//---------------------------------------------------------------------
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);
//CohortBiomass.SpinupMortalityFraction = parameters.SpinupMortalityFraction;
//Initialize climate.
Climate.Initialize(parameters.ClimateConfigFile, false, modelCore);
FutureClimateBaseYear = Climate.Future_MonthlyData.Keys.Min();
ClimateRegionData.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);
AtmosNslope = parameters.AtmosNslope;
AtmosNintercept = parameters.AtmosNintercept;
Latitude = parameters.Latitude;
DenitrificationRate = parameters.Denitrif;
DecayRateSurf = parameters.DecayRateSurf;
DecayRateSOM1 = parameters.DecayRateSOM1;
DecayRateSOM2 = parameters.DecayRateSOM2;
DecayRateSOM3 = parameters.DecayRateSOM3;
ShadeLAI = parameters.MaximumShadeLAI; //.MinRelativeBiomass;
OtherData.Initialize(parameters);
FunctionalType.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);
Landis.Library.LeafBiomassCohorts.Cohort.PartialDeathEvent += CohortPartialMortality;
Landis.Library.BiomassCohorts.Cohort.DeathEvent += CohortDied;
AgeOnlyDisturbances.Module.Initialize(parameters.AgeOnlyDisturbanceParms);
//InitialBiomass.Initialize(Timestep);
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)
{
Century.ComputeTotalCohortCN(site, SiteVars.Cohorts[site]);
}
Outputs.WritePrimaryLogFile(0);
Outputs.WriteShortPrimaryLogFile(0);
}
//---------------------------------------------------------------------
/// <summary>
/// Determines if a species can establish on a site.
/// This is a Delegate method to base succession.
/// </summary>
public bool Establish(ISpecies species, ActiveSite site)
{
double establishProbability = Establishment.Calculate(species, site);
return(modelCore.GenerateUniform() < establishProbability);
}
