Skip to content

GitLab

Commit 19ad5295 authored by Poulet Camille's avatar Poulet Camille
Browse files

Compute total fluxes for import and export

parent a2aebf7f
Hide whitespace changes
Inline Side-by-side
src/main/java/species/MigrateToSea.java
View file @ 19ad5295
......@@ -9,8 +9,13 @@ import environment.Time;
import environment.Time.Season;
import fr.cemagref.simaqualife.kernel.processes.AquaNismsGroupProcess;
import java.util.ArrayList;
import java.util.Hashtable;
import java.util.List;
import java.util.Map;
import miscellaneous.Duo;
import species.DiadromousFish.Stage;
import org.openide.util.lookup.ServiceProvider;
@ServiceProvider(service = AquaNismsGroupProcess.class)
......@@ -28,19 +33,48 @@ public class MigrateToSea extends AquaNismsGroupProcess<DiadromousFish, Diadromo
if (Time.getSeason(group.getPilot()) == seaMigrationSeason ){
Basin destination;
List<Duo<DiadromousFish,Basin>> fishesToMove = new ArrayList<Duo<DiadromousFish,Basin>>();
for (int i = 0; i < group.getEnvironment().getRiverBasins().length; i++) {
RiverBasin basin = group.getEnvironment().getRiverBasins()[i];
List<DiadromousFish> fishes = basin.getFishs(group);
if (fishes!=null) for (DiadromousFish fish : fishes) {
destination = group.getEnvironment().getAssociatedSeaBasin(fish.getPosition());
fishesToMove.add(new Duo<DiadromousFish, Basin>(fish, destination));
}
}
for (Duo<DiadromousFish,Basin> duo : fishesToMove) {
duo.getFirst().moveTo(group.getPilot(), duo.getSecond(), group);
}
}
//On crer la Map pour stocker les flux d'export
Map<String, Double> totalOutputFluxes = new Hashtable<String, Double>();
List<Duo<DiadromousFish,Basin>> fishesToMove = new ArrayList<Duo<DiadromousFish,Basin>>();
for (int i = 0; i < group.getEnvironment().getRiverBasins().length; i++) {
RiverBasin basin = group.getEnvironment().getRiverBasins()[i];
//Fish move to sea and compute the related export of nutrients
List<DiadromousFish> fishes = basin.getFishs(group);
// ON r-initialise notre map pour chauqe bassin
for (String nutrient : group.getFishNutrient().getNutrientsOfInterest()) {
totalOutputFluxes.put(nutrient, 0.);
}
totalOutputFluxes.put("biomass", 0.); //cration de la biomasse
if (fishes!=null) {
for (DiadromousFish fish : fishes) {
destination = group.getEnvironment().getAssociatedSeaBasin(fish.getPosition());
fishesToMove.add(new Duo<DiadromousFish, Basin>(fish, destination)); //Mentionne la sortie d'un poisson de la boucle
double biomass = group.getFishNutrient().getWeight(fish) * fish.getAmount();
if (fish.getStage()==Stage.IMMATURE) {
Map <String, Double> aFluxExportedByJuveniles= group.getFishNutrient().computeNutrientsExportForJuveniles(fish);
for (String nutrient: aFluxExportedByJuveniles.keySet()) {
totalOutputFluxes.put(nutrient,totalOutputFluxes.get(nutrient) + aFluxExportedByJuveniles.get(nutrient) * fish.getAmount());
}
totalOutputFluxes.put("biomass", totalOutputFluxes.get("biomass") + biomass);
}
}
}
for (Duo<DiadromousFish,Basin> duo : fishesToMove) {
duo.getFirst().moveTo(group.getPilot(), duo.getSecond(), group); //on dplace les poissons dans le fichier MoveTo et on dnote la destination du poisson.
}
System.out.println(group.getPilot().getCurrentTime() + "; " + Time.getYear(group.getPilot()) + ";" + Time.getSeason(group.getPilot()) + ";EXPORT;"
+ basin.getName() + "; " + totalOutputFluxes);
}
}
}
}
}
\ No newline at end of file
src/main/java/species/ReproduceAndSurviveAfterReproductionWithDiagnose.java
View file @ 19ad5295
......@@ -110,11 +110,12 @@ public class ReproduceAndSurviveAfterReproductionWithDiagnose extends AquaNismsG
if (fishInBasin != null){
//Initiate the total fluxes for this basin
Map<String, Double> totalFluxes = new Hashtable<String, Double>(); //On crer la Map pour stocker les flux
Map<String, Double> totalInputFluxes = new Hashtable<String, Double>(); //On crer la Map pour stocker les flux
for (String nutrient : group.getFishNutrient().getNutrientsOfInterest()) {
totalFluxes.put(nutrient, 0.); // ON MET A JOUR NOTRE map
totalInputFluxes.put(nutrient, 0.); // ON MET A JOUR NOTRE map
}
totalInputFluxes.put("biomass",0.);
// --------------------------------------------------------------------------------------------------
// definition of the stock recruiment relationship
// --------------------------------------------------------------------------------------------------
......@@ -188,30 +189,44 @@ public class ReproduceAndSurviveAfterReproductionWithDiagnose extends AquaNismsG
// survival after reproduction (semelparity or iteroparity) of SI (change the amount of the SI)
survivalAmount = Miscellaneous.binomialForSuperIndividual(group.getPilot(), fish.getAmount(), survivalRateAfterReproduction);
if (survivalAmount > 0) {
double biomass = 0.;
if (survivalAmount > 0) {// SUperindividu est encore vivant mais il perd des effectifs
//Export for fishes survived after spawning (survivalAmount) : excretion + gametes
Map <String, Double> aFluxAfterSurvival = group.getFishNutrient().computeNutrientsInputForSurvivalAfterSpawning(fish);
//Export for fishes that dies after spawning (fish.getAmount - survivalAmount): excretion + gametes + carcasse
Map<String, Double> aFluxForDeadFish = group.getFishNutrient().computeNutrientsInputForDeathAfterSpawning(fish);
for (String nutrient: aFluxAfterSurvival.keySet()) {
totalFluxes.put(nutrient,totalFluxes.get(nutrient) + aFluxAfterSurvival.get(nutrient) * survivalAmount);
//For survival fish
totalInputFluxes.put(nutrient,totalInputFluxes.get(nutrient) + aFluxAfterSurvival.get(nutrient) * survivalAmount);
//For dead fish
totalInputFluxes.put(nutrient,totalInputFluxes.get(nutrient) + aFluxForDeadFish.get(nutrient) * (fish.getAmount() - survivalAmount));
}
fish.setAmount(survivalAmount); }
//compute biomass for dead fish
biomass = group.getFishNutrient().getWeight(fish) * (fish.getAmount() - survivalAmount);
totalInputFluxes.put("biomass", totalInputFluxes.get("biomass") + biomass);
//update the amount of individual in the super-individual
fish.setAmount(survivalAmount);
}
else {
//Le superinvidu est mort !!!
deadFish.add(fish);
//Export for fished died before spawning (fish.getAmount): carcasses + excretion + gametes
Map<String, Double> aFlux = group.getFishNutrient().computeNutrientsInputForDeathAfterSpawning(fish); //
for (String nutrient: aFlux.keySet()) {
totalFluxes.put(nutrient,totalFluxes.get(nutrient) + aFlux.get(nutrient) * (fish.getAmount()) - survivalAmount); //Fish.getAmount - survivalAmount = total fishes died.
totalInputFluxes.put(nutrient,totalInputFluxes.get(nutrient) + aFlux.get(nutrient) * fish.getAmount()); //Fish.getAmount - survivalAmount = total fishes died.
}
biomass = group.getFishNutrient().getWeight(fish) * (fish.getAmount());
totalInputFluxes.put("biomass", totalInputFluxes.get("biomass") + biomass);
}
}
}
// keep the spawner number
......@@ -366,15 +381,12 @@ public class ReproduceAndSurviveAfterReproductionWithDiagnose extends AquaNismsG
// Remove deadfish and compute the related nutrient fluxes
// --------------------------------------------------------------------------------------------------
for (DiadromousFish fish : deadFish){
group.removeAquaNism(fish);
}
deadFish.clear();
System.out.println(group.getPilot().getCurrentTime() + "; " + Time.getYear(group.getPilot()) + ";" + Time.getSeason(group.getPilot()) + ";"
+ riverBasin.getName() + "; " + totalFluxes);
System.out.println(group.getPilot().getCurrentTime() + "; " + Time.getYear(group.getPilot()) + ";" + Time.getSeason(group.getPilot()) + ";IMPORT;"
+ riverBasin.getName() + "; " + totalInputFluxes);
}
else {
......
Markdown is supported
0% or .
You are about to add 0 people to the discussion. Proceed with caution.
Finish editing this message first!
Please register or to comment