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agomez |
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#include "ecosystem.h" |
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#include "runid.h" |
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#include "global.h" |
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Ecosystem::Ecosystem(const MainInfo& main) : printinfo(main.getPI()) {
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funceval = 0;
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interrupted = 0;
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likelihood = 0.0;
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keeper = new Keeper;
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// initialise counter used when printing output files
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printcount = printinfo.getPrintIteration() - 1;
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// read the model specification from the main file
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char* filename = main.getMainGadgetFile();
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ifstream infile;
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infile.open(filename, ios::in);
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CommentStream commin(infile);
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handle.checkIfFailure(infile, filename);
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handle.Open(filename);
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this->readMain(commin, main);
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handle.Close();
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infile.close();
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infile.clear();
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// if this is an optimising run then read the optimisation parameters from file
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if (main.runOptimise()) {
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handle.logMessage(LOGMESSAGE, ""); //write blank line to log file
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if (main.getOptInfoGiven()) {
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filename = main.getOptInfoFile();
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infile.open(filename, ios::in);
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handle.checkIfFailure(infile, filename);
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handle.Open(filename);
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this->readOptimisation(commin);
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handle.Close();
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infile.close();
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infile.clear();
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} else {
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handle.logMessage(LOGINFO, "Warning - no optimisation file specified, using default values");
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optvec.resize(new OptInfoHooke());
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}
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}
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if (main.runOptimise())
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handle.logMessage(LOGINFO, "\nFinished reading model data files, starting to run optimisation");
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else
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handle.logMessage(LOGINFO, "\nFinished reading model data files, starting to run simulation");
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handle.logMessage(LOGMESSAGE, ""); //write blank line to log file
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}
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Ecosystem::~Ecosystem() {
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int i;
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for (i = 0; i < optvec.Size(); i++)
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delete optvec[i];
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for (i = 0; i < printvec.Size(); i++)
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delete printvec[i];
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for (i = 0; i < likevec.Size(); i++)
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delete likevec[i];
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for (i = 0; i < tagvec.Size(); i++)
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delete tagvec[i];
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for (i = 0; i < basevec.Size(); i++)
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delete basevec[i];
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delete Area;
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delete TimeInfo;
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delete keeper;
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}
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void Ecosystem::writeStatus(const char* filename) const {
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ofstream outfile;
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outfile.open(filename, ios::out);
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handle.checkIfFailure(outfile, filename);
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handle.Open(filename);
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RUNID.Print(outfile);
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outfile << "The current simulation time is " << TimeInfo->getYear()
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<< ", step " << TimeInfo->getStep() << endl;
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int i;
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for (i = 0; i < basevec.Size(); i++)
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basevec[i]->Print(outfile);
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for (i = 0; i < likevec.Size(); i++)
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likevec[i]->Print(outfile);
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for (i = 0; i < tagvec.Size(); i++)
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tagvec[i]->Print(outfile);
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handle.Close();
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outfile.close();
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outfile.clear();
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}
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void Ecosystem::Reset() {
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int i;
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TimeInfo->Reset();
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for (i = 0; i < likevec.Size(); i++)
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likevec[i]->Reset(keeper);
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for (i = 0; i < basevec.Size(); i++)
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basevec[i]->Reset(TimeInfo);
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}
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void Ecosystem::Optimise() {
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int i;
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for (i = 0; i < optvec.Size(); i++) {
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optvec[i]->OptimiseLikelihood();
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this->writeOptValues();
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}
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}
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double Ecosystem::SimulateAndUpdate(const DoubleVector& x) {
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int i, j;
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if (funceval == 0) {
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// JMB - only need to create these vectors once
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initialval.resize(keeper->numVariables(), 0.0);
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currentval.resize(keeper->numVariables(), 0.0);
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optflag.resize(keeper->numVariables(), 0);
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keeper->getOptFlags(optflag);
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}
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j = 0;
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keeper->getCurrentValues(currentval);
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keeper->getInitialValues(initialval);
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for (i = 0; i < currentval.Size(); i++) {
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if (optflag[i]) {
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currentval[i] = x[j] * initialval[i];
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j++;
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}
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}
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keeper->Update(currentval);
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this->Simulate(0); //dont print whilst optimising
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if (printinfo.getPrint()) {
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printcount++;
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if (printcount == printinfo.getPrintIteration()) {
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keeper->writeValues(likevec, printinfo.getPrecision());
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printcount = 0;
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}
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}
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funceval++;
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return likelihood;
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}
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void Ecosystem::writeOptValues() {
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int i;
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DoubleVector tmpvec(likevec.Size(), 0.0);
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for (i = 0; i < likevec.Size(); i++)
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tmpvec[i] = likevec[i]->getUnweightedLikelihood();
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handle.logMessage(LOGINFO, "\nAfter a total of", funceval, "function evaluations the best point found is");
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keeper->writeBestValues();
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handle.logMessage(LOGINFO, "\nThe scores from each likelihood component are");
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handle.logMessage(LOGINFO, tmpvec);
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if (!isZero(keeper->getBestLikelihoodScore())) // no better point has been found
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handle.logMessage(LOGINFO, "\nThe overall likelihood score is", keeper->getBestLikelihoodScore());
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else
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handle.logMessage(LOGINFO, "\nThe overall likelihood score is", this->getLikelihood());
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}
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void Ecosystem::writeInitialInformation(const char* const filename) {
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keeper->openPrintFile(filename);
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keeper->writeInitialInformation(likevec);
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}
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void Ecosystem::writeValues() {
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keeper->writeValues(likevec, printinfo.getPrecision());
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}
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void Ecosystem::writeParams(const char* const filename, int prec) const {
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if ((funceval > 0) && (interrupted == 0)) {
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//JMB - print the final values to any output files specified
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//in case they have been missed by the -print value
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if (printinfo.getPrint())
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keeper->writeValues(likevec, printinfo.getPrecision());
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}
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keeper->writeParams(optvec, filename, prec, interrupted);
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}
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