//---------------------------------------------------------------------
public override void Run()
{
if (PlugIn.ModelCore.CurrentTime > 0)
{
SiteVars.InitializeDisturbances();
}
ClimateRegionData.AnnualNDeposition = new Landis.Library.Parameters.Ecoregions.AuxParm <double>(PlugIn.ModelCore.Ecoregions);
SpeciesByPlant = new int[ModelCore.Species.Count];
SpeciesByResprout = new int[ModelCore.Species.Count];
SpeciesBySerotiny = new int[ModelCore.Species.Count];
SpeciesBySeed = new int[ModelCore.Species.Count];
//base.RunReproductionFirst();
base.Run();
if (Timestep > 0)
{
ClimateRegionData.SetAllEcoregions_FutureAnnualClimate(ModelCore.CurrentTime);
}
if (ModelCore.CurrentTime % Timestep == 0)
{
// Write monthly log file:
// Output must reflect the order of operation:
int[] months = new int[12] {
6, 7, 8, 9, 10, 11, 0, 1, 2, 3, 4, 5
};
if (OtherData.CalibrateMode)
{
months = new int[12] {
6, 7, 8, 9, 10, 11, 0, 1, 2, 3, 4, 5
}
}
;
for (int i = 0; i < 12; i++)
{
int month = months[i];
Outputs.WriteMonthlyLogFile(month);
}
Outputs.WritePrimaryLogFile(PlugIn.ModelCore.CurrentTime);
Outputs.WriteShortPrimaryLogFile(PlugIn.ModelCore.CurrentTime);
Outputs.WriteMaps();
Outputs.WriteReproductionLog(PlugIn.ModelCore.CurrentTime);
Establishment.LogEstablishment();
if (PlugIn.InputCommunityMapNames != null && ModelCore.CurrentTime % PlugIn.InputCommunityMapFrequency == 0)
{
Outputs.WriteCommunityMaps();
}
}
}
//---------------------------------------------------------------------
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);
}
