public void ExponentialDistribution(double lambda)
{
var n = new ExponentialDistribution(lambda);
var t = 0.0;
foreach (var x in Enumerable.Range(0, RepetitionCount).Select(i => n.NextDouble()))
{
t += x;
BoundRecorder.Observe(x);
UnboundRecorder.Observe(x);
}
ApproxEquals(RepetitionCount, BoundRecorder.Count);
ApproxEquals(RepetitionCount, UnboundRecorder.Count);
ApproxEquals(t, BoundRecorder.Total());
ApproxEquals(t, UnboundRecorder.Total());
ApproxEquals(n.Mean, BoundRecorder.Mean());
ApproxEquals(n.Mean, UnboundRecorder.Mean());
ApproxEquals(n.Variance, BoundRecorder.Variance());
ApproxEquals(n.Variance, UnboundRecorder.Variance());
ApproxEquals(Math.Sqrt(n.Variance), BoundRecorder.StdDev());
ApproxEquals(Math.Sqrt(n.Variance), UnboundRecorder.StdDev());
}
public void ExponentialDistribution_WithUniformTimes(double lambda)
{
var n = new ExponentialDistribution(lambda);
var t = 0.0;
foreach (var i in Enumerable.Range(1, RepetitionCount))
{
var x = n.NextDouble();
t += x;
BoundRecorder.Observe(x, i);
UnboundRecorder.Observe(x, i);
}
ApproxEquals(RepetitionCount, BoundRecorder.Count);
ApproxEquals(RepetitionCount, UnboundRecorder.Count);
ApproxEquals(t, BoundRecorder.Total());
ApproxEquals(t, UnboundRecorder.Total());
ApproxEquals(n.Mean, BoundRecorder.TimeMean(RepetitionCount + 1));
ApproxEquals(n.Mean, UnboundRecorder.TimeMean(RepetitionCount + 1));
ApproxEquals(n.Variance, BoundRecorder.TimeVariance(RepetitionCount + 1));
ApproxEquals(n.Variance, UnboundRecorder.TimeVariance(RepetitionCount + 1));
ApproxEquals(Math.Sqrt(n.Variance), BoundRecorder.TimeStdDev(RepetitionCount + 1));
ApproxEquals(Math.Sqrt(n.Variance), UnboundRecorder.TimeStdDev(RepetitionCount + 1));
}
//---------------------------------------------------------------------
///<summary>
/// Run the Biomass Insects extension at a particular timestep.
///</summary>
public override void Run()
{
running = true;
UI.WriteLine(" Processing landscape for Biomass Insect events ...");
foreach(IInsect insect in manyInsect)
{
if(insect.MortalityYear == Model.Core.CurrentTime)
Outbreak.Mortality(insect);
// Copy the data from current to last
foreach (ActiveSite site in Model.Core.Landscape)
insect.LastYearDefoliation[site] = insect.ThisYearDefoliation[site];
insect.ThisYearDefoliation.ActiveSiteValues = 0.0;
//SiteVars.BiomassRemoved.ActiveSiteValues = 0;
insect.ActiveOutbreak = false;
insect.SingleOutbreakYear = false;
NormalDistribution randVar = new NormalDistribution(RandomNumberGenerator.Singleton);
randVar.Mu = 0; // mean
randVar.Sigma = 1; // std dev
double randomNum = randVar.NextDouble();
ExponentialDistribution randVarE = new ExponentialDistribution(RandomNumberGenerator.Singleton);
randVarE.Lambda = insect.MeanDuration; // rate
double randomNumE = randVarE.NextDouble();
// First, has enough time passed since the last outbreak?
double timeBetweenOutbreaks = insect.MeanTimeBetweenOutbreaks + (insect.StdDevTimeBetweenOutbreaks * randomNum);
//double duration = insect.MeanDuration + (insect.StdDevDuration * randomNum);
double duration = Math.Round(randomNumE + 1);
if (duration > 5) // Limit maximum outbreak duration to 5 years for now.
duration = duration - 3;
double timeAfterDuration = timeBetweenOutbreaks - duration;
//UI.WriteLine("Calculated time between = {0}. inputMeanTime={1}, inputStdTime={2}.", timeBetweenOutbreaks, insect.MeanTimeBetweenOutbreaks, insect.StdDevTimeBetweenOutbreaks);
//UI.WriteLine("Calculated duration = {0}. inputMeanDura={1}, inputStdDura={2}.", duration, insect.MeanDuration, insect.StdDevDuration);
//UI.WriteLine("Insect Start Time = {0}, Stop Time = {1}.", insect.OutbreakStartYear, insect.OutbreakStopYear);
if(Model.Core.CurrentTime == 1)
{
//UI.WriteLine(" Year 1: Setting initial start and stop times.");
insect.OutbreakStartYear = (int) (timeBetweenOutbreaks / 2.0) + 1;
insect.OutbreakStopYear = insect.OutbreakStartYear + (int) duration - 1;
UI.WriteLine(" {0} is not active. StartYear={1}, StopYear={2}, CurrentYear={3}.", insect.Name, insect.OutbreakStartYear, insect.OutbreakStopYear, Model.Core.CurrentTime);
}
else if(insect.OutbreakStartYear <= Model.Core.CurrentTime
&& insect.OutbreakStopYear > Model.Core.CurrentTime)
{
//UI.WriteLine(" An outbreak starts or continues. Start and stop time do not change.");
insect.ActiveOutbreak = true;
UI.WriteLine(" {0} is active. StartYear={1}, StopYear={2}, CurrentYear={3}.", insect.Name, insect.OutbreakStartYear, insect.OutbreakStopYear, Model.Core.CurrentTime);
insect.MortalityYear = Model.Core.CurrentTime + 1;
}
//Special case for single year outbreak.
else if(insect.OutbreakStartYear <= Model.Core.CurrentTime
&& insect.OutbreakStopYear <= Model.Core.CurrentTime)
{
insect.ActiveOutbreak = true;
UI.WriteLine(" {0} is active. StartYear={1}, StopYear={2}, CurrentYear={3}.", insect.Name, insect.OutbreakStartYear, insect.OutbreakStopYear, Model.Core.CurrentTime);
if (insect.OutbreakStartYear == insect.OutbreakStopYear)
insect.SingleOutbreakYear = true;
insect.MortalityYear = Model.Core.CurrentTime + 1;
insect.OutbreakStartYear = Model.Core.CurrentTime + (int)timeBetweenOutbreaks;
insect.OutbreakStopYear = insect.OutbreakStartYear + (int)duration - 1;
}
else if(insect.OutbreakStopYear <= Model.Core.CurrentTime
&& timeAfterDuration > Model.Core.CurrentTime - insect.OutbreakStopYear)
{
//UI.WriteLine(" In between outbreaks, reset start and stop times.");
insect.ActiveOutbreak = true;
UI.WriteLine(" {0} is active. StartYear={1}, StopYear={2}, CurrentYear={3}.", insect.Name, insect.OutbreakStartYear, insect.OutbreakStopYear, Model.Core.CurrentTime);
insect.MortalityYear = Model.Core.CurrentTime + 1;
insect.OutbreakStartYear = Model.Core.CurrentTime + (int) timeBetweenOutbreaks;
insect.OutbreakStopYear = insect.OutbreakStartYear + (int) duration - 1;
}
//UI.WriteLine(" Insect Start Time = {0}, Stop Time = {1}.", insect.OutbreakStartYear, insect.OutbreakStopYear);
if(insect.ActiveOutbreak)
{
//UI.WriteLine(" OutbreakStartYear={0}.", insect.OutbreakStartYear);
if(insect.OutbreakStartYear == Model.Core.CurrentTime || insect.SingleOutbreakYear)
// Initialize neighborhoodGrowthReduction with patches
Outbreak.InitializeDefoliationPatches(insect);
else
insect.NeighborhoodDefoliation.ActiveSiteValues = 0;
double sumDefoliation = 0.0;
int numSites = 0;
//foreach(ActiveSite site in Model.Core.Landscape)
//{
// sumDefoliation += insect.ThisYearDefoliation[site];
// if(insect.ThisYearDefoliation[site] > 0.0)
// numSites++;
//}
double meanDefoliation = sumDefoliation / (double) numSites;
log.Write("{0},{1},{2},{3},{4},{5}",
Model.Core.CurrentTime,
insect.Name,
insect.OutbreakStartYear,
insect.OutbreakStopYear,
sumDefoliation,
numSites
);
//foreach (IEcoregion ecoregion in Ecoregions.Dataset)
// log.Write(",{0}", 1);
log.WriteLine("");
}
//Only write maps if an outbreak is active.
//if (!insect.ActiveOutbreak)
//if (insect.OutbreakStartYear <= Model.Core.CurrentTime
// && insect.OutbreakStopYear + 1 >= Model.Core.CurrentTime)
//if (insect.OutbreakStartYear <= Model.Core.CurrentTime)
// | insect.MortalityYear = Model.Core.CurrentTime)
// continue;
//----- Write Insect GrowthReduction maps --------
IOutputRaster<UShortPixel> map = CreateMap((Model.Core.CurrentTime - 1), insect.Name);
using (map) {
UShortPixel pixel = new UShortPixel();
foreach (Site site in Model.Core.Landscape.AllSites) {
if (site.IsActive)
pixel.Band0 = (ushort) (insect.LastYearDefoliation[site] * 100.0);
else
// Inactive site
pixel.Band0 = 0;
map.WritePixel(pixel);
}
}
//----- Write Initial Patch maps --------
//IOutputRaster<UShortPixel> map2 = CreateMap(Model.Core.CurrentTime, ("InitialPatchMap" + insect.Name));
//using (map2) {
// UShortPixel pixel = new UShortPixel();
// foreach (Site site in Model.Core.Landscape.AllSites) {
// if (site.IsActive)
// {
// if (insect.Disturbed[site])
// pixel.Band0 = (ushort) (SiteVars.InitialOutbreakProb[site] * 100);
// else
// pixel.Band0 = 0;
// }
// else
// {
// // Inactive site
// pixel.Band0 = 0;
// }
// map2.WritePixel(pixel);
// }
//}
//----- Write Biomass Reduction maps --------
IOutputRaster<UShortPixel> map3 = CreateMap(Model.Core.CurrentTime, ("BiomassRemoved" + insect.Name));
using (map3) {
UShortPixel pixel = new UShortPixel();
foreach (Site site in Model.Core.Landscape.AllSites) {
if (site.IsActive)
{
// TESTING added by RMS
if(SiteVars.BiomassRemoved[site] > 0)
// UI.WriteLine(" Biomass revoved at {0}/{1}: {2}.", site.Location.Row, site.Location.Column, SiteVars.BiomassRemoved[site]);
pixel.Band0 = (ushort) (SiteVars.BiomassRemoved[site] / 100);
else
pixel.Band0 = 0;
}
else
{
// Inactive site
pixel.Band0 = 0;
}
map3.WritePixel(pixel);
//Zero out the BiomassRemoved after the last insect mortality event in a given year.
//if (SiteVars.BiomassRemoved[site] > 0 && SiteVars.TimeOfLastEvent[site] < Model.Core.CurrentTime)
SiteVars.BiomassRemoved[site] = 0;
}
}
}
}
Double Exponential(Double lambda)
{
Distribution.Lambda = lambda;
return(Distribution.NextDouble());
}
double Exponential(double lambda)
{
ran.Lambda = lambda;
return(ran.NextDouble());
}