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agomez |
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#include "stockpreyprinter.h" |
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#include "conversionindex.h" |
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#include "areatime.h" |
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#include "readfunc.h" |
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#include "mathfunc.h" |
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#include "errorhandler.h" |
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#include "preyptrvector.h" |
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#include "stockprey.h" |
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#include "readword.h" |
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#include "readaggregation.h" |
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#include "gadget.h" |
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#include "runid.h" |
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#include "global.h" |
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StockPreyPrinter::StockPreyPrinter(CommentStream& infile, const TimeClass* const TimeInfo)
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: Printer(STOCKPREYPRINTER), LgrpDiv(0), aggregator(0), alptr(0) {
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char text[MaxStrLength];
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strncpy(text, "", MaxStrLength);
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int i, j;
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//read in the stocknames
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i = 0;
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infile >> text >> ws;
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if (strcasecmp(text, "preynames") != 0)
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handle.logFileUnexpected(LOGFAIL, "preynames", text);
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infile >> text >> ws;
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while (!infile.eof() && (strcasecmp(text, "areaaggfile") != 0)) {
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preynames.resize(new char[strlen(text) + 1]);
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strcpy(preynames[i++], text);
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infile >> text >> ws;
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}
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if (preynames.Size() == 0)
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handle.logFileMessage(LOGFAIL, "\nError in stockpreyprinter - failed to read preys");
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handle.logMessage(LOGMESSAGE, "Read stock data - number of preys", preynames.Size());
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//read in area aggregation from file
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filename = new char[MaxStrLength];
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strncpy(filename, "", MaxStrLength);
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ifstream datafile;
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CommentStream subdata(datafile);
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infile >> filename >> ws;
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datafile.open(filename, ios::in);
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handle.checkIfFailure(datafile, filename);
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handle.Open(filename);
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i = readAggregation(subdata, areas, areaindex);
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handle.Close();
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datafile.close();
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datafile.clear();
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//read in age aggregation from file
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readWordAndValue(infile, "ageaggfile", filename);
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datafile.open(filename, ios::in);
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handle.checkIfFailure(datafile, filename);
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handle.Open(filename);
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i = readAggregation(subdata, ages, ageindex);
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handle.Close();
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datafile.close();
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datafile.clear();
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//read in length aggregation from file
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DoubleVector lengths;
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readWordAndValue(infile, "lenaggfile", filename);
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datafile.open(filename, ios::in);
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handle.checkIfFailure(datafile, filename);
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handle.Open(filename);
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i = readLengthAggregation(subdata, lengths, lenindex);
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handle.Close();
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datafile.close();
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datafile.clear();
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//Finished reading from infile.
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LgrpDiv = new LengthGroupDivision(lengths);
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if (LgrpDiv->Error())
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handle.logFileMessage(LOGFAIL, "\nError in stockpreyprinter - failed to create length group");
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//Open the printfile
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readWordAndValue(infile, "printfile", filename);
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outfile.open(filename, ios::out);
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handle.checkIfFailure(outfile, filename);
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infile >> text >> ws;
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if (strcasecmp(text, "precision") == 0) {
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infile >> precision >> ws >> text >> ws;
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width = precision + 4;
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} else {
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// use default values
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precision = largeprecision;
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width = largewidth;
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}
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if (precision < 0)
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handle.logFileMessage(LOGFAIL, "\nError in stockpreyprinter - invalid value of precision");
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if (strcasecmp(text, "printatstart") == 0)
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infile >> printtimeid >> ws >> text >> ws;
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else
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printtimeid = 0;
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if (printtimeid != 0 && printtimeid != 1)
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handle.logFileMessage(LOGFAIL, "\nError in stockpreyprinter - invalid value of printatstart");
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if (strcasecmp(text, "yearsandsteps") != 0)
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handle.logFileUnexpected(LOGFAIL, "yearsandsteps", text);
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if (!AAT.readFromFile(infile, TimeInfo))
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handle.logFileMessage(LOGFAIL, "\nError in stockpreyprinter - wrong format for yearsandsteps");
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//prepare for next printfile component
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infile >> ws;
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if (!infile.eof()) {
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infile >> text >> ws;
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if (strcasecmp(text, "[component]") != 0)
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handle.logFileUnexpected(LOGFAIL, "[component]", text);
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}
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//finished initializing. Now print first lines
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outfile << "; ";
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RUNID.Print(outfile);
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outfile << "; Output file for the following preys";
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for (i = 0; i < preynames.Size(); i++)
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outfile << sep << preynames[i];
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if (printtimeid == 0)
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outfile << "\n; Printing the following information at the end of each timestep";
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else
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outfile << "\n; Printing the following information at the start of each timestep";
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outfile << "\n; year-step-area-age-length-number consumed-biomass consumed\n";
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outfile.flush();
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}
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void StockPreyPrinter::setPrey(PreyPtrVector& preyvec, const AreaClass* const Area) {
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PreyPtrVector preys;
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delete aggregator;
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int i, j, k, found, minage, maxage;
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for (i = 0; i < preyvec.Size(); i++)
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for (j = 0; j < preynames.Size(); j++)
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if (strcasecmp(preyvec[i]->getName(), preynames[j]) == 0)
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preys.resize(preyvec[i]);
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if (preys.Size() != preynames.Size()) {
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handle.logMessage(LOGWARN, "Error in stockpreyprinter - failed to match preys");
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for (i = 0; i < preys.Size(); i++)
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handle.logMessage(LOGWARN, "Error in stockpreyprinter - found prey", preys[i]->getName());
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for (i = 0; i < preynames.Size(); i++)
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handle.logMessage(LOGWARN, "Error in stockpreyprinter - looking for prey", preynames[i]);
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handle.logMessage(LOGFAIL, ""); //JMB this will exit gadget
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}
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for (i = 0; i < preys.Size(); i++)
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for (j = 0; j < preys.Size(); j++)
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if ((strcasecmp(preys[i]->getName(), preys[j]->getName()) == 0) && (i != j))
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handle.logMessage(LOGFAIL, "Error in stockpreyprinter - repeated prey", preys[i]->getName());
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//check that the preys are stocks and not otherfood
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for (i = 0; i < preys.Size(); i++)
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if (preys[i]->getType() == LENGTHPREY)
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handle.logMessage(LOGFAIL, "Error in stockpreyprinter - cannot print prey", preys[i]->getName());
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//change from outer areas to inner areas.
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for (i = 0; i < areas.Nrow(); i++)
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for (j = 0; j < areas.Ncol(i); j++)
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areas[i][j] = Area->getInnerArea(areas[i][j]);
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//check stock areas, ages and lengths
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if (handle.getLogLevel() >= LOGWARN) {
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for (j = 0; j < areas.Nrow(); j++) {
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found = 0;
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for (i = 0; i < preys.Size(); i++)
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for (k = 0; k < areas.Ncol(j); k++)
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if (preys[i]->isInArea(areas[j][k]))
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found++;
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if (found == 0)
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handle.logMessage(LOGWARN, "Warning in stockpreyprinter - prey not defined on all areas");
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}
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minage = 9999;
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maxage = -1;
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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 < preys.Size(); i++)
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if (minage >= ((StockPrey*)preys[i])->minAge())
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found++;
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if (found == 0)
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handle.logMessage(LOGWARN, "Warning in stockpreyprinter - minimum age less than prey age");
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found = 0;
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for (i = 0; i < preys.Size(); i++)
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if (maxage <= ((StockPrey*)preys[i])->maxAge())
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found++;
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if (found == 0)
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handle.logMessage(LOGWARN, "Warning in stockpreyprinter - maximum age greater than prey age");
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found = 0;
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for (i = 0; i < preys.Size(); i++)
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if (LgrpDiv->maxLength(0) > preys[i]->getLengthGroupDiv()->minLength())
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found++;
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if (found == 0)
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handle.logMessage(LOGWARN, "Warning in stockpreyprinter - minimum length group less than prey length");
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found = 0;
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for (i = 0; i < preys.Size(); i++)
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if (LgrpDiv->minLength(LgrpDiv->numLengthGroups()) < preys[i]->getLengthGroupDiv()->maxLength())
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found++;
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if (found == 0)
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handle.logMessage(LOGWARN, "Warning in stockpreyprinter - maximum length group greater than prey length");
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}
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aggregator = new StockPreyAggregator(preys, LgrpDiv, areas, ages);
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}
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void StockPreyPrinter::Print(const TimeClass* const TimeInfo, int printtime) {
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if ((!AAT.atCurrentTime(TimeInfo)) || (printtime != printtimeid))
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return;
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aggregator->Sum();
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int a, age, len;
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alptr = &aggregator->getSum();
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for (a = 0; a < areas.Nrow(); a++) {
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for (age = (*alptr)[a].minAge(); age <= (*alptr)[a].maxAge(); age++) {
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for (len = (*alptr)[a].minLength(age); len < (*alptr)[a].maxLength(age); len++) {
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outfile << setw(lowwidth) << TimeInfo->getYear() << sep
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<< setw(lowwidth) << TimeInfo->getStep() << sep
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<< setw(printwidth) << areaindex[a] << sep << setw(printwidth)
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<< ageindex[age] << sep << setw(printwidth) << lenindex[len] << sep;
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//JMB crude filter to remove the 'silly' values from the output
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if (((*alptr)[a][age][len].N < rathersmall) || ((*alptr)[a][age][len].W < 0.0))
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outfile << setw(width) << 0 << sep << setw(width) << 0 << endl;
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else
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outfile << setprecision(precision) << setw(width) << (*alptr)[a][age][len].N
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<< sep << setprecision(precision) << setw(width)
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<< (*alptr)[a][age][len].W * (*alptr)[a][age][len].N << endl;
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}
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}
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}
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outfile.flush();
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}
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StockPreyPrinter::~StockPreyPrinter() {
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outfile.close();
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outfile.clear();
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delete LgrpDiv;
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delete aggregator;
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int i;
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for (i = 0; i < preynames.Size(); i++)
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delete[] preynames[i];
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for (i = 0; i < lenindex.Size(); i++)
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delete[] lenindex[i];
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for (i = 0; i < ageindex.Size(); i++)
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delete[] ageindex[i];
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for (i = 0; i < areaindex.Size(); i++)
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delete[] areaindex[i];
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}
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