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agomez |
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#include "sibyageonstep.h" |
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#include "stock.h" |
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#include "areatime.h" |
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#include "mathfunc.h" |
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#include "errorhandler.h" |
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#include "gadget.h" |
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#include "global.h" |
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SIByAgeOnStep::SIByAgeOnStep(CommentStream& infile, const IntMatrix& areas,
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const IntMatrix& ages, const CharPtrVector& areaindex, const CharPtrVector& ageindex,
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const TimeClass* const TimeInfo, const char* datafilename, const char* givenname, int bio)
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: SIOnStep(infile, datafilename, areaindex, TimeInfo, areas, ageindex, givenname, bio, SIAGE) {
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Ages = ages;
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}
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SIByAgeOnStep::~SIByAgeOnStep() {
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if (aggregator != 0)
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delete aggregator;
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}
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void SIByAgeOnStep::setFleetsAndStocks(FleetPtrVector& Fleets, StockPtrVector& Stocks) {
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int i, j, found, minage, maxage;
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double minlength, maxlength;
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if (Stocks.Size() == 0)
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handle.logMessage(LOGFAIL, "Error in surveyindex - failed to initialise stock data");
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minlength = Stocks[0]->getLengthGroupDiv()->minLength();
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maxlength = Stocks[0]->getLengthGroupDiv()->maxLength();
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if (Stocks.Size() > 1) {
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for (i = 1; i < Stocks.Size(); i++) {
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minlength = min(Stocks[i]->getLengthGroupDiv()->minLength(), minlength);
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maxlength = max(Stocks[i]->getLengthGroupDiv()->maxLength(), maxlength);
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}
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}
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LgrpDiv = new LengthGroupDivision(minlength, maxlength, maxlength - minlength);
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if (LgrpDiv->Error())
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handle.logMessage(LOGFAIL, "Error in surveyindex - failed to create length group");
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//check stock ages
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if (handle.getLogLevel() >= LOGWARN) {
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minage = 9999;
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maxage = 0;
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for (i = 0; i < Ages.Nrow(); i++) {
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for (j = 0; j < Ages.Ncol(i); j++) {
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minage = min(Ages[i][j], minage);
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maxage = max(Ages[i][j], maxage);
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}
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}
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found = 0;
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for (i = 0; i < Stocks.Size(); i++)
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if (minage >= Stocks[i]->minAge())
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found++;
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if (found == 0)
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handle.logMessage(LOGWARN, "Warning in surveyindex - minimum age less than stock age");
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found = 0;
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for (i = 0; i < Stocks.Size(); i++)
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if (maxage <= Stocks[i]->maxAge())
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found++;
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if (found == 0)
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handle.logMessage(LOGWARN, "Warning in surveyindex - maximum age greater than stock age");
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}
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aggregator = new StockAggregator(Stocks, LgrpDiv, Areas, Ages);
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}
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void SIByAgeOnStep::Sum(const TimeClass* const TimeInfo) {
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if (!AAT.atCurrentTime(TimeInfo))
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return;
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int a, i;
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timeindex = -1;
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for (i = 0; i < Years.Size(); i++)
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if ((Years[i] == TimeInfo->getYear()) && (Steps[i] == TimeInfo->getStep()))
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timeindex = i;
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if (timeindex == -1)
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handle.logMessage(LOGFAIL, "Error in surveyindex - invalid timestep");
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if (handle.getLogLevel() >= LOGMESSAGE)
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handle.logMessage(LOGMESSAGE, "Calculating index for surveyindex component", this->getName());
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aggregator->Sum();
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alptr = &aggregator->getSum();
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//alptr will only have one length group
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for (a = 0; a < Areas.Nrow(); a++)
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for (i = 0; i < Ages.Nrow(); i++)
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(*modelIndex[timeindex])[a][i] = (*alptr)[a][i][0].N;
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if (biomass) //JMB experimental survey index based on the biomass
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for (a = 0; a < Areas.Nrow(); a++)
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for (i = 0; i < Ages.Nrow(); i++)
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(*modelIndex[timeindex])[a][i] *= (*alptr)[a][i][0].W;
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}
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