/// <summary>
/// Adds some biomass for a species to the WOOD litter pools at a site.
/// </summary>
public static void AddWoodLitter(double woodBiomass,
ISpecies species,
ActiveSite site)
{
if (woodBiomass > 0)
{
WoodLayer.PartitionResidue(woodBiomass,
FunctionalType.Table[SpeciesData.FuncType[species]].WoodDecayRate,
SpeciesData.WoodCN[species],
SpeciesData.WoodLignin[species],
LayerName.Wood,
LayerType.Surface,
site);
}
}
//---------------------------------------------------------------------
/// <summary>
/// Kills coarse roots and add the biomass to the Wood Debris pool.
/// </summary>
public static void AddCoarseRootLitter(double abovegroundWoodBiomass, ICohort cohort,
ISpecies species,
ActiveSite site)
{
double coarseRootBiomass = CalculateCoarseRoot(cohort, abovegroundWoodBiomass); // Ratio above to below
if (coarseRootBiomass > 0)
{
WoodLayer.PartitionResidue(coarseRootBiomass,
FunctionalType.Table[SpeciesData.FuncType[species]].WoodDecayRate,
SpeciesData.CoarseRootCN[species],
SpeciesData.CoarseRootLignin[species],
LayerName.CoarseRoot,
LayerType.Soil,
site);
}
}
/// <summary>
/// Grows all cohorts at a site for a specified number of years.
/// Litter is decomposed following growth.
/// </summary>
public static ISiteCohorts Run(ActiveSite site,
int years,
bool isSuccessionTimeStep)
{
ISiteCohorts siteCohorts = SiteVars.Cohorts[site];
IEcoregion ecoregion = PlugIn.ModelCore.Ecoregion[site];
for (int y = 0; y < years; ++y)
{
Year = y + 1;
if (PlugIn.ModelCore.CurrentTime > 0 && Climate.Future_MonthlyData.ContainsKey(PlugIn.FutureClimateBaseYear + y + PlugIn.ModelCore.CurrentTime - years))
{
EcoregionData.AnnualWeather[ecoregion] = Climate.Future_MonthlyData[PlugIn.FutureClimateBaseYear + y - years + PlugIn.ModelCore.CurrentTime][ecoregion.Index];
}
SiteVars.ResetAnnualValues(site);
if (y == 0 && SiteVars.FireSeverity != null && SiteVars.FireSeverity[site] > 0)
{
FireEffects.ReduceLayers(SiteVars.FireSeverity[site], site);
}
// Next, Grow and Decompose each month
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 (MonthCnt = 0; MonthCnt < 12; MonthCnt++)
{
// Calculate mineral N fractions based on coarse root biomass
if (MonthCnt == 0)
{
AvailableN.CalculateMineralNfraction(site);
}
//PlugIn.ModelCore.UI.WriteLine("SiteVars.MineralN = {0:0.00}, month = {1}.", SiteVars.MineralN[site], i);
Month = months[MonthCnt];
SiteVars.MonthlyAGNPPcarbon[site][Month] = 0.0;
SiteVars.MonthlyBGNPPcarbon[site][Month] = 0.0;
SiteVars.MonthlyNEE[site][Month] = 0.0;
SiteVars.MonthlyResp[site][Month] = 0.0;
SiteVars.MonthlyStreamN[site][Month] = 0.0;
SiteVars.SourceSink[site].Carbon = 0.0;
SiteVars.TotalWoodBiomass[site] = Main.ComputeWoodBiomass((ActiveSite)site);
//SiteVars.LAI[site] = Main.ComputeLAI((ActiveSite)site);
double ppt = EcoregionData.AnnualWeather[ecoregion].MonthlyPrecip[Main.Month];
double monthlyNdeposition;
if (EcoregionData.AtmosNintercept[ecoregion] != -1 && EcoregionData.AtmosNslope[ecoregion] != -1)
{
monthlyNdeposition = EcoregionData.AtmosNintercept[ecoregion] + (EcoregionData.AtmosNslope[ecoregion] * ppt);
}
else
{
monthlyNdeposition = EcoregionData.AnnualWeather[ecoregion].MonthlyNDeposition[Main.Month];
}
if (monthlyNdeposition < 0)
{
throw new System.ApplicationException("Error: Nitrogen deposition input data are not present in climate library");
}
EcoregionData.MonthlyNDeposition[ecoregion][Month] = monthlyNdeposition;
EcoregionData.AnnualNDeposition[ecoregion] += monthlyNdeposition;
SiteVars.MineralN[site] += monthlyNdeposition;
//PlugIn.ModelCore.UI.WriteLine("Ndeposition={0},MineralN={1:0.00}.", monthlyNdeposition, SiteVars.MineralN[site]);
double liveBiomass = (double)ComputeLivingBiomass(siteCohorts);
double baseFlow, stormFlow;
SoilWater.Run(y, Month, liveBiomass, site, out baseFlow, out stormFlow);
// Calculate N allocation for each cohort
AvailableN.SetMineralNallocation(site);
if (MonthCnt == 11)
{
siteCohorts.Grow(site, (y == years && isSuccessionTimeStep), true);
}
else
{
siteCohorts.Grow(site, (y == years && isSuccessionTimeStep), false);
}
WoodLayer.Decompose(site);
LitterLayer.Decompose(site);
SoilLayer.Decompose(site);
//...Volatilization loss as a function of the mineral n which
// remains after uptake by plants. ML added a correction factor for wetlands since their denitrification rate is double that of wetlands
//based on a review paper by Seitziner 2006.
double volatilize = (SiteVars.MineralN[site] * EcoregionData.Denitrif[ecoregion]); // monthly value
//PlugIn.ModelCore.UI.WriteLine("BeforeVol. MineralN={0:0.00}.", SiteVars.MineralN[site]);
SiteVars.MineralN[site] -= volatilize;
SiteVars.SourceSink[site].Nitrogen += volatilize;
SiteVars.Nvol[site] += volatilize;
SoilWater.Leach(site, baseFlow, stormFlow);
SiteVars.MonthlyNEE[site][Month] -= SiteVars.MonthlyAGNPPcarbon[site][Month];
SiteVars.MonthlyNEE[site][Month] -= SiteVars.MonthlyBGNPPcarbon[site][Month];
SiteVars.MonthlyNEE[site][Month] += SiteVars.SourceSink[site].Carbon;
}
}
ComputeTotalCohortCN(site, siteCohorts);
return(siteCohorts);
}