//---------------------------------------------------------------------
/// <summary>This must be called after EcoregionPnET.Initialize() has been called</summary>
private void InitializeClimateLibrary()
{
// John McNabb: initialize ClimateRegionData after initializing EcoregionPnet
Parameter <string> climateLibraryFileName;
UsingClimateLibrary = Names.TryGetParameter(Names.ClimateConfigFile, out climateLibraryFileName);
if (UsingClimateLibrary)
{
PlugIn.ModelCore.UI.WriteLine($"Using climate library: {climateLibraryFileName.Value}.");
Climate.Initialize(climateLibraryFileName.Value, false, ModelCore);
ClimateRegionData.Initialize();
}
else
{
PlugIn.ModelCore.UI.WriteLine($"Using climate files in ecoregion parameters: {Names.parameters["EcoregionParameters"].Value}.");
}
string PARunits = ((Parameter <string>)Names.GetParameter(Names.PARunits)).Value;
if (PARunits == "umol")
{
PlugIn.ModelCore.UI.WriteLine("Using PAR units of umol/m2/s.");
}
else if (PARunits == "W/m2")
{
PlugIn.ModelCore.UI.WriteLine("Using PAR units of W/m2.");
}
else
{
throw new ApplicationException(string.Format("PARunits units are not 'umol' or 'W/m2'"));
}
}
//---------------------------------------------------------------------
public override void Initialize()
{
PlugIn.ModelCore.UI.WriteLine("Initializing {0} ...", ExtensionName);
Timestep = parameters.Timestep;
SuccessionTimeStep = Timestep;
sufficientLight = parameters.LightClassProbabilities;
ProbEstablishAdjust = parameters.ProbEstablishAdjustment;
MetadataHandler.InitializeMetadata(Timestep, modelCore, SoilCarbonMapNames, SoilNitrogenMapNames, ANPPMapNames, ANEEMapNames, TotalCMapNames);
CohortBiomass.SpinupMortalityFraction = parameters.SpinupMortalityFraction;
//Initialize climate.
Climate.Initialize(parameters.ClimateConfigFile, false, modelCore);
FutureClimateBaseYear = Climate.Future_MonthlyData.Keys.Min();
EcoregionData.Initialize(parameters);
SpeciesData.Initialize(parameters);
EcoregionData.ChangeParameters(parameters);
OtherData.Initialize(parameters);
FunctionalType.Initialize(parameters);
// Cohorts must be created before the base class is initialized
// because the base class' reproduction module uses the core's
// SuccessionCohorts property in its Initialization method.
Library.LeafBiomassCohorts.Cohorts.Initialize(Timestep, new CohortBiomass());
// Initialize Reproduction routines:
Reproduction.SufficientResources = SufficientLight;
Reproduction.Establish = Establish;
Reproduction.AddNewCohort = AddNewCohort;
Reproduction.MaturePresent = MaturePresent;
base.Initialize(modelCore, parameters.SeedAlgorithm);
InitialBiomass.Initialize(Timestep);
Landis.Library.BiomassCohorts.Cohort.DeathEvent += CohortDied;
Landis.Library.LeafBiomassCohorts.Cohort.PartialDeathEvent += CohortPartialMortality;
AgeOnlyDisturbances.Module.Initialize(parameters.AgeOnlyDisturbanceParms);
Dynamic.Module.Initialize(parameters.DynamicUpdates);
FireEffects.Initialize(parameters);
InitializeSites(parameters.InitialCommunities, parameters.InitialCommunitiesMap, modelCore); //the spinup is heppend within this fucntion
if (parameters.CalibrateMode)
{
Outputs.CreateCalibrateLogFile();
}
Outputs.WritePrimaryLogFile(0);
Outputs.WriteShortPrimaryLogFile(0);
}
//---------------------------------------------------------------------
public override void Initialize()
{
Timestep = Parameters.Timestep;
time = Timestep;
CalibrateMode = Parameters.CalibrateMode;
CohortBiomass.SpinupMortalityFraction = Parameters.SpinupMortalityFraction;
//Initialize climate.
if (Parameters.ClimateConfigFile != null)
{
Climate.Initialize(Parameters.ClimateConfigFile, false, modelCore);
FutureClimateBaseYear = Climate.Future_MonthlyData.Keys.Min();
ClimateRegionData.Initialize(Parameters);
}
sufficientLight = Parameters.LightClassProbabilities;
SpeciesData.Initialize(Parameters);
EcoregionData.Initialize(Parameters);
DynamicInputs.Initialize(Parameters.DynamicInputFile, false);
SpeciesData.ChangeDynamicParameters(0); // Year 0
FireEffects.Initialize(Parameters);
//Outputs.Initialize(parameters);
MetadataHandler.InitializeMetadata(summaryLogFileName);
// Cohorts must be created before the base class is initialized
// because the base class' reproduction module uses the core's
// SuccessionCohorts property in its Initialization method.
Landis.Library.BiomassCohorts.Cohorts.Initialize(Timestep, new CohortBiomass());
// Initialize Reproduction routines:
Reproduction.SufficientResources = SufficientLight;
Reproduction.Establish = Establish;
Reproduction.AddNewCohort = AddNewCohort;
Reproduction.MaturePresent = MaturePresent;
Reproduction.PlantingEstablish = PlantingEstablish;
base.Initialize(modelCore, Parameters.SeedAlgorithm);
InitialBiomass.Initialize(Timestep);
Landis.Library.BiomassCohorts.Cohort.DeathEvent += CohortTotalMortality;
Landis.Library.BiomassCohorts.Cohort.PartialDeathEvent += CohortPartialMortality;
InitializeSites(Parameters.InitialCommunities, Parameters.InitialCommunitiesMap, modelCore);
}
/// <summary>This must be called after EcoregionPnET.Initialize() has been called</summary>
private void InitializeClimateLibrary()
{
// John McNabb: initialize ClimateRegionData after initializing EcoregionPnet
Parameter <string> climateLibraryFileName;
UsingClimateLibrary = TryGetParameter(Names.ClimateConfigFile, out climateLibraryFileName);
if (UsingClimateLibrary)
{
PlugIn.ModelCore.UI.WriteLine($"Using climate library: {climateLibraryFileName.Value}.");
Climate.Initialize(climateLibraryFileName.Value, false, ModelCore);
ClimateRegionData.Initialize();
}
else
{
PlugIn.ModelCore.UI.WriteLine($"Using climate files in ecoregion parameters: {PlugIn.parameters["EcoregionParameters"].Value}.");
}
}
//---------------------------------------------------------------------
public override void Initialize()
{
PlugIn.ModelCore.UI.WriteLine("Initializing {0} ...", ExtensionName);
Timestep = Parameters.Timestep;
SuccessionTimeStep = Timestep;
sufficientLight = Parameters.LightClassProbabilities;
ProbEstablishAdjust = Parameters.ProbEstablishAdjustment;
MetadataHandler.InitializeMetadata(Timestep, modelCore, SoilCarbonMapNames, SoilNitrogenMapNames, ANPPMapNames, ANEEMapNames, TotalCMapNames); //,LAIMapNames, ShadeClassMapNames);
//Initialize climate.
Climate.Initialize(Parameters.ClimateConfigFile, false, modelCore);
FutureClimateBaseYear = Climate.Future_MonthlyData.Keys.Min();
ClimateRegionData.Initialize(Parameters);
FunctionalType.Initialize(Parameters);
SpeciesData.Initialize(Parameters);
Util.ReadSoilDepthMap(Parameters.SoilDepthMapName);
Util.ReadSoilDrainMap(Parameters.SoilDrainMapName);
Util.ReadSoilBaseFlowMap(Parameters.SoilBaseFlowMapName);
Util.ReadSoilStormFlowMap(Parameters.SoilStormFlowMapName);
Util.ReadFieldCapacityMap(Parameters.SoilFieldCapacityMapName);
Util.ReadWiltingPointMap(Parameters.SoilWiltingPointMapName);
Util.ReadPercentSandMap(Parameters.SoilPercentSandMapName);
Util.ReadPercentClayMap(Parameters.SoilPercentClayMapName);
Util.ReadSoilCNMaps(Parameters.InitialSOM1CSurfaceMapName,
Parameters.InitialSOM1NSurfaceMapName,
Parameters.InitialSOM1CSoilMapName,
Parameters.InitialSOM1NSoilMapName,
Parameters.InitialSOM2CMapName,
Parameters.InitialSOM2NMapName,
Parameters.InitialSOM3CMapName,
Parameters.InitialSOM3NMapName);
Util.ReadDeadWoodMaps(Parameters.InitialDeadSurfaceMapName, Parameters.InitialDeadSoilMapName);
ShadeLAI = Parameters.MaximumShadeLAI;
OtherData.Initialize(Parameters);
FireEffects.Initialize(Parameters);
// Cohorts must be created before the base class is initialized
// because the base class' reproduction module uses the core's
// SuccessionCohorts property in its Initialization method.
Library.LeafBiomassCohorts.Cohorts.Initialize(Timestep, new CohortBiomass());
// Initialize Reproduction routines:
Reproduction.SufficientResources = SufficientLight;
Reproduction.Establish = Establish;
Reproduction.AddNewCohort = AddNewCohort;
Reproduction.MaturePresent = MaturePresent;
base.Initialize(modelCore, Parameters.SeedAlgorithm);
// Delegate mortality routines:
Landis.Library.LeafBiomassCohorts.Cohort.PartialDeathEvent += CohortPartialMortality;
Landis.Library.LeafBiomassCohorts.Cohort.DeathEvent += CohortTotalMortality;
InitializeSites(Parameters.InitialCommunities, Parameters.InitialCommunitiesMap, modelCore);
if (Parameters.CalibrateMode)
{
Outputs.CreateCalibrateLogFile();
}
Establishment.InitializeLogFile();
B_MAX = 0;
foreach (ISpecies species in ModelCore.Species)
{
if (SpeciesData.Max_Biomass[species] > B_MAX)
{
B_MAX = SpeciesData.Max_Biomass[species];
}
}
foreach (ActiveSite site in PlugIn.ModelCore.Landscape)
{
Main.ComputeTotalCohortCN(site, SiteVars.Cohorts[site]);
}
Outputs.WritePrimaryLogFile(0);
Outputs.WriteShortPrimaryLogFile(0);
}
