrothermal_cooling/screen-output b/tests/hydrothermal_cooling/screen-output index 4d7c225468d..ee2f388f561 100644 --- a/tests/hydrothermal_cooling/screen-output +++ b/tests/hydrothermal_cooling/screen-output @@ -1,24 +1,17 @@ --------------------------------------------------------------------------- -WARNING: No preset parameters were found for the device that Open MPI -detected: - - Local host: blogin2 - Device name: i40iw0 - Device vendor ID: 0x8086 - Device vendor part ID: 14290 - -Default device parameters will be used, which may result in lower -performance. You can edit any of the files specified by the -btl_openib_device_param_files MCA parameter to set values for your -device. - -NOTE: You can turn off this warning by setting the MCA parameter - btl_openib_warn_no_device_params_found to 0. --------------------------------------------------------------------------- ----------------------------------------------------------------------------- +-- This is ASPECT, the Advanced Solver for Problems in Earth's ConvecTion. +-- . version 2.6.0-pre (Hydrothermal_Conductivity, 73c9187) +-- . using deal.II 9.4.0 +-- . with 32 bit indices and vectorization level 1 (128 bits) +-- . using Trilinos 13.2.0 +-- . using p4est 2.3.2 +-- . running in DEBUG mode +-- . running with 1 MPI process ----------------------------------------------------------------------------- ----------------------------------------------------------------------------- +-- For information on how to cite ASPECT, see: +-- https://aspect.geodynamics.org/citing.html?ver=2.6.0-pre&sha=73c9187&src=code ----------------------------------------------------------------------------- Number of active cells: 256 (on 4 levels) Number of degrees of freedom: 5,822 (2,210+297+1,105+1,105+1,105) @@ -38,8 +31,6 @@ Number of mesh deformation degrees of freedom: 594 Solving Stokes system... 0+13 iterations. Relative nonlinear residual (Stokes system) after nonlinear iteration 2: 15.086 -[blogin2:142522] 1 more process has sent help message help-mpi-btl-openib.txt / no device params found -[blogin2:142522] Set MCA parameter "orte_base_help_aggregate" to 0 to see all help / error messages Rebuilding Stokes preconditioner... Solving Stokes system... 0+9 iterations. Relative nonlinear residual (Stokes system) after nonlinear iteration 3: 0.475126 @@ -71,8 +62,30 @@ Termination requested by criterion: end time +----------------------------------------------+------------+------------+ +| Total wallclock time elapsed since start | 7.5s | | +| | | | +| Section | no. calls | wall time | % of total | +----------------------------------+-----------+------------+------------+ +| Assemble Stokes system | 7 | 2.64s | 35% | +| Assemble composition system | 2 | 0.838s | 11% | +| Assemble temperature system | 1 | 0.466s | 6.2% | +| Build Stokes preconditioner | 7 | 1.11s | 15% | +| Build composition preconditioner | 2 | 0.00381s | 0% | +| Build temperature preconditioner | 1 | 0.00278s | 0% | +| Initialization | 1 | 0.646s | 8.6% | +| Mesh deformation | 1 | 0.121s | 1.6% | +| Mesh deformation initialize | 1 | 0.0855s | 1.1% | +| Postprocessing | 1 | 0.356s | 4.7% | +| Setup dof systems | 1 | 0.149s | 2% | +| Setup initial conditions | 1 | 0.429s | 5.7% | +| Setup matrices | 1 | 0.225s | 3% | +| Solve Stokes system | 7 | 0.233s | 3.1% | +| Solve composition system | 2 | 0.00221s | 0% | +| Solve temperature system | 1 | 0.00203s | 0% | +----------------------------------+-----------+------------+------------+ +-- Total wallclock time elapsed including restarts: 7s ----------------------------------------------------------------------------- ------------------------------------------------------------------------------ +-- For information on how to cite ASPECT, see: +-- https://aspect.geodynamics.org/citing.html?ver=2.6.0-pre&sha=73c9187&src=code +---------------------------------------------------------------------------- diff --git a/tests/hydrothermal_cooling/solution/solution-00000.0000.gnuplot b/tests/hydrothermal_cooling/solution/solution-00000.0000.gnuplot new file mode 100644 index 00000000000..d5d434f36e0 --- /dev/null +++ b/tests/hydrothermal_cooling/solution/solution-00000.0000.gnuplot @@ -0,0 +1,683 @@ +# This file was generated by the deal.II library. +# Date = 2023/9/28 +# Time = 13:34:52 +# +# For a description of the GNUPLOT format see the GNUPLOT manual. +# +#

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GNUPLOT manual. +# +#

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2.72919e-21 +80000 20000 0 1.12409e-14 -93568.6 273 1 0 2801.12 1e+25 7.28539 2.72919e-21 + + From 9aef9a4048b42da426801c2896c69c37d89cccdb Mon Sep 17 00:00:00 2001 From: bbxriboe Date: Thu, 28 Sep 2023 13:59:00 +0200 Subject: [PATCH 28/44] New output files --- tests/hydrothermal_cooling/log.txt | 91 ------------------------------ 1 file changed, 91 deletions(-) delete mode 100644 tests/hydrothermal_cooling/log.txt diff --git a/tests/hydrothermal_cooling/log.txt b/tests/hydrothermal_cooling/log.txt deleted file mode 100644 index ee2f388f561..00000000000 --- a/tests/hydrothermal_cooling/log.txt +++ /dev/null @@ -1,91 +0,0 @@ ------------------------------------------------------------------------------ --- This is ASPECT, the Advanced Solver for Problems in Earth's ConvecTion. --- . version 2.6.0-pre (Hydrothermal_Conductivity, 73c9187) --- . using deal.II 9.4.0 --- . with 32 bit indices and vectorization level 1 (128 bits) --- . using Trilinos 13.2.0 --- . using p4est 2.3.2 --- . running in DEBUG mode --- . running with 1 MPI process ------------------------------------------------------------------------------ - ------------------------------------------------------------------------------ --- For information on how to cite ASPECT, see: --- https://aspect.geodynamics.org/citing.html?ver=2.6.0-pre&sha=73c9187&src=code ------------------------------------------------------------------------------ -Number of active cells: 256 (on 4 levels) -Number of degrees of freedom: 5,822 (2,210+297+1,105+1,105+1,105) - -Number of mesh deformation degrees of freedom: 594 - Solving mesh displacement system... 0 iterations. -*** Timestep 0: t=0 years, dt=0 years - Solving mesh displacement system... 0 iterations. - Solving temperature system... 0 iterations. - Solving upper system ... 0 iterations. - Solving weak_seed system ... 0 iterations. - Rebuilding Stokes preconditioner... - Solving Stokes system... 0+9 iterations. - Relative nonlinear residual (Stokes system) after nonlinear iteration 1: 1 - - Rebuilding Stokes preconditioner... - Solving Stokes system... 0+13 iterations. - Relative nonlinear residual (Stokes system) after nonlinear iteration 2: 15.086 - - Rebuilding Stokes preconditioner... - Solving Stokes system... 0+9 iterations. - Relative nonlinear residual (Stokes system) after nonlinear iteration 3: 0.475126 - - Rebuilding Stokes preconditioner... - Solving Stokes system... 0+7 iterations. - Relative nonlinear residual (Stokes system) after nonlinear iteration 4: 0.19581 - - Rebuilding Stokes preconditioner... - Solving Stokes system... 0+5 iterations. - Relative nonlinear residual (Stokes system) after nonlinear iteration 5: 0.082379 - - Rebuilding Stokes preconditioner... - Solving Stokes system... 0+5 iterations. - Relative nonlinear residual (Stokes system) after nonlinear iteration 6: 0.0288624 - - Rebuilding Stokes preconditioner... - Solving Stokes system... 0+0 iterations. - Relative nonlinear residual (Stokes system) after nonlinear iteration 7: 2.76725e-06 - - - Postprocessing: - RMS, max velocity: 1.76e-10 m/year, 5.18e-10 m/year - Temperature min/avg/max: 273 K, 948.9 K, 1200 K - Heating rate (average/total): 0 W/kg, 0 W - Writing graphical output: output-hydrothermal_cooling/solution/solution-00000 - -Termination requested by criterion: end time - - -+----------------------------------------------+------------+------------+ -| Total wallclock time elapsed since start | 7.5s | | -| | | | -| Section | no. calls | wall time | % of total | -+----------------------------------+-----------+------------+------------+ -| Assemble Stokes system | 7 | 2.64s | 35% | -| Assemble composition system | 2 | 0.838s | 11% | -| Assemble temperature system | 1 | 0.466s | 6.2% | -| Build Stokes preconditioner | 7 | 1.11s | 15% | -| Build composition preconditioner | 2 | 0.00381s | 0% | -| Build temperature preconditioner | 1 | 0.00278s | 0% | -| Initialization | 1 | 0.646s | 8.6% | -| Mesh deformation | 1 | 0.121s | 1.6% | -| Mesh deformation initialize | 1 | 0.0855s | 1.1% | -| Postprocessing | 1 | 0.356s | 4.7% | -| Setup dof systems | 1 | 0.149s | 2% | -| Setup initial conditions | 1 | 0.429s | 5.7% | -| Setup matrices | 1 | 0.225s | 3% | -| Solve Stokes system | 7 | 0.233s | 3.1% | -| Solve composition system | 2 | 0.00221s | 0% | -| Solve temperature system | 1 | 0.00203s | 0% | -+----------------------------------+-----------+------------+------------+ - --- Total wallclock time elapsed including restarts: 7s ------------------------------------------------------------------------------ --- For information on how to cite ASPECT, see: --- https://aspect.geodynamics.org/citing.html?ver=2.6.0-pre&sha=73c9187&src=code ----------------------------------------------------------------------------- From 4a0cda5549c1dabc0de7a46124713ade0b0ac363 Mon Sep 17 00:00:00 2001 From: bbxriboe Date: Thu, 28 Sep 2023 14:03:11 +0200 Subject: [PATCH 29/44] New output files --- tests/hydrothermal_cooling/screen-output | 2 +- .../solution-00000.0000.gnuplot | 3335 +++++++++++++++++ 2 files changed, 3336 insertions(+), 1 deletion(-) create mode 100644 tests/hydrothermal_cooling/solution-00000.0000.gnuplot diff --git a/tests/hydrothermal_cooling/screen-output b/tests/hydrothermal_cooling/screen-output index ee2f388f561..79592c096b4 100644 --- a/tests/hydrothermal_cooling/screen-output +++ b/tests/hydrothermal_cooling/screen-output @@ -88,4 +88,4 @@ Termination requested by criterion: end time ----------------------------------------------------------------------------- -- For information on how to cite ASPECT, see: -- https://aspect.geodynamics.org/citing.html?ver=2.6.0-pre&sha=73c9187&src=code ----------------------------------------------------------------------------- +----------------------------------------------------------------------------- diff --git a/tests/hydrothermal_cooling/solution-00000.0000.gnuplot b/tests/hydrothermal_cooling/solution-00000.0000.gnuplot new file mode 100644 index 00000000000..ebcb1a67ce9 --- /dev/null +++ b/tests/hydrothermal_cooling/solution-00000.0000.gnuplot @@ -0,0 +1,3335 @@ +# This file was generated by the deal.II library. +# Date = 2023/9/28 +# Time = 12:49:34 +# +# For a description of the GNUPLOT format see the GNUPLOT manual. +# +#

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3.62182e-16 7.38208e-10 1.3674e+08 273 1 0 2801.12 1e+25 3.02501 7.55226e-21 + + +77500 12500 7.3499e-16 -4.53421e-10 2.14411e+08 1200 0 0 3240.14 9.18024e+24 3.66975 7.55226e-21 +78750 12500 3.86512e-16 -4.53422e-10 2.14411e+08 1200 0 0 3240.14 9.18024e+24 3.66975 7.55226e-21 +80000 12500 0 -4.53423e-10 2.14411e+08 1200 0 0 3240.14 9.18024e+24 3.66975 7.55226e-21 + +77500 13750 4.13393e-17 -7.12073e-11 1.75575e+08 1200 0 0 3240.14 8.9983e+24 3.93471 7.55226e-21 +78750 13750 -8.32522e-16 -7.12075e-11 1.75575e+08 1200 0 0 3240.14 8.9983e+24 3.93471 7.55226e-21 +80000 13750 0 -7.12083e-11 1.75575e+08 1200 0 0 3240.14 8.9983e+24 3.93471 7.55226e-21 + +77500 15000 3.62182e-16 7.38208e-10 1.3674e+08 273 1 0 2801.12 1e+25 3.02501 7.55226e-21 +78750 15000 -1.09731e-15 7.38209e-10 1.3674e+08 273 1 0 2801.12 1e+25 3.02501 7.55226e-21 +80000 15000 0 7.38209e-10 1.3674e+08 273 1 0 2801.12 1e+25 3.02501 7.55226e-21 + + +70000 15000 1.36635e-14 7.38206e-10 1.3674e+08 273 1 0 2801.12 1e+25 3.02501 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2801.12 1e+25 5.64542 2.72919e-21 +72500 18750 1.37374e-14 4.61094e-11 3.43955e+07 273 1 0 2801.12 1e+25 5.64542 2.72919e-21 + +70000 20000 3.82186e-14 -2.9046e-14 -93578.1 273 1 0 2801.12 1e+25 7.28539 2.72919e-21 +71250 20000 2.54364e-14 -3.74986e-14 -93578.4 273 1 0 2801.12 1e+25 7.28539 2.72919e-21 +72500 20000 1.20766e-14 -3.87757e-14 -93578.7 273 1 0 2801.12 1e+25 7.28539 2.72919e-21 + + +72500 17500 1.3162e-14 -1.84576e-10 6.88846e+07 273 1 0 2801.12 1e+25 4.47032 2.72919e-21 +73750 17500 7.91773e-15 -1.84575e-10 6.88846e+07 273 1 0 2801.12 1e+25 4.47032 2.72919e-21 +75000 17500 3.1498e-15 -1.84573e-10 6.88846e+07 273 1 0 2801.12 1e+25 4.47032 2.72919e-21 + +72500 18750 1.37374e-14 4.61094e-11 3.43955e+07 273 1 0 2801.12 1e+25 5.64542 2.72919e-21 +73750 18750 6.62799e-15 4.61117e-11 3.43955e+07 273 1 0 2801.12 1e+25 5.64542 2.72919e-21 +75000 18750 2.33457e-15 4.6115e-11 3.43955e+07 273 1 0 2801.12 1e+25 5.64542 2.72919e-21 + +72500 20000 1.20766e-14 -3.87757e-14 -93578.7 273 1 0 2801.12 1e+25 7.28539 2.72919e-21 +73750 20000 1.8426e-15 -3.29098e-14 -93575.4 273 1 0 2801.12 1e+25 7.28539 2.72919e-21 +75000 20000 -6.01128e-16 -2.56751e-14 -93572.2 273 1 0 2801.12 1e+25 7.28539 2.72919e-21 + + +75000 15000 4.76491e-15 7.38205e-10 1.3674e+08 273 1 0 2801.12 1e+25 3.02501 8.96737e-21 +76250 15000 2.31493e-15 7.38206e-10 1.3674e+08 273 1 0 2801.12 1e+25 3.02501 8.96737e-21 +77500 15000 3.62182e-16 7.38208e-10 1.3674e+08 273 1 0 2801.12 1e+25 3.02501 8.96737e-21 + +75000 16250 4.37613e-15 -1.38429e-10 1.02812e+08 273 1 0 2801.12 1e+25 3.62833 8.96737e-21 +76250 16250 1.32572e-15 -1.38428e-10 1.02812e+08 273 1 0 2801.12 1e+25 3.62833 8.96737e-21 +77500 16250 -9.46725e-17 -1.38426e-10 1.02812e+08 273 1 0 2801.12 1e+25 3.62833 8.96737e-21 + +75000 17500 3.1498e-15 -1.84573e-10 6.88846e+07 273 1 0 2801.12 1e+25 4.47032 8.96737e-21 +76250 17500 4.76885e-16 -1.8457e-10 6.88846e+07 273 1 0 2801.12 1e+25 4.47032 8.96737e-21 +77500 17500 -1.41528e-15 -1.84565e-10 6.88846e+07 273 1 0 2801.12 1e+25 4.47032 8.96737e-21 + + +77500 15000 3.62182e-16 7.38208e-10 1.3674e+08 273 1 0 2801.12 1e+25 3.02501 8.96737e-21 +78750 15000 -1.09731e-15 7.38209e-10 1.3674e+08 273 1 0 2801.12 1e+25 3.02501 8.96737e-21 +80000 15000 0 7.38209e-10 1.3674e+08 273 1 0 2801.12 1e+25 3.02501 8.96737e-21 + +77500 16250 -9.46725e-17 -1.38426e-10 1.02812e+08 273 1 0 2801.12 1e+25 3.62833 8.96737e-21 +78750 16250 -9.26011e-16 -1.38423e-10 1.02812e+08 273 1 0 2801.12 1e+25 3.62833 8.96737e-21 +80000 16250 0 -1.38423e-10 1.02812e+08 273 1 0 2801.12 1e+25 3.62833 8.96737e-21 + +77500 17500 -1.41528e-15 -1.84565e-10 6.88846e+07 273 1 0 2801.12 1e+25 4.47032 8.96737e-21 +78750 17500 -2.14936e-15 -1.84562e-10 6.88846e+07 273 1 0 2801.12 1e+25 4.47032 8.96737e-21 +80000 17500 0 -1.84562e-10 6.88846e+07 273 1 0 2801.12 1e+25 4.47032 8.96737e-21 + + +75000 17500 3.1498e-15 -1.84573e-10 6.88846e+07 273 1 0 2801.12 1e+25 4.47032 2.72919e-21 +76250 17500 4.76885e-16 -1.8457e-10 6.88846e+07 273 1 0 2801.12 1e+25 4.47032 2.72919e-21 +77500 17500 -1.41528e-15 -1.84565e-10 6.88846e+07 273 1 0 2801.12 1e+25 4.47032 2.72919e-21 + +75000 18750 2.33457e-15 4.6115e-11 3.43955e+07 273 1 0 2801.12 1e+25 5.64542 2.72919e-21 +76250 18750 -8.27231e-16 4.61182e-11 3.43955e+07 273 1 0 2801.12 1e+25 5.64542 2.72919e-21 +77500 18750 -4.88418e-15 4.61239e-11 3.43955e+07 273 1 0 2801.12 1e+25 5.64542 2.72919e-21 + +75000 20000 -6.01128e-16 -2.56751e-14 -93572.2 273 1 0 2801.12 1e+25 7.28539 2.72919e-21 +76250 20000 -2.33161e-15 -2.62063e-14 -93575.8 273 1 0 2801.12 1e+25 7.28539 2.72919e-21 +77500 20000 -1.20158e-14 -2.41837e-14 -93579.3 273 1 0 2801.12 1e+25 7.28539 2.72919e-21 + + +77500 17500 -1.41528e-15 -1.84565e-10 6.88846e+07 273 1 0 2801.12 1e+25 4.47032 2.7292e-21 +78750 17500 -2.14936e-15 -1.84562e-10 6.88846e+07 273 1 0 2801.12 1e+25 4.47032 2.7292e-21 +80000 17500 0 -1.84562e-10 6.88846e+07 273 1 0 2801.12 1e+25 4.47032 2.7292e-21 + +77500 18750 -4.88418e-15 4.61239e-11 3.43955e+07 273 1 0 2801.12 1e+25 5.64542 2.7292e-21 +78750 18750 -5.81611e-15 4.61306e-11 3.43955e+07 273 1 0 2801.12 1e+25 5.64542 2.7292e-21 +80000 18750 0 4.61342e-11 3.43955e+07 273 1 0 2801.12 1e+25 5.64542 2.7292e-21 + +77500 20000 -1.20158e-14 -2.41837e-14 -93579.3 273 1 0 2801.12 1e+25 7.28539 2.7292e-21 +78750 20000 -1.62188e-14 -5.60985e-15 -93571.1 273 1 0 2801.12 1e+25 7.28539 2.7292e-21 +80000 20000 0 8.24803e-15 -93562.8 273 1 0 2801.12 1e+25 7.28539 2.7292e-21 + + From ae7ce82f4a0f03e7dfacdb52412f478e46e3d44e Mon Sep 17 00:00:00 2001 From: bbxriboe Date: Mon, 9 Oct 2023 12:25:35 +0200 Subject: [PATCH 30/44] Added different smoothing factors for depth and temperature --- include/aspect/material_model/visco_plastic.h | 10 ++++++++- source/material_model/visco_plastic.cc | 21 +++++++++++++------ 2 files changed, 24 insertions(+), 7 deletions(-) diff --git a/include/aspect/material_model/visco_plastic.h b/include/aspect/material_model/visco_plastic.h index 4a7208f31ff..9637bad0007 100644 --- a/include/aspect/material_model/visco_plastic.h +++ b/include/aspect/material_model/visco_plastic.h @@ -280,8 +280,16 @@ namespace aspect /** * Smoothing factor used for the computation of the approximation of cooling. + * Controls the influence of the temperature on the resultig thermal conductivity. */ - double smoothing_factor; + double smoothing_factor_temperature; + + + /** + * Smoothing factor used for the computation of the approximation of cooling. + * Controls the influence of the depth on the resulting thermal conductivity. + */ + double smoothing_factor_depth; /** * Number of phase transitions for each chemical composition (including the background field). diff --git a/source/material_model/visco_plastic.cc b/source/material_model/visco_plastic.cc index e1a786726d8..1c80886491b 100644 --- a/source/material_model/visco_plastic.cc +++ b/source/material_model/visco_plastic.cc @@ -223,9 +223,9 @@ namespace aspect if (use_hydrothermal_cooling_approximation == true) { out.thermal_conductivities[i] = out.thermal_conductivities[i] + out.thermal_conductivities[i] * - (Nusselt_number - 1.) * std::exp(smoothing_factor * + (Nusselt_number - 1.) * std::exp(smoothing_factor_temperature * (1. - in.temperature[i] / cutoff_maximum_temperature)) * - std::exp(smoothing_factor * (1. - this->get_geometry_model().depth(in.position[i]) / cutoff_maximum_depth)); + std::exp(smoothing_factor_depth * (1. - this->get_geometry_model().depth(in.position[i]) / cutoff_maximum_depth)); } @@ -398,10 +398,17 @@ namespace aspect "across the boundary of the crust. " "Increasing the Nusselt number will mimic the effect of faster circulating fluids and " "thus increase the thermal conductivity"); - prm.declare_entry ("Smoothing factor for hydrothermal cooling approximation", "0.75", + prm.declare_entry ("Temperature smoothing factor for hydrothermal cooling approximation", "0.75", Patterns::Double (0.), - "Smoothing factor that controls the influence of hydrothermal fluid circulation " - "on the hydrothermal cooling. "); + "Smoothing factor that controls the influence of the temperature " + "on the hydrothermal cooling. If it is set to zero, the temperature is not considered " + "in the calculation of the thermal conductivity"); + prm.declare_entry ("Depth smoothing factor for hydrothermal cooling approximation", "0.75", + Patterns::Double (0.), + "Smoothing factor that controls the influence of the depth " + "on the hydrothermal cooling. If it is set to zero, the temperature is not considered " + "in the calculation of the thermal conductivity"); + } prm.leave_subsection(); } @@ -475,7 +482,9 @@ namespace aspect cutoff_maximum_temperature = prm.get_double ("Cutoff maximum temperature for hydrothermal cooling approximation"); cutoff_maximum_depth = prm.get_double ("Cutoff maximum depth for hydrothermal cooling approximation"); Nusselt_number = prm.get_double ("Nusselt number for hydrothermal cooling approximation"); - smoothing_factor = prm.get_double ("Smoothing factor for hydrothermal cooling approximation"); + smoothing_factor_temperature = prm.get_double ("Temperature smoothing factor for hydrothermal cooling approximation"); + smoothing_factor_depth = prm.get_double ("Depth smoothing factor for hydrothermal cooling approximation") +; rheology = std::make_unique>(); rheology->initialize_simulator (this->get_simulator()); From 86826af4728190e887f7cb044daae4b6404e9e54 Mon Sep 17 00:00:00 2001 From: bbxriboe Date: Wed, 11 Oct 2023 17:48:11 +0200 Subject: [PATCH 31/44] Updated --- include/aspect/material_model/visco_plastic.h | 9 +++++---- source/material_model/visco_plastic.cc | 10 +++++----- tests/hydrothermal_cooling.prm | 14 +++++++------- 3 files changed, 17 insertions(+), 16 deletions(-) diff --git a/include/aspect/material_model/visco_plastic.h b/include/aspect/material_model/visco_plastic.h index 9637bad0007..d913a1a13e5 100644 --- a/include/aspect/material_model/visco_plastic.h +++ b/include/aspect/material_model/visco_plastic.h @@ -258,8 +258,9 @@ namespace aspect /** * Whether thermal conductivity should be increased as an approximation * of cooling through hydrothermal fluid circulation (if true) or not (default). - * The approximation of cooling follows Eq. 8 of Gregg et al. - * (Melt generation, crystallization, and extraction beneath segmented oceanic transform faults). + * The approximation of cooling follows Eq. 8 of Gregg et al. (2009) + * ('Melt generation, crystallization, and extraction beneath segmented oceanic transform faults' in + * Journal of Geophysical Research: Solid Earth, 114, B11102). */ bool use_hydrothermal_cooling_approximation; @@ -280,14 +281,14 @@ namespace aspect /** * Smoothing factor used for the computation of the approximation of cooling. - * Controls the influence of the temperature on the resultig thermal conductivity. + * This factor controls the influence of the temperature on the resulting thermal conductivity. */ double smoothing_factor_temperature; /** * Smoothing factor used for the computation of the approximation of cooling. - * Controls the influence of the depth on the resulting thermal conductivity. + * This factor controls the influence of the depth on the resulting thermal conductivity. */ double smoothing_factor_depth; diff --git a/source/material_model/visco_plastic.cc b/source/material_model/visco_plastic.cc index 1c80886491b..f82d9d428d2 100644 --- a/source/material_model/visco_plastic.cc +++ b/source/material_model/visco_plastic.cc @@ -382,8 +382,8 @@ namespace aspect "Units: \\si{\\watt\\per\\meter\\per\\kelvin}."); prm.declare_entry ("Approximate hydrothermal cooling through thermal conductivity", "false", Patterns::Bool (), - "Whether hydrothermal fluid circulation is considered in the calculation of the " - "conductivity or not."); + "Whether the thermal conductivity should be adapted to mimic the cooling exerted " + "by hydrothermal fluid circulation in the shallow subsurface."); prm.declare_entry ("Cutoff maximum temperature for hydrothermal cooling approximation", "873.15", Patterns::Double (0.), "Temperature up to which the hydrothermal cooling approximation is applied. " @@ -397,17 +397,17 @@ namespace aspect "Nusselt number, that is the ratio of convective to conductive heat transfer " "across the boundary of the crust. " "Increasing the Nusselt number will mimic the effect of faster circulating fluids and " - "thus increase the thermal conductivity"); + "thus increase the thermal conductivity."); prm.declare_entry ("Temperature smoothing factor for hydrothermal cooling approximation", "0.75", Patterns::Double (0.), "Smoothing factor that controls the influence of the temperature " "on the hydrothermal cooling. If it is set to zero, the temperature is not considered " - "in the calculation of the thermal conductivity"); + "in the calculation of the thermal conductivity."); prm.declare_entry ("Depth smoothing factor for hydrothermal cooling approximation", "0.75", Patterns::Double (0.), "Smoothing factor that controls the influence of the depth " "on the hydrothermal cooling. If it is set to zero, the temperature is not considered " - "in the calculation of the thermal conductivity"); + "in the calculation of the thermal conductivity."); } prm.leave_subsection(); diff --git a/tests/hydrothermal_cooling.prm b/tests/hydrothermal_cooling.prm index 9ba2b804392..a1a82afd54f 100644 --- a/tests/hydrothermal_cooling.prm +++ b/tests/hydrothermal_cooling.prm @@ -1,5 +1,5 @@ ## This is a test for models that use the viscoplastic material model -## and which use the approximation of hydrothermal cooling +## including the spproximation of hydrothermal cooling through an incresed thermal conductivity. #### Global parameters @@ -11,8 +11,7 @@ set Use years in output instead of seconds = true set Nonlinear solver scheme = iterated Stokes set Nonlinear solver tolerance = 1e-4 set Max nonlinear iterations = 20 -set CFL number = 0.5 #Courant-Friedrichs-Lewy -set Output directory = hydrothermal_cooling +set CFL number = 0.5 set Pressure normalization = no @@ -37,7 +36,7 @@ subsection Geometry model end end -# Mesh refinement specifications (no mesh refinement) +# Mesh refinement specifications (no adaptive mesh refinement) subsection Mesh refinement set Initial global refinement = 3 end @@ -108,7 +107,7 @@ subsection Initial temperature model subsection Function set Variable names = x,y set Function constants = h=20.e3,ts=273, tbot=1200 - set Function expression = if((h-y)<=6.e3, ts, tbot) + set Function expression = ts+(h-y)/h*(tbot-ts) end end @@ -138,8 +137,9 @@ subsection Material model #Hydrothermal conductivity set Approximate hydrothermal cooling through thermal conductivity = true - set Nusselt number for hydrothermal cooling approximation = 2 #has to be >=1 - set Smoothing factor for hydrothermal cooling approximation = .8 + set Nusselt number for hydrothermal cooling approximation = 2 #should be >=1 + set Temperature smoothing factor for hydrothermal cooling approximation = .8 + set Depth smoothing factor for hydrothermal cooling approximation = .8 set Cutoff maximum temperature for hydrothermal cooling approximation = 873.15 set Cutoff maximum depth for hydrothermal cooling approximation = 3.e3 From 304ba49922697dcf75b870f41b55b9a97575f204 Mon Sep 17 00:00:00 2001 From: DerekJohn Neuharth Date: Fri, 24 Feb 2023 16:25:32 +0100 Subject: [PATCH 32/44] Add functions for depth including mesh deformation. Remove comments and additional lines Add asserts --- include/aspect/geometry_model/box.h | 19 +++ include/aspect/geometry_model/interface.h | 14 ++ .../depth_including_mesh_deformation.h | 58 +++++++ source/geometry_model/box.cc | 159 ++++++++++++++++++ source/geometry_model/interface.cc | 16 ++ source/postprocess/visualization/depth.cc | 2 +- .../depth_including_mesh_deformation.cc | 82 +++++++++ source/simulator/core.cc | 8 + 8 files changed, 357 insertions(+), 1 deletion(-) create mode 100644 include/aspect/postprocess/visualization/depth_including_mesh_deformation.h create mode 100644 source/postprocess/visualization/depth_including_mesh_deformation.cc diff --git a/include/aspect/geometry_model/box.h b/include/aspect/geometry_model/box.h index f086fea958e..277cfc6108f 100644 --- a/include/aspect/geometry_model/box.h +++ b/include/aspect/geometry_model/box.h @@ -64,6 +64,11 @@ namespace aspect */ void create_coarse_mesh (parallel::distributed::Triangulation &coarse_grid) const override; + /** + * Function to store data on current surface topography. + */ + void update () override; + /** * Return a point that denotes the size of the box in each dimension * of the domain. @@ -105,6 +110,15 @@ namespace aspect */ double depth(const Point &position) const override; + /** + * Function that uses the stored surface topography to calculate the depth + * including changes from mesh deformation. This will linearly interpolate + * between the two nearest surface points to get a depth for the given + * position. + */ + double depth_including_mesh_deformation(const Point &position) const override; + + /** * Return the height of the given position relative to * the initial box height. @@ -239,6 +253,11 @@ namespace aspect * A pointer to the initial topography model. */ InitialTopographyModel::Interface *topo_model; + + /** + * Function to interpolate surface topography. + */ + Functions::InterpolatedTensorProductGridData *surface_function; }; } } diff --git a/include/aspect/geometry_model/interface.h b/include/aspect/geometry_model/interface.h index 42e62bfdbbf..cee71a18dde 100644 --- a/include/aspect/geometry_model/interface.h +++ b/include/aspect/geometry_model/interface.h @@ -78,6 +78,11 @@ namespace aspect virtual void create_coarse_mesh (parallel::distributed::Triangulation &coarse_grid) const = 0; + /** + * Find the current values of the surface topograhy. + */ + virtual void update (); + /** * Return the typical length scale one would expect of features in * this geometry, assuming realistic parameters. @@ -132,6 +137,15 @@ namespace aspect virtual double depth(const Point &position) const = 0; + /** + * Function that uses the stored surface topography to calculate the depth + * including changes from mesh deformation. This will linearly interpolate + * between the two nearest surface points to get a depth for the given + * position. + */ + virtual + double depth_including_mesh_deformation(const Point &position) const; + /** * Return the height of the given position relative to the reference * surface of the model. Positive returned value means that the point diff --git a/include/aspect/postprocess/visualization/depth_including_mesh_deformation.h b/include/aspect/postprocess/visualization/depth_including_mesh_deformation.h new file mode 100644 index 00000000000..a385396a065 --- /dev/null +++ b/include/aspect/postprocess/visualization/depth_including_mesh_deformation.h @@ -0,0 +1,58 @@ +/* + Copyright (C) 2011 - 2021 by the authors of the ASPECT code. + + This file is part of ASPECT. + + ASPECT is free software; you can redistribute it and/or modify + it under the terms of the GNU General Public License as published by + the Free Software Foundation; either version 2, or (at your option) + any later version. + + ASPECT is distributed in the hope that it will be useful, + but WITHOUT ANY WARRANTY; without even the implied warranty of + MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the + GNU General Public License for more details. + + You should have received a copy of the GNU General Public License + along with ASPECT; see the file LICENSE. If not see + . +*/ + + +#ifndef _aspect_postprocess_visualization_depth_including_mesh_deformation_h +#define _aspect_postprocess_visualization_depth_including_mesh_deformation_h + +#include +#include + +#include + + +namespace aspect +{ + namespace Postprocess + { + namespace VisualizationPostprocessors + { + /** + * A class derived from DataPostprocessor that outputs the depth + * according to the geometry model. + */ + template + class DepthIncMeshDef + : public DataPostprocessorScalar, + public SimulatorAccess, + public Interface + { + public: + DepthIncMeshDef (); + + void + evaluate_vector_field(const DataPostprocessorInputs::Vector &input_data, + std::vector> &computed_quantities) const override; + }; + } + } +} + +#endif diff --git a/source/geometry_model/box.cc b/source/geometry_model/box.cc index ddb2e81f848..56f1ae19016 100644 --- a/source/geometry_model/box.cc +++ b/source/geometry_model/box.cc @@ -27,6 +27,7 @@ #include #include #include +#include namespace aspect @@ -39,6 +40,7 @@ namespace aspect { // Get pointer to initial topography model topo_model = const_cast*>(&this->get_initial_topography_model()); + // Check that initial topography is required. // If so, connect the initial topography function // to the right signals: It should be applied after @@ -257,6 +259,163 @@ namespace aspect return std::min (std::max (d, 0.), maximal_depth()); } + template + void + Box:: + update () + { + AssertThrow(Plugins::plugin_type_matches>(this->get_geometry_model()), + ExcMessage("The geometry update function currently only works with a 2D box geometry model.")); + + AssertThrow(dim==2, + ExcMessage("The geometry update function currently only works with a 2D box geometry model.")); + + this->get_pcout() << " Updating surface values... " <get_computing_timer(), "Geometry model surface update"); + + // loop over all of the surface cells and save the elevation to a stored value. + // This needs to be sent to 1 processor, sorted, and broadcast so that every processor knows the entire surface. + // (Does bcast create memory of the entire variable on every processor or only a pointer to the one stored on 0?) + std::vector> local_surface_height; + Table data_table; + const types::boundary_id relevant_boundary = this->get_geometry_model().translate_symbolic_boundary_name_to_id ("top"); + const QTrapezoid face_corners; + FEFaceValues fe_face_values(this->get_mapping(), + this->get_fe(), + face_corners, + update_quadrature_points); + + // Loop over all corners at the surface and save their position. + // TODO: Update this to work in 3D. Spherical? + for (const auto &cell : this->get_dof_handler().active_cell_iterators()) + if (cell->is_locally_owned() && cell->at_boundary()) + for (const unsigned int face_no : cell->face_indices()) + if (cell->face(face_no)->at_boundary()) + { + if ( cell->face(face_no)->boundary_id() != relevant_boundary) + continue; + + fe_face_values.reinit(cell, face_no); + + for (unsigned int corner = 0; corner < face_corners.size(); ++corner) + { + const Point vertex = fe_face_values.quadrature_point(corner); + + // We can't push back a point so we convert it into a vector. + // This is needed later to keep the vertexes together when sorting. + std::vector vertex_row; + for(unsigned int i=0; i> temp_surface; + if (Utilities::MPI::this_mpi_process(this->get_mpi_communicator()) == 0) + { + // Save the surface stored on processor 0 + for (unsigned int i=0; iget_mpi_communicator()); ++p) + { + // First, find out the size of the array a process wants to send. + MPI_Status status; + int incoming_size = 0; + MPI_Recv(&incoming_size, 1, MPI_INT, p, 42, this->get_mpi_communicator(), &status); + + std::vector> nonlocal_surface_height(incoming_size, std::vector(dim)); + + for (unsigned int i=0; iget_mpi_communicator(), &status); + + for (unsigned int i=0; i&, const std::vector&) = [](const std::vector& row1, const std::vector& row2) { + return row1 == row2; + }; + + // Remove non-unique rows from the sorted 2D vector + auto last = std::unique(temp_surface.begin(), temp_surface.end(), compareRows); + temp_surface.erase(last, temp_surface.end()); + + // First, bcast the size so that other processors can resize the relevant vector + // to store the incoming data. + int vector_size = temp_surface.size(); + + TableIndices size_idx; + for (unsigned int d=0; d::reinit(size_idx); + TableIndices idx; + + if(dim==2) + { + for (unsigned int x=0; x<(data_table.size()[0]); ++x) + { + idx[0] = x; + data_table(idx) = temp_surface[x][1]; + } + } + + Utilities::MPI::broadcast(this->get_mpi_communicator(), temp_surface, 0); + } + else + { + // Send local surface data. + int vector_size = local_surface_height.size(); + MPI_Send(&vector_size, 1, MPI_INT, 0, 42, this->get_mpi_communicator()); + + for (unsigned int i=0; iget_mpi_communicator()); + + // Do I need to resize the temp_surface variable when using this broadcast? + temp_surface = Utilities::MPI::broadcast(this->get_mpi_communicator(), temp_surface, 0); + } + + data_table.replicate_across_communicator (this->get_mpi_communicator(), 0); + + std::array, dim-1> coordinates; + for(unsigned int i=0; i (coordinates, data_table); + } + + template + double + Box::depth_including_mesh_deformation(const Point &position) const + { + + AssertThrow(Plugins::plugin_type_matches>(this->get_geometry_model()), + ExcMessage("Depth with mesh deformation currently only works with a 2D box geometry model.")); + + AssertThrow(dim==2, + ExcMessage("Depth with mesh deformation currently only works with a 2D box geometry model.")); + + // Convert the point to dim-1, as we aren't interested in the vertical component + // for the function. + Point p; + for (unsigned int d=0; dvalue(p) - position[dim-1]; + return std::max (depth_from_surface, 0.); + } + template double diff --git a/source/geometry_model/interface.cc b/source/geometry_model/interface.cc index 580aa055f13..04a6ba02ea9 100644 --- a/source/geometry_model/interface.cc +++ b/source/geometry_model/interface.cc @@ -36,6 +36,22 @@ namespace aspect {} + template + void + Interface::update () + {} + + + template + double + Interface::depth_including_mesh_deformation(const Point &) const + { + AssertThrow(false, + ExcMessage("The depth including mesh deformation function only works with a 2D box geometry model.")); + + return 0; + } + template std::map diff --git a/source/postprocess/visualization/depth.cc b/source/postprocess/visualization/depth.cc index 0451ac555d8..0af28f47c92 100644 --- a/source/postprocess/visualization/depth.cc +++ b/source/postprocess/visualization/depth.cc @@ -73,7 +73,7 @@ namespace aspect "depth", "A visualization output postprocessor that outputs " "the depth for all points inside the domain, as " - "determined by the geometry model." + "determined by the initial surface of the geometry model. " "\n\n" "Physical units: \\si{\\meter}.") } diff --git a/source/postprocess/visualization/depth_including_mesh_deformation.cc b/source/postprocess/visualization/depth_including_mesh_deformation.cc new file mode 100644 index 00000000000..5576cc7c919 --- /dev/null +++ b/source/postprocess/visualization/depth_including_mesh_deformation.cc @@ -0,0 +1,82 @@ +/* + Copyright (C) 2011 - 2022 by the authors of the ASPECT code. + + This file is part of ASPECT. + + ASPECT is free software; you can redistribute it and/or modify + it under the terms of the GNU General Public License as published by + the Free Software Foundation; either version 2, or (at your option) + any later version. + + ASPECT is distributed in the hope that it will be useful, + but WITHOUT ANY WARRANTY; without even the implied warranty of + MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the + GNU General Public License for more details. + + You should have received a copy of the GNU General Public License + along with ASPECT; see the file LICENSE. If not see + . +*/ + + +#include +#include + + + +namespace aspect +{ + namespace Postprocess + { + namespace VisualizationPostprocessors + { + template + DepthIncMeshDef:: + DepthIncMeshDef () + : + DataPostprocessorScalar ("depth", + update_quadrature_points), + Interface("m") + {} + + + + template + void + DepthIncMeshDef:: + evaluate_vector_field(const DataPostprocessorInputs::Vector &input_data, + std::vector> &computed_quantities) const + { + const unsigned int n_quadrature_points = input_data.solution_values.size(); + Assert (computed_quantities.size() == n_quadrature_points, ExcInternalError()); + Assert (computed_quantities[0].size() == 1, ExcInternalError()); + Assert (input_data.solution_values[0].size() == this->introspection().n_components, ExcInternalError()); + + for (unsigned int q=0; qget_geometry_model().depth_including_mesh_deformation (input_data.evaluation_points[q]); + } + } + } + } +} + + +// explicit instantiations +namespace aspect +{ + namespace Postprocess + { + namespace VisualizationPostprocessors + { + ASPECT_REGISTER_VISUALIZATION_POSTPROCESSOR(DepthIncMeshDef, + "depth including mesh deformation", + "A visualization output postprocessor that outputs " + "the depth for all points inside the domain, as " + "determined by the current model surface. This plugin " + "will include changes to the surface from mesh deformation." + "\n\n" + "Physical units: \\si{\\meter}.") + } + } +} diff --git a/source/simulator/core.cc b/source/simulator/core.cc index 56a0bf90046..e8167357c65 100644 --- a/source/simulator/core.cc +++ b/source/simulator/core.cc @@ -1839,6 +1839,14 @@ namespace aspect // calculate global volume after deforming mesh global_volume = GridTools::volume (triangulation, *mapping); signals.post_mesh_deformation(*this); + + // We update this after mesh deformation so the most recent surface is kept. + // TODO: This doesn't seem to cause issues if called from a non-box geometry + // using the empty default geometry update function, but it would be safer + // to only call it with a 2d box model. However, the general plugins_type_match + // used to check the geometry_model hits an error here. + if(dim == 2) + geometry_model->update(); } // Compute the reactions of compositional fields and temperature in case of operator splitting. From a8ca54a5f93f73a605cb6a90bc671012662f2a32 Mon Sep 17 00:00:00 2001 From: bbxriboe Date: Mon, 16 Oct 2023 17:10:38 +0200 Subject: [PATCH 33/44] removed 'cout's --- source/material_model/visco_plastic.cc | 68 +++++++++++++++++++------- 1 file changed, 50 insertions(+), 18 deletions(-) diff --git a/source/material_model/visco_plastic.cc b/source/material_model/visco_plastic.cc index f82d9d428d2..8deac45756a 100644 --- a/source/material_model/visco_plastic.cc +++ b/source/material_model/visco_plastic.cc @@ -219,15 +219,41 @@ namespace aspect // Adapt the thermal conductivity to approximate hydrothermal cooling, if this option was selected. // The depth that the geometry model returns is not the actual depth below the subsurface, // but the depth below the initial surface of the model domain. - // Therefore, it will not be correct if mesh defomation is used (e.g. free surface). + // Therefore, the depth needs to be adjusted in case the model uses mesh deformation. if (use_hydrothermal_cooling_approximation == true) - { - out.thermal_conductivities[i] = out.thermal_conductivities[i] + out.thermal_conductivities[i] * - (Nusselt_number - 1.) * std::exp(smoothing_factor_temperature * - (1. - in.temperature[i] / cutoff_maximum_temperature)) * - std::exp(smoothing_factor_depth * (1. - this->get_geometry_model().depth(in.position[i]) / cutoff_maximum_depth)); - } - + { + double depth = 0.; + double depth_with_respect_to_initial_surface = this->get_geometry_model().depth(in.position[i]); + bool use_depth_of_sea = false; + double depth_of_sea = 0.; + + if(this->simulator_is_past_initialization() && Plugins::plugin_type_matches>(this->get_geometry_model()) && dim == 2 && this->get_parameters().mesh_deformation_enabled) + { + AssertThrow(Plugins::plugin_type_matches>(this->get_initial_topography_model()), + ExcMessage("The usage of the hydrothermal cooling approximation together with mesh deformation is only possible if there is no initial topography")); + + depth = this->get_geometry_model().depth_including_mesh_deformation(in.position[i]); + use_depth_of_sea = true; + depth_of_sea = depth_with_respect_to_initial_surface - depth; + } + else + { + AssertThrow(!this->get_parameters().mesh_deformation_enabled, + ExcMessage("Using the hydrothermal cooling approximation together with mesh deformation only works for two dimensional box models.")); + + depth = depth_with_respect_to_initial_surface; + } + + //Hydrothermal fluid circulation only occurs where the surface is below sea level + if(depth_of_sea >= 0) + { + out.thermal_conductivities[i] = out.thermal_conductivities[i] + out.thermal_conductivities[i] * + (Nusselt_number - 1.) * std::exp(smoothing_factor_temperature * + (1. - in.temperature[i] / cutoff_maximum_temperature)) * + std::exp(smoothing_factor_depth * (1. - depth / cutoff_maximum_depth)) * + (use_depth_of_sea == true ? std::max(0, std::min(depth_of_sea, maximum_depth_of_sea)/maximum_depth_of_sea) : 1); + } + } out.compressibilities[i] = MaterialUtilities::average_value (volume_fractions, eos_outputs.compressibilities, MaterialUtilities::arithmetic); out.entropy_derivative_pressure[i] = MaterialUtilities::average_value (volume_fractions, eos_outputs.entropy_derivative_pressure, MaterialUtilities::arithmetic); @@ -367,7 +393,7 @@ namespace aspect Patterns::List(Patterns::Double (0.)), "List of thermal diffusivities, for background material and compositional fields, " "for a total of N+1 values, where N is the number of compositional fields. " - "If only one value is given, then all use the same value. " + "If only one value is given, then all use the same value. " "Units: \\si{\\meter\\squared\\per\\second}."); prm.declare_entry ("Define thermal conductivities","false", Patterns::Bool (), @@ -383,32 +409,38 @@ namespace aspect prm.declare_entry ("Approximate hydrothermal cooling through thermal conductivity", "false", Patterns::Bool (), "Whether the thermal conductivity should be adapted to mimic the cooling exerted " - "by hydrothermal fluid circulation in the shallow subsurface."); + "by hydrothermal fluid circulation in the shallow subsurface." + "If the model does not use mesh deformation, the lithosphere is assumed to be " + "submarine and the hydrothermal cooling approximation is applied everywhere. "); prm.declare_entry ("Cutoff maximum temperature for hydrothermal cooling approximation", "873.15", Patterns::Double (0.), "Temperature up to which the hydrothermal cooling approximation is applied. " "Units: \\si{\\kelvin}."); prm.declare_entry ("Cutoff maximum depth for hydrothermal cooling approximation", "6000.0", Patterns::Double (0.), - "Depth up to which the hydrothermal cooling approximation is applied. " + "Depth below the surface up to which the hydrothermal cooling approximation is applied. " "Units: \\si{\\m}."); prm.declare_entry ("Nusselt number for hydrothermal cooling approximation", "2.0", Patterns::Double (1.), "Nusselt number, that is the ratio of convective to conductive heat transfer " "across the boundary of the crust. " "Increasing the Nusselt number will mimic the effect of faster circulating fluids and " - "thus increase the thermal conductivity."); + "thus increase the thermal conductivity. "); prm.declare_entry ("Temperature smoothing factor for hydrothermal cooling approximation", "0.75", Patterns::Double (0.), "Smoothing factor that controls the influence of the temperature " "on the hydrothermal cooling. If it is set to zero, the temperature is not considered " - "in the calculation of the thermal conductivity."); + "in the calculation of the thermal conductivity. "); prm.declare_entry ("Depth smoothing factor for hydrothermal cooling approximation", "0.75", Patterns::Double (0.), - "Smoothing factor that controls the influence of the depth " + "Smoothing factor that controls the influence of the depth below the surface" "on the hydrothermal cooling. If it is set to zero, the temperature is not considered " - "in the calculation of the thermal conductivity."); - + "in the calculation of the thermal conductivity. "); + prm.declare_entry ("Maximum depth of the sea", "5000", + Patterns::Double (1.), + "Cutoff value for the sea depth, at which thermal conductivity no longer increases " + "with increasing sea depth. The effect of cooling in the shallow subsurface in general " + "gets bigger the more water there is above the surface. "); } prm.leave_subsection(); } @@ -483,8 +515,8 @@ namespace aspect cutoff_maximum_depth = prm.get_double ("Cutoff maximum depth for hydrothermal cooling approximation"); Nusselt_number = prm.get_double ("Nusselt number for hydrothermal cooling approximation"); smoothing_factor_temperature = prm.get_double ("Temperature smoothing factor for hydrothermal cooling approximation"); - smoothing_factor_depth = prm.get_double ("Depth smoothing factor for hydrothermal cooling approximation") -; + smoothing_factor_depth = prm.get_double ("Depth smoothing factor for hydrothermal cooling approximation"); + maximum_depth_of_sea = prm.get_double ("Maximum depth of the sea"); rheology = std::make_unique>(); rheology->initialize_simulator (this->get_simulator()); From a722c697595fde2327d0f6207a3b513bfc0a8501 Mon Sep 17 00:00:00 2001 From: bbxriboe Date: Mon, 16 Oct 2023 17:12:38 +0200 Subject: [PATCH 34/44] removed 'cout's --- source/geometry_model/box.cc | 6 +++--- 1 file changed, 3 insertions(+), 3 deletions(-) diff --git a/source/geometry_model/box.cc b/source/geometry_model/box.cc index 56f1ae19016..cdb70751fcf 100644 --- a/source/geometry_model/box.cc +++ b/source/geometry_model/box.cc @@ -399,9 +399,8 @@ namespace aspect double Box::depth_including_mesh_deformation(const Point &position) const { - AssertThrow(Plugins::plugin_type_matches>(this->get_geometry_model()), - ExcMessage("Depth with mesh deformation currently only works with a 2D box geometry model.")); + ExcMessage("Depth with mesh deformation currently only works with a 2D box geometry model.")); AssertThrow(dim==2, ExcMessage("Depth with mesh deformation currently only works with a 2D box geometry model.")); @@ -411,8 +410,9 @@ namespace aspect Point p; for (unsigned int d=0; dvalue(p) - position[dim-1]; + return std::max (depth_from_surface, 0.); } From 2ceddd303b18e1d147304cee34708ad526d59c96 Mon Sep 17 00:00:00 2001 From: bbxriboe Date: Tue, 17 Oct 2023 14:08:35 +0200 Subject: [PATCH 35/44] save changes --- include/aspect/material_model/visco_plastic.h | 6 ++++++ source/material_model/visco_plastic.cc | 11 +++++++---- 2 files changed, 13 insertions(+), 4 deletions(-) diff --git a/include/aspect/material_model/visco_plastic.h b/include/aspect/material_model/visco_plastic.h index d913a1a13e5..c810a98028d 100644 --- a/include/aspect/material_model/visco_plastic.h +++ b/include/aspect/material_model/visco_plastic.h @@ -292,6 +292,12 @@ namespace aspect */ double smoothing_factor_depth; + /** + * Cutoff value for the depth of the sea at which the thermal conductivity does not increase anymore + * with increasing sea depth. + */ + double maximum_depth_of_sea; + /** * Number of phase transitions for each chemical composition (including the background field). */ diff --git a/source/material_model/visco_plastic.cc b/source/material_model/visco_plastic.cc index 8deac45756a..4c4ab7e455d 100644 --- a/source/material_model/visco_plastic.cc +++ b/source/material_model/visco_plastic.cc @@ -25,6 +25,9 @@ #include #include #include +#include +#include + namespace aspect { @@ -238,8 +241,8 @@ namespace aspect } else { - AssertThrow(!this->get_parameters().mesh_deformation_enabled, - ExcMessage("Using the hydrothermal cooling approximation together with mesh deformation only works for two dimensional box models.")); + //AssertThrow(!this->get_parameters().mesh_deformation_enabled, + //ExcMessage("Using the hydrothermal cooling approximation together with mesh deformation only works for two dimensional box models.")); depth = depth_with_respect_to_initial_surface; } @@ -251,7 +254,7 @@ namespace aspect (Nusselt_number - 1.) * std::exp(smoothing_factor_temperature * (1. - in.temperature[i] / cutoff_maximum_temperature)) * std::exp(smoothing_factor_depth * (1. - depth / cutoff_maximum_depth)) * - (use_depth_of_sea == true ? std::max(0, std::min(depth_of_sea, maximum_depth_of_sea)/maximum_depth_of_sea) : 1); + (use_depth_of_sea == true ? std::max(0., std::min(depth_of_sea, maximum_depth_of_sea)/maximum_depth_of_sea) : 1.); } } @@ -436,7 +439,7 @@ namespace aspect "Smoothing factor that controls the influence of the depth below the surface" "on the hydrothermal cooling. If it is set to zero, the temperature is not considered " "in the calculation of the thermal conductivity. "); - prm.declare_entry ("Maximum depth of the sea", "5000", + prm.declare_entry ("Maximum depth of the sea", "5000.0", Patterns::Double (1.), "Cutoff value for the sea depth, at which thermal conductivity no longer increases " "with increasing sea depth. The effect of cooling in the shallow subsurface in general " From 72799fbaa25ea1869d0ab86eaea8e07d59276015 Mon Sep 17 00:00:00 2001 From: djneu Date: Tue, 18 Jun 2019 11:15:22 +0200 Subject: [PATCH 36/44] Initial fastscape commit Second batch of squashed fastscape commits. Refactor saving/loading files for restart add paramters for erosional base level differing from sea level third batch of squashed fastscape commits. Expand on plugin description Fourth batch of squashed fastscape commits. Update include/aspect/mesh_deformation/fastscape.h Co-authored-by: Wolfgang Bangerth Update comment Update reptitions types and add python script to rewrite fastscape visualizations with time. Add get_end_time function Update cookbook and add check in viscoplastic Update sediment rain times Update cmakelists Remove commented line Fix library link --- CMakeLists.txt | 41 + .../fastscape_rewrite_VTK_with_time.py | 156 ++ cookbooks/fastscape_eroding_box/doc/README.md | 1 + .../fastscape_eroding_box.prm | 182 ++ doc/modules/changes/20230301_neuharth | 11 + include/aspect/config.h.in | 1 + include/aspect/geometry_model/box.h | 7 + include/aspect/mesh_deformation/fastscape.h | 590 +++++ include/aspect/parameters.h | 1 + include/aspect/simulator_access.h | 19 + source/geometry_model/box.cc | 7 + .../material_model/rheology/visco_plastic.cc | 14 + source/mesh_deformation/fastscape.cc | 1960 +++++++++++++++++ source/simulator/parameters.cc | 4 + source/simulator/simulator_access.cc | 17 + 15 files changed, 3011 insertions(+) create mode 100644 contrib/fastscape/fastscape_rewrite_VTK_with_time.py create mode 100644 cookbooks/fastscape_eroding_box/doc/README.md create mode 100644 cookbooks/fastscape_eroding_box/fastscape_eroding_box.prm create mode 100644 doc/modules/changes/20230301_neuharth create mode 100644 include/aspect/mesh_deformation/fastscape.h create mode 100644 source/mesh_deformation/fastscape.cc diff --git a/CMakeLists.txt b/CMakeLists.txt index 804f427bab9..32a8436d079 100644 --- a/CMakeLists.txt +++ b/CMakeLists.txt @@ -597,6 +597,47 @@ IF(ASPECT_WITH_LIBDAP) ENDIF() ENDIF() + +# Check for FastScape library and link it to ASPECT if requested +SET(ASPECT_WITH_FASTSCAPE OFF CACHE BOOL "Whether the user wants to compile ASPECT with the landscape evolution code FastScape, or not.") +MESSAGE(STATUS "Using ASPECT_WITH_FASTSCAPE = '${ASPECT_WITH_FASTSCAPE}'") +IF(ASPECT_WITH_FASTSCAPE) + FIND_LIBRARY(FASTSCAPE NAMES fastscapelib_fortran PATHS $ENV{FASTSCAPE_DIR} ${FASTSCAPE_DIR} PATH_SUFFIXES lib NO_DEFAULT_PATH) + IF (FASTSCAPE) + MESSAGE(STATUS "FastScape library found at ${FASTSCAPE_DIR}") + + # Get the fastscape source path so we can check the version. + FILE (STRINGS "${FASTSCAPE_DIR}/Makefile" _fastscape_makefile) + foreach(_line ${_fastscape_makefile}) + if("${_line}" MATCHES "^CMAKE_SOURCE_DIR") + string(REPLACE "CMAKE_SOURCE_DIR = " "" FASTSCAPE_SOURCE_DIR ${_line}) + endif() + endforeach() + + # Now get the version from setup.py + MESSAGE(STATUS "Parsing '${FASTSCAPE_SOURCE_DIR}/setup.py' for version information") + FILE (STRINGS "${FASTSCAPE_SOURCE_DIR}/setup.py" _fastscape_info) + foreach(_line ${_fastscape_info}) + string(STRIP ${_line} _line) + if("${_line}" MATCHES "^version") + string(REGEX REPLACE "[^0-9.]" "" FASTSCAPE_VERSION ${_line}) + endif() + endforeach() + + # Throw an error if the version is too old. + IF(${FASTSCAPE_VERSION} VERSION_LESS 2.8) + MESSAGE(FATAL_ERROR "The linked FastScape version is ${FASTSCAPE_VERSION}, however at least 2.8.0 is required.") + ENDIF() + + FOREACH(_T ${TARGETS}) + TARGET_LINK_LIBRARIES(${_T} ${FASTSCAPE}) + ENDFOREACH() + ELSE() + MESSAGE(FATAL_ERROR "Trying to link with FastScape but libfastscapelib_fortran.so was not found in ${FASTSCAPE_DIR}") + ENDIF() +ENDIF() + + # # NETCDF (c including parallel) # diff --git a/contrib/fastscape/fastscape_rewrite_VTK_with_time.py b/contrib/fastscape/fastscape_rewrite_VTK_with_time.py new file mode 100644 index 00000000000..ffde75c5bb6 --- /dev/null +++ b/contrib/fastscape/fastscape_rewrite_VTK_with_time.py @@ -0,0 +1,156 @@ +## This is a script written by Thilo Wrona which rewrites FastScape VTK files +## into VTS files that include the correct time of ASPECT solution files. This is +## necessary because the VTK files do not include a time and cannot be viewed +## simultaneously with ASPECT in paraview. + +import sys +import os +import glob +import numpy as np + +import pandas as pd +from xml.etree import ElementTree as ET + +#### import the simple module from the paraview, change path. +sys.path.insert(1,'/path/to/paraview/lib/python3.8/site-packages/') +from paraview.simple import * + + +def get_times_pvd(filename): + # Read in the solution.pvd file + data = pd.read_csv(filename,header=5,delim_whitespace=True, names=[0, 1, 2, 3, 4]) + data = data.to_numpy() + + # Remove text characters and the final two rows which don't contain any time info. + times = np.zeros(len(data[:,1])-2) + for i in range(data.shape[0]-2): + temp_str = data[i,1] + + # Column 1 contains a string of " "timestep=0" " + # Here we remove the first ten characters, and the final character. + temp_str = temp_str[10:] + temp_str = temp_str[:-1] + + times[i] = float(temp_str) + + return times + + +#%% Get file paths (absolute, not relative paths!) +def absoluteFilePaths(directory): + for dirpath,_,filenames in os.walk(directory): + for f in filenames: + yield os.path.abspath(os.path.join(dirpath, f)) + +# This will work if you run the script inside the ASPECT output folder, +# otherwise you can put the absolute path. +# This will make sure we only pick up the topography files. +FileNames = glob.glob('./VTK/Topography*.vtk') +FileNames = sorted(FileNames) + +DirPath = os.path.dirname(os.path.realpath(__file__)) + +#%% + +# trace generated using paraview version 5.8.0 +# +# To ensure correct image size when batch processing, please search +# for and uncomment the line `# renderView*.ViewSize = [*,*]` + +for File in FileNames: + + #### disable automatic camera reset on 'Show' + paraview.simple._DisableFirstRenderCameraReset() + + # create a new 'Legacy VTK Reader' + topography0000 = LegacyVTKReader(FileNames=File) + + # get animation scene + animationScene1 = GetAnimationScene() + + # get the time-keeper + timeKeeper1 = GetTimeKeeper() + + # update animation scene based on data timesteps + animationScene1.UpdateAnimationUsingDataTimeSteps() + + # get active view + renderView1 = GetActiveViewOrCreate('RenderView') + # uncomment following to set a specific view size + # renderView1.ViewSize = [882, 554] + + # get layout + layout1 = GetLayout() + + # show data in view + topography0000Display = Show(topography0000, renderView1, 'StructuredGridRepresentation') + + # trace defaults for the display properties. + topography0000Display.Representation = 'Surface' + + # reset view to fit data + renderView1.ResetCamera() + + # get the material library + materialLibrary1 = GetMaterialLibrary() + + # show color bar/color legend + topography0000Display.SetScalarBarVisibility(renderView1, True) + + # update the view to ensure updated data information + renderView1.Update() + + # get color transfer function/color map for 'H' + hLUT = GetColorTransferFunction('H') + + # get opacity transfer function/opacity map for 'H' + hPWF = GetOpacityTransferFunction('H') + + # save data + SaveData(File[:-4] + '.vts', proxy=topography0000, ChooseArraysToWrite=1, + PointDataArrays=['HHHHH','basement','catchment','drainage_area','erosion_rate','topography','total_erosion']) + + #### saving camera placements for all active views + + # current camera placement for renderView1 + renderView1.CameraPosition = [225625.0, 25625.0, 878497.0779980461] + renderView1.CameraFocalPoint = [225625.0, 25625.0, 1135.7277145385742] + renderView1.CameraParallelScale = 227077.82689023562 + + #### uncomment the following to render all views + # RenderAllViews() + # alternatively, if you want to write images, you can use SaveScreenshot(...). + + Delete(topography0000) + del topography0000 + +#%% Get time steps +times = get_times_pvd('solution.pvd') + +#%% Write pvd file + +root_attributes = {"type": "Collection", "version": "0.1", "ByteOrder": "LittleEndian"} + +root = ET.Element("VTKFile", attrib=root_attributes) +root.text="\n" + + +doc = ET.SubElement(root, "Collection") +doc.text="\n" + +for n, File in enumerate(FileNames): + dataset_attributes = {"timestep": str(times[n]), "group": "", "group": "", "file": os.path.basename(File)[:-4]+'.vts'} + + ET.SubElement(doc, "DataSet", attrib=dataset_attributes).text="\n" + + +tree = ET.ElementTree(root) +tree.write('./VTK/topography.pvd', xml_declaration=True, encoding='utf-8', method="xml") + + + + + + + + diff --git a/cookbooks/fastscape_eroding_box/doc/README.md b/cookbooks/fastscape_eroding_box/doc/README.md new file mode 100644 index 00000000000..7fe36320188 --- /dev/null +++ b/cookbooks/fastscape_eroding_box/doc/README.md @@ -0,0 +1 @@ +This is a simple model of an eroding central block. The model is primarily used to test that the coupling installation is working properly, or for simple tests when making changes to the plugin to ensure everything is still working properly. diff --git a/cookbooks/fastscape_eroding_box/fastscape_eroding_box.prm b/cookbooks/fastscape_eroding_box/fastscape_eroding_box.prm new file mode 100644 index 00000000000..6d19a1251b1 --- /dev/null +++ b/cookbooks/fastscape_eroding_box/fastscape_eroding_box.prm @@ -0,0 +1,182 @@ +# This cookbook is used as a test to ensure that FastScape is properly working with ASPECT. +# It consists of a 2.5 km high central mountain block that is eroded through the use of +# hillslope diffusion and the Stream Power Law. Within ASPECT, the model is based off +# convection-box-3d. However, it is set up in a way that nothing happens in the geodynamic model. + +# At the top, we define the number of space dimensions we would like to +# work in: +set Dimension = 3 + +set Use years in output instead of seconds = true +set End time = 2.5e5 +set Maximum time step = 50000 +set Output directory = eroding_box + +set Pressure normalization = no +set Surface pressure = 0 + +# A box that has an initial 60x60 km mountain block that is 2.5 km above the initial model surface. +subsection Geometry model + set Model name = box + + subsection Box + set X extent = 125e3 + set Y extent = 100e3 + set Z extent = 25e3 + set X repetitions = 5 + set Y repetitions = 4 + end + + subsection Initial topography model + set Model name = function + subsection Function + set Function expression = if(y>20e3 && y<80e3 && x>32.5e3 && x<92.5e3, 2500, 0) + end + end +end + +# We do not consider temperature in this setup +subsection Initial temperature model + set Model name = function + + subsection Function + set Function expression = 0 + end +end + +subsection Boundary temperature model + set Fixed temperature boundary indicators = bottom, top + set List of model names = initial temperature +end + +# X Set all boundaries except the top to freeslip. +subsection Boundary velocity model + set Tangential velocity boundary indicators = bottom, front, back, left, right +end + +# Here we setup the top boundary with fastscape. +subsection Mesh deformation + set Mesh deformation boundary indicators = top : fastscape + + subsection Fastscape + # As the highest resolution at the surface is 4 in the mesh refinement function, we set this the same. + set Maximum surface refinement level = 4 + + # Because we only have the same level across the entire surface we set this to zero. + # If we had multiple resolutions, e.g. 3 different cell sizes at the surface, + # this would be set to 2 (number of cell sizes at surface - 1). + set Surface refinement difference = 0 + + # We set FastScape as 1 level more resolved than ASPECT's initial global surface resolution. + set Additional fastscape refinement = 1 + + # Number of FastScape timesteps we want per ASPECT timestep. + set Number of fastscape timesteps per aspect timestep = 5 + + # Set the maximum allowable FastScape time step length. If the (ASPECT time step length)/(Number of FastScape steps per ASPECT step) + # is greater than this value, then the number of FastScape steps per ASPECT step is automatically doubled. + # This is continued until the FastScape timestep length is less than this value. + # + # The units of this parameter are either years or seconds, dependent on the global parameter that + # determines whether an input file uses one or the other. + set Maximum timestep length = 10000 + + # Seed number for initial topography noise + set Fastscape seed = 1000 + + # Because no boundaries are periodic, no flux is prescribed, and no advection occurs in FastScape, + # we do not need ghost nodes. + set Use ghost nodes = false + set Vertical exaggeration = 1 + + # Fix all boundaries in FastScape. + subsection Boundary conditions + set Front = 1 + set Right = 1 + set Back = 1 + set Left = 1 + end + + # We use both the Stream Power Law (SPL) and hillslope diffusion. The bedrock deposition + # variable allows deposition of sediment; however, because + # the sediment variables are not set, they are equal to + # bedrock values. + subsection Erosional parameters + set Drainage area exponent = 0.4 + set Bedrock diffusivity = 1e-2 + set Bedrock river incision rate = 1e-4 + set Slope exponent = 1 + set Bedrock deposition coefficient = 1 + + # A negative value indicates varied flow. 10 is steepest descent, and 1 is uniform distribution. + set Multi-direction slope exponent = -1 + end + end + + set Additional tangential mesh velocity boundary indicators = left, right, front, back + +end + +subsection Gravity model + set Model name = vertical + + subsection Vertical + set Magnitude = 0 + end +end + +# Dimensionless +subsection Material model + set Model name = simple + + subsection Simple model + set Reference density = 1 + set Reference specific heat = 1 + set Reference temperature = 0 + set Thermal conductivity = 1 + set Thermal expansion coefficient = 1 + set Viscosity = 1 + end +end + + +# We also have to specify that we want to use the Boussinesq +# approximation (assuming the density in the temperature +# equation to be constant, and incompressibility). +subsection Formulation + set Formulation = Boussinesq approximation +end + + +# We set a maximum surface refinement level of 4 using the max/minimum refinement level. +# This will make it so that the ASPECT surface refinement is the same as what we set +# for our maximum surface refinement level for FastScape. +subsection Mesh refinement + set Initial global refinement = 4 + set Initial adaptive refinement = 1 + set Time steps between mesh refinement = 0 + set Strategy = minimum refinement function, maximum refinement function + + subsection Maximum refinement function + set Coordinate system = cartesian + set Variable names = x,y,z + set Function expression = if(z>=21000, 4, 2) + end + + subsection Minimum refinement function + set Coordinate system = cartesian + set Variable names = x,y,z + set Function expression = if(z>=21000, 4, 2) + end +end + +subsection Postprocess + set List of postprocessors = visualization + + subsection Visualization + set Time between graphical output = 0 + set List of output variables = strain rate + set Interpolate output = true + set Write higher order output = true + end +end diff --git a/doc/modules/changes/20230301_neuharth b/doc/modules/changes/20230301_neuharth new file mode 100644 index 00000000000..8be934182c4 --- /dev/null +++ b/doc/modules/changes/20230301_neuharth @@ -0,0 +1,11 @@ +New: Mesh deformation plugin that uses the landscape +evolution code FastScape to deform the surface through +erosion and sediment deposition. + +Citations: +Neuharth, D., Brune, S., Wrona, T., Glerum, A., Braun, J., & Yuan, X. (2022). Evolution of rift systems and their fault networks in response to surface processes. Tectonics, 41(3), e2021TC007166. + +Neuharth, D., Brune, S., Glerum, A., Morley, C. K., Yuan, X., & Braun, J. (2022). Flexural strike-slip basins. Geology, 50(3), 361-365. + +
+(Derek Neuharth, Anne Glerum, Sascha Brune, Esther Heckenbach 2023/03/01) diff --git a/include/aspect/config.h.in b/include/aspect/config.h.in index 3916cfe1fdc..9a9055c4298 100644 --- a/include/aspect/config.h.in +++ b/include/aspect/config.h.in @@ -31,4 +31,5 @@ #cmakedefine ASPECT_WITH_PERPLEX #cmakedefine ASPECT_WITH_WORLD_BUILDER #cmakedefine ASPECT_USE_FP_EXCEPTIONS +#cmakedefine ASPECT_WITH_FASTSCAPE #endif diff --git a/include/aspect/geometry_model/box.h b/include/aspect/geometry_model/box.h index 277cfc6108f..3a87b73c1ee 100644 --- a/include/aspect/geometry_model/box.h +++ b/include/aspect/geometry_model/box.h @@ -76,6 +76,13 @@ namespace aspect virtual Point get_extents () const; + /** + * Return an integer array that denotes the number of repetitions of + * the box's coarse mesh. + */ + const std::array & + get_repetitions () const; + /** * Return a point that denotes the lower left corner of the box * domain. diff --git a/include/aspect/mesh_deformation/fastscape.h b/include/aspect/mesh_deformation/fastscape.h new file mode 100644 index 00000000000..39c47d94c8b --- /dev/null +++ b/include/aspect/mesh_deformation/fastscape.h @@ -0,0 +1,590 @@ +/* + Copyright (C) 2011 - 2023 by the authors of the ASPECT code. + + This file is part of ASPECT. + + ASPECT is free software; you can redistribute it and/or modify + it under the terms of the GNU General Public License as published by + the Free Software Foundation; either version 2, or (at your option) + any later version. + + ASPECT is distributed in the hope that it will be useful, + but WITHOUT ANY WARRANTY; without even the implied warranty of + MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the + GNU General Public License for more details. + + You should have received a copy of the GNU General Public License + along with ASPECT; see the file LICENSE. If not see + . + */ + +#ifndef _aspect_mesh_deformation_fastscape_h +#define _aspect_mesh_deformation_fastscape_h + +#include + +#ifdef ASPECT_WITH_FASTSCAPE + +#include + +namespace aspect +{ + using namespace dealii; + + namespace MeshDeformation + { + /** + * A plugin that utilizes the landscape evolution code FastScape + * to deform the ASPECT boundary through advection, uplift, + * hillslope diffusion, sediment deposition, marine diffusion, + * and the stream power law, which describes river incision. + * + */ + template + class FastScape : public Interface, public SimulatorAccess + { + public: + /** + * Initialize variables for FastScape. + */ + virtual void initialize () override; + + /** + * Destructor for FastScape. + */ + ~FastScape() override; + + /** + * A function that creates constraints for the velocity of certain mesh + * vertices (e.g. the surface vertices) for a specific boundary. + * The calling class will respect + * these constraints when computing the new vertex positions. + */ + virtual + void + compute_velocity_constraints_on_boundary(const DoFHandler &mesh_deformation_dof_handler, + AffineConstraints &mesh_velocity_constraints, + const std::set &boundary_id) const; + + /** + * Declare parameters for the FastScape plugin. + */ + static + void declare_parameters (ParameterHandler &prm); + + /** + * Parse parameters for the FastScape plugin. + */ + void parse_parameters (ParameterHandler &prm); + + private: + /** + * Function used to set the FastScape ghost nodes. FastScape boundaries are + * not uplifted or periodic for advection and diffusion. By using a layer + * of extra nodes in the FastScape model, we can avoid seeing FastScape boundary + * effects within ASPECT. Similarly, we can use these nodes to have fully + * periodic boundaries, where we check the flow direction and update the FastScape + * ghost nodes, and the nodes one layer inward (boundary nodes in ASPECT) to match + * the parameters on the other side (vx, vy, vz, h). This is done every ASPECT timestep + * before running FastScape. + */ + void set_ghost_nodes(std::vector &elevation, + std::vector &velocity_x, + std::vector &velocity_y, + std::vector &velocity_z, + const double &fastscape_timestep_in_years, + const bool init) const; + + /** + * Function to determine whether the current index is a ghost node + */ + bool is_ghost_node(const unsigned int &index, + const bool &exclude_boundaries) const; + + /** + * Function to fill the Fastscape arrays (height and velocities) with the data received from ASPECT in the correct index order. + */ + void fill_fastscape_arrays(std::vector &elevation, + std::vector &bedrock_transport_coefficient_array, + std::vector &bedrock_river_incision_rate_array, + std::vector &velocity_x, + std::vector &velocity_y, + std::vector &velocity_z, + std::vector> &temporary_variables) const; + + /** + * Function to get the ASPECT topography and velocities at the surface, and an index for transferring these to FastScape. + */ + std::vector> get_aspect_values() const; + + /** + * Function to intialize or restart FastScape + */ + void initialize_fastscape(std::vector &elevation, + std::vector &basement, + std::vector &bedrock_transport_coefficient_array, + std::vector &bedrock_river_incision_rate_array, + std::vector &silt_fraction) const; + + /** + * Execute FastScape + */ + void execute_fastscape(std::vector &elevation, + std::vector &extra_vtk_field, + std::vector &velocity_x, + std::vector &velocity_y, + std::vector &velocity_z, + const double &fastscape_timestep_in_years, + const unsigned int &fastscape_iterations) const; + + /** + * Function to apply orographic (mountain related, e.g., wind or elevation) + * controls to the FastScape model. + */ + void apply_orographic_controls(const std::vector &elevation, + std::vector &bedrock_river_incision_rate_array, + std::vector &bedrock_transport_coefficient_array) const; + + /** + * Fill velocity data table to be interpolated back onto the ASPECT mesh. + */ + Table fill_data_table(std::vector &values, + TableIndices &size_idx, + const unsigned int &fastscape_nx, + const unsigned int &fastscape_ny) const; + + /** + * Read data from file for restarting. + */ + void read_restart_files(std::vector &elevation, + std::vector &basement, + std::vector &silt_fraction) const; + + /** + * Save data to file for restarting. + */ + void save_restart_files(const std::vector &elevation, + std::vector &basement, + std::vector &silt_fraction) const; + + /** + * Suggestion for the number of FastScape steps to run for every ASPECT timestep, + * where the FastScape timestep is determined by ASPECT_timestep_length divided by + * this parameter. + */ + unsigned int fastscape_steps_per_aspect_step; + + /** + * Maximum timestep allowed for FastScape, if the suggested timestep exceeds this + * limit it is repeatedly divided by 2 until the final timestep is smaller than this parameter. + */ + double maximum_fastscape_timestep; + + /** + * Check whether FastScape needs to be restarted. This is used as + * a mutable bool because we determine whether the model is being resumed in + * initialize(), and then after reinitializing FastScape we change it to false + * so it does not initialize FastScape again in future timesteps. + * TODO: There is probably a better way to do this, and restarts should be rolled into + * the general ASPECT restart. + */ + mutable bool restart; + + /** + * FastScape cell size in X. + */ + double fastscape_dx; + + /** + * FastScape cell size in Y. + */ + double fastscape_dy; + + /** + * FastScape X extent (ASPECT X extent + 2*dx for ghost nodes). + */ + double fastscape_x_extent; + + /** + * Fastscape Y extent (ASPECT Y extent + 2*dy for ghost nodes). + */ + double fastscape_y_extent; + + /** + * User set FastScape Y extent for a 2D ASPECT model. + */ + double fastscape_y_extent_2d; + + /** + * Number of x points in FastScape array. + */ + unsigned int fastscape_nx; + + /** + * Number of y points in FastScape array. + */ + unsigned int fastscape_ny; + + /** + * Vertical exaggeration in FastScape visualization. + */ + double vexp; + + /** + * How many levels FastScape should be refined above the maximum ASPECT surface resolution. + */ + unsigned int additional_refinement_levels; + + /** + * Maximum expected refinement level at ASPECT's surface. + * This and resolution_difference are required to properly transfer node data from + * ASPECT to FastScape. + */ + unsigned int maximum_surface_refinement_level; + + /** + * Difference in refinement levels expected at the ASPECT surface, + * where this would be set to 2 if 3 refinement leves are set at the surface. + * This and surface_resolution are required to properly transfer node data from + * ASPECT to FastScape. + * + * TODO: Should this be kept this way, or make it so the input is the expected levels + * of refinement at the surface, and we can subtract one within the code? Also, + * it would be good to find a way to check these are correct, because they are a + * common source of errors. + */ + unsigned int surface_refinement_difference; + + /** + * If set to true, the FastScape surface is averaged along Y and returned + * to ASPECT. If set to false, the center slice of the FastScape model is + * returned to ASPECT. + */ + bool average_out_of_plane_surface_topography; + + /** + * Seed number for initial topography noise in FastScape. + */ + int fastscape_seed; + + /** + * Variable to hold ASPECT domain extents. + */ + std::array,dim> grid_extent; + + /** + * Table for interpolating FastScape surface velocities back to ASPECT. + */ + std::array table_intervals; + + /** + * Whether or not to use the ghost nodes. + */ + bool use_ghost_nodes; + + /** + * Magnitude (m) of the initial noise applied to FastScape. + * Applied as either a + or - value to the topography + * such that the total difference can be up to 2*noise_elevation. + */ + double noise_elevation; + + /** + * Sediment rain in m/yr, added as a flat increase to the FastScape surface + * every ASPECT timestep before running FastScape. + */ + std::vector sediment_rain_rates; + + /** + * Time at which each interval of sediment_rain_rates is active. Should contain + * one less value than sediment_rain_rates, assuming that sediment_rain_rates[0] + * is applied from model time 0 until sediment_rain_times[0]. + */ + std::vector sediment_rain_times; + + /** + * Flag for having FastScape advect/uplift the surface. If the free surface is used + * in conjuction with FastScape, this can be set to false, then FastScape will only + * apply erosion/deposition to the surface and not advect or uplift it. + */ + bool fastscape_advection_uplift; + + /** + * Node tolerance for how close a ASPECT node must be to the FastScape node + * for the value to be transferred. This is only necessary if use_v is set to 0 + * and the free surface is used to advect the surface with a normal projection, or + * if there is a surface refinement level difference leading to excess interpolation + * points in areas of high ASPECT resolution. + */ + double node_tolerance; + + /** + * Interval between the generation of graphical output. This parameter + * is read from the input file and consequently is not part of the + * state that needs to be saved and restored. + */ + double output_interval; + + /** + * A time (in seconds) at which the last graphical output was supposed + * to be produced. Used to check for the next necessary output time. + */ + mutable double last_output_time; + + /** + * @name Fastscape boundary conditions + * @{ + */ + + /** + * FastScape bottom boundary condition that determines topography at the FastScape bottom boundary. + * Where 1 represents a fixed height boundary (though this can still be uplifted through uplift velocities), and 0 a + * reflective boundary. When two opposing boundaries are reflective (e.g., top and bottom are both zero), then the boundaries + * become cyclic. + */ + unsigned int bottom; + + /** + * FastScape top boundary condition that determines topography at the FastScape top boundary. + * Where 1 represents a fixed height boundary (though this can still be uplifted through uplift velocities), and 0 a + * reflective boundary. When two opposing boundaries are reflective (e.g., top and bottom are both zero), then the boundaries + * become cyclic. + */ + unsigned int top; + + /** + * FastScape right boundary condition that determines topography at the FastScape right boundary. + * Where 1 represents a fixed height boundary (though this can still be uplifted through uplift velocities), and 0 a + * reflective boundary. When two opposing boundaries are reflective (e.g., left and right are both zero), then the boundaries + * become cyclic. + */ + unsigned int right; + + /** + * FastScape left boundary condition that determines topography at the FastScape left boundary. + * Where 1 represents a fixed height boundary (though this can still be uplifted through uplift velocities), and 0 a + * reflective boundary. When two opposing boundaries are reflective (e.g., left and right are both zero), then the boundaries + * become cyclic. + */ + unsigned int left; + + /** + * Paramters that set the fastscape boundaries periodic even though the ghost nodes are set 'fixed' + */ + bool topbottom_ghost_nodes_periodic; + bool leftright_ghost_nodes_periodic; + + /** + * Integer that holds the full boundary conditions sent to FastScape (e.g., 1111). + */ + unsigned int fastscape_boundary_conditions; + + /** + * Prescribed flux per unit length into the model through the bottom boundary (m^2/yr). + */ + double bottom_flux; + + /** + * Prescribed flux per unit length into the model through the top boundary (m^2/yr). + */ + double top_flux; + + /** + * Prescribed flux per unit length into the model through the right boundary (m^2/yr). + */ + double right_flux; + + /** + * Prescribed flux per unit length into the model through the left boundary (m^2/yr). + */ + double left_flux; + /** + * @} + */ + + /** + * @name Fastscape subaerial erosional parameters + * @{ + */ + + /** + * Drainage area exponent for the stream power law. ($m$ variable in FastScape surface equation.) + */ + double drainage_area_exponent_m; + + /** + * Slope exponent for the steam power law. ($n$ variable in FastScape surface equation.) + */ + double slope_exponent_n; + + /** + * Slope exponent for multi-direction flow, where 0 is uniform, and 10 is steepest descent. (-1 varies with slope.) + * ($p$ variable in FastScape surface equation.) + */ + double slope_exponent_p; + + /** + * Bedrock deposition coefficient. Higher values deposit more sediment + * inside the domain. ($G$ variable in FastScape surface equation.) + */ + double bedrock_deposition_g; + + /** + * Sediment deposition coefficient. Higher values deposit more sediment inside the domain. + * When set to -1 this is identical to the bedrock value. + * ($G$ variable in FastScape surface equation applied to sediment.) + */ + double sediment_deposition_g; + + /** + * Bedrock river incision rate for the stream power law. + * (meters^(1-2m)/yr, $kf$ variable in FastScape surface equation.) + */ + double bedrock_river_incision_rate; + + /** + * Sediment river incision rate for the stream power law (meters^(1-2m)/yr). + * When set to -1 this is identical to the bedrock value. + * ($kf$ variable in FastScape surface equation applied to sediment.) + */ + double sediment_river_incision_rate; + + /** + * Bedrock transport coefficient for hillslope diffusion (m^2/yr, kd in FastScape surface equation.) + */ + double bedrock_transport_coefficient; + + /** + * Bedrock transport coefficient for hillslope diffusion (m^2/yr). When set to -1 this is + * identical to the bedrock value. + * (kd in FastScape surface equation applied to sediment). + */ + double sediment_transport_coefficient; + /** + * @} + */ + + /** + * @name Fastscape marine parameters + * @{ + */ + + /** + * Fastscape sea level (m), set relative to the ASPECT surface where + * a sea level of zero will represent the maximum Y (2D) or Z (3D) extent + * inside ASPECT. + */ + double sea_level; + + /** + * Parameters to set an extra erosional base level + * on the ghost nodes that differs from sea level. + */ + bool use_fixed_erosional_base; + + /** + * Height of the extra erosional base level. + */ + double h_erosional_base; + + /** + * Surface porosity for sand. + */ + double sand_surface_porosity; + + /** + * Surface porosity for silt. + */ + double silt_surface_porosity; + + /** + * Sands e-folding depth for exponential porosity law (m). + */ + double sand_efold_depth; + + /** + * Silts e-folding depth for exponential porosity law (m). + */ + double silt_efold_depth; + + /** + * Sand-silt ratio + */ + double sand_silt_ratio; + + /** + * Averaging depth/thickness for sand-silt equation (m). + */ + double sand_silt_averaging_depth; + + /** + * Sand marine transport coefficient. (marine diffusion, m^2/yr.) + */ + double sand_transport_coefficient; + + /** + * Silt marine transport coefficient. (marine diffusion, m^2/yr.) + */ + double silt_transport_coefficient; + + /** + * Flag to use the marine component of FastScape. + */ + bool use_marine_component; + /** + * @} + */ + + /** + * @name Orographic parameters + * @{ + */ + + /** + * Set a flat height (m) after which the flat_erosional_factor + * is applied to the bedrock river incision rate and transport coefficient. + */ + int flat_elevation; + + /** + * Set the height (m) after which the model will track the ridge line + * and based on the wind direction will apply the wind_barrier_erosional_factor + * to the bedrock river incision rate and transport coefficient. + */ + int wind_barrier_elevation; + + /** + * Wind direction for wind_barrier_erosional_factor. + */ + unsigned int wind_direction; + + /** + * Factor to multiply the bedrock river incision rate and transport coefficient by depending on them + * flat_elevation. + */ + double flat_erosional_factor; + + /** + * Factor to multiply the bedrock river incision rate and transport coefficient by depending on them + * wind_barrier_elevation and wind direction. + */ + double wind_barrier_erosional_factor; + + /** + * Flag to stack both orographic controls. + */ + bool stack_controls; + + /** + * Flag to use orographic controls. + */ + bool use_orographic_controls; + /** + * @} + */ + }; +} +} + +#endif +#endif diff --git a/include/aspect/parameters.h b/include/aspect/parameters.h index 4f90bd42178..cacd335a640 100644 --- a/include/aspect/parameters.h +++ b/include/aspect/parameters.h @@ -455,6 +455,7 @@ namespace aspect double nonlinear_tolerance; bool resume_computation; double start_time; + double end_time; double CFL_number; double maximum_time_step; double maximum_relative_increase_time_step; diff --git a/include/aspect/simulator_access.h b/include/aspect/simulator_access.h index d7dd6615c1f..550eac428f2 100644 --- a/include/aspect/simulator_access.h +++ b/include/aspect/simulator_access.h @@ -143,6 +143,11 @@ namespace aspect template class World; } + namespace TimeStepping + { + template class Manager; + } + /** * SimulatorAccess is a base class for different plugins like postprocessors. * It provides access to the various variables of the main class that @@ -281,6 +286,14 @@ namespace aspect unsigned int get_timestep_number () const; + /** + * Return a reference to the manager of the time stepping strategies. + * This can then be used, for example, to check whether a checkpoint needs to + * be made upon termination. + */ + const TimeStepping::Manager & + get_timestepping_manager() const; + /** * Return the current nonlinear iteration number of a time step. */ @@ -378,6 +391,12 @@ namespace aspect unsigned int n_compositional_fields () const; + /** + * Return the simulation end time in seconds. + */ + double + get_end_time () const; + /** * Compute the error indicators in the same way they are normally used * for mesh refinement. The mesh is not refined when doing so, but the diff --git a/source/geometry_model/box.cc b/source/geometry_model/box.cc index cdb70751fcf..5c9db0ab978 100644 --- a/source/geometry_model/box.cc +++ b/source/geometry_model/box.cc @@ -227,6 +227,13 @@ namespace aspect return extents; } + template + const std::array & + Box::get_repetitions () const + { + return repetitions; + } + template Point Box::get_origin () const diff --git a/source/material_model/rheology/visco_plastic.cc b/source/material_model/rheology/visco_plastic.cc index df81dad14c2..8c0cc5cee7f 100644 --- a/source/material_model/rheology/visco_plastic.cc +++ b/source/material_model/rheology/visco_plastic.cc @@ -506,6 +506,20 @@ namespace aspect composition_mask.set(i,false); } + // Mask fields that track the age and deposition depth of deposited sediments. + #ifdef ASPECT_WITH_FASTSCAPE + if (this->introspection().compositional_name_exists("sediment_age")) + { + const unsigned int sedi_age_position_tmp = this->introspection().compositional_index_for_name("sediment_age"); + composition_mask.set(sedi_age_position_tmp,false); + } + if (this->introspection().compositional_name_exists("deposition_depth")) + { + const unsigned int depo_depth_position_tmp = this->introspection().compositional_index_for_name("deposition_depth"); + composition_mask.set(depo_depth_position_tmp,false); + } + #endif + return composition_mask; } diff --git a/source/mesh_deformation/fastscape.cc b/source/mesh_deformation/fastscape.cc new file mode 100644 index 00000000000..e8646257545 --- /dev/null +++ b/source/mesh_deformation/fastscape.cc @@ -0,0 +1,1960 @@ +/* + Copyright (C) 2011 - 2023 by the authors of the ASPECT code. + + This file is part of ASPECT. + + ASPECT is free software; you can redistribute it and/or modify + it under the terms of the GNU General Public License as published by + the Free Software Foundation; either version 2, or (at your option) + any later version. + + ASPECT is distributed in the hope that it will be useful, + but WITHOUT ANY WARRANTY; without even the implied warranty of + MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the + GNU General Public License for more details. + + You should have received a copy of the GNU General Public License + along with ASPECT; see the file LICENSE. If not see + . + */ +#include + +#ifdef ASPECT_WITH_FASTSCAPE + +#include +#include +#include +#include +#include +#include + +namespace aspect +{ + namespace MeshDeformation + { + /** + * Define FastScape functions as C functions. Must use the exact same function/variable name + * and type as used in FastScape. All function names must be made lowercase, and an + * underscore added at the end. Types must be defined as pointers, and sent to + * FastScape as a reference. Additional functions are available within FastScape, + * see https://fastscape.org/fastscapelib-fortran/ for a list of all functions and + * their input parameters. These functions must be defined at the top here before + * they are used. + */ + extern"C" + { + /** + * Function to initialize FastScape. + */ + void fastscape_init_(); + + /** + * Set the x and y extent of the FastScape model. + */ + void fastscape_set_xl_yl_(const double *xxl, + const double *yyl); + + /** + * Set number of grid points in x (nx) and y (ny) + */ + void fastscape_set_nx_ny_(const unsigned int *nnx, + const unsigned int *nny); + + /** + * Allocate memory, must be called after set nx/ny. + */ + void fastscape_setup_(); + + /** + * Set FastScape boundary conditions. + */ + void fastscape_set_bc_(const unsigned int *jbc); + + /** + * Set FastScape timestep. This will vary based on the ASPECT timestep. + */ + void fastscape_set_dt_(const double *dtt); + + /** + * Initialize FastScape topography. + */ + void fastscape_init_h_(double *hp); + + /** + * Initialize FastScape silt fraction during a restart. + */ + void fastscape_init_f_(double *sf); + + /** + * Set FastScape erosional parameters on land. These parameters will apply to the stream power law (SPL) + * and hillslope diffusion for basement and sediment. This can be set between timesteps. + */ + void fastscape_set_erosional_parameters_(double *kkf, + const double *kkfsed, + const double *mm, + const double *nnn, + double *kkd, + const double *kkdsed, + const double *gg1, + const double *gg2, + const double *pp); + + /** + * Set FastScape marine erosional parameters. This can be set between timesteps. + */ + void fastscape_set_marine_parameters_(const double *sl, + const double *p1, + const double *p2, + const double *z1, + const double *z2, + const double *r, + const double *l, + const double *kds1, + const double *kds2); + + /** + * Set advection velocities for FastScape. This can be set between timesteps. + */ + void fastscape_set_v_(double *ux, + double *uy); + + /** + * Set FastScape uplift rate. This can be set between timesteps. + */ + void fastscape_set_u_(double *up); + + /** + * Set FastScape topography. This can be set between timesteps. + */ + void fastscape_set_h_(double *hp); + + /** + * Set FastScape basement. This can be set between timesteps. Sediment within FastScape + * is considered as the difference between the topography and basement, though this may differ + * from sediment as seen in ASPECT because the FastScape basement only takes the surface + * velocities into consideration. + */ + void fastscape_set_basement_(double *b); + + /** + * Run FastScape for a single FastScape timestep. + */ + void fastscape_execute_step_(); + + /** + * Create a .VTK file for the FastScape surface within the fastscape folder of the + * ASPECT output folder. + */ + void fastscape_named_vtk_(double *fp, + const double *vexp, + unsigned int *astep, + const char *c, + const unsigned int *length); + + /** + * Copy the current FastScape topography. + */ + void fastscape_copy_h_(double *hp); + + /** + * Copy the current FastScape basement. + */ + void fastscape_copy_basement_(double *b); + + /** + * Copy the current FastScape silt fraction. + */ + void fastscape_copy_f_(double *sf); + + /** + * Copy the current FastScape slopes. + */ + void fastscape_copy_slope_(double *slopep); + + /** + * Destroy FastScape. + */ + void fastscape_destroy_(); + } + + + template + FastScape::~FastScape () + { + // It doesn't seem to matter if this is done on all processors or only on the one that runs + // FastScape as the destroy function checks if the memory is allocated. + if (Utilities::MPI::this_mpi_process(this->get_mpi_communicator()) == 0) + fastscape_destroy_(); + } + + template + void + FastScape::initialize () + { + AssertThrow(Plugins::plugin_type_matches>(this->get_geometry_model()), + ExcMessage("FastScape can only be run with a box geometry model.")); + + const GeometryModel::Box *geometry + = dynamic_cast*> (&this->get_geometry_model()); + + // Find the id associated with the top boundary and boundaries that call mesh deformation. + const types::boundary_id top_boundary = this->get_geometry_model().translate_symbolic_boundary_name_to_id ("top"); + const std::set mesh_deformation_boundary_ids + = this->get_mesh_deformation_handler().get_active_mesh_deformation_boundary_indicators(); + + // Get the deformation type names called for each boundary. + std::map> mesh_deformation_boundary_indicators_map + = this->get_mesh_deformation_handler().get_active_mesh_deformation_names(); + + // Loop over each mesh deformation boundary, and make sure FastScape is only called on the surface. + for (const types::boundary_id id : mesh_deformation_boundary_ids) + { + const std::vector &names = mesh_deformation_boundary_indicators_map[id]; + for (const auto &name : names) + { + if (name == "fastscape") + AssertThrow(id == top_boundary, + ExcMessage("FastScape can only be called on the surface boundary.")); + } + } + + // Initialize parameters for restarting FastScape + restart = this->get_parameters().resume_computation; + + // Since we don't open these until we're on one process, we need to check if the + // restart files exist before hand. + if (restart) + { + if (Utilities::MPI::this_mpi_process(this->get_mpi_communicator()) == 0) + { + AssertThrow(Utilities::fexists(this->get_output_directory() + "fastscape_elevation_restart.txt"), + ExcMessage("Cannot open topography file to restart FastScape.")); + AssertThrow(Utilities::fexists(this->get_output_directory() + "fastscape_basement_restart.txt"), + ExcMessage("Cannot open topography file to restart FastScape.")); + AssertThrow(Utilities::fexists(this->get_output_directory() + "fastscape_silt_fraction_restart.txt"), + ExcMessage("Cannot open topography file to restart FastScape.")); + } + } + + // The first entry represents the minimum coordinates of the model domain, the second the model extent. + for (unsigned int d=0; dget_origin()[d]; + grid_extent[d].second = geometry->get_extents()[d]; + } + + // Get the x and y repetitions used in the parameter file so + // the FastScape cell size can be properly set. + const std::array repetitions = geometry->get_repetitions(); + + // Set number of x points, which is generally 1+(FastScape refinement level)^2. + // The FastScape refinement level is a combination of the maximum ASPECT refinement level + // at the surface and any additional refinement we want in FastScape. If + // repetitions are specified we need to adjust the number of points to match what ASPECT has, + // which can be determined by multiplying the points by the repetitions before adding 1. + // Finally, if ghost nodes are used we add two additional points on each side. + const unsigned int ghost_nodes = 2*use_ghost_nodes; + const unsigned int fastscape_refinement_level = maximum_surface_refinement_level + additional_refinement_levels; + const unsigned int fastscape_nodes = std::pow(2,fastscape_refinement_level); + fastscape_nx = fastscape_nodes * repetitions[0] + ghost_nodes + 1; + + // Size of FastScape cell. + fastscape_dx = (grid_extent[0].second)/(fastscape_nodes * repetitions[0]); + + // FastScape X extent, which is generally ASPECT's extent unless the ghost nodes are used, + // in which case 2 cells are added on either side. + fastscape_x_extent = (grid_extent[0].second) + fastscape_dx * ghost_nodes; + + // Sub intervals are 3 less than points, if including the ghost nodes. Otherwise 1 less. + table_intervals[0] = fastscape_nodes * repetitions[0]; + table_intervals[dim-1] = 1; + + if (dim == 2) + { + fastscape_dy = fastscape_dx; + fastscape_y_extent = round(fastscape_y_extent_2d/fastscape_dy)*fastscape_dy + fastscape_dy * ghost_nodes; + fastscape_ny = 1+fastscape_y_extent/fastscape_dy; + } + else + { + fastscape_ny = fastscape_nodes * repetitions[1] + ghost_nodes + 1; + fastscape_dy = (grid_extent[1].second)/(fastscape_nodes * repetitions[1]); + table_intervals[1] = fastscape_nodes * repetitions[1]; + fastscape_y_extent = (grid_extent[1].second) + fastscape_dy * ghost_nodes; + } + + // Create a folder for the FastScape visualization files. + Utilities::create_directory (this->get_output_directory() + "fastscape/", + this->get_mpi_communicator(), + false); + + last_output_time = 0; + } + + + template + void + FastScape::compute_velocity_constraints_on_boundary(const DoFHandler &mesh_deformation_dof_handler, + AffineConstraints &mesh_velocity_constraints, + const std::set &boundary_ids) const + { + + // Because there is no increase in time during timestep 0, we return and only + // initialize and run fastscape from timestep 1 and on. + if (this->get_timestep_number() == 0) + return; + + TimerOutput::Scope timer_section(this->get_computing_timer(), "FastScape plugin"); + + const unsigned int current_timestep = this->get_timestep_number (); + const double aspect_timestep_in_years = this->get_timestep() / year_in_seconds; + + // Find a FastScape timestep that is below our maximum timestep. + unsigned int fastscape_iterations = fastscape_steps_per_aspect_step; + double fastscape_timestep_in_years = aspect_timestep_in_years/fastscape_iterations; + while (fastscape_timestep_in_years>maximum_fastscape_timestep) + { + fastscape_iterations *= 2; + fastscape_timestep_in_years *= 0.5; + } + + // Vector to hold the velocities that represent the change to the surface. + const unsigned int fastscape_array_size = fastscape_nx*fastscape_ny; + std::vector mesh_velocity_z(fastscape_array_size); + + // FastScape requires multiple specially defined and ordered variables sent to its functions. To make + // the transfer of these down to one process easier, we first fill out a vector of local_aspect_values, + // then when we get down to one process we use these local_aspect_values to fill the double arrays + // in the order needed for FastScape. + std::vector> local_aspect_values = get_aspect_values(); + + // Run FastScape on single process. + if (Utilities::MPI::this_mpi_process(this->get_mpi_communicator()) == 0) + { + // Initialize the variables that will be sent to FastScape. + // Elevation is initialzied at a very high number so that we can later check that all points + // received data from ASPECT, and if not throw an assert. + std::vector elevation(fastscape_array_size, std::numeric_limits::max()); + std::vector velocity_x(fastscape_array_size); + std::vector velocity_y(fastscape_array_size); + std::vector velocity_z(fastscape_array_size); + std::vector bedrock_river_incision_rate_array(fastscape_array_size); + std::vector bedrock_transport_coefficient_array(fastscape_array_size); + std::vector basement(fastscape_array_size); + std::vector silt_fraction(fastscape_array_size); + std::vector elevation_old(fastscape_array_size); + + fill_fastscape_arrays(elevation, + bedrock_transport_coefficient_array, + bedrock_river_incision_rate_array, + velocity_x, + velocity_y, + velocity_z, + local_aspect_values); + + if (current_timestep == 1 || restart) + { + this->get_pcout() << " Initializing FastScape... " << (1+maximum_surface_refinement_level+additional_refinement_levels) << + " levels, cell size: " << fastscape_dx << " m." << std::endl; + + // Set ghost nodes before initializing. + if (use_ghost_nodes && !restart) + set_ghost_nodes(elevation, + velocity_x, + velocity_y, + velocity_z, + fastscape_timestep_in_years, + true); + + // If we are restarting from a checkpoint, load h values for FastScape instead of using the ASPECT values. + if (restart) + { + read_restart_files(elevation, + basement, + silt_fraction); + + restart = false; + } + + initialize_fastscape(elevation, + basement, + bedrock_transport_coefficient_array, + bedrock_river_incision_rate_array, + silt_fraction); + } + else + { + // If it isn't the first timestep we ignore initialization and instead copy all height values from FastScape. + // Generally, we overwrite the topography data from ASPECT as FastScape may be at a higher resolution. However, + // if we are not using FastScape to advect then we do not want to do this and instead use the ASPECT values. + if (fastscape_advection_uplift) + fastscape_copy_h_(elevation.data()); + } + + // Find the appropriate sediment rain based off the time interval. + const double time_in_years = this->get_time() / year_in_seconds; + auto it = std::lower_bound(sediment_rain_times.begin(), sediment_rain_times.end(), time_in_years); + const unsigned int inds = std::distance(sediment_rain_times.begin(), it); + const double sediment_rain = sediment_rain_rates[inds]; + + // Keep initial h values so we can calculate velocity later. + // In the first timestep, h will be given from other processes. + // In later timesteps, we copy h directly from FastScape. + std::mt19937 random_number_generator(fastscape_seed); + std::uniform_real_distribution random_distribution(-noise_elevation,noise_elevation); + for (unsigned int i=0; i 0 && use_marine_component) + { + // Only apply sediment rain to areas below sea level. + if (elevation[i] < sea_level) + { + // If the rain would put us above sea level, set height to sea level. + if (elevation[i] + sediment_rain*aspect_timestep_in_years > sea_level) + elevation[i] = sea_level; + else + elevation[i] = std::min(sea_level,elevation[i] + sediment_rain*aspect_timestep_in_years); + } + } + } + } + + // The ghost nodes are added as a single layer of points surrounding the entire model. + // For example, if ASPECT's surface mesh is a 2D surface that is 3x3 (nx x ny) points, + // FastScape will be set as a 2D 5x5 point surface. On return to ASPECT, the outer ghost nodes + // will be ignored, and ASPECT will see only the inner 3x3 surface of FastScape. + if (use_ghost_nodes) + set_ghost_nodes(elevation, + velocity_x, + velocity_y, + velocity_z, + fastscape_timestep_in_years, + false); + + // If specified, apply the orographic controls to the FastScape model. + if (use_orographic_controls) + apply_orographic_controls(elevation, + bedrock_transport_coefficient_array, + bedrock_river_incision_rate_array); + + // Set velocity components. + if (fastscape_advection_uplift) + { + fastscape_set_u_(velocity_z.data()); + fastscape_set_v_(velocity_x.data(), + velocity_y.data()); + } + + // Set h to new values, and erosional parameters if there have been changes. + fastscape_set_h_(elevation.data()); + + fastscape_set_erosional_parameters_(bedrock_river_incision_rate_array.data(), + &sediment_river_incision_rate, + &drainage_area_exponent_m, + &slope_exponent_n, + bedrock_transport_coefficient_array.data(), + &sediment_transport_coefficient, + &bedrock_deposition_g, + &sediment_deposition_g, + &slope_exponent_p); + + // Find timestep size, run fastscape, and make visualizations. + execute_fastscape(elevation, + bedrock_transport_coefficient_array, + velocity_x, + velocity_y, + velocity_z, + fastscape_timestep_in_years, + fastscape_iterations); + + // Write a file to store h, b & step for restarting. + // TODO: It would be good to roll this into the general ASPECT checkpointing, + // and when we do this needs to be changed. + if (((this->get_parameters().checkpoint_time_secs == 0) && + (this->get_parameters().checkpoint_steps > 0) && + ((current_timestep + 1) % this->get_parameters().checkpoint_steps == 0)) || + (this->get_time() == this->get_end_time() && this->get_timestepping_manager().need_checkpoint_on_terminate())) + { + save_restart_files(elevation, + basement, + silt_fraction); + } + + // Find out our velocities from the change in height. + // Where mesh_velocity_z is a vector of array size that exists on all processes. + for (unsigned int i=0; iget_mpi_communicator(), mesh_velocity_z, 0); + } + else + { + for (unsigned int i=0; iget_mpi_communicator()); + + // Check whether the FastScape mesh was filled with data. + const bool fastscape_mesh_filled = Utilities::MPI::broadcast (this->get_mpi_communicator(), true, 0); + if (fastscape_mesh_filled != true) + throw aspect::QuietException(); + + // This is called solely so we can set the timer and will return immediately. + execute_fastscape(mesh_velocity_z, + mesh_velocity_z, + mesh_velocity_z, + mesh_velocity_z, + mesh_velocity_z, + aspect_timestep_in_years, + fastscape_steps_per_aspect_step); + + mesh_velocity_z = Utilities::MPI::broadcast(this->get_mpi_communicator(), mesh_velocity_z, 0); + } + + // Get the sizes needed for a data table of the mesh velocities. + TableIndices size_idx; + for (unsigned int d=0; d velocity_table = fill_data_table(mesh_velocity_z, size_idx, fastscape_nx, fastscape_ny); + + // As our grid_extent variable end points do not account for the change related to an origin + // not at 0, we adjust this here into an interpolation extent. + std::array,dim> interpolation_extent; + for (unsigned int d=0; d *velocities; + Functions::InterpolatedUniformGridData velocities (interpolation_extent, + table_intervals, + velocity_table); + + VectorFunctionFromScalarFunctionObject vector_function_object( + [&](const Point &p) -> double + { + return velocities.value(p); + }, + dim-1, + dim); + + VectorTools::interpolate_boundary_values (mesh_deformation_dof_handler, + *boundary_ids.begin(), + vector_function_object, + mesh_velocity_constraints); + } + + + template + std::vector> + FastScape::get_aspect_values() const + { + + const types::boundary_id relevant_boundary = this->get_geometry_model().translate_symbolic_boundary_name_to_id ("top"); + std::vector> local_aspect_values(dim+2, std::vector()); + + // Get a quadrature rule that exists only on the corners, and increase the refinement if specified. + const QIterated face_corners (QTrapez<1>(), + std::pow(2,additional_refinement_levels+surface_refinement_difference)); + + FEFaceValues fe_face_values (this->get_mapping(), + this->get_fe(), + face_corners, + update_values | + update_quadrature_points); + + for (const auto &cell : this->get_dof_handler().active_cell_iterators()) + if (cell->is_locally_owned() && cell->at_boundary()) + for (unsigned int face_no = 0; face_no < GeometryInfo::faces_per_cell; ++face_no) + if (cell->face(face_no)->at_boundary()) + { + if ( cell->face(face_no)->boundary_id() != relevant_boundary) + continue; + + std::vector> vel(face_corners.size()); + fe_face_values.reinit(cell, face_no); + fe_face_values[this->introspection().extractors.velocities].get_function_values(this->get_solution(), vel); + + for (unsigned int corner = 0; corner < face_corners.size(); ++corner) + { + const Point vertex = fe_face_values.quadrature_point(corner); + + // Find what x point we're at. Add 1 or 2 depending on if ghost nodes are used. + // Subtract the origin point so that it corresponds to an origin of 0,0 in FastScape. + const double indx = 1+use_ghost_nodes+(vertex(0) - grid_extent[0].first)/fastscape_dx; + + // The quadrature rule is created so that there are enough interpolation points in the + // lowest resolved ASPECT surface cell to fill out the FastScape mesh. However, as the + // same rule is used for all cell sizes, higher resolution areas will have interpolation + // points that do not correspond to a fastscape node. In which case, indx will not be a + // whole number and we can ignore the point. + if (std::abs(indx - round(indx)) >= node_tolerance) + continue; + + + // If we're in 2D, we want to take the values and apply them to every row of X points. + if (dim == 2) + { + for (unsigned int ys=0; ys= node_tolerance) + continue; + + const double index = round((indy-1))*fastscape_nx+round(indx); + + local_aspect_values[0].push_back(vertex(dim-1) - grid_extent[dim-1].second); //z component + local_aspect_values[1].push_back(index-1); + + for (unsigned int d=0; d + void FastScape::fill_fastscape_arrays(std::vector &elevation, + std::vector &bedrock_transport_coefficient_array, + std::vector &bedrock_river_incision_rate_array, + std::vector &velocity_x, + std::vector &velocity_y, + std::vector &velocity_z, + std::vector> &local_aspect_values) const + { + for (unsigned int i=0; iget_mpi_communicator()); ++p) + { + // First, find out the size of the array a process wants to send. + MPI_Status status; + MPI_Probe(p, 42, this->get_mpi_communicator(), &status); + int incoming_size = 0; + MPI_Get_count(&status, MPI_DOUBLE, &incoming_size); + + // Resize the array so it fits whatever the process sends. + for (unsigned int i=0; iget_mpi_communicator(), &status); + + // Now, place the numbers into the correct place based off the index. + for (unsigned int i=0; i::max() && !is_ghost_node(i,false)) + fastscape_mesh_filled = false; + } + + Utilities::MPI::broadcast(this->get_mpi_communicator(), fastscape_mesh_filled, 0); + AssertThrow (fastscape_mesh_filled == true, + ExcMessage("The FastScape mesh is missing data. A likely cause for this is that the " + "maximum surface refinement or surface refinement difference are improperly set.")); + } + + + template + void FastScape::initialize_fastscape(std::vector &elevation, + std::vector &basement, + std::vector &bedrock_transport_coefficient_array, + std::vector &bedrock_river_incision_rate_array, + std::vector &silt_fraction) const + { + Assert (Utilities::MPI::this_mpi_process(this->get_mpi_communicator()) == 0, ExcInternalError()); + + const unsigned int current_timestep = this->get_timestep_number (); + + // Initialize FastScape with grid and extent. + fastscape_init_(); + fastscape_set_nx_ny_(&fastscape_nx, + &fastscape_ny); + fastscape_setup_(); + fastscape_set_xl_yl_(&fastscape_x_extent, + &fastscape_y_extent); + + // Set boundary conditions + fastscape_set_bc_(&fastscape_boundary_conditions); + + // Initialize topography + fastscape_init_h_(elevation.data()); + + // Set erosional parameters. + fastscape_set_erosional_parameters_(bedrock_river_incision_rate_array.data(), + &sediment_river_incision_rate, + &drainage_area_exponent_m, + &slope_exponent_n, + bedrock_transport_coefficient_array.data(), + &sediment_transport_coefficient, + &bedrock_deposition_g, + &sediment_deposition_g, + &slope_exponent_p); + + if (use_marine_component) + fastscape_set_marine_parameters_(&sea_level, + &sand_surface_porosity, + &silt_surface_porosity, + &sand_efold_depth, + &silt_efold_depth, + &sand_silt_ratio, + &sand_silt_averaging_depth, + &sand_transport_coefficient, + &silt_transport_coefficient); + + // Only set the basement and silt_fraction if it's a restart + if (current_timestep != 1) + { + fastscape_set_basement_(basement.data()); + if (use_marine_component) + fastscape_init_f_(silt_fraction.data()); + } + + } + + + template + void FastScape::execute_fastscape(std::vector &elevation, + std::vector &extra_vtk_field, + std::vector &velocity_x, + std::vector &velocity_y, + std::vector &velocity_z, + const double &fastscape_timestep_in_years, + const unsigned int &fastscape_iterations) const + { + TimerOutput::Scope timer_section(this->get_computing_timer(), "Execute FastScape"); + if (Utilities::MPI::this_mpi_process(this->get_mpi_communicator()) != 0) + return; + + // Because on the first timestep we will create an initial VTK file before running FastScape + // and a second after, we first set the visualization step to zero. + unsigned int visualization_step = 0; + const unsigned int current_timestep = this->get_timestep_number (); + std::string dirname = (this->get_output_directory() + "fastscape/"); + const char *dirname_char=dirname.c_str(); + const unsigned int dirname_length = dirname.length(); + + // Set time step + fastscape_set_dt_(&fastscape_timestep_in_years); + this->get_pcout() << " Executing FastScape... " << (fastscape_iterations) << " timesteps of " << fastscape_timestep_in_years << " years." << std::endl; + { + // If it is the first timestep, write an initial VTK file. + if (current_timestep == 1) + { + this->get_pcout() << " Writing initial VTK..." << std::endl; + // The fastscape by default visualizes a field called HHHHH, + // and the parameter this shows will be whatever is given as the first + // position. At the moment it visualizes the bedrock diffusivity. + fastscape_named_vtk_(extra_vtk_field.data(), + &vexp, + &visualization_step, + dirname_char, + &dirname_length); + } + + for (unsigned int fastscape_iteration = 0; fastscape_iteration < fastscape_iterations; ++fastscape_iteration) + { + fastscape_execute_step_(); + + // If we are using the ghost nodes we want to reset them every fastscape timestep. + if(use_ghost_nodes) + { + fastscape_copy_h_(elevation.data()); + + set_ghost_nodes(elevation, + velocity_x, + velocity_y, + velocity_z, + fastscape_timestep_in_years, + false); + + // Set velocity components. + if (fastscape_advection_uplift) + { + fastscape_set_u_(velocity_z.data()); + fastscape_set_v_(velocity_x.data(), + velocity_y.data()); + } + + // Set h to new values, and erosional parameters if there have been changes. + fastscape_set_h_(elevation.data()); + } + } + + // Copy h values. + fastscape_copy_h_(elevation.data()); + + + // Determine whether to create a VTK file this timestep. + bool write_vtk = false; + + if (this->get_time() >= last_output_time + output_interval || this->get_time() == this->get_end_time()) + { + write_vtk = true; + + if (output_interval > 0) + { + // We need to find the last time output was supposed to be written. + // this is the last_output_time plus the largest positive multiple + // of output_intervals that passed since then. We need to handle the + // edge case where last_output_time+output_interval==current_time, + // we did an output and std::floor sadly rounds to zero. This is done + // by forcing std::floor to round 1.0-eps to 1.0. + const double magic = 1.0+2.0*std::numeric_limits::epsilon(); + last_output_time = last_output_time + std::floor((this->get_time()-last_output_time)/output_interval*magic) * output_interval/magic; + } + } + + if (write_vtk) + { + this->get_pcout() << " Writing FastScape VTK..." << std::endl; + visualization_step = current_timestep; + fastscape_named_vtk_(extra_vtk_field.data(), + &vexp, + &visualization_step, + dirname_char, + &dirname_length); + } + } + } + + + template + void FastScape::apply_orographic_controls(const std::vector &elevation, + std::vector &bedrock_transport_coefficient_array, + std::vector &bedrock_river_incision_rate_array) const + { + // First for the wind barrier, we find the maximum height and index + // along each line in the x and y direction. + // If wind is east or west, we find maximum point for each ny row along x. + const unsigned int fastscape_array_size = fastscape_nx*fastscape_ny; + std::vector> max_elevation_along_x(2, std::vector(fastscape_ny, 0.0)); + if (wind_direction == 0 || wind_direction == 1) + { + for (unsigned int i=0; i max_elevation_along_x[0][i]) + { + // Maximum elevation value along the ny row. + max_elevation_along_x[0][i] = elevation[fastscape_nx*i+j]; + // Location of maximum elevation. + max_elevation_along_x[1][i] = j; + } + } + } + } + + // If wind is north or south, we find maximum point for each nx row along y. + std::vector> max_elevation_along_y(2, std::vector(fastscape_nx, 0.0)); + if (wind_direction == 2 || wind_direction == 3) + { + for (unsigned int i=0; i max_elevation_along_y[0][i]) + { + max_elevation_along_y[0][i] = elevation[fastscape_nx*j+i]; + max_elevation_along_y[1][i] = j; + } + } + } + } + + // Now we loop through all the points again and apply the factors. + std::vector control_applied(fastscape_array_size, 0); + for (unsigned int i=0; i wind_barrier_elevation) && (j < max_elevation_along_x[1][i]) ) + { + bedrock_river_incision_rate_array[fastscape_nx*i+j] *= wind_barrier_erosional_factor; + bedrock_transport_coefficient_array[fastscape_nx*i+j] *= wind_barrier_erosional_factor; + control_applied[fastscape_nx*i+j] = 1; + } + break; + } + case 1 : + { + if ( (max_elevation_along_x[0][i] > wind_barrier_elevation) && (j > max_elevation_along_x[1][i]) ) + { + bedrock_river_incision_rate_array[fastscape_nx*i+j] *= wind_barrier_erosional_factor; + bedrock_transport_coefficient_array[fastscape_nx*i+j] *= wind_barrier_erosional_factor; + control_applied[fastscape_nx*i+j] = 1; + } + break; + } + case 2 : + { + if ( (max_elevation_along_y[0][j] > wind_barrier_elevation) && (i > max_elevation_along_y[1][j]) ) + { + bedrock_river_incision_rate_array[fastscape_nx*i+j] *= wind_barrier_erosional_factor; + bedrock_transport_coefficient_array[fastscape_nx*i+j] *= wind_barrier_erosional_factor; + control_applied[fastscape_nx*i+j] = 1; + } + break; + } + case 3 : + { + if ( (max_elevation_along_y[0][j] > wind_barrier_elevation) && (i < max_elevation_along_y[1][j]) ) + { + bedrock_river_incision_rate_array[fastscape_nx*i+j] *= wind_barrier_erosional_factor; + bedrock_transport_coefficient_array[fastscape_nx*i+j] *= wind_barrier_erosional_factor; + control_applied[fastscape_nx*i+j] = 1; + } + break; + } + default : + AssertThrow(false, ExcMessage("This does not correspond with a wind direction.")); + break; + } + + // If we are above the flat elevation and stack controls, apply the flat elevation factor. If we are not + // stacking controls, apply the factor if the wind barrier was not applied to this point. + if (elevation[fastscape_nx*i+j] > flat_elevation) + { + if ( stack_controls==true || !stack_controls && (control_applied[fastscape_nx*i+j]==0) ) + { + bedrock_river_incision_rate_array[fastscape_nx*i+j] *= flat_erosional_factor; + bedrock_transport_coefficient_array[fastscape_nx*i+j] *= flat_erosional_factor; + } + // If we are not stacking controls and the wind barrier was applied to this point, only + // switch to this control if the factor is greater. + else if ( stack_controls==false && (control_applied[fastscape_nx*i+j]==1) && (flat_erosional_factor > wind_barrier_erosional_factor) ) + { + if ( wind_barrier_erosional_factor != 0) + { + bedrock_river_incision_rate_array[fastscape_nx*i+j] = (bedrock_river_incision_rate_array[fastscape_nx*i+j]/wind_barrier_erosional_factor)*flat_erosional_factor; + bedrock_transport_coefficient_array[fastscape_nx*i+j] = (bedrock_transport_coefficient_array[fastscape_nx*i+j]/wind_barrier_erosional_factor)*flat_erosional_factor; + } + // If a wind barrier factor of zero was applied for some reason, we set it back to the default + // and apply the flat_erosional_factor. + else + { + bedrock_river_incision_rate_array[fastscape_nx*i+j] = bedrock_river_incision_rate*flat_erosional_factor; + bedrock_transport_coefficient_array[fastscape_nx*i+j] = bedrock_transport_coefficient*flat_erosional_factor; + } + } + } + } + } + } + + + template + void FastScape::set_ghost_nodes(std::vector &elevation, + std::vector &velocity_x, + std::vector &velocity_y, + std::vector &velocity_z, + const double &fastscape_timestep_in_years, + const bool init) const + { + // Copy the slopes at each point, this will be used to set an H + // at the ghost nodes if a boundary mass flux is given. + const unsigned int fastscape_array_size = fastscape_nx*fastscape_ny; + std::vector slopep(fastscape_array_size); + + if (!init) + fastscape_copy_slope_(slopep.data()); + + // Here we set the ghost nodes at the left and right boundaries. In most cases, + // this involves setting the node to the same values of v and h as the inward node. + // With the inward node being above or below for the bottom and top rows of ghost nodes, + // or to the left and right for the right and left columns of ghost nodes. + for (unsigned int j=0; j 0) + { + slope = 0; + if (j == 0) + slope = left_flux / bedrock_transport_coefficient - std::tan(slopep[index_left + fastscape_nx + 1] * numbers::PI / 180.); + else if (j == (fastscape_ny - 1)) + slope = left_flux / bedrock_transport_coefficient - std::tan(slopep[index_left - fastscape_nx + 1] * numbers::PI / 180.); + else + slope = left_flux / bedrock_transport_coefficient - std::tan(slopep[index_left + 1] * numbers::PI / 180.); + + elevation[index_left] = elevation[index_left] + slope * 2 * fastscape_dx; + } + else + elevation[index_left] = elevation[index_left + 1]; + } + + if (right == 0 && !init) + { + + if (right_flux > 0) + { + slope = 0; + if (j == 0) + slope = right_flux / bedrock_transport_coefficient - std::tan(slopep[index_right + fastscape_nx - 1] * numbers::PI / 180.); + else if (j == (fastscape_ny - 1)) + slope = right_flux / bedrock_transport_coefficient - std::tan(slopep[index_right - fastscape_nx - 1] * numbers::PI / 180.); + else + slope = right_flux / bedrock_transport_coefficient - std::tan(slopep[index_right - 1] * numbers::PI / 180.); + + elevation[index_right] = elevation[index_right] + slope * 2 * fastscape_dx; + } + else + elevation[index_right] = elevation[index_right - 1]; + + + } + + // If the boundaries are periodic, then we look at the velocities on both sides of the + // model, and set the ghost node according to the direction of flow. As FastScape will + // receive all velocities it will have a direction, and we only need to look at the (non-ghost) + // nodes directly to the left and right. + if (left == 0 && right == 0 || leftright_ghost_nodes_periodic == true) + { + // First we assume that flow is going to the left. + unsigned int side = index_left; + unsigned int op_side = index_right; + + // Indexing depending on which side the ghost node is being set to. + int jj = 1; + + // If nodes on both sides are going the same direction, then set the respective + // ghost nodes to equal these sides. By doing this, the ghost nodes at the opposite + // side of flow will work as a mirror mimicking what is happening on the other side. + if (velocity_x[index_right-1] > 0 && velocity_x[index_left+1] >= 0) + { + side = index_right; + op_side = index_left; + jj = -1; + } + else if (velocity_x[index_right-1] <= 0 && velocity_x[index_left+1] < 0) + { + side = index_left; + op_side = index_right; + jj = 1; + } + else + continue; + + // Now set the nodes for periodic boundaries. As an example, assume we have 9 FastScape nodes in x: + // + // 0 - 1 - 2 - 3 - 4 - 5 - 6 - 7 - 8 + // + // Of these 9 nodes, 0 and 8 are ghost nodes and 1 and 7 are the periodic ASPECT boundaries. + // If we assume that the horizontal ASPECT direction of travel is towards node 7, then we would + // set the ghost node 8 velocities and heights to that of node 2, ghost node 0 to node 6, and + // ASPECT boundary node 1 to ASPECT boundary node 7. E.g., based on the fastscape values for + // vx, vy, vz, and elevation, the nodes could be rewritten as: + // + // 6 - 7 - 2 - 3 - 4 - 5 - 6 - 7 - 2 + // + // This makes it so that effectively both periodic ASPECT boundaries see the same + // topography on either side of them to try and make sure they experience the same + // amount of diffusion and SPL. + velocity_x[index_right] = velocity_x[index_left+2]; + velocity_y[index_right] = velocity_y[index_left+2]; + velocity_z[index_right] = velocity_z[index_left+2] + (elevation[index_left+2] - elevation[index_right])/fastscape_timestep_in_years; + + velocity_x[index_left] = velocity_x[index_right-2]; + velocity_y[index_left] = velocity_y[index_right-2]; + velocity_z[index_left] = velocity_z[index_right-2] + (elevation[index_right-2] - elevation[index_left])/fastscape_timestep_in_years; + + // Set opposing ASPECT boundary so it's periodic. + elevation[op_side-jj] = elevation[side+jj]; + velocity_x[op_side-jj] = velocity_x[side+jj]; + velocity_y[op_side-jj] = velocity_y[side+jj]; + velocity_z[op_side-jj] = velocity_z[side+jj]; + + } + } + + // Now do the same for the top and bottom ghost nodes. + for (unsigned int j=0; j 0) + { + slope = 0; + if (j == 0) + slope = top_flux / bedrock_transport_coefficient - std::tan(slopep[index_top - fastscape_nx + 1] * numbers::PI / 180.); + else if (j == (fastscape_nx - 1)) + slope = top_flux / bedrock_transport_coefficient - std::tan(slopep[index_top - fastscape_nx - 1] * numbers::PI / 180.); + else + slope = top_flux / bedrock_transport_coefficient - std::tan(slopep[index_top - fastscape_nx] * numbers::PI / 180.); + + elevation[index_top] = elevation[index_top] + slope * 2 * fastscape_dx; + } + else + elevation[index_top] = elevation[index_top - fastscape_nx]; + } + + if (bottom == 0 && !init) + { + if (left_flux > 0) + { + slope = 0; + if (j == 0) + slope = bottom_flux / bedrock_transport_coefficient - std::tan(slopep[index_bot + fastscape_nx + 1] * numbers::PI / 180.); + else if (j == (fastscape_nx - 1)) + slope = bottom_flux / bedrock_transport_coefficient - std::tan(slopep[index_bot + fastscape_nx - 1] * numbers::PI / 180.); + else + slope = bottom_flux / bedrock_transport_coefficient - std::tan(slopep[index_bot + fastscape_nx] * numbers::PI / 180.); + + elevation[index_bot] = elevation[index_bot] + slope * 2 * fastscape_dx; + } + else + elevation[index_bot] = elevation[index_bot + fastscape_nx]; + } + + if (bottom == 0 && top == 0 || topbottom_ghost_nodes_periodic == true) + { + unsigned int side = index_bot; + unsigned int op_side = index_top; + int jj = fastscape_nx; + + if (velocity_y[index_bot+fastscape_nx-1] > 0 && velocity_y[index_top-fastscape_nx-1] >= 0) + { + side = index_top; + op_side = index_bot; + jj = -fastscape_nx; + } + else if (velocity_y[index_bot+fastscape_nx-1] <= 0 && velocity_y[index_top-fastscape_nx-1] < 0) + { + side = index_bot; + op_side = index_top; + jj = fastscape_nx; + } + else + continue; + + // Set top ghost node + velocity_x[index_top] = velocity_x[index_bot + 2*fastscape_nx]; + velocity_y[index_top] = velocity_y[index_bot + 2*fastscape_nx]; + velocity_z[index_top] = velocity_z[index_bot + 2*fastscape_nx] + (elevation[index_bot + 2*fastscape_nx] - elevation[index_top])/fastscape_timestep_in_years; + + // Set bottom ghost node + velocity_x[index_bot] = velocity_x[index_top - 2*fastscape_nx]; + velocity_y[index_bot] = velocity_y[index_top - 2*fastscape_nx]; + velocity_z[index_bot] = velocity_z[index_top - 2*fastscape_nx] + (elevation[index_top - 2*fastscape_nx] - elevation[index_bot])/fastscape_timestep_in_years; + + // Set opposing ASPECT boundary so it's periodic. + elevation[op_side-jj] = elevation[side+jj]; + velocity_x[op_side-jj] = velocity_x[side+jj]; + velocity_y[op_side-jj] = velocity_y[side+jj]; + velocity_z[op_side-jj] = velocity_z[side+jj]; + } + } + } + + template + bool FastScape::is_ghost_node(const unsigned int &index, + const bool &exclude_boundaries) const + { + if(use_ghost_nodes == false && exclude_boundaries == false) + return false; + + const unsigned int row = index / fastscape_nx; // Calculate the row index + const unsigned int col = index % fastscape_nx; // Calculate the column index + + // If we are at a boundary node and ghost nodes are enabled + // or we are excluding the boundaries then return true. + if (row == 0 || row == fastscape_ny-1 || col == 0 || col == fastscape_nx-1) + return true; + else + return false; + } + + + template + Table + FastScape::fill_data_table(std::vector &values, + TableIndices &size_idx, + const unsigned int &fastscape_nx, + const unsigned int &fastscape_ny) const + { + // Create data table based off of the given size. + Table data_table; + data_table.TableBase::reinit(size_idx); + TableIndices idx; + + // Loop through the data table and fill it with the velocities from FastScape. + if (dim == 2) + { + std::vector values_2d(fastscape_nx); + + for (unsigned int x=use_ghost_nodes; x<(fastscape_nx-use_ghost_nodes); ++x) + { + // If we do not average the values, then use a slice near the center. + if (!average_out_of_plane_surface_topography) + { + const unsigned int index = x+fastscape_nx*(round((fastscape_ny-use_ghost_nodes)/2)); + + // If we are using the ghost nodes, then the x value locations need to be shifted back 1 + // e.g., given a 4x4 mesh an index of 5 would correspond to an x of 1 and y of 1 in the loop, + // but should correspond to 0,0 for ASPECT. + values_2d[x-use_ghost_nodes] = values[index]; + } + // Here we use average velocities across the y nodes, excluding the ghost nodes (top and bottom row). + // Note: If ghost nodes are turned off, boundary effects may influence this. + else + { + for (unsigned int y=use_ghost_nodes; y<(fastscape_ny-use_ghost_nodes); ++y) + { + const unsigned int index = x+fastscape_nx*y; + values_2d[x-use_ghost_nodes] += values[index]; + } + values_2d[x-use_ghost_nodes] = values_2d[x-use_ghost_nodes]/(fastscape_ny-2*use_ghost_nodes); + } + } + + for (unsigned int x=0; x + void FastScape::read_restart_files(std::vector &elevation, + std::vector &basement, + std::vector &silt_fraction) const + { + this->get_pcout() << " Loading FastScape restart file... " << std::endl; + + // Create variables for output directory and restart file + const unsigned int fastscape_array_size = fastscape_nx*fastscape_ny; + std::string dirname = this->get_output_directory(); + const std::string restart_filename_elevation = dirname + "fastscape_elevation_restart.txt"; + const std::string restart_filename_basement = dirname + "fastscape_basement_restart.txt"; + const std::string restart_filename_silt_fraction = dirname + "fastscape_silt_fraction_restart.txt"; + const std::string restart_filename_time = dirname + "fastscape_last_output_time.txt"; + + // Load in h values. + std::ifstream in_elevation(restart_filename_elevation); + AssertThrow (in_elevation, ExcIO()); + { + unsigned int line = 0; + while (line < fastscape_array_size) + { + in_elevation >> elevation[line]; + line++; + } + } + + // Load in b values. + std::ifstream in_basement(restart_filename_basement); + AssertThrow (in_basement, ExcIO()); + { + unsigned int line = 0; + while (line < fastscape_array_size) + { + in_basement >> basement[line]; + line++; + } + } + + // Load in silt_fraction values if + // marine sediment transport and deposition is active. + if (use_marine_component) + { + std::ifstream in_silt_fraction(restart_filename_silt_fraction); + AssertThrow (in_silt_fraction, ExcIO()); + + if (sand_surface_porosity > 0. || silt_surface_porosity > 0.) + this->get_pcout() << " Restarting runs with nonzero porosity can lead to a different system after restart. " << std::endl; + unsigned int line = 0; + while (line < fastscape_array_size) + { + in_silt_fraction >> silt_fraction[line]; + line++; + } + } + + // Now load the last output at time of restart. + // this allows us to correctly track when to call + // FastScape to make new VTK files. + std::ifstream in_last_ouput_time(restart_filename_time); + AssertThrow (in_last_ouput_time, ExcIO()); + { + in_last_ouput_time >> last_output_time; + } + } + + template + void FastScape::save_restart_files(const std::vector &elevation, + std::vector &basement, + std::vector &silt_fraction) const + { + this->get_pcout() << " Writing FastScape restart file... " << std::endl; + + // Create variables for output directory and restart file + const unsigned int fastscape_array_size = fastscape_nx*fastscape_ny; + std::string dirname = this->get_output_directory(); + const std::string restart_filename_elevation = dirname + "fastscape_elevation_restart.txt"; + const std::string restart_filename_basement = dirname + "fastscape_basement_restart.txt"; + const std::string restart_filename_silt_fraction = dirname + "fastscape_silt_fraction_restart.txt"; + const std::string restart_filename_time = dirname + "fastscape_last_output_time.txt"; + + std::ofstream out_elevation(restart_filename_elevation); + std::ofstream out_basement(restart_filename_basement); + std::ofstream out_silt_fraction(restart_filename_silt_fraction); + std::ofstream out_last_output_time(restart_filename_time); + std::stringstream buffer_basement; + std::stringstream buffer_elevation; + std::stringstream buffer_silt_fraction; + std::stringstream buffer_time; + + fastscape_copy_basement_(basement.data()); + + // If marine sediment transport and deposition is active, + // we also need to store the silt fraction. + if (use_marine_component) + fastscape_copy_f_(silt_fraction.data()); + + out_last_output_time << last_output_time << "\n"; + + for (unsigned int i = 0; i < fastscape_array_size; ++i) + { + buffer_elevation << elevation[i] << "\n"; + buffer_basement << basement[i] << "\n"; + if (use_marine_component) + buffer_silt_fraction << silt_fraction[i] << "\n"; + } + + out_elevation << buffer_elevation.str(); + out_basement << buffer_basement.str(); + if (use_marine_component) + out_silt_fraction << buffer_silt_fraction.str(); + } + + template + void FastScape::declare_parameters(ParameterHandler &prm) + { + prm.enter_subsection ("Mesh deformation"); + { + prm.enter_subsection ("Fastscape"); + { + prm.declare_entry("Number of fastscape timesteps per aspect timestep", "5", + Patterns::Integer(), + "Initial number of fastscape time steps per ASPECT timestep, this value will double if" + "the FastScape timestep is above the maximum FastScape timestep."); + prm.declare_entry("Maximum timestep length", "10e3", + Patterns::Double(0), + "Maximum timestep for FastScape. Units: $\\{yrs}$"); + prm.declare_entry("Vertical exaggeration", "-1", + Patterns::Double(), + "Vertical exaggeration for FastScape's VTK file. -1 outputs topography, basement, and sealevel."); + prm.declare_entry("Additional fastscape refinement", "0", + Patterns::Integer(), + "How many levels above ASPECT FastScape should be refined."); + prm.declare_entry ("Average out of plane surface topography in 2d", "true", + Patterns::Bool (), + "If this is set to false, then a 2D model will only consider the " + "center slice FastScape gives. If set to true, then ASPECT will" + "average the mesh along Y excluding the ghost nodes."); + prm.declare_entry("Fastscape seed", "1000", + Patterns::Integer(), + "Seed used for adding an initial noise to FastScape topography based on the initial noise magnitude."); + prm.declare_entry("Maximum surface refinement level", "1", + Patterns::Integer(), + "This should be set to the highest ASPECT refinement level expected at the surface."); + prm.declare_entry("Surface refinement difference", "0", + Patterns::Integer(), + "The difference between the lowest and highest refinement level at the surface. E.g., if three resolution " + "levels are expected, this would be set to 2."); + prm.declare_entry ("Use marine component", "false", + Patterns::Bool (), + "Flag to use the marine component of FastScape."); + prm.declare_entry("Y extent in 2d", "100000", + Patterns::Double(), + "FastScape Y extent when using a 2D ASPECT model. Units: $\\{m}$"); + prm.declare_entry ("Use ghost nodes", "true", + Patterns::Bool (), + "Flag to use ghost nodes"); + prm.declare_entry ("Uplift and advect with fastscape", "true", + Patterns::Bool (), + "Flag to use FastScape advection and uplift."); + prm.declare_entry("Node tolerance", "0.001", + Patterns::Double(), + "Node tolerance for how close an ASPECT node must be to the FastScape node for the value to be transferred."); + prm.declare_entry ("Sediment rain rates", "0,0", + Patterns::List (Patterns::Double(0)), + "Sediment rain rates given as a list 1 greater than the number of sediment rain time intervals. E.g, " + " If the time interval is given at 5 Myr, there will be one value for 0-5 Myr model time and a second value " + " for 5+ Myr. Units: $\\{m/yr}$"); + prm.declare_entry ("Sediment rain time intervals", "0", + Patterns::List (Patterns::Double(0)), + "A list of times to change the sediment rain rate. Units: $\\{yrs}$"); + prm.declare_entry("Initial noise magnitude", "5", + Patterns::Double(), + "Maximum topography change from the initial noise. Units: $\\{m}$"); + + prm.enter_subsection ("Boundary conditions"); + { + prm.declare_entry ("Front", "1", + Patterns::Integer (0, 1), + "Front (bottom) boundary condition, where 1 is fixed and 0 is reflective."); + prm.declare_entry ("Right", "1", + Patterns::Integer (0, 1), + "Right boundary condition, where 1 is fixed and 0 is reflective."); + prm.declare_entry ("Back", "1", + Patterns::Integer (0, 1), + "Back (top) boundary condition, where 1 is fixed and 0 is reflective."); + prm.declare_entry ("Left", "1", + Patterns::Integer (0, 1), + "Left boundary condition, where 1 is fixed and 0 is reflective."); + prm.declare_entry("Left mass flux", "0", + Patterns::Double(), + "Flux per unit length through left boundary. Units: $\\{m^2/yr}$ "); + prm.declare_entry("Right mass flux", "0", + Patterns::Double(), + "Flux per unit length through right boundary. Units: $\\{m^2/yr}$ "); + prm.declare_entry("Back mass flux", "0", + Patterns::Double(), + "Flux per unit length through back boundary. Units: $\\{m^2/yr}$ "); + prm.declare_entry("Front mass flux", "0", + Patterns::Double(), + "Flux per unit length through front boundary. Units: $\\{m^2/yr}$ "); + prm.declare_entry ("Back front ghost nodes periodic", "false", + Patterns::Bool (), + "Whether to set the ghost nodes at the FastScape back and front boundary " + "to periodic even if 'Back' and 'Front' are set to fixed boundary."); + prm.declare_entry ("Left right ghost nodes periodic", "false", + Patterns::Bool (), + "Whether to set the ghost nodes at the FastScape left and right boundary " + "to periodic even if 'Left' and 'Right' are set to fixed boundary."); + } + prm.leave_subsection(); + + prm.enter_subsection ("Erosional parameters"); + { + prm.declare_entry("Drainage area exponent", "0.4", + Patterns::Double(), + "Exponent for drainage area."); + prm.declare_entry("Slope exponent", "1", + Patterns::Double(), + "The slope exponent for SPL (n). Generally m/n should equal approximately 0.4"); + prm.declare_entry("Multi-direction slope exponent", "1", + Patterns::Double(), + "Exponent to determine the distribution from the SPL to neighbor nodes, with" + "10 being steepest decent and 1 being more varied."); + prm.declare_entry("Bedrock deposition coefficient", "1", + Patterns::Double(), + "Deposition coefficient for bedrock."); + prm.declare_entry("Sediment deposition coefficient", "-1", + Patterns::Double(), + "Deposition coefficient for sediment, -1 sets this to teh same as the bedrock deposition coefficient."); + prm.declare_entry("Bedrock river incision rate", "1e-5", + Patterns::Double(), + "River incision rate for bedrock in the Stream Power Law. Units: $\\{m^(1-2*drainage_area_exponent)/yr}$"); + prm.declare_entry("Sediment river incision rate", "-1", + Patterns::Double(), + "River incision rate for sediment in the Stream Power Law. -1 sets this to the bedrock river incision rate. Units: $\\{m^(1-2*drainage_area_exponent)/yr}$ "); + prm.declare_entry("Bedrock diffusivity", "1e-2", + Patterns::Double(), + "Transport coefficient (diffusivity) for bedrock. Units: $\\{m^2/yr}$ "); + prm.declare_entry("Sediment diffusivity", "-1", + Patterns::Double(), + "Transport coefficient (diffusivity) for sediment. -1 sets this to the bedrock diffusivity. Units: $\\{m^2/yr}$"); + prm.declare_entry("Orographic elevation control", "2000", + Patterns::Integer(), + "Above this height, the elevation factor is applied. Units: $\\{m}$"); + prm.declare_entry("Orographic wind barrier height", "500", + Patterns::Integer(), + "When terrain reaches this height the wind barrier factor is applied. Units: $\\{m}$"); + prm.declare_entry("Elevation factor", "1", + Patterns::Double(), + "Amount to multiply the bedrock river incision rate nad transport coefficient by past the given orographic elevation control."); + prm.declare_entry("Wind barrier factor", "1", + Patterns::Double(), + "Amount to multiply the bedrock river incision rate nad transport coefficient by past given wind barrier height."); + prm.declare_entry ("Stack orographic controls", "true", + Patterns::Bool (), + "Whether or not to apply both controls to a point, or only a maximum of one set as the wind barrier."); + prm.declare_entry ("Flag to use orographic controls", "false", + Patterns::Bool (), + "Whether or not to apply orographic controls."); + prm.declare_entry ("Wind direction", "west", + Patterns::Selection("east|west|south|north"), + "This parameter assumes a wind direction, deciding which side is reduced from the wind barrier."); + prm.declare_entry ("Use a fixed erosional base level", "false", + Patterns::Bool (), + "Whether or not to use an erosional base level that differs from sea level. Setting this parameter to " + "true will set all ghost nodes of fixed FastScape boundaries to the height you specify in " + "'set Erosional base level'. \nThis can make " + "sense for a continental model where the model surrounding topography is assumed above sea level, " + "e.g. highlands. If the sea level would be used as an erosional base level in this case, all topography " + "erodes away with lots of 'sediment volume' lost through the sides of the model. This is mostly " + "important, when there are mountains in the middle of the model, while it is less important when there " + "is lower relief in the middle of the model. \n" + "In the FastScape visualization files, setting the extra base level may show up as a strong " + "slope at the fixed boundaries of the model. However, in the ASPECT visualization files it will not " + "show up, as the ghost nodes only exist in FastScape."); + prm.declare_entry("Erosional base level", "0", + Patterns::Double(), + "When 'Use a fixed erosional base level' is set to true, all ghost nodes of fixed " + "FastScape boundaries where no mass flux is specified by the user (FastScape boundary condition set to 1 " + "and 'Left/Right/Bottom/Top mass flux' set to 0) will be fixed to this elevation. The " + "reflecting boundaries (FastScape boundary condition set to 0) will not be affected, nor are the " + "boundaries where a mass flux is specified. \n" + "Units: m"); + } + prm.leave_subsection(); + + prm.enter_subsection ("Marine parameters"); + { + prm.declare_entry("Sea level", "0", + Patterns::Double(), + "Sea level relative to the ASPECT surface, where the maximum Z or Y extent in ASPECT is a sea level of zero. Units: $\\{m}$ "); + prm.declare_entry("Sand porosity", "0.0", + Patterns::Double(), + "Porosity of sand. "); + prm.declare_entry("Silt porosity", "0.0", + Patterns::Double(), + "Porosity of silt. "); + prm.declare_entry("Sand e-folding depth", "1e3", + Patterns::Double(), + "E-folding depth for the exponential of the sand porosity law. Units: $\\{m}$"); + prm.declare_entry("Silt e-folding depth", "1e3", + Patterns::Double(), + "E-folding depth for the exponential of the silt porosity law. Units: $\\{m}$"); + prm.declare_entry("Sand-silt ratio", "0.5", + Patterns::Double(), + "Ratio of sand to silt for material leaving continent."); + prm.declare_entry("Depth averaging thickness", "1e2", + Patterns::Double(), + "Depth averaging for the sand-silt equation. Units: $\\{m}$"); + prm.declare_entry("Sand transport coefficient", "5e2", + Patterns::Double(), + "Transport coefficient (diffusivity) for sand. Units: $\\{m^2/yr}$"); + prm.declare_entry("Silt transport coefficient", "2.5e2", + Patterns::Double(), + "Transport coefficient (diffusivity) for silt. Units: $\\{m^2/yr}$ "); + } + prm.leave_subsection(); + } + prm.leave_subsection(); + } + prm.leave_subsection (); + } + + + template + void FastScape::parse_parameters(ParameterHandler &prm) + { + prm.enter_subsection ("Mesh deformation"); + { + prm.enter_subsection("Fastscape"); + { + fastscape_steps_per_aspect_step = prm.get_integer("Number of fastscape timesteps per aspect timestep"); + maximum_fastscape_timestep = prm.get_double("Maximum timestep length"); + vexp = prm.get_double("Vertical exaggeration"); + additional_refinement_levels = prm.get_integer("Additional fastscape refinement"); + average_out_of_plane_surface_topography = prm.get_bool("Average out of plane surface topography in 2d"); + fastscape_seed = prm.get_integer("Fastscape seed"); + maximum_surface_refinement_level = prm.get_integer("Maximum surface refinement level"); + surface_refinement_difference = prm.get_integer("Surface refinement difference"); + use_marine_component = prm.get_bool("Use marine component"); + fastscape_y_extent_2d = prm.get_double("Y extent in 2d"); + use_ghost_nodes = prm.get_bool("Use ghost nodes"); + fastscape_advection_uplift = prm.get_bool("Uplift and advect with fastscape"); + node_tolerance = prm.get_double("Node tolerance"); + noise_elevation = prm.get_double("Initial noise magnitude"); + sediment_rain_rates = Utilities::string_to_double + (Utilities::split_string_list(prm.get ("Sediment rain rates"))); + sediment_rain_times = Utilities::string_to_double + (Utilities::split_string_list(prm.get ("Sediment rain time intervals"))); + + if (!this->convert_output_to_years()) + { + maximum_fastscape_timestep /= year_in_seconds; + for (unsigned int j=0; j sediment_rain_times[i-1], ExcMessage("Sediment rain time intervals must be an increasing array.")); + + prm.enter_subsection("Boundary conditions"); + { + bottom = prm.get_integer("Front"); + right = prm.get_integer("Right"); + top = prm.get_integer("Back"); + left = prm.get_integer("Left"); + left_flux = prm.get_double("Left mass flux"); + right_flux = prm.get_double("Right mass flux"); + top_flux = prm.get_double("Back mass flux"); + bottom_flux = prm.get_double("Front mass flux"); + + if (!this->convert_output_to_years()) + { + left_flux *= year_in_seconds; + right_flux *= year_in_seconds; + top_flux *= year_in_seconds; + bottom_flux *= year_in_seconds; + } + + // Put the boundary condition values into a four digit value to send to FastScape. + fastscape_boundary_conditions = bottom*1000+right*100+top*10+left; + + if ((left_flux != 0 && top_flux != 0) || (left_flux != 0 && bottom_flux != 0) || + (right_flux != 0 && bottom_flux != 0) || (right_flux != 0 && top_flux != 0)) + AssertThrow(false,ExcMessage("Currently the plugin does not support mass flux through adjacent boundaries.")); + + topbottom_ghost_nodes_periodic = prm.get_bool("Back front ghost nodes periodic"); + leftright_ghost_nodes_periodic = prm.get_bool("Left right ghost nodes periodic"); + } + prm.leave_subsection(); + + prm.enter_subsection("Erosional parameters"); + { + drainage_area_exponent_m = prm.get_double("Drainage area exponent"); + slope_exponent_n = prm.get_double("Slope exponent"); + sediment_river_incision_rate = prm.get_double("Sediment river incision rate"); + bedrock_river_incision_rate = prm.get_double("Bedrock river incision rate"); + sediment_transport_coefficient = prm.get_double("Sediment diffusivity"); + bedrock_transport_coefficient = prm.get_double("Bedrock diffusivity"); + bedrock_deposition_g = prm.get_double("Bedrock deposition coefficient"); + sediment_deposition_g = prm.get_double("Sediment deposition coefficient"); + slope_exponent_p = prm.get_double("Multi-direction slope exponent"); + flat_elevation = prm.get_integer("Orographic elevation control"); + wind_barrier_elevation = prm.get_integer("Orographic wind barrier height"); + flat_erosional_factor = prm.get_double("Elevation factor"); + wind_barrier_erosional_factor = prm.get_double("Wind barrier factor"); + stack_controls = prm.get_bool("Stack orographic controls"); + use_orographic_controls = prm.get_bool("Flag to use orographic controls"); + + if (!this->convert_output_to_years()) + { + bedrock_river_incision_rate *= year_in_seconds; + bedrock_transport_coefficient *= year_in_seconds; + sediment_river_incision_rate *= year_in_seconds; + bedrock_transport_coefficient *= year_in_seconds; + } + + // Wind direction + if (prm.get ("Wind direction") == "west") + wind_direction = 0; + else if (prm.get ("Wind direction") == "east") + wind_direction = 1; + else if (prm.get ("Wind direction") == "north") + wind_direction = 2; + else if (prm.get ("Wind direction") == "south") + wind_direction = 3; + else + AssertThrow(false, ExcMessage("Not a valid wind direction.")); + + // set fixed ghost nodes to a base level for erosion that differs from sea level + use_fixed_erosional_base = prm.get_bool("Use a fixed erosional base level"); + if (use_fixed_erosional_base) + AssertThrow(use_fixed_erosional_base && use_ghost_nodes, ExcMessage( + "If you want to use an erosional base level differing from sea level, " + "you need to use ghost nodes.")); + h_erosional_base = prm.get_double("Erosional base level"); + } + prm.leave_subsection(); + + prm.enter_subsection("Marine parameters"); + { + sea_level = prm.get_double("Sea level"); + sand_surface_porosity = prm.get_double("Sand porosity"); + silt_surface_porosity = prm.get_double("Silt porosity"); + sand_efold_depth = prm.get_double("Sand e-folding depth"); + silt_efold_depth = prm.get_double("Silt e-folding depth"); + sand_silt_ratio = prm.get_double("Sand-silt ratio"); + sand_silt_averaging_depth = prm.get_double("Depth averaging thickness"); + sand_transport_coefficient = prm.get_double("Sand transport coefficient"); + silt_transport_coefficient = prm.get_double("Silt transport coefficient"); + + if (!this->convert_output_to_years()) + { + sand_transport_coefficient *= year_in_seconds; + silt_transport_coefficient *= year_in_seconds; + } + } + prm.leave_subsection(); + } + prm.leave_subsection(); + } + prm.leave_subsection (); + + prm.enter_subsection("Postprocess"); + { + prm.enter_subsection("Visualization"); + { + output_interval = prm.get_double ("Time between graphical output"); + if (this->convert_output_to_years()) + output_interval *= year_in_seconds; + } + prm.leave_subsection(); + } + prm.leave_subsection(); + } + } +} + + +// explicit instantiation of the functions we implement in this file +namespace aspect +{ + namespace MeshDeformation + { + ASPECT_REGISTER_MESH_DEFORMATION_MODEL(FastScape, + "fastscape", + "A plugin that uses the program FastScape to compute the deformation of the mesh surface. " + "FastScape is a surface processes code that computes the erosion, transport and " + "deposition of sediments both on land and in the marine domain. These surface processes " + "include river incision (through the stream power law), hillslope diffusion and " + "marine diffusion, as described in Braun and Willett 2013; Yuan et al. 2019; " + "Yuan et al. 2019b. " + "\n" + "Upon initialization, FastScape requires the initial topography of the surface boundary " + "of ASPECT's model domain and several user-specified erosional and depositional parameters. " + "In each ASPECT timestep, FastScape is then fed ASPECT's material velocity at the surface " + "boundary. The z-component of this velocity is used to uplift the FastScape surface, " + "while the horizontal components are used to advect the topography in the x-y plane. " + "\n" + "After solving its governing equations (this can be done in several timesteps " + "that are smaller than the ASPECT timestep), FastScape returns a new topography of the surface. " + "The difference in topography before and after the call to FastScape divided by the ASPECT " + "timestep provides the mesh velocity at the domain's surface that is used to displace the surface " + "and internal mesh nodes. " + "\n" + "FastScape can be used in both 2D and 3D ASPECT simulations. In 2D, one can think of the coupled " + "model as a T-model.The ASPECT domain spans the x - z plane, while FastScape acts on the horizontal " + "x-y plane. This means that to communicate ASPECT's material velocities to FastScape, " + "FastScape mesh nodes with the same x-coordinate (so lying along the y-direction) get the same velocities. " + "In turn, the FastScape topography is collapsed back onto the line of the ASPECT surface boundary " + "by averaging the topography over the y-direction. In 3D no such actions are necessary. " + "\n" + "The FastScape manual (https://fastscape.org/fastscapelib-fortran/) provides more information " + "on the input parameters. ") + + } +} +#endif diff --git a/source/simulator/parameters.cc b/source/simulator/parameters.cc index 64b0a335b9b..c7149424ac6 100644 --- a/source/simulator/parameters.cc +++ b/source/simulator/parameters.cc @@ -1470,6 +1470,10 @@ namespace aspect if (convert_to_years == true) start_time *= year_in_seconds; + end_time = prm.get_double ("End time"); + if (convert_to_years == true) + end_time *= year_in_seconds; + output_directory = prm.get ("Output directory"); if (output_directory.size() == 0) output_directory = "./"; diff --git a/source/simulator/simulator_access.cc b/source/simulator/simulator_access.cc index fa65fbfe75c..373c680db72 100644 --- a/source/simulator/simulator_access.cc +++ b/source/simulator/simulator_access.cc @@ -147,6 +147,15 @@ namespace aspect + template + const TimeStepping::Manager & + SimulatorAccess::get_timestepping_manager() const + { + return simulator->time_stepping_manager; + } + + + template unsigned int SimulatorAccess::get_nonlinear_iteration () const { @@ -200,6 +209,14 @@ namespace aspect + template + double + SimulatorAccess::get_end_time () const + { + return simulator->parameters.end_time; + } + + template unsigned int SimulatorAccess::get_pre_refinement_step () const From 246f9d1387ced5dc06aef5aee2a6cdda27cbb9c3 Mon Sep 17 00:00:00 2001 From: bbxriboe Date: Wed, 18 Oct 2023 10:50:38 +0200 Subject: [PATCH 37/44] Changed description of parameters at prm_declare_entry --- source/material_model/visco_plastic.cc | 67 ++++++++++++++++++-------- 1 file changed, 46 insertions(+), 21 deletions(-) diff --git a/source/material_model/visco_plastic.cc b/source/material_model/visco_plastic.cc index 4c4ab7e455d..faecc1111f8 100644 --- a/source/material_model/visco_plastic.cc +++ b/source/material_model/visco_plastic.cc @@ -222,38 +222,52 @@ namespace aspect // Adapt the thermal conductivity to approximate hydrothermal cooling, if this option was selected. // The depth that the geometry model returns is not the actual depth below the subsurface, // but the depth below the initial surface of the model domain. - // Therefore, the depth needs to be adjusted in case the model uses mesh deformation. if (use_hydrothermal_cooling_approximation == true) { - double depth = 0.; + double depth_with_respect_to_current_surface = 0.; double depth_with_respect_to_initial_surface = this->get_geometry_model().depth(in.position[i]); - bool use_depth_of_sea = false; double depth_of_sea = 0.; - if(this->simulator_is_past_initialization() && Plugins::plugin_type_matches>(this->get_geometry_model()) && dim == 2 && this->get_parameters().mesh_deformation_enabled) + //In the case of a two-dimensional box model, there is an updated depth function that returns + //the depth with respect to the current surface of the model, even after the mesh has been deformed. + //Therefore, mesh deformation can be taken into account. + if (this->simulator_is_past_initialization() && Plugins::plugin_type_matches>(this->get_geometry_model()) && dim == 2 && this->get_parameters().mesh_deformation_enabled) { AssertThrow(Plugins::plugin_type_matches>(this->get_initial_topography_model()), ExcMessage("The usage of the hydrothermal cooling approximation together with mesh deformation is only possible if there is no initial topography")); - depth = this->get_geometry_model().depth_including_mesh_deformation(in.position[i]); - use_depth_of_sea = true; - depth_of_sea = depth_with_respect_to_initial_surface - depth; + depth_with_respect_to_current_surface = this->get_geometry_model().depth_including_mesh_deformation(in.position[i]); + depth_of_sea = depth_with_respect_to_initial_surface - depth_with_respect_to_current_surface; } + //In any other case or if the simulator is not yet past initialisation, the updated depth function + //cannot be used. Therefore, the depth with respect to the initial surface is used. else - { - //AssertThrow(!this->get_parameters().mesh_deformation_enabled, - //ExcMessage("Using the hydrothermal cooling approximation together with mesh deformation only works for two dimensional box models.")); - - depth = depth_with_respect_to_initial_surface; + { + depth_with_respect_to_current_surface = depth_with_respect_to_initial_surface; + + //If the model is not a two dimensional box model, the hydrothermal cooling approximation + //can only be used without mesh deformation. + if (!(Plugins::plugin_type_matches>(this->get_geometry_model()) && dim == 2)) + AssertThrow(!this->get_parameters().mesh_deformation_enabled, + ExcMessage("Using the hydrothermal cooling approximation together with mesh deformation only works for two dimensional box models.")); + + //If the model does not use mesh deformation, the option 'Use depth of sea for hydrothermal + //cooling approximation' is not allowed to be set to 'true'. If the user has nevertheless done + //this, it has to be set to 'false'. Otherwise the hydrothermal cooling approximation would have + //no effect on the thermal conductivity, which is not intended. + if (!this->get_parameters().mesh_deformation_enabled) + use_depth_of_sea = false; + } - //Hydrothermal fluid circulation only occurs where the surface is below sea level - if(depth_of_sea >= 0) + //If 'Use depth of sea for hydrothermal cooling approximation' is set to 'true', the conductivity will + //only be adapted at the points, where the surface is below the sea level (initial surface). + if((use_depth_of_sea && depth_of_sea >= 0) || !use_depth_of_sea) { out.thermal_conductivities[i] = out.thermal_conductivities[i] + out.thermal_conductivities[i] * (Nusselt_number - 1.) * std::exp(smoothing_factor_temperature * (1. - in.temperature[i] / cutoff_maximum_temperature)) * - std::exp(smoothing_factor_depth * (1. - depth / cutoff_maximum_depth)) * + std::exp(smoothing_factor_depth * (1. - depth_with_respect_to_current_surface / cutoff_maximum_depth)) * (use_depth_of_sea == true ? std::max(0., std::min(depth_of_sea, maximum_depth_of_sea)/maximum_depth_of_sea) : 1.); } } @@ -422,7 +436,7 @@ namespace aspect prm.declare_entry ("Cutoff maximum depth for hydrothermal cooling approximation", "6000.0", Patterns::Double (0.), "Depth below the surface up to which the hydrothermal cooling approximation is applied. " - "Units: \\si{\\m}."); + "Units: \\si{\\meter}."); prm.declare_entry ("Nusselt number for hydrothermal cooling approximation", "2.0", Patterns::Double (1.), "Nusselt number, that is the ratio of convective to conductive heat transfer " @@ -433,17 +447,27 @@ namespace aspect Patterns::Double (0.), "Smoothing factor that controls the influence of the temperature " "on the hydrothermal cooling. If it is set to zero, the temperature is not considered " - "in the calculation of the thermal conductivity. "); + "in the calculation of the thermal conductivity. Reasonable values for this parameter " + "are betweeen 0.5 and 5, also depending on whether only one or both smoothing factors " + "are used. "); prm.declare_entry ("Depth smoothing factor for hydrothermal cooling approximation", "0.75", Patterns::Double (0.), "Smoothing factor that controls the influence of the depth below the surface" "on the hydrothermal cooling. If it is set to zero, the temperature is not considered " - "in the calculation of the thermal conductivity. "); + "in the calculation of the thermal conductivity. Reasonable values for this parameter " + "are betweeen 0.5 and 5, also depending on whether only one or both smoothing factors " + "are used. "); + prm.declare_entry ("Use depth of sea for hydrothermal cooling", "false", + Patterns::Bool (), + "Only applicable to a two-dimensional box model, which uses mesh deformation and has " + "zero initial topography. If it is set to 'true', then the initial surface will be " + "considered to be the sea level. The effect of cooling in the shallow subsurface then " + "becomes stronger up to a certain cutoff depth as the sea depth increases." ); prm.declare_entry ("Maximum depth of the sea", "5000.0", Patterns::Double (1.), "Cutoff value for the sea depth, at which thermal conductivity no longer increases " - "with increasing sea depth. The effect of cooling in the shallow subsurface in general " - "gets bigger the more water there is above the surface. "); + "with increasing sea depth. " + "Units: \\si{\\meter}."); } prm.leave_subsection(); } @@ -519,8 +543,9 @@ namespace aspect Nusselt_number = prm.get_double ("Nusselt number for hydrothermal cooling approximation"); smoothing_factor_temperature = prm.get_double ("Temperature smoothing factor for hydrothermal cooling approximation"); smoothing_factor_depth = prm.get_double ("Depth smoothing factor for hydrothermal cooling approximation"); + use_depth_of_sea = prm.get_bool ("Use depth of sea for hydrothermal cooling"); maximum_depth_of_sea = prm.get_double ("Maximum depth of the sea"); - + rheology = std::make_unique>(); rheology->initialize_simulator (this->get_simulator()); rheology->parse_parameters(prm, std::make_unique>(phase_function.n_phases_for_each_composition())); From f05b4cc717be07fd338c57a22b69a78ec0025e5e Mon Sep 17 00:00:00 2001 From: bbxriboe Date: Wed, 18 Oct 2023 10:51:56 +0200 Subject: [PATCH 38/44] adapted 'Use depth of sea for hydrothermal cooling approximation' --- include/aspect/material_model/visco_plastic.h | 6 ++++++ 1 file changed, 6 insertions(+) diff --git a/include/aspect/material_model/visco_plastic.h b/include/aspect/material_model/visco_plastic.h index c810a98028d..ebf71fd9677 100644 --- a/include/aspect/material_model/visco_plastic.h +++ b/include/aspect/material_model/visco_plastic.h @@ -292,6 +292,12 @@ namespace aspect */ double smoothing_factor_depth; + /** + * Whether the sea depth should be relevant for the amount of increase in conductivity. + * Only applicable in combination with a two-dimensional box model that uses mesh deformation. + */ + bool use_depth_of_sea; + /** * Cutoff value for the depth of the sea at which the thermal conductivity does not increase anymore * with increasing sea depth. From 81d25190e6b3e07fe2ff9a10b3bbcc0fbe954251 Mon Sep 17 00:00:00 2001 From: bbxriboe Date: Wed, 18 Oct 2023 11:11:55 +0200 Subject: [PATCH 39/44] adapted 'Use depth of sea for hydrothermal cooling approximation' --- include/aspect/material_model/visco_plastic.h | 3 ++- 1 file changed, 2 insertions(+), 1 deletion(-) diff --git a/include/aspect/material_model/visco_plastic.h b/include/aspect/material_model/visco_plastic.h index ebf71fd9677..854869f531f 100644 --- a/include/aspect/material_model/visco_plastic.h +++ b/include/aspect/material_model/visco_plastic.h @@ -294,7 +294,8 @@ namespace aspect /** * Whether the sea depth should be relevant for the amount of increase in conductivity. - * Only applicable in combination with a two-dimensional box model that uses mesh deformation. + * Only applicable in combination with a two-dimensional box model that uses mesh deformation + * and has zero initial topography. */ bool use_depth_of_sea; From d2b772cf7d71d2c26e6eb1529620cd5f217848b0 Mon Sep 17 00:00:00 2001 From: bbxriboe Date: Wed, 18 Oct 2023 11:29:34 +0200 Subject: [PATCH 40/44] Throw error if 'Use depth of sea ...' is set to false, but no mesh deformation. --- source/material_model/visco_plastic.cc | 3 ++- 1 file changed, 2 insertions(+), 1 deletion(-) diff --git a/source/material_model/visco_plastic.cc b/source/material_model/visco_plastic.cc index faecc1111f8..d5145c70dbe 100644 --- a/source/material_model/visco_plastic.cc +++ b/source/material_model/visco_plastic.cc @@ -256,7 +256,8 @@ namespace aspect //this, it has to be set to 'false'. Otherwise the hydrothermal cooling approximation would have //no effect on the thermal conductivity, which is not intended. if (!this->get_parameters().mesh_deformation_enabled) - use_depth_of_sea = false; + AssertThrow(!use_depth_of_sea == false, + ExcMessage("The parameter 'Use depth of sea for hydrothermal cooling approximation' can only be set to 'true' for a two-dimensional box model that uses mesh deformaion and has zero initial topography.")) } From d733f7b871e8d4ff6f2fd00d198210d9d5420ab5 Mon Sep 17 00:00:00 2001 From: bbxriboe Date: Wed, 18 Oct 2023 11:50:47 +0200 Subject: [PATCH 41/44] Change name of parameter 'Use depth of sea ...' to be more cnsistent with naming parameters --- source/material_model/visco_plastic.cc | 4 ++-- 1 file changed, 2 insertions(+), 2 deletions(-) diff --git a/source/material_model/visco_plastic.cc b/source/material_model/visco_plastic.cc index d5145c70dbe..4a13cb1097d 100644 --- a/source/material_model/visco_plastic.cc +++ b/source/material_model/visco_plastic.cc @@ -458,7 +458,7 @@ namespace aspect "in the calculation of the thermal conductivity. Reasonable values for this parameter " "are betweeen 0.5 and 5, also depending on whether only one or both smoothing factors " "are used. "); - prm.declare_entry ("Use depth of sea for hydrothermal cooling", "false", + prm.declare_entry ("Use depth of sea for hydrothermal cooling approximation", "false", Patterns::Bool (), "Only applicable to a two-dimensional box model, which uses mesh deformation and has " "zero initial topography. If it is set to 'true', then the initial surface will be " @@ -544,7 +544,7 @@ namespace aspect Nusselt_number = prm.get_double ("Nusselt number for hydrothermal cooling approximation"); smoothing_factor_temperature = prm.get_double ("Temperature smoothing factor for hydrothermal cooling approximation"); smoothing_factor_depth = prm.get_double ("Depth smoothing factor for hydrothermal cooling approximation"); - use_depth_of_sea = prm.get_bool ("Use depth of sea for hydrothermal cooling"); + use_depth_of_sea = prm.get_bool ("Use depth of sea for hydrothermal cooling approximation"); maximum_depth_of_sea = prm.get_double ("Maximum depth of the sea"); rheology = std::make_unique>(); From 0f24bb9f0959995949fd4f53432d404f046242b6 Mon Sep 17 00:00:00 2001 From: bbxriboe Date: Wed, 18 Oct 2023 11:54:02 +0200 Subject: [PATCH 42/44] Change name of parameter 'Maximum depth of the sea' to be more consistent with naming parameters --- source/material_model/visco_plastic.cc | 4 ++-- 1 file changed, 2 insertions(+), 2 deletions(-) diff --git a/source/material_model/visco_plastic.cc b/source/material_model/visco_plastic.cc index 4a13cb1097d..91915866381 100644 --- a/source/material_model/visco_plastic.cc +++ b/source/material_model/visco_plastic.cc @@ -464,7 +464,7 @@ namespace aspect "zero initial topography. If it is set to 'true', then the initial surface will be " "considered to be the sea level. The effect of cooling in the shallow subsurface then " "becomes stronger up to a certain cutoff depth as the sea depth increases." ); - prm.declare_entry ("Maximum depth of the sea", "5000.0", + prm.declare_entry ("Maximum depth of sea", "5000.0", Patterns::Double (1.), "Cutoff value for the sea depth, at which thermal conductivity no longer increases " "with increasing sea depth. " @@ -545,7 +545,7 @@ namespace aspect smoothing_factor_temperature = prm.get_double ("Temperature smoothing factor for hydrothermal cooling approximation"); smoothing_factor_depth = prm.get_double ("Depth smoothing factor for hydrothermal cooling approximation"); use_depth_of_sea = prm.get_bool ("Use depth of sea for hydrothermal cooling approximation"); - maximum_depth_of_sea = prm.get_double ("Maximum depth of the sea"); + maximum_depth_of_sea = prm.get_double ("Maximum depth of sea"); rheology = std::make_unique>(); rheology->initialize_simulator (this->get_simulator()); From 2e59a4d652d37fc94d8e9848fdb8d96e30ee8031 Mon Sep 17 00:00:00 2001 From: bbxriboe Date: Wed, 18 Oct 2023 12:12:19 +0200 Subject: [PATCH 43/44] Made double 'depth_with_respect_to_initial_surface' constant --- source/material_model/visco_plastic.cc | 2 +- 1 file changed, 1 insertion(+), 1 deletion(-) diff --git a/source/material_model/visco_plastic.cc b/source/material_model/visco_plastic.cc index 91915866381..487a379a2b9 100644 --- a/source/material_model/visco_plastic.cc +++ b/source/material_model/visco_plastic.cc @@ -225,7 +225,7 @@ namespace aspect if (use_hydrothermal_cooling_approximation == true) { double depth_with_respect_to_current_surface = 0.; - double depth_with_respect_to_initial_surface = this->get_geometry_model().depth(in.position[i]); + const double depth_with_respect_to_initial_surface = this->get_geometry_model().depth(in.position[i]); double depth_of_sea = 0.; //In the case of a two-dimensional box model, there is an updated depth function that returns From 036d54417aa7b8899aba3fdaee60ecf0c3e65c01 Mon Sep 17 00:00:00 2001 From: bbxriboe Date: Wed, 18 Oct 2023 12:25:01 +0200 Subject: [PATCH 44/44] Edited comments --- source/material_model/visco_plastic.cc | 9 ++++----- 1 file changed, 4 insertions(+), 5 deletions(-) diff --git a/source/material_model/visco_plastic.cc b/source/material_model/visco_plastic.cc index 487a379a2b9..01bde349c0f 100644 --- a/source/material_model/visco_plastic.cc +++ b/source/material_model/visco_plastic.cc @@ -233,6 +233,7 @@ namespace aspect //Therefore, mesh deformation can be taken into account. if (this->simulator_is_past_initialization() && Plugins::plugin_type_matches>(this->get_geometry_model()) && dim == 2 && this->get_parameters().mesh_deformation_enabled) { + //Since we consider the initial surface to be the sea level, there has to be zero initial topography. AssertThrow(Plugins::plugin_type_matches>(this->get_initial_topography_model()), ExcMessage("The usage of the hydrothermal cooling approximation together with mesh deformation is only possible if there is no initial topography")); @@ -252,18 +253,16 @@ namespace aspect ExcMessage("Using the hydrothermal cooling approximation together with mesh deformation only works for two dimensional box models.")); //If the model does not use mesh deformation, the option 'Use depth of sea for hydrothermal - //cooling approximation' is not allowed to be set to 'true'. If the user has nevertheless done - //this, it has to be set to 'false'. Otherwise the hydrothermal cooling approximation would have - //no effect on the thermal conductivity, which is not intended. + //cooling approximation' is not allowed to be set to 'true'. Otherwise the hydrothermal cooling + //approximation would have no effect on the thermal conductivity, which is not intended. if (!this->get_parameters().mesh_deformation_enabled) AssertThrow(!use_depth_of_sea == false, ExcMessage("The parameter 'Use depth of sea for hydrothermal cooling approximation' can only be set to 'true' for a two-dimensional box model that uses mesh deformaion and has zero initial topography.")) - } //If 'Use depth of sea for hydrothermal cooling approximation' is set to 'true', the conductivity will //only be adapted at the points, where the surface is below the sea level (initial surface). - if((use_depth_of_sea && depth_of_sea >= 0) || !use_depth_of_sea) + if((use_depth_of_sea && depth_of_sea > 0) || !use_depth_of_sea) { out.thermal_conductivities[i] = out.thermal_conductivities[i] + out.thermal_conductivities[i] * (Nusselt_number - 1.) * std::exp(smoothing_factor_temperature *