| 1 : |
agomez |
1 |
#include "ecosystem.h" |
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#include "keeper.h" |
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#include "stockstdprinter.h" |
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#include "stockprinter.h" |
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#include "predatorprinter.h" |
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#include "predatorpreyprinter.h" |
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#include "predatoroverprinter.h" |
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#include "preyoverprinter.h" |
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#include "stockpreyfullprinter.h" |
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#include "stockpreyprinter.h" |
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#include "stockfullprinter.h" |
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#include "likelihoodprinter.h" |
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#include "summaryprinter.h" |
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#include "surveyindices.h" |
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#include "understocking.h" |
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#include "catchdistribution.h" |
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#include "stockdistribution.h" |
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#include "catchstatistics.h" |
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#include "recstatistics.h" |
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#include "stomachcontent.h" |
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#include "recapture.h" |
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#include "migrationpenalty.h" |
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#include "catchinkilos.h" |
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#include "boundlikelihood.h" |
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#include "surveydistribution.h" |
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#include "migrationproportion.h" |
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#include "readword.h" |
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#include "gadget.h" |
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#include "global.h" |
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//
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// A function to read fleet information
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//
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void Ecosystem::readFleet(CommentStream& infile) {
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char text[MaxStrLength];
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char value[MaxStrLength];
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strncpy(text, "", MaxStrLength);
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strncpy(value, "", MaxStrLength);
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while (!infile.eof()) {
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infile >> text >> ws;
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if ((strcasecmp(text, "[fleetcomponent]") != 0) && (strcasecmp(text, "[component]") != 0))
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handle.logFileUnexpected(LOGFAIL, "[component]", text);
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infile >> text >> value;
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if (strcasecmp(text, "totalfleet") == 0)
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fleetvec.resize(new Fleet(infile, value, Area, TimeInfo, keeper, TOTALFLEET));
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| 48 : |
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else if (strcasecmp(text, "linearfleet") == 0)
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| 49 : |
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fleetvec.resize(new Fleet(infile, value, Area, TimeInfo, keeper, LINEARFLEET));
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| 50 : |
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else if (strcasecmp(text, "numberfleet") == 0)
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| 51 : |
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fleetvec.resize(new Fleet(infile, value, Area, TimeInfo, keeper, NUMBERFLEET));
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| 52 : |
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else if (strcasecmp(text, "effortfleet") == 0)
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fleetvec.resize(new Fleet(infile, value, Area, TimeInfo, keeper, EFFORTFLEET));
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else if (strcasecmp(text, "quotafleet") == 0)
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fleetvec.resize(new Fleet(infile, value, Area, TimeInfo, keeper, QUOTAFLEET));
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else if (strcasecmp(text, "mortalityfleet") == 0)
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handle.logFileMessage(LOGFAIL, "\nThe mortalityfleet fleet type is no longer supported");
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else
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handle.logFileMessage(LOGFAIL, "unrecognised fleet class", text);
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handle.logMessage(LOGMESSAGE, "Read fleet OK - created fleet", value);
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}
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}
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//
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// A function to read tagging information
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//
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| 68 : |
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void Ecosystem::readTagging(CommentStream& infile) {
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char text[MaxStrLength];
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strncpy(text, "", MaxStrLength);
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while (!infile.eof()) {
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infile >> text >> ws;
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if ((strcasecmp(text, "[tagcomponent]") != 0) && (strcasecmp(text, "[component]") != 0))
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handle.logFileUnexpected(LOGFAIL, "[component]", text);
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readWordAndValue(infile, "tagid", text);
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tagvec.resize(new Tags(infile, text, Area, TimeInfo, keeper, stockvec));
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handle.logMessage(LOGMESSAGE, "Read tagging experiment OK - created tag", text);
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}
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}
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//
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// A function to read otherfood information
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//
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void Ecosystem::readOtherFood(CommentStream& infile) {
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| 87 : |
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char text[MaxStrLength];
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strncpy(text, "", MaxStrLength);
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while (!infile.eof()) {
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infile >> text >> ws;
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if ((strcasecmp(text, "[foodcomponent]") != 0) && (strcasecmp(text, "[component]") != 0))
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handle.logFileUnexpected(LOGFAIL, "[component]", text);
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readWordAndValue(infile, "foodname", text);
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otherfoodvec.resize(new OtherFood(infile, text, Area, TimeInfo, keeper));
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handle.logMessage(LOGMESSAGE, "Read otherfood OK - created otherfood", text);
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}
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}
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//
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// A function to read stock information
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// Note: there is only ever one stock in each file
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//
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void Ecosystem::readStock(CommentStream& infile) {
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char text[MaxStrLength];
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strncpy(text, "", MaxStrLength);
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readWordAndValue(infile, "stockname", text);
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| 110 : |
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stockvec.resize(new Stock(infile, text, Area, TimeInfo, keeper));
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handle.logMessage(LOGMESSAGE, "Read stock OK - created stock", text);
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}
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//
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// A function to read information on printing
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//
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| 117 : |
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void Ecosystem::readPrinters(CommentStream& infile) {
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| 118 : |
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char text[MaxStrLength];
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| 119 : |
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char type[MaxStrLength];
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strncpy(text, "", MaxStrLength);
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strncpy(type, "", MaxStrLength);
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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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while (!infile.eof()) {
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readWordAndValue(infile, "type", type);
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if (strcasecmp(type, "stockstdprinter") == 0)
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printvec.resize(new StockStdPrinter(infile, TimeInfo));
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| 134 : |
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else if (strcasecmp(type, "stockfullprinter") == 0)
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printvec.resize(new StockFullPrinter(infile, TimeInfo));
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else if (strcasecmp(type, "stockprinter") == 0)
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printvec.resize(new StockPrinter(infile, TimeInfo));
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else if (strcasecmp(type, "predatorprinter") == 0)
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printvec.resize(new PredatorPrinter(infile, TimeInfo));
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else if (strcasecmp(type, "predatoroverprinter") == 0)
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printvec.resize(new PredatorOverPrinter(infile, TimeInfo));
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else if (strcasecmp(type, "preyoverprinter") == 0)
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printvec.resize(new PreyOverPrinter(infile, TimeInfo));
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else if (strcasecmp(type, "stockpreyprinter") == 0)
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printvec.resize(new StockPreyPrinter(infile, TimeInfo));
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else if (strcasecmp(type, "stockpreyfullprinter") == 0)
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printvec.resize(new StockPreyFullPrinter(infile, TimeInfo));
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else if (strcasecmp(type, "predatorpreyprinter") == 0)
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printvec.resize(new PredatorPreyPrinter(infile, TimeInfo));
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else if (strcasecmp(type, "likelihoodprinter") == 0)
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printvec.resize(new LikelihoodPrinter(infile, TimeInfo));
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else if (strcasecmp(type, "likelihoodsummaryprinter") == 0)
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printvec.resize(new SummaryPrinter(infile));
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else if (strcasecmp(type, "formatedstockprinter") == 0)
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handle.logFileMessage(LOGFAIL, "\nThe formatedstockprinter printer class is no longer supported");
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| 157 : |
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else if (strcasecmp(type, "formatedchatprinter") == 0)
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| 158 : |
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handle.logFileMessage(LOGFAIL, "\nThe formatedchatprinter printer class is no longer supported");
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else if (strcasecmp(type, "formatedpreyprinter") == 0)
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handle.logFileMessage(LOGFAIL, "\nThe formatedpreyprinter printer class is no longer supported");
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else if (strcasecmp(type, "mortprinter") == 0)
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handle.logFileMessage(LOGFAIL, "\nThe mortprinter printer class is no longer supported");
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else if (strcasecmp(type, "biomassprinter") == 0)
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handle.logFileMessage(LOGFAIL, "\nThe biomassprinter printer class is no longer supported");
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else if (strcasecmp(type, "formatedcatchprinter") == 0)
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handle.logFileMessage(LOGFAIL, "\nThe formatedcatchprinter printer class is no longer supported");
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else if (strcasecmp(type, "predpreystdlengthprinter") == 0)
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handle.logFileMessage(LOGFAIL, "\nThe predpreystdlengthprinter printer class is no longer supported");
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else if (strcasecmp(type, "predpreystdageprinter") == 0)
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handle.logFileMessage(LOGFAIL, "\nThe predpreystdageprinter printer class is no longer supported");
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else
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handle.logFileMessage(LOGFAIL, "unrecognised printer class", type);
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handle.logMessage(LOGMESSAGE, "Read printer OK - created printer class", type);
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}
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}
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//
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// A function to read likelihood information
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//
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void Ecosystem::readLikelihood(CommentStream& infile) {
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| 183 : |
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double weight = 0.0;
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char text[MaxStrLength];
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char type[MaxStrLength];
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char name[MaxStrLength];
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char datafilename[MaxStrLength];
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strncpy(text, "", MaxStrLength);
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strncpy(type, "", MaxStrLength);
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strncpy(name, "", MaxStrLength);
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strncpy(datafilename, "", MaxStrLength);
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ifstream datafile;
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CommentStream subdata(datafile);
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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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while (!infile.eof()) {
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readWordAndValue(infile, "name", name);
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readWordAndVariable(infile, "weight", weight);
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readWordAndValue(infile, "type", type);
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if (strcasecmp(type, "penalty") == 0) {
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readWordAndValue(infile, "datafile", datafilename);
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datafile.open(datafilename, ios::in);
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| 210 : |
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handle.checkIfFailure(datafile, datafilename);
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handle.Open(datafilename);
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| 212 : |
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likevec.resize(new BoundLikelihood(subdata, Area, TimeInfo, keeper, weight, name));
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handle.Close();
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datafile.close();
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datafile.clear();
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//prepare for next likelihood 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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} else if (strcasecmp(type, "understocking") == 0) {
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likevec.resize(new UnderStocking(infile, Area, TimeInfo, weight, name));
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} else if (strcasecmp(type, "catchstatistics") == 0) {
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likevec.resize(new CatchStatistics(infile, Area, TimeInfo, weight, name));
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} else if (strcasecmp(type, "catchdistribution") == 0) {
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likevec.resize(new CatchDistribution(infile, Area, TimeInfo, keeper, weight, name));
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} else if (strcasecmp(type, "stockdistribution") == 0) {
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| 235 : |
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likevec.resize(new StockDistribution(infile, Area, TimeInfo, weight, name));
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| 236 : |
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} else if (strcasecmp(type, "surveyindices") == 0) {
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| 238 : |
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likevec.resize(new SurveyIndices(infile, Area, TimeInfo, weight, name));
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| 239 : |
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| 240 : |
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} else if (strcasecmp(type, "surveydistribution") == 0) {
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| 241 : |
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likevec.resize(new SurveyDistribution(infile, Area, TimeInfo, keeper, weight, name));
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| 242 : |
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| 243 : |
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} else if (strcasecmp(type, "stomachcontent") == 0) {
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| 244 : |
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likevec.resize(new StomachContent(infile, Area, TimeInfo, keeper, weight, name));
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| 245 : |
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| 246 : |
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} else if (strcasecmp(type, "recaptures") == 0) {
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| 247 : |
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likevec.resize(new Recaptures(infile, Area, TimeInfo, weight, tagvec, name));
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| 248 : |
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| 249 : |
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} else if ((strcasecmp(type, "catchintons") == 0) || (strcasecmp(type, "catchinkilos") == 0)) {
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| 250 : |
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likevec.resize(new CatchInKilos(infile, Area, TimeInfo, weight, name));
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| 251 : |
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| 252 : |
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} else if (strcasecmp(type, "migrationpenalty") == 0) {
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| 253 : |
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likevec.resize(new MigrationPenalty(infile, weight, name));
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| 254 : |
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| 255 : |
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} else if (strcasecmp(type, "recstatistics") == 0) {
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| 256 : |
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likevec.resize(new RecStatistics(infile, Area, TimeInfo, weight, tagvec, name));
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| 257 : |
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| 258 : |
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} else if (strcasecmp(type, "migrationproportion") == 0) {
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| 259 : |
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likevec.resize(new MigrationProportion(infile, Area, TimeInfo, weight, name));
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| 260 : |
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| 261 : |
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} else if (strcasecmp(type, "predatorindices") == 0) {
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| 262 : |
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handle.logFileMessage(LOGFAIL, "\nThe predatorindices likelihood component is no longer supported\nUse the sibyfleet surveyindices likelihood component instead\nThis is done by setting the sitype to 'fleets' in the likelihood file");
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| 263 : |
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| 264 : |
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} else if (strcasecmp(type, "logcatch") == 0) {
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| 265 : |
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handle.logFileMessage(LOGFAIL, "\nThe logcatch likelihood component is no longer supported\nUse the log function from the catchdistribution likelihood component instead");
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| 266 : |
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| 267 : |
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} else if (strcasecmp(type, "logsurveyindices") == 0) {
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| 268 : |
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handle.logFileMessage(LOGFAIL, "\nThe logsurveyindices likelihood component is no longer supported\nUse the log function from the surveyindices likelihood component instead");
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| 269 : |
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| 270 : |
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} else {
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| 271 : |
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handle.logFileMessage(LOGFAIL, "unrecognised likelihood class", type);
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| 272 : |
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}
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| 273 : |
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| 274 : |
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handle.logMessage(LOGMESSAGE, "Read likelihood OK - created likelihood component", name);
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| 275 : |
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}
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| 276 : |
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}
|
| 277 : |
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| 278 : |
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//
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| 279 : |
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// A function to read optimisation information
|
| 280 : |
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//
|
| 281 : |
ulcessvp |
11 |
void Ecosystem::readOptimisation(CommentStream& infile, unsigned* seed) {
|
| 282 : |
agomez |
1 |
char* text = new char[MaxStrLength];
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| 283 : |
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strncpy(text, "", MaxStrLength);
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| 284 : |
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handle.logMessage(LOGMESSAGE, "Reading optimisation information");
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| 285 : |
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| 286 : |
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infile >> ws;
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| 287 : |
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if (!infile.eof())
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| 288 : |
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infile >> text;
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| 289 : |
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| 290 : |
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int count = 0;
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| 291 : |
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while (!infile.eof()) {
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| 292 : |
|
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infile >> ws; //trim whitespace from infile
|
| 293 : |
|
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if (strcasecmp(text, "seed") == 0) {
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| 294 : |
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int seed = 0;
|
| 295 : |
|
|
infile >> seed >> ws;
|
| 296 : |
|
|
handle.logMessage(LOGMESSAGE, "Initialising random number generator with", seed);
|
| 297 : |
|
|
srand(seed);
|
| 298 : |
|
|
if (!infile.eof())
|
| 299 : |
|
|
infile >> text;
|
| 300 : |
|
|
}
|
| 301 : |
|
|
|
| 302 : |
|
|
if (strcasecmp(text, "[hooke]") == 0)
|
| 303 : |
|
|
optvec.resize(new OptInfoHooke());
|
| 304 : |
|
|
else if (strcasecmp(text, "[simann]") == 0)
|
| 305 : |
|
|
optvec.resize(new OptInfoSimann());
|
| 306 : |
|
|
else if (strcasecmp(text, "[bfgs]") == 0)
|
| 307 : |
|
|
optvec.resize(new OptInfoBFGS());
|
| 308 : |
agomez |
20 |
else if (strcasecmp(text, "[pso]") == 0)
|
| 309 : |
|
|
optvec.resize(new OptInfoPso());
|
| 310 : |
agomez |
1 |
else
|
| 311 : |
agomez |
20 |
handle.logFileUnexpected(LOGFAIL, "[hooke], [simann], [bfgs], or [pso]", text);
|
| 312 : |
agomez |
1 |
|
| 313 : |
|
|
if (!infile.eof()) {
|
| 314 : |
|
|
infile >> text;
|
| 315 : |
ulcessvp |
11 |
optvec[count]->setSeed(seed);
|
| 316 : |
agomez |
1 |
optvec[count]->read(infile, text);
|
| 317 : |
|
|
} else
|
| 318 : |
|
|
handle.logMessage(LOGINFO, "Warning - no parameters specified for optimisation algorithm");
|
| 319 : |
|
|
count++;
|
| 320 : |
|
|
}
|
| 321 : |
|
|
|
| 322 : |
|
|
delete[] text;
|
| 323 : |
|
|
if (count == 0) {
|
| 324 : |
|
|
handle.logFileMessage(LOGWARN, "no optimisation algorithms found, using default values");
|
| 325 : |
|
|
optvec.resize(new OptInfoHooke());
|
| 326 : |
|
|
}
|
| 327 : |
|
|
}
|
| 328 : |
|
|
|
| 329 : |
|
|
//
|
| 330 : |
|
|
// The main reading function
|
| 331 : |
|
|
//
|
| 332 : |
|
|
void Ecosystem::readMain(CommentStream& infile, const MainInfo& main) {
|
| 333 : |
|
|
|
| 334 : |
|
|
int i, j;
|
| 335 : |
|
|
char text[MaxStrLength];
|
| 336 : |
|
|
char filename[MaxStrLength];
|
| 337 : |
|
|
strncpy(text, "", MaxStrLength);
|
| 338 : |
|
|
strncpy(filename, "", MaxStrLength);
|
| 339 : |
|
|
|
| 340 : |
|
|
ifstream subfile;
|
| 341 : |
|
|
CommentStream subcomment(subfile);
|
| 342 : |
|
|
|
| 343 : |
|
|
//first, read in the time information
|
| 344 : |
|
|
readWordAndValue(infile, "timefile", filename);
|
| 345 : |
|
|
subfile.open(filename, ios::in);
|
| 346 : |
|
|
handle.checkIfFailure(subfile, filename);
|
| 347 : |
|
|
handle.Open(filename);
|
| 348 : |
|
|
TimeInfo = new TimeClass(subcomment, main.getMaxRatio());
|
| 349 : |
|
|
handle.Close();
|
| 350 : |
|
|
subfile.close();
|
| 351 : |
|
|
subfile.clear();
|
| 352 : |
|
|
|
| 353 : |
|
|
//second, read in the area information
|
| 354 : |
|
|
readWordAndValue(infile, "areafile", filename);
|
| 355 : |
|
|
subfile.open(filename, ios::in);
|
| 356 : |
|
|
handle.checkIfFailure(subfile, filename);
|
| 357 : |
|
|
handle.Open(filename);
|
| 358 : |
|
|
Area = new AreaClass(subcomment, keeper, TimeInfo);
|
| 359 : |
|
|
handle.Close();
|
| 360 : |
|
|
subfile.close();
|
| 361 : |
|
|
subfile.clear();
|
| 362 : |
|
|
|
| 363 : |
|
|
//next, read in the printing information
|
| 364 : |
|
|
infile >> text >> ws;
|
| 365 : |
|
|
if ((strcasecmp(text, "printfile") != 0) && (strcasecmp(text, "printfiles") != 0))
|
| 366 : |
|
|
handle.logFileUnexpected(LOGFAIL, "printfiles", text);
|
| 367 : |
|
|
|
| 368 : |
|
|
//Now we have found the string "printfiles" we can create printer classes
|
| 369 : |
|
|
infile >> text >> ws;
|
| 370 : |
|
|
while ((strcasecmp(text, "[stock]") != 0) && !infile.eof()) {
|
| 371 : |
|
|
//Do not try to read printfile if we dont need it
|
| 372 : |
|
|
if (main.runPrint()) {
|
| 373 : |
|
|
subfile.open(text, ios::in);
|
| 374 : |
|
|
handle.checkIfFailure(subfile, text);
|
| 375 : |
|
|
handle.Open(text);
|
| 376 : |
|
|
this->readPrinters(subcomment);
|
| 377 : |
|
|
handle.Close();
|
| 378 : |
|
|
subfile.close();
|
| 379 : |
|
|
subfile.clear();
|
| 380 : |
|
|
}
|
| 381 : |
|
|
infile >> text >> ws;
|
| 382 : |
|
|
}
|
| 383 : |
|
|
|
| 384 : |
|
|
//then read in the stock information
|
| 385 : |
|
|
if (strcasecmp(text, "[stock]") != 0)
|
| 386 : |
|
|
handle.logFileUnexpected(LOGFAIL, "[stock]", text);
|
| 387 : |
|
|
infile >> text >> ws;
|
| 388 : |
|
|
|
| 389 : |
|
|
if (strcasecmp(text, "mortalitymodel") == 0)
|
| 390 : |
|
|
handle.logFileMessage(LOGFAIL, "\nFleksibest-style mortality models are no longer supported\nGadget version 2.0.07 was the last version to allow this functionality");
|
| 391 : |
|
|
|
| 392 : |
|
|
if (strcasecmp(text, "stockfiles") != 0)
|
| 393 : |
|
|
handle.logFileUnexpected(LOGFAIL, "stockfiles", text);
|
| 394 : |
|
|
|
| 395 : |
|
|
//Now we have found the string "stockfiles" we can create stock
|
| 396 : |
|
|
infile >> text >> ws;
|
| 397 : |
|
|
while ((strcasecmp(text, "[tagging]") != 0) && !infile.eof()) {
|
| 398 : |
|
|
subfile.open(text, ios::in);
|
| 399 : |
|
|
handle.checkIfFailure(subfile, text);
|
| 400 : |
|
|
handle.Open(text);
|
| 401 : |
|
|
this->readStock(subcomment);
|
| 402 : |
|
|
handle.Close();
|
| 403 : |
|
|
subfile.close();
|
| 404 : |
|
|
subfile.clear();
|
| 405 : |
|
|
infile >> text >> ws;
|
| 406 : |
|
|
}
|
| 407 : |
|
|
|
| 408 : |
|
|
//Now we read the names of the tagging files
|
| 409 : |
|
|
if (strcasecmp(text, "[tagging]") != 0)
|
| 410 : |
|
|
handle.logFileUnexpected(LOGFAIL, "[tagging]", text);
|
| 411 : |
|
|
|
| 412 : |
|
|
infile >> text >> ws;
|
| 413 : |
|
|
if (strcasecmp(text, "tagfiles") == 0) {
|
| 414 : |
|
|
//There might not be any tagging files
|
| 415 : |
|
|
infile >> text >> ws;
|
| 416 : |
|
|
while ((strcasecmp(text, "[otherfood]") != 0) && !infile.eof()) {
|
| 417 : |
|
|
subfile.open(text, ios::in);
|
| 418 : |
|
|
handle.checkIfFailure(subfile, text);
|
| 419 : |
|
|
handle.Open(text);
|
| 420 : |
|
|
this->readTagging(subcomment);
|
| 421 : |
|
|
handle.Close();
|
| 422 : |
|
|
subfile.close();
|
| 423 : |
|
|
subfile.clear();
|
| 424 : |
|
|
infile >> text >> ws;
|
| 425 : |
|
|
}
|
| 426 : |
|
|
}
|
| 427 : |
|
|
|
| 428 : |
|
|
//Now we read the names of the otherfood files
|
| 429 : |
|
|
if (strcasecmp(text, "[otherfood]") != 0)
|
| 430 : |
|
|
handle.logFileUnexpected(LOGFAIL, "[otherfood]", text);
|
| 431 : |
|
|
|
| 432 : |
|
|
infile >> text >> ws;
|
| 433 : |
|
|
if (strcasecmp(text, "otherfoodfiles") == 0) {
|
| 434 : |
|
|
//There might not be any otherfood files
|
| 435 : |
|
|
infile >> text >> ws;
|
| 436 : |
|
|
while ((strcasecmp(text, "[fleet]") != 0) && !infile.eof()) {
|
| 437 : |
|
|
subfile.open(text, ios::in);
|
| 438 : |
|
|
handle.checkIfFailure(subfile, text);
|
| 439 : |
|
|
handle.Open(text);
|
| 440 : |
|
|
this->readOtherFood(subcomment);
|
| 441 : |
|
|
handle.Close();
|
| 442 : |
|
|
subfile.close();
|
| 443 : |
|
|
subfile.clear();
|
| 444 : |
|
|
infile >> text >> ws;
|
| 445 : |
|
|
}
|
| 446 : |
|
|
}
|
| 447 : |
|
|
|
| 448 : |
|
|
//Now we read the names of the fleet files
|
| 449 : |
|
|
if (strcasecmp(text, "[fleet]") != 0)
|
| 450 : |
|
|
handle.logFileUnexpected(LOGFAIL, "[fleet]", text);
|
| 451 : |
|
|
|
| 452 : |
|
|
infile >> text >> ws;
|
| 453 : |
|
|
if (strcasecmp(text, "fleetfiles") == 0) {
|
| 454 : |
|
|
//There might not be any fleet files
|
| 455 : |
|
|
infile >> text >> ws;
|
| 456 : |
|
|
while ((strcasecmp(text, "[likelihood]") != 0) && !infile.eof()) {
|
| 457 : |
|
|
subfile.open(text, ios::in);
|
| 458 : |
|
|
handle.checkIfFailure(subfile, text);
|
| 459 : |
|
|
handle.Open(text);
|
| 460 : |
|
|
this->readFleet(subcomment);
|
| 461 : |
|
|
handle.Close();
|
| 462 : |
|
|
subfile.close();
|
| 463 : |
|
|
subfile.clear();
|
| 464 : |
|
|
infile >> text >> ws;
|
| 465 : |
|
|
}
|
| 466 : |
|
|
}
|
| 467 : |
|
|
|
| 468 : |
|
|
if (strcasecmp(text, "[likelihood]") != 0)
|
| 469 : |
|
|
handle.logFileUnexpected(LOGFAIL, "[likelihood]", text);
|
| 470 : |
|
|
|
| 471 : |
|
|
//Now we have either read the word likelihood or reached the end of file
|
| 472 : |
|
|
if (!infile.eof()) {
|
| 473 : |
|
|
infile >> text >> ws;
|
| 474 : |
|
|
if (strcasecmp(text, "likelihoodfiles") == 0) {
|
| 475 : |
|
|
//There might not be any likelihood files
|
| 476 : |
|
|
infile >> text;
|
| 477 : |
|
|
while (!infile.eof()) {
|
| 478 : |
|
|
subfile.open(text, ios::in);
|
| 479 : |
|
|
handle.checkIfFailure(subfile, text);
|
| 480 : |
|
|
handle.Open(text);
|
| 481 : |
|
|
this->readLikelihood(subcomment);
|
| 482 : |
|
|
handle.Close();
|
| 483 : |
|
|
subfile.close();
|
| 484 : |
|
|
subfile.clear();
|
| 485 : |
|
|
|
| 486 : |
|
|
infile >> ws;
|
| 487 : |
|
|
if (!infile.eof())
|
| 488 : |
|
|
infile >> text;
|
| 489 : |
|
|
}
|
| 490 : |
|
|
}
|
| 491 : |
|
|
}
|
| 492 : |
|
|
}
|
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