/// <summary>Computes the allocation of new growth to roots for each layer.</summary>
/// <remarks>
/// The current target distribution for roots changes whenever then root depth changes, this is then used to allocate
/// new growth to each layer within the root zone. The existing distribution is used on any DM removal, so it may
/// take some time for the actual distribution to evolve to be equal to the target.
/// </remarks>
/// <param name="dGrowthRootDM">Root growth dry matter (kg/ha).</param>
/// <param name="dGrowthRootN">Root growth nitrogen (kg/ha).</param>
public void DoRootGrowthAllocation(double dGrowthRootDM, double dGrowthRootN)
{
if (MathUtilities.IsGreaterThan(dGrowthRootDM, 0))
{
// root DM is changing due to growth, check potential changes in distribution
double[] growthRootFraction;
double[] currentRootTarget = CurrentRootDistributionTarget();
if (MathUtilities.AreEqual(Live.FractionWt, currentRootTarget))
{
// no need to change the distribution
growthRootFraction = Live.FractionWt;
}
else
{
// root distribution should change, get preliminary distribution (average of current and target)
growthRootFraction = new double[nLayers];
for (int layer = 0; layer <= BottomLayer; layer++)
{
growthRootFraction[layer] = 0.5 * (Live.FractionWt[layer] + currentRootTarget[layer]);
}
// normalise distribution of allocation
double layersTotal = growthRootFraction.Sum();
for (int layer = 0; layer <= BottomLayer; layer++)
{
growthRootFraction[layer] = growthRootFraction[layer] / layersTotal;
}
}
Live.SetBiomassTransferIn(dm: MathUtilities.Multiply_Value(growthRootFraction, dGrowthRootDM),
n: MathUtilities.Multiply_Value(growthRootFraction, dGrowthRootN));
}
// TODO: currently only the roots at the main / home zone are considered, must add the other zones too
}
/// <summary>Sets the soil organic matter thickness.</summary>
/// <param name="soilOrganicMatter">The soil organic matter.</param>
/// <param name="thickness">Thickness to change soil water to.</param>
private static void SetSoilOrganicMatterThickness(SoilOrganicMatter soilOrganicMatter, double[] thickness)
{
if (soilOrganicMatter != null)
{
if (!MathUtilities.AreEqual(thickness, soilOrganicMatter.Thickness))
{
soilOrganicMatter.FBiom = MapConcentration(soilOrganicMatter.FBiom, soilOrganicMatter.Thickness, thickness, MathUtilities.LastValue(soilOrganicMatter.FBiom));
soilOrganicMatter.FInert = MapConcentration(soilOrganicMatter.FInert, soilOrganicMatter.Thickness, thickness, MathUtilities.LastValue(soilOrganicMatter.FInert));
soilOrganicMatter.OC = MapConcentration(soilOrganicMatter.OC, soilOrganicMatter.Thickness, thickness, MathUtilities.LastValue(soilOrganicMatter.OC));
soilOrganicMatter.Thickness = thickness;
soilOrganicMatter.OCMetadata = StringUtilities.CreateStringArray("Mapped", thickness.Length);;
}
if (soilOrganicMatter.FBiom != null)
{
MathUtilities.ReplaceMissingValues(soilOrganicMatter.FBiom, MathUtilities.LastValue(soilOrganicMatter.FBiom));
}
if (soilOrganicMatter.FInert != null)
{
MathUtilities.ReplaceMissingValues(soilOrganicMatter.FInert, MathUtilities.LastValue(soilOrganicMatter.FInert));
}
if (soilOrganicMatter.OC != null)
{
MathUtilities.ReplaceMissingValues(soilOrganicMatter.OC, MathUtilities.LastValue(soilOrganicMatter.OC));
}
}
}
public void TestLayerStructure()
{
Soil soil = Setup();
// convert sw from gravimetric to volumetric.
APSIMReadySoil.Create(soil);
// Make sure the samples have been removed.
Assert.AreEqual(soil.Samples.Count, 0);
// Check the SW values have been converted and that the bottom two layers are at CLL (0.402)
MathUtilities.AreEqual(soil.Water.SW, new double[] { 0.140, 0.289, 0.314, 0.326, 0.402, 0.402 });
// Check the NO3 values haven't been converted and that the bottom layers have default values
MathUtilities.AreEqual(soil.Nitrogen.NO3, new double[] { 23, 7, 2, 1, 0.01, 0.01 });
// Check that the OC sample values have been put on top of the SoilOrganicMatter OC values.
MathUtilities.AreEqual(soil.SoilOrganicMatter.OC, new double[] { 1.35, 1, 0.5, 0.4, 0.3, 0.2 });
// Make sure the analysis missing value has been replaced with zero.
MathUtilities.AreEqual(soil.Analysis.CL, new double[] { 38, 0.0, 500, 490, 500, 500 });
// Make sure that no predicted crops have been added.
string[] cropNames = soil.Water.Crops.Select(c => c.Name).ToArray();
Assert.AreEqual(cropNames.Length, 1);
}
/// <summary>Convert the SWIM component to the specified thicknesses.</summary>
/// <param name="swim">The swim component.</param>
/// <param name="thickness">The thickness to convert to.</param>
private static void SetSWIM(Swim swim, double[] thickness)
{
if (swim != null && swim.SwimSoluteParameters != null && !MathUtilities.AreEqual(thickness, swim.SwimSoluteParameters.Thickness))
{
swim.SwimSoluteParameters.NO3Exco = MapConcentration(swim.SwimSoluteParameters.NO3Exco, swim.SwimSoluteParameters.Thickness, thickness, MathUtilities.LastValue(swim.SwimSoluteParameters.NO3Exco));
swim.SwimSoluteParameters.NO3FIP = MapConcentration(swim.SwimSoluteParameters.NO3FIP, swim.SwimSoluteParameters.Thickness, thickness, 0.0); // Making these use the LastValue causes C:/Apsim/Tests/UserRuns/WinteringSystems/BaseSimulation.sum to fail
swim.SwimSoluteParameters.NH4Exco = MapConcentration(swim.SwimSoluteParameters.NH4Exco, swim.SwimSoluteParameters.Thickness, thickness, 0.0);
swim.SwimSoluteParameters.NH4FIP = MapConcentration(swim.SwimSoluteParameters.NH4FIP, swim.SwimSoluteParameters.Thickness, thickness, 0.0);
swim.SwimSoluteParameters.UreaExco = MapConcentration(swim.SwimSoluteParameters.UreaExco, swim.SwimSoluteParameters.Thickness, thickness, MathUtilities.LastValue(swim.SwimSoluteParameters.UreaExco));
swim.SwimSoluteParameters.UreaFIP = MapConcentration(swim.SwimSoluteParameters.UreaFIP, swim.SwimSoluteParameters.Thickness, thickness, 0.0);
swim.SwimSoluteParameters.ClExco = MapConcentration(swim.SwimSoluteParameters.ClExco, swim.SwimSoluteParameters.Thickness, thickness, MathUtilities.LastValue(swim.SwimSoluteParameters.ClExco));
swim.SwimSoluteParameters.ClFIP = MapConcentration(swim.SwimSoluteParameters.ClFIP, swim.SwimSoluteParameters.Thickness, thickness, MathUtilities.LastValue(swim.SwimSoluteParameters.ClFIP));
swim.SwimSoluteParameters.TracerExco = MapConcentration(swim.SwimSoluteParameters.TracerExco, swim.SwimSoluteParameters.Thickness, thickness, MathUtilities.LastValue(swim.SwimSoluteParameters.TracerExco));
swim.SwimSoluteParameters.TracerFIP = MapConcentration(swim.SwimSoluteParameters.TracerFIP, swim.SwimSoluteParameters.Thickness, thickness, MathUtilities.LastValue(swim.SwimSoluteParameters.TracerFIP));
swim.SwimSoluteParameters.MineralisationInhibitorExco = MapConcentration(swim.SwimSoluteParameters.MineralisationInhibitorExco, swim.SwimSoluteParameters.Thickness, thickness, MathUtilities.LastValue(swim.SwimSoluteParameters.MineralisationInhibitorExco));
swim.SwimSoluteParameters.MineralisationInhibitorFIP = MapConcentration(swim.SwimSoluteParameters.MineralisationInhibitorFIP, swim.SwimSoluteParameters.Thickness, thickness, MathUtilities.LastValue(swim.SwimSoluteParameters.MineralisationInhibitorFIP));
swim.SwimSoluteParameters.UreaseInhibitorExco = MapConcentration(swim.SwimSoluteParameters.UreaseInhibitorExco, swim.SwimSoluteParameters.Thickness, thickness, MathUtilities.LastValue(swim.SwimSoluteParameters.UreaseInhibitorExco));
swim.SwimSoluteParameters.UreaseInhibitorFIP = MapConcentration(swim.SwimSoluteParameters.UreaseInhibitorFIP, swim.SwimSoluteParameters.Thickness, thickness, MathUtilities.LastValue(swim.SwimSoluteParameters.UreaseInhibitorFIP));
swim.SwimSoluteParameters.NitrificationInhibitorExco = MapConcentration(swim.SwimSoluteParameters.NitrificationInhibitorExco, swim.SwimSoluteParameters.Thickness, thickness, MathUtilities.LastValue(swim.SwimSoluteParameters.NitrificationInhibitorExco));
swim.SwimSoluteParameters.NitrificationInhibitorFIP = MapConcentration(swim.SwimSoluteParameters.NitrificationInhibitorFIP, swim.SwimSoluteParameters.Thickness, thickness, MathUtilities.LastValue(swim.SwimSoluteParameters.NitrificationInhibitorFIP));
swim.SwimSoluteParameters.DenitrificationInhibitorExco = MapConcentration(swim.SwimSoluteParameters.DenitrificationInhibitorExco, swim.SwimSoluteParameters.Thickness, thickness, MathUtilities.LastValue(swim.SwimSoluteParameters.DenitrificationInhibitorExco));
swim.SwimSoluteParameters.DenitrificationInhibitorFIP = MapConcentration(swim.SwimSoluteParameters.DenitrificationInhibitorFIP, swim.SwimSoluteParameters.Thickness, thickness, MathUtilities.LastValue(swim.SwimSoluteParameters.DenitrificationInhibitorFIP));
swim.SwimSoluteParameters.Thickness = thickness;
}
}
public void TestUnsaturatedFlow()
{
SoilModel soil = new SoilModel();
APSIM.Shared.Soils.Soil soilProperties = Setup();
APSIMReadySoil.Create(soilProperties);
UnsaturatedFlowModel unsaturatedFlow = new UnsaturatedFlowModel();
SetLink(soil, "properties", soilProperties);
SetLink(unsaturatedFlow, "soil", soil);
unsaturatedFlow.DiffusConst = 88;
unsaturatedFlow.DiffusSlope = 35.4;
// Profile at DUL.
soil.Water = MathUtilities.Multiply(soilProperties.Water.DUL, soilProperties.Water.Thickness);
double[] flow = unsaturatedFlow.Values;
Assert.IsTrue(MathUtilities.AreEqual(flow, new double[] { 0, 0, 0, 0, 0, 0 }));
// Profile at SAT.
soil.Water = MathUtilities.Multiply(soilProperties.Water.SAT, soilProperties.Water.Thickness);
flow = unsaturatedFlow.Values;
Assert.IsTrue(MathUtilities.AreEqual(flow, new double[] { 0, 0, 0, 0, 0, 0 }));
// Force some unsaturated flow by reducing the water to 0.8 of SAT.
soil.Water = MathUtilities.Multiply_Value(soil.Water, 0.8);
flow = unsaturatedFlow.Values;
Assert.IsTrue(MathUtilities.AreEqual(flow, new double[] { 0.52148, -0.38359, -0.16771, -0.07481, 0, 0 }));
}
public void TestInitialWater()
{
Soil soil = Setup();
soil.Samples[0].SW = null;
soil.InitialWater = new InitialWater();
soil.InitialWater.PercentMethod = InitialWater.PercentMethodEnum.FilledFromTop;
soil.InitialWater.RelativeTo = "LL15";
soil.InitialWater.FractionFull = 0.5;
APSIMReadySoil.Create(soil);
// Make sure the initial water has been removed.
Assert.IsNull(soil.InitialWater);
// Check the SW values.
MathUtilities.AreEqual(soil.Water.SW, new double[] { 0.365, 0.461, 0.43, 0.281, 0.261, 0.261 });
// check evenly distributed method.
soil.InitialWater = new InitialWater();
soil.InitialWater.PercentMethod = InitialWater.PercentMethodEnum.EvenlyDistributed;
soil.InitialWater.RelativeTo = "LL15";
soil.InitialWater.FractionFull = 0.5;
APSIMReadySoil.Create(soil);
MathUtilities.AreEqual(soil.Water.SW, new double[] { 0.318, 0.364, 0.345, 0.336, 0.332, 0.333 });
}
public void TestLateralFlow()
{
APSIM.Shared.Soils.Soil soilProperties = Setup();
soilProperties.Samples.Clear();
// Setup our objects with links.
SoilModel soil = new SoilModel();
LateralFlowModel lateralFlow = new LateralFlowModel();
SetLink(soil, "properties", soilProperties);
SetLink(soil, "lateralFlowModel", lateralFlow);
SetLink(lateralFlow, "soil", soil);
// Set initial water to full.
soilProperties.InitialWater = new InitialWater();
soilProperties.InitialWater.FractionFull = 1.0;
APSIMReadySoil.Create(soilProperties);
soil.Water = MathUtilities.Multiply(soilProperties.Water.SW, soilProperties.Water.Thickness);
// No inflow, so there should be no outflow.
lateralFlow.InFlow = null;
Assert.AreEqual(lateralFlow.Values.Length, 0);
// Profile is full so adding in flow will produce out flow.
lateralFlow.InFlow = new double[] { 9, 9, 9, 9, 9, 9 };
lateralFlow.KLAT = MathUtilities.CreateArrayOfValues(8.0, soilProperties.Water.Thickness.Length);
Assert.IsTrue(MathUtilities.AreEqual(lateralFlow.Values, new double[] { 0.45999, 0.80498, 0.80498, 0.80498, 0.80498, 0.80498 }));
// Set initial water to empty. Out flow should be zeros.
soilProperties.InitialWater = new InitialWater();
soilProperties.InitialWater.FractionFull = 0.0;
APSIMReadySoil.Create(soilProperties);
soil.Water = MathUtilities.Multiply(soilProperties.Water.SW, soilProperties.Water.Thickness);
Assert.IsTrue(MathUtilities.AreEqual(lateralFlow.Values, new double[] { 0, 0, 0, 0, 0, 0 }));
}
/// <summary>Sets the soil organic matter thickness.</summary>
/// <param name="soilOrganicMatter">The soil organic matter.</param>
/// <param name="thickness">Thickness to change soil water to.</param>
private static void SetSoilOrganicMatterThickness(Organic soilOrganicMatter, double[] thickness)
{
if (soilOrganicMatter != null)
{
if (!MathUtilities.AreEqual(thickness, soilOrganicMatter.Thickness))
{
soilOrganicMatter.FBiom = MapConcentration(soilOrganicMatter.FBiom, soilOrganicMatter.Thickness, thickness, MathUtilities.LastValue(soilOrganicMatter.FBiom));
soilOrganicMatter.FInert = MapConcentration(soilOrganicMatter.FInert, soilOrganicMatter.Thickness, thickness, MathUtilities.LastValue(soilOrganicMatter.FInert));
soilOrganicMatter.Carbon = MapConcentration(soilOrganicMatter.Carbon, soilOrganicMatter.Thickness, thickness, MathUtilities.LastValue(soilOrganicMatter.Carbon));
soilOrganicMatter.SoilCNRatio = MapConcentration(soilOrganicMatter.SoilCNRatio, soilOrganicMatter.Thickness, thickness, MathUtilities.LastValue(soilOrganicMatter.SoilCNRatio));
soilOrganicMatter.FOM = MapMass(soilOrganicMatter.FOM, soilOrganicMatter.Thickness, thickness, false);
soilOrganicMatter.Thickness = thickness;
}
if (soilOrganicMatter.FBiom != null)
{
MathUtilities.ReplaceMissingValues(soilOrganicMatter.FBiom, MathUtilities.LastValue(soilOrganicMatter.FBiom));
}
if (soilOrganicMatter.FInert != null)
{
MathUtilities.ReplaceMissingValues(soilOrganicMatter.FInert, MathUtilities.LastValue(soilOrganicMatter.FInert));
}
if (soilOrganicMatter.Carbon != null)
{
MathUtilities.ReplaceMissingValues(soilOrganicMatter.Carbon, MathUtilities.LastValue(soilOrganicMatter.Carbon));
}
}
}
/// <summary>
/// Called by solutes to set the value of a solute.
/// </summary>
/// <param name="callingModelType">Type of calling model.</param>
/// <param name="name">The name of the solute to get.</param>
/// <param name="value">The value of the solute.</param>
/// <returns></returns>
internal void SetSoluteKgha(SoluteSetterType callingModelType, string name, double[] value)
{
// Determine if value is different from the current value of the solute.
var currentValues = GetSoluteKgha(name);
bool hasChanges = currentValues == null || !MathUtilities.AreEqual(currentValues, value);
// check partitioning and pass the appropriate values to patches
if (hasChanges)
{
bool requiresPartitioning = patches.Count > 1 && (callingModelType == SoluteSetterType.Soil || callingModelType == SoluteSetterType.Plant);
if (requiresPartitioning)
{
// the values require partitioning
var deltaN = MathUtilities.Subtract(value, currentValues);
double[][] newDelta = PartitionDelta(deltaN, name, callingModelType, NPartitionApproach);
for (int i = 0; i < patches.Count; i++)
{
patches[i].AddKgHa(SoluteSetterType.Other, name, newDelta[i]);
}
}
else
{
// the values do not require partitioning - perform solute set.
foreach (var patch in patches)
{
patch.SetSoluteKgHa(SoluteSetterType.Other, name, value);
}
}
}
}
/// <summary>Sets the water thickness.</summary>
/// <param name="water">The water.</param>
/// <param name="toThickness">To thickness.</param>
/// <param name="soil">Soil</param>
private static void SetWaterThickness(Water water, double[] toThickness, Soil soil)
{
if (!MathUtilities.AreEqual(toThickness, water.Thickness))
{
water.BD = MapConcentration(water.BD, water.Thickness, toThickness, MathUtilities.LastValue(water.BD));
water.SW = MapSW(water.SW, water.Thickness, toThickness, soil);
water.AirDry = MapConcentration(water.AirDry, water.Thickness, toThickness, MathUtilities.LastValue(water.AirDry));
water.LL15 = MapConcentration(water.LL15, water.Thickness, toThickness, MathUtilities.LastValue(water.LL15));
water.DUL = MapConcentration(water.DUL, water.Thickness, toThickness, MathUtilities.LastValue(water.DUL));
water.SAT = MapConcentration(water.SAT, water.Thickness, toThickness, MathUtilities.LastValue(water.SAT));
water.KS = MapConcentration(water.KS, water.Thickness, toThickness, MathUtilities.LastValue(water.KS));
water.Thickness = toThickness;
}
if (water.Crops != null)
{
foreach (SoilCrop crop in water.Crops)
{
if (!MathUtilities.AreEqual(toThickness, crop.Thickness))
{
crop.LL = MapConcentration(crop.LL, crop.Thickness, toThickness, MathUtilities.LastValue(crop.LL));
crop.KL = MapConcentration(crop.KL, crop.Thickness, toThickness, MathUtilities.LastValue(crop.KL));
crop.XF = MapConcentration(crop.XF, crop.Thickness, toThickness, MathUtilities.LastValue(crop.XF));
crop.Thickness = toThickness;
// Ensure crop LL are between Airdry and DUL.
for (int i = 0; i < crop.LL.Length; i++)
{
crop.LL = MathUtilities.Constrain(crop.LL, soil.Water.AirDry, soil.Water.DUL);
}
}
}
}
}
/// <summary>Convert the soil temperature component to the specified thicknesses.</summary>
/// <param name="soilTemperature">The soil temperature.</param>
/// <param name="thickness">The thickness to convert to.</param>
private static void SetSoilTemperature(SoilTemperature soilTemperature, double[] thickness)
{
if (soilTemperature != null && !MathUtilities.AreEqual(thickness, soilTemperature.Thickness))
{
soilTemperature.InitialSoilTemperature = MapConcentration(soilTemperature.InitialSoilTemperature, soilTemperature.Thickness, thickness, MathUtilities.LastValue(soilTemperature.InitialSoilTemperature));
soilTemperature.Thickness = thickness;
}
}
/// <summary>Sets the water thickness.</summary>
/// <param name="water">The water.</param>
/// <param name="toThickness">To thickness.</param>
/// <param name="soil">Soil</param>
private static void SetWaterThickness(Physical water, double[] toThickness, Soil soil)
{
if (!MathUtilities.AreEqual(toThickness, soil.Thickness))
{
bool needToConstrainCropLL = false;
if (soil.Crops != null)
{
foreach (var crop in soil.Crops)
{
crop.KL = MapConcentration(crop.KL, soil.Thickness, toThickness, MathUtilities.LastValue(crop.KL));
crop.XF = MapConcentration(crop.XF, soil.Thickness, toThickness, MathUtilities.LastValue(crop.XF));
if (crop is SoilCrop)
{
needToConstrainCropLL = true;
var soilCrop = crop as SoilCrop;
soilCrop.LL = MapConcentration(soilCrop.LL, soil.Thickness, toThickness, MathUtilities.LastValue(soilCrop.LL));
}
}
}
soil.BD = MapConcentration(soil.BD, soil.Thickness, toThickness, MathUtilities.LastValue(soil.BD));
soil.AirDry = MapConcentration(soil.AirDry, soil.Thickness, toThickness, MathUtilities.LastValue(soil.AirDry));
soil.LL15 = MapConcentration(soil.LL15, soil.Thickness, toThickness, MathUtilities.LastValue(soil.LL15));
soil.DUL = MapConcentration(soil.DUL, soil.Thickness, toThickness, MathUtilities.LastValue(soil.DUL));
soil.SAT = MapConcentration(soil.SAT, soil.Thickness, toThickness, MathUtilities.LastValue(soil.SAT));
soil.KS = MapConcentration(soil.KS, soil.Thickness, toThickness, MathUtilities.LastValue(soil.KS));
if (water != null)
{
if (water.ParticleSizeClay != null && water.ParticleSizeClay.Length == water.Thickness.Length)
{
water.ParticleSizeClay = MapConcentration(water.ParticleSizeClay, water.Thickness, toThickness, MathUtilities.LastValue(water.ParticleSizeClay));
}
else
{
water.ParticleSizeClay = null;
}
}
soil.Thickness = toThickness;
if (needToConstrainCropLL)
{
foreach (var crop in soil.Crops)
{
if (crop is SoilCrop)
{
var soilCrop = crop as SoilCrop;
// Ensure crop LL are between Airdry and DUL.
for (int i = 0; i < soilCrop.LL.Length; i++)
{
soilCrop.LL = MathUtilities.Constrain(soilCrop.LL, water.AirDry, water.DUL);
}
}
}
}
}
}
public void CheckUserLayerStructure()
{
APSIM.Shared.Soils.Soil soil = Setup();
soil.LayerStructure = new LayerStructure();
soil.LayerStructure.Thickness = new double[] { 200, 200, 200, 200 };
APSIMReadySoil.Create(soil);
MathUtilities.AreEqual(soil.Water.Thickness, new double[] { 200, 200, 200, 200 });
}
public void AreEqual_AgainstSelf()
{
double test_double = 0.999;
Assert.True(MathUtilities.AreEqual(test_double, test_double));
float test_float = 0.999f;
Assert.True(MathUtilities.AreEqual(test_float, test_float));
}
/// <summary>Convert the phosphorus component to the specified thicknesses.</summary>
/// <param name="phosphorus">The phosphorus.</param>
/// <param name="thickness">The thickness to convert to.</param>
private static void SetPhosphorus(Phosphorus phosphorus, double[] thickness)
{
if (phosphorus != null && !MathUtilities.AreEqual(thickness, phosphorus.Thickness))
{
phosphorus.BandedP = MapConcentration(phosphorus.BandedP, phosphorus.Thickness, thickness, MathUtilities.LastValue(phosphorus.BandedP));
phosphorus.LabileP = MapConcentration(phosphorus.LabileP, phosphorus.Thickness, thickness, MathUtilities.LastValue(phosphorus.LabileP));
phosphorus.RockP = MapConcentration(phosphorus.RockP, phosphorus.Thickness, thickness, MathUtilities.LastValue(phosphorus.RockP));
phosphorus.Sorption = MapConcentration(phosphorus.Sorption, phosphorus.Thickness, thickness, MathUtilities.LastValue(phosphorus.Sorption));
phosphorus.Thickness = thickness;
}
}
/// <summary>Convert the crop to the specified thickness. Ensures LL is between AirDry and DUL.</summary>
/// <param name="crop">The crop to convert</param>
/// <param name="thickness">The thicknesses to convert the crop to.</param>
/// <param name="physical">The soil the crop belongs to.</param>
private static void SetCropThickness(SoilCrop crop, double[] thickness, IPhysical physical)
{
if (!MathUtilities.AreEqual(thickness, physical.Thickness))
{
crop.LL = MapConcentration(crop.LL, physical.Thickness, thickness, MathUtilities.LastValue(crop.LL));
crop.KL = MapConcentration(crop.KL, physical.Thickness, thickness, MathUtilities.LastValue(crop.KL));
crop.XF = MapConcentration(crop.XF, physical.Thickness, thickness, MathUtilities.LastValue(crop.XF));
crop.LL = MathUtilities.Constrain(crop.LL, AirDryMapped(physical, thickness), DULMapped(physical, thickness));
}
}
public void AreEqual_AgainstLargerValue()
{
double test_double_a = 0.12345;
double test_double_b = 2.98765;
Assert.False(MathUtilities.AreEqual(test_double_a, test_double_b));
float test_float_a = 0.12345f;
float test_float_b = 2.98765f;
Assert.False(MathUtilities.AreEqual(test_float_a, test_float_b));
}
public void AreEqual_AgainstSameValue()
{
double test_double_a = 1.0001;
double test_double_b = 1.0001;
Assert.True(MathUtilities.AreEqual(test_double_a, test_double_b));
float test_float_a = 1.0001f;
float test_float_b = 1.0001f;
Assert.True(MathUtilities.AreEqual(test_float_a, test_float_b));
}
public void AreEqual_AgainstCopy()
{
double test_double_a = 9.999;
double test_double_b = test_double_a;
Assert.True(MathUtilities.AreEqual(test_double_a, test_double_b));
float test_float_a = 9.999f;
float test_float_b = test_float_a;
Assert.True(MathUtilities.AreEqual(test_float_a, test_float_b));
}
public void AreEqual_AgainstSmallerValue()
{
double test_double_a = 3.1415;
double test_double_b = 0.1415;
Assert.False(MathUtilities.AreEqual(test_double_a, test_double_b));
float test_float_a = 3.1415f;
float test_float_b = 0.1415f;
Assert.False(MathUtilities.AreEqual(test_float_a, test_float_b));
}
/// <summary>Sets the sample thickness.</summary>
/// <param name="sample">The sample.</param>
/// <param name="thickness">The thickness to change the sample to.</param>
/// <param name="soil">The soil</param>
private static void SetSampleThickness(Sample sample, double[] thickness, Soil soil)
{
if (!MathUtilities.AreEqual(thickness, sample.Thickness))
{
if (sample.SW != null)
{
sample.SW = MapSW(sample.SW, sample.Thickness, thickness, soil);
}
if (sample.NH4 != null)
{
sample.NH4 = MapConcentration(sample.NH4, sample.Thickness, thickness, 0.2);
}
if (sample.NO3 != null)
{
sample.NO3 = MapConcentration(sample.NO3, sample.Thickness, thickness, 1.0);
}
// The elements below will be overlaid over other arrays of values so we want
// to have missing values (double.NaN) used at the bottom of the profile.
if (sample.CL != null)
{
sample.CL = MapConcentration(sample.CL, sample.Thickness, thickness, double.NaN, allowMissingValues: true);
}
if (sample.EC != null)
{
sample.EC = MapConcentration(sample.EC, sample.Thickness, thickness, double.NaN, allowMissingValues: true);
}
if (sample.ESP != null)
{
sample.ESP = MapConcentration(sample.ESP, sample.Thickness, thickness, double.NaN, allowMissingValues: true);
}
if (sample.OC != null)
{
sample.OC = MapConcentration(sample.OC, sample.Thickness, thickness, double.NaN, allowMissingValues: true);
}
if (sample.PH != null)
{
sample.PH = MapConcentration(sample.PH, sample.Thickness, thickness, double.NaN, allowMissingValues: true);
}
if (sample.LabileP != null)
{
sample.LabileP = MapConcentration(sample.LabileP, sample.Thickness, thickness, double.NaN, allowMissingValues: true);
}
if (sample.UnavailableP != null)
{
sample.UnavailableP = MapConcentration(sample.UnavailableP, sample.Thickness, thickness, double.NaN, allowMissingValues: true);
}
sample.Thickness = thickness;
}
}
/// <summary>Sets the water thickness.</summary>
/// <param name="physical">The water.</param>
/// <param name="toThickness">To thickness.</param>
/// <param name="soil">Soil</param>
private static void SetPhysicalPropertiesThickness(IPhysical physical, double[] toThickness, Soil soil)
{
if (!MathUtilities.AreEqual(toThickness, physical.Thickness))
{
var crops = (physical as IModel).FindAllChildren <SoilCrop>();
foreach (var crop in crops)
{
crop.KL = MapConcentration(crop.KL, physical.Thickness, toThickness, MathUtilities.LastValue(crop.KL));
crop.XF = MapConcentration(crop.XF, physical.Thickness, toThickness, MathUtilities.LastValue(crop.XF));
crop.LL = MapConcentration(crop.LL, physical.Thickness, toThickness, MathUtilities.LastValue(crop.LL));
}
physical.BD = MapConcentration(physical.BD, physical.Thickness, toThickness, MathUtilities.LastValue(physical.BD));
physical.AirDry = MapConcentration(physical.AirDry, physical.Thickness, toThickness, MathUtilities.LastValue(physical.AirDry));
physical.LL15 = MapConcentration(physical.LL15, physical.Thickness, toThickness, MathUtilities.LastValue(physical.LL15));
physical.DUL = MapConcentration(physical.DUL, physical.Thickness, toThickness, MathUtilities.LastValue(physical.DUL));
physical.SAT = MapConcentration(physical.SAT, physical.Thickness, toThickness, MathUtilities.LastValue(physical.SAT));
physical.KS = MapConcentration(physical.KS, physical.Thickness, toThickness, MathUtilities.LastValue(physical.KS));
if (physical != null)
{
if (physical.ParticleSizeClay != null && physical.ParticleSizeClay.Length > 0 && physical.ParticleSizeClay.Length != toThickness.Length)
{
physical.ParticleSizeClay = MapConcentration(physical.ParticleSizeClay, physical.Thickness, toThickness, MathUtilities.LastValue(physical.ParticleSizeClay));
}
if (physical.ParticleSizeSand != null && physical.ParticleSizeSand.Length > 0 && physical.ParticleSizeSand.Length != toThickness.Length)
{
physical.ParticleSizeSand = MapConcentration(physical.ParticleSizeSand, physical.Thickness, toThickness, MathUtilities.LastValue(physical.ParticleSizeSand));
}
if (physical.ParticleSizeSilt != null && physical.ParticleSizeSilt.Length > 0 && physical.ParticleSizeSilt.Length != toThickness.Length)
{
physical.ParticleSizeSilt = MapConcentration(physical.ParticleSizeSilt, physical.Thickness, toThickness, MathUtilities.LastValue(physical.ParticleSizeSilt));
}
if (physical.Rocks != null && physical.Rocks.Length > 0 && physical.Rocks.Length != toThickness.Length)
{
physical.Rocks = MapConcentration(physical.Rocks, physical.Thickness, toThickness, MathUtilities.LastValue(physical.Rocks));
}
}
physical.Thickness = toThickness;
foreach (var crop in crops)
{
var soilCrop = crop as SoilCrop;
// Ensure crop LL are between Airdry and DUL.
for (int i = 0; i < soilCrop.LL.Length; i++)
{
soilCrop.LL = MathUtilities.Constrain(soilCrop.LL, physical.AirDry, physical.DUL);
}
}
}
}
/// <summary>Sets the soil water thickness.</summary>
/// <param name="soilWater">The soil water.</param>
/// <param name="thickness">Thickness to change soil water to.</param>
private static void SetSoilWaterThickness(SoilWater soilWater, double[] thickness)
{
if (soilWater != null)
{
if (!MathUtilities.AreEqual(thickness, soilWater.Thickness))
{
soilWater.KLAT = MapConcentration(soilWater.KLAT, soilWater.Thickness, thickness, MathUtilities.LastValue(soilWater.KLAT));
soilWater.SWCON = MapConcentration(soilWater.SWCON, soilWater.Thickness, thickness, 0.0);
soilWater.Thickness = thickness;
}
MathUtilities.ReplaceMissingValues(soilWater.SWCON, 0.0);
}
}
/// <summary>Sets the analysis thickness.</summary>
/// <param name="analysis">The analysis.</param>
/// <param name="thickness">The thickness to change the analysis to.</param>
private static void SetAnalysisThickness(Chemical analysis, double[] thickness)
{
if (analysis != null && !MathUtilities.AreEqual(thickness, analysis.Thickness))
{
string[] metadata = StringUtilities.CreateStringArray("Mapped", thickness.Length);
analysis.NO3N = MapConcentration(analysis.NO3N, analysis.Thickness, thickness, 1.0);
analysis.NH4N = MapConcentration(analysis.NH4N, analysis.Thickness, thickness, 0.2);
analysis.CL = MapConcentration(analysis.CL, analysis.Thickness, thickness, MathUtilities.LastValue(analysis.CL));
analysis.EC = MapConcentration(analysis.EC, analysis.Thickness, thickness, MathUtilities.LastValue(analysis.EC));
analysis.ESP = MapConcentration(analysis.ESP, analysis.Thickness, thickness, MathUtilities.LastValue(analysis.ESP));
analysis.PH = MapConcentration(analysis.PH, analysis.Thickness, thickness, MathUtilities.LastValue(analysis.PH));
analysis.Thickness = thickness;
}
}
/// <summary>Sets the sample thickness.</summary>
/// <param name="swim">The swim model.</param>
/// <param name="thickness">The thickness to change the sample to.</param>
/// <param name="soil">The soil</param>
private static void SetSWIMThickness(Swim3 swim, double[] thickness, Soil soil)
{
foreach (var soluteParameters in soil.FindAllChildren <SwimSoluteParameters>())
{
if (!MathUtilities.AreEqual(thickness, soluteParameters.Thickness))
{
if (soluteParameters.Exco != null)
{
soluteParameters.Exco = MapConcentration(soluteParameters.Exco, soluteParameters.Thickness, thickness, 0.2);
}
if (soluteParameters.FIP != null)
{
soluteParameters.FIP = MapConcentration(soluteParameters.FIP, soluteParameters.Thickness, thickness, 0.2);
}
}
}
}
/// <summary>Sets the analysis thickness.</summary>
/// <param name="analysis">The analysis.</param>
/// <param name="thickness">The thickness to change the analysis to.</param>
private static void SetAnalysisThickness(Analysis analysis, double[] thickness)
{
if (analysis != null && !MathUtilities.AreEqual(thickness, analysis.Thickness))
{
string[] metadata = StringUtilities.CreateStringArray("Mapped", thickness.Length);
analysis.CL = MapConcentration(analysis.CL, analysis.Thickness, thickness, MathUtilities.LastValue(analysis.CL));
analysis.CLMetadata = metadata;
analysis.EC = MapConcentration(analysis.EC, analysis.Thickness, thickness, MathUtilities.LastValue(analysis.EC));
analysis.ECMetadata = metadata;
analysis.ESP = MapConcentration(analysis.ESP, analysis.Thickness, thickness, MathUtilities.LastValue(analysis.ESP));
analysis.ESPMetadata = metadata;
if (analysis.ParticleSizeClay != null && analysis.ParticleSizeClay.Length == analysis.Thickness.Length)
{
analysis.ParticleSizeClay = MapConcentration(analysis.ParticleSizeClay, analysis.Thickness, thickness, MathUtilities.LastValue(analysis.ParticleSizeClay));
analysis.ParticleSizeClayMetadata = metadata;
}
else
{
analysis.ParticleSizeClay = null;
}
if (analysis.ParticleSizeSand != null && analysis.ParticleSizeSand.Length == analysis.Thickness.Length)
{
analysis.ParticleSizeSand = MapConcentration(analysis.ParticleSizeSand, analysis.Thickness, thickness, MathUtilities.LastValue(analysis.ParticleSizeSand));
analysis.ParticleSizeSandMetadata = metadata;
}
else
{
analysis.ParticleSizeSand = null;
}
if (analysis.ParticleSizeSilt != null && analysis.ParticleSizeSilt.Length == analysis.Thickness.Length)
{
analysis.ParticleSizeSilt = MapConcentration(analysis.ParticleSizeSilt, analysis.Thickness, thickness, MathUtilities.LastValue(analysis.ParticleSizeSilt));
analysis.ParticleSizeSiltMetadata = metadata;
}
else
{
analysis.ParticleSizeSilt = null;
}
analysis.PH = MapConcentration(analysis.PH, analysis.Thickness, thickness, MathUtilities.LastValue(analysis.PH));
analysis.PHMetadata = metadata;
analysis.Thickness = thickness;
}
}
/// <summary>Sets the water thickness.</summary>
/// <param name="water">The water.</param>
/// <param name="toThickness">To thickness.</param>
/// <param name="soil">Soil</param>
private static void SetWaterThickness(Water water, double[] toThickness, Soil soil)
{
if (!MathUtilities.AreEqual(toThickness, soil.Thickness))
{
bool needToConstrainCropLL = false;
foreach (var cropName in soil.CropNames)
{
var crop = soil.Crop(cropName);
crop.KL = MapConcentration(crop.KL, soil.Thickness, toThickness, MathUtilities.LastValue(crop.KL));
crop.XF = MapConcentration(crop.XF, soil.Thickness, toThickness, MathUtilities.LastValue(crop.XF));
if (crop is SoilCrop)
{
needToConstrainCropLL = true;
var soilCrop = crop as SoilCrop;
soilCrop.LL = MapConcentration(soilCrop.LL, soil.Thickness, toThickness, MathUtilities.LastValue(soilCrop.LL));
}
}
soil.BD = MapConcentration(soil.BD, soil.Thickness, toThickness, MathUtilities.LastValue(soil.BD));
soil.AirDry = MapConcentration(soil.AirDry, soil.Thickness, toThickness, MathUtilities.LastValue(soil.AirDry));
soil.LL15 = MapConcentration(soil.LL15, soil.Thickness, toThickness, MathUtilities.LastValue(soil.LL15));
soil.DUL = MapConcentration(soil.DUL, soil.Thickness, toThickness, MathUtilities.LastValue(soil.DUL));
soil.SAT = MapConcentration(soil.SAT, soil.Thickness, toThickness, MathUtilities.LastValue(soil.SAT));
soil.KS = MapConcentration(soil.KS, soil.Thickness, toThickness, MathUtilities.LastValue(soil.KS));
soil.Thickness = toThickness;
if (needToConstrainCropLL)
{
foreach (ISoilCrop crop in water.Crops)
{
if (crop is SoilCrop)
{
var soilCrop = crop as SoilCrop;
// Ensure crop LL are between Airdry and DUL.
for (int i = 0; i < soilCrop.LL.Length; i++)
{
soilCrop.LL = MathUtilities.Constrain(soilCrop.LL, water.AirDry, water.DUL);
}
}
}
}
}
}
/// <summary>Sets the soil water thickness.</summary>
/// <param name="soilWater">The soil water.</param>
/// <param name="thickness">Thickness to change soil water to.</param>
private static void SetSoilWaterThickness(WaterModel.WaterBalance soilWater, double[] thickness)
{
if (soilWater != null)
{
if (!MathUtilities.AreEqual(thickness, soilWater.Thickness))
{
soilWater.KLAT = MapConcentration(soilWater.KLAT, soilWater.Thickness, thickness, MathUtilities.LastValue(soilWater.KLAT));
soilWater.SWCON = MapConcentration(soilWater.SWCON, soilWater.Thickness, thickness, 0.0);
soilWater.Thickness = thickness;
}
if (soilWater.SWCON == null)
{
soilWater.SWCON = MathUtilities.CreateArrayOfValues(0.3, soilWater.Thickness.Length);
}
MathUtilities.ReplaceMissingValues(soilWater.SWCON, 0.0);
}
}
/// <summary>Sets the analysis thickness.</summary>
/// <param name="analysis">The analysis.</param>
/// <param name="thickness">The thickness to change the analysis to.</param>
private static void SetAnalysisThickness(Analysis analysis, double[] thickness)
{
if (analysis != null && !MathUtilities.AreEqual(thickness, analysis.Thickness))
{
string[] metadata = StringUtilities.CreateStringArray("Mapped", thickness.Length);
analysis.Al = MapConcentration(analysis.Al, analysis.Thickness, thickness, MathUtilities.LastValue(analysis.Al));
analysis.AlMetadata = metadata;
analysis.Ca = MapConcentration(analysis.Ca, analysis.Thickness, thickness, MathUtilities.LastValue(analysis.Ca));
analysis.CaMetadata = metadata;
analysis.CEC = MapConcentration(analysis.CEC, analysis.Thickness, thickness, MathUtilities.LastValue(analysis.CEC));
analysis.CECMetadata = metadata;
analysis.CL = MapConcentration(analysis.CL, analysis.Thickness, thickness, MathUtilities.LastValue(analysis.CL));
analysis.CLMetadata = metadata;
analysis.EC = MapConcentration(analysis.EC, analysis.Thickness, thickness, MathUtilities.LastValue(analysis.EC));
analysis.ECMetadata = metadata;
analysis.ESP = MapConcentration(analysis.ESP, analysis.Thickness, thickness, MathUtilities.LastValue(analysis.ESP));
analysis.ESPMetadata = metadata;
analysis.K = MapConcentration(analysis.K, analysis.Thickness, thickness, MathUtilities.LastValue(analysis.K));
analysis.KMetadata = metadata;
analysis.Mg = MapConcentration(analysis.Mg, analysis.Thickness, thickness, MathUtilities.LastValue(analysis.Mg));
analysis.MgMetadata = metadata;
analysis.Mn = MapConcentration(analysis.Mn, analysis.Thickness, thickness, MathUtilities.LastValue(analysis.Mn));
analysis.MnMetadata = metadata;
analysis.MunsellColour = null;
analysis.Na = MapConcentration(analysis.Na, analysis.Thickness, thickness, MathUtilities.LastValue(analysis.Na));
analysis.NaMetadata = metadata;
analysis.ParticleSizeClay = MapConcentration(analysis.ParticleSizeClay, analysis.Thickness, thickness, MathUtilities.LastValue(analysis.ParticleSizeClay));
analysis.ParticleSizeClayMetadata = metadata;
analysis.ParticleSizeSand = MapConcentration(analysis.ParticleSizeSand, analysis.Thickness, thickness, MathUtilities.LastValue(analysis.ParticleSizeSand));
analysis.ParticleSizeSandMetadata = metadata;
analysis.ParticleSizeSilt = MapConcentration(analysis.ParticleSizeSilt, analysis.Thickness, thickness, MathUtilities.LastValue(analysis.ParticleSizeSilt));
analysis.ParticleSizeSiltMetadata = metadata;
analysis.PH = MapConcentration(analysis.PH, analysis.Thickness, thickness, MathUtilities.LastValue(analysis.PH));
analysis.PHMetadata = metadata;
analysis.Rocks = MapConcentration(analysis.Rocks, analysis.Thickness, thickness, MathUtilities.LastValue(analysis.Rocks));
analysis.RocksMetadata = metadata;
analysis.Texture = null;
analysis.Thickness = thickness;
}
}
public void TestSaturatedFlow()
{
SoilModel soil = new SoilModel();
APSIM.Shared.Soils.Soil soilProperties = Setup();
APSIMReadySoil.Create(soilProperties);
SaturatedFlowModel saturatedFlow = new SaturatedFlowModel();
SetLink(soil, "properties", soilProperties);
SetLink(saturatedFlow, "soil", soil);
saturatedFlow.SWCON = new double[] { 0.3, 0.3, 0.3, 0.3, 0.3, 0.3 };
// Profile at DUL.
soil.Water = MathUtilities.Multiply(soilProperties.Water.DUL, soilProperties.Water.Thickness);
double[] flux = saturatedFlow.Values;
Assert.IsTrue(MathUtilities.AreEqual(flux, new double[] { 0, 0, 0, 0, 0, 0 }));
// Profile at SAT.
soil.Water = MathUtilities.Multiply(soilProperties.Water.SAT, soilProperties.Water.Thickness);
flux = saturatedFlow.Values;
Assert.IsTrue(MathUtilities.AreEqual(flux, new double[] { 1.05, 2.85, 4.64999, 6.45, 8.25, 10.05 }));
// Use the KS method
soilProperties.Water.KS = new double[] { 1000, 300, 20, 100, 100, 100 };
flux = saturatedFlow.Values;
Assert.IsTrue(MathUtilities.AreEqual(flux, new double[] { 1.05, 1.8000, 1.8000, 1.8000, 1.8000, 1.8000 }));
Assert.AreEqual(saturatedFlow.backedUpSurface, 0);
// Use the KS method, water above SAT.
soilProperties.Water.KS = new double[] { 1000, 300, 20, 100, 100, 100 };
MathUtilities.AddValue(soil.Water, 10); // add 5 mm of water into each layer.
flux = saturatedFlow.Values;
Assert.IsTrue(MathUtilities.AreEqual(flux, new double[] { 1.05, 1.8000, 1.8000, 1.8000, 1.8000, 1.8000 }));
}