#include "predatorprinter.h"
#include "conversionindex.h"
#include "predatoraggregator.h"
#include "areatime.h"
#include "readfunc.h"
#include "readword.h"
#include "readaggregation.h"
#include "errorhandler.h"
#include "predator.h"
#include "prey.h"
#include "gadget.h"
#include "runid.h"
#include "global.h"
PredatorPrinter::PredatorPrinter(CommentStream& infile, const TimeClass* const TimeInfo)
: Printer(PREDATORPRINTER), predLgrpDiv(0), preyLgrpDiv(0), aggregator(0), dptr(0) {
char text[MaxStrLength];
strncpy(text, "", MaxStrLength);
int i, j;
//default value is to print biomass
biomass = 1;
//read in the predator names
i = 0;
infile >> text >> ws;
if ((strcasecmp(text, "predators") != 0) && (strcasecmp(text, "predatornames") != 0))
handle.logFileUnexpected(LOGFAIL, "predatornames", text);
infile >> text >> ws;
while (!infile.eof() && ((strcasecmp(text, "preys") != 0) && (strcasecmp(text, "preynames") != 0))) {
predatornames.resize(new char[strlen(text) + 1]);
strcpy(predatornames[i++], text);
infile >> text >> ws;
}
if (predatornames.Size() == 0)
handle.logFileMessage(LOGFAIL, "\nError in predatorprinter - failed to read predators");
handle.logMessage(LOGMESSAGE, "Read predator data - number of predators", predatornames.Size());
//read in the prey names
i = 0;
infile >> text >> ws;
while (!infile.eof() && (strcasecmp(text, "areaaggfile") != 0)) {
preynames.resize(new char[strlen(text) + 1]);
strcpy(preynames[i++], text);
infile >> text >> ws;
}
if (preynames.Size() == 0)
handle.logFileMessage(LOGFAIL, "\nError in predatorprinter - failed to read preys");
handle.logMessage(LOGMESSAGE, "Read prey data - number of preys", preynames.Size());
//read in area aggregation from file
filename = new char[MaxStrLength];
strncpy(filename, "", MaxStrLength);
ifstream datafile;
CommentStream subdata(datafile);
infile >> filename >> ws;
datafile.open(filename, ios::in);
handle.checkIfFailure(datafile, filename);
handle.Open(filename);
i = readAggregation(subdata, areas, areaindex);
handle.Close();
datafile.close();
datafile.clear();
//read in predator length aggregation from file
DoubleVector predlengths;
readWordAndValue(infile, "predlenaggfile", filename);
datafile.open(filename, ios::in);
handle.checkIfFailure(datafile, filename);
handle.Open(filename);
i = readLengthAggregation(subdata, predlengths, predlenindex);
handle.Close();
datafile.close();
datafile.clear();
//read in prey length aggregation from file
DoubleVector preylengths;
readWordAndValue(infile, "preylenaggfile", filename);
datafile.open(filename, ios::in);
handle.checkIfFailure(datafile, filename);
handle.Open(filename);
i = readLengthAggregation(subdata, preylengths, preylenindex);
handle.Close();
datafile.close();
datafile.clear();
//finished reading from infile
predLgrpDiv = new LengthGroupDivision(predlengths);
if (predLgrpDiv->Error())
handle.logFileMessage(LOGFAIL, "\nError in predatorprinter - failed to create predator length group");
preyLgrpDiv = new LengthGroupDivision(preylengths);
if (preyLgrpDiv->Error())
handle.logFileMessage(LOGFAIL, "\nError in predatorprinter - failed to create prey length group");
char c = infile.peek();
if ((c == 'b') || (c == 'B'))
readWordAndVariable(infile, "biomass", biomass);
if (biomass != 0 && biomass != 1)
handle.logFileMessage(LOGFAIL, "\nError in predatorprinter - biomass must be 0 or 1");
//open the printfile
readWordAndValue(infile, "printfile", filename);
outfile.open(filename, ios::out);
handle.checkIfFailure(outfile, filename);
infile >> text >> ws;
if (strcasecmp(text, "precision") == 0) {
infile >> precision >> ws >> text >> ws;
width = precision + 4;
} else {
//use default values
precision = largeprecision;
width = largewidth;
}
if (precision < 0)
handle.logFileMessage(LOGFAIL, "\nError in predatorprinter - invalid value of precision");
if (strcasecmp(text, "printatstart") == 0)
infile >> printtimeid >> ws >> text >> ws;
else
printtimeid = 0;
if (printtimeid != 0 && printtimeid != 1)
handle.logFileMessage(LOGFAIL, "\nError in predatorprinter - invalid value of printatstart");
if (strcasecmp(text, "yearsandsteps") != 0)
handle.logFileUnexpected(LOGFAIL, "yearsandsteps", text);
if (!AAT.readFromFile(infile, TimeInfo))
handle.logFileMessage(LOGFAIL, "\nError in predatorprinter - wrong format for yearsandsteps");
//prepare for next printfile component
infile >> ws;
if (!infile.eof()) {
infile >> text >> ws;
if (strcasecmp(text, "[component]") != 0)
handle.logFileUnexpected(LOGFAIL, "[component]", text);
}
//finished initializing - now print first lines
outfile << "; ";
RUNID.Print(outfile);
outfile << "; Predation output file for the following predators";
for (i = 0; i < predatornames.Size(); i++)
outfile << sep << predatornames[i];
outfile << "\n; Consuming the following preys";
for (i = 0; i < preynames.Size(); i++)
outfile << sep << preynames[i];
if (printtimeid == 0)
outfile << "\n; Printing the following information at the end of each timestep";
else
outfile << "\n; Printing the following information at the start of each timestep";
if (biomass)
outfile << "\n; year-step-area-pred length-prey length-biomass consumed\n";
else
outfile << "\n; year-step-area-pred length-prey length-number consumed\n";
outfile.flush();
}
void PredatorPrinter::setPredAndPrey(PredatorPtrVector& predatorvec,
PreyPtrVector& preyvec, const AreaClass* const Area) {
PredatorPtrVector predators;
PreyPtrVector preys;
int i, j, k, found;
delete aggregator;
for (i = 0; i < predatorvec.Size(); i++)
for (j = 0; j < predatornames.Size(); j++)
if (strcasecmp(predatorvec[i]->getName(), predatornames[j]) == 0)
predators.resize(predatorvec[i]);
for (i = 0; i < preyvec.Size(); i++)
for (j = 0; j < preynames.Size(); j++)
if (strcasecmp(preyvec[i]->getName(), preynames[j]) == 0)
preys.resize(preyvec[i]);
//change from outer areas to inner areas
for (i = 0; i < areas.Nrow(); i++)
for (j = 0; j < areas.Ncol(i); j++)
areas[i][j] = Area->getInnerArea(areas[i][j]);
//check predator and prey areas and length groups
if (handle.getLogLevel() >= LOGWARN) {
for (j = 0; j < areas.Nrow(); j++) {
found = 0;
for (i = 0; i < predators.Size(); i++)
for (k = 0; k < areas.Ncol(j); k++)
if (predators[i]->isInArea(areas[j][k]))
found++;
if (found == 0)
handle.logMessage(LOGWARN, "Warning in predatorprinter - predators not defined on all areas");
}
found = 0;
for (i = 0; i < predators.Size(); i++)
if (predLgrpDiv->maxLength(0) > predators[i]->getLengthGroupDiv()->minLength())
found++;
if (found == 0)
handle.logMessage(LOGWARN, "Warning in predatorprinter - minimum length group less than predator length");
found = 0;
for (i = 0; i < predators.Size(); i++)
if (predLgrpDiv->minLength(predLgrpDiv->numLengthGroups()) < predators[i]->getLengthGroupDiv()->maxLength())
found++;
if (found == 0)
handle.logMessage(LOGWARN, "Warning in predatorprinter - maximum length group greater than predator length");
for (j = 0; j < areas.Nrow(); j++) {
found = 0;
for (i = 0; i < preys.Size(); i++)
for (k = 0; k < areas.Ncol(j); k++)
if (preys[i]->isInArea(areas[j][k]))
found++;
if (found == 0)
handle.logMessage(LOGWARN, "Warning in predatorprinter - preys not defined on all areas");
}
found = 0;
for (i = 0; i < preys.Size(); i++)
if (preyLgrpDiv->maxLength(0) > preys[i]->getLengthGroupDiv()->minLength())
found++;
if (found == 0)
handle.logMessage(LOGWARN, "Warning in predatorprinter - minimum length group less than prey length");
found = 0;
for (i = 0; i < preys.Size(); i++)
if (preyLgrpDiv->minLength(preyLgrpDiv->numLengthGroups()) < preys[i]->getLengthGroupDiv()->maxLength())
found++;
if (found == 0)
handle.logMessage(LOGWARN, "Warning in predatorprinter - maximum length group greater than prey length");
}
if (predators.Size() != predatornames.Size()) {
handle.logMessage(LOGWARN, "Error in predatorprinter - failed to match predators");
for (i = 0; i < predatorvec.Size(); i++)
handle.logMessage(LOGWARN, "Error in predatorprinter - found predator", predatorvec[i]->getName());
for (i = 0; i < predatornames.Size(); i++)
handle.logMessage(LOGWARN, "Error in predatorprinter - looking for predator", predatornames[i]);
handle.logMessage(LOGFAIL, ""); //JMB this will exit gadget
}
if (preys.Size() != preynames.Size()) {
handle.logMessage(LOGWARN, "Error in predatorprinter - failed to match preys");
for (i = 0; i < preyvec.Size(); i++)
handle.logMessage(LOGWARN, "Error in predatorprinter - found prey", preyvec[i]->getName());
for (i = 0; i < preynames.Size(); i++)
handle.logMessage(LOGWARN, "Error in predatorprinter - looking for prey", preynames[i]);
handle.logMessage(LOGFAIL, ""); //JMB this will exit gadget
}
for (i = 0; i < predators.Size(); i++)
for (j = 0; j < predators.Size(); j++)
if ((strcasecmp(predators[i]->getName(), predators[j]->getName()) == 0) && (i != j))
handle.logMessage(LOGFAIL, "Error in predatorprinter - repeated predator", predators[i]->getName());
for (i = 0; i < preys.Size(); i++)
for (j = 0; j < preys.Size(); j++)
if ((strcasecmp(preys[i]->getName(), preys[j]->getName()) == 0) && (i != j))
handle.logMessage(LOGFAIL, "Error in predatorprinter - repeated prey", preys[i]->getName());
aggregator = new PredatorAggregator(predators, preys, areas, predLgrpDiv, preyLgrpDiv);
}
void PredatorPrinter::Print(const TimeClass* const TimeInfo, int printtime) {
if ((!AAT.atCurrentTime(TimeInfo)) || (printtime != printtimeid))
return;
if (biomass)
aggregator->Sum();
else
aggregator->NumberSum();
int a, predl, preyl;
for (a = 0; a < areas.Nrow(); a++) {
dptr = aggregator->getSum()[a];
for (predl = 0; predl < dptr->Nrow(); predl++) {
for (preyl = 0; preyl < dptr->Ncol(predl); preyl++) {
outfile << setw(lowwidth) << TimeInfo->getYear() << sep
<< setw(lowwidth) << TimeInfo->getStep() << sep
<< setw(printwidth) << areaindex[a] << sep
<< setw(printwidth) << predlenindex[predl] << sep
<< setw(printwidth) << preylenindex[preyl] << sep;
//JMB crude filter to remove the 'silly' values from the output
if ((*dptr)[predl][preyl] < rathersmall)
outfile << setw(width) << 0 << endl;
else
outfile << setprecision(precision) << setw(width) << (*dptr)[predl][preyl] << endl;
}
}
}
outfile.flush();
}
PredatorPrinter::~PredatorPrinter() {
outfile.close();
outfile.clear();
delete predLgrpDiv;
delete preyLgrpDiv;
delete aggregator;
int i;
for (i = 0; i < predatornames.Size(); i++)
delete[] predatornames[i];
for (i = 0; i < preynames.Size(); i++)
delete[] preynames[i];
for (i = 0; i < areaindex.Size(); i++)
delete[] areaindex[i];
for (i = 0; i < preylenindex.Size(); i++)
delete[] preylenindex[i];
for (i = 0; i < predlenindex.Size(); i++)
delete[] predlenindex[i];
}