/**
* Add multiple new nodes (SpeciesZoneType objects) to a manipulation and then submit. HJR
*
* @param manipSpeciesMap - species being added
* @param fullSpeciesMap - full list; for predator/prey info
* @param timestep
* @param isFirstManipulation
* @param networkOrManipulationId
* @return manipulation ID (String)
* @throws SimulationException
*/
public String addMultipleSpeciesType(
HashMap<Integer, SpeciesZoneType> manipSpeciesMap,
HashMap<Integer, SpeciesZoneType> fullSpeciesMap,
int timestep,
boolean isFirstManipulation,
String networkOrManipulationId) {
// job.setNode_Config("5,
// [5],2000,1.000,1,K=9431.818,0,
// [14],1751,20.000,1,X=0.273,0,
// [31],1415,0.008,1,X=1.000,0,
// [42],240,0.205,1,X=0.437,0,
// [70],2494,13.000,1,X=0.155,0");
// In addMultipleSpeciesType: node [70], biomass 2494, K = -1, R = -1.0000, X = 0.1233
// In addMultipleSpeciesType: node [5], biomass 2000, K = 10000, R = 1.0000, X = 0.5000
// In addMultipleSpeciesType: node [42], biomass 240, K = -1, R = -1.0000, X = 0.3478
// In addMultipleSpeciesType: node [31], biomass 1415, K = -1, R = -1.0000, X = 0.7953
// In addMultipleSpeciesType: node [14], biomass 1752, K = -1, R = -1.0000, X = 0.0010
StringBuilder builder = new StringBuilder();
builder.append(fullSpeciesMap.size()).append(",");
for (SpeciesZoneType species : fullSpeciesMap.values()) {
System.out.printf(
"In addMultipleSpeciesType: node [%d], " + "biomass %d, K = %d, R = %6.4f, X = %6.4f\n",
species.getNodeIndex(),
+(int) species.getCurrentBiomass(),
(int) species.getParamK(),
species.getParamR(),
species.getParamX());
builder.append("[").append(species.getNodeIndex()).append("]").append(",");
builder.append((int) species.getCurrentBiomass()).append(",");
builder.append(roundToThreeDigits(species.getPerSpeciesBiomass())).append(",");
String systemParam = this.setSystemParameters(species, fullSpeciesMap, timestep);
builder.append(systemParam);
System.out.println(builder);
}
String node_config = builder.substring(0, builder.length() - 1);
// call processsim job here
return node_config;
}
/*5/5/14, JTC, added persistent species data for players; system parameter masterSpeciesList,
replaces mSpecies.
Get previous timestep biomass for all species from web service*/
public HashMap<Integer, SpeciesZoneType> getPrediction(
String networkOrManipulationId,
int startTimestep,
int runTimestep,
Map<Integer, Integer> addSpeciesNodeList,
ZoneNodes zoneNodes)
throws SimulationException {
long milliseconds = System.currentTimeMillis();
Log.printf("\nPrediction at %d\n", startTimestep);
// Get previous timestep biomass for all species from web service
// JTC, use new HashMap containing all current settings from zoneNodes, masterSpeciesList
// HJR changing to make a deep copy here , I am getting a null while iterating
HashMap<Integer, SpeciesZoneType> masterSpeciesList =
new HashMap<Integer, SpeciesZoneType>(zoneNodes.getNodes());
HashMap<Integer, SpeciesZoneType> mNewSpecies = new HashMap<Integer, SpeciesZoneType>();
// JTC, mUpdateBiomass renamed from mUpdateSpecies
HashMap<Integer, SpeciesZoneType> mUpdateBiomass = new HashMap<Integer, SpeciesZoneType>();
// JTC, added new update type, mUpdateParams
HashMap<Integer, SpeciesZoneType> mUpdateParams = new HashMap<Integer, SpeciesZoneType>();
SpeciesZoneType szt;
String nodeConfig = null;
SimJob job = new SimJob();
// {70=2494, 5=2000, 42=240, 14=1752, 31=1415}
for (int node_id : addSpeciesNodeList.keySet()) {
int addedBiomass = addSpeciesNodeList.get(node_id);
if (!masterSpeciesList.containsKey(node_id)) {
szt = createSpeciesZoneType(node_id, addedBiomass);
mNewSpecies.put(node_id, szt);
// jtc - 04/19/15
masterSpeciesList.put(node_id, szt);
} else {
szt = masterSpeciesList.get(node_id);
szt.setCurrentBiomass(Math.max(0, szt.getCurrentBiomass() + addedBiomass));
szt.setBiomassUpdated(true);
}
}
// //JTC, separated this to capture biomass updates made to ZoneNodes that
// //are not received through addSpeciesNodeList (biomass and param updates)
// for (SpeciesZoneType species : masterSpeciesList.values()) {
// //param update also updates biomass, so insert into that list
// //preferentially; o/w use biomass update list
// if (species.paramUpdated) {
// mUpdateParams.put(species.getNodeIndex(), species);
// species.setParamUpdated(false);
// } else if (species.biomassUpdated) {
// mUpdateBiomass.put(species.getNodeIndex(), species);
// species.setBiomassUpdated(false);
// }
// }
// Insert new species using web services
if (!mNewSpecies.isEmpty()) {
zoneNodes.addNodes(mNewSpecies);
}
try {
nodeConfig =
addMultipleSpeciesType(
mNewSpecies, masterSpeciesList, startTimestep, false, networkOrManipulationId);
} catch (Exception ex) {
Log.println_e(ex.getMessage());
}
// // Update biomass changes to existing species using web services
// if (!mUpdateBiomass.isEmpty()) {
// List<NodeBiomass> lNodeBiomass = new ArrayList<NodeBiomass>();
// for (SpeciesZoneType s : mUpdateBiomass.values()) {
// Log.printf("Updating Biomass: [%d] %s %f\n", s.getNodeIndex(), s.getName(),
// s.getCurrentBiomass() / Constants.BIOMASS_SCALE);
// lNodeBiomass.add(new NodeBiomass(
// s.getCurrentBiomass() / Constants.BIOMASS_SCALE, s.getNodeIndex()));
// }
// try {
//// updateBiomass(networkOrManipulationId, lNodeBiomass, startTimestep);
// } catch (Exception ex) {
// Log.println_e(ex.getMessage());
// }
// }
// // JTC Update changes to existing species parameters using web services (also
// // resubmits biomass, but couldn't find a way to do params w/o biomass
// if (!mUpdateParams.isEmpty()) {
// try {
//// increaseMultipleSpeciesType(
//// mUpdateBiomass,
//// masterSpeciesList,
//// startTimestep,
//// false,
//// networkOrManipulationId
//// );
// } catch (Exception ex) {
// Log.println_e(ex.getMessage());
// }
// }
// run(startTimestep, runTimestep, networkOrManipulationId);
// get new predicted biomass
try {
// JTC - changed variable from "mSpecies = " to "mUpdateBiomass = "
// mUpdateBiomass = getBiomass(networkOrManipulationId, 0, startTimestep + runTimestep);
if (!masterSpeciesList.isEmpty() || !mNewSpecies.isEmpty()) {
mUpdateBiomass =
submitManipRequest("ATN", nodeConfig, startTimestep + runTimestep, false, null);
}
} catch (Exception ex) {
Log.println_e(ex.getMessage());
return null;
}
// getBiomassInfo(networkOrManipulationId);
// JTC - add loop to update persistent player species biomass information
SpeciesZoneType updS;
for (SpeciesZoneType priorS : masterSpeciesList.values()) {
System.out.println("priorS.nodeIndex " + priorS.nodeIndex);
updS = mUpdateBiomass.get(priorS.nodeIndex);
if (updS != null && updS.currentBiomass != 0) {
masterSpeciesList
.get(priorS.nodeIndex)
.setCurrentBiomass(Math.ceil(updS.getCurrentBiomass()));
}
// else {
// zoneNodes.removeNode(priorS.nodeIndex);
// }
}
Log.printf(
"Total Time (Get Prediction): %.2f seconds",
Math.round((System.currentTimeMillis() - milliseconds) / 10.0) / 100.0);
return (HashMap) zoneNodes.getNodes();
}