//---------------------------------------------------------------------
/// <summary>
/// Objects and Lists must be initialized.
/// </summary>
public Agent(int sppCount, int ecoCount, int distCount)
{
SppParameters = new ISppParameters[sppCount];
EcoParameters = new IEcoParameters[ecoCount];
DistParameters = new IDistParameters[distCount];
negSppList = new List <ISpecies>();
dispersalNeighbors = new List <RelativeLocation>();
resourceNeighbors = new List <RelativeLocationWeighted>();
severity = PlugIn.ModelCore.Landscape.NewSiteVar <byte>();
outbreakZone = PlugIn.ModelCore.Landscape.NewSiteVar <Zone>();
for (int i = 0; i < sppCount; i++)
{
SppParameters[i] = new SppParameters();
}
for (int i = 0; i < ecoCount; i++)
{
EcoParameters[i] = new EcoParameters();
}
for (int i = 0; i < distCount; i++)
{
DistParameters[i] = new DistParameters();
}
}
//---------------------------------------------------------------------
/// <summary>
/// Objects and Lists must be initialized.
/// </summary>
public Agent(int sppCount, int ecoCount, int distCount)
{
SppParameters = new ISppParameters[sppCount];
EcoParameters = new IEcoParameters[ecoCount];
DistParameters = new IDistParameters[distCount];
negSppList = new List<ISpecies>();
dispersalNeighbors = new List<RelativeLocation>();
resourceNeighbors = new List<RelativeLocationWeighted>();
severity = PlugIn.ModelCore.Landscape.NewSiteVar<byte>();
outbreakZone = PlugIn.ModelCore.Landscape.NewSiteVar<Zone>();
for (int i = 0; i < sppCount; i++)
SppParameters[i] = new SppParameters();
for (int i = 0; i < ecoCount; i++)
EcoParameters[i] = new EcoParameters();
for (int i = 0; i < distCount; i++)
DistParameters[i] = new DistParameters();
}
//---------------------------------------------------------------------
protected override IAgent Parse()
{
//PlugIn.ModelCore.Log.WriteLine("Parsing 1; sppCnt={0}", Model.Species.Count);
Agent agentParameters = new Agent(PlugIn.ModelCore.Species.Count, PlugIn.ModelCore.Ecoregions.Count, (int)DisturbanceType.Null); //The last disturb Type is Null
InputVar <string> agentName = new InputVar <string>("BDAAgentName");
ReadVar(agentName);
agentParameters.AgentName = agentName.Value;
InputVar <int> bdpc = new InputVar <int>("BDPCalibrator");
ReadVar(bdpc);
agentParameters.BDPCalibrator = bdpc.Value;
InputVar <SRDmode> srd = new InputVar <SRDmode>("SRDMode");
ReadVar(srd);
agentParameters.SRDmode = srd.Value;
InputVar <int> tSLE = new InputVar <int>("TimeSinceLastEpidemic");
ReadVar(tSLE);
agentParameters.TimeSinceLastEpidemic = tSLE.Value;
InputVar <TemporalType> tt = new InputVar <TemporalType>("TemporalType");
ReadVar(tt);
agentParameters.TempType = tt.Value;
InputVar <RandomFunction> rf = new InputVar <RandomFunction>("RandomFunction");
ReadVar(rf);
agentParameters.RandFunc = rf.Value;
InputVar <double> rp1 = new InputVar <double>("RandomParameter1");
ReadVar(rp1);
agentParameters.RandomParameter1 = rp1.Value;
InputVar <double> rp2 = new InputVar <double>("RandomParameter2");
ReadVar(rp2);
agentParameters.RandomParameter2 = rp2.Value;
InputVar <int> minROS = new InputVar <int>("MinROS");
ReadVar(minROS);
agentParameters.MinROS = minROS.Value;
InputVar <int> maxROS = new InputVar <int>("MaxROS");
ReadVar(maxROS);
agentParameters.MaxROS = maxROS.Value;
InputVar <bool> d = new InputVar <bool>("Dispersal");
ReadVar(d);
agentParameters.Dispersal = d.Value;
InputVar <int> dr = new InputVar <int>("DispersalRate");
ReadVar(dr);
agentParameters.DispersalRate = dr.Value;
InputVar <double> et = new InputVar <double>("EpidemicThresh");
ReadVar(et);
agentParameters.EpidemicThresh = et.Value;
InputVar <int> ien = new InputVar <int>("InitialEpicenterNum");
ReadVar(ien);
agentParameters.EpicenterNum = ien.Value;
InputVar <double> oec = new InputVar <double>("OutbreakEpicenterCoeff");
ReadVar(oec);
agentParameters.OutbreakEpicenterCoeff = oec.Value;
InputVar <bool> se = new InputVar <bool>("SeedEpicenter");
ReadVar(se);
agentParameters.SeedEpicenter = se.Value;
InputVar <double> sec = new InputVar <double>("SeedEpicenterCoeff");
ReadVar(sec);
agentParameters.SeedEpicenterCoeff = sec.Value;
InputVar <DispersalTemplate> dispt = new InputVar <DispersalTemplate>("DispersalTemplate");
ReadVar(dispt);
agentParameters.DispersalTemp = dispt.Value;
InputVar <bool> nf = new InputVar <bool>("NeighborFlag");
ReadVar(nf);
agentParameters.NeighborFlag = nf.Value;
InputVar <NeighborSpeed> nspeed = new InputVar <NeighborSpeed>("NeighborSpeedUp");
ReadVar(nspeed);
agentParameters.NeighborSpeedUp = nspeed.Value;
InputVar <int> nr = new InputVar <int>("NeighborRadius");
ReadVar(nr);
agentParameters.NeighborRadius = nr.Value;
InputVar <NeighborShape> ns = new InputVar <NeighborShape>("NeighborShape");
ReadVar(ns);
agentParameters.ShapeOfNeighbor = ns.Value;
InputVar <double> nw = new InputVar <double>("NeighborWeight");
ReadVar(nw);
agentParameters.NeighborWeight = nw.Value;
//Added for budworm-BDA
InputVar <double> class2_SV = new InputVar <double>("Class2_SV");
ReadVar(class2_SV);
agentParameters.Class2_SV = class2_SV.Value;
InputVar <double> class3_SV = new InputVar <double>("Class3_SV");
ReadVar(class3_SV);
agentParameters.Class3_SV = class3_SV.Value;
InputVar <int> bfAgeCutoff = new InputVar <int>("BFAgeCutoff");
ReadVar(bfAgeCutoff);
agentParameters.BFAgeCutoff = bfAgeCutoff.Value;
//--------- Read In Ecoreigon Table ---------------------------------------
PlugIn.ModelCore.Log.WriteLine("Begin parsing ECOREGION table.");
InputVar <string> ecoName = new InputVar <string>("Ecoregion Name");
InputVar <double> ecoModifier = new InputVar <double>("Ecoregion Modifier");
Dictionary <string, int> lineNumbers = new Dictionary <string, int>();
const string DistParms = "DisturbanceModifiers";
while (!AtEndOfInput && CurrentName != DistParms)
{
StringReader currentLine = new StringReader(CurrentLine);
ReadValue(ecoName, currentLine);
IEcoregion ecoregion = EcoregionsDataset[ecoName.Value.Actual];
if (ecoregion == null)
{
throw new InputValueException(ecoName.Value.String,
"{0} is not an ecoregion name.",
ecoName.Value.String);
}
int lineNumber;
if (lineNumbers.TryGetValue(ecoregion.Name, out lineNumber))
{
throw new InputValueException(ecoName.Value.String,
"The ecoregion {0} was previously used on line {1}",
ecoName.Value.String, lineNumber);
}
else
{
lineNumbers[ecoregion.Name] = LineNumber;
}
IEcoParameters ecoParms = new EcoParameters();
agentParameters.EcoParameters[ecoregion.Index] = ecoParms;
ReadValue(ecoModifier, currentLine);
ecoParms.EcoModifier = ecoModifier.Value;
CheckNoDataAfter("the " + ecoModifier.Name + " column",
currentLine);
GetNextLine();
}
//--------- Read In Disturbance Modifier Table -------------------------------
PlugIn.ModelCore.Log.WriteLine("Begin parsing DISTURBANCE table.");
ReadName(DistParms);
InputVar <DisturbanceType> distType = new InputVar <DisturbanceType>("Disturbance Type");
InputVar <int> duration = new InputVar <int>("Duration");
InputVar <double> distModifier = new InputVar <double>("Disturbance Modifier");
lineNumbers = new Dictionary <string, int>();
const string SppParms = "BDASpeciesParameters";
while (!AtEndOfInput && CurrentName != SppParms)
{
StringReader currentLine = new StringReader(CurrentLine);
ReadValue(distType, currentLine);
int dt = (int)distType.Value.Actual;
IDistParameters distParms = new DistParameters();
agentParameters.DistParameters[dt] = distParms;
ReadValue(duration, currentLine);
distParms.Duration = duration.Value;
ReadValue(distModifier, currentLine);
distParms.DistModifier = distModifier.Value;
CheckNoDataAfter("the " + distModifier.Name + " column",
currentLine);
GetNextLine();
}
//--------- Read In Species Table ---------------------------------------
PlugIn.ModelCore.Log.WriteLine("Begin parsing SPECIES table.");
ReadName(SppParms);
//const string FireCurves = "FireCurveTable";
InputVar <string> sppName = new InputVar <string>("Species");
InputVar <int> minorHostAge = new InputVar <int>("Minor Host Age");
InputVar <double> minorHostSRD = new InputVar <double>("Minor Host SRDProb");
InputVar <int> secondaryHostAge = new InputVar <int>("Second Host Age");
InputVar <double> secondaryHostSRD = new InputVar <double>("Secondary Host SRDProb");
InputVar <int> primaryHostAge = new InputVar <int>("Primary Host Age");
InputVar <double> primaryHostSRD = new InputVar <double>("Primary Host SRDProb");
InputVar <int> resistantHostAge = new InputVar <int>("Resistant Host Age");
InputVar <double> resistantHostVuln = new InputVar <double>("Resistant Host VulnProb");
InputVar <int> tolerantHostAge = new InputVar <int>("Tolerant Host Age");
InputVar <double> tolerantHostVuln = new InputVar <double>("Tolerant Host VulnProb");
InputVar <int> vulnerableHostAge = new InputVar <int>("Vulnerable Host Age");
InputVar <double> vulnerableHostVuln = new InputVar <double>("Vulnerable Host VulnProb");
InputVar <bool> cfsConifer = new InputVar <bool>("CFS Conifer type: yes/no");
const string NegSpp = "IgnoredSpecies";
while ((!AtEndOfInput) && (CurrentName != NegSpp))
{
StringReader currentLine = new StringReader(CurrentLine);
ReadValue(sppName, currentLine);
ISpecies species = SpeciesDataset[sppName.Value.Actual];
if (species == null)
{
throw new InputValueException(sppName.Value.String,
"{0} is not a species name.",
sppName.Value.String);
}
int lineNumber;
if (lineNumbers.TryGetValue(species.Name, out lineNumber))
{
throw new InputValueException(sppName.Value.String,
"The species {0} was previously used on line {1}",
sppName.Value.String, lineNumber);
}
else
{
lineNumbers[species.Name] = LineNumber;
}
ISppParameters sppParms = new SppParameters();
agentParameters.SppParameters[species.Index] = sppParms;
ReadValue(minorHostAge, currentLine);
sppParms.MinorHostAge = minorHostAge.Value;
ReadValue(minorHostSRD, currentLine);
sppParms.MinorHostSRD = minorHostSRD.Value;
ReadValue(secondaryHostAge, currentLine);
sppParms.SecondaryHostAge = secondaryHostAge.Value;
ReadValue(secondaryHostSRD, currentLine);
sppParms.SecondaryHostSRD = secondaryHostSRD.Value;
ReadValue(primaryHostAge, currentLine);
sppParms.PrimaryHostAge = primaryHostAge.Value;
ReadValue(primaryHostSRD, currentLine);
sppParms.PrimaryHostSRD = primaryHostSRD.Value;
ReadValue(resistantHostAge, currentLine);
sppParms.ResistantHostAge = resistantHostAge.Value;
ReadValue(resistantHostVuln, currentLine);
sppParms.ResistantHostVuln = resistantHostVuln.Value;
ReadValue(tolerantHostAge, currentLine);
sppParms.TolerantHostAge = tolerantHostAge.Value;
ReadValue(tolerantHostVuln, currentLine);
sppParms.TolerantHostVuln = tolerantHostVuln.Value;
ReadValue(vulnerableHostAge, currentLine);
sppParms.VulnerableHostAge = vulnerableHostAge.Value;
ReadValue(vulnerableHostVuln, currentLine);
sppParms.VulnerableHostVuln = vulnerableHostVuln.Value;
ReadValue(cfsConifer, currentLine);
sppParms.CFSConifer = cfsConifer.Value;
CheckNoDataAfter("the " + cfsConifer.Name + " column",
currentLine);
GetNextLine();
}
//--------- Read In Ignored Species List ---------------------------------------
List <ISpecies> negSppList = new List <ISpecies>();
if (!AtEndOfInput)
{
ReadName(NegSpp);
InputVar <string> negSppName = new InputVar <string>("Ignored Spp Name");
while (!AtEndOfInput)
{
StringReader currentLine = new StringReader(CurrentLine);
ReadValue(negSppName, currentLine);
ISpecies species = SpeciesDataset[negSppName.Value.Actual];
if (species == null)
{
throw new InputValueException(negSppName.Value.String,
"{0} is not a species name.",
negSppName.Value.String);
}
int lineNumber;
if (lineNumbers.TryGetValue(species.Name, out lineNumber))
{
PlugIn.ModelCore.Log.WriteLine("WARNING: The species {0} was previously used on line {1}. Being listed in the IgnoredSpecies list will override any settings in the Host table.", negSppName.Value.String, lineNumber);
}
else
{
lineNumbers[species.Name] = LineNumber;
}
negSppList.Add(species);
GetNextLine();
}
}
agentParameters.NegSppList = negSppList;
return(agentParameters); //.GetComplete();
}